Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 60 of 144
Found at i:12573644 original size:18 final size:19
Alignment explanation
Indices: 12573608--12573651 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
12573598 AACATAATTT
12573608 AAAATGAAAATTTTAAAAA
1 AAAATGAAAATTTTAAAAA
*
12573627 AAAATGAATATTTTAAAAA
1 AAAATGAAAATTTTAAAAA
*
12573646 TAAATG
1 AAAATG
12573652 CTTTAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATGAAAATTTTAAAAA
Found at i:12578659 original size:2 final size:2
Alignment explanation
Indices: 12578652--12578689 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
12578642 CATTAATAAC
12578652 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12578690 GTTAATATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12590120 original size:15 final size:15
Alignment explanation
Indices: 12590100--12590153 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
12590090 ATACTACAAA
12590100 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
12590115 ATATTTATAATTCTAAT
1 ATATTTATTA-T-TAAT
*
12590132 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
12590149 ATATT
1 ATATT
12590154 ACTATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:12590217 original size:16 final size:16
Alignment explanation
Indices: 12590186--12590222 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12590176 ATGTGAAAAA
12590186 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
12590202 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
12590218 TATTA
1 TATTA
12590223 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:12598371 original size:18 final size:19
Alignment explanation
Indices: 12598348--12598383 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12598338 ATATTTTTTT
12598348 TATTTTT-TATTTTTCTCG
1 TATTTTTCTATTTTTCTCG
*
12598366 TATTTTTCTTTTTTTCTC
1 TATTTTTCTATTTTTCTC
12598384 AACTTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.75
Consensus pattern (19 bp):
TATTTTTCTATTTTTCTCG
Found at i:12606211 original size:16 final size:15
Alignment explanation
Indices: 12606186--12606219 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
12606176 TTCCATTTCA
*
12606186 TTTTTCTCTTCTTCT
1 TTTTTCTCTTCTCCT
12606201 TTTTTCATCTTCTCCT
1 TTTTTC-TCTTCTCCT
12606217 TTT
1 TTT
12606220 CTTCGTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCTCTTCTCCT
Found at i:12609561 original size:15 final size:15
Alignment explanation
Indices: 12609509--12609589 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 15
12609499 ATCACTAAAT
* *
12609509 TGTTTATATACAAAC
1 TGTTTATATGCGAAC
*
12609524 TG-TTATATGTGAAC
1 TGTTTATATGCGAAC
* * *
12609538 TGCTAATATGCGAAT
1 TGTTTATATGCGAAC
12609553 TGTTTATATGCGAAC
1 TGTTTATATGCGAAC
*
12609568 TAATTGTATAT--GAAC
1 T-GTT-TATATGCGAAC
12609583 TGTTTAT
1 TGTTTAT
12609590 GTCTGAGCTA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
13 3 0.06
14 13 0.25
15 29 0.56
16 2 0.04
17 5 0.10
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (15 bp):
TGTTTATATGCGAAC
Found at i:12622776 original size:3 final size:3
Alignment explanation
Indices: 12622768--12622811 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
12622758 ATGGAGAAAG
12622768 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
12622812 GTGGTGGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:12629128 original size:30 final size:32
Alignment explanation
Indices: 12629057--12629138 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 32
12629047 ATATCAAAAC
* *
12629057 TATAAATAAATTTTGATTTAGTAATATTTATG
1 TATATATAAATTTTGATTTAGTAATAATTATG
* *
12629089 TACATATAAATTTTGATTT-TTATATAATT-T-
1 TATATATAAATTTTGATTTAGTA-ATAATTATG
*
12629119 TATATATAAAAGTTTGATTT
1 TATATAT-AAATTTTGATTT
12629139 GATTTTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
30 6 0.14
31 14 0.33
32 22 0.52
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.52
Consensus pattern (32 bp):
TATATATAAATTTTGATTTAGTAATAATTATG
Found at i:12633011 original size:19 final size:18
Alignment explanation
Indices: 12632989--12633026 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
12632979 AGTCACTCAC
12632989 TGTAATCAAATTTATCTAT
1 TGTAATCAAATTTAT-TAT
12633008 TGTAATCAAATTTATTAT
1 TGTAATCAAATTTATTAT
12633026 T
1 T
12633027 AACTTTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (18 bp):
TGTAATCAAATTTATTAT
Found at i:12633332 original size:2 final size:2
Alignment explanation
Indices: 12633325--12633372 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
12633315 TAATTTAATA
* *
12633325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12633367 AT AT AT
1 AT AT AT
12633373 TTAGTATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12633665 original size:23 final size:23
Alignment explanation
Indices: 12633634--12633686 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
12633624 CGAACTCGAA
* *
12633634 ATTCAAAAAAGAAATTTGAGTTT
1 ATTCGAAAAAGAAATTCGAGTTT
12633657 ATTCGAAAAAGAAATTCGAGTTT
1 ATTCGAAAAAGAAATTCGAGTTT
*
12633680 ACTCGAA
1 ATTCGAA
12633687 TAACTCGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (23 bp):
ATTCGAAAAAGAAATTCGAGTTT
Found at i:12634753 original size:66 final size:66
Alignment explanation
Indices: 12634647--12634794 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
12634637 CTCGCTGCTG
* *
12634647 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTATGCTTCTCTCAATGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTATGCTTCTCTCAATGCA
12634712 A
66 A
* * * **
12634713 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTATGCTTCTCTCAATGC
*
12634777 AG
65 AA
12634779 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
12634795 AGCAATTTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.01
66 71 0.99
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTATGCTTCTCTCAATGCA
A
Found at i:12635726 original size:18 final size:18
Alignment explanation
Indices: 12635703--12636191 Score: 310
Period size: 18 Copynumber: 30.1 Consensus size: 18
12635693 TATAATTAAA
12635703 TATTTAATTTAATATAAT
1 TATTTAATTTAATATAAT
*
12635721 TATTTACTTTAATATAAT
1 TATTTAATTTAATATAAT
*
12635739 TA---AA--TAAT-TAAA
1 TATTTAATTTAATATAAT
12635751 TATTTAATTTAATATAAT
1 TATTTAATTTAATATAAT
*
12635769 TATTTACTTTAATAT-A-
1 TATTTAATTTAATATAAT
* *
12635785 -ATTT-A-GTAAT-TAAA
1 TATTTAATTTAATATAAT
*
12635799 TATTTAATTTCATATAAT
1 TATTTAATTTAATATAAT
*
12635817 TATTTAGTTTAATATAAT
1 TATTTAATTTAATATAAT
** *
12635835 TAAATAA-TT-ATAT--C
1 TATTTAATTTAATATAAT
*
12635849 T-TTTAAATTAATATAAT
1 TATTTAATTTAATATAAT
*
12635866 TATTTACTTTAATATAAT
1 TATTTAATTTAATATAAT
** *
12635884 TAAATAA-TTAA-AT--C
1 TATTTAATTTAATATAAT
*
12635898 T-TTTAACTTAATATAAT
1 TATTTAATTTAATATAAT
*
12635915 TATTTACTTTAATATAAT
1 TATTTAATTTAATATAAT
*
12635933 TA---AA--TAAT-TAAA
1 TATTTAATTTAATATAAT
12635945 TATTTAATTTAATATAAT
1 TATTTAATTTAATATAAT
*
12635963 TATTTACTTTAATATAAT
1 TATTTAATTTAATATAAT
*
12635981 TA---AA--TAAT-TAAA
1 TATTTAATTTAATATAAT
* *
12635993 TCTTTAACTTAATATAAT
1 TATTTAATTTAATATAAT
* *
12636011 TATTTACTTTAACATAAT
1 TATTTAATTTAATATAAT
**
12636029 TAAATAA-TTAA-AT--T
1 TATTTAATTTAATATAAT
*
12636043 T-TTTAACTTAATATAAT
1 TATTTAATTTAATATAAT
*
12636060 TATTTACTTTAATATAAT
1 TATTTAATTTAATATAAT
*
12636078 TA---AA--TAAT-TAAA
1 TATTTAATTTAATATAAT
12636090 TATTTAATTTAATATAAT
1 TATTTAATTTAATATAAT
*
12636108 TATTTACTTTAATATAAT
1 TATTTAATTTAATATAAT
*
12636126 TA---AA--TAAT-TAAA
1 TATTTAATTTAATATAAT
12636138 TATTTAATTTAATATAAT
1 TATTTAATTTAATATAAT
*
12636156 TATTTACTTTAATATAAT
1 TATTTAATTTAATATAAT
*
12636174 TA--TACTTTAATATAAT
1 TATTTAATTTAATATAAT
12636190 TA
1 TA
12636192 AATAATTAAA
Statistics
Matches: 363, Mismatches: 57, Indels: 104
0.69 0.11 0.20
Matches are distributed among these distances:
12 25 0.07
13 34 0.09
14 14 0.04
15 31 0.09
16 25 0.07
17 38 0.10
18 196 0.54
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTAATTTAATATAAT
Found at i:12635755 original size:30 final size:31
Alignment explanation
Indices: 12635712--12636210 Score: 226
Period size: 30 Copynumber: 15.6 Consensus size: 31
12635702 ATATTTAATT
* *
12635712 TAATATAATTATTTACTTTAATATAATTAAA
1 TAATATAAATATTTAATTTAATATAATTAAA
**
12635743 TAAT-TAAATATTTAATTTAATATAATTATT
1 TAATATAAATATTTAATTTAATATAATTAAA
* * * * *
12635773 TACTTTAATATAATTTAGTAATTAA-ATATTTAATT
1 TAATATAA-AT-ATTTA--ATTTAATATAATTAA-A
* * *
12635808 TCATATAATTATTTAGTTTAATATAATTAAA
1 TAATATAAATATTTAATTTAATATAATTAAA
* * * **
12635839 TAAT-TATATCTTTTAAATTAATATAATTATT
1 TAATATAAAT-ATTTAATTTAATATAATTAAA
* * * ** *
12635870 TACTTTAATATAATTAAATAATTAA-ATCTTTTAACT
1 TAATATAA-AT-ATTTAAT--TTAATAT-AATTAA-A
* *
12635906 TAATATAATTATTTACTTTAATATAATTAAA
1 TAATATAAATATTTAATTTAATATAATTAAA
**
12635937 TAAT-TAAATATTTAATTTAATATAATTATT
1 TAATATAAATATTTAATTTAATATAATTAAA
* * * ** *
12635967 TACTTTAATATAATTAAATAATTAA-ATCTTTAACT
1 TAATATAA-AT-ATTTAAT--TTAATATAATTAA-A
* * *
12636002 TAATATAATTATTTACTTTAACATAATTAAA
1 TAATATAAATATTTAATTTAATATAATTAAA
* * **
12636033 TAAT-TAAATTTTTTAACTTAATATAATTATT
1 TAATATAAA-TATTTAATTTAATATAATTAAA
* * * * *
12636064 TACTTTAATATAATTAAATAATTAA-ATATTTAATT
1 TAATATAA-AT-ATTTAAT--TTAATATAATTAA-A
* *
12636099 TAATATAATTATTTACTTTAATATAATTAAA
1 TAATATAAATATTTAATTTAATATAATTAAA
**
12636130 TAAT-TAAATATTTAATTTAATATAATTATT
1 TAATATAAATATTTAATTTAATATAATTAAA
* * *
12636160 TACTTTAATATAATTATACTTTAATATAATTAAA
1 TAATATAA-AT-ATT-TAATTTAATATAATTAAA
12636194 TAAT-TAAATATTTAATT
1 TAATATAAATATTTAATT
12636211 ATGTTAAGGA
Statistics
Matches: 346, Mismatches: 88, Indels: 69
0.69 0.17 0.14
Matches are distributed among these distances:
30 85 0.25
31 81 0.23
32 42 0.12
33 45 0.13
34 45 0.13
35 41 0.12
36 7 0.02
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (31 bp):
TAATATAAATATTTAATTTAATATAATTAAA
Found at i:12635761 original size:48 final size:48
Alignment explanation
Indices: 12635694--12636175 Score: 811
Period size: 48 Copynumber: 10.0 Consensus size: 48
12635684 TTCTTAAAAT
12635694 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
*
12635742 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTTA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
* * *
12635790 GTAATTAAATATTTAATTTCATATAATTATTTAGTTTAATATAATTAA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
* * *
12635838 ATAATTATATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAA
1 ATAATTAAAT-ATTTAATTTAATATAATTATTTACTTTAATATAATTAA
* *
12635887 ATAATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAA
1 ATAATTAAAT-ATTTAATTTAATATAATTATTTACTTTAATATAATTAA
12635936 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
* * *
12635984 ATAATTAAATCTTTAACTTAATATAATTATTTACTTTAACATAATTAA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
* *
12636032 ATAATTAAATTTTTTAACTTAATATAATTATTTACTTTAATATAATTAA
1 ATAATTAAA-TATTTAATTTAATATAATTATTTACTTTAATATAATTAA
12636081 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
12636129 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTA
12636176 TACTTTAATA
Statistics
Matches: 410, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
48 273 0.67
49 137 0.33
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (48 bp):
ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAA
Found at i:12635843 original size:8 final size:9
Alignment explanation
Indices: 12635691--12636209 Score: 135
Period size: 8 Copynumber: 57.3 Consensus size: 9
12635681 TTTTTCTTAA
12635691 AATATAATT
1 AATATAATT
12635700 AAATATTTAATTT
1 -AATA--TAA-TT
12635713 AATATAATT
1 AATATAATT
* *
12635722 -ATTTACTTT
1 AATATA-ATT
12635731 AATATAATT
1 AATATAATT
12635740 AA-ATAATT
1 AATATAATT
12635748 AAATATTTAATTT
1 -AATA--TAA-TT
12635761 AATATAATT
1 AATATAATT
* *
12635770 -ATTTACTTT
1 AATATA-ATT
12635779 AATATAATT
1 AATATAATT
12635788 --TAGTAATT
1 AATA-TAATT
12635796 AAATATTTAATTT
1 -AATA--TAA-TT
*
12635809 CATATAATT
1 AATATAATT
* *
12635818 -ATTTAGTTT
1 AATATA-ATT
12635827 AATATAATT
1 AATATAATT
12635836 AA-ATAATT
1 AATATAATT
*
12635844 -ATAT-CTT
1 AATATAATT
*
12635851 -TTA-AATT
1 AATATAATT
12635858 AATATAATT
1 AATATAATT
* *
12635867 -ATTTACTTT
1 AATATA-ATT
12635876 AATATAATT
1 AATATAATT
12635885 AA-ATAATT
1 AATATAATT
*
12635893 AA-AT-CTT
1 AATATAATT
12635900 --T-TAACTT
1 AATATAA-TT
12635907 AATATAATT
1 AATATAATT
* *
12635916 -ATTTACTTT
1 AATATA-ATT
12635925 AATATAATT
1 AATATAATT
12635934 AA-ATAATT
1 AATATAATT
12635942 AAATATTTAATTT
1 -AATA--TAA-TT
12635955 AATATAATT
1 AATATAATT
* *
12635964 -ATTTACTTT
1 AATATA-ATT
12635973 AATATAATT
1 AATATAATT
12635982 AA-ATAATT
1 AATATAATT
*
12635990 AAATCTTTAACTT
1 -AA--TATAA-TT
12636003 AATATAATT
1 AATATAATT
* *
12636012 -ATTTACTTT
1 AATATA-ATT
*
12636021 AACATAATT
1 AATATAATT
12636030 AA-ATAATT
1 AATATAATT
12636038 AA-AT--TT
1 AATATAATT
*
12636044 --TTTAACTT
1 AATATAA-TT
12636052 AATATAATT
1 AATATAATT
* *
12636061 -ATTTACTTT
1 AATATA-ATT
12636070 AATATAATT
1 AATATAATT
12636079 AA-ATAATT
1 AATATAATT
12636087 AAATATTTAATTT
1 -AATA--TAA-TT
12636100 AATATAATT
1 AATATAATT
* *
12636109 -ATTTACTTT
1 AATATA-ATT
12636118 AATATAATT
1 AATATAATT
12636127 AA-ATAATT
1 AATATAATT
12636135 AAATATTTAATTT
1 -AATA--TAA-TT
12636148 AATATAATT
1 AATATAATT
* *
12636157 -ATTTACTTT
1 AATATA-ATT
12636166 AATATAATT
1 AATATAATT
12636175 -ATACT--TT
1 AATA-TAATT
12636182 AATATAATT
1 AATATAATT
12636191 AA-ATAATT
1 AATATAATT
*
12636199 AA-ATATTT
1 AATATAATT
12636207 AAT
1 AAT
12636210 TATGTTAAGG
Statistics
Matches: 380, Mismatches: 54, Indels: 151
0.65 0.09 0.26
Matches are distributed among these distances:
5 2 0.01
6 2 0.01
7 16 0.04
8 128 0.34
9 94 0.25
10 76 0.20
11 2 0.01
12 46 0.12
13 14 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
AATATAATT
Found at i:12636015 original size:145 final size:144
Alignment explanation
Indices: 12635694--12636175 Score: 829
Period size: 145 Copynumber: 3.3 Consensus size: 144
12635684 TTCTTAAAAT
* *
12635694 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATTTTTAAC
* * * *
12635759 TTAATATAATTATTTACTTTAATATAATTTAGTAATTAAATATTTAATTTCATATAATTATTTAG
66 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
12635824 TTTAATATAATTAA
131 TTTAATATAATTAA
* * *
12635838 ATAATTATATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTA
1 ATAATTAAAT-ATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT-TTTTA
12635903 ACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTT
64 ACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTT
12635968 ACTTTAATATAATTAA
129 ACTTTAATATAATTAA
* * *
12635984 ATAATTAAATCTTTAACTTAATATAATTATTTACTTTAACATAATTAAATAATTAAATTTTTTAA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAA-TTTTTAA
12636049 CTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTA
65 CTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTA
12636114 CTTTAATATAATTAA
130 CTTTAATATAATTAA
12636129 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTA
1 ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTA
12636176 TACTTTAATA
Statistics
Matches: 319, Mismatches: 16, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
144 9 0.03
145 220 0.69
146 90 0.28
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (144 bp):
ATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATTTTTAAC
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
TTTAATATAATTAA
Found at i:12637785 original size:44 final size:43
Alignment explanation
Indices: 12637722--12637849 Score: 184
Period size: 44 Copynumber: 2.9 Consensus size: 43
12637712 GATCGGCTCA
*
12637722 AGAAGCGGGTTCTGGGGGTGAAGAGCGAACGGAGTGAGGGGAAG
1 AGAAGCGGGTTTTGGGGGTGAAGAG-GAACGGAGTGAGGGGAAG
* *
12637766 AGAAGCGGGTTTTGGGGGTGAAGAGGGAACGGGGTGAGGGGAAT
1 AGAAGCGGGTTTTGGGGGTGAAGA-GGAACGGAGTGAGGGGAAG
**
12637810 AGAAGCGGGTTTTGCAGGTGAAGAGGCAACGGAGTGAGGG
1 AGAAGCGGGTTTTGGGGGTGAAGAGG-AACGGAGTGAGGG
12637850 AAACAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.03
44 73 0.96
45 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.52, T:0.14
Consensus pattern (43 bp):
AGAAGCGGGTTTTGGGGGTGAAGAGGAACGGAGTGAGGGGAAG
Found at i:12637788 original size:23 final size:22
Alignment explanation
Indices: 12637722--12637790 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
12637712 GATCGGCTCA
12637722 AGAAGCGGGTTCTGGGGGTGAAG
1 AGAAGCGGGTT-TGGGGGTGAAG
*
12637745 AGCGAA-CGGAG--TGAGGG-GAAG
1 A--GAAGCGG-GTTTGGGGGTGAAG
12637766 AGAAGCGGGTTTTGGGGGTGAAG
1 AGAAGCGGG-TTTGGGGGTGAAG
12637789 AG
1 AG
12637791 GGAACGGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
19 4 0.11
20 3 0.08
21 5 0.14
22 10 0.28
23 7 0.19
24 3 0.08
25 4 0.11
ACGTcount: A:0.26, C:0.07, G:0.52, T:0.14
Consensus pattern (22 bp):
AGAAGCGGGTTTGGGGGTGAAG
Found at i:12637864 original size:44 final size:44
Alignment explanation
Indices: 12637722--12637866 Score: 166
Period size: 44 Copynumber: 3.3 Consensus size: 44
12637712 GATCGGCTCA
* ** *
12637722 AGAAGCGGGTTCTGGGGGTGAAGA-GCGAACGGAGTGAGGGGAAG
1 AGAAGCGGGTTTTGCAGGTGAAGAGGC-AACGGAGTGAGGGGAAC
** * * *
12637766 AGAAGCGGGTTTTGGGGGTGAAGAGGGAACGGGGTGAGGGGAAT
1 AGAAGCGGGTTTTGCAGGTGAAGAGGCAACGGAGTGAGGGGAAC
*
12637810 AGAAGCGGGTTTTGCAGGTGAAGAGGCAACGGAGTGAGGGAAAC
1 AGAAGCGGGTTTTGCAGGTGAAGAGGCAACGGAGTGAGGGGAAC
* *
12637854 AAAAGAGGGTTTT
1 AGAAGCGGGTTTT
12637867 ACGATTTGGG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 87 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.48, T:0.15
Consensus pattern (44 bp):
AGAAGCGGGTTTTGCAGGTGAAGAGGCAACGGAGTGAGGGGAAC
Found at i:12637886 original size:25 final size:25
Alignment explanation
Indices: 12637856--12637932 Score: 109
Period size: 25 Copynumber: 3.0 Consensus size: 25
12637846 AGGGAAACAA
*
12637856 AAGAGGGTTTTACGATTTGGGGGTG
1 AAGAGGGTTTTGCGATTTGGGGGTG
*
12637881 AAGAGGGGTATTGCGATTTGGGGGTG
1 AAGA-GGGTTTTGCGATTTGGGGGTG
* *
12637907 AAGAGGGTTCTGTGATTTGGGGGTG
1 AAGAGGGTTTTGCGATTTGGGGGTG
12637932 A
1 A
12637933 TGCATGCAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 23 0.50
26 23 0.50
ACGTcount: A:0.19, C:0.04, G:0.47, T:0.30
Consensus pattern (25 bp):
AAGAGGGTTTTGCGATTTGGGGGTG
Found at i:12638179 original size:41 final size:41
Alignment explanation
Indices: 12638043--12638396 Score: 242
Period size: 41 Copynumber: 8.4 Consensus size: 41
12638033 GCTTATAGAA
* **
12638043 AAGCGCCGCTAATG-CAC-ACCTTTAGCGGCGCTTAT-TAGAA
1 AAGCGCCGCTAATGAC-CGACCTTTAGCGGCGCTT-TGTGGGT
* * * ***
12638083 AAGCGCCGCTAATAACCTGACCTTTACCGGCGCTTTCTATAT
1 AAGCGCCGCTAATGACC-GACCTTTAGCGGCGCTTTGTGGGT
*
12638125 AAGCGTCGCTAATGACACGACCTTTAGCGGCG-TTTGTGGGT
1 AAGCGCCGCTAATGAC-CGACCTTTAGCGGCGCTTTGTGGGT
* *
12638166 AAGCGCCGCTAATGACTCCACTTTTAGCGGCGCTTT-T-GGT
1 AAGCGCCGCTAATGAC-CGACCTTTAGCGGCGCTTTGTGGGT
* *
12638206 GAAACGCCGCTAATGACCAGACCATTAGCGGCGCTTCTGGATAAGCGCCGTT
1 -AAGCGCCGCTAATGACC-GACCTTTAGCGGCGCTT-T-G-T--G-G--G-T
** * * **
12638258 ATCCAGCCGCTAATGACCCGACTTTTAGTGGCGC-TTGTGTCT
1 AAGC-GCCGCTAATGA-CCGACCTTTAGCGGCGCTTTGTGGGT
* *
12638300 AAGCGCCGCTAATGAGTCGACCTTTAGCGGTGC-TTGTGGGT
1 AAGCGCCGCTAATGA-CCGACCTTTAGCGGCGCTTTGTGGGT
*
12638341 AAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTTGT--GT
1 -AAGCGCCGCTAATGA-CCGACCTTTAGCGGCGCTTTGTGGGT
12638382 AAGCGCCGCTAATGA
1 AAGCGCCGCTAATGA
12638397 TTTACCTTTT
Statistics
Matches: 251, Mismatches: 40, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
40 32 0.13
41 97 0.39
42 81 0.32
43 5 0.02
45 1 0.00
46 1 0.00
48 1 0.00
49 2 0.01
50 1 0.00
51 4 0.02
52 24 0.10
53 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (41 bp):
AAGCGCCGCTAATGACCGACCTTTAGCGGCGCTTTGTGGGT
Found at i:12638197 original size:83 final size:84
Alignment explanation
Indices: 12638025--12638396 Score: 282
Period size: 83 Copynumber: 4.4 Consensus size: 84
12638015 TTTAAATATA
* * * * **
12638025 TTAGCGGCGCTTATAGAAAAGCGCCGCTAATG-CAC-ACCTTTAGCGGCGCTTAT-TAGAAAAGC
1 TTAGCGGCGCTTTTATATAAGCGCCGCTAATGACACGACCTTTAGCGGCGCTTATGTGGGTAAGC
* *
12638087 GCCGCTAATAACCTGACCT
66 GCCGCTAATGACCCGACCT
* *
12638106 TTACCGGCGCTTTCTATATAAGCGTCGCTAATGACACGACCTTTAGCGGCG-TT-TGTGGGTAAG
1 TTAGCGGCGCTTT-TATATAAGCGCCGCTAATGACACGACCTTTAGCGGCGCTTATGTGGGTAAG
*
12638169 CGCCGCTAATGACTCC-ACTT
65 CGCCGCTAATGAC-CCGACCT
* * *
12638189 TTAGCGGCGCTTTTGGTGA-AA-CGCCGCTAATGAC-CAGACCATTAGCGGCGCTTCTGGATAAG
1 TTAGCGGCGCTTTT-AT-ATAAGCGCCGCTAATGACAC-GACCTTTAGCGGCGCTTAT-G-T--G
** *
12638251 CGCCGTTATCCAGCCGCTAATGACCCGACTT
59 -G--G-TAAGC-GCCGCTAATGACCCGACCT
* * * * ** *
12638282 TTAGTGGCGCTTGTGTCTAAGCGCCGCTAATGAGTCGACCTTTAGCGGTGC-T-TGTGGGTAAAG
1 TTAGCGGCGCTTTTATATAAGCGCCGCTAATGACACGACCTTTAGCGGCGCTTATGTGGGT-AAG
*
12638345 CGCCGCTAAAGACCCGACCT
65 CGCCGCTAATGACCCGACCT
* *
12638365 TTAGCGGCGC-TTTGTGTAAGCGCCGCTAATGA
1 TTAGCGGCGCTTTTATATAAGCGCCGCTAATGA
12638397 TTTACCTTTT
Statistics
Matches: 237, Mismatches: 30, Indels: 47
0.75 0.10 0.15
Matches are distributed among these distances:
81 12 0.05
82 63 0.27
83 69 0.29
84 19 0.08
85 1 0.00
86 2 0.01
87 1 0.00
88 1 0.00
89 2 0.01
90 1 0.00
91 2 0.01
92 10 0.04
93 53 0.22
94 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (84 bp):
TTAGCGGCGCTTTTATATAAGCGCCGCTAATGACACGACCTTTAGCGGCGCTTATGTGGGTAAGC
GCCGCTAATGACCCGACCT
Found at i:12638329 original size:93 final size:94
Alignment explanation
Indices: 12638170--12638349 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 94
12638160 GTGGGTAAGC
*
12638170 GCCGCTAATGACTCCACTTTTAGCGGCGCTTTTGGTGAAACGCCGCTAATGACCAGACCATTAGC
1 GCCGCTAATGACTCCACTTTTAGCGGCGCTTGTGGTGAAACGCCGCTAATGACCAGACCATTAGC
12638235 GGCGCTTCTGGAT-AAGCGCCGTTATCCA
66 GGCGCTTCTGGATAAAGCGCCGTTATCCA
* * * * *
12638263 GCCGCTAATGAC-CCGACTTTTAGTGGCGCTTGT-GTCTAAGCGCCGCTAATGAGTC-GACCTTT
1 GCCGCTAATGACTCC-ACTTTTAGCGGCGCTTGTGGT-GAAACGCCGCTAATGA-CCAGACCATT
* * *
12638325 AGCGGTGCTTGTGGGTAAAGCGCCG
63 AGCGGCGCTTCTGGATAAAGCGCCG
12638350 CTAAAGACCC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
92 4 0.05
93 61 0.82
94 9 0.12
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (94 bp):
GCCGCTAATGACTCCACTTTTAGCGGCGCTTGTGGTGAAACGCCGCTAATGACCAGACCATTAGC
GGCGCTTCTGGATAAAGCGCCGTTATCCA
Found at i:12638385 original size:134 final size:134
Alignment explanation
Indices: 12638131--12638389 Score: 344
Period size: 134 Copynumber: 1.9 Consensus size: 134
12638121 ATATAAGCGT
* * *
12638131 CGCTAATGACACGACCTTTAGCGGCGTTTGTGGGTAAGCGCCGCTAATGACTCCACTTTTAGCGG
1 CGCTAATGACACGACCTTTAGCGGCGCTTGTGGCTAAGCGCCGCTAATGACTCCACCTTTAGCGG
* *
12638196 CGCTTTTGGTGAAACGCCGCTAATGACCAGACCATTAGCGGCGCTTCTGGATAAGCGCCGTTATC
66 CGCTTTGGGTGAAACGCCGCTAAAGACCAGACCATTAGCGGCGCTTCTGGATAAGCGCCGTTATC
12638261 CAGC
131 CAGC
* * * * * *
12638265 CGCTAATGACCCGACTTTTAGTGGCGCTTGTGTCTAAGCGCCGCTAATGAGTCGACCTTTAGCGG
1 CGCTAATGACACGACCTTTAGCGGCGCTTGTGGCTAAGCGCCGCTAATGACTCCACCTTTAGCGG
* * *
12638330 TGCTTGTGGGT-AAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTT-TGTG-TAAGCGCCG
66 CGCTT-TGGGTGAAA-CGCCGCTAAAGACCAGACCATTAGCGGCGCTTCTG-GATAAGCGCCG
12638390 CTAATGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
134 74 0.69
135 34 0.31
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (134 bp):
CGCTAATGACACGACCTTTAGCGGCGCTTGTGGCTAAGCGCCGCTAATGACTCCACCTTTAGCGG
CGCTTTGGGTGAAACGCCGCTAAAGACCAGACCATTAGCGGCGCTTCTGGATAAGCGCCGTTATC
CAGC
Found at i:12642188 original size:124 final size:122
Alignment explanation
Indices: 12641855--12642220 Score: 597
Period size: 123 Copynumber: 3.0 Consensus size: 122
12641845 AATGATTTCG
*
12641855 TTAAATATTAAAACATTGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCC
1 TTAAATATTAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCC
* * *
12641920 ATATATTTCTTTAAAGGAATGTTTCCATTTTAATATGAGATATTAAATAAAAGGAAA
66 ATATATTTCTCTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAAGAAA
* *
12641977 TTAAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAATGATATATTATTTTAATAAACCTTC
1 TTAAATATT-AAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTC
* * **
12642042 CATATATTTCTCTAAGGGAATATTTCCATTTTAATAAGAGATATTTTATAAAAAGAAA
65 CATATATTTCTCTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAAGAAA
*
12642100 TTGAATATTGAAAACATGGAAGTTAATATCCTTTTTGGAAAGGATATAATATTTTAATAAACCTT
1 TTAAATATT-AAAACATGGAAGTTAATATCC-TTTTGGAAAGGATATAATATTTTAATAAACCTT
*
12642165 ACATATATTTCTCTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAAG
64 CCATATATTTCTCTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAAG
12642221 GAAAGATAAC
Statistics
Matches: 223, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
122 9 0.04
123 132 0.59
124 82 0.37
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (122 bp):
TTAAATATTAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCC
ATATATTTCTCTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAAGAAA
Found at i:12650298 original size:2 final size:2
Alignment explanation
Indices: 12650291--12650315 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12650281 TTGAACCTGC
12650291 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12650316 AAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12651058 original size:60 final size:60
Alignment explanation
Indices: 12650984--12651104 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
12650974 ATTTGATTTT
* * * * *
12650984 TGAAGTTGATATTTTTTCTTACTTTGATATCTT-AGCATTTTTTGGACCCAATTTGGTACC
1 TGAACTTGACATTTTTTCTTAATTTGATA-CTTAAGCATTTTTTAGACCCAATTTGATACC
* * **
12651044 TGAACTTGACATTTTTTCTTAATTTGCTACTTAAGCTTTTTTTAGATTCAATTTGATACC
1 TGAACTTGACATTTTTTCTTAATTTGATACTTAAGCATTTTTTAGACCCAATTTGATACC
12651104 T
1 T
12651105 AAATTTATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 3 0.06
60 48 0.94
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (60 bp):
TGAACTTGACATTTTTTCTTAATTTGATACTTAAGCATTTTTTAGACCCAATTTGATACC
Found at i:12651340 original size:30 final size:30
Alignment explanation
Indices: 12651306--12651381 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 30
12651296 GGACCCTAAA
* *
12651306 AAGTTTAACTACCAATTTAAAAAAAGTGTC
1 AAGTTTAAGTACCAATTAAAAAAAAGTGTC
*
12651336 AAGTTTAAGTATCAAATTAAAAAAAAGTGTC
1 AAGTTTAAGTA-CCAATTAAAAAAAAGTGTC
*
12651367 AAGTTTGAGTACCAA
1 AAGTTTAAGTACCAA
12651382 CTTGGACTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 13 0.32
31 27 0.68
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (30 bp):
AAGTTTAAGTACCAATTAAAAAAAAGTGTC
Found at i:12651387 original size:89 final size:89
Alignment explanation
Indices: 12651266--12651430 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 89
12651256 CCAAATTAGG
* * ** *
12651266 AAAAAAAAGGTGAAGTTCAAGTATCAAATTGGACCCTA-AAAAGTTTA-ACTACCAATTTAAAAA
1 AAAAAAAAGGTCAAGTTCAAGTACCAAATTGGACCAAAGAAAAATTTAGA-TACCAATTTAAAAA
*
12651329 AAGTGTCAAGTTTAAGTATCAAATT
65 AAATGTCAAGTTTAAGTATCAAATT
** * *
12651354 AAAAAAAAGTGTCAAGTTTGAGTACCAACTTGGACTAAAGAAAAATTTAGATACCAATTTAAAAA
1 AAAAAAAAG-GTCAAGTTCAAGTACCAAATTGGACCAAAGAAAAATTTAGATACCAATTTAAAAA
12651419 AAATGTCAAGTT
65 AAATGTCAAGTT
12651431 CAGATACCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
88 9 0.14
89 21 0.33
90 33 0.52
91 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (89 bp):
AAAAAAAAGGTCAAGTTCAAGTACCAAATTGGACCAAAGAAAAATTTAGATACCAATTTAAAAAA
AATGTCAAGTTTAAGTATCAAATT
Found at i:12656128 original size:29 final size:29
Alignment explanation
Indices: 12656086--12656147 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
12656076 TCGTGAAATA
* *
12656086 CACATGGTCTGGCACACACCTGTGTAGCT
1 CACATGGCCTGGCACACACCCGTGTAGCT
* *
12656115 CACATGGCCTGGCACACGCCCGTGTGGCT
1 CACATGGCCTGGCACACACCCGTGTAGCT
12656144 CACA
1 CACA
12656148 CGGTCATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.19
Consensus pattern (29 bp):
CACATGGCCTGGCACACACCCGTGTAGCT
Found at i:12658147 original size:17 final size:17
Alignment explanation
Indices: 12658127--12658161 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12658117 CATAGTATCT
12658127 GTAAGGAAAACTATAGG
1 GTAAGGAAAACTATAGG
12658144 GTAAGGAAAACTATAGG
1 GTAAGGAAAACTATAGG
12658161 G
1 G
12658162 GAATGAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.31, T:0.17
Consensus pattern (17 bp):
GTAAGGAAAACTATAGG
Found at i:12658513 original size:2 final size:2
Alignment explanation
Indices: 12658491--12658529 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
12658481 CAATCTCATG
12658491 AT AT A- AT AT A- AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12658530 TTTCTCAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:12659842 original size:26 final size:26
Alignment explanation
Indices: 12659806--12659859 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
12659796 CATATTCACA
*
12659806 CAGCGATAATTTTGAACAAGTTCCTG
1 CAGCGATAATTCTGAACAAGTTCCTG
*
12659832 CAGCGATAATTCTGAACAAGTTTCTG
1 CAGCGATAATTCTGAACAAGTTCCTG
12659858 CA
1 CA
12659860 ATGACAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (26 bp):
CAGCGATAATTCTGAACAAGTTCCTG
Found at i:12659868 original size:26 final size:26
Alignment explanation
Indices: 12659813--12659871 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
12659803 ACACAGCGAT
* * *
12659813 AATTTTGAACAAGTTCCTGCAGCGAT
1 AATTCTGAACAAGTTCCTGCAACGAC
* *
12659839 AATTCTGAACAAGTTTCTGCAATGAC
1 AATTCTGAACAAGTTCCTGCAACGAC
12659865 AATTCTG
1 AATTCTG
12659872 GGTGCAATGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (26 bp):
AATTCTGAACAAGTTCCTGCAACGAC
Found at i:12660953 original size:17 final size:17
Alignment explanation
Indices: 12660902--12660946 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
12660892 CATTAAATTA
*
12660902 CAATGACAAATGGAAATG
1 CAATGAC-AATGTAAATG
12660920 CAATGACAATGTAAATG
1 CAATGACAATGTAAATG
*
12660937 CAGTGACAAT
1 CAATGACAAT
12660947 TAGAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (17 bp):
CAATGACAATGTAAATG
Found at i:12680921 original size:23 final size:23
Alignment explanation
Indices: 12680894--12680939 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12680884 AAATAAGTAG
12680894 AGTTAGAAAATTGATAAGGATAT
1 AGTTAGAAAATTGATAAGGATAT
12680917 AGTTAGAAAATTGATAAGGATAT
1 AGTTAGAAAATTGATAAGGATAT
12680940 TATAAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (23 bp):
AGTTAGAAAATTGATAAGGATAT
Found at i:12685643 original size:160 final size:161
Alignment explanation
Indices: 12685374--12685698 Score: 562
Period size: 160 Copynumber: 2.0 Consensus size: 161
12685364 AAAACCTTAT
12685374 TCTAATCAATGTCAAATAAAAGAGTATAGTTCTATATGGATTTTACTTTTATTTTATTTTACCAT
1 TCTAATCAATGTCAAATAAAAGAGTATAGTTCTATATGGATTTTAC---T-TTTTATTTTACCAT
* * *
12685439 TATATTTTATTTTGGCATAATGCCAAAAATAGCCCCTAACGTTTGGTTGTTTGATCACTTTGGCC
62 TATATTTTATTTTGGCATAATACCAAAAATAGCCCCTAACGTTTGGCTGTTTGATCACTTTGACC
12685504 CTTTATGTTTTCTTGGAGCACTATAACACCTAATG
127 CTTTATGTTTTCTTGGAGCACTATAACACCTAATG
*
12685539 TCTAATCAATGTCAAATAAAAGAGTGTAGTTCTATATGGATTTTAC-TTTTATTTTACCATTATA
1 TCTAATCAATGTCAAATAAAAGAGTATAGTTCTATATGGATTTTACTTTTTATTTTACCATTATA
12685603 TTTTATTTTGGCATAATACCAAAAATAGCCCCTAACGTTTGGCTGTTTGATCACTTTGACCCTTT
66 TTTTATTTTGGCATAATACCAAAAATAGCCCCTAACGTTTGGCTGTTTGATCACTTTGACCCTTT
*
12685668 ATGTTTTCTTGGAGCACTTTAACACCTAATG
131 ATGTTTTCTTGGAGCACTATAACACCTAATG
12685699 CTTTTTTGGA
Statistics
Matches: 155, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
160 110 0.71
165 45 0.29
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (161 bp):
TCTAATCAATGTCAAATAAAAGAGTATAGTTCTATATGGATTTTACTTTTTATTTTACCATTATA
TTTTATTTTGGCATAATACCAAAAATAGCCCCTAACGTTTGGCTGTTTGATCACTTTGACCCTTT
ATGTTTTCTTGGAGCACTATAACACCTAATG
Found at i:12686768 original size:17 final size:18
Alignment explanation
Indices: 12686725--12686763 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12686715 AAGGTTTCAA
*
12686725 GCAAAAGTCTTTTGGGTT
1 GCAAAAGTTTTTTGGGTT
12686743 GCAAAAGTTTTTTGGGTT
1 GCAAAAGTTTTTTGGGTT
12686761 GCA
1 GCA
12686764 GAGTTCGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.38
Consensus pattern (18 bp):
GCAAAAGTTTTTTGGGTT
Found at i:12688206 original size:38 final size:39
Alignment explanation
Indices: 12688157--12688236 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
12688147 GTTAAAAATA
* *
12688157 TAATAATTTTATATTTTAAAAATATAA-TATAATATTTT
1 TAATAATTTTATATTTCAAAAATATAATTATAATAATTT
*
12688195 TAATAATTTTATATTTCAAAAATATAATTTTAATAATTT
1 TAATAATTTTATATTTCAAAAATATAATTATAATAATTT
12688234 TAA
1 TAA
12688237 AATCATATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 26 0.68
39 12 0.32
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (39 bp):
TAATAATTTTATATTTCAAAAATATAATTATAATAATTT
Found at i:12688221 original size:21 final size:20
Alignment explanation
Indices: 12688159--12688226 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
12688149 TAAAAATATA
12688159 ATAATTTTATATTTTAAAAAT
1 ATAATTTTATA-TTTAAAAAT
* * **
12688180 ATAATATAATATTT--TTA-
1 ATAATTTTATATTTAAAAAT
12688197 ATAATTTTATATTTCAAAAAT
1 ATAATTTTATATTT-AAAAAT
12688218 ATAATTTTA
1 ATAATTTTA
12688227 ATAATTTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
17 12 0.34
18 1 0.03
20 4 0.11
21 18 0.51
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATTTTATATTTAAAAAT
Found at i:12695192 original size:24 final size:22
Alignment explanation
Indices: 12695137--12695261 Score: 110
Period size: 23 Copynumber: 5.5 Consensus size: 22
12695127 GCTGGGGAAA
*
12695137 CAGTAAGCACACACAGTGCGAT
1 CAGTAAGCACACACAGTGCAAT
12695159 CAGTAAGCACACACAGTGCAAT
1 CAGTAAGCACACACAGTGCAAT
* * * *
12695181 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAAGCACACACAGTGC-AAT
* * *
12695204 CAGTAGGCACATGA-AGTGCGAAA
1 CAGTAAGCACA-CACAGTGC-AAT
*
12695227 CAGTAAGCACACAAAGTGCTAAT
1 CAGTAAGCACACACAGTGC-AAT
12695250 CAG-AGAGCACAC
1 CAGTA-AGCACAC
12695262 GAAGTGCTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
22 38 0.45
23 46 0.54
24 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.13
Consensus pattern (22 bp):
CAGTAAGCACACACAGTGCAAT
Found at i:12695260 original size:46 final size:46
Alignment explanation
Indices: 12695133--12695328 Score: 131
Period size: 46 Copynumber: 4.3 Consensus size: 46
12695123 AAGTGCTGGG
* * *
12695133 GAAACAGTAAGCACACACAGTGC-GATCAGTA-AGCACACACAGTGC
1 GAAACAGTAAGCACACAAAGTGCTAATCAGTAGAGCACAGA-AGTGC
* * * * * *
12695178 -AATCAGTAGGCGCACATAGCGCAAATCAGTAG-GCACATGAAGTGC
1 GAAACAGTAAGCACACAAAGTGCTAATCAGTAGAGCACA-GAAGTGC
12695223 GAAACAGTAAGCACACAAAGTGCTAATCAG-AGAGCACACGAAGTGC
1 GAAACAGTAAGCACACAAAGTGCTAATCAGTAGAGCACA-GAAGTGC
* * * *
12695269 TAATAACAG-AGAGCACGA-AACGTGCTAAACAG-AGAGCACACACAGTGC
1 -GA-AACAGTA-AGCAC-ACAAAGTGCTAATCAGTAGAGCACAGA-AGTGC
12695317 TG-AACAGTAAGC
1 -GAAACAGTAAGC
12695329 GCGCTAGCGT
Statistics
Matches: 121, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
44 17 0.14
45 19 0.16
46 44 0.36
47 4 0.03
48 36 0.30
49 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (46 bp):
GAAACAGTAAGCACACAAAGTGCTAATCAGTAGAGCACAGAAGTGC
Found at i:12695269 original size:23 final size:23
Alignment explanation
Indices: 12695201--12695317 Score: 91
Period size: 23 Copynumber: 5.0 Consensus size: 23
12695191 ACATAGCGCA
* *
12695201 AATCAGTAG-GCACATGAAGTGCG
1 AATCAG-AGAGCACACGAAGTGCT
* *
12695224 AAACAGTA-AGCACACAAAGTGCT
1 AATCAG-AGAGCACACGAAGTGCT
12695247 AATCAGAGAGCACACGAAGTGCT
1 AATCAGAGAGCACACGAAGTGCT
12695270 AATAACAGAGAG--CACGAAACGTGCT
1 AAT--CAGAGAGCACACG-AA-GTGCT
*
12695295 AAACAGAGAGCACAC-ACAGTGCT
1 AATCAGAGAGCACACGA-AGTGCT
12695318 GAACAGTAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.01
23 57 0.73
24 3 0.04
25 17 0.22
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (23 bp):
AATCAGAGAGCACACGAAGTGCT
Found at i:12704898 original size:15 final size:15
Alignment explanation
Indices: 12704856--12704899 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
12704846 CTTAGGTTTA
12704856 ATTTTAAATTATTTT
1 ATTTTAAATTATTTT
* *
12704871 ATTTTTAGTTATTTT
1 ATTTTAAATTATTTT
12704886 A-TTTAAATATATTT
1 ATTTTAAAT-TATTT
12704900 GAGTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
ATTTTAAATTATTTT
Found at i:12708662 original size:31 final size:31
Alignment explanation
Indices: 12708618--12708689 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
12708608 CCCAGTAGAC
* **
12708618 TCTATC-TGTGTTTATTGTCCTAACGGACTA
1 TCTATCTTGTGTTTACTGTCCTAACAAACTA
*
12708648 TCTATCTTGTGTTTACTGTCCTAGCAAACTA
1 TCTATCTTGTGTTTACTGTCCTAACAAACTA
*
12708679 TCTATTTTGTG
1 TCTATCTTGTG
12708690 GATGTCATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 6 0.17
31 30 0.83
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (31 bp):
TCTATCTTGTGTTTACTGTCCTAACAAACTA
Found at i:12720890 original size:21 final size:21
Alignment explanation
Indices: 12720866--12720925 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
12720856 TAGTTGCTTG
*
12720866 ACTTGTAGCGGTAGAAATAAT
1 ACTTGTACCGGTAGAAATAAT
* * *
12720887 ACTTGTATCGGTAGAACTAGT
1 ACTTGTACCGGTAGAAATAAT
**
12720908 ACAGGTACCGGTAGAAAT
1 ACTTGTACCGGTAGAAAT
12720926 CTGCACAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (21 bp):
ACTTGTACCGGTAGAAATAAT
Found at i:12722904 original size:21 final size:21
Alignment explanation
Indices: 12722835--12722908 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
12722825 GTTTTTAGTA
* *
12722835 TCGGTAGAAGCATGACTTGTT
1 TCGGTAGAAGCTTCACTTGTT
* * *
12722856 TTGGTAAAAACTTCACTTGTT
1 TCGGTAGAAGCTTCACTTGTT
*
12722877 TCGGTAGAAGCTTTACTTGTT
1 TCGGTAGAAGCTTCACTTGTT
12722898 TCGGTAGAAGC
1 TCGGTAGAAGC
12722909 GTTGATTGAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (21 bp):
TCGGTAGAAGCTTCACTTGTT
Found at i:12724395 original size:24 final size:24
Alignment explanation
Indices: 12724361--12724407 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12724351 TCGGTAGTTG
12724361 CATAGTAAGTATCAATAGTTCTGCT
1 CATAGTAAGTATCAATAG-TCTGCT
*
12724386 CATAG-AAGTATCGATAGTCTGC
1 CATAGTAAGTATCAATAGTCTGC
12724408 ATACTTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (24 bp):
CATAGTAAGTATCAATAGTCTGCT
Found at i:12724505 original size:21 final size:21
Alignment explanation
Indices: 12724481--12724528 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
12724471 TAGAAGCATG
*
12724481 ACTTGTTTTGGTAAAAACTTC
1 ACTTGTTTCGGTAAAAACTTC
* *
12724502 ACTTGTTTCGGTAGAAGCTTC
1 ACTTGTTTCGGTAAAAACTTC
12724523 ACTTGT
1 ACTTGT
12724529 ATCAGTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (21 bp):
ACTTGTTTCGGTAAAAACTTC
Found at i:12724545 original size:21 final size:20
Alignment explanation
Indices: 12724496--12724545 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
12724486 TTTTGGTAAA
* *
12724496 AACTTCACTTGTTTCGGTAG
1 AACTTCACTTGTATCAGTAG
12724516 AAGCTTCACTTGTATCAGTAG
1 AA-CTTCACTTGTATCAGTAG
12724537 AACTATCAC
1 AACT-TCAC
12724546 AGATATCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (20 bp):
AACTTCACTTGTATCAGTAG
Found at i:12732869 original size:34 final size:34
Alignment explanation
Indices: 12732831--12732967 Score: 89
Period size: 34 Copynumber: 3.9 Consensus size: 34
12732821 ATGGTTTGCA
12732831 CCCAGCGCTAGTCAAATAAACCGACGAATGTGTG
1 CCCAGCGCTAGTCAAATAAACCGACGAATGTGTG
* *
12732865 CCCAGCACTAGTCAATTATACTAA-CGAAC-AATAAGTGAG
1 CCCAGCGCTAGTCAA--ATA--AACCG-ACGAAT--GTGTG
* *** * * * *
12732904 CCCAGCTCTAGTTGGATTAACCAACGATTTTGTG
1 CCCAGCGCTAGTCAAATAAACCGACGAATGTGTG
* *
12732938 CCCAGCGCTAGTCGAATAAACCGATGAATG
1 CCCAGCGCTAGTCAAATAAACCGACGAATG
12732968 AATAGTGATT
Statistics
Matches: 75, Mismatches: 19, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
34 39 0.52
35 4 0.05
36 6 0.08
37 7 0.09
38 4 0.05
39 15 0.20
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (34 bp):
CCCAGCGCTAGTCAAATAAACCGACGAATGTGTG
Found at i:12735999 original size:96 final size:96
Alignment explanation
Indices: 12735892--12736126 Score: 434
Period size: 96 Copynumber: 2.4 Consensus size: 96
12735882 ATGAATTTAA
12735892 TTTAGTCGGTTGTATTGGCATAGGTGTATGTTCAAGAGATAAATTAATTTCATAAAGTATGTATG
1 TTTAGTCGGTTGTATTGGCATAGGTGTATGTTCAAGAGATAAATTAATTTCATAAAGTATGTATG
12735957 TGCTATAACACGTTTACTTATTAAAGATTAG
66 TGCTATAACACGTTTACTTATTAAAGATTAG
12735988 TTTAGTCGGTTGTATTGGCATAGGTGTATGTTCAAGAGATAAATTAATTTCATAAAGTATGTATG
1 TTTAGTCGGTTGTATTGGCATAGGTGTATGTTCAAGAGATAAATTAATTTCATAAAGTATGTATG
*
12736053 TGGTATAACACGTTTACTTATTAAAGATTAG
66 TGCTATAACACGTTTACTTATTAAAGATTAG
* * *
12736084 TTTAGTCAGTCGTATTTGCATAGGTGTATGTTCAAGAGATAAA
1 TTTAGTCGGTTGTATTGGCATAGGTGTATGTTCAAGAGATAAA
12736127 CTGATTTTTG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 135 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (96 bp):
TTTAGTCGGTTGTATTGGCATAGGTGTATGTTCAAGAGATAAATTAATTTCATAAAGTATGTATG
TGCTATAACACGTTTACTTATTAAAGATTAG
Found at i:12743076 original size:7 final size:7
Alignment explanation
Indices: 12743064--12743094 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
12743054 AAATTTTTAG
12743064 CACTCAA
1 CACTCAA
12743071 CACTCAA
1 CACTCAA
12743078 CACTCAA
1 CACTCAA
12743085 CACTCAA
1 CACTCAA
12743092 CAC
1 CAC
12743095 ATTTGGATTT
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:0.45, G:0.00, T:0.13
Consensus pattern (7 bp):
CACTCAA
Found at i:12751380 original size:17 final size:17
Alignment explanation
Indices: 12751342--12751385 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
12751332 AGTTAGCATT
12751342 CTTGCA-TTTTATTGTG
1 CTTGCATTTTTATTGTG
*
12751358 CCTGCATTTTTATTGT-
1 CTTGCATTTTTATTGTG
12751374 CATTGCATTTTT
1 C-TTGCATTTTT
12751386 TTGGTATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (17 bp):
CTTGCATTTTTATTGTG
Found at i:12762013 original size:19 final size:20
Alignment explanation
Indices: 12761979--12762016 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12761969 TTACATTTCC
12761979 CACATAATGCCTATATCAGG
1 CACATAATGCCTATATCAGG
*
12761999 CACATAA-GTCTATATCAG
1 CACATAATGCCTATATCAG
12762017 ACATTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (20 bp):
CACATAATGCCTATATCAGG
Found at i:12762352 original size:42 final size:42
Alignment explanation
Indices: 12762305--12762389 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
12762295 TCAATTCGAA
12762305 GTATAACAATCAGGTCTTCCACTGTCATTTCTTTTCTTTTGT
1 GTATAACAATCAGGTCTTCCACTGTCATTTCTTTTCTTTTGT
12762347 GTATAACAATCAGGTCTTCCACTGTCATTTCTTTTCTTTTGT
1 GTATAACAATCAGGTCTTCCACTGTCATTTCTTTTCTTTTGT
12762389 G
1 G
12762390 CTTTAGGTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (42 bp):
GTATAACAATCAGGTCTTCCACTGTCATTTCTTTTCTTTTGT
Found at i:12763843 original size:84 final size:82
Alignment explanation
Indices: 12763623--12763865 Score: 187
Period size: 84 Copynumber: 3.0 Consensus size: 82
12763613 TAATTGGCGG
* * * * * *
12763623 GAATAAATACTGAAATAGATTTAGTTAACTT-ATT-TTATTTGGAAACAAAAT-CAAACTGGAAT
1 GAATAAATCCTGAAACAGATTTA-TTTACTTAATTATTATTTAGAACCAAAATCCAAA-TAGAAT
*** **
12763685 AAAATTTGTT--ACGGCGG
64 AAAATCAATTAAACGGCAT
* *
12763702 GAATAAATCTTGAAATAGATTTATTTACTTAATTATTATTTAGAACCAAAATCCAAATATAGAAT
1 GAATAAATCCTGAAACAGATTTATTTACTTAATTATTATTTAGAACCAAAATCC-AA-ATAGAAT
* *
12763767 TAAATCAATTCAACGGCAT
64 AAAATCAATTAAACGGCAT
* * * *
12763786 GAATAAATCCTGAAACAGATTTATTTACTTATTCTTGTTTTTTTA-AA-TAAAAT-CAAATAGAA
1 GAATAAATCCTGAAACAGATTTATTTACTTA--ATT-ATTATTTAGAACCAAAATCCAAATAGAA
*
12763848 TAAAATCTATTAAACGGC
63 TAAAATCAATTAAACGGC
12763866 GGGAAATAAA
Statistics
Matches: 133, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
78 6 0.05
79 24 0.18
80 15 0.11
81 1 0.01
82 34 0.26
83 3 0.02
84 35 0.26
85 5 0.04
86 4 0.03
87 6 0.05
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (82 bp):
GAATAAATCCTGAAACAGATTTATTTACTTAATTATTATTTAGAACCAAAATCCAAATAGAATAA
AATCAATTAAACGGCAT
Found at i:12765210 original size:39 final size:39
Alignment explanation
Indices: 12765167--12765256 Score: 171
Period size: 39 Copynumber: 2.3 Consensus size: 39
12765157 CATAGGTTCC
*
12765167 ATGCCTGGAAAGATTGGTGCTAGTGAAGATGCCCTAGTG
1 ATGCCTGGAAAGATTGGTGCTAGTGAAAATGCCCTAGTG
12765206 ATGCCTGGAAAGATTGGTGCTAGTGAAAATGCCCTAGTG
1 ATGCCTGGAAAGATTGGTGCTAGTGAAAATGCCCTAGTG
12765245 ATGCCTGGAAAG
1 ATGCCTGGAAAG
12765257 GCAGTTGGGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (39 bp):
ATGCCTGGAAAGATTGGTGCTAGTGAAAATGCCCTAGTG
Found at i:12766311 original size:27 final size:27
Alignment explanation
Indices: 12766260--12766313 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
12766250 GTATGGATGC
*
12766260 ATAAATAAGTTATGTCTATACTTTTTT
1 ATAAATAAGTTATATCTATACTTTTTT
*
12766287 ATAAATAAG-TATAT-TATGACATTTTT
1 ATAAATAAGTTATATCTAT-ACTTTTTT
12766313 A
1 A
12766314 GTCTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.12
26 12 0.50
27 9 0.38
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (27 bp):
ATAAATAAGTTATATCTATACTTTTTT
Found at i:12767397 original size:20 final size:21
Alignment explanation
Indices: 12767369--12767412 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
12767359 AAATTTTTAT
*
12767369 AAATGGTGTTTTG-AAGAAAA
1 AAATGGTGTTTGGCAAGAAAA
*
12767389 AAATTGTGTTTGGCAAGAAAA
1 AAATGGTGTTTGGCAAGAAAA
12767410 AAA
1 AAA
12767413 AATGGAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (21 bp):
AAATGGTGTTTGGCAAGAAAA
Found at i:12769653 original size:45 final size:45
Alignment explanation
Indices: 12769589--12769689 Score: 193
Period size: 45 Copynumber: 2.2 Consensus size: 45
12769579 GTATTCAATC
*
12769589 AATTAACCGAACTAAATTATTTCGGTTAATTCGATTGGTTAACCG
1 AATTAACCGAACTAAATTATTTCGGTTAATTCGATTGGCTAACCG
12769634 AATTAACCGAACTAAATTATTTCGGTTAATTCGATTGGCTAACCG
1 AATTAACCGAACTAAATTATTTCGGTTAATTCGATTGGCTAACCG
12769679 AATTAACCGAA
1 AATTAACCGAA
12769690 ATTTTTATGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (45 bp):
AATTAACCGAACTAAATTATTTCGGTTAATTCGATTGGCTAACCG
Found at i:12776959 original size:26 final size:25
Alignment explanation
Indices: 12776922--12777014 Score: 114
Period size: 26 Copynumber: 3.6 Consensus size: 25
12776912 TAGAAAAGAA
*
12776922 GTGATTATATAGCAGTTTTTGAGTCG
1 GTGATTATATAGCAGATTTTGAG-CG
* * *
12776948 GTGATTAAATAGTAGATTTTGAACCG
1 GTGATTATATAGCAGATTTTG-AGCG
*
12776974 GTGATTATATAGCAGATTTTAAGCTG
1 GTGATTATATAGCAGATTTTGAGC-G
12777000 GTGATTATATAGCAG
1 GTGATTATATAGCAG
12777015 GCCTTGAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
25 2 0.04
26 54 0.95
27 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (25 bp):
GTGATTATATAGCAGATTTTGAGCG
Found at i:12777030 original size:26 final size:26
Alignment explanation
Indices: 12777001--12777101 Score: 132
Period size: 26 Copynumber: 3.9 Consensus size: 26
12776991 TTTAAGCTGG
12777001 TGATTATATAGCAGGCCTTGAGCCGA
1 TGATTATATAGCAGGCCTTGAGCCGA
** * *
12777027 TGATTATATAATAGGCCTTGAGCTGG
1 TGATTATATAGCAGGCCTTGAGCCGA
*
12777053 TGATTAAATAGCAGGCCTTGAGCCGA
1 TGATTATATAGCAGGCCTTGAGCCGA
* *
12777079 TGA-TATTTAGCAGGCTTTGAGCC
1 TGATTATATAGCAGGCCTTGAGCC
12777102 AGTGAATAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
25 17 0.27
26 46 0.73
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (26 bp):
TGATTATATAGCAGGCCTTGAGCCGA
Found at i:12777031 original size:52 final size:52
Alignment explanation
Indices: 12776923--12777100 Score: 180
Period size: 52 Copynumber: 3.4 Consensus size: 52
12776913 AGAAAAGAAG
* * *** * *
12776923 TGATTATATAGCAGTTTTTGAG-TCGGTGATTAAATAGTAGATTTTGAACCGG
1 TGATTATATAGCAGATTTTGAGCT-GGTGATTAAATAGCAGGCCTTGAGCCGA
* *
12776975 TGATTATATAGCAGATTTTAAGCTGGTGATTATATAGCAGGCCTTGAGCCGA
1 TGATTATATAGCAGATTTTGAGCTGGTGATTAAATAGCAGGCCTTGAGCCGA
** ***
12777027 TGATTATATAATAGGCCTTGAGCTGGTGATTAAATAGCAGGCCTTGAGCCGA
1 TGATTATATAGCAGATTTTGAGCTGGTGATTAAATAGCAGGCCTTGAGCCGA
* **
12777079 TGA-TATTTAGCAGGCTTTGAGC
1 TGATTATATAGCAGATTTTGAGC
12777101 CAGTGAATAG
Statistics
Matches: 105, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
51 15 0.14
52 89 0.85
53 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (52 bp):
TGATTATATAGCAGATTTTGAGCTGGTGATTAAATAGCAGGCCTTGAGCCGA
Found at i:12777227 original size:15 final size:15
Alignment explanation
Indices: 12777209--12777242 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12777199 TTTGTGATCT
12777209 TTTTATTAGATTTTA
1 TTTTATTAGATTTTA
**
12777224 TTTTATTTTATTTTA
1 TTTTATTAGATTTTA
12777239 TTTT
1 TTTT
12777243 TAAACTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTAGATTTTA
Found at i:12777228 original size:5 final size:5
Alignment explanation
Indices: 12777218--12777242 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12777208 TTTTTATTAG
12777218 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
12777243 TAAACTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:12784286 original size:23 final size:23
Alignment explanation
Indices: 12784253--12784297 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12784243 TGAAGTATGC
* * *
12784253 GTAAACGTATCATGCTGACAAGT
1 GTAAACCTATCATACTAACAAGT
12784276 GTAAACCTATCATACTAACAAG
1 GTAAACCTATCATACTAACAAG
12784298 CATAAATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (23 bp):
GTAAACCTATCATACTAACAAGT
Found at i:12784303 original size:23 final size:23
Alignment explanation
Indices: 12784254--12784303 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
12784244 GAAGTATGCG
* * * **
12784254 TAAACGTATCATGCTGACAAGTG
1 TAAACCTATCATACTAACAAGCA
12784277 TAAACCTATCATACTAACAAGCA
1 TAAACCTATCATACTAACAAGCA
12784300 TAAA
1 TAAA
12784304 TGTACTTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (23 bp):
TAAACCTATCATACTAACAAGCA
Found at i:12786130 original size:29 final size:28
Alignment explanation
Indices: 12786075--12786137 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
12786065 TATAATAATG
* * *
12786075 TAAAAAA-AGAAAGAAAATGATTAAGAA
1 TAAAAAAGGGAAAGAAAATAATAAAGAA
*
12786102 TTAAAAAGGGAAAGAAAATAATAAAAGAA
1 TAAAAAAGGGAAAGAAAATAAT-AAAGAA
12786131 TAAAAAA
1 TAAAAAA
12786138 AAAGAAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 12 0.41
29 11 0.38
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (28 bp):
TAAAAAAGGGAAAGAAAATAATAAAGAA
Found at i:12787904 original size:170 final size:158
Alignment explanation
Indices: 12787772--12788074 Score: 371
Period size: 158 Copynumber: 1.9 Consensus size: 158
12787762 TTACAGTTAT
*
12787772 AGCTCATGTGAGCATTATAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTC
1 AGCTCATGTGAGCATTATAGGTTATATGGGTGCTGGTCTTAGATGTCCTACAGATGGCTGAGGTC
* * *
12787837 TTGCATTAGTTGCGGATCCTCCACAACTCATGTGACCAGCATCATGTAGCCCCAAATCTCAACCC
66 TTGCATTAGTTGCGGATCCTCCACAGCTCGTGTGAGCAGCATCATGTAG-CCCAAATCTCAACCC
* *
12787902 ACAACTCGTGTGAGC-AGGCCCATTTCAC
130 ACAGCTCGTGTGAGCAAGGCACATTTCAC
* * * * *
12787930 AGCTCGTGTGAGCATTACATGTTATATGGGTGCTGGTCTTAGATATCCTACTGATGGCTGAGGTC
1 AGCTCATGTGAGCATTATAGGTTATATGGGTGCTGGTCTTAGATGTCCTACAGATGGCTGAGGTC
* * * * * * *
12787995 -CGATATTTA-TT-CGGTTCCTTCACAGCTCGTGTGAGCAGCATCGTGTAGTCCCACATCTCGAC
66 TTG-CA-TTAGTTGCGGATCCTCCACAGCTCGTGTGAGCAGCATCATGTAG-CCCAAATCTCAAC
*
12788057 CCACAGCTCATGTGAGCA
128 CCACAGCTCGTGTGAGCA
12788075 GCATCGTGTA
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
157 58 0.47
158 63 0.51
159 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (158 bp):
AGCTCATGTGAGCATTATAGGTTATATGGGTGCTGGTCTTAGATGTCCTACAGATGGCTGAGGTC
TTGCATTAGTTGCGGATCCTCCACAGCTCGTGTGAGCAGCATCATGTAGCCCAAATCTCAACCCA
CAGCTCGTGTGAGCAAGGCACATTTCAC
Found at i:12788076 original size:43 final size:43
Alignment explanation
Indices: 12788015--12788117 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
12788005 TCGGTTCCTT
*
12788015 CACAGCTCGTGTGAGCAGCATCGTGTAGTCCCACATCTCGACC
1 CACAGCTCGTGTGAGCAGCATCGTGTAATCCCACATCTCGACC
*
12788058 CACAGCTCATGTGAGCAGCATCGTGTAATCCCACATCTCGACC
1 CACAGCTCGTGTGAGCAGCATCGTGTAATCCCACATCTCGACC
*
12788101 CACAGTTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
12788118 TATATGGTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.21
Consensus pattern (43 bp):
CACAGCTCGTGTGAGCAGCATCGTGTAATCCCACATCTCGACC
Found at i:12790968 original size:20 final size:20
Alignment explanation
Indices: 12790930--12790974 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12790920 TTCTCAAGTA
12790930 TAAAA-ATATTTTAATATTT
1 TAAAATATATTTTAATATTT
*
12790949 TGAAATATATTTT-ATAATTT
1 TAAAATATATTTTAAT-ATTT
12790969 TAAAAT
1 TAAAAT
12790975 TCGAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TAAAATATATTTTAATATTT
Found at i:12795503 original size:20 final size:20
Alignment explanation
Indices: 12795479--12795529 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
12795469 AATTTATAAT
12795479 TTATAAAAATATTCA-AAAA
1 TTATAAAAATATTCATAAAA
12795498 TATATAAAAA-A-TCATAAAA
1 T-TATAAAAATATTCATAAAA
12795517 TTAATAAAAATAT
1 TT-ATAAAAATAT
12795530 AACACGAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 4 0.15
19 14 0.52
20 9 0.33
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TTATAAAAATATTCATAAAA
Found at i:12795506 original size:10 final size:10
Alignment explanation
Indices: 12795480--12795530 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
12795470 ATTTATAATT
12795480 TATAAAAATA
1 TATAAAAATA
12795490 T-TCAAAAATA
1 TAT-AAAAATA
12795500 TATAAAAA-A
1 TATAAAAATA
*
12795509 TCATAAAATTA
1 T-ATAAAAATA
12795520 -ATAAAAATA
1 TATAAAAATA
12795529 TA
1 TA
12795531 ACACGAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
9 11 0.32
10 21 0.62
11 2 0.06
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (10 bp):
TATAAAAATA
Found at i:12797350 original size:20 final size:20
Alignment explanation
Indices: 12797325--12797381 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
12797315 TAATTGATTT
12797325 TTAAAATTTTAAAAAATATA
1 TTAAAATTTTAAAAAATATA
** *
12797345 TTAAAA-AGTATAAAAATATT
1 TTAAAATTTTA-AAAAATATA
*
12797365 TTTAAATTTTAAAAAAT
1 TTAAAATTTTAAAAAAT
12797382 CAATTAATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAAATTTTAAAAAATATA
Found at i:12797631 original size:12 final size:13
Alignment explanation
Indices: 12797614--12797642 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12797604 AATGTCATTA
12797614 ATTAATAAAA-AT
1 ATTAATAAAATAT
12797626 ATTAATAAAATAT
1 ATTAATAAAATAT
12797639 ATTA
1 ATTA
12797643 TTACCATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAATAAAATAT
Found at i:12809880 original size:11 final size:11
Alignment explanation
Indices: 12809864--12809888 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12809854 CTTTTTTCTT
12809864 TTTAATATTTA
1 TTTAATATTTA
12809875 TTTAATATTTA
1 TTTAATATTTA
12809886 TTT
1 TTT
12809889 TTTGAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATATTTA
Found at i:12809912 original size:16 final size:17
Alignment explanation
Indices: 12809893--12809927 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12809883 TTATTTTTTG
*
12809893 AAATAAAA-AGAAAATA
1 AAATAAAACACAAAATA
12809909 AAATAAAACACAAAATA
1 AAATAAAACACAAAATA
12809926 AA
1 AA
12809928 TATGTATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (17 bp):
AAATAAAACACAAAATA
Found at i:12810737 original size:101 final size:101
Alignment explanation
Indices: 12810590--12810777 Score: 297
Period size: 101 Copynumber: 1.9 Consensus size: 101
12810580 CTAGTATTAC
* *
12810590 AGCTTCATCTTGCTCCATTGCAACTTTAAGGAGATAAAGATATGCTTTCATGACTTTAATCCGAC
1 AGCTTCATCTTGCTCCATTGCAACTTTAAGGAGATAAAAATATGCTTTCATGACCTTAATCCGAC
*
12810655 CCACTACAACTTTAGGGGTATATGATTTGGTGTGGT
66 CCACTACAACTTCAGGGGTATATGATTTGGTGTGGT
* * * *
12810691 AGCTTTATCTTGCTCCATTGCAA-TTTCAGATAGATAAAAATTTGCTTTCATGACCTTAATCCGA
1 AGCTTCATCTTGCTCCATTGCAACTTTAAG-GAGATAAAAATATGCTTTCATGACCTTAATCCGA
12810755 CCCACTACAACTTCAGGGGTATA
65 CCCACTACAACTTCAGGGGTATA
12810778 AGTAGCTTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 5 0.06
101 74 0.94
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (101 bp):
AGCTTCATCTTGCTCCATTGCAACTTTAAGGAGATAAAAATATGCTTTCATGACCTTAATCCGAC
CCACTACAACTTCAGGGGTATATGATTTGGTGTGGT
Found at i:12811381 original size:49 final size:49
Alignment explanation
Indices: 12811244--12811406 Score: 177
Period size: 49 Copynumber: 3.3 Consensus size: 49
12811234 CATCATTTTC
* * * * *
12811244 AAGGTATAAGATTCGCCGTTGTCG-CTTTAATCTTTCCCTCCACATCTCT
1 AAGGTATAAGATTCACCATTG-CGACTTCAATCTTTCCCTTCATATCTCT
* * * *
12811293 -AGGATATAAGATTCGCCATTGCAACTTCAACCTTTCCCTTTATATCTCT
1 AAGG-TATAAGATTCACCATTGCGACTTCAATCTTTCCCTTCATATCTCT
*
12811342 AAGGTATAAGATTCACCATTGCGACTTCAATCTTTCCCTTCATGTCTTCT
1 AAGGTATAAGATTCACCATTGCGACTTCAATCTTTCCCTTCATATC-TCT
* *
12811392 AGGGTATATGATTCA
1 AAGGTATAAGATTCA
12811407 ACGTTTCCTC
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
48 4 0.04
49 73 0.76
50 19 0.20
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (49 bp):
AAGGTATAAGATTCACCATTGCGACTTCAATCTTTCCCTTCATATCTCT
Found at i:12813736 original size:7 final size:7
Alignment explanation
Indices: 12813724--12813782 Score: 57
Period size: 7 Copynumber: 8.0 Consensus size: 7
12813714 CCCCGACCAC
12813724 TCTTTTT
1 TCTTTTT
12813731 TCTTTTCTT
1 TC-TTT-TT
*
12813740 TCTTCTT
1 TCTTTTT
*
12813747 TCTTCTT
1 TCTTTTT
12813754 TCTTTTT
1 TCTTTTT
12813761 TCTCTTTT
1 TCT-TTTT
12813769 T-TTTCTT
1 TCTTT-TT
12813776 TCTTTTT
1 TCTTTTT
12813783 ATTTTTTATG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 2 0.04
7 26 0.58
8 13 0.29
9 4 0.09
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TCTTTTT
Found at i:12813743 original size:4 final size:4
Alignment explanation
Indices: 12813724--12813780 Score: 54
Period size: 4 Copynumber: 15.2 Consensus size: 4
12813714 CCCCGACCAC
12813724 TCTT T-TT TCTTT TCTT TC-T TCTT TC-T TCTT TCTT T-TT TCTCT T-TT
1 TCTT TCTT TC-TT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT-T TCTT
12813769 T-TT TCTT TCTT T
1 TCTT TCTT TCTT T
12813781 TTATTTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
3 17 0.37
4 23 0.50
5 6 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TCTT
Found at i:12813750 original size:11 final size:11
Alignment explanation
Indices: 12813724--12813780 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
12813714 CCCCGACCAC
*
12813724 TCTTTTTTCTTT
1 TCTTTCTTC-TT
12813736 TCTTTCTTCTT
1 TCTTTCTTCTT
12813747 TC-TTCTTTCTT
1 TCTTTC-TTCTT
12813758 T-TTTC-TCTT
1 TCTTTCTTCTT
12813767 T-TTT-TTCTT
1 TCTTTCTTCTT
12813776 TCTTT
1 TCTTT
12813781 TTATTTTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 13 0.32
10 6 0.15
11 13 0.32
12 8 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTCTTCTT
Found at i:12813781 original size:11 final size:11
Alignment explanation
Indices: 12813724--12813782 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
12813714 CCCCGACCAC
12813724 TCTTTTTTC-T
1 TCTTTTTTCTT
*
12813734 T-TTCTTTC-T
1 TCTTTTTTCTT
*
12813743 TCTTTCTTCTT
1 TCTTTTTTCTT
12813754 TCTTTTTTCTCT
1 TCTTTTTTCT-T
12813766 T-TTTTTTCTT
1 TCTTTTTTCTT
12813776 TCTTTTT
1 TCTTTTT
12813783 ATTTTTTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.20
10 8 0.20
11 23 0.56
12 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:12817859 original size:19 final size:19
Alignment explanation
Indices: 12817837--12817879 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
12817827 AGAGGGCATG
*
12817837 AATAATAAACAAATAAATC
1 AATAATAAACAAATAAATA
* *
12817856 AATAATATACAAATGAATA
1 AATAATAAACAAATAAATA
12817875 AATAA
1 AATAA
12817880 ATGCAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (19 bp):
AATAATAAACAAATAAATA
Found at i:12819029 original size:16 final size:17
Alignment explanation
Indices: 12819008--12819042 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12818998 TTATTTTTTG
*
12819008 AAATAAAA-AGAAAATA
1 AAATAAAATACAAAATA
12819024 AAATAAAATACAAAATA
1 AAATAAAATACAAAATA
12819041 AA
1 AA
12819043 TATGTATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (17 bp):
AAATAAAATACAAAATA
Found at i:12819444 original size:17 final size:18
Alignment explanation
Indices: 12819422--12819462 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
12819412 TAAATTAAAA
12819422 ATTTATTTCA-TTATTT-T
1 ATTTATTT-ATTTATTTAT
12819439 ATTTATTTATTTATTTAT
1 ATTTATTTATTTATTTAT
12819457 ATTTAT
1 ATTTAT
12819463 AAAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATTTATTTATTTAT
Found at i:12819763 original size:11 final size:11
Alignment explanation
Indices: 12819732--12819768 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
12819722 AAAAATCATG
12819732 AAAATTATAAA
1 AAAATTATAAA
12819743 TAAAATTTATAAA
1 -AAAA-TTATAAA
12819756 AAAATTATAAA
1 AAAATTATAAA
12819767 AA
1 AA
12819769 TGATAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:12819941 original size:12 final size:12
Alignment explanation
Indices: 12819904--12819942 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
12819894 TTTTAAACCT
*
12819904 TTTATAACTTTTT
1 TTTATAA-TTTTA
12819917 TTTATAAATTTTA
1 TTTAT-AATTTTA
12819930 TTTATAATTTTA
1 TTTATAATTTTA
12819942 T
1 T
12819943 GATTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 14 0.58
14 2 0.08
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATAATTTTA
Found at i:12820235 original size:20 final size:18
Alignment explanation
Indices: 12820192--12820234 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
12820182 CATATTTTTC
12820192 ATAAAATAATTTAAATTA
1 ATAAAATAATTTAAATTA
* *
12820210 CTAAAAGTAATTTTAATTA
1 ATAAAA-TAATTTAAATTA
12820229 ATAAAA
1 ATAAAA
12820235 ATAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAAAATAATTTAAATTA
Found at i:12826473 original size:21 final size:23
Alignment explanation
Indices: 12826447--12826489 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
12826437 ATAAAGTATG
*
12826447 TTATA-TATTATTTTT-CTAATA
1 TTATATTATGATTTTTACTAATA
12826468 TTATATTATGATTTTTACTAAT
1 TTATATTATGATTTTTACTAAT
12826490 TCATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATATTATGATTTTTACTAATA
Found at i:12826634 original size:58 final size:58
Alignment explanation
Indices: 12826467--12826639 Score: 224
Period size: 58 Copynumber: 2.9 Consensus size: 58
12826457 TTTTTCTAAT
* * *
12826467 ATTATATTATGATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAA
1 ATTAT-TTATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAA
* * *
12826528 ATTATATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAA
1 ATTATTTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAA
* *
12826585 ATTATTTATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTAAT
1 ATTATTTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAAT
12826640 AACAATAATT
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
57 22 0.22
58 56 0.57
59 8 0.08
60 8 0.08
61 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (58 bp):
ATTATTTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAA
Found at i:12826815 original size:16 final size:16
Alignment explanation
Indices: 12826794--12826865 Score: 92
Period size: 16 Copynumber: 4.5 Consensus size: 16
12826784 TGAATTACTG
12826794 ATTACAACAT-TATTCC
1 ATTACAAC-TCTATTCC
*
12826810 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
12826826 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
**
12826842 ATTACAGTTCTATTCC
1 ATTACAACTCTATTCC
*
12826858 ATTGCAAC
1 ATTACAAC
12826866 GAACCAAACG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 1 0.02
16 47 0.98
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:12826840 original size:32 final size:32
Alignment explanation
Indices: 12826794--12826865 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
12826784 TGAATTACTG
12826794 ATTACAACATTATTCCATTACAGCTCTATTCC
1 ATTACAACATTATTCCATTACAGCTCTATTCC
*
12826826 ATTACAAC-TCTATTCCATTACAGTTCTATTCC
1 ATTACAACAT-TATTCCATTACAGCTCTATTCC
*
12826858 ATTGCAAC
1 ATTACAAC
12826866 GAACCAAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 1 0.03
32 36 0.97
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.38
Consensus pattern (32 bp):
ATTACAACATTATTCCATTACAGCTCTATTCC
Found at i:12828124 original size:19 final size:19
Alignment explanation
Indices: 12828100--12828158 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
12828090 ATATTCAAAG
* *
12828100 TTAAATTTATAAATCTATT
1 TTAAATTAAAAAATCTATT
12828119 TTAAA-TAAAAAATCTATT
1 TTAAATTAAAAAATCTATT
12828137 TTAAA-TAAAAAAT-TAATT
1 TTAAATTAAAAAATCT-ATT
12828155 TTAA
1 TTAA
12828159 CATGTAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 1 0.03
18 31 0.84
19 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAATTAAAAAATCTATT
Found at i:12828133 original size:18 final size:18
Alignment explanation
Indices: 12828110--12828158 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
12828100 TTAAATTTAT
12828110 AAATCTATTTTAAATAAA
1 AAATCTATTTTAAATAAA
12828128 AAATCTATTTTAAATAAA
1 AAATCTATTTTAAATAAA
12828146 AAAT-TAATTTTAA
1 AAATCT-ATTTTAA
12828159 CATGTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 1 0.03
18 29 0.97
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATCTATTTTAAATAAA
Found at i:12829324 original size:31 final size:32
Alignment explanation
Indices: 12829276--12829335 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
12829266 GGTTAGTGAT
*
12829276 TTAAATAAAAAAATTTTGAACAGTTCAATGAC
1 TTAAATAAAAAAATTTTGAACAATTCAATGAC
*
12829308 TTAAAT-AAAAACTTTTGAACAATTCAAT
1 TTAAATAAAAAAATTTTGAACAATTCAAT
12829336 AATCATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (32 bp):
TTAAATAAAAAAATTTTGAACAATTCAATGAC
Found at i:12829468 original size:12 final size:12
Alignment explanation
Indices: 12829451--12829477 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12829441 GCATCCATCA
12829451 AATCAAATGATT
1 AATCAAATGATT
12829463 AATCAAATGATT
1 AATCAAATGATT
12829475 AAT
1 AAT
12829478 TGATTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (12 bp):
AATCAAATGATT
Found at i:12830150 original size:22 final size:21
Alignment explanation
Indices: 12830131--12830172 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
12830121 ATTATTATAC
12830131 TTTTTTTTGAAAATATTTATGTA
1 TTTTTTTT-AAAATATTTA-GTA
*
12830154 TTTTTTTTAAAATTTTTAG
1 TTTTTTTTAAAATATTTAG
12830173 AATTAGGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 9 0.50
23 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTTTTTAAAATATTTAGTA
Found at i:12830491 original size:23 final size:23
Alignment explanation
Indices: 12830461--12830506 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
12830451 GCAATGCCTC
*
12830461 AATATTGTCAAGATATGATTTAT
1 AATATTGTCAACATATGATTTAT
*
12830484 AATATTGTCAACATATTATTTAT
1 AATATTGTCAACATATGATTTAT
12830507 TTAAAATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (23 bp):
AATATTGTCAACATATGATTTAT
Found at i:12833477 original size:21 final size:18
Alignment explanation
Indices: 12833449--12833487 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
12833439 TTATGCTAAA
12833449 TATTATAAAAATAATATATT
1 TATTATAAAAA-AAT-TATT
12833469 TATTCATAAAAAAATTATT
1 TATT-ATAAAAAAATTATT
12833488 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTATAAAAAAATTATT
Found at i:12837277 original size:51 final size:51
Alignment explanation
Indices: 12837158--12837292 Score: 136
Period size: 51 Copynumber: 2.6 Consensus size: 51
12837148 ATTAGTGAAC
* *
12837158 ATAAATAAATATAAATATTTATATTAAAA-CA-AGATCTTAATAAAATTAAT
1 ATAAATAAATATTAATATTTATA-TAAAATCATAGATCTTAATAAAATCAAT
* *
12837208 ATAAATAAACATTTATATTTATATAAAATCATTAGAT-TTAA-AAAACTCACAT
1 ATAAATAAATATTAATATTTATATAAAATCA-TAGATCTTAATAAAA-TCA-AT
* *
12837260 -TAAATAAATATTCATATTTATTTAAAAATCATA
1 ATAAATAAATATTAATATTTATAT-AAAATCATA
12837293 AGATAAAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
49 5 0.07
50 26 0.36
51 28 0.39
52 13 0.18
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (51 bp):
ATAAATAAATATTAATATTTATATAAAATCATAGATCTTAATAAAATCAAT
Found at i:12838933 original size:15 final size:16
Alignment explanation
Indices: 12838906--12838944 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
12838896 TAAAAATGGT
*
12838906 TTCTTCT-TGTGATAA
1 TTCTTCTCTATGATAA
12838921 TTC-TCTCTATGATAA
1 TTCTTCTCTATGATAA
12838936 TTCTTCTCT
1 TTCTTCTCT
12838945 TAAAAACCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.62
16 5 0.24
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (16 bp):
TTCTTCTCTATGATAA
Found at i:12841428 original size:51 final size:50
Alignment explanation
Indices: 12841290--12841469 Score: 148
Period size: 51 Copynumber: 3.5 Consensus size: 50
12841280 TTTCATTTCA
* ** *
12841290 TACTCACGATGACATATAATCATCGAACCTCTTGTTCCATATAGGAATTCATA
1 TACTCACGATGACATATAGTCATCGAACCT-TTAATCCATAT--GAATTCATT
* * * *
12841343 TACTCACGATGACAAAAAGTCATC-AGGCCCTTAATCCATCATGAATTCATT
1 TACTCACGATGACATATAGTCATCGA-ACCTTTAATCCAT-ATGAATTCATT
* * * * * *
12841394 TACTCGCGATGACATTTAGTCATCGAACCTTTAATTCGTAAAGGATTCATT
1 TACTCACGATGACATATAGTCATCGAACCTTTAATCCAT-ATGAATTCATT
*
12841445 TCCTCACGATGACACT-TAGTCATCG
1 TACTCACGATGACA-TATAGTCATCG
12841470 GATCTTTTCG
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
51 67 0.66
52 10 0.10
53 25 0.25
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (50 bp):
TACTCACGATGACATATAGTCATCGAACCTTTAATCCATATGAATTCATT
Found at i:12843431 original size:25 final size:23
Alignment explanation
Indices: 12843403--12843457 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
12843393 TAGTTTGCCT
12843403 TTTGGAACCTATAATTAGTGAAAAA
1 TTTGGAA-CT-TAATTAGTGAAAAA
* *
12843428 TTTGTGAACTTTATTATTGAAAAA
1 TTTG-GAACTTAATTAGTGAAAAA
12843452 -TTGGAA
1 TTTGGAA
12843458 TTTTCTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.11
23 3 0.11
24 12 0.44
25 6 0.22
26 3 0.11
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.38
Consensus pattern (23 bp):
TTTGGAACTTAATTAGTGAAAAA
Found at i:12845170 original size:42 final size:42
Alignment explanation
Indices: 12845111--12845194 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
12845101 CTTCTTGATG
12845111 CTCAATGTTGTAGCATTTCTACAGAATAAGCCATGCAGATAT
1 CTCAATGTTGTAGCATTTCTACAGAATAAGCCATGCAGATAT
*
12845153 CTCAATGTTGTAGCATTTCTACAGCATAAGCCATGCAGATAT
1 CTCAATGTTGTAGCATTTCTACAGAATAAGCCATGCAGATAT
12845195 GGGTTGTGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (42 bp):
CTCAATGTTGTAGCATTTCTACAGAATAAGCCATGCAGATAT
Found at i:12847610 original size:6 final size:6
Alignment explanation
Indices: 12847595--12847643 Score: 80
Period size: 6 Copynumber: 8.0 Consensus size: 6
12847585 AAAATCATTC
*
12847595 ATATAT ATATAA ATATAA ATATAA ATATAA ATATAA ATATATA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA-A ATATAA
12847644 TGTCTAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:12847790 original size:5 final size:5
Alignment explanation
Indices: 12847765--12847808 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
12847755 ATAAAAACCA
* *
12847765 AAAAT CAAAAT AATTAT AAAAT AAAAT AAAAT AAAAT GAAAT AA
1 AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
12847809 GTCTGTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 24 0.73
6 9 0.27
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:12848846 original size:13 final size:12
Alignment explanation
Indices: 12848828--12848886 Score: 73
Period size: 13 Copynumber: 4.7 Consensus size: 12
12848818 GTTTTTCGAA
12848828 AAAGTCAATAGTC
1 AAAGTCAA-AGTC
12848841 AAAGTCAAAGTC
1 AAAGTCAAAGTC
*
12848853 AACGGTCAAAGTC
1 AA-AGTCAAAGTC
*
12848866 AATGGTCAAAGTC
1 AA-AGTCAAAGTC
12848879 AAAGTCAA
1 AAAGTCAA
12848887 CGGTCAGCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.26
13 31 0.74
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAGTCAAAGTC
Found at i:12848852 original size:19 final size:18
Alignment explanation
Indices: 12848828--12848886 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
12848818 GTTTTTCGAA
12848828 AAAGTCAATAGTCAAAGTC
1 AAAGTCAA-AGTCAAAGTC
*
12848847 AAAGTCAACGGTCAAAGTC
1 AAAGTCAA-AGTCAAAGTC
*
12848866 AATGGTCAAAGTCAAAGTC
1 AA-AGTCAAAGTCAAAGTC
12848885 AA
1 AA
12848887 CGGTCAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 30 0.86
20 5 0.14
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (18 bp):
AAAGTCAAAGTCAAAGTC
Found at i:12848874 original size:32 final size:32
Alignment explanation
Indices: 12848828--12848892 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
12848818 GTTTTTCGAA
12848828 AAAGTCAATAGTCAAAGTCAAAGTCAACGGTC
1 AAAGTCAATAGTCAAAGTCAAAGTCAACGGTC
*
12848860 AAAGTCAATGGTCAAAGTCAAAGTCAACGGTC
1 AAAGTCAATAGTCAAAGTCAAAGTCAACGGTC
12848892 A
1 A
12848893 GCTGTCAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (32 bp):
AAAGTCAATAGTCAAAGTCAAAGTCAACGGTC
Found at i:12848953 original size:23 final size:23
Alignment explanation
Indices: 12848904--12848953 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
12848894 CTGTCAACGG
*
12848904 TCAATGAGTCTGGGTCGAGTCGG
1 TCAATGAGTCTGGGTCGAGTCGA
* *
12848927 TCAATGAGTCTGGGTCGGGTTGA
1 TCAATGAGTCTGGGTCGAGTCGA
12848950 TCAA
1 TCAA
12848954 CGGGTTCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.16, G:0.36, T:0.28
Consensus pattern (23 bp):
TCAATGAGTCTGGGTCGAGTCGA
Found at i:12850212 original size:21 final size:22
Alignment explanation
Indices: 12850165--12850205 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12850155 TGATGTCTTT
*
12850165 GAAATGATCTTTTGGAATTGTA
1 GAAATGATATTTTGGAATTGTA
12850187 GAAATGATATTTT-GAATTG
1 GAAATGATATTTTGGAATTG
12850206 GGTAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.41
Consensus pattern (22 bp):
GAAATGATATTTTGGAATTGTA
Found at i:12852988 original size:13 final size:12
Alignment explanation
Indices: 12852955--12852995 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
12852945 TAAAAAATAT
12852955 TAAATATTAAAA
1 TAAATATTAAAA
12852967 TAAA-A-TAAAA
1 TAAATATTAAAA
12852977 TAAATATTTAAAA
1 TAAATA-TTAAAA
*
12852990 AAAATA
1 TAAATA
12852996 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 9 0.36
11 2 0.08
12 4 0.16
13 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAATATTAAAA
Found at i:12853003 original size:23 final size:23
Alignment explanation
Indices: 12852945--12853003 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
12852935 ATAAAAAAGG
12852945 TAAAA-AATATTAAATATTAAAA
1 TAAAATAATATTAAATATTAAAA
*
12852967 TAAAATAA-AATAAATATTTAAAA
1 TAAAATAATATTAAATA-TTAAAA
*
12852990 -AAAATAATTTTAAA
1 TAAAATAATATTAAA
12853004 AATAATATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAATAATATTAAATATTAAAA
Found at i:12861627 original size:168 final size:168
Alignment explanation
Indices: 12861322--12861628 Score: 433
Period size: 168 Copynumber: 1.8 Consensus size: 168
12861312 GTAAAATTTG
*
12861322 AAGTAAATAGGGGAGTAAAATTTGGAGGGAAAATATTAAAAAAAAATTGAGGGGGAGGGGGAATG
1 AAGTAAATAGGGGAGTAAAATTTGAAGGGAAAATATTAAAAAAAAATTGAGGGGGA----GAATG
*
12861387 GATTTGGGGTAGATGGGGGTGGGATGGGAGAGGAGTAAAAGTTTTAAAAGAAAGTGGGAGGAAGT
62 GATTTGGGGTAGATGGGGGTGGGATGGGAGAGGAGTAAAAGTTTTAAAAGAAAGTGGAAGGAAGT
12861452 AAAAGTTTTGGGGGAAAATAAAAAGTTGAGGGTTTTTGGATA
127 AAAAGTTTTGGGGGAAAATAAAAAGTTGAGGGTTTTTGGATA
* * *
12861494 AAGTGAATGGGGGAGTAAAAATTTGAAGGGAAAATATTAAAAAAAAATTG-GGGGGA-AATGGGT
1 AAGTAAATAGGGGAGT-AAAATTTGAAGGGAAAATATTAAAAAAAAATTGAGGGGGAGAATGGAT
** * *
12861557 TTGGGGTAGATGGGGGGTGGGATGGGATGA-GAGTAAAAGTTTTGGAGGGAAGTGAGAAGG-AGT
65 TTGGGGTAGAT-GGGGGTGGGATGGGA-GAGGAGTAAAAGTTTTAAAAGAAAGTG-GAAGGAAGT
12861620 AAAAGTTTT
127 AAAAGTTTT
12861629 AGAGAAAAGT
Statistics
Matches: 122, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
167 17 0.14
168 47 0.39
169 6 0.05
172 20 0.16
173 32 0.26
ACGTcount: A:0.38, C:0.00, G:0.39, T:0.23
Consensus pattern (168 bp):
AAGTAAATAGGGGAGTAAAATTTGAAGGGAAAATATTAAAAAAAAATTGAGGGGGAGAATGGATT
TGGGGTAGATGGGGGTGGGATGGGAGAGGAGTAAAAGTTTTAAAAGAAAGTGGAAGGAAGTAAAA
GTTTTGGGGGAAAATAAAAAGTTGAGGGTTTTTGGATA
Found at i:12861645 original size:29 final size:29
Alignment explanation
Indices: 12861587--12861645 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
12861577 GATGGGATGA
* ** * *
12861587 GAGTAAAAGTTTTGGAGGGAAGTGAGAAG
1 GAGTAAAAGTTTTAGAGAAAAGTAAAAAG
12861616 GAGTAAAAGTTTTAGAGAAAAGTAAAAAG
1 GAGTAAAAGTTTTAGAGAAAAGTAAAAAG
12861645 G
1 G
12861646 TTTGGAGGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (29 bp):
GAGTAAAAGTTTTAGAGAAAAGTAAAAAG
Found at i:12875912 original size:21 final size:21
Alignment explanation
Indices: 12875888--12875927 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12875878 CATATATGTT
12875888 CATTCATTTATTCTATTTTAG
1 CATTCATTTATTCTATTTTAG
*
12875909 CATTCATTTATTCTTTTTT
1 CATTCATTTATTCTATTTT
12875928 CCTTACGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.03, T:0.62
Consensus pattern (21 bp):
CATTCATTTATTCTATTTTAG
Done.