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 259 of 343
Found at i:85498981 original size:30 final size:30
Alignment explanation
Indices: 85498922--85498997 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
85498912 ATTTTAAATT
85498922 AATAATAATAAA-ATAATTTAATTTATTAAA
1 AATAATAA-AAATATAATTTAATTTATTAAA
* *
85498952 AATAATAAAAATTTAATTTGA-TTATTTAAA
1 AATAATAAAAATATAATTTAATTTA-TTAAA
85498982 AA-ATATAAAAATATAA
1 AATA-ATAAAAATATAA
85498998 ACTATTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.17
30 33 0.82
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (30 bp):
AATAATAAAAATATAATTTAATTTATTAAA
Found at i:85499208 original size:19 final size:19
Alignment explanation
Indices: 85499184--85499227 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
85499174 AGTTTTGGGT
*
85499184 TTTTTAAATTTGTTTCATA
1 TTTTTAAATTTATTTCATA
*
85499203 TTTTTAAATTTATTTTATA
1 TTTTTAAATTTATTTCATA
*
85499222 TATTTA
1 TTTTTA
85499228 TAATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTAAATTTATTTCATA
Found at i:85500347 original size:28 final size:27
Alignment explanation
Indices: 85500307--85500360 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
85500297 ATGTGAGTGA
85500307 AAAATATTATATAATAAA-TATATTAATT
1 AAAATATTATATAA-AAACTA-ATTAATT
85500335 AAAAT-TTCATATAAAAACTAATTAAT
1 AAAATATT-ATATAAAAACTAATTAAT
85500361 GGTTTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATATTATATAAAAACTAATTAATT
Found at i:85502728 original size:33 final size:33
Alignment explanation
Indices: 85502689--85502789 Score: 133
Period size: 33 Copynumber: 3.2 Consensus size: 33
85502679 AAGCATATTT
*
85502689 TTATTATTGTATTACTATTAAATATTATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
*
85502722 TTATTATTGTATGATTATTAAATATTAT---TA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
*
85502752 TTATTA-T-TATTATTATTAAAGA-TATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
85502782 TTATTATT
1 TTATTATT
85502790 ATTCAACATA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.05
28 13 0.22
29 1 0.02
30 16 0.27
31 1 0.02
33 26 0.43
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (33 bp):
TTATTATTGTATTATTATTAAATATTATAAGTA
Found at i:85502789 original size:3 final size:3
Alignment explanation
Indices: 85502684--85502769 Score: 59
Period size: 3 Copynumber: 28.7 Consensus size: 3
85502674 TTGTTAAGCA
* * * * * *
85502684 TAT TTT TAT TAT T-G TAT TAC TAT TAAA TAT TAT AAG TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * *
85502729 T-G TAT GAT TAT TAAA TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA
85502770 AAGATATAAG
Statistics
Matches: 61, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
2 2 0.03
3 55 0.90
4 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:85504700 original size:25 final size:25
Alignment explanation
Indices: 85504668--85504716 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
85504658 TTTTTATAAA
85504668 TTATATTAAATACA-TTATATTATTT
1 TTATATTAAATA-ATTTATATTATTT
*
85504693 TTATATTATATAATTTATATTATT
1 TTATATTAAATAATTTATATTATT
85504717 ATATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATATTAAATAATTTATATTATTT
Found at i:85504711 original size:14 final size:14
Alignment explanation
Indices: 85504662--85504715 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
85504652 ATTTTATTTT
*
85504662 TATAAATTATATTA
1 TATAATTTATATTA
*
85504676 AATACA-TTATATTA
1 TATA-ATTTATATTA
85504690 T-T--TTTATATTA
1 TATAATTTATATTA
85504701 TATAATTTATATTA
1 TATAATTTATATTA
85504715 T
1 T
85504716 TATATATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
11 9 0.27
12 1 0.03
13 1 0.03
14 21 0.64
15 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TATAATTTATATTA
Found at i:85504729 original size:14 final size:14
Alignment explanation
Indices: 85504681--85504730 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 14
85504671 TATTAAATAC
85504681 ATTATATTATTTTTAT
1 ATTATA-TATTTTT-T
85504697 ATTATATAATTTATATT
1 ATTATAT-ATTT-T-TT
85504714 ATTATATATTTTTT
1 ATTATATATTTTTT
85504728 ATT
1 ATT
85504731 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 14 0.45
17 9 0.29
18 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATATATTTTTT
Found at i:85516559 original size:22 final size:22
Alignment explanation
Indices: 85516531--85516606 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
85516521 AGGTGTGTAT
85516531 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
85516553 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
85516578 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
85516600 ATGTGAT
1 ATGTGAT
85516607 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:85516592 original size:47 final size:47
Alignment explanation
Indices: 85516523--85517049 Score: 784
Period size: 47 Copynumber: 11.4 Consensus size: 47
85516513 GGTGTACAAG
* *
85516523 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
85516570 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
85516617 GTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85516664 GTGTATATATGTGATAAGGCCGAATAGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAAT-GGCCAATGTGATGAATGTGAAA
* *
85516712 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
85516759 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85516806 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85516853 GTGTATATATGTGATAAGGCCGAATGGCC---------AATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85516891 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* **
85516938 GTGTGTATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
85516985 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85517032 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
85517050 TCCCGAAGGG
Statistics
Matches: 443, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
38 38 0.09
47 360 0.81
48 45 0.10
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:85516817 original size:25 final size:25
Alignment explanation
Indices: 85516789--85516867 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
85516779 CTAATGGCCG
85516789 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
85516814 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
85516836 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
85516861 ATGTGAT
1 ATGTGAT
85516868 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:85516843 original size:189 final size:179
Alignment explanation
Indices: 85516523--85517049 Score: 847
Period size: 189 Copynumber: 2.9 Consensus size: 179
85516513 GGTGTACAAG
85516523 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
*
85516588 GCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
85516653 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGGCCAATGTGATGAATGTGAAA
131 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT-GGCC---------AATGTGAAA
* *
85516712 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
*
85516777 ACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
85516842 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAAA
131 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAAA
* * *
85516891 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
* * * *
85516956 GCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGA
66 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
* *
85517021 TGGATGTGAAAGTGTATAAATGTGATAAG
131 TGAATGTGAAAGTGTATATATGTGATAAG
85517050 TCCCGAAGGG
Statistics
Matches: 322, Mismatches: 16, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
179 156 0.48
188 4 0.01
189 162 0.50
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (179 bp):
GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAAA
Found at i:85516878 original size:31 final size:32
Alignment explanation
Indices: 85516843--85516916 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 32
85516833 CCAATGTGAT
85516843 GAATGTGAAAGTGTATATATGTGATAAGGCCGAA
1 GAATGTGAAAGTGTATATATGTGATAAGGCC--A
85516877 TGGCCAATGTGAAAGTGTATATATGTGATAAGGCC-
1 --G--AATGTGAAAGTGTATATATGTGATAAGGCCA
85516912 GAATG
1 GAATG
85516917 GCCAATGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
31 4 0.11
33 1 0.03
36 1 0.03
38 30 0.83
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (32 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCA
Found at i:85516893 original size:85 final size:86
Alignment explanation
Indices: 85516797--85517049 Score: 355
Period size: 85 Copynumber: 2.9 Consensus size: 86
85516787 CGATGTGATG
85516797 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
85516862 TGTGATAAGGCCGAATGGC-C
66 TGTGATAAGGCCGAATGGCTC
*
85516882 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
85516947 TGTGATAAGGCCTAATGGCTGATGTGATG
66 TGTGATAAGGCCGAATGGC--------TC
* * * * *
85516976 AATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
85517041 TGTGATAAG
66 TGTGATAAG
85517050 TCCCGAAGGG
Statistics
Matches: 150, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
85 82 0.55
94 68 0.45
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (86 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCTC
Found at i:85519089 original size:40 final size:40
Alignment explanation
Indices: 85518727--85519077 Score: 526
Period size: 40 Copynumber: 8.8 Consensus size: 40
85518717 GAGAATTGAG
* *
85518727 AGTGATATATCCGGGCTAAGTCCTGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
85518767 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
85518807 AGTGATATATCCGGGCTAA-TCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
85518846 AGTGATGTATCCGGTCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
85518886 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
85518926 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
85518966 AGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
85519006 AGTAATATATTCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
85519046 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
85519078 ATCATGCTGG
Statistics
Matches: 281, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
39 37 0.13
40 242 0.86
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:85522873 original size:47 final size:47
Alignment explanation
Indices: 85522804--85523338 Score: 827
Period size: 47 Copynumber: 11.4 Consensus size: 47
85522794 GGTGTACAAG
* *
85522804 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
85522851 GTGTGTATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
85522898 GTGTGTATATGTGATATGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85522945 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
85522992 GTGTATATATGTCATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * *
85523039 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85523086 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* **
85523133 GTGTATATTTGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85523180 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* **
85523227 GTGTGTATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
85523274 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
85523321 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
85523339 TCCCGAAGGG
Statistics
Matches: 453, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 453 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:85526661 original size:88 final size:87
Alignment explanation
Indices: 85526569--85526830 Score: 225
Period size: 88 Copynumber: 3.0 Consensus size: 87
85526559 GAGAGCAGGT
85526569 ACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTTG
1 ACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTTG
85526634 TGTTTACAAGGAACAAATCGAAG
66 TGTTTACAAGGAACAAATC-AAG
* * * * * * * * *
85526657 ACATAGCAGATCTGACTTTTAGATGCTTT-CACATCAAAGCAGATCCAAGATAACAGATCT-CGC
1 ACATAGCAGGTCTAACCTTCAGGTG-TTTATAC-T-GAAGCAGATCCAAGAT----GATTTGGGC
*** * * * *
85526720 A-TC-TCCATTT-CGACGG-A-GAGT-AGG
59 ATTCTTGTGTTTAC-AAGGAACAAATCAAG
*
85526744 TACATAGGAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTT
1 -ACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTT
85526809 GTGTTTACAAGGAACAAATCAA
65 GTGTTTACAAGGAACAAATCAA
85526831 AAACATAGTA
Statistics
Matches: 124, Mismatches: 33, Indels: 34
0.65 0.17 0.18
Matches are distributed among these distances:
82 4 0.03
83 3 0.02
84 2 0.02
85 7 0.06
86 17 0.14
87 8 0.06
88 44 0.35
89 6 0.05
90 17 0.14
91 7 0.06
92 2 0.02
93 3 0.02
94 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (87 bp):
ACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTTG
TGTTTACAAGGAACAAATCAAG
Found at i:85526777 original size:176 final size:175
Alignment explanation
Indices: 85526483--85527010 Score: 826
Period size: 176 Copynumber: 3.0 Consensus size: 175
85526473 AATTGCAGAG
* *
85526483 ATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGACCCAAGATAACAGATTTGGCATCT
1 ATAGCAGATCTGACTTTTAGATG-TTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCATCT
*
85526548 CCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCC
65 CCATTTCGACGGAGAGTAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCC
85526613 AAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGAAGAC
130 AAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGAAGAC
*
85526659 ATAGCAGATCTGACTTTTAGATGCTTTCACATCAAAGCAGATCCAAGATAACAGATCTCGCATCT
1 ATAGCAGATCTGACTTTTAGATG-TTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCATCT
*
85526724 CCATTTCGACGGAGAGTAGGTACATAGGAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCC
65 CCATTTCGACGGAGAGTAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCC
* *
85526789 AAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCAAAAAC
130 AAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGAAGAC
* * * * *
85526835 ATAGTAGATTTGACTTTTGGATGTTCTCACACCAAAGCAGATCCAAAATAACAGATCTGGCATCT
1 ATAGCAGATCTGACTTTTAGATGTT-TCACATCAAAGCAGATCCAAGATAACAGATCTGGCATCT
* * *
85526900 CCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATC
65 CCATTTCGACGGAGAGTAGGTACATAGCAGGTCTAACCTTCAGGTG-TTTATACTGAAGCAGATC
* * * * *
85526964 CAAGATGATTT-GGCATCCTTGTGTTCACAAAGAGCAAATTGAAGAC
129 CAAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGAAGAC
85527010 A
1 A
85527011 CAACAGATTT
Statistics
Matches: 325, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
175 31 0.10
176 291 0.90
177 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
ATAGCAGATCTGACTTTTAGATGTTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCATCTC
CATTTCGACGGAGAGTAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCA
AGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGAAGAC
Found at i:85526793 original size:86 final size:86
Alignment explanation
Indices: 85526517--85526793 Score: 235
Period size: 88 Copynumber: 3.2 Consensus size: 86
85526507 TTTCACATCA
* *
85526517 AAGCAGACCCAAGATAACAGATTTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCT
1 AAGCAGATCCAAGATAACAGATTTGGCATCTCCATTTCGACGGAGAGTAGGTACATAGCAGGTCT
85526582 AACCTTCAGGTGTTTATACTG
66 AACCTTCAGGTGTTTATACTG
*** * * * *
85526603 AAGCAGATCCAAGAT----GATTTGGGCATTCTTGTGTTTAC-AAGGAACAAATCGAAG-ACATA
1 AAGCAGATCCAAGATAACAGATTT-GGCA-TC-TCCATTT-CGACGG-A-GAGT--AGGTACATA
* * * * * * *
85526662 GCAGATCTGACTTTTAGATGCTTT-CACATCA
58 GCAGGTCTAACCTTCAGGTG-TTTATAC-T-G
* * *
85526693 AAGCAGATCCAAGATAACAGATCTCGCATCTCCATTTCGACGGAGAGTAGGTACATAGGAGGTCT
1 AAGCAGATCCAAGATAACAGATTTGGCATCTCCATTTCGACGGAGAGTAGGTACATAGCAGGTCT
85526758 AACCTTCAGGTGTTTATACTG
66 AACCTTCAGGTGTTTATACTG
85526779 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
85526794 GATTTGGGCA
Statistics
Matches: 140, Mismatches: 33, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
82 5 0.04
83 4 0.03
84 2 0.01
85 7 0.05
86 31 0.22
87 7 0.05
88 43 0.31
89 8 0.06
90 17 0.12
91 7 0.05
92 2 0.01
93 3 0.02
94 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (86 bp):
AAGCAGATCCAAGATAACAGATTTGGCATCTCCATTTCGACGGAGAGTAGGTACATAGCAGGTCT
AACCTTCAGGTGTTTATACTG
Found at i:85528927 original size:5 final size:5
Alignment explanation
Indices: 85528919--85529052 Score: 52
Period size: 5 Copynumber: 27.2 Consensus size: 5
85528909 ATATGTCCCT
* *
85528919 TATTA TATTA TATT- TCATTA TATTC TATT- TATGTA T-TTA T-TACA
1 TATTA TATTA TATTA T-ATTA TATTA TATTA TAT-TA TATTA TAT-TA
* * * *
85528963 TATTA TATTT TACTA TA-TA TCATAA TATTT TATT- T-TTA TACATTA
1 TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA T--ATTA
* * * *
85529008 TATTA -CTTA CATTA TATTA TTTTTA TATTA TATAA T-TTA TATTA T
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA T
85529053 TATATATTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
3 2 0.02
4 19 0.19
5 64 0.65
6 9 0.09
7 4 0.04
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:85529038 original size:30 final size:31
Alignment explanation
Indices: 85528988--85529067 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
85528978 TATATCATAA
*
85528988 TATT-TTATTTTTATACATTATATTACTTACAT
1 TATTATTATTTTTAT--ATTATATAACTTACAT
* *
85529020 TA-TATTATTTTTATATTATATAATTTATAT
1 TATTATTATTTTTATATTATATAACTTACAT
85529050 TATTATATATTTTT-TATT
1 TATTAT-TATTTTTATATT
85529068 TGTAAATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 15 0.36
31 8 0.19
32 19 0.45
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (31 bp):
TATTATTATTTTTATATTATATAACTTACAT
Found at i:85529066 original size:14 final size:14
Alignment explanation
Indices: 85529018--85529067 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 14
85529008 TATTACTTAC
85529018 ATTATATTATTTTTAT
1 ATTATA-TATTTTT-T
85529034 ATTATATAATTTATATT
1 ATTATAT-ATTT-T-TT
85529051 ATTATATATTTTTT
1 ATTATATATTTTTT
85529065 ATT
1 ATT
85529068 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 14 0.45
17 9 0.29
18 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATATATTTTTT
Found at i:85529344 original size:180 final size:180
Alignment explanation
Indices: 85529145--85529504 Score: 711
Period size: 180 Copynumber: 2.0 Consensus size: 180
85529135 TTTCATAATT
*
85529145 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTTTTTATATAGTATCACAT
1 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
85529210 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
66 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
85529275 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
131 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
85529325 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
1 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
85529390 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
66 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
85529455 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
131 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
85529505 TATCTTAATA
Statistics
Matches: 179, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 179 1.00
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (180 bp):
ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
Found at i:85531714 original size:15 final size:14
Alignment explanation
Indices: 85531694--85531732 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
85531684 ACAAGATCTA
85531694 TCTATGGAGTATGG
1 TCTATGGAGTATGG
85531708 CTCTATGGAGTATGG
1 -TCTATGGAGTATGG
*
85531723 GCTATGGAGT
1 TCTATGGAGT
85531733 GGGCTCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.21, C:0.10, G:0.36, T:0.33
Consensus pattern (14 bp):
TCTATGGAGTATGG
Found at i:85534897 original size:15 final size:14
Alignment explanation
Indices: 85534873--85534902 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
85534863 TGGAGAGATA
85534873 AAGGTTTAGGGTTT
1 AAGGTTTAGGGTTT
85534887 AAGGTTTTAGGGTTT
1 AAGG-TTTAGGGTTT
85534902 A
1 A
85534903 GGGACATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
AAGGTTTAGGGTTT
Found at i:85538308 original size:14 final size:14
Alignment explanation
Indices: 85538289--85538339 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
85538279 TAAATATACC
85538289 TTAATTAACTTTAT
1 TTAATTAACTTTAT
*
85538303 TTAATTAACTTAAT
1 TTAATTAACTTTAT
85538317 CCTTAATTAA-TTTACT
1 --TTAATTAACTTTA-T
85538333 TTAATTA
1 TTAATTA
85538340 TCATTAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 20 0.62
15 3 0.09
16 9 0.28
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATTAACTTTAT
Found at i:85540283 original size:45 final size:46
Alignment explanation
Indices: 85540198--85540287 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 46
85540188 ATAATGAATA
*
85540198 GAAATAAAGAAATAGAAAACATTCAGAAATGATTATGGTTTTCTCC
1 GAAATAAAGAAATAGAAAACATTCAGAAATGAATATGGTTTTCTCC
* * ** *
85540244 GAAATAGAGAAATA-AAATCATTTGGAAATGAATGTGGTTTTCTC
1 GAAATAAAGAAATAGAAAACATTCAGAAATGAATATGGTTTTCTC
85540288 AAAAATGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
45 25 0.66
46 13 0.34
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (46 bp):
GAAATAAAGAAATAGAAAACATTCAGAAATGAATATGGTTTTCTCC
Found at i:85542059 original size:67 final size:67
Alignment explanation
Indices: 85541951--85542078 Score: 256
Period size: 67 Copynumber: 1.9 Consensus size: 67
85541941 AAAATTGTAG
85541951 ATTTTATGAATAAATGAATGTGAATATTATAAAATTGCCATAGCATGTCACACATATATGAATGA
1 ATTTTATGAATAAATGAATGTGAATATTATAAAATTGCCATAGCATGTCACACATATATGAATGA
85542016 AT
66 AT
85542018 ATTTTATGAATAAATGAATGTGAATATTATAAAATTGCCATAGCATGTCACACATATATGA
1 ATTTTATGAATAAATGAATGTGAATATTATAAAATTGCCATAGCATGTCACACATATATGA
85542079 GATAAGCATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (67 bp):
ATTTTATGAATAAATGAATGTGAATATTATAAAATTGCCATAGCATGTCACACATATATGAATGA
AT
Found at i:85542401 original size:28 final size:28
Alignment explanation
Indices: 85542369--85542426 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
85542359 TGTGGTAAGC
85542369 ATTATCATGCAATAGATCAAGAAATTCT
1 ATTATCATGCAATAGATCAAGAAATTCT
*
85542397 ATTATCATGCAATAGATTAAGAAATTCT
1 ATTATCATGCAATAGATCAAGAAATTCT
85542425 AT
1 AT
85542427 CTTCAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (28 bp):
ATTATCATGCAATAGATCAAGAAATTCT
Found at i:85548602 original size:46 final size:46
Alignment explanation
Indices: 85548540--85548716 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
85548530 TTTGACATGA
* * * *
85548540 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGT
* * *
85548586 TTCCATGTTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * *
85548632 CGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * * *
85548678 TGCTATGGAATCTTTCAACCATGGTCTTACACAATTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
85548717 ATCAGAGAGC
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
45 4 0.04
46 109 0.96
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
Found at i:85550876 original size:11 final size:11
Alignment explanation
Indices: 85550860--85550898 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
85550850 ACTAAATAAT
85550860 TAATAATGAAA
1 TAATAATGAAA
85550871 TAATAATGAAA
1 TAATAATGAAA
*
85550882 TAATAATAAAA
1 TAATAATGAAA
85550893 TAATAA
1 TAATAA
85550899 AATATCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
TAATAATGAAA
Found at i:85550925 original size:20 final size:21
Alignment explanation
Indices: 85550872--85550947 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
85550862 ATAATGAAAT
* *
85550872 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
85550891 AATAATAAAATATCTTATTAA
1 AATAATAAAATATCTAATTAA
*
85550912 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
85550933 TAATCATAAAATATC
1 -AATAATAAAATATC
85550948 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:85552317 original size:28 final size:25
Alignment explanation
Indices: 85552281--85552331 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 25
85552271 TTAATTTATA
85552281 TATTATTATTTTACATATGATTTATTGT
1 TATTATTATTTT---TATGATTTATTGT
*
85552309 TATTGTTATTTTTATGATTTATT
1 TATTATTATTTTTATGATTTATT
85552332 TCAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
28 11 0.50
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (25 bp):
TATTATTATTTTTATGATTTATTGT
Found at i:85552391 original size:27 final size:28
Alignment explanation
Indices: 85552325--85552399 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
85552315 TATTTTTATG
* **
85552325 ATTTAT-TTCAAATTTTTATATGTATTA
1 ATTTATCTTTAAATTTTTATACATATTA
85552352 A-TTA-CTTTAAAATTTTTATACATA-TA
1 ATTTATCTTT-AAATTTTTATACATATTA
85552378 ATTTATCTTTAAATGTTTTATA
1 ATTTATCTTTAAAT-TTTTATA
85552400 TATTGTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 8 0.20
27 21 0.52
28 11 0.28
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (28 bp):
ATTTATCTTTAAATTTTTATACATATTA
Found at i:85555622 original size:13 final size:13
Alignment explanation
Indices: 85555606--85555631 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85555596 ACTTTATGGA
85555606 AACAAATGGTTTT
1 AACAAATGGTTTT
85555619 AACAAATGGTTTT
1 AACAAATGGTTTT
85555632 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:85558458 original size:40 final size:37
Alignment explanation
Indices: 85558355--85558489 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
85558345 TTTTCCTCAT
* *
85558355 TGAAATACCATACCTACATTTTACAACTCAGTATGG-
1 TGAAATACCATACCTACATTTCACAACTTAGTATGGA
* * **
85558391 -GAAATGCCATGCCTACATTTCTTAACTTAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTTAGTATGGA
*
85558427 TTTGATAATACCATACCTACATTTCACAACTTGGTATGGA
1 --TGA-AATACCATACCTACATTTCACAACTTAGTATGGA
85558467 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
85558490 CTTTGCCATG
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 50 0.60
38 2 0.02
39 2 0.02
40 29 0.35
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTTAGTATGGA
Found at i:85558501 original size:35 final size:35
Alignment explanation
Indices: 85558434--85558501 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
85558424 GGATTTGATA
**
85558434 ATACCATACCTACATTTCACAACTTGGTATGGATG
1 ATACCATACCTACATTTCACAACTTGCCATGGATG
85558469 ATACCATACCTACATTTCAC-ACTTTGCCATGGA
1 ATACCATACCTACATTTCACAAC-TTGCCATGGA
85558502 ACAACCATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTTGCCATGGATG
Found at i:85568138 original size:26 final size:26
Alignment explanation
Indices: 85568102--85568185 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
85568092 CATGAAATTC
85568102 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
85568128 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
85568154 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85568180 TTATCA
1 TTATCA
85568186 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85576269 original size:5 final size:6
Alignment explanation
Indices: 85576251--85576278 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
85576241 AAGTGAGAGG
85576251 AAGAAA AAGAAA AAGAAA AAGAAA AAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGA
85576279 GAGATGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:85576662 original size:13 final size:13
Alignment explanation
Indices: 85576644--85576668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85576634 GGGAATTTTT
85576644 TGGTTGATTTTAA
1 TGGTTGATTTTAA
85576657 TGGTTGATTTTA
1 TGGTTGATTTTA
85576669 GTTCTCCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
TGGTTGATTTTAA
Found at i:85577070 original size:29 final size:29
Alignment explanation
Indices: 85577038--85577102 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
85577028 TCAAAATTCA
*
85577038 AAAAAATTA-TAAAATTAATTTTAAAAAT-T
1 AAAAAATTATTAAAAGT-A-TTTAAAAATAT
* *
85577067 AAAAAAATATTAAAAGTATTTAAAACTAT
1 AAAAAATTATTAAAAGTATTTAAAAATAT
85577096 AAAAAAT
1 AAAAAAT
85577103 ATTTTTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 8 0.27
29 16 0.53
30 6 0.20
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAAATTATTAAAAGTATTTAAAAATAT
Found at i:85577081 original size:30 final size:27
Alignment explanation
Indices: 85577030--85577105 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 27
85577020 TTTTAAATTC
*
85577030 AAAATTCAAAAAAAT-TATAAAATTAATTTT
1 AAAATT-AAAAAAATAT-TAAAAGT-A-TTT
85577060 AAAAATTAAAAAAATATTAAAAGTATTT
1 -AAAATTAAAAAAATATTAAAAGTATTT
*
85577088 AAAACTATAAAAAATATT
1 AAAATTA-AAAAAATATT
85577106 TTTTTTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 6 0.15
28 13 0.32
29 1 0.02
30 14 0.34
31 7 0.17
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAATTAAAAAAATATTAAAAGTATTT
Found at i:85582325 original size:15 final size:15
Alignment explanation
Indices: 85582305--85582333 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85582295 TCAAGTAAGT
85582305 AACTATACTTTAGTC
1 AACTATACTTTAGTC
85582320 AACTATACTTTAGT
1 AACTATACTTTAGT
85582334 TACTTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
AACTATACTTTAGTC
Found at i:85584804 original size:31 final size:31
Alignment explanation
Indices: 85584763--85584823 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
85584753 TGGGTAGACC
85584763 ACACGAGCTAGCTTTTGGGGCCGTGTGGGCT
1 ACACGAGCTAGCTTTTGGGGCCGTGTGGGCT
* ** *
85584794 ACACGGGCTAGCTTTTTTGGTCGTGTGGGC
1 ACACGAGCTAGCTTTTGGGGCCGTGTGGGC
85584824 CTTTTGGGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.11, C:0.21, G:0.38, T:0.30
Consensus pattern (31 bp):
ACACGAGCTAGCTTTTGGGGCCGTGTGGGCT
Found at i:85586475 original size:24 final size:25
Alignment explanation
Indices: 85586448--85586499 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
85586438 TTAGTAAGTC
*
85586448 AAATTA-ACTATACTAATAAATGCT
1 AAATTATACTATACTAATAAATACT
*
85586472 AAA-TATATTATACTAATAAATACT
1 AAATTATACTATACTAATAAATACT
85586496 AAAT
1 AAAT
85586500 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (25 bp):
AAATTATACTATACTAATAAATACT
Found at i:85588445 original size:24 final size:24
Alignment explanation
Indices: 85588418--85588469 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
85588408 TTAGTAAGTC
*
85588418 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
85588442 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
85588466 AAAT
1 AAAT
85588470 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:85590805 original size:30 final size:30
Alignment explanation
Indices: 85590771--85590828 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
85590761 ACATAAAAAA
* *
85590771 GAAATCTTTTTCTTTATATACGGAATACGT
1 GAAATATTTTTCTTTATATACAGAATACGT
* *
85590801 GAAATATTTTTTTTTGTATACAGAATAC
1 GAAATATTTTTCTTTATATACAGAATAC
85590829 AAATCTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (30 bp):
GAAATATTTTTCTTTATATACAGAATACGT
Found at i:85591539 original size:21 final size:20
Alignment explanation
Indices: 85591501--85591539 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
85591491 GAATATTTCA
**
85591501 TTTTTAATATTATTTTAACT
1 TTTTTAATATTAAATTAACT
85591521 TTTTATAATATTAAATTAA
1 TTTT-TAATATTAAATTAA
85591540 GTTATTGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAATATTAAATTAACT
Found at i:85593271 original size:18 final size:17
Alignment explanation
Indices: 85593248--85593281 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85593238 AAGATATAAA
85593248 AAAATACAAAAAATAATT
1 AAAATA-AAAAAATAATT
*
85593266 AAAATATAAAAATAAT
1 AAAATAAAAAAATAAT
85593282 ATCAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAAAAAAATAATT
Found at i:85594151 original size:15 final size:15
Alignment explanation
Indices: 85594131--85594164 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
85594121 TAAATCACTC
85594131 TCCTTATTATGTCTT
1 TCCTTATTATGTCTT
85594146 TCCTTATTATGTCTT
1 TCCTTATTATGTCTT
85594161 TCCT
1 TCCT
85594165 CATGCAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.59
Consensus pattern (15 bp):
TCCTTATTATGTCTT
Found at i:85599172 original size:10 final size:10
Alignment explanation
Indices: 85599148--85599199 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
85599138 TGCAATTCTG
*
85599148 TCAAAAATAA
1 TCAAAATTAA
*
85599158 CCAAAATTAA
1 TCAAAATTAA
85599168 TCAAAATTAA
1 TCAAAATTAA
*
85599178 TTATAAAATTAA
1 -T-CAAAATTAA
*
85599190 TTAAAATTAA
1 TCAAAATTAA
85599200 ACATGTTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 26 0.72
11 2 0.06
12 8 0.22
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:85607743 original size:7 final size:6
Alignment explanation
Indices: 85607723--85607752 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
85607713 AATAAAGTTT
*
85607723 AAATAA AAATAA AAGTAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
85607753 TCAGAGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:85609098 original size:26 final size:26
Alignment explanation
Indices: 85609067--85609123 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
85609057 TAAGTAGCTG
85609067 CTAATTAAATTTTCAACTTATATTGA
1 CTAATTAAATTTTCAACTTATATTGA
85609093 CTAATTAAATTTTCAACTTATATTGA
1 CTAATTAAATTTTCAACTTATATTGA
85609119 CTAAT
1 CTAAT
85609124 ATGATAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.46
Consensus pattern (26 bp):
CTAATTAAATTTTCAACTTATATTGA
Found at i:85609264 original size:22 final size:21
Alignment explanation
Indices: 85609220--85609265 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
85609210 ATGGCATAAA
* *
85609220 AAAGTAAAAAAAAATAAGGAT
1 AAAGTAAAAAAAAAGAAGAAT
*
85609241 AAAGTAAGAAAAAAAGATGAAT
1 AAAGTAA-AAAAAAAGAAGAAT
85609263 AAA
1 AAA
85609266 AGGCATGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAGTAAAAAAAAAGAAGAAT
Found at i:85610872 original size:13 final size:13
Alignment explanation
Indices: 85610856--85610888 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
85610846 TTTAATTAAA
*
85610856 TTAGTTAATTAGT
1 TTAGATAATTAGT
85610869 TTAGATAATTAGT
1 TTAGATAATTAGT
85610882 TTA-ATAA
1 TTAGATAA
85610889 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:85616312 original size:7 final size:6
Alignment explanation
Indices: 85616238--85616322 Score: 68
Period size: 6 Copynumber: 14.5 Consensus size: 6
85616228 TCCTCCTATT
* * * *
85616238 TTTTTA TTATTTA TTGTTA TTGTTA TTGTTA TTGTTA --TTTA -TTTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * *
85616284 TTTTTA TTTTTC TTTTTC TTTTGA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
85616323 CAATTTTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
4 3 0.04
5 4 0.06
6 56 0.81
7 6 0.09
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:85630975 original size:7 final size:7
Alignment explanation
Indices: 85630955--85630989 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
85630945 TTATTCTAAG
85630955 GGTTTAA
1 GGTTTAA
85630962 GGTTTTAA
1 GG-TTTAA
85630970 GGTTTAA
1 GGTTTAA
85630977 GGTTTAA
1 GGTTTAA
85630984 GGTTTA
1 GGTTTA
85630990 GGATTGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (7 bp):
GGTTTAA
Found at i:85632984 original size:19 final size:21
Alignment explanation
Indices: 85632945--85632985 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
85632935 GTACTTTGTA
85632945 ATATATGGCTTGAGGTATGTTT
1 ATATATGGCTTGA-GTATGTTT
85632967 ATATATGG-TTGA-TATGTTT
1 ATATATGGCTTGAGTATGTTT
85632986 GACTGGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
ATATATGGCTTGAGTATGTTT
Found at i:85633585 original size:21 final size:20
Alignment explanation
Indices: 85633561--85633606 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
85633551 ACGGTTTGCG
* *
85633561 CACATAGGCGTGTGGAGTAGT
1 CACACAGGCATGTGGA-TAGT
*
85633582 CACACGGGCATGTGGATAGT
1 CACACAGGCATGTGGATAGT
85633602 CACAC
1 CACAC
85633607 GGCTATGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.20
Consensus pattern (20 bp):
CACACAGGCATGTGGATAGT
Found at i:85637741 original size:45 final size:45
Alignment explanation
Indices: 85637679--85637768 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
85637669 CCCATGTGTT
* *
85637679 TGCCTATGTGGAAAAAAATAGGGATATGTACGAAGCCTTTTTGCC
1 TGCCCATGTGGAAAAAAATAGGGATATGTACCAAGCCTTTTTGCC
* *
85637724 TGCCCATGTGGACAAAAATAGGGCTATGTACCAAGCCTTTTTGCC
1 TGCCCATGTGGAAAAAAATAGGGATATGTACCAAGCCTTTTTGCC
85637769 ACCCTTACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
TGCCCATGTGGAAAAAAATAGGGATATGTACCAAGCCTTTTTGCC
Found at i:85638722 original size:95 final size:96
Alignment explanation
Indices: 85638486--85638759 Score: 329
Period size: 95 Copynumber: 2.9 Consensus size: 96
85638476 AGAGGGTGAA
* * * *
85638486 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGACAGATGCCATGTCC
* **
85638551 CAGACATGGTCTTACACTGGCTCTCATAATG
66 CAGACAAGGTCTTACACTGGCTCTCATAACC
* * * * * *
85638582 TGGCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCAATACAGATGCCATGTT
1 TTGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCAAGACAGATGCCATGTC
*
85638646 CCAGA-AAGGTCTTACACTGGCTCTCATTACC
65 CCAGACAAGGTCTTACACTGGCTCTCATAACC
* * * *
85638677 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCA-ATGCCGTGTC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA-AGACAGATGCCATGTC
* *
85638741 CCATACACGGTCTTACACT
65 CCAGACAAGGTCTTACACT
85638760 AGCGCACATA
Statistics
Matches: 148, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
95 76 0.51
96 72 0.49
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (96 bp):
TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGACAGATGCCATGTCC
CAGACAAGGTCTTACACTGGCTCTCATAACC
Found at i:85638768 original size:143 final size:144
Alignment explanation
Indices: 85638491--85638772 Score: 401
Period size: 143 Copynumber: 2.0 Consensus size: 144
85638481 GTGAATTGCC
* *
85638491 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCCAGGCCGATGCCATGTCCCAAAC
* * * *
85638556 ATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCG
66 ATGGTCTTACACTGGCTCTCATAATATGGCCAATGCCATGTCCCAGACACGGTCTTACACTAGCG
85638621 CACATATCAATACA
131 CACATATCAATACA
* ** *
85638635 GATGCCATGTTCCAGAA-A-GGTCTTACACTGGCTCTCAT-TACCTTGCCGATGCCATGTTCCAA
1 GATGCCATGTTCCA-AACATGGTCTTACACTGGCTCACATGT-CCAGGCCGATGCCATGTCCCAA
* *
85638697 ACATGGTCTTACACTGGCTCTCAT-ATCATGGCCAATGCCGTGTCCCATACACGGTCTTACACTA
64 ACATGGTCTTACACTGGCTCTCATAAT-ATGGCCAATGCCATGTCCCAGACACGGTCTTACACTA
85638761 GCGCACATATCA
128 GCGCACATATCA
85638773 CCCAAATGTC
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
142 3 0.02
143 103 0.84
144 15 0.12
145 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (144 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCCAGGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATAATATGGCCAATGCCATGTCCCAGACACGGTCTTACACTAGCG
CACATATCAATACA
Found at i:85638772 original size:48 final size:48
Alignment explanation
Indices: 85638488--85638772 Score: 283
Period size: 48 Copynumber: 6.0 Consensus size: 48
85638478 AGGGTGAATT
* * *
85638488 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* *
85638536 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCATG
* * *
85638584 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* * * * * * *
85638632 ACAGATGCCATGTTCCAGA-AAGGTCTTACACTGGCTCTCAT-TACCTT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT-CATG
* * *
85638679 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * * * *
85638727 GCCAATGCCGTGTCCCATACACGGTCTTACACTAGCGCACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
85638773 CCCAAATGTC
Statistics
Matches: 196, Mismatches: 33, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
46 2 0.01
47 37 0.19
48 154 0.79
49 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
Found at i:85649319 original size:56 final size:56
Alignment explanation
Indices: 85649233--85649352 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
85649223 ACAAGGGATG
*
85649233 ATGGGCAAAACATGTCATGAAATATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
85649289 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
85649345 ATGGGCAA
1 ATGGGCAA
85649353 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:85650346 original size:47 final size:47
Alignment explanation
Indices: 85650286--85650629 Score: 514
Period size: 47 Copynumber: 7.3 Consensus size: 47
85650276 TGAAAGTGTA
85650286 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
85650333 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
85650380 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
*
85650427 -AGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TA-TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
85650474 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
85650521 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGT-AAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* * *
85650568 TATATATGTGATAAGGCCGAATGGCTAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
85650615 TATAAATGTGATAAG
1 TATATATGTGATAAG
85650630 TCCCGAAGGG
Statistics
Matches: 272, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
46 4 0.01
47 266 0.98
49 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:85650601 original size:22 final size:22
Alignment explanation
Indices: 85650480--85650601 Score: 59
Period size: 22 Copynumber: 5.3 Consensus size: 22
85650470 CATGTGTATG
*
85650480 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCTAA
* *
85650502 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-TA-A
* *
85650527 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCTAA
* *** **
85650549 TGTGATGAATGTAAAAGTGTATATA
1 TGTGAT-AAGGCCGAA-TGGCTA-A
85650574 TGTGATAAGGCCGAATGGCTAA
1 TGTGATAAGGCCGAATGGCTAA
85650596 TGTGAT
1 TGTGAT
85650602 GGATGTGGAA
Statistics
Matches: 69, Mismatches: 21, Indels: 20
0.63 0.19 0.18
Matches are distributed among these distances:
22 20 0.29
23 18 0.26
24 17 0.25
25 14 0.20
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCTAA
Found at i:85650629 original size:141 final size:141
Alignment explanation
Indices: 85650272--85650608 Score: 579
Period size: 141 Copynumber: 2.4 Consensus size: 141
85650262 TATTTGAATA
*
85650272 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
1 AATGTAAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
85650337 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
64 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
85650402 GGCCAATGTGATG
129 GGCCAATGTGATG
* *
85650415 AATGTGAACA-TG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
1 AATGT-AAAAGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
85650478 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
64 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
85650543 GGCCAATGTGATG
129 GGCCAATGTGATG
* *
85650556 AATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCTAATGTGATGGATGTG
1 AATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
85650609 GAAGTGTATA
Statistics
Matches: 183, Mismatches: 7, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
140 4 0.02
141 169 0.92
142 1 0.01
143 7 0.04
144 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (141 bp):
AATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGG
CCAATGTGATG
Found at i:85652998 original size:15 final size:16
Alignment explanation
Indices: 85652973--85653003 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
85652963 CTCTCAATAA
85652973 TTAATATTATTATTAT
1 TTAATATTATTATTAT
85652989 TTAA-ATTATTATTAT
1 TTAATATTATTATTAT
85653004 CTTAGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATATTATTATTAT
Found at i:85655077 original size:14 final size:13
Alignment explanation
Indices: 85655049--85655085 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
85655039 ATCCTGGAAT
85655049 ATTAA-AACAATA
1 ATTAAGAACAATA
85655061 ATTAAGAACACATA
1 ATTAAGAACA-ATA
85655075 ATTAAGAACAA
1 ATTAAGAACAA
85655086 ATCAAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:85655997 original size:6 final size:6
Alignment explanation
Indices: 85655986--85656024 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
85655976 TTTGAGTCAC
85655986 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT-A TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
85656025 CCTTTACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:85661650 original size:5 final size:5
Alignment explanation
Indices: 85661640--85661700 Score: 122
Period size: 5 Copynumber: 12.2 Consensus size: 5
85661630 ACATGTGCTC
85661640 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
85661690 TCTTT TCTTT T
1 TCTTT TCTTT T
85661701 TTAATCACAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:85672062 original size:48 final size:48
Alignment explanation
Indices: 85671991--85672100 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 48
85671981 CCGGCCACAC
* * * *
85671991 ACATGGTCTTACACTGCCTCTCAT-TACCTTACCGATGCCATGTTCCAA
1 ACATGGTCTTACACAGCCTCTCATAT-CATGACCGATGCCATGTCCCAA
* *
85672039 ACATGGTCTTACACAGGCTCTCATATCATGGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACAGCCTCTCATATCATGACCGATGCCATGTCCCAA
*
85672087 ACATGGTCCTACAC
1 ACATGGTCTTACAC
85672101 TAGCGCACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 53 0.98
49 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (48 bp):
ACATGGTCTTACACAGCCTCTCATATCATGACCGATGCCATGTCCCAA
Found at i:85672112 original size:48 final size:48
Alignment explanation
Indices: 85672022--85672114 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
85672012 CATTACCTTA
* * * *
85672022 CCGATGCCATGTTCCAAACATGGTCTTACACAGGCTCTCATATCATGG
1 CCGATGCCATGTCCCAAACATGGTCCTACACAGGCGCACATATCATGG
85672070 CCGATGCCATGTCCCAAACATGGTCCTACACTA-GCGCACATATCA
1 CCGATGCCATGTCCCAAACATGGTCCTACAC-AGGCGCACATATCA
85672115 CCCAGATGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCCTACACAGGCGCACATATCATGG
Found at i:85677530 original size:31 final size:30
Alignment explanation
Indices: 85677494--85677594 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 30
85677484 TAATCACATT
85677494 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATATTATCTA-ATA
** *
85677525 AATATTAAATTTAATTTAATATCT-TATAAT-
1 AATATTAAA-TTAATAAAATAT-TATCTAATA
85677555 AATATTAAATTAATAAAATATTATCTATATA
1 AATATTAAATTAATAAAATATTATCTA-ATA
85677586 AATATTAAA
1 AATATTAAA
85677595 GTAAAGTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.02
29 13 0.22
30 11 0.19
31 20 0.34
32 13 0.22
33 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATTATCTAATA
Found at i:85677563 original size:61 final size:61
Alignment explanation
Indices: 85677493--85677619 Score: 200
Period size: 61 Copynumber: 2.1 Consensus size: 61
85677483 TTAATCACAT
* * * *
85677493 TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCTTATAA
1 TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAAGTAAAGTTAATATCTCATAA
* *
85677554 TAATATTAAATTAATAAAATATTATCTATATAAATATTAAAGTAAAGTTAATATCTCATAT
1 TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAAGTAAAGTTAATATCTCATAA
85677615 TAATA
1 TAATA
85677620 AATAGATAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (61 bp):
TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAAGTAAAGTTAATATCTCATAA
Found at i:85677661 original size:15 final size:16
Alignment explanation
Indices: 85677628--85677661 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
85677618 TAAATAGATA
85677628 AATATTAAATTAGCTTT
1 AATATTAAATTA-CTTT
85677645 AATATTAAATT-CTTT
1 AATATTAAATTACTTT
85677660 AA
1 AA
85677662 AACAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AATATTAAATTACTTT
Found at i:85677996 original size:22 final size:21
Alignment explanation
Indices: 85677957--85677997 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
85677947 ACTAGATACA
85677957 AGGGGCACACACCCGTGTGGG
1 AGGGGCACACACCCGTGTGGG
85677978 AGGGGCA-ACACGCCTGTGTG
1 AGGGGCACACAC-CC-GTGTG
85677998 ACCAATCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCGTGTGGG
Found at i:85679233 original size:46 final size:45
Alignment explanation
Indices: 85679140--85679341 Score: 158
Period size: 46 Copynumber: 4.4 Consensus size: 45
85679130 TAATTCCATA
* *
85679140 TCCCAGACATGGTCTTACACTAGC-TCTTCTCGTA-GCCGATGTATG
1 TCCCAGACAT-GTCTTACACTAGCTTCATCTCG-AGGCCGATGCATG
* **
85679185 TCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTAATGCATG
1 TCCCAGACATGTCTTACACTAGCTT-CATCTCGAGGCCGATGCATG
* * * * ** *
85679231 TCCCAGACATGTCCTACTCTAGCTTTCGTCTCAATACTGATGCCATG
1 TCCCAGACATGTCTTACACTAGC-TTCATCTCGAGGCCGATG-CATG
* * * * *
85679278 TCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATACATG
1 TCCCAGACAT-GTCTTACACTAGCT-TCAT-CTCGAGGCCGATGCATG
85679325 TCCCAGACATGTCTTAC
1 TCCCAGACATGTCTTAC
85679342 TTTAGCTCAC
Statistics
Matches: 123, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
44 12 0.10
45 12 0.10
46 52 0.42
47 29 0.24
48 17 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTAGCTTCATCTCGAGGCCGATGCATG
Found at i:85692339 original size:6 final size:6
Alignment explanation
Indices: 85692325--85692363 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
85692315 GTAATAATAA
85692325 TTATATT TTATTT TTATTT TTATTT TTATTT TTATTT TT
1 TTAT-TT TTATTT TTATTT TTATTT TTATTT TTATTT TT
85692364 GAAATAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:85692457 original size:49 final size:50
Alignment explanation
Indices: 85692370--85692469 Score: 184
Period size: 49 Copynumber: 2.0 Consensus size: 50
85692360 TTTTGAAATA
85692370 ATTATAATAATTTTTATTTTTTATTTGCATCTAAATTGTTTTATGGGAAT
1 ATTATAATAATTTTTATTTTTTATTTGCATCTAAATTGTTTTATGGGAAT
*
85692420 ATTATAATAATTTTTA-TTTTTATTTGCATCTGAATTGTTTTATGGGAAT
1 ATTATAATAATTTTTATTTTTTATTTGCATCTAAATTGTTTTATGGGAAT
85692469 A
1 A
85692470 ACATAACTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 33 0.67
50 16 0.33
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (50 bp):
ATTATAATAATTTTTATTTTTTATTTGCATCTAAATTGTTTTATGGGAAT
Found at i:85696400 original size:66 final size:66
Alignment explanation
Indices: 85696289--85696416 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 66
85696279 AAGCTCTTAC
* * * *
85696289 TGGAGTTCATCATATTTTCTTGTTGCCTTTGCTTCCCTCGCTGCTGCCT-TCGCTTTAAGTTGGA
1 TGGAGTTCATCATATTTTCTTGTAGCATCTGCTTCCCTCGATGCTGCCTCT-GCTTTAAGTTGGA
85696353 GT
65 GT
* *
85696355 TGGAGTTCATCATATTTTCTT-TGAGCATCTGCTTCTCTCGATGCTGCCTCTGCTTTGAGTTG
1 TGGAGTTCATCATATTTTCTTGT-AGCATCTGCTTCCCTCGATGCTGCCTCTGCTTTAAGTTG
85696417 AGCAATTTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
65 1 0.02
66 52 0.96
67 1 0.02
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (66 bp):
TGGAGTTCATCATATTTTCTTGTAGCATCTGCTTCCCTCGATGCTGCCTCTGCTTTAAGTTGGAG
T
Found at i:85698183 original size:37 final size:37
Alignment explanation
Indices: 85698125--85698306 Score: 301
Period size: 37 Copynumber: 4.9 Consensus size: 37
85698115 TAGCTCGAAT
* *
85698125 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
85698162 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* *
85698199 AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* *
85698236 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
85698273 AATCTCCACACGTAGTCATCAGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
85698307 ATATATTTCC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 137 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:85698499 original size:48 final size:48
Alignment explanation
Indices: 85698439--85698736 Score: 497
Period size: 48 Copynumber: 6.2 Consensus size: 48
85698429 CGGCCACAAT
*
85698439 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
85698487 ATATACATATCTCATACATATTTCTCATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
85698535 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
85698583 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
85698631 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
85698679 ATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
85698727 ACATATATAT
1 ATATACATAT
85698737 ATTTATCTTG
Statistics
Matches: 233, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 233 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:85703706 original size:15 final size:15
Alignment explanation
Indices: 85703683--85703721 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
85703673 CTTGGCTTGC
*
85703683 ATTTTGAAATGCAAA
1 ATTTAGAAATGCAAA
85703698 ATTTAGAAATGCAAA
1 ATTTAGAAATGCAAA
85703713 ATTTAGAAA
1 ATTTAGAAA
85703722 ATTTTGTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (15 bp):
ATTTAGAAATGCAAA
Found at i:85703893 original size:7 final size:7
Alignment explanation
Indices: 85703883--85703913 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
85703873 AGATAATATA
85703883 TATCAAG
1 TATCAAG
85703890 TATCAAG
1 TATCAAG
85703897 TATCAAG
1 TATCAAG
85703904 TATCAAG
1 TATCAAG
85703911 TAT
1 TAT
85703914 TTAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (7 bp):
TATCAAG
Found at i:85704162 original size:35 final size:35
Alignment explanation
Indices: 85704116--85704182 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
85704106 TTTTTATATT
85704116 CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
1 CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
*
85704151 CTTTAAATGTTTATGTAAGTTATGATTATCAT
1 CTTTAAATGTTTATGTAAGTTATGATAATCAT
85704183 CTTTAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
Found at i:85704493 original size:16 final size:15
Alignment explanation
Indices: 85704472--85704505 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
85704462 TTTTTCTCGA
85704472 TTTTATTTTGCTATTT
1 TTTTATTTT-CTATTT
*
85704488 TTTTATTTTTTATTT
1 TTTTATTTTCTATTT
85704503 TTT
1 TTT
85704506 AAGAATGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTATTTTCTATTT
Found at i:85704708 original size:13 final size:14
Alignment explanation
Indices: 85704690--85704718 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
85704680 ATTATAAAAG
85704690 TTAGTTAC-AAATA
1 TTAGTTACAAAATA
85704703 TTAGTTACAAAATA
1 TTAGTTACAAAATA
85704717 TT
1 TT
85704719 TTAAACAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
TTAGTTACAAAATA
Found at i:85706698 original size:26 final size:27
Alignment explanation
Indices: 85706652--85706708 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
85706642 TGCACAAGCT
*
85706652 TCACTTCTCTGTCTTTTTCTCTCTTTA
1 TCACTTCTCTGTCTTTATCTCTCTTTA
* *
85706679 TCAC-TCTCTGT-TCTTATCTCTGTTTC
1 TCACTTCTCTGTCT-TTATCTCTCTTTA
85706705 TCAC
1 TCAC
85706709 CTTGAGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 21 0.81
27 4 0.15
ACGTcount: A:0.09, C:0.32, G:0.05, T:0.54
Consensus pattern (27 bp):
TCACTTCTCTGTCTTTATCTCTCTTTA
Found at i:85707725 original size:20 final size:20
Alignment explanation
Indices: 85707700--85707776 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 20
85707690 GCAGCAGATG
85707700 TTGGGGAAAAACTAAGGGAT
1 TTGGGGAAAAACTAAGGGAT
**
85707720 TTGGGG---AA-T--TTGAT
1 TTGGGGAAAAACTAAGGGAT
85707734 TTGGGGAAAAAACTAAGGGAT
1 TTGGGG-AAAAACTAAGGGAT
* *
85707755 TTGGAGAAAAAATAAGGGAT
1 TTGGGGAAAAACTAAGGGAT
85707775 TT
1 TT
85707777 TAGGAAACTG
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.20
16 1 0.02
17 2 0.05
18 2 0.05
19 1 0.02
20 21 0.48
21 8 0.18
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (20 bp):
TTGGGGAAAAACTAAGGGAT
Found at i:85707755 original size:21 final size:20
Alignment explanation
Indices: 85707731--85707776 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
85707721 TGGGGAATTT
*
85707731 GATTTGGGGAAAAAACTAAGG
1 GATTTGGAGAAAAAA-TAAGG
85707752 GATTTGGAGAAAAAATAAGG
1 GATTTGGAGAAAAAATAAGG
85707772 GATTT
1 GATTT
85707777 TAGGAAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.24
Consensus pattern (20 bp):
GATTTGGAGAAAAAATAAGG
Found at i:85707783 original size:20 final size:20
Alignment explanation
Indices: 85707738--85707783 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
85707728 TTTGATTTGG
85707738 GGAAAAAACTAAGGGATTT-
1 GGAAAAAACTAAGGGATTTA
*
85707757 GGAGAAAAAATAAGGGATTTTA
1 GGA-AAAAACTAAGGGA-TTTA
85707779 GGAAA
1 GGAAA
85707784 CTGATTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 3 0.13
20 12 0.52
21 5 0.22
22 3 0.13
ACGTcount: A:0.50, C:0.02, G:0.28, T:0.20
Consensus pattern (20 bp):
GGAAAAAACTAAGGGATTTA
Found at i:85707789 original size:55 final size:56
Alignment explanation
Indices: 85707700--85707807 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 56
85707690 GCAGCAGATG
* * * **
85707700 TTGGGGAAAAACTAAGGGATTTGGGGAATTTGATTTGGGG-AAAAAACTAAGGGAT
1 TTGGAGAAAAAATAAGGGATTTGAGGAAACTGATTTGGGGAAAAAAACTAAGGGAT
*
85707755 TTGGAGAAAAAATAAGGGATTTTAGGAAACTGATTTGGGGAAAAAAACTAAGG
1 TTGGAGAAAAAATAAGGGATTTGAGGAAACTGATTTGGGGAAAAAAACTAAGG
85707808 CTATCAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 34 0.74
56 12 0.26
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.24
Consensus pattern (56 bp):
TTGGAGAAAAAATAAGGGATTTGAGGAAACTGATTTGGGGAAAAAAACTAAGGGAT
Found at i:85707964 original size:41 final size:41
Alignment explanation
Indices: 85707856--85707965 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 41
85707846 AGTCGCGACA
* * * *
85707856 TTTATGGGAAAAACGCCGTTATTGCTTTATCTTTAGCAGTG
1 TTTATGAGAAAAATGCCGCTATTGTTTTATCTTTAGCAGTG
* *
85707897 TTTATGAG-AAAATAG-CGCTATTGTTTTATCTTTTGTAGTG
1 TTTATGAGAAAAAT-GCCGCTATTGTTTTATCTTTAGCAGTG
*
85707937 TTTATGAGAAAAATGCCGCTATAGTTTTA
1 TTTATGAGAAAAATGCCGCTATTGTTTTA
85707966 ACCTTTTGCG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 34 0.58
41 25 0.42
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (41 bp):
TTTATGAGAAAAATGCCGCTATTGTTTTATCTTTAGCAGTG
Found at i:85717985 original size:31 final size:31
Alignment explanation
Indices: 85717949--85718010 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
85717939 AATACAAAGA
85717949 ATTCTTTCAATACTCAAATACA-TTTCATTCT
1 ATTCTTTCAATACTC-AATACAGTTTCATTCT
*
85717980 ATTCTTTCAATACTCAGTACAGTTTCATTCT
1 ATTCTTTCAATACTCAATACAGTTTCATTCT
85718011 TTCAGTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (31 bp):
ATTCTTTCAATACTCAATACAGTTTCATTCT
Found at i:85732846 original size:12 final size:13
Alignment explanation
Indices: 85732814--85732844 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
85732804 ATACATGTTA
85732814 AATATTTAAATTT
1 AATATTTAAATTT
85732827 AA-ATTTAAATTT
1 AATATTTAAATTT
85732839 AATATT
1 AATATT
85732845 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTTAAATTT
Found at i:85736556 original size:14 final size:15
Alignment explanation
Indices: 85736534--85736563 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
85736524 GAATATCAAA
85736534 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
85736549 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
85736563 A
1 A
85736564 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:85736958 original size:13 final size:13
Alignment explanation
Indices: 85736922--85736958 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
85736912 TTAGGCAGGG
85736922 CACGCCCGTGTGA
1 CACGCCCGTGTGA
* *
85736935 CACACCTGTGTGA
1 CACGCCCGTGTGA
85736948 CACGCCCGTGT
1 CACGCCCGTGT
85736959 ACGATTACTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.16, C:0.38, G:0.27, T:0.19
Consensus pattern (13 bp):
CACGCCCGTGTGA
Found at i:85747433 original size:48 final size:48
Alignment explanation
Indices: 85747299--85747425 Score: 175
Period size: 48 Copynumber: 2.6 Consensus size: 48
85747289 CTGGGCTATC
*
85747299 GGCATCGATATCTGATCCCATGTAAGACCATGTCTGGGACAAAGCATT
1 GGCATCGATATATGATCCCATGTAAGACCATGTCTGGGACAAAGCATT
* * * * *
85747347 GGCATTGATCTACGATCCCACGTAAGACCATGTCTGGGA-AATGGCATT
1 GGCATCGATATATGATCCCATGTAAGACCATGTCTGGGACAA-AGCATT
*
85747395 GGCATCAATATATGATCCCATGTAAGACCAT
1 GGCATCGATATATGATCCCATGTAAGACCAT
85747426 ATTTGGGATA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 2 0.03
48 65 0.97
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (48 bp):
GGCATCGATATATGATCCCATGTAAGACCATGTCTGGGACAAAGCATT
Found at i:85747448 original size:48 final size:47
Alignment explanation
Indices: 85747299--85747448 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 47
85747289 CTGGGCTATC
*
85747299 GGCATCGATATCTGATCCCATGTAAGACCATGTCTGGGACAA-AGCATT
1 GGCATCGATATATGATCCCATGTAAGACCATGTCTGGGA-AAGA-CATT
* * * * *
85747347 GGCATTGATCTACGATCCCACGTAAGACCATGTCTGGGAAATGGCATT
1 GGCATCGATATATGATCCCATGTAAGACCATGTCTGGGAAA-GACATT
* * * *
85747395 GGCATCAATATATGATCCCATGTAAGACCATATTTGGGATACGACATT
1 GGCATCGATATATGATCCCATGTAAGACCATGTCTGGGA-AAGACATT
*
85747443 AGCATC
1 GGCATC
85747449 CTACCATGTG
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
47 2 0.02
48 80 0.96
49 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
GGCATCGATATATGATCCCATGTAAGACCATGTCTGGGAAAGACATT
Found at i:85748570 original size:38 final size:38
Alignment explanation
Indices: 85748488--85748658 Score: 191
Period size: 38 Copynumber: 4.4 Consensus size: 38
85748478 TCCAGTTACT
* * * * *
85748488 AGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATACT
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACC
* *
85748528 AGCACTAGGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
* *
85748566 AGCACGAAGCTTGCGGGATTTAACCCGGATATATTACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
* * *
85748604 AGCGCGAAGCCTGCGGGACTTAACCCGGATATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
*
85748642 AGCA-TATAGCCTGCGGG
1 AGCACGA-AGCCTGCGGG
85748659 TCTTTAAGCC
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
37 1 0.01
38 92 0.81
39 5 0.04
40 15 0.13
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
Found at i:85754228 original size:46 final size:46
Alignment explanation
Indices: 85754073--85754340 Score: 244
Period size: 46 Copynumber: 5.7 Consensus size: 46
85754063 AGGGTATAAT
* *
85754073 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC--TCTCATCT-CG-AG
* *
85754124 -CCGATGCATGTTCCAGACATGTCTTACACTAG--CACATCTCGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCG-AG
*
85754167 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAG
* * * * *
85754213 GCTGATGCATATCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
* * * * *
85754259 GCCGATGCCATGTCCCAAACATGGTCATACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAG
*
85754307 GCCGATGCATGTCCTAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
85754341 ACACACACAT
Statistics
Matches: 183, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.02
44 36 0.20
45 1 0.01
46 62 0.34
47 25 0.14
48 35 0.19
49 14 0.08
50 6 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
Found at i:85754326 original size:94 final size:93
Alignment explanation
Indices: 85754069--85754343 Score: 307
Period size: 94 Copynumber: 2.9 Consensus size: 93
85754059 ACATAGGGTA
* * *
85754069 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCGT-ACCGATGCAT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATA-AT-CGTGGCCGATGCAT
85754133 GTTCCAGACATGTCTTACACTAGCACATCTCG
63 G-TCCAGACATGTCTTACACTAGCACATCTCG
* * * *
85754165 T-A-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCGAGGCTGATGCATAT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATAATCGTGGCCGATGCATGT
*
85754225 CCCAGACATGTCTTACACTAGCTC-TCGTC-
65 -CCAGACATGTCTTACACTAGCACATC-TCG
* *
85754254 TCAATGCCGATGCCATGTCCCAAACATGGTCATACACTGGCTCTCATAAT-GTGGCCGATGCATG
1 T-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATAATCGTGGCCGATGCATG
85754318 TCCTAGACATGTCTTACACTAGCACA
64 TCC-AGACATGTCTTACACTAGCACA
85754344 CACACATCGC
Statistics
Matches: 151, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
89 6 0.04
90 33 0.22
91 3 0.02
92 21 0.14
93 29 0.19
94 55 0.36
95 3 0.02
96 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (93 bp):
TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATCGTGGCCGATGCATGTC
CAGACATGTCTTACACTAGCACATCTCG
Found at i:85760541 original size:46 final size:47
Alignment explanation
Indices: 85760393--85760656 Score: 231
Period size: 46 Copynumber: 5.6 Consensus size: 47
85760383 GGGTATAATA
* * * * *
85760393 CCGATGCCATGTCCTAGGCATGGTCTTACACTGCCTCTCACATATCCATG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATCTCGATG
* * *
85760443 CTGATGCATGTTCCAGACATGTCTTACACTAG--C-ACATCTCG-TAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGAT-G
* * *
85760487 CCGATGCATGTCCTAAACATGTCTTACACTGGCT-TACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGATG
* * * *
85760533 CCGATGCATGTCCCAGACATATCTTACACTAGCTCT-CGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGATG
*
85760579 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT--ATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTACAT-CTCGAT-G
* *
85760627 CCGATACATGTCCCAGACATGTCCTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
85760657 AGCACACACA
Statistics
Matches: 177, Mismatches: 27, Indels: 24
0.78 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 34 0.19
46 62 0.35
47 31 0.18
48 32 0.18
49 12 0.07
50 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGATG
Found at i:85760683 original size:94 final size:93
Alignment explanation
Indices: 85760393--85760663 Score: 288
Period size: 94 Copynumber: 2.9 Consensus size: 93
85760383 GGGTATAATA
* * * * * *
85760393 CCGATGCCATGTCCTAGGCATGGTCTTACACTGCCTCTCACATATCCAT-GCTGATGCATGTTCC
1 CCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-AT-CATGGCCGATGCATGTCCC
*
85760457 AGACATGTCTTACACTAGCACA-TCTCGTAG
64 AGACATGTCTTACACTAGCACACTCTCAT-G
* *
85760487 CCGATG-CATGTCCTAAACAT-GTCTTACACTGGCT-TACAT-CTCGA-GGCCGATGCATGTCCC
1 CCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAATC-ATGGCCGATGCATGTCCC
* * *
85760547 AGACATATCTTACACTAGCTCTCGTCTCAATG
64 AGACATGTCTTACACTAGCACAC-TCTC-ATG
* *
85760579 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATGGCCGATACATGTCCCAG
1 CCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATCATGGCCGATGCATGTCCCAG
*
85760643 ACATGTCCTACACTAGCACAC
66 ACATGTCTTACACTAGCACAC
85760664 ACACATCGCC
Statistics
Matches: 147, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
89 1 0.01
90 34 0.23
91 1 0.01
92 26 0.18
93 26 0.18
94 57 0.39
95 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (93 bp):
CCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATCATGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACACTCTCATG
Found at i:85766470 original size:29 final size:29
Alignment explanation
Indices: 85766420--85766475 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
85766410 TACTAAATAC
*
85766420 TAAATTAAAAATAATATAAATATATTTTT
1 TAAATTAAAAATAATATAAATAAATTTTT
* *
85766449 TAAATTTAAAA-AATAATGAATAAATTT
1 TAAATTAAAAATAAT-ATAAATAAATTT
85766476 GGATTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
TAAATTAAAAATAATATAAATAAATTTTT
Found at i:85770769 original size:19 final size:21
Alignment explanation
Indices: 85770729--85770769 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
85770719 TATGTATTAT
*
85770729 TCTTTTTGCATTCATTTTTAC
1 TCTTTTTGCATTCATATTTAC
85770750 TCTTTTTGC-TT-ATATTTAC
1 TCTTTTTGCATTCATATTTAC
85770769 T
1 T
85770770 TGTGTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.15, C:0.17, G:0.05, T:0.63
Consensus pattern (21 bp):
TCTTTTTGCATTCATATTTAC
Found at i:85773635 original size:38 final size:38
Alignment explanation
Indices: 85773593--85773679 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
85773583 GAGCATCAAA
*
85773593 TTAATTTGAATCAAGCTTAATATTATCATGTTTTAATT
1 TTAATTTGAACCAAGCTTAATATTATCATGTTTTAATT
*
85773631 TTAATTTAAACCAAGCTTAATATTATCATGTTTTAATT
1 TTAATTTGAACCAAGCTTAATATTATCATGTTTTAATT
85773669 TTAATATTGAA
1 TTAAT-TTGAA
85773680 ATACCGATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 41 0.91
39 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (38 bp):
TTAATTTGAACCAAGCTTAATATTATCATGTTTTAATT
Found at i:85773898 original size:15 final size:14
Alignment explanation
Indices: 85773871--85773900 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
85773861 TAGTGTTTTA
85773871 AATATTTTATTAAT
1 AATATTTTATTAAT
85773885 AATATTTATATTAAT
1 AATATTT-TATTAAT
85773900 A
1 A
85773901 TTTTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATTTTATTAAT
Found at i:85773906 original size:23 final size:22
Alignment explanation
Indices: 85773880--85773923 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
85773870 AAATATTTTA
*
85773880 TTAATAATATTTATATTAATATT
1 TTAATAATATTT-TAATAATATT
85773903 TTAATAATATTTTAATAATAT
1 TTAATAATATTTTAATAATAT
85773924 AAATATAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAATAATATTTTAATAATATT
Found at i:85773912 original size:11 final size:11
Alignment explanation
Indices: 85773880--85773923 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
85773870 AAATATTTTA
85773880 TTAATAATATT
1 TTAATAATATT
*
85773891 TATATTAATATT
1 T-TAATAATATT
85773903 TTAATAATATT
1 TTAATAATATT
85773914 TTAATAATAT
1 TTAATAATAT
85773924 AAATATAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAATAATATT
Found at i:85784061 original size:16 final size:14
Alignment explanation
Indices: 85784027--85784070 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
85784017 ATATGTGAAG
85784027 AATATTA-TTTTAA
1 AATATTATTTTTAA
85784040 AATATTATTTTTAA
1 AATATTATTTTTAA
*
85784054 AAT-TTATTATTAA
1 AATATTATTTTTAA
85784067 AATA
1 AATA
85784071 AAATTGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:85798206 original size:18 final size:18
Alignment explanation
Indices: 85798183--85798217 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
85798173 GCCACATTCC
85798183 TTTGTTCTCAAAGTCTCA
1 TTTGTTCTCAAAGTCTCA
85798201 TTTGTTCTCAAAGTCTC
1 TTTGTTCTCAAAGTCTC
85798218 CTTCAAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTGTTCTCAAAGTCTCA
Found at i:85800102 original size:34 final size:34
Alignment explanation
Indices: 85800044--85800139 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 34
85800034 GTTCCAATTA
* * *
85800044 GGGCCTTAGCCCCTTTTCATTAACAGTATTAGTCT
1 GGGCCTTAG-CCCATTTCAGTAACAGTATCAGTCT
* *
85800079 GGGCCTAAGCCCATTTCAGTAACAG-AGGCAGTCT
1 GGGCCTTAGCCCATTTCAGTAACAGTA-TCAGTCT
85800113 GGGCCTTAGCCCATTTCAGT-ACAGTAT
1 GGGCCTTAGCCCATTTCAGTAACAGTAT
85800140 GCAAACAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
33 5 0.10
34 39 0.75
35 8 0.15
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTCAGTAACAGTATCAGTCT
Found at i:85800859 original size:24 final size:24
Alignment explanation
Indices: 85800809--85800859 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
85800799 ACAACCCACA
* * *
85800809 TTTCGGCTTTTCACCTTTTTGGCT
1 TTTCGACTTTTCACCTTTGTCGCT
85800833 TTTCGACTTTTCAGCCTTTGTCG-T
1 TTTCGACTTTTCA-CCTTTGTCGCT
85800857 TTT
1 TTT
85800860 ACATCTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.06, C:0.24, G:0.16, T:0.55
Consensus pattern (24 bp):
TTTCGACTTTTCACCTTTGTCGCT
Found at i:85810278 original size:20 final size:21
Alignment explanation
Indices: 85810253--85810301 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
85810243 AGATAATGAG
85810253 ATTAAAAACTATAA-AAAATA
1 ATTAAAAACTATAATAAAATA
*
85810273 ATTAAAAAGTATAATAAAATA
1 ATTAAAAACTATAATAAAATA
85810294 ATATAAAA
1 AT-TAAAA
85810302 GATATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 13 0.50
21 8 0.31
22 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
ATTAAAAACTATAATAAAATA
Found at i:85810321 original size:22 final size:22
Alignment explanation
Indices: 85810296--85810353 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
85810286 ATAAAATAAT
*
85810296 ATAAAAGATATAAATTCAA-AAA
1 ATAAAA-ATATAAATTAAAGAAA
*
85810318 ATAAAAAAAATAAA-TAAAGAAA
1 AT-AAAAATATAAATTAAAGAAA
*
85810340 ATAAAAATAAAAAT
1 ATAAAAATATAAAT
85810354 ATATAAATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 12 0.41
22 13 0.45
23 4 0.14
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (22 bp):
ATAAAAATATAAATTAAAGAAA
Found at i:85810332 original size:13 final size:13
Alignment explanation
Indices: 85810316--85810360 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
85810306 TAAATTCAAA
85810316 AAATAAAAAAAAT
1 AAATAAAAAAAAT
*
85810329 AAATAAAGAAAAT
1 AAATAAAAAAAAT
*
85810342 AAA-AATAAAAAT
1 AAATAAAAAAAAT
*
85810354 ATATAAA
1 AAATAAA
85810361 TCCAGAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (13 bp):
AAATAAAAAAAAT
Found at i:85810359 original size:29 final size:28
Alignment explanation
Indices: 85810314--85810385 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
85810304 TATAAATTCA
85810314 AAAAATAAAAAAAATAAATAAAGAAAAT
1 AAAAATAAAAAAAATAAATAAAGAAAAT
* **
85810342 AAAAATAAAAATATATAAATCCAGAAAAT
1 AAAAATAAAAA-AAATAAATAAAGAAAAT
85810371 AAAAATAGAAAAAAA
1 AAAAATA-AAAAAAA
85810386 AGGGTTTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 11 0.29
29 23 0.61
30 4 0.11
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (28 bp):
AAAAATAAAAAAAATAAATAAAGAAAAT
Found at i:85810380 original size:13 final size:13
Alignment explanation
Indices: 85810324--85810386 Score: 60
Period size: 13 Copynumber: 4.7 Consensus size: 13
85810314 AAAAATAAAA
85810324 AAAATAAATAA-AG
1 AAAATAAA-AATAG
85810337 AAAATAAAAATA-
1 AAAATAAAAATAG
85810349 AAAATATATAAATCCAG
1 AAAATA-A-AAAT--AG
85810366 AAAATAAAAATAG
1 AAAATAAAAATAG
85810379 AAAA-AAAA
1 AAAATAAAA
85810387 GGGTTTCGGG
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
12 12 0.27
13 16 0.36
14 4 0.09
15 4 0.09
16 2 0.05
17 6 0.14
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAATAAAAATAG
Done.