Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 181 of 195
Found at i:30775086 original size:12 final size:12
Alignment explanation
Indices: 30775069--30775093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30775059 TAAAGTTTAA
30775069 TAAAAATATTAT
1 TAAAAATATTAT
30775081 TAAAAATATTAT
1 TAAAAATATTAT
30775093 T
1 T
30775094 TATAACATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:30778423 original size:19 final size:20
Alignment explanation
Indices: 30778370--30778424 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
30778360 CTCTGGGATT
*
30778370 TGAAAAAGGATTGATCATCC
1 TGAAAAAGGATCGATCATCC
* **
30778390 AGATTAAGAGATCGATCA-CC
1 TGAAAAAG-GATCGATCATCC
30778410 TGAAAAAGGATCGAT
1 TGAAAAAGGATCGAT
30778425 TGGTACCAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 7 0.26
20 12 0.44
21 8 0.30
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (20 bp):
TGAAAAAGGATCGATCATCC
Found at i:30779887 original size:10 final size:10
Alignment explanation
Indices: 30779874--30779917 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
30779864 TTAAAATATT
30779874 ATTATTTTAA
1 ATTATTTTAA
30779884 ATTATTTT-A
1 ATTATTTTAA
30779893 ATATATTTTATA
1 AT-TATTTTA-A
*
30779905 ATTAATTTAA
1 ATTATTTTAA
30779915 ATT
1 ATT
30779918 TTAAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 3 0.10
10 18 0.60
11 6 0.20
12 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATTTTAA
Found at i:30779907 original size:21 final size:20
Alignment explanation
Indices: 30779876--30779914 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30779866 AAAATATTAT
*
30779876 TATTTTAAATTATTTTAATA
1 TATTTTAAATTAATTTAATA
30779896 TATTTTATAATTAATTTAA
1 TATTTTA-AATTAATTTAA
30779915 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTAAATTAATTTAATA
Found at i:30779944 original size:26 final size:26
Alignment explanation
Indices: 30779859--30779945 Score: 65
Period size: 26 Copynumber: 3.3 Consensus size: 26
30779849 ATATATATAT
* *
30779859 ATATATTAAAATATTATTATTTTAAAT-
1 ATATTTTAAAAT-TTATTA-ATTAAATA
*
30779886 -TATTTTAATATATTT-TATAATTAATTTA
1 ATATTTTAA-A-ATTTAT-TAATTAA-ATA
30779914 A-ATTTTAAAATTTATTAATTAAATA
1 ATATTTTAAAATTTATTAATTAAATA
30779939 ATATTTT
1 ATATTTT
30779946 GATTTGAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
25 3 0.06
26 28 0.58
27 8 0.17
28 9 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATTTTAAAATTTATTAATTAAATA
Found at i:30780295 original size:16 final size:15
Alignment explanation
Indices: 30780274--30780315 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
30780264 GTGAATAATT
30780274 ATATTTAAAATTATTA
1 ATATTTAAAATT-TTA
30780290 ATATTT-AAATTTTA
1 ATATTTAAAATTTTA
*
30780304 ATTATTAAAAAT
1 A-TATTTAAAAT
30780316 AAAATTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 9 0.39
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTAAAATTTTA
Found at i:30780320 original size:21 final size:21
Alignment explanation
Indices: 30780282--30780326 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30780272 TTATATTTAA
* * * *
30780282 AATTATTAATATTTAAATTTT
1 AATTATTAAAAATAAAATTAT
30780303 AATTATTAAAAATAAAATTAT
1 AATTATTAAAAATAAAATTAT
30780324 AAT
1 AAT
30780327 AATTTATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTATTAAAAATAAAATTAT
Found at i:30780594 original size:18 final size:17
Alignment explanation
Indices: 30780567--30780600 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30780557 ATAGCCGGCA
30780567 TTTTTTAACAAAATTAT
1 TTTTTTAACAAAATTAT
*
30780584 TTTTTTCAACAATATTA
1 TTTTTT-AACAAAATTA
30780601 ATTTGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTTAACAAAATTAT
Found at i:30781053 original size:16 final size:16
Alignment explanation
Indices: 30781034--30781097 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
30781024 TATATGACAT
*
30781034 TTAAATTATAAATATA
1 TTAAATAATAAATATA
*
30781050 TTAATTAATATAATAT-
1 TTAAATAATA-AATATA
* *
30781066 TTAAAAAATTAATCATA
1 TTAAATAATAAAT-ATA
30781083 TTAAA-AATAAATATA
1 TTAAATAATAAATATA
30781098 ACATTAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
15 6 0.15
16 23 0.59
17 10 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAATAATAAATATA
Found at i:30781115 original size:30 final size:32
Alignment explanation
Indices: 30781079--30781138 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
30781069 AAAAATTAAT
30781079 CATATTAA-AAAT-AAATA-TAACATTAATTTA
1 CATATTAATAAATCAAATACTAA-ATTAATTTA
*
30781109 CATATTAATAATTCAAATACTAAATTAATT
1 CATATTAATAAATCAAATACTAAATTAATT
30781139 ATTTTTAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 8 0.31
31 3 0.12
32 12 0.46
33 3 0.12
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.38
Consensus pattern (32 bp):
CATATTAATAAATCAAATACTAAATTAATTTA
Found at i:30781772 original size:20 final size:20
Alignment explanation
Indices: 30781730--30781774 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30781720 ATAAAAATTG
* *
30781730 ATTTATAAAATTTTTTAATA
1 ATTTATAAAATTTTATAAAA
30781750 ATTTAGTAAAA-TTTATAAAA
1 ATTTA-TAAAATTTTATAAAA
30781770 ATTTA
1 ATTTA
30781775 AATTCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTTATAAAATTTTATAAAA
Found at i:30785917 original size:2 final size:2
Alignment explanation
Indices: 30785910--30785935 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30785900 AGACATGTCC
30785910 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
30785936 TACTAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30789559 original size:20 final size:20
Alignment explanation
Indices: 30789530--30789572 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
30789520 CCTTTAAAAA
30789530 ATTTTCATTTCCTTTCATTTT
1 ATTTTCATTTCCTTTC-TTTT
30789551 ATTTT-ATTTCCTTTCTTTT
1 ATTTTCATTTCCTTTCTTTT
30789570 ATT
1 ATT
30789573 AATATGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTCATTTCCTTTCTTTT
Found at i:30798102 original size:3 final size:3
Alignment explanation
Indices: 30798094--30798139 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
30798084 TCAACCAGAG
30798094 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30798140 ATCCATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30799362 original size:12 final size:13
Alignment explanation
Indices: 30799344--30799373 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
30799334 TATTTTTATG
30799344 TAATATAAATATA
1 TAATATAAATATA
30799357 -AATATAAATATA
1 TAATATAAATATA
30799369 TAATA
1 TAATA
30799374 ATTATTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATATAAATATA
Found at i:30799456 original size:33 final size:32
Alignment explanation
Indices: 30799417--30799491 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
30799407 AGGCTTGACC
*
30799417 ATTTTTTAAACAGACCTAAAATTTAAATCTAA
1 ATTTTTTAAACAGACCTAAAATTTAAATCCAA
* * * *
30799449 AGTTTTTTTAATAGATCTAAAATTTATATCCAA
1 A-TTTTTTAAACAGACCTAAAATTTAAATCCAA
*
30799482 ATATTTTAAA
1 ATTTTTTAAA
30799492 ATTTTGAACT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (32 bp):
ATTTTTTAAACAGACCTAAAATTTAAATCCAA
Found at i:30815075 original size:24 final size:24
Alignment explanation
Indices: 30815048--30815097 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30815038 ATGTTCAACT
*
30815048 AATATAAA-TAATATTAAATATATA
1 AATATAAATTAA-ATCAAATATATA
*
30815072 AATATAAATTAACTCAAATATATA
1 AATATAAATTAAATCAAATATATA
30815096 AA
1 AA
30815098 ATATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
AATATAAATTAAATCAAATATATA
Found at i:30815155 original size:25 final size:25
Alignment explanation
Indices: 30815120--30815170 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
30815110 TTATACACAA
*
30815120 AGATAATATATTATAATTATTTTTT
1 AGATAACATATTATAATTATTTTTT
30815145 AGATAACATATTATAATTATTTTTT
1 AGATAACATATTATAATTATTTTTT
30815170 A
1 A
30815171 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
AGATAACATATTATAATTATTTTTT
Found at i:30815646 original size:17 final size:17
Alignment explanation
Indices: 30815614--30815648 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30815604 TTAATCCACT
30815614 TATAATATAAATATAAA
1 TATAATATAAATATAAA
30815631 TATAA-ATAAATCATAAA
1 TATAATATAAAT-ATAAA
30815648 T
1 T
30815649 TAAGTACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAATATAAATATAAA
Found at i:30816271 original size:12 final size:12
Alignment explanation
Indices: 30816254--30816293 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
30816244 CGGGCGCAGG
30816254 TTTTTTTCTTTC
1 TTTTTTTCTTTC
* *
30816266 TTTTTTGCTTTG
1 TTTTTTTCTTTC
30816278 TTTTTTTCGTTTC
1 TTTTTTTC-TTTC
30816291 TTT
1 TTT
30816294 GTTGTTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:30817303 original size:20 final size:20
Alignment explanation
Indices: 30817267--30817305 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30817257 AAAACTTTTA
*
30817267 TTTTTTATATTTTAAAATAT
1 TTTTTTATATTTAAAAATAT
30817287 TTTTTTA-ATATTAAAAATA
1 TTTTTTATAT-TTAAAAATA
30817306 AAAAACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTATATTTAAAAATAT
Found at i:30819066 original size:92 final size:92
Alignment explanation
Indices: 30818921--30819106 Score: 336
Period size: 92 Copynumber: 2.0 Consensus size: 92
30818911 AGATTTATGT
* *
30818921 ATAATGAATGAACAGACATAAATTTTTATTTAGATGGTTATGACCTTTTGTATAATCATAACCTT
1 ATAATGAATGAACAGACATAAATTTCTATTCAGATGGTTATGACCTTTTGTATAATCATAACCTT
*
30818986 TATGAATAATAATCTATTTATATTCAA
66 TATAAATAATAATCTATTTATATTCAA
*
30819013 ATAATGAATGAACAGACATAAATTTCTATTCAGATGGTTATGACCTTTTGTATAATCATAACTTT
1 ATAATGAATGAACAGACATAAATTTCTATTCAGATGGTTATGACCTTTTGTATAATCATAACCTT
30819078 TATAAATAATAATCTATTTATATTCAA
66 TATAAATAATAATCTATTTATATTCAA
30819105 AT
1 AT
30819107 GGTTATGACC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (92 bp):
ATAATGAATGAACAGACATAAATTTCTATTCAGATGGTTATGACCTTTTGTATAATCATAACCTT
TATAAATAATAATCTATTTATATTCAA
Found at i:30820936 original size:12 final size:12
Alignment explanation
Indices: 30820919--30820944 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30820909 GATATCCATA
30820919 ACTTAAAATTTC
1 ACTTAAAATTTC
30820931 ACTTAAAATTTC
1 ACTTAAAATTTC
30820943 AC
1 AC
30820945 ATTGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (12 bp):
ACTTAAAATTTC
Found at i:30823782 original size:24 final size:24
Alignment explanation
Indices: 30823755--30823804 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
30823745 TTTTTTAATT
*
30823755 TTTTGAATT-TTTTTAATAATATTA
1 TTTT-AATTATTTTAAATAATATTA
* *
30823779 TTTTTATTATTTTAAATATTATTA
1 TTTTAATTATTTTAAATAATATTA
30823803 TT
1 TT
30823805 AATATTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTAATTATTTTAAATAATATTA
Found at i:30823798 original size:21 final size:21
Alignment explanation
Indices: 30823772--30823811 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30823762 TTTTTTTAAT
* *
30823772 AATATTATTTTTATTATTTTA
1 AATATTATTATTAATATTTTA
30823793 AATATTATTATTAATATTT
1 AATATTATTATTAATATTT
30823812 ATGCATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATATTATTATTAATATTTTA
Found at i:30823810 original size:24 final size:24
Alignment explanation
Indices: 30823764--30823810 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
30823754 TTTTTGAATT
* **
30823764 TTTTTAATAATATTATTTTTATTA
1 TTTTAAATAATATTATTAATATTA
*
30823788 TTTTAAATATTATTATTAATATT
1 TTTTAAATAATATTATTAATATT
30823811 TATGCATGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTAAATAATATTATTAATATTA
Found at i:30823963 original size:12 final size:11
Alignment explanation
Indices: 30823946--30823985 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
30823936 TAGACCTTAT
30823946 AAAATAATAATA
1 AAAATAATAA-A
30823958 AAAATAATAAA
1 AAAATAATAAA
*
30823969 AAACATAAGAAA
1 AAA-ATAATAAA
30823981 AAAAT
1 AAAAT
30823986 TTTTTATCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.23
12 20 0.77
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:30826375 original size:22 final size:22
Alignment explanation
Indices: 30826350--30826393 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30826340 TGTATATTTA
* *
30826350 TATTTATATCCTTAGAATTAAG
1 TATTCATATCCCTAGAATTAAG
*
30826372 TATTCGTATCCCTAGAATTAAG
1 TATTCATATCCCTAGAATTAAG
30826394 GATAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (22 bp):
TATTCATATCCCTAGAATTAAG
Found at i:30834714 original size:22 final size:22
Alignment explanation
Indices: 30834688--30834731 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30834678 TGTATATTTA
*
30834688 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
30834710 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
30834732 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:30836763 original size:2 final size:2
Alignment explanation
Indices: 30836758--30836785 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30836748 TGTGTGTGTG
30836758 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
30836786 CTCAGTGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30839060 original size:22 final size:22
Alignment explanation
Indices: 30839035--30839076 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30839025 GACTATTACA
30839035 GTTCACACCCTTGTGAAGTACT
1 GTTCACACCCTTGTGAAGTACT
*
30839057 GTTCGCACCCTTGTGAAGTA
1 GTTCACACCCTTGTGAAGTA
30839077 TTGTCCGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (22 bp):
GTTCACACCCTTGTGAAGTACT
Found at i:30839157 original size:38 final size:38
Alignment explanation
Indices: 30839106--30839182 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
30839096 ATGACCTCAA
* *
30839106 GATTTTATACTATAAAAAGCGTCTCACAAGGGGAAGGC
1 GATTTTATACTATAAAAAACGTCTCACAAGGAGAAGGC
30839144 GATTTTATACTATAAAAAACGTCTCACAAGGAGAAGGC
1 GATTTTATACTATAAAAAACGTCTCACAAGGAGAAGGC
30839182 G
1 G
30839183 GTATGAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (38 bp):
GATTTTATACTATAAAAAACGTCTCACAAGGAGAAGGC
Found at i:30843864 original size:2 final size:2
Alignment explanation
Indices: 30843857--30843892 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
30843847 GTGTCTTCTG
* *
30843857 AT AT AT AT AT AT AT AT AT GT AT AC 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
30843893 CTTAATTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30856335 original size:21 final size:23
Alignment explanation
Indices: 30856291--30856337 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
30856281 TTTATGTTGA
*
30856291 ATTTGTTTAGTTATAAGTTGATTT
1 ATTTGTTTAATTATAAG-TGATTT
30856315 ATTTGTTTAATT-TAA-TGATTT
1 ATTTGTTTAATTATAAGTGATTT
30856336 AT
1 AT
30856338 AATTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.60
Consensus pattern (23 bp):
ATTTGTTTAATTATAAGTGATTT
Found at i:30859137 original size:29 final size:30
Alignment explanation
Indices: 30859099--30859155 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
30859089 ATAATTTTAT
* * *
30859099 ATTATAAATTCATTACTT-AATTTTTAAAA
1 ATTAAAAATTCAATAATTAAATTTTTAAAA
30859128 ATTAAAAATTCAATAATTAAATTTTTAA
1 ATTAAAAATTCAATAATTAAATTTTTAA
30859156 TATTGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTAAAAATTCAATAATTAAATTTTTAAAA
Found at i:30860256 original size:3 final size:3
Alignment explanation
Indices: 30860248--30860279 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
30860238 TTCTCGGTTG
*
30860248 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30860280 TATATGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30863228 original size:16 final size:15
Alignment explanation
Indices: 30863202--30863232 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30863192 TGATGCACAC
30863202 ATTTTAATTTATTTT
1 ATTTTAATTTATTTT
30863217 ATTTTAAATTTATTTT
1 ATTTT-AATTTATTTT
30863233 TTTGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTAATTTATTTT
Found at i:30863439 original size:19 final size:19
Alignment explanation
Indices: 30863415--30863494 Score: 58
Period size: 19 Copynumber: 4.4 Consensus size: 19
30863405 ACAATTTAGT
30863415 TAATTTTTATTTTATTTAA
1 TAATTTTTATTTTATTTAA
* * *
30863434 TAATTTTCAGTTAATTT--
1 TAATTTTTATTTTATTTAA
* *
30863451 TTA-TTTTATTTTATTAAA
1 TAATTTTTATTTTATTTAA
** *
30863469 TTTTTTTTATTTTATTGAA
1 TAATTTTTATTTTATTTAA
*
30863488 AAATTTT
1 TAATTTT
30863495 ATAAATACTC
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
16 9 0.20
17 2 0.04
18 2 0.04
19 32 0.71
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (19 bp):
TAATTTTTATTTTATTTAA
Found at i:30863658 original size:20 final size:20
Alignment explanation
Indices: 30863621--30863657 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30863611 CATTTTTTCA
30863621 TTATTTTTATTTATTTTTGG
1 TTATTTTTATTTATTTTTGG
*
30863641 TTATTTTTCTTT-TTTTT
1 TTATTTTTATTTATTTTT
30863658 TCAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.81
Consensus pattern (20 bp):
TTATTTTTATTTATTTTTGG
Found at i:30863843 original size:16 final size:17
Alignment explanation
Indices: 30863811--30863849 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
30863801 TTTATTGTTC
*
30863811 ATTGTTTATCTTTTTTT
1 ATTGTTTATCATTTTTT
*
30863828 TTTGTTT-TCATTTTTT
1 ATTGTTTATCATTTTTT
30863844 ATTGTT
1 ATTGTT
30863850 ATTATTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.77
Consensus pattern (17 bp):
ATTGTTTATCATTTTTT
Found at i:30864016 original size:6 final size:6
Alignment explanation
Indices: 30864008--30864042 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
30863998 TTTTTTTTGT
*
30864008 TAAAAT TAAAAG TAAAAG TAAAAG TAAAAG TAAAA
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAA
30864043 TGAAAATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (6 bp):
TAAAAG
Found at i:30866966 original size:19 final size:19
Alignment explanation
Indices: 30866942--30866986 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
30866932 GTTAATTTTT
* *
30866942 ATTTTATTTTATTTAAAAA
1 ATTTTATTGTATTGAAAAA
* *
30866961 ATTTTACTGTATTGAAAAT
1 ATTTTATTGTATTGAAAAA
30866980 ATTTTAT
1 ATTTTAT
30866987 AAATACTTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTTTATTGTATTGAAAAA
Found at i:30867130 original size:10 final size:10
Alignment explanation
Indices: 30867113--30867152 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
30867103 ACATTTTTAC
30867113 ATTA-TTTTT
1 ATTATTTTTT
30867122 ATTATTTTTT
1 ATTATTTTTT
*
30867132 GTTATTTTTT
1 ATTATTTTTT
*
30867142 GTTATTTTTT
1 ATTATTTTTT
30867152 A
1 A
30867153 AATTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 4 0.14
10 24 0.86
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (10 bp):
ATTATTTTTT
Found at i:30868099 original size:20 final size:20
Alignment explanation
Indices: 30868076--30868124 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
30868066 AAGCAAGGGA
* *
30868076 TTTTTTTTAATGGTGGTTTT
1 TTTTTTTTAACGGAGGTTTT
30868096 TTTTATTTT-ACGGAGGTTTT
1 TTTT-TTTTAACGGAGGTTTT
30868116 TTTTTTTTA
1 TTTTTTTTA
30868125 GTAATTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.12, C:0.02, G:0.16, T:0.69
Consensus pattern (20 bp):
TTTTTTTTAACGGAGGTTTT
Found at i:30868849 original size:14 final size:14
Alignment explanation
Indices: 30868827--30868856 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30868817 CATAGCCTTC
30868827 TTTTGTTTTTTTGT
1 TTTTGTTTTTTTGT
*
30868841 TTTTTTTTTTTTGT
1 TTTTGTTTTTTTGT
30868855 TT
1 TT
30868857 AATTAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (14 bp):
TTTTGTTTTTTTGT
Found at i:30875350 original size:23 final size:23
Alignment explanation
Indices: 30875322--30875369 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
30875312 CATCTGCAAT
30875322 TTTTGCAAATATTAAGATTTTAA
1 TTTTGCAAATATTAAGATTTTAA
30875345 TTTTGCAAATATTAAGATTTTAA
1 TTTTGCAAATATTAAGATTTTAA
30875368 TT
1 TT
30875370 AAAGACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (23 bp):
TTTTGCAAATATTAAGATTTTAA
Found at i:30878619 original size:23 final size:23
Alignment explanation
Indices: 30878543--30878626 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 23
30878533 ATATATAATT
*
30878543 AATAAATAAAATTTTTATTAGATAA
1 AATAAAT-ATATTTTTATTA-ATAA
* *
30878568 TATAAATTATTATTTTAAATTAATTAA
1 AATAAA-TA-TATTTT-TATTAA-TAA
*
30878595 AATAAATATATTTTTATTAAAAA
1 AATAAATATATTTTTATTAATAA
*
30878618 AATATATAT
1 AATAAATAT
30878627 TTATAGATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
23 10 0.21
24 5 0.10
25 12 0.25
26 9 0.19
27 12 0.25
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
AATAAATATATTTTTATTAATAA
Found at i:30878622 original size:19 final size:20
Alignment explanation
Indices: 30878590--30878630 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
30878580 TTTTAAATTA
*
30878590 ATTAAAATAAATATATTTTT
1 ATTAAAATAAATATATATTT
30878610 ATTAAAA-AAATATATATTT
1 ATTAAAATAAATATATATTT
30878629 AT
1 AT
30878631 AGATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAAAATAAATATATATTT
Found at i:30878624 original size:21 final size:20
Alignment explanation
Indices: 30878590--30878628 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30878580 TTTTAAATTA
*
30878590 ATTAAAATAAATATATTTTT
1 ATTAAAAAAAATATATTTTT
30878610 ATTAAAAAAATATATATTT
1 ATTAAAAAAA-ATATATTT
30878629 ATAGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAAAAAAAATATATTTTT
Found at i:30894193 original size:16 final size:16
Alignment explanation
Indices: 30894172--30894202 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30894162 AGTAATTAAT
30894172 AATATATATACATACA
1 AATATATATACATACA
*
30894188 AATATATATATATAC
1 AATATATATACATAC
30894203 CTAGAGTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATATATACATACA
Found at i:30895441 original size:16 final size:15
Alignment explanation
Indices: 30895415--30895445 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30895405 TTTCATATTC
30895415 TTTATTCATATAATT
1 TTTATTCATATAATT
30895430 TTTATCTCATATAATT
1 TTTAT-TCATATAATT
30895446 GTATTATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATTCATATAATT
Found at i:30903386 original size:21 final size:23
Alignment explanation
Indices: 30903354--30903396 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
30903344 TTAAAATTAA
30903354 TTAATAATAAAT-A-AAAAGTTT
1 TTAATAATAAATCATAAAAGTTT
30903375 TTAAT-ATAAAATCATAAAAGTT
1 TTAATAAT-AAATCATAAAAGTT
30903397 AAAATTTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 9 0.47
22 1 0.05
23 7 0.37
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
TTAATAATAAATCATAAAAGTTT
Found at i:30904120 original size:3 final size:3
Alignment explanation
Indices: 30904098--30904133 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
30904088 AGCTATAGGC
* *
30904098 AGA AGA CGA AGA AGA CGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
30904134 TACATTTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:30911500 original size:24 final size:24
Alignment explanation
Indices: 30911437--30911502 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
30911427 AAAATTATAA
30911437 TTTTTTTGAATATTTAAAATTCTTAT
1 TTTTTTTG-ATA-TTAAAATTCTTAT
* * * *
30911463 TTTTTAT-ATTTTAAAATTTTTTT
1 TTTTTTTGATATTAAAATTCTTAT
30911486 TTTTTTTGATATTAAAA
1 TTTTTTTGATATTAAAA
30911503 ATCATGAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 17 0.52
24 10 0.30
26 6 0.18
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (24 bp):
TTTTTTTGATATTAAAATTCTTAT
Found at i:30913532 original size:11 final size:11
Alignment explanation
Indices: 30913516--30913554 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
30913506 AACATGATTT
30913516 AAAATTTTAAC
1 AAAATTTTAAC
30913527 AAAATTTATAA-
1 AAAATTT-TAAC
*
30913538 ATAATTTTAAC
1 AAAATTTTAAC
30913549 AAAATT
1 AAAATT
30913555 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTTTAAC
Found at i:30913545 original size:22 final size:20
Alignment explanation
Indices: 30913518--30913561 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 20
30913508 CATGATTTAA
30913518 AATTTTAACAAAATTTATAAAT
1 AATTTTAACAAAA-TTA-AAAT
30913540 AATTTTAACAAAATTAAAAT
1 AATTTTAACAAAATTAAAAT
30913560 AA
1 AA
30913562 AAAATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.27
21 3 0.14
22 13 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTTAACAAAATTAAAAT
Found at i:30916294 original size:24 final size:25
Alignment explanation
Indices: 30916275--30916321 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
30916265 AGTTTATTTG
*
30916275 TTTGATTAT-TTTATAATTTA-ATA
1 TTTGATTATAATTATAATTTATATA
30916298 TTTGATTATAATTATAATTTATAT
1 TTTGATTATAATTATAATTTATAT
30916322 TTATAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 10 0.48
25 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTGATTATAATTATAATTTATATA
Found at i:30916301 original size:23 final size:23
Alignment explanation
Indices: 30916275--30916323 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
30916265 AGTTTATTTG
*
30916275 TTTGATTAT-TTTATAATTTAATA
1 TTTGATTATAATTATAATTT-ATA
30916298 TTTGATTATAATTATAATTTATA
1 TTTGATTATAATTATAATTTATA
30916321 TTT
1 TTT
30916324 ATAATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTGATTATAATTATAATTTATA
Found at i:30917121 original size:24 final size:24
Alignment explanation
Indices: 30917089--30917134 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30917079 TGTTAAATGT
*
30917089 TTTTTTTTTCTT-ATTTATCTTTAA
1 TTTTTTTTTATTCATTT-TCTTTAA
30917113 TTTTTTTTTATTCATTTTCTTT
1 TTTTTTTTTATTCATTTTCTTT
30917135 TGTTAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTTTTTATTCATTTTCTTTAA
Found at i:30919876 original size:4 final size:4
Alignment explanation
Indices: 30919867--30919905 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
30919857 ATGGAGGTAT
* * *
30919867 ATAC ATAC ATAC ATGC ATGC ATAC ATAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
30919906 TATATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:30919902 original size:12 final size:12
Alignment explanation
Indices: 30919867--30919924 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
30919857 ATGGAGGTAT
*
30919867 ATACATACATAC
1 ATACATATATAC
* **
30919879 ATGCATGCATAC
1 ATACATATATAC
30919891 ATACATATATAC
1 ATACATATATAC
* *
30919903 ATATATATATAT
1 ATACATATATAC
*
30919915 ATATATATAT
1 ATACATATAT
30919925 GCTTCCCTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (12 bp):
ATACATATATAC
Found at i:30919906 original size:8 final size:8
Alignment explanation
Indices: 30919864--30919924 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
30919854 CATATGGAGG
30919864 TATATACA
1 TATATACA
*
30919872 TACATACA
1 TATATACA
** *
30919880 TGCATGCA
1 TATATACA
*
30919888 TACATACA
1 TATATACA
30919896 TATATACA
1 TATATACA
*
30919904 TATATATA
1 TATATACA
*
30919912 TATATATA
1 TATATACA
30919920 TATAT
1 TATAT
30919925 GCTTCCCTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 46 1.00
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (8 bp):
TATATACA
Found at i:30919908 original size:2 final size:2
Alignment explanation
Indices: 30919895--30919924 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
30919885 GCATACATAC
*
30919895 AT AT AT AC 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
30919925 GCTTCCCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30924197 original size:3 final size:3
Alignment explanation
Indices: 30924189--30924229 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
30924179 CAATAGTCAC
*
30924189 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCC TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
30924230 CGAAAACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:30925888 original size:15 final size:15
Alignment explanation
Indices: 30925870--30925899 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30925860 TAATTTAAAG
30925870 TTTTTAAATTTCATA
1 TTTTTAAATTTCATA
30925885 TTTTTAAATTTCATA
1 TTTTTAAATTTCATA
30925900 CTTAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTAAATTTCATA
Found at i:30930481 original size:24 final size:23
Alignment explanation
Indices: 30930427--30930481 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
30930417 ATTTATTTAA
* * **
30930427 TTATAAAAATTTTGTTTATATTT
1 TTATAAAAAATTTATTTATAAAT
30930450 TTATTAAAAAATTTATTTAATAAAT
1 TTA-TAAAAAATTTATTT-ATAAAT
30930475 TTATAAA
1 TTATAAA
30930482 TTTTGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.12
24 16 0.62
25 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATAAAAAATTTATTTATAAAT
Found at i:30930556 original size:15 final size:14
Alignment explanation
Indices: 30930519--30930552 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30930509 ATATGATAAA
*
30930519 AATTTCAATTTATT
1 AATTTTAATTTATT
30930533 AATTTTAATTTATT
1 AATTTTAATTTATT
*
30930547 CATTTT
1 AATTTT
30930553 TAATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
AATTTTAATTTATT
Found at i:30932244 original size:60 final size:61
Alignment explanation
Indices: 30932100--30932275 Score: 178
Period size: 62 Copynumber: 2.9 Consensus size: 61
30932090 ACTAAAAATG
* * *
30932100 CCTTCAATAAT-TCCTTTCAATTTTTTTAAGGATTATACAAGGTGTTTTTGACAAAAAAAACA
1 CCTTCAATAATCT-CTTTCAATTTTTTTAAGGATTATTCAAGGCGTTTTTGGC-AAAAAAACA
* * * * *
30932162 CCTTCAATAATC-CACTCCAATTTTTTGAAGGATTATTTAAGGCGTTTTTGGC-TAAAAACA
1 CCTTCAATAATCTC-TTTCAATTTTTTTAAGGATTATTCAAGGCGTTTTTGGCAAAAAAACA
* * * * *
30932222 TCTTCAATAATCTCTTTTAATTTTTTTTAGAGATTATTCAAGTCATTTTTGGCA
1 CCTTCAATAATCTCTTTCAATTTTTTTAAG-GATTATTCAAGGCGTTTTTGGCA
30932276 TGAATAATCC
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
60 29 0.32
61 21 0.23
62 42 0.46
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (61 bp):
CCTTCAATAATCTCTTTCAATTTTTTTAAGGATTATTCAAGGCGTTTTTGGCAAAAAAACA
Found at i:30935937 original size:64 final size:60
Alignment explanation
Indices: 30935793--30936034 Score: 283
Period size: 62 Copynumber: 4.0 Consensus size: 60
30935783 ACTTTTATTC
* * * *
30935793 AAGAAAAATTGATACTTTCAACTTTTTCTTAACAATGTTTTTTCCTTAAAAATTTTACTTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTT--TTTAAAATTTTATTTTT
*
30935855 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTATTGAAATTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTTA---AAATTTTATTTTT
* * * *
30935918 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TATTTTTGAAAATTTTATTTTT
1 -AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTTAAAATTTTATTTTT
* * * **
30935978 AAGAAAAATTAATACTTTCAACTTTTCCTT-AAGA-ATTTTTTTAAAAAATTTTATTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTTAAAATTTTATTTT
30936035 ATATATATTT
Statistics
Matches: 159, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
57 1 0.01
58 21 0.13
59 28 0.18
60 16 0.10
62 40 0.25
63 19 0.12
64 34 0.21
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (60 bp):
AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTTAAAATTTTATTTTT
Found at i:30936019 original size:123 final size:125
Alignment explanation
Indices: 30935790--30936019 Score: 331
Period size: 123 Copynumber: 1.9 Consensus size: 125
30935780 AATACTTTTA
* * * *
30935790 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAACAATGTTTTTTCCTTAAAAATTTTACTTTT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATGATATTT-CTTAAAAATTTTACTTTT
* *
30935855 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTATTGAAATTTTATTT
65 AAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTATTGAAATTTTATTT
* * *
30935916 TTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-ATATTT-TTGAAAATTTTATTTTTA
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATGATATTTCTTAAAAATTTTACTTTTA
* *
30935979 AGAAAAATTAATACTTTCAACTTTTCCTTAAGAAT-TTTTTT
66 AGAAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTT
30936020 AAAAAATTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
122 6 0.06
123 47 0.51
125 4 0.04
126 36 0.39
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (125 bp):
TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATGATATTTCTTAAAAATTTTACTTTTA
AGAAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTATTGAAATTTTATTT
Found at i:30936056 original size:21 final size:22
Alignment explanation
Indices: 30936025--30936065 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30936015 TTTTTAAAAA
*
30936025 ATTTTATTTTATATATATTTTT
1 ATTTTATTTTAAATATATTTTT
*
30936047 ATTTT-TTTTAAATTTATTT
1 ATTTTATTTTAAATATATTT
30936066 ATACAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTATTTTAAATATATTTTT
Found at i:30937066 original size:17 final size:18
Alignment explanation
Indices: 30937046--30937092 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
30937036 ATAATTAGTC
*
30937046 AAAATAAATAAATAAATA
1 AAAATAAATAAATAAAAA
**
30937064 AAACCAAAT-AATAAAAA
1 AAAATAAATAAATAAAAA
30937081 AAAATAAA-AAAT
1 AAAATAAATAAAT
30937093 TGATCTTTAG
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAATAAATAAAAA
Found at i:30942158 original size:2 final size:2
Alignment explanation
Indices: 30942151--30942196 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
30942141 AACCAAGATT
30942151 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30942193 AG AG
1 AG AG
30942197 GAGTTTTAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30950178 original size:2 final size:2
Alignment explanation
Indices: 30950171--30950199 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30950161 ATCATAAAAC
30950171 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30950200 CAGAAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30956393 original size:12 final size:12
Alignment explanation
Indices: 30956376--30956400 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30956366 TTAATTAATC
30956376 ATTAAATAATTA
1 ATTAAATAATTA
30956388 ATTAAATAATTA
1 ATTAAATAATTA
30956400 A
1 A
30956401 ATTCTTGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAATAATTA
Found at i:30959259 original size:47 final size:47
Alignment explanation
Indices: 30959194--30959288 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
30959184 CTGTCACATT
30959194 TTGTACATTGATGAATCAGGTGTTTCACGACTACTTAGACAAATTTG
1 TTGTACATTGATGAATCAGGTGTTTCACGACTACTTAGACAAATTTG
30959241 TTGTACATTGATGAATCAGGTGTTTCACGACTACTTAGACAAATTTG
1 TTGTACATTGATGAATCAGGTGTTTCACGACTACTTAGACAAATTTG
30959288 T
1 T
30959289 AGTCATCTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (47 bp):
TTGTACATTGATGAATCAGGTGTTTCACGACTACTTAGACAAATTTG
Found at i:30962737 original size:22 final size:22
Alignment explanation
Indices: 30962719--30962818 Score: 80
Period size: 22 Copynumber: 4.4 Consensus size: 22
30962709 TGCTAATTTA
*
30962719 TTAATGATATTTTAGTAATATT
1 TTAATAATATTTTAGTAATATT
*
30962741 TTGATAATATTTTA--AATTAATT
1 TTAATAATATTTTAGTAA-T-ATT
*
30962763 TTAATGATATTATTCTAGTAATATT
1 TTAAT-A-A-TATTTTAGTAATATT
*
30962788 TTAATAATATTTTA-TATTGATT
1 TTAATAATATTTTAGTAAT-ATT
*
30962810 TAAATAATA
1 TTAATAATA
30962819 ATATATATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.03
21 4 0.06
22 36 0.57
23 2 0.03
24 2 0.03
25 14 0.22
26 1 0.02
27 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (22 bp):
TTAATAATATTTTAGTAATATT
Found at i:30962741 original size:11 final size:11
Alignment explanation
Indices: 30962725--30962801 Score: 52
Period size: 11 Copynumber: 6.7 Consensus size: 11
30962715 TTTATTAATG
30962725 ATATTTTAGTA
1 ATATTTTAGTA
30962736 ATATTTT-GATA
1 ATATTTTAG-TA
30962747 ATATTTTA--A
1 ATATTTTAGTA
30962756 ATTAATTTTAATGATA
1 A-T-ATTTT-A-G-TA
* *
30962772 TTATTCTAGTA
1 ATATTTTAGTA
*
30962783 ATATTTTAATA
1 ATATTTTAGTA
30962794 ATATTTTA
1 ATATTTTA
30962802 TATTGATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
9 2 0.04
10 2 0.04
11 39 0.75
12 2 0.04
13 1 0.02
14 4 0.08
15 1 0.02
16 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (11 bp):
ATATTTTAGTA
Found at i:30962788 original size:47 final size:44
Alignment explanation
Indices: 30962719--30962810 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 44
30962709 TGCTAATTTA
*
30962719 TTAATGATATTTTAGTAATATTTTGATAATATTTTAAATTAATT
1 TTAATGATATTTTAGTAATATTTTAATAATATTTTAAATTAATT
* *
30962763 TTAATGATATTATTCTAGTAATATTTTAATAATATTTTATATTGATT
1 TTAATGATA-T-TT-TAGTAATATTTTAATAATATTTTAAATTAATT
30962810 T
1 T
30962811 AAATAATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 9 0.21
45 1 0.02
46 2 0.05
47 30 0.71
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (44 bp):
TTAATGATATTTTAGTAATATTTTAATAATATTTTAAATTAATT
Found at i:30962825 original size:22 final size:22
Alignment explanation
Indices: 30962785--30962881 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
30962775 TTCTAGTAAT
* * *
30962785 ATTTTAATAATATTTTATATTG
1 ATTTAAATAATAATATATATTG
*
30962807 ATTTAAATAATAATATATATTA
1 ATTTAAATAATAATATATATTG
* *
30962829 ATTT--AT-CTAATTTGATATTG
1 ATTTAAATAATAATAT-ATATTG
* *
30962849 ATTTAGATAATATTATATATTG
1 ATTTAAATAATAATATATATTG
*
30962871 ATTTAACTAAT
1 ATTTAAATAAT
30962882 TATAAAAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.08
20 11 0.19
22 39 0.66
23 4 0.07
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
ATTTAAATAATAATATATATTG
Found at i:30962847 original size:42 final size:42
Alignment explanation
Indices: 30962796--30962882 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
30962786 TTTTAATAAT
* *
30962796 ATTTTATATTGATTTAAATAATAATATATATTAATTTATCTA
1 ATTTGATATTGATTTAAATAATAATATATATTAATTTAACTA
* * *
30962838 ATTTGATATTGATTTAGATAATATTATATATTGATTTAACTA
1 ATTTGATATTGATTTAAATAATAATATATATTAATTTAACTA
30962880 ATT
1 ATT
30962883 ATAAAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (42 bp):
ATTTGATATTGATTTAAATAATAATATATATTAATTTAACTA
Found at i:30972143 original size:16 final size:17
Alignment explanation
Indices: 30972112--30972146 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30972102 CCTTGACTCA
30972112 ACCATGTCAATATCATC
1 ACCATGTCAATATCATC
*
30972129 ACCATG-CAATTTCATC
1 ACCATGTCAATATCATC
30972145 AC
1 AC
30972147 AAATAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.29
Consensus pattern (17 bp):
ACCATGTCAATATCATC
Found at i:30981554 original size:15 final size:15
Alignment explanation
Indices: 30981534--30981564 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30981524 TAGACTTTTG
30981534 TATTTATTCTGTCAT
1 TATTTATTCTGTCAT
30981549 TATTTATTCTGTCAT
1 TATTTATTCTGTCAT
30981564 T
1 T
30981565 GGGAAGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (15 bp):
TATTTATTCTGTCAT
Found at i:30990059 original size:45 final size:46
Alignment explanation
Indices: 30989950--30990061 Score: 117
Period size: 45 Copynumber: 2.5 Consensus size: 46
30989940 ATATATTATT
*
30989950 TTAATATAA-TTTTTTAAAA-TTAAATAAATTTAAATATAAAATAA
1 TTAATTTAATTTTTTTAAAATTTAAATAAATTTAAATATAAAATAA
* * * * *
30989994 TTATTTTTATTTTATAAAAATTTAAA-AATATTTAAA-AT-ATATAA
1 TTAATTTAATTTTTTTAAAATTTAAATAA-ATTTAAATATAAAATAA
30990038 TTCAATTTAATTTTTTTAAAATTT
1 TT-AATTTAATTTTTTTAAAATTT
30990062 TTATTTTCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
44 13 0.24
45 29 0.54
46 12 0.22
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (46 bp):
TTAATTTAATTTTTTTAAAATTTAAATAAATTTAAATATAAAATAA
Found at i:30993567 original size:6 final size:6
Alignment explanation
Indices: 30993556--30993588 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
30993546 GGATGAAGGA
30993556 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGA
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGA
30993589 AATAAGAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:30995463 original size:13 final size:13
Alignment explanation
Indices: 30995445--30995469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30995435 GTGACCAGGG
30995445 AGAATTGATGTAC
1 AGAATTGATGTAC
30995458 AGAATTGATGTA
1 AGAATTGATGTA
30995470 AATAGATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (13 bp):
AGAATTGATGTAC
Found at i:30999441 original size:18 final size:18
Alignment explanation
Indices: 30999418--30999452 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30999408 ATCATTCACT
30999418 TATATAACTATTATAATA
1 TATATAACTATTATAATA
* *
30999436 TATATAATTATTTTAAT
1 TATATAACTATTATAAT
30999453 GCTTGTAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATAACTATTATAATA
Found at i:31000046 original size:37 final size:37
Alignment explanation
Indices: 30999979--31000050 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
30999969 TCCAATTTTA
30999979 AAAAGATATTTACTTAATAATATTACATATAAAATCT
1 AAAAGATATTTACTTAATAATATTACATATAAAATCT
* * * *
31000016 AAAATATATTTATTTATTATTATT-CAATATAAAAT
1 AAAAGATATTTACTTAATAATATTAC-ATATAAAAT
31000051 TTGTGCCGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (37 bp):
AAAAGATATTTACTTAATAATATTACATATAAAATCT
Found at i:31000373 original size:13 final size:13
Alignment explanation
Indices: 31000355--31000380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31000345 TATAATATAA
31000355 TAAAAAATTTTAT
1 TAAAAAATTTTAT
31000368 TAAAAAATTTTAT
1 TAAAAAATTTTAT
31000381 ATTCTTTTAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAAAATTTTAT
Found at i:31006879 original size:36 final size:36
Alignment explanation
Indices: 31006839--31006924 Score: 147
Period size: 35 Copynumber: 2.4 Consensus size: 36
31006829 ATCAAGTGGG
*
31006839 AATTTTTCATGCCATCAAGATCATCAATCAAATAAA
1 AATTTTTCATACCATCAAGATCATCAATCAAATAAA
*
31006875 AA-TTTTCATACCATCAAGATCATCAATCAAATAGA
1 AATTTTTCATACCATCAAGATCATCAATCAAATAAA
31006910 AATTTTTCATACCAT
1 AATTTTTCATACCAT
31006925 TGTCTCTCCC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
35 33 0.70
36 14 0.30
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (36 bp):
AATTTTTCATACCATCAAGATCATCAATCAAATAAA
Found at i:31014552 original size:71 final size:70
Alignment explanation
Indices: 31014424--31014561 Score: 177
Period size: 71 Copynumber: 2.0 Consensus size: 70
31014414 GTACTTACCC
* * * *
31014424 GATCAATCCTTCCCTTAAATGATTGATCTGTTCTTCATACATAATGAAATCCCCGTTTAAAAATC
1 GATCAATCCCTCCCTTAAAGGATCGATCTGTTCTTCATACAAAATGAAATCCCCGTTTAAAAATC
31014489 CAAAG
66 CAAAG
* * * ** *
31014494 GATCGATCCCTCCCTTAAAGGGATCGATTTGTTTTTCATACAAAATGCTATCCTCGTTTAAAAAT
1 GATCAATCCCTCCCTTAAA-GGATCGATCTGTTCTTCATACAAAATGAAATCCCCGTTTAAAAAT
31014559 CCA
65 CCA
31014562 GAAATGGGGG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
70 17 0.30
71 40 0.70
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (70 bp):
GATCAATCCCTCCCTTAAAGGATCGATCTGTTCTTCATACAAAATGAAATCCCCGTTTAAAAATC
CAAAG
Found at i:31033359 original size:21 final size:20
Alignment explanation
Indices: 31033321--31033359 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31033311 CAGTTTTTTT
*
31033321 TTTTTTAATTTATCTTTAAA
1 TTTTTTAATTTATATTTAAA
*
31033341 TTTTTTATTTGTATATTTA
1 TTTTTTAATT-TATATTTA
31033360 TATAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTTTAATTTATATTTAAA
Found at i:31034526 original size:18 final size:18
Alignment explanation
Indices: 31034503--31034541 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
31034493 GTGTCAACCC
31034503 CAAATTGAGGCTGACAAG
1 CAAATTGAGGCTGACAAG
*
31034521 CAAATTGAGGTTGACAAG
1 CAAATTGAGGCTGACAAG
31034539 CAA
1 CAA
31034542 CAATTAGGCT
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:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (18 bp):
CAAATTGAGGCTGACAAG
Found at i:31040244 original size:129 final size:130
Alignment explanation
Indices: 31040108--31040427 Score: 396
Period size: 129 Copynumber: 2.5 Consensus size: 130
31040098 TATGATATAG
* * * *
31040108 TTAATTTGGTCATATGTTAATTTTTTATCAAATAATAAAAATAACATTTTGATAATTTATTAGGA
1 TTAATTTGATCATATGTCAATTTTTTATCAAATAATAAAAAAAATATTTTGATAATTT-TTAGGA
*
31040173 AAAATATTATAGTAAATAATTATAA-A-AAAT-ATATATTCGTAATTATAATATAAG-GATATAA
65 AAAATATTATAGTAAATAATTATAAGAGAAATGATATATTCATAATTAT-ATATAAGAG-TATAA
31040234 TAA
128 TAA
* * * * * * *
31040237 TTAATTTGATCACATATCAATTTTTTATTAAATGATAGAAAGAGTATTTTGATAATATTTTAGGA
1 TTAATTTGATCATATGTCAATTTTTTATCAAATAATAAAAAAAATATTTTGATAAT-TTTTAGGA
* * * *
31040302 AATATATTATAGTAAATAATTATAAGAGAATTGATATTTTCATAATTATGTATAAGAGTATAATA
65 AAAATATTATAGTAAATAATTATAAGAGAAATGATATATTCATAATTATATATAAGAGTATAATA
31040367 A
130 A
* * * *
31040368 TCAATTTGATCATATGTCAATTTCTTATCATATAATAAAAAAAATATTTTAATAATTTTT
1 TTAATTTGATCATATGTCAATTTTTTATCAAATAATAAAAAAAATATTTTGATAATTTTT
31040428 TAAAAGATTA
Statistics
Matches: 160, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
129 76 0.47
130 7 0.04
131 62 0.39
132 15 0.09
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (130 bp):
TTAATTTGATCATATGTCAATTTTTTATCAAATAATAAAAAAAATATTTTGATAATTTTTAGGAA
AAATATTATAGTAAATAATTATAAGAGAAATGATATATTCATAATTATATATAAGAGTATAATAA
Found at i:31041028 original size:20 final size:21
Alignment explanation
Indices: 31040967--31041028 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
31040957 TATTTATATA
* *
31040967 TATTTAAT-ATATAAAATTTT
1 TATTAAATAATATAAAATTAT
31040987 TATTAAATAATAT-AAATTAT
1 TATTAAATAATATAAAATTAT
31041007 TATTTTAAATTAAT-TAAAATTA
1 TA--TTAAA-TAATATAAAATTA
31041029 ATATATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 15 0.43
21 4 0.11
22 6 0.17
23 10 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTAAATAATATAAAATTAT
Found at i:31046373 original size:22 final size:22
Alignment explanation
Indices: 31046348--31046411 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
31046338 AAATGTTGTG
*
31046348 ATTTTAATATATTTAATATTAA
1 ATTTTAATATTTTTAATATTAA
*
31046370 ATTTTAAT-TTTTTAGAAAATTAA
1 ATTTTAATATTTTT--AATATTAA
31046393 ATTTT-ATCATTTTTAATAT
1 ATTTTAAT-ATTTTTAATAT
31046412 AAAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.11
22 14 0.40
23 12 0.34
24 5 0.14
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTAATATTTTTAATATTAA
Found at i:31047842 original size:18 final size:19
Alignment explanation
Indices: 31047810--31047847 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
31047800 ACAGAAAAAC
31047810 GTTGTTCATTTTCCAATCA
1 GTTGTTCATTTTCCAATCA
31047829 GTTGTTCA-TTTCCAATCA
1 GTTGTTCATTTTCCAATCA
31047847 G
1 G
31047848 AAAGAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (19 bp):
GTTGTTCATTTTCCAATCA
Found at i:31049290 original size:21 final size:20
Alignment explanation
Indices: 31049266--31049316 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
31049256 ATTTGCATGA
31049266 TAATTTATTTGCATAATTTAT
1 TAATTTATTTGCATAA-TTAT
31049287 TAATTTGA-TTGCATAATTAT
1 TAATTT-ATTTGCATAATTAT
*
31049307 TAATATATTT
1 TAATTTATTT
31049317 ATTTGCATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 14 0.52
22 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (20 bp):
TAATTTATTTGCATAATTAT
Found at i:31049408 original size:18 final size:18
Alignment explanation
Indices: 31049366--31049411 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
31049356 ATGTTATTAG
*
31049366 TATATTTATTTGTATGAT
1 TATATTTAATTGTATGAT
31049384 T-TATTTAATTGTATGAT
1 TATATTTAATTGTATGAT
31049401 TATATTTAATT
1 TATATTTAATT
31049412 TGATTACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (18 bp):
TATATTTAATTGTATGAT
Found at i:31049445 original size:24 final size:24
Alignment explanation
Indices: 31049385--31049574 Score: 148
Period size: 24 Copynumber: 8.2 Consensus size: 24
31049375 TTGTATGATT
*
31049385 TATTTAATTGTATGATTA-T-ATT
1 TATTTAATTGTATGATTATTAATA
* **
31049407 TAATTTGATTACATGATTATTAATA
1 T-ATTTAATTGTATGATTATTAATA
* *
31049432 TATTTAATTGCATGACTATTAATA
1 TATTTAATTGTATGATTATTAATA
* * *
31049456 TATTCATTTGTATGATTA-TACT-
1 TATTTAATTGTATGATTATTAATA
* *
31049478 TAATTTGATTGCATGATTATTAATA
1 T-ATTTAATTGTATGATTATTAATA
* *
31049503 TATTTAATTATTTGATTATTAATA
1 TATTTAATTGTATGATTATTAATA
* *
31049527 TCTTTATTTGTATG---ATT-ATA
1 TATTTAATTGTATGATTATTAATA
31049547 T-TTT-ATTGTATGATTATTAATA
1 TATTTAATTGTATGATTATTAATA
31049569 TTATTT
1 -TATTT
31049575 GTATGATTAT
Statistics
Matches: 130, Mismatches: 26, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
18 7 0.05
19 3 0.02
20 4 0.03
21 6 0.05
22 5 0.04
23 31 0.24
24 70 0.54
25 4 0.03
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (24 bp):
TATTTAATTGTATGATTATTAATA
Found at i:31049508 original size:71 final size:70
Alignment explanation
Indices: 31049392--31049574 Score: 239
Period size: 71 Copynumber: 2.6 Consensus size: 70
31049382 ATTTATTTAA
* *
31049392 TTGTATGATTATATTTAATTTGATTACATGATTATTAATATATTTAATTGCATGACTATTAATAT
1 TTGTATGATTATA-TTAATTTGATTGCATGATTATTAATATATTTAATTACATGACTATTAATAT
31049457 ATTCAT
65 ATTCAT
** *
31049463 TTGTATGATTATACTTAATTTGATTGCATGATTATTAATATATTTAATTATTTGATTATTAATAT
1 TTGTATGATTATA-TTAATTTGATTGCATGATTATTAATATATTTAATTACATGACTATTAATAT
* *
31049528 CTTTAT
65 ATTCAT
*
31049534 TTGTATGATTATA-T--TTT-ATTGTATGATTATTAATATTATTT
1 TTGTATGATTATATTAATTTGATTGCATGATTATTAATA-TATTT
31049575 GTATGATTAT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
66 17 0.17
67 8 0.08
69 1 0.01
71 76 0.75
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.55
Consensus pattern (70 bp):
TTGTATGATTATATTAATTTGATTGCATGATTATTAATATATTTAATTACATGACTATTAATATA
TTCAT
Found at i:31049557 original size:18 final size:19
Alignment explanation
Indices: 31049510--31049588 Score: 90
Period size: 20 Copynumber: 4.1 Consensus size: 19
31049500 ATATATTTAA
*
31049510 TTATTTG-ATTATTAATATCT
1 TTATTTGTATGATT-ATAT-T
31049530 TTATTTGTATGATTATATT
1 TTATTTGTATGATTATATT
*
31049549 TTA-TTGTATGATTATTAATA
1 TTATTTGTATGATTA-T-ATT
31049569 TTATTTGTATGATTATATT
1 TTATTTGTATGATTATATT
31049588 T
1 T
31049589 GATTACATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.21
19 8 0.15
20 17 0.33
21 16 0.31
ACGTcount: A:0.29, C:0.01, G:0.09, T:0.61
Consensus pattern (19 bp):
TTATTTGTATGATTATATT
Found at i:31049573 original size:39 final size:40
Alignment explanation
Indices: 31049501--31049610 Score: 125
Period size: 39 Copynumber: 2.7 Consensus size: 40
31049491 TGATTATTAA
*
31049501 TATATTTAATTATTTGATTATTAATATCTTTATTTGTATGAT
1 TATATTTAATTATATGATTATTAATA--TTTATTTGTATGAT
* *
31049543 TATATTTTATTGTATGATTATTAATA-TTATTTGTATGAT
1 TATATTTAATTATATGATTATTAATATTTATTTGTATGAT
* * *
31049582 TATATTTGATTACATTATTA-TATATATTT
1 TATATTTAATTATATGATTATTA-ATATTT
31049611 GCATGAATGA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.03
39 32 0.54
40 2 0.03
42 23 0.39
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (40 bp):
TATATTTAATTATATGATTATTAATATTTATTTGTATGAT
Found at i:31051485 original size:16 final size:16
Alignment explanation
Indices: 31051460--31051491 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31051450 TTTTTTATCC
31051460 ATGTAAACATTTTTAT
1 ATGTAAACATTTTTAT
*
31051476 ATGTACACATTTTTAT
1 ATGTAAACATTTTTAT
31051492 GAATATGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.50
Consensus pattern (16 bp):
ATGTAAACATTTTTAT
Found at i:31054403 original size:36 final size:36
Alignment explanation
Indices: 31054328--31054464 Score: 118
Period size: 36 Copynumber: 3.8 Consensus size: 36
31054318 CTAAAATTTT
* * *
31054328 TGAATCTTT-GGATTTTTTGAATGTG-ATATTGGATG
1 TGAATCTTTAAGA-TTTTTGAATGTGAATCTTGAATG
*
31054363 TGAATCTTTAAGATTTTTGAATGTGAATCTTGAATA
1 TGAATCTTTAAGATTTTTGAATGTGAATCTTGAATG
** * ** *
31054399 TGAAT-TTCTATCATTTTTTAATGTGAATCTAAAAGG
1 TGAATCTT-TAAGATTTTTGAATGTGAATCTTGAATG
* **
31054435 TGAATTTTTAAGATTTTCAAATGTGAATCT
1 TGAATCTTTAAGATTTTTGAATGTGAATCT
31054465 CAAAAAAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
35 23 0.28
36 58 0.70
37 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.46
Consensus pattern (36 bp):
TGAATCTTTAAGATTTTTGAATGTGAATCTTGAATG
Found at i:31054554 original size:18 final size:17
Alignment explanation
Indices: 31054531--31054577 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
31054521 TATGTAAATT
*
31054531 TTGGAACTTTGGTGAATC
1 TTGGAACTTT-GTGAACC
31054549 TTGGAACATTTGTGAACC
1 TTGGAAC-TTTGTGAACC
31054567 TTGGAAACTTT
1 TTGG-AACTTT
31054578 ACGAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (17 bp):
TTGGAACTTTGTGAACC
Found at i:31054756 original size:13 final size:13
Alignment explanation
Indices: 31054738--31054762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31054728 TAAGTCTTTT
31054738 CATTCATTGCATA
1 CATTCATTGCATA
31054751 CATTCATTGCAT
1 CATTCATTGCAT
31054763 GTGCTTGGAA
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:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (13 bp):
CATTCATTGCATA
Found at i:31055021 original size:44 final size:43
Alignment explanation
Indices: 31054958--31055147 Score: 212
Period size: 42 Copynumber: 4.5 Consensus size: 43
31054948 TCAGATATCT
*
31054958 CATTTTATTTTTCAAAAGTTTCAATGCCTCAATTGTGAGGGAA
1 CATTTTATTTTTCAAAAGTTTCAATGCCTCAGTTGTGAGGGAA
* * *
31055001 CATTTTATTTTTTAAAAAGTTTCAAAGCCTCAGTTGT-AGGAGAT
1 CATTTTA-TTTTTCAAAAGTTTCAATGCCTCAGTTGTGAGG-GAA
*
31055045 CATTTTA-TTTTCAAAAGTTTCAATGCCTCAGTTGTG-GGAAA
1 CATTTTATTTTTCAAAAGTTTCAATGCCTCAGTTGTGAGGGAA
* ** *
31055086 GCATTTTATTTTGCAAAAGTTTCAAT--CTTTGTTGTGA-GAAA
1 -CATTTTATTTTTCAAAAGTTTCAATGCCTCAGTTGTGAGGGAA
*
31055127 GCATTTTATTTTTCCAAAGTT
1 -CATTTTATTTTTCAAAAGTT
31055148 GAAGCCTTAG
Statistics
Matches: 128, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
41 32 0.25
42 35 0.27
43 26 0.20
44 35 0.27
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAATGCCTCAGTTGTGAGGGAA
Found at i:31055185 original size:39 final size:39
Alignment explanation
Indices: 31055131--31055218 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
31055121 GAGAAAGCAT
*
31055131 TTTA-TTTTTCCAAAGTTGAAGCCTTAG-TGAAAGAA-TTA
1 TTTATTTTTTCAAAAGTTGAAGCC-TAGAT-AAAGAAGTTA
* *
31055169 TTTATTTTTTCAAAAGTTGAAGCCTCGATAGAGAAGTTA
1 TTTATTTTTTCAAAAGTTGAAGCCTAGATAAAGAAGTTA
31055208 TTTATTTTTTC
1 TTTATTTTTTC
31055219 GTGACTTCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
38 11 0.25
39 33 0.75
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (39 bp):
TTTATTTTTTCAAAAGTTGAAGCCTAGATAAAGAAGTTA
Found at i:31055329 original size:36 final size:36
Alignment explanation
Indices: 31055230--31055346 Score: 148
Period size: 37 Copynumber: 3.2 Consensus size: 36
31055220 TGACTTCATG
* * * *
31055230 TATTTTTCCAAGTTGAAGTTTCGATGGAAAAGTACTT
1 TATTTTT-CAAGTTGAAGCTTCGGTGGAGAAGTTCTT
31055267 TATTTTTCAAAGTTGAAGCCTT-GGTGGAGAAGTTCTT
1 TATTTTTC-AAGTTGAAG-CTTCGGTGGAGAAGTTCTT
31055304 TATTTTTCAAGTTGAAGCTTCGGTGGATGAA-TTCTT
1 TATTTTTCAAGTTGAAGCTTCGGTGGA-GAAGTTCTT
31055340 TATTTTT
1 TATTTTT
31055347 TTTAAAGTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
35 3 0.04
36 28 0.39
37 39 0.54
38 2 0.03
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (36 bp):
TATTTTTCAAGTTGAAGCTTCGGTGGAGAAGTTCTT
Found at i:31055347 original size:37 final size:36
Alignment explanation
Indices: 31055230--31055395 Score: 135
Period size: 37 Copynumber: 4.5 Consensus size: 36
31055220 TGACTTCATG
* * * * *
31055230 TATTTTTCCAAGTTGAAGTTTCGATGGAAAAGTACTT
1 TATTTTTTCAAGTTGAAGCTTCGGTGGAGAA-TTCTT
31055267 TA-TTTTTCAAAGTTGAAGCCTT-GGTGGAGAAGTTCTT
1 TATTTTTTC-AAGTTGAAG-CTTCGGTGGAGAA-TTCTT
31055304 TA-TTTTTCAAGTTGAAGCTTCGGTGGATGAATTCTT
1 TATTTTTTCAAGTTGAAGCTTCGGTGGA-GAATTCTT
* * * *
31055340 TATTTTTTTTAAAGTTAAAGCCTCGGTGGAG--TTTTT
1 TA--TTTTTTCAAGTTGAAGCTTCGGTGGAGAATTCTT
*
31055376 TATTTTTTCAAAATTGAAGC
1 TATTTTTTC-AAGTTGAAGC
31055396 CTTGGTTGAT
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
34 6 0.06
35 11 0.10
36 33 0.30
37 34 0.31
38 3 0.03
39 22 0.20
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (36 bp):
TATTTTTTCAAGTTGAAGCTTCGGTGGAGAATTCTT
Found at i:31055378 original size:36 final size:38
Alignment explanation
Indices: 31055269--31055420 Score: 102
Period size: 36 Copynumber: 4.1 Consensus size: 38
31055259 AAGTACTTTA
* * *
31055269 TTTTTCAAAGTTGAAGCCTTGGTGGA-GAAGTTCTTTA--
1 TTTTTTAAAGTTAAAGCCTCGGTGGATG-A-TTCTTTATT
* * *
31055306 -TTTTTCAAGTTGAAGCTTCGGTGGATGAATTCTTTATT
1 TTTTTTAAAGTTAAAGCCTCGGTGGATG-ATTCTTTATT
*
31055344 TTTTTTAAAGTTAAAGCCTCGGTGGA-G-TTTTTTA-T
1 TTTTTTAAAGTTAAAGCCTCGGTGGATGATTCTTTATT
* * * * * *
31055379 TTTTTCAAAATTGAAGCCTTGGTTGATGACTACTTTATT
1 TTTTTTAAAGTTAAAGCCTCGGTGGATGA-TTCTTTATT
31055418 TTT
1 TTT
31055421 CGAAGTTAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
35 22 0.24
36 35 0.38
37 3 0.03
38 6 0.07
39 26 0.28
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.47
Consensus pattern (38 bp):
TTTTTTAAAGTTAAAGCCTCGGTGGATGATTCTTTATT
Found at i:31055417 original size:74 final size:75
Alignment explanation
Indices: 31055230--31055460 Score: 187
Period size: 73 Copynumber: 3.1 Consensus size: 75
31055220 TGACTTCATG
* * * * * *
31055230 TATTTTTCCAAGTTGAAGTTTCGATGGA-AAAGTACTTTA--TTTTTCAAAGTTGAAGCCTTGGT
1 TATTTTT-CAAATTGAAGCTTCGGTGGATGAA-TACTTTATTTTTTTCAAAGTTAAAGCCTCGGT
31055292 GGAGAAGTTCTT
64 GGAGAAGTTCTT
* * *
31055304 TATTTTTCAAGTTGAAGCTTCGGTGGATGAATTCTTTATTTTTTTTAAAGTTAAAGCCTCGGT-G
1 TATTTTTCAAATTGAAGCTTCGGTGGATGAATACTTTATTTTTTTCAAAGTTAAAGCCTCGGTGG
*
31055368 -G-AGTTTTT
66 AGAAGTTCTT
* * * * *
31055376 TATTTTTTCAAAATTGAAGCCTT-GGTTGATGACTACTTTA--TTTTTCGAAGTTAAAACCTTGG
1 TA-TTTTTC-AAATTGAAG-CTTCGGTGGATGAATACTTTATTTTTTTCAAAGTTAAAGCCTCGG
*
31055438 TGGA-AGAGTACTT
63 TGGAGA-AGTTCTT
31055451 T-TTTTTCAAA
1 TATTTTTCAAA
31055461 AGTTTCAATA
Statistics
Matches: 129, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
72 30 0.23
73 38 0.29
74 32 0.25
75 29 0.22
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (75 bp):
TATTTTTCAAATTGAAGCTTCGGTGGATGAATACTTTATTTTTTTCAAAGTTAAAGCCTCGGTGG
AGAAGTTCTT
Found at i:31055464 original size:37 final size:37
Alignment explanation
Indices: 31055378--31055464 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
31055368 GAGTTTTTTA
* * * *
31055378 TTTTTTCAAAA-TTGAAGCCTTGGTTGATGACTACTT
1 TTTTTTCAAAAGTTAAAACCTTGGTGGAAGACTACTT
* *
31055414 TATTTTTC-GAAGTTAAAACCTTGGTGGAAGAGTACTT
1 T-TTTTTCAAAAGTTAAAACCTTGGTGGAAGACTACTT
31055451 TTTTTTCAAAAGTT
1 TTTTTTCAAAAGTT
31055465 TCAATACATC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
36 9 0.22
37 32 0.78
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (37 bp):
TTTTTTCAAAAGTTAAAACCTTGGTGGAAGACTACTT
Found at i:31056432 original size:17 final size:17
Alignment explanation
Indices: 31056389--31056432 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
31056379 AAGCCCTAAA
*
31056389 TTTTATTTGTATTTTAAT
1 TTTTATTT-TAGTTTAAT
*
31056407 TTTTTTTTTAGTTTAAT
1 TTTTATTTTAGTTTAAT
31056424 TTTTATTTT
1 TTTTATTTT
31056433 TTTGGTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAT
Found at i:31057436 original size:680 final size:678
Alignment explanation
Indices: 31055525--31057543 Score: 3362
Period size: 680 Copynumber: 3.0 Consensus size: 678
31055515 TTGACCCAAA
* * **
31055525 CAAATAGATGTTTTTT-TTTTTGTACAATTCTTATTTCACAAAAAATGCACAAATAAGAACAATT
1 CAAATAGATGTTTTTTATTTTTGTACAATTCATATTTCACAAAAAATGCACAAAAAAGGGCAATT
* * * * *
31055589 ATAGGTACCTTATCTTGTCCGAAGATTTTTTAAAATTTATTGGTTTCTAATATTGATTTTGATTT
66 ATAGGTACCTTATTTTGTCCGGAGATTTTTCAAAATTCATTGGCTTCTAATATTGATTTTGATTT
*
31055654 TGCAATTAGACCTTAATTGAAAAAGTGAATTTTTGCCTAAAGATTAAACCCTAAATTTTATTTGT
131 TGCAATTAGACCTTAATTGAAAAAGTGAATTTTTGCCTAAAGATTAAGCCCTAAATTTTATTTGT
*
31055719 ATTTTAATTTTTTTTAGCTTAACTTTTGGTTTAATTTTTATTTTTTTGGTGAAAAAAGTCAAAAT
196 ATTTTAATTTTTTTTAGTTTAACTTTTGGTTTAATTTTTATTTTTTTGGTGAAAAAAGTCAAAAT
*
31055784 CAATTGGTAAAAAACATAAAAAGGGTAAAAAGAAAAAGAAAAAAATGTGAGATTTTGCATGAAAA
261 CAATTGGTAAAAAAAATAAAAAGGGTAAAAAGAAAAAGAAAAAAATGTGAGATTTTGCATGAAAA
*
31055849 ATCTTGAATTCAATTCAATTCTTAGATTCTATCTCAAATTTTAACTTTAATGATTGACTAATTTT
326 ATCTTGAATTCAATTCAATTCTTAGATTCTATCTCAGATTTTAACTTTAATGATTGACTAATTTT
* * *
31055914 GGAAAGATTTGGGGCCCACTCTATTAAAAAATAGTAGATTACATAAAGAATAAAACTTAAAAAGA
391 GGAAAGATTTGGGGCCCACTCTATTAAAAAATGGTAGATTACACAAAGAATAAAATTTAAAAAGA
*
31055979 AATCTTAGATTCGGGAATTAATTTCTTTCAAATCGAAAGGAATTCAATTCTTATA-AAAGGACCT
456 AATCTTAGATTCGGGAATTAATTTCTTCCAAATCGAAAGGAATTCAATTCTTATATAAA-GACCT
31056043 TGAATTTGTGATTAAAGGGATGGCCTCATAGCAATTTGTTTCAAGATCAAACAGAGGTCATTGAA
520 TGAATTTGTGATTAAAGGGATGGCCTCATAGCAATTTGTTTCAAGATCAAACAGAGGTCATTGAA
* *
31056108 AAGAAAAAAATTTAGACAAAATTTTGAATCAACAAGGAAGAAACAAACAAGCGAAAAATTGCAAA
585 AAGAGAAAAATTTAGACAAAATTTTGAATCAACAAGGAAGAAACAATCAAGCGAAAAATTGCAAA
*
31056173 AAGATTCGATTGAAGTTTTTTGAAAAATTG
650 AAGATTCGATTGAAG-TTTTTCAAAAATTG
*
31056203 CAAATAGATGTTTTTTATTTTTGTACAATTCATATTTCACAAAAAAATGCACAAAGAAGGGCAAT
1 CAAATAGATGTTTTTTATTTTTGTACAATTCATATTTCAC-AAAAAATGCACAAAAAAGGGCAAT
* *
31056268 TATAGATACCTTATTTTGTCCGGAGATTTTTCGAAATTCATTGGCTTCTAATATTGATTTTGATT
65 TATAGGTACCTTATTTTGTCCGGAGATTTTTCAAAATTCATTGGCTTCTAATATTGATTTTGATT
*
31056333 TTGCAATTAGACCTTAATTGAAAAAGTGATTTTTTGCCTAAAGATTAAGCCCTAAATTTTATTTG
130 TTGCAATTAGACCTTAATTGAAAAAGTGAATTTTTGCCTAAAGATTAAGCCCTAAATTTTATTTG
31056398 TATTTTAA-TTTTTTT--TTT-A------GTTTAATTTTTATTTTTTTGGTGAAAAAAGTCAAAA
195 TATTTTAATTTTTTTTAGTTTAACTTTTGGTTTAATTTTTATTTTTTTGGTGAAAAAAGTCAAAA
* *
31056453 TCAATTGGTAAAAAATATAAAAAGGGCAAAAAGAAAAAGAAAAAAATGTGAGATTTTGCAT-AGA
260 TCAATTGGTAAAAAAAATAAAAAGGGTAAAAAGAAAAAGAAAAAAATGTGAGATTTTGCATGA-A
* * *
31056517 AAATCTTCAATTCAATTCAATTCTTAGATTCTATTTTAGATTTTAACTTTAATGATTGACTAATT
324 AAATCTTGAATTCAATTCAATTCTTAGATTCTATCTCAGATTTTAACTTTAATGATTGACTAATT
* *
31056582 TTGGAAAGATTTGGGGCCTACTCTATTAAAAAATGGTAGATTATACAAAGAATAAAATTTAAAAA
389 TTGGAAAGATTTGGGGCCCACTCTATTAAAAAATGGTAGATTACACAAAGAATAAAATTTAAAAA
* *
31056647 GAAATCTTAGATTCGAGAATTAATTTCTTCCAAATCGAAAGGAATTCAATTCTTATATAAGGACC
454 GAAATCTTAGATTCGGGAATTAATTTCTTCCAAATCGAAAGGAATTCAATTCTTATATAAAGACC
31056712 TTGAATTTGTGATTAAAGGGATGGCCTCATAGCAATTTGTTTCAAGATCAAACAGAGGTCATTGA
519 TTGAATTTGTGATTAAAGGGATGGCCTCATAGCAATTTGTTTCAAGATCAAACAGAGGTCATTGA
* * *
31056777 AAAGAGAAAAATTTAGACAAAATTTTAAATCAACAAGGAAGAAACAATCAAGCAAAAAATTGTAA
584 AAAGAGAAAAATTTAGACAAAATTTTGAATCAACAAGGAAGAAACAATCAAGCGAAAAATTGCAA
31056842 AAAGATTCGATTGAAGTTTTTCAAAAATTTG
649 AAAGATTCGATTGAAGTTTTTCAAAAA-TTG
* * *
31056873 CAAATAGATTTTTTTTATTTTTGTACAATTCCTATTTCACAAAAAATGTACAAAAAAGGGCAATT
1 CAAATAGATGTTTTTTATTTTTGTACAATTCATATTTCACAAAAAATGCACAAAAAAGGGCAATT
*
31056938 ATAGGTACCATATTTTGTCCGGAGATTTTTCAAAAATTCATTGGCTTCTAATATTGATTTTGATT
66 ATAGGTACCTTATTTTGTCCGGAGATTTTTC-AAAATTCATTGGCTTCTAATATTGATTTTGATT
* * * *
31057003 TTGCAATTGGACCTTAATTGGAAATGTGAATTTTTGCCTAAAGATTAAGCCTTAAATTTTATTTG
130 TTGCAATTAGACCTTAATTGAAAAAGTGAATTTTTGCCTAAAGATTAAGCCCTAAATTTTATTTG
* *
31057068 TATTTTAATTTTTTTTAGTTTAACTTTTGGTTTAATTTTTATTTTTTTAGTGAAGAAAGTCAAAA
195 TATTTTAATTTTTTTTAGTTTAACTTTTGGTTTAATTTTTATTTTTTTGGTGAAAAAAGTCAAAA
31057133 TCAATTGGTAAAAAAAATAAAAAGGGTAAAAAGAAAAAGAAAAAAATGTGAGATTTTGCATGAAA
260 TCAATTGGTAAAAAAAATAAAAAGGGTAAAAAGAAAAAGAAAAAAATGTGAGATTTTGCATGAAA
31057198 AATCTTGAATTCAATTCAATTCTTAGATTCTATCTCAGATTTTAACTTTAATGATTGACTAATTT
325 AATCTTGAATTCAATTCAATTCTTAGATTCTATCTCAGATTTTAACTTTAATGATTGACTAATTT
* ** *
31057263 TGGAAAGATTTTGGGCCCGTTCTATTAAAAAATGGTAGATTGCACAAAGAATAAAATTTAAAAAG
390 TGGAAAGATTTGGGGCCCACTCTATTAAAAAATGGTAGATTACACAAAGAATAAAATTTAAAAAG
* * *
31057328 AGATCTTAGATTCGGGAATTAATTTCTTCCAAATCGAAAGGAATTTAATTCCTATATAAAGACCT
455 AAATCTTAGATTCGGGAATTAATTTCTTCCAAATCGAAAGGAATTCAATTCTTATATAAAGACCT
* * * *
31057393 TGAATCTGTGATTAAAGGGATGGCATTATAGCAATTCGTTTCAAGATCAAACAGAGGTCATTGAA
520 TGAATTTGTGATTAAAGGGATGGCCTCATAGCAATTTGTTTCAAGATCAAACAGAGGTCATTGAA
31057458 AAGAGAAAAATTTAGACAAAATTTTGAATCAACAAGGAAGAAACAATCAAGCGAAAAATTGCAAA
585 AAGAGAAAAATTTAGACAAAATTTTGAATCAACAAGGAAGAAACAATCAAGCGAAAAATTGCAAA
* *
31057523 AATATTCGATTGATGTTTTTC
650 AAGATTCGATTGAAGTTTTTC
31057544 GAAAGAATGC
Statistics
Matches: 1251, Mismatches: 73, Indels: 32
0.92 0.05 0.02
Matches are distributed among these distances:
669 63 0.05
670 558 0.45
671 9 0.01
673 3 0.00
674 1 0.00
676 1 0.00
677 2 0.00
678 16 0.01
679 29 0.02
680 568 0.45
681 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (678 bp):
CAAATAGATGTTTTTTATTTTTGTACAATTCATATTTCACAAAAAATGCACAAAAAAGGGCAATT
ATAGGTACCTTATTTTGTCCGGAGATTTTTCAAAATTCATTGGCTTCTAATATTGATTTTGATTT
TGCAATTAGACCTTAATTGAAAAAGTGAATTTTTGCCTAAAGATTAAGCCCTAAATTTTATTTGT
ATTTTAATTTTTTTTAGTTTAACTTTTGGTTTAATTTTTATTTTTTTGGTGAAAAAAGTCAAAAT
CAATTGGTAAAAAAAATAAAAAGGGTAAAAAGAAAAAGAAAAAAATGTGAGATTTTGCATGAAAA
ATCTTGAATTCAATTCAATTCTTAGATTCTATCTCAGATTTTAACTTTAATGATTGACTAATTTT
GGAAAGATTTGGGGCCCACTCTATTAAAAAATGGTAGATTACACAAAGAATAAAATTTAAAAAGA
AATCTTAGATTCGGGAATTAATTTCTTCCAAATCGAAAGGAATTCAATTCTTATATAAAGACCTT
GAATTTGTGATTAAAGGGATGGCCTCATAGCAATTTGTTTCAAGATCAAACAGAGGTCATTGAAA
AGAGAAAAATTTAGACAAAATTTTGAATCAACAAGGAAGAAACAATCAAGCGAAAAATTGCAAAA
AGATTCGATTGAAGTTTTTCAAAAATTG
Found at i:31057792 original size:21 final size:20
Alignment explanation
Indices: 31057767--31057809 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
31057757 TCCCTAATAT
*
31057767 ATTTAATTGCATAATTTATTA
1 ATTTAATTGCACAA-TTATTA
31057788 ATTTAATTGCACAATTATTA
1 ATTTAATTGCACAATTATTA
31057808 AT
1 AT
31057810 ATATTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTAATTGCACAATTATTA
Found at i:31057877 original size:23 final size:23
Alignment explanation
Indices: 31057851--31058017 Score: 77
Period size: 20 Copynumber: 7.9 Consensus size: 23
31057841 ATGTGTGTAA
31057851 TTGCATG-TTATTAATATATTTAT
1 TTGCATGATTATT-ATATATTTAT
*
31057874 TTGC---ATTA-T-T-TATTTAA
1 TTGCATGATTATTATATATTTAT
* *
31057891 TTGTATGATTA-TATTTAATTTGA-
1 TTGCATGATTATTATAT-ATTT-AT
*
31057914 TTGCATGATTGTTAATATATTTAT
1 TTGCATGATTATT-ATATATTTAT
*
31057938 TTG--T-ATGATTATAT-TTTA-
1 TTGCATGATTATTATATATTTAT
*
31057956 TTGTATGATTATTAATATATTTAT
1 TTGCATGATTATT-ATATATTTAT
* *
31057980 TTG--TG-TGATTATAT-TTGA-
1 TTGCATGATTATTATATATTTAT
31057998 TTGCATGATTA-TATATATTT
1 TTGCATGATTATTATATATTT
31058018 GCATAAATTA
Statistics
Matches: 111, Mismatches: 12, Indels: 44
0.66 0.07 0.26
Matches are distributed among these distances:
17 9 0.08
18 7 0.06
19 7 0.06
20 22 0.20
21 21 0.19
22 8 0.07
23 22 0.20
24 12 0.11
25 3 0.03
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TTGCATGATTATTATATATTTAT
Found at i:31057907 original size:18 final size:18
Alignment explanation
Indices: 31057865--31057967 Score: 69
Period size: 18 Copynumber: 6.2 Consensus size: 18
31057855 ATGTTATTAA
* * *
31057865 TATATTTATTTGCATTAT
1 TATATTTAATTGTATGAT
31057883 T-TATTTAATTGTATGAT
1 TATATTTAATTGTATGAT
31057900 TATATTTAA-T-T-TGAT
1 TATATTTAATTGTATGAT
** * *
31057915 TGCA--TGATTGT-T-AA
1 TATATTTAATTGTATGAT
*
31057929 TATATTTATTTGTATGAT
1 TATATTTAATTGTATGAT
*
31057947 TATATTTTATTGTATGAT
1 TATATTTAATTGTATGAT
31057965 TAT
1 TAT
31057968 TAATATATTT
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
13 2 0.03
14 4 0.06
15 8 0.12
16 6 0.09
17 16 0.25
18 28 0.44
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (18 bp):
TATATTTAATTGTATGAT
Found at i:31057945 original size:24 final size:23
Alignment explanation
Indices: 31057884--31057989 Score: 82
Period size: 24 Copynumber: 4.7 Consensus size: 23
31057874 TTGCATTATT
* * *
31057884 TATTTAATTGTATGATTAT-ATT
1 TATTTATTTGTATGATTTTAATA
*
31057906 TAATTTGA-TTGCATGATTGTTAATA
1 T-ATTT-ATTTGTATGATT-TTAATA
31057931 TATTTATTTGTATGA--TT-ATA
1 TATTTATTTGTATGATTTTAATA
31057951 T-TTTA-TTGTATGATTATTAATA
1 TATTTATTTGTATGATT-TTAATA
*
31057973 TATTTATTTGTGTGATT
1 TATTTATTTGTATGATT
31057990 ATATTTGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
18 8 0.12
19 4 0.06
20 4 0.06
21 4 0.06
22 5 0.07
23 18 0.26
24 22 0.32
25 3 0.04
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (23 bp):
TATTTATTTGTATGATTTTAATA
Done.