Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold500
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: 2046043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:317807 original size:13 final size:13
Alignment explanation
Indices: 317792--317834 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
317782 ATAAAAATAT
*
317792 ATTTAATTTTTAT
1 ATTTAATTTTTAA
317805 ATTTAA-TTTTAA
1 ATTTAATTTTTAA
317817 ATTTAATTATTTAA
1 ATTTAATT-TTTAA
317831 ATTT
1 ATTT
317835 TTATTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.41
13 7 0.26
14 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTAATTTTTAA
Found at i:317841 original size:25 final size:25
Alignment explanation
Indices: 317792--317863 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
317782 ATAAAAATAT
*
317792 ATTTAATT-TTTATATTTAATT-TTAA
1 ATTTAATTATTTAAATTT--TTATTAA
317817 ATTTAATTATTTAAATTTTTATTAA
1 ATTTAATTATTTAAATTTTTATTAA
*
317842 GTTTAAATTA-TTAAATTTTTAT
1 ATTT-AATTATTTAAATTTTTAT
317864 ATTAATTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.05
25 27 0.64
26 13 0.31
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (25 bp):
ATTTAATTATTTAAATTTTTATTAA
Found at i:317872 original size:25 final size:24
Alignment explanation
Indices: 317816--317873 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
317806 TTTAATTTTA
*
317816 AATTTAATTATTTAAATTTTTATT
1 AATTAAATTATTTAAATTTTTATT
317840 AAGTTTAAATTA-TTAAATTTTTATATT
1 AA--TTAAATTATTTAAA-TTTT-TATT
317867 AATTAAA
1 AATTAAA
317874 AAAATAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 2 0.07
25 10 0.34
26 11 0.38
27 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
AATTAAATTATTTAAATTTTTATT
Found at i:318852 original size:45 final size:45
Alignment explanation
Indices: 318803--318898 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
318793 TAACACAAAT
*
318803 TAAAAATTTATATAAATTTAAACCCAAACCCAATTAAAATCTAAC
1 TAAAAATTTATATAAATTTAAACCCAAACCCAATTAAAAACTAAC
* * *
318848 TAAAAATTTATATAAATTTAAACTCAAACTCAATTAAAAACTAAT
1 TAAAAATTTATATAAATTTAAACCCAAACCCAATTAAAAACTAAC
318893 TAAAAA
1 TAAAAA
318899 AAATAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (45 bp):
TAAAAATTTATATAAATTTAAACCCAAACCCAATTAAAAACTAAC
Found at i:318885 original size:22 final size:22
Alignment explanation
Indices: 318815--318885 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
318805 AAAATTTATA
* *
318815 TAAATTTAAACCCAAACCCAAT
1 TAAATTTAAACTCAAACTCAAT
* * * **
318837 TAAAATCT-AACTAAAAATTTAT
1 T-AAATTTAAACTCAAACTCAAT
318859 ATAAATTTAAACTCAAACTCAAT
1 -TAAATTTAAACTCAAACTCAAT
318882 TAAA
1 TAAA
318886 AACTAATTAA
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATTTAAACTCAAACTCAAT
Found at i:319058 original size:6 final size:6
Alignment explanation
Indices: 319047--319114 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
319037 AAGTAGATCG
* *
319047 GCAATA GCAATA GCAACA GCAACA GCAACA GCAACA GC--CA -CAACA
1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA
* * *
319092 ACAATCG GCAACA GCAATA GCAA
1 GCAA-CA GCAACA GCAACA GCAA
319115 TAATTACTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 2 0.04
6 44 0.83
7 4 0.08
ACGTcount: A:0.49, C:0.29, G:0.16, T:0.06
Consensus pattern (6 bp):
GCAACA
Found at i:320883 original size:27 final size:28
Alignment explanation
Indices: 320851--320915 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
320841 CCACCTATTT
320851 ATTTGTCAAAAATGGTGG-TTATTTTGTG
1 ATTTGTCAAAAATGGTGGTTTATTTTG-G
*
320879 -TTTGTCAAAAATGGTGGTTTCTTTTGG
1 ATTTGTCAAAAATGGTGGTTTATTTTGG
320906 ATTTGTCAAA
1 ATTTGTCAAA
320916 TATAGAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (28 bp):
ATTTGTCAAAAATGGTGGTTTATTTTGG
Found at i:326688 original size:16 final size:16
Alignment explanation
Indices: 326667--326699 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
326657 TACTTACTTT
326667 TTGAAAATTAAGCTGG
1 TTGAAAATTAAGCTGG
326683 TTGAAAATTAAGCTGG
1 TTGAAAATTAAGCTGG
326699 T
1 T
326700 CAATATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (16 bp):
TTGAAAATTAAGCTGG
Found at i:330004 original size:20 final size:20
Alignment explanation
Indices: 329968--330021 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
329958 AGTTAAAATA
* *
329968 AAAATTATGACAAATATGAT
1 AAAATTATAATAAATATGAT
*
329988 CAAAATTAT-ATAAATATTAT
1 -AAAATTATAATAAATATGAT
330008 AAAATTATAATAAA
1 AAAATTATAATAAA
330022 AAATCAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 8 0.27
20 14 0.47
21 8 0.27
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAATTATAATAAATATGAT
Found at i:330030 original size:19 final size:21
Alignment explanation
Indices: 329968--330035 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 21
329958 AGTTAAAATA
* * *
329968 AAAATTATGACAAATATGATC
1 AAAATTATAATAAATATAATC
*
329989 AAAATTAT-ATAAATATTAT-
1 AAAATTATAATAAATATAATC
330008 AAAATTATAATAAA-A-AATC
1 AAAATTATAATAAATATAATC
*
330027 AAAACTATA
1 AAAATTATA
330036 TTGAAAGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.05
19 17 0.41
20 14 0.34
21 8 0.20
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATTATAATAAATATAATC
Found at i:333157 original size:55 final size:55
Alignment explanation
Indices: 333080--333185 Score: 122
Period size: 55 Copynumber: 1.9 Consensus size: 55
333070 TTGTTTTAAT
* * *
333080 GTTTAAATATGAAAATCGAAATAATATTGTTAGTTGAGATTATTATTAGTTTAGG
1 GTTTAAATATGAAAATCAAAATAACAATGTTAGTTGAGATTATTATTAGTTTAGG
** * * * * *
333135 GTTTAAATATTTAAATTAAAATAACAATGTTTGTTGATATTGTTTTTAGTT
1 GTTTAAATATGAAAATCAAAATAACAATGTTAGTTGAGATTATTATTAGTT
333186 GTTTTTGCTG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 41 1.00
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (55 bp):
GTTTAAATATGAAAATCAAAATAACAATGTTAGTTGAGATTATTATTAGTTTAGG
Found at i:333201 original size:25 final size:25
Alignment explanation
Indices: 333164--333216 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
333154 AATAACAATG
* * *
333164 TTTGTTGATATTGTT-TTTAGTTGTT
1 TTTGCTGAGATTGTTATTT-GTTGAT
333189 TTTGCTGAGATTGTTATTTGTTGAT
1 TTTGCTGAGATTGTTATTTGTTGAT
333214 TTT
1 TTT
333217 AGCGAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.13, C:0.02, G:0.21, T:0.64
Consensus pattern (25 bp):
TTTGCTGAGATTGTTATTTGTTGAT
Found at i:333507 original size:102 final size:102
Alignment explanation
Indices: 333331--333635 Score: 592
Period size: 102 Copynumber: 3.0 Consensus size: 102
333321 TACTTATACT
333331 ATTATTTATGACAGAATGGGCTATGAATCATATATAATTAAGTTTCATTATGTTGGGGTTTTTAT
1 ATTATTTATGACAGAATGGGCTATGAATCATATATAATTAAGTTTCATTATGTTGGGGTTTTTAT
333396 TGGTAAGGGTCATAATGTGAAGTATATAAATGAGATA
66 TGGTAAGGGTCATAATGTGAAGTATATAAATGAGATA
333433 ATTATTTATGACAGAATGGGCTATGAATCATATATAATTAAGTTTCATTATGTTGGGGTTTTTAT
1 ATTATTTATGACAGAATGGGCTATGAATCATATATAATTAAGTTTCATTATGTTGGGGTTTTTAT
333498 TGGTAAGGGTCATAATGTGAAGTATATAAATGAGATA
66 TGGTAAGGGTCATAATGTGAAGTATATAAATGAGATA
*
333535 ATTATTTATGACAGAATAGGCTATGAATCATATATAATTAAGTTTCATTATGTTGGGGTTTTTAT
1 ATTATTTATGACAGAATGGGCTATGAATCATATATAATTAAGTTTCATTATGTTGGGGTTTTTAT
*
333600 TGGTAAGGGTCATAATGTGAAGTATATAGATGAGAT
66 TGGTAAGGGTCATAATGTGAAGTATATAAATGAGAT
333636 TTTTAAGGAC
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 201 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (102 bp):
ATTATTTATGACAGAATGGGCTATGAATCATATATAATTAAGTTTCATTATGTTGGGGTTTTTAT
TGGTAAGGGTCATAATGTGAAGTATATAAATGAGATA
Found at i:333918 original size:29 final size:30
Alignment explanation
Indices: 333876--333949 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 30
333866 CCTAAAGAGT
333876 GTATAAGAGTGTA-TTGCTACTAGATCTAA
1 GTATAAGAGTGTATTTGCTACTAGATCTAA
* *
333905 GTATAAGAGTGTATTGCTTGCTGCTAGATTTAA
1 GTATAAGAGTGTA-T--TTGCTACTAGATCTAA
333938 GTATAAGAGTGT
1 GTATAAGAGTGT
333950 GAGAGCTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 13 0.33
33 26 0.67
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (30 bp):
GTATAAGAGTGTATTTGCTACTAGATCTAA
Found at i:335637 original size:21 final size:21
Alignment explanation
Indices: 335607--335696 Score: 99
Period size: 21 Copynumber: 4.1 Consensus size: 21
335597 TCATAAAGGA
* * *
335607 AAAAAAAGAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
335628 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
335649 AAAAAGAGAAGTAACTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
*
335670 AAAAAGAAATGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
335694 AAA
1 AAA
335697 TCTTTTTGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
21 41 0.71
23 1 0.02
24 16 0.28
ACGTcount: A:0.57, C:0.09, G:0.21, T:0.13
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:337727 original size:15 final size:15
Alignment explanation
Indices: 337707--337751 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
337697 TATAAGTGAA
337707 TATAAATTTTAAAAT
1 TATAAATTTTAAAAT
*
337722 TATAAATATTTAATATT
1 TATAAAT-TTTAA-AAT
*
337739 TAAAAATTTTAAA
1 TATAAATTTTAAA
337752 TATCAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 8 0.31
16 10 0.38
17 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAATTTTAAAAT
Found at i:337760 original size:24 final size:22
Alignment explanation
Indices: 337705--337760 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
337695 TTTATAAGTG
337705 AATATAAAT-TTTAAAATTATA
1 AATATAAATATTTAAAATTATA
* *
337726 AATATTTAATATTTAAAAATTTTA
1 AATA-TAAATATTT-AAAATTATA
337750 AATATCAAATA
1 AATAT-AAATA
337761 AATAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
23 4 0.14
24 16 0.57
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATAAATATTTAAAATTATA
Found at i:341550 original size:19 final size:19
Alignment explanation
Indices: 341526--341563 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
341516 TCACTGATAC
341526 ACCTTTTTTCCTTTGTTTG
1 ACCTTTTTTCCTTTGTTTG
341545 ACCTTTTTTCCTTTGTTTG
1 ACCTTTTTTCCTTTGTTTG
341564 TTAATGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.21, G:0.11, T:0.63
Consensus pattern (19 bp):
ACCTTTTTTCCTTTGTTTG
Found at i:347730 original size:2 final size:2
Alignment explanation
Indices: 347725--347817 Score: 116
Period size: 2 Copynumber: 46.5 Consensus size: 2
347715 TATATATATA
* * *
347725 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TA TG TA TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
** *
347767 TG TG TG TG T- TCG TG TG TG CA TG TG TG TG TG TG TG TT TG TG TG
1 TG TG TG TG TG T-G TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
347809 TG TG TG TG T
1 TG TG TG TG T
347818 ATATATATAT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.01
2 75 0.97
3 1 0.01
ACGTcount: A:0.04, C:0.02, G:0.43, T:0.51
Consensus pattern (2 bp):
TG
Found at i:347822 original size:2 final size:2
Alignment explanation
Indices: 347817--347845 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
347807 TGTGTGTGTG
347817 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
347846 TTTTTTACTA
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:359380 original size:23 final size:23
Alignment explanation
Indices: 359329--359382 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
359319 TATATTTTTA
* *
359329 AATATTTTGATTTTTTTATCTTT
1 AATATTTTGATTTTTTTATATAT
359352 AATATTTTGATTTTTTTA-ATAT
1 AATATTTTGATTTTTTTATATAT
359374 AATTATTTT
1 AA-TATTTT
359383 TTTATCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
AATATTTTGATTTTTTTATATAT
Found at i:363156 original size:17 final size:15
Alignment explanation
Indices: 363136--363187 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
363126 TAAATATTAA
363136 AAATTTTACTTTTAATT
1 AAATTTTA-TTTT-ATT
*
363153 AAATTTTGAATTTTTTT
1 AAATTTT--ATTTTATT
363170 AAATTTTATTTT-TT
1 AAATTTTATTTTATT
363184 AAAT
1 AAAT
363188 AAAAAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.19
15 5 0.16
17 16 0.50
18 4 0.12
19 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
AAATTTTATTTTATT
Found at i:364198 original size:15 final size:14
Alignment explanation
Indices: 364178--364214 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
364168 CTTCAAATTG
364178 AATTAAATTTAATAT
1 AATTAAATTTAA-AT
364193 AATTAAATTTAAAT
1 AATTAAATTTAAAT
*
364207 AAATAAAT
1 AATTAAAT
364215 AAAAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTAAATTTAAAT
Found at i:366635 original size:11 final size:11
Alignment explanation
Indices: 366619--366648 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
366609 AAATAATAGA
*
366619 TATTTAAGCAT
1 TATTTAAACAT
366630 TATTTAAACAT
1 TATTTAAACAT
366641 TATTTAAA
1 TATTTAAA
366649 TTAAAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
TATTTAAACAT
Found at i:373807 original size:15 final size:15
Alignment explanation
Indices: 373774--373812 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
373764 TTTATTTTTT
* *
373774 TAAAATATTTATATT
1 TAAAATATTTAAATA
373789 TAAAATATTTAAATA
1 TAAAATATTTAAATA
373804 TAAATATAT
1 TAAA-ATAT
373813 GATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAAATATTTAAATA
Found at i:373879 original size:17 final size:17
Alignment explanation
Indices: 373841--373882 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
373831 TATAAAATAT
*
373841 ATATTTAAAAAATATTT
1 ATATTTAAAAAATATTC
* *
373858 TTATTTAAAATATATTC
1 ATATTTAAAAAATATTC
373875 ATATTTAA
1 ATATTTAA
373883 TATTTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTAAAAAATATTC
Found at i:378083 original size:2 final size:2
Alignment explanation
Indices: 378078--378105 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
378068 CAATTATCTC
378078 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
378106 TTGCAACACC
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):
AT
Found at i:378166 original size:2 final size:2
Alignment explanation
Indices: 378159--378199 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
378149 TGTTAATACA
378159 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
378200 GTGTGAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:380463 original size:18 final size:20
Alignment explanation
Indices: 380421--380467 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
380411 TTTCAATATT
380421 TTTTTAATATTAAAAATTATA
1 TTTTTAATATT-AAAATTATA
*
380442 TTTTTAATATT-TAATT-TA
1 TTTTTAATATTAAAATTATA
380460 TTTTTAAT
1 TTTTTAAT
380468 TAAACAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
21 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATATTAAAATTATA
Found at i:384706 original size:23 final size:23
Alignment explanation
Indices: 384663--384706 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
384653 TCATGTTCAA
* *
384663 ATTCAAATAACATAGCTAAGATC
1 ATTCAAATAACATAACCAAGATC
384686 ATTCAAATAACATAACCAAGA
1 ATTCAAATAACATAACCAAGA
384707 ACAACATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (23 bp):
ATTCAAATAACATAACCAAGATC
Found at i:389384 original size:18 final size:18
Alignment explanation
Indices: 389358--389392 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
389348 TATTAATATT
*
389358 TATTTTAAATTAATTAAA
1 TATTATAAATTAATTAAA
389376 TATTATAAATTAATTAA
1 TATTATAAATTAATTAA
389393 TTAAATTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTATAAATTAATTAAA
Found at i:389954 original size:16 final size:17
Alignment explanation
Indices: 389933--389964 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
389923 CCCCCCTTCC
389933 AAAAGAAAAA-AAAAAA
1 AAAAGAAAAAGAAAAAA
389949 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
389965 GACACGGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAA
Found at i:389965 original size:6 final size:6
Alignment explanation
Indices: 389933--389966 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
389923 CCCCCCTTCC
389933 AAAAGA AAAA-A AAAA-A AAAAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
389967 CACGGAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:391185 original size:31 final size:32
Alignment explanation
Indices: 391144--391206 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
391134 TGGTCGTCGG
* * *
391144 AATATTTTAAAA-TTTTATTATATAAATTATT
1 AATATATTAAAATTTTTATAATATAAAATATT
391175 AATATATTAAAATTTTTATAATATAAAATATT
1 AATATATTAAAATTTTTATAATATAAAATATT
391207 TTAAATATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
AATATATTAAAATTTTTATAATATAAAATATT
Found at i:391198 original size:17 final size:16
Alignment explanation
Indices: 391167--391214 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
391157 TTTATTATAT
*
391167 AAATTATTAATATATTA
1 AAATTTTTAA-ATATTA
391184 AAATTTTTATAATA-TA
1 AAATTTTTA-AATATTA
391200 AAATATTTTAAATAT
1 AAAT-TTTTAAATAT
391215 GATTATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.37
17 16 0.59
18 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATTTTTAAATATTA
Found at i:391235 original size:21 final size:18
Alignment explanation
Indices: 391219--391255 Score: 65
Period size: 18 Copynumber: 2.0 Consensus size: 18
391209 AAATATGATT
391219 ATAATATAATAAAATATA
1 ATAATATAATAAAATATA
391237 ATAATATAATAATAATATA
1 ATAATATAATAA-AATATA
391256 TAAATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATATAATAAAATATA
Found at i:396352 original size:29 final size:29
Alignment explanation
Indices: 396320--396375 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
396310 TATGTTTAAT
396320 TATATAAAAATAAT-ATAAATATGATATAA
1 TATATAAAAAT-ATGATAAATATGATATAA
** *
396349 TATATTTAAATATGATTAATATGATAT
1 TATATAAAAATATGATAAATATGATAT
396376 GTTTAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (29 bp):
TATATAAAAATATGATAAATATGATATAA
Found at i:397237 original size:20 final size:19
Alignment explanation
Indices: 397217--397255 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
397207 ATAAAATATT
397217 ATAAAATAAATTTGATAATTA
1 ATAAAAT-AATTT-ATAATTA
*
397238 ATTAAATAATTTATAATT
1 ATAAAATAATTTATAATT
397256 TTAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAAAATAATTTATAATTA
Found at i:397246 original size:21 final size:20
Alignment explanation
Indices: 397220--397269 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
397210 AAATATTATA
397220 AAATAAATTTGATAA-TTAATT
1 AAAT-AATTT-ATAATTTAATT
397241 AAATAATTTATAATTTTAATT
1 AAATAATTTATAA-TTTAATT
397262 AAA-AATTT
1 AAATAATTT
397270 TGCTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.15
20 10 0.37
21 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAATAATTTATAATTTAATT
Found at i:397602 original size:20 final size:19
Alignment explanation
Indices: 397582--397634 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
397572 GTAAAATATT
397582 ATAAAATAAATTTGATAATTA
1 ATAAAAT-AATTT-ATAATTA
*
397603 ATTAAATAATTTATAATTTTA
1 ATAAAATAATTTATAA--TTA
*
397624 ATAAAAGAATT
1 ATAAAATAATT
397635 CACTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 18 0.67
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
ATAAAATAATTTATAATTA
Found at i:398592 original size:15 final size:15
Alignment explanation
Indices: 398541--398593 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
398531 ATATAATTTA
*
398541 ATTAT-TTTAA-AGT
1 ATTATATTTAATATT
*
398554 ATTATATTTAATATA
1 ATTATATTTAATATT
*
398569 ATCATATTTAATATT
1 ATTATATTTAATATT
*
398584 ATTAAATTTA
1 ATTATATTTA
398594 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 22 0.69
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTATATTTAATATT
Found at i:402926 original size:11 final size:11
Alignment explanation
Indices: 402902--402961 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
402892 CATTAAAAAT
*
402902 TAAATTATAATA
1 TAAA-TATATTA
402914 TAAATATATTA
1 TAAATATATTA
*
402925 TAAAAATAATTA
1 TAAATAT-ATTA
402937 -AAATAT-TATA
1 TAAATATAT-TA
402947 TAAATATATTA
1 TAAATATATTA
402958 -AAAT
1 TAAAT
402962 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
9 1 0.02
10 6 0.15
11 25 0.61
12 9 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAATATATTA
Found at i:402940 original size:22 final size:22
Alignment explanation
Indices: 402914--402959 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
402904 AATTATAATA
402914 TAAATATATTATAAAAATA-AT
1 TAAATATATTATAAAAATATAT
*
402935 TAAA-ATATTATATAAATATAT
1 TAAATATATTATAAAAATATAT
402956 TAAA
1 TAAA
402960 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATATATTATAAAAATATAT
Found at i:402981 original size:33 final size:33
Alignment explanation
Indices: 402944--403006 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
402934 TTAAAATATT
402944 ATATAAATATATTAAAAT-T-TTAAAATTTATTTC
1 ATATAAAT-TATT-AAATGTATTAAAATTTATTTC
*
402977 ATATAAATTATTTAATGTATTAAAATTTAT
1 ATATAAATTATTAAATGTATTAAAATTTAT
403007 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 3 0.11
32 5 0.19
33 19 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (33 bp):
ATATAAATTATTAAATGTATTAAAATTTATTTC
Found at i:403028 original size:29 final size:28
Alignment explanation
Indices: 402927--403029 Score: 73
Period size: 29 Copynumber: 3.4 Consensus size: 28
402917 ATATATTATA
* *
402927 AAAATAATTAAAATATTATATAAATATATT
1 AAAATATTTAAAAT-TTATATAAAAATA-T
*
402957 AAAAT-TTTAAAATTTATTTCATATAAATTAT
1 AAAATATTTAAAATTTA--T-ATA-AAAATAT
** *
402988 TTAATGTATTAAAATTTATATAAAAATAT
1 AAAATAT-TTAAAATTTATATAAAAATAT
403017 AAAATAATTTAAA
1 AAAAT-ATTTAAA
403030 CATAATTATT
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
28 3 0.05
29 21 0.37
30 10 0.18
31 8 0.14
32 5 0.09
33 10 0.18
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
AAAATATTTAAAATTTATATAAAAATAT
Found at i:403706 original size:23 final size:25
Alignment explanation
Indices: 403649--403707 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
403639 AAAAATTATT
403649 TAATTTTAATTTAATTATAATAATA
1 TAATTTTAATTTAATTATAATAATA
*
403674 TAAATATTAATGTTAA-TATAA-AATA
1 T-AATTTTAAT-TTAATTATAATAATA
403699 T-ATTTTAAT
1 TAATTTTAAT
403708 ATTTTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 7 0.23
25 6 0.20
26 13 0.43
27 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TAATTTTAATTTAATTATAATAATA
Found at i:404843 original size:2 final size:2
Alignment explanation
Indices: 404831--404872 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
404821 AGGTATACAA
404831 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
404872 T
1 T
404873 TTGTTCCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:412719 original size:31 final size:31
Alignment explanation
Indices: 412656--412744 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 31
412646 TTTTATATTA
*
412656 ATTTTTATAATTAAATTTAAATAAAAATAAT
1 ATTTTTATAATTAAATATAAATAAAAATAAT
* * *
412687 ATTTTTATTATTAAATAATAATTTAAAA-AAT
1 ATTTTTATAATTAAAT-ATAAATAAAAATAAT
*
412718 A-TTATATCAATTCAAAT-TAAA-AAAAAT
1 ATTTTTAT-AATT-AAATATAAATAAAAAT
412745 TATTCAAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
29 4 0.09
30 8 0.17
31 22 0.48
32 12 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
ATTTTTATAATTAAATATAAATAAAAATAAT
Found at i:412837 original size:16 final size:16
Alignment explanation
Indices: 412816--412857 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
412806 TATCTATTTT
412816 TTATTTTTATTAAAAA
1 TTATTTTTATTAAAAA
* *
412832 TTATTTTAATCAAAAA
1 TTATTTTTATTAAAAA
412848 -TATTTTTATT
1 TTATTTTTATT
412858 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTTTTATTAAAAA
Found at i:413793 original size:38 final size:36
Alignment explanation
Indices: 413724--413794 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
413714 GATATATAAA
* *
413724 AATATAATTAATATATTTTTTAAATTTAATAAAATT
1 AATATAATTAATATATTTTTTAAAATAAATAAAATT
413760 AATAT-ATTAAATATAATTTTTTAAAAATAAATAAA
1 AATATAATT-AATAT-ATTTTTT-AAAATAAATAAA
413795 TAATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 3 0.10
36 10 0.33
37 7 0.23
38 10 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
AATATAATTAATATATTTTTTAAAATAAATAAAATT
Found at i:414789 original size:6 final size:7
Alignment explanation
Indices: 414769--414794 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
414759 TCATTTAAAA
414769 TTATTTT
1 TTATTTT
414776 TTATTTT
1 TTATTTT
414783 TTATTTT
1 TTATTTT
414790 TTATT
1 TTATT
414795 GAAGAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:415092 original size:33 final size:34
Alignment explanation
Indices: 415054--415121 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
415044 TCAGTTTAAC
*
415054 TTATTTTAAATT-ATTATTTAAT-TAATAAAATAT
1 TTATTTTAAATTAATTATATAATAT-ATAAAATAT
415087 TTATTTTAAATTAATTATATAATATATAAAATAT
1 TTATTTTAAATTAATTATATAATATATAAAATAT
415121 T
1 T
415122 AATATAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 12 0.38
34 19 0.59
35 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
TTATTTTAAATTAATTATATAATATATAAAATAT
Found at i:415130 original size:33 final size:33
Alignment explanation
Indices: 415060--415130 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
415050 TAACTTATTT
* * *
415060 TAAATTATTATTTAATTAATAAAATATTTATTT
1 TAAATTATTATATAATTAATAAAATATTTAATA
415093 TAAATTAATTATATAA-TATATAAAATA-TTAATA
1 TAAATT-ATTATATAATTA-ATAAAATATTTAATA
415126 TAAAT
1 TAAAT
415131 AAACTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
TAAATTATTATATAATTAATAAAATATTTAATA
Found at i:416193 original size:21 final size:19
Alignment explanation
Indices: 416178--416250 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 19
416168 TAATTACATA
416178 TATTAAATTTTAAATTTTAACT
1 TATTAAATTTTAAA--TTAA-T
*
416200 GGATTAAATTTTAAATTAAT
1 -TATTAAATTTTAAATTAAT
*
416220 TGAATTAAATTTTAAATT-TT
1 T--ATTAAATTTTAAATTAAT
*
416240 TTTTAAATTTT
1 TATTAAATTTT
416251 TTAAATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 9 0.20
20 3 0.07
21 19 0.43
23 13 0.30
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (19 bp):
TATTAAATTTTAAATTAAT
Found at i:419998 original size:46 final size:46
Alignment explanation
Indices: 419945--420037 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
419935 TTACAAGTTC
419945 TTTATAATCTCATCTCCTTTCCATTCAGACCAAATAAGGGGAGAAA
1 TTTATAATCTCATCTCCTTTCCATTCAGACCAAATAAGGGGAGAAA
419991 TTTATAATCTCATCTCCTTTCCATTCAGACCAAATAAGGGGAGAAA
1 TTTATAATCTCATCTCCTTTCCATTCAGACCAAATAAGGGGAGAAA
420037 T
1 T
420038 AAATTGTCCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (46 bp):
TTTATAATCTCATCTCCTTTCCATTCAGACCAAATAAGGGGAGAAA
Found at i:423174 original size:2 final size:2
Alignment explanation
Indices: 423167--423204 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
423157 AATACCAAAA
423167 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
423205 TTTCCGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:424418 original size:20 final size:24
Alignment explanation
Indices: 424379--424430 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
424369 AAAGGAAATA
424379 TTTAAAAAATATATAGGT-A-ATT
1 TTTAAAAAATATATAGGTAATATT
*
424401 TTTAAAAATTA-ATA-GTAATATT
1 TTTAAAAAATATATAGGTAATATT
424423 TTTAAAAA
1 TTTAAAAA
424431 GTAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 21 0.78
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
TTTAAAAAATATATAGGTAATATT
Found at i:424442 original size:22 final size:22
Alignment explanation
Indices: 424398--424447 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
424388 TATATAGGTA
* * **
424398 ATTTTTAAAAATTAATAGTAAT
1 ATTTTTAAAAAGTAAAAAAAAT
424420 ATTTTTAAAAAGTAAAAAAAAT
1 ATTTTTAAAAAGTAAAAAAAAT
424442 ATTTTT
1 ATTTTT
424448 TATATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTTTTAAAAAGTAAAAAAAAT
Found at i:425985 original size:21 final size:21
Alignment explanation
Indices: 425961--426006 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
425951 GTAAAAAAGC
*
425961 AGCTGAATGGCAAAAGAGAGA
1 AGCTGAATGGAAAAAGAGAGA
425982 AGCTGAATGGAAAAAGAGAGA
1 AGCTGAATGGAAAAAGAGAGA
426003 AGCT
1 AGCT
426007 CTGTTGCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.33, T:0.11
Consensus pattern (21 bp):
AGCTGAATGGAAAAAGAGAGA
Found at i:429619 original size:2 final size:2
Alignment explanation
Indices: 429612--429647 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
429602 AATCTTGTTT
429612 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
429648 GATGTATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:432092 original size:32 final size:32
Alignment explanation
Indices: 432056--432120 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
432046 AATTTGACAC
*
432056 AAAAATATAAAAATATAATTT-T-TTAAATATAT
1 AAAAATAT-AAAATAT-ATTTATATCAAATATAT
*
432088 AAAAATATTAAATATATTTATATCAAATATAT
1 AAAAATATAAAATATATTTATATCAAATATAT
432120 A
1 A
432121 TTCATACGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.14
31 7 0.24
32 18 0.62
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (32 bp):
AAAAATATAAAATATATTTATATCAAATATAT
Found at i:434585 original size:16 final size:16
Alignment explanation
Indices: 434565--434605 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
434555 TTTATATTAT
*
434565 TTTTTAAATTTAGAT-
1 TTTTTAAATTTAAATC
434580 TATTTTAAATTTAAATC
1 T-TTTTAAATTTAAATC
434597 TTTTTAAAT
1 TTTTTAAAT
434606 ATAAGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTTAAATTTAAATC
Found at i:435169 original size:2 final size:2
Alignment explanation
Indices: 435162--435195 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
435152 AAAACAAAAC
435162 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
435196 GCAATGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:436902 original size:20 final size:19
Alignment explanation
Indices: 436852--436904 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
436842 AACTTCCAAA
436852 TTGAAAAATTCAAGATTTAAT
1 TTGAAAAA-T-AAGATTTAAT
* *
436873 TGTTATAAATAAGATATTAAT
1 T-TGAAAAATAAGAT-TTAAT
436894 TTGAAAAATAA
1 TTGAAAAATAA
436905 AAAAAAAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 13 0.50
21 8 0.31
22 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (19 bp):
TTGAAAAATAAGATTTAAT
Found at i:437449 original size:22 final size:21
Alignment explanation
Indices: 437407--437457 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
437397 TAGAATTTGC
*
437407 AAATTATAAATAAAAATAATG
1 AAATTATAAATAAAAAGAATG
437428 AAATGTAT-AATAAAAGAGAATG
1 AAAT-TATAAATAAAA-AGAATG
*
437450 CAA-TATAA
1 AAATTATAA
437458 GGACAACCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 12 0.48
22 10 0.40
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (21 bp):
AAATTATAAATAAAAAGAATG
Found at i:440061 original size:14 final size:14
Alignment explanation
Indices: 440016--440063 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
440006 ATCAGTGTCT
440016 ATATATATATATAGA
1 ATATATATATATA-A
* *
440031 TATATATATACACAA
1 -ATATATATATATAA
*
440046 ATATATATTTATAA
1 ATATATATATATAA
440060 ATAT
1 ATAT
440064 GATCTTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.56
15 1 0.04
16 11 0.41
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:440529 original size:2 final size:2
Alignment explanation
Indices: 440522--440548 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
440512 GATTTTGAAC
440522 AT 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 AT A
440549 AATCCGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:440636 original size:22 final size:22
Alignment explanation
Indices: 440589--440647 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
440579 TATAATATAA
*
440589 AAATATAAATATATTAA-AATTT
1 AAATATAAATATA-TAATATTTT
440611 --ATATAAATATATAATATTTT
1 AAATATAAATATATAATATTTT
440631 AAATAT-AAT-TATAATAT
1 AAATATAAATATATAATAT
440648 ATAAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 3 0.09
20 23 0.70
21 3 0.09
22 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATAAATATATAATATTTT
Found at i:444672 original size:2 final size:2
Alignment explanation
Indices: 444665--444690 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
444655 CATGTAACCT
444665 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
444691 ATGGTTCTTG
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):
TA
Found at i:444717 original size:51 final size:51
Alignment explanation
Indices: 444641--444741 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
444631 TACGATTCTT
444641 TGGTTCTCGGGTTGCATGTAACCTTATATATATATATATATATATATATAA
1 TGGTTCTCGGGTTGCATGTAACCTTATATATATATATATATATATATATAA
*
444692 TGGTTCTTGGGTTGCATGTAACCTTATATATATATATATATATATATATA
1 TGGTTCTCGGGTTGCATGTAACCTTATATATATATATATATATATATATA
444742 TATATATTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (51 bp):
TGGTTCTCGGGTTGCATGTAACCTTATATATATATATATATATATATATAA
Found at i:444723 original size:2 final size:2
Alignment explanation
Indices: 444716--444748 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
444706 CATGTAACCT
444716 TA TA 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 TA TA T
444749 TCAGTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:445853 original size:26 final size:26
Alignment explanation
Indices: 445824--445880 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
445814 TGTTTCTTGA
* *
445824 ATTTACTCAGATTTGAAAATGAGTTT
1 ATTTACTCAAAATTGAAAATGAGTTT
* *
445850 ATTTACTCAAAATTGAGATTGAGTTT
1 ATTTACTCAAAATTGAAAATGAGTTT
445876 ATTTA
1 ATTTA
445881 TTTAGATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (26 bp):
ATTTACTCAAAATTGAAAATGAGTTT
Found at i:449813 original size:23 final size:23
Alignment explanation
Indices: 449787--449830 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
449777 CAGGAAGAGA
449787 AAAAGAGGGA-TTGAATTATAGGG
1 AAAA-AGGGATTTGAATTATAGGG
* *
449810 AAAATGGGATTTGATTTATAG
1 AAAAAGGGATTTGAATTATAG
449831 AAACGAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (23 bp):
AAAAAGGGATTTGAATTATAGGG
Found at i:450362 original size:17 final size:17
Alignment explanation
Indices: 450342--450404 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 17
450332 AATTAATATG
450342 ATTTTTATATTATAATT
1 ATTTTTATATTATAATT
450359 ATTTTTTTAATATTATAATT
1 A--TTTTT-ATATTATAATT
* *
450379 ATTTTTAAAATATAA-T
1 ATTTTTATATTATAATT
*
450395 ATATTTATAT
1 ATTTTTATAT
450405 AAATTTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.21
17 8 0.21
18 5 0.13
19 5 0.13
20 12 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTATATTATAATT
Found at i:450371 original size:20 final size:19
Alignment explanation
Indices: 450343--450384 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
450333 ATTAATATGA
450343 TTTTTATATTATAATTATT
1 TTTTTATATTATAATTATT
450362 TTTTTAATATTATAATTATT
1 TTTTT-ATATTATAATTATT
450382 TTT
1 TTT
450385 AAAATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTATATTATAATTATT
Found at i:450390 original size:20 final size:20
Alignment explanation
Indices: 450348--450391 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
450338 TATGATTTTT
**
450348 ATATTATAATTATTTTTTTA
1 ATATTATAATTATTTTTAAA
450368 ATATTATAATTATTTTTAAA
1 ATATTATAATTATTTTTAAA
450388 ATAT
1 ATAT
450392 AATATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTATAATTATTTTTAAA
Found at i:451214 original size:2 final size:2
Alignment explanation
Indices: 451207--451242 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
451197 GAAATTCAGG
451207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
451243 TCACTGCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:453607 original size:22 final size:22
Alignment explanation
Indices: 453560--453608 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
453550 CAATTTGATT
* * *
453560 AATTTTGATAATTTATTGTTAT
1 AATTTTGATAATTAATTATTAC
453582 AATTTTGATAATTAAATTATT-C
1 AATTTTGATAATT-AATTATTAC
453604 AATTT
1 AATTT
453609 CGGTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (22 bp):
AATTTTGATAATTAATTATTAC
Found at i:453851 original size:2 final size:2
Alignment explanation
Indices: 453838--453880 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
453828 CATATGTATG
*
453838 TA TA TC 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 TA TA
453880 T
1 T
453881 CATCTAAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:456079 original size:2 final size:2
Alignment explanation
Indices: 456072--456109 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
456062 AAATAAAATG
* *
456072 TA TA TA TA TA TA TA TA CA TA CA 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
456110 CTCATTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:456535 original size:16 final size:16
Alignment explanation
Indices: 456516--456546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
456506 GAGATTATAA
*
456516 TTTAAATTGAATTTAT
1 TTTAAATTAAATTTAT
456532 TTTAAATTAAATTTA
1 TTTAAATTAAATTTA
456547 AATAAAAAAT
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAAATTAAATTTAT
Found at i:456622 original size:9 final size:9
Alignment explanation
Indices: 456604--456638 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
456594 ATATAATTTT
456604 TTAAATATA
1 TTAAATATA
*
456613 TTAAAAATA
1 TTAAATATA
456622 TTAAATATA
1 TTAAATATA
456631 TT-AATATA
1 TTAAATATA
456639 AAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAAATATA
Found at i:457512 original size:2 final size:2
Alignment explanation
Indices: 457505--457534 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
457495 TCTATTTGTC
457505 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
457535 AACTTGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:461185 original size:2 final size:2
Alignment explanation
Indices: 461178--461230 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
461168 ATATGCAGGT
461178 TA TA 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 TA TA
461220 TA TA TA TA TA T
1 TA TA TA TA TA T
461231 TATCTTTTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:472579 original size:13 final size:13
Alignment explanation
Indices: 472561--472585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
472551 CAAAGATCAG
472561 TGTATCGATACAA
1 TGTATCGATACAA
472574 TGTATCGATACA
1 TGTATCGATACA
472586 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:472672 original size:13 final size:13
Alignment explanation
Indices: 472654--472678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
472644 CAAAAAAATA
472654 TGTATCGATACAT
1 TGTATCGATACAT
472667 TGTATCGATACA
1 TGTATCGATACA
472679 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:472674 original size:33 final size:33
Alignment explanation
Indices: 472632--472698 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
472622 AGTAGCTTAA
472632 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
472665 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
472698 A
1 A
472699 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:478400 original size:16 final size:16
Alignment explanation
Indices: 478379--478411 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
478369 TAAATTATTT
478379 TTATATATTTAAA-TAA
1 TTATAT-TTTAAACTAA
478395 TTATATTTTAAACTAA
1 TTATATTTTAAACTAA
478411 T
1 T
478412 ATTCAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATATTTTAAACTAA
Found at i:478992 original size:28 final size:30
Alignment explanation
Indices: 478929--478999 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
478919 TATTTTTATC
* *
478929 ATATTT-ATATATTTTATTTTGTTATAAAT
1 ATATTTAAAATATTTTATTTTGATATAAAT
478958 ATATTTAAAATATTTTATATTT-ATATAAA-
1 ATATTTAAAATATTTTAT-TTTGATATAAAT
478987 AT-TTTAAAATATT
1 ATATTTAAAATATT
479000 AATAATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 11 0.29
29 8 0.21
30 16 0.42
31 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
ATATTTAAAATATTTTATTTTGATATAAAT
Found at i:479007 original size:28 final size:30
Alignment explanation
Indices: 478951--479009 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 30
478941 TTTATTTTGT
*
478951 TATAAATATATTTAAAATATTTTATATTTA
1 TATAAATATATTTAAAATATTATATATTTA
478981 TATAAA-AT-TTTAAAATATTA-ATAATTTA
1 TATAAATATATTTAAAATATTATAT-ATTTA
479009 T
1 T
479010 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 17 0.63
29 2 0.07
30 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TATAAATATATTTAAAATATTATATATTTA
Found at i:479041 original size:23 final size:21
Alignment explanation
Indices: 478996--479056 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 21
478986 AATTTTAAAA
*
478996 TATTAATAATTTATTTTATTTATT
1 TATTAAT-A-TTA-TTTAATTATT
479020 TATTAATCATATATTTAATTATT
1 TATTAAT-AT-TATTTAATTATT
479043 TATTAATATTATTT
1 TATTAATATTATTT
479057 TTGTATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 5 0.15
22 2 0.06
23 17 0.50
24 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTAATATTATTTAATTATT
Found at i:479518 original size:28 final size:28
Alignment explanation
Indices: 479439--479519 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
479429 TTTCATAATT
*
479439 TTTTAAATTTATATTTGATATATT-AATAA
1 TTTTAAATTT-TATTTAATAT-TTAAATAA
* *
479468 --TAAAATTTTA-TTAATTTTATAAATAA
1 TTTTAAATTTTATTTAATATT-TAAATAA
*
479494 TTTTAAATTTTATTTTATATTTAAAT
1 TTTTAAATTTTATTTAATATTTAAAT
479520 TTTTATTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
24 1 0.02
25 6 0.15
26 7 0.17
27 7 0.17
28 14 0.34
29 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTAAATTTTATTTAATATTTAAATAA
Found at i:481510 original size:26 final size:25
Alignment explanation
Indices: 481481--481529 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
481471 ATATATTATT
481481 ATTATATTTATTATAAAATTATTAAA
1 ATTATATTTATTATAAAA-TATTAAA
481507 ATTATATTTATTATAAAATATTA
1 ATTATATTTATTATAAAATATTA
481530 CTCATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATATTTATTATAAAATATTAAA
Found at i:481958 original size:16 final size:16
Alignment explanation
Indices: 481937--481969 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
481927 TAAATTATTT
481937 TTATATATTTAAA-TAA
1 TTATAT-TTTAAACTAA
481953 TTATATTTTAAACTAA
1 TTATATTTTAAACTAA
481969 T
1 T
481970 ATCAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATATTTTAAACTAA
Found at i:482193 original size:18 final size:18
Alignment explanation
Indices: 482167--482205 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
482157 CTAGATGCTG
482167 AATATATATATATAATATAC
1 AATATATAT-TATAA-ATAC
482187 AATATATATTATAAATAC
1 AATATATATTATAAATAC
482205 A
1 A
482206 TGTTTGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATATATTATAAATAC
Found at i:485505 original size:16 final size:16
Alignment explanation
Indices: 485484--485516 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
485474 TAAATTATTT
485484 TTATATATTTAAA-TAA
1 TTATAT-TTTAAACTAA
485500 TTATATTTTAAACTAA
1 TTATATTTTAAACTAA
485516 T
1 T
485517 ATTCAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATATTTTAAACTAA
Found at i:486097 original size:28 final size:30
Alignment explanation
Indices: 486034--486104 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
486024 TATTTTTATC
* *
486034 ATATTT-ATATATTTTATTTTGTTATAAAT
1 ATATTTAAAATATTTTATTTTGATATAAAT
486063 ATATTTAAAATATTTTATATTT-ATATAAA-
1 ATATTTAAAATATTTTAT-TTTGATATAAAT
486092 AT-TTTAAAATATT
1 ATATTTAAAATATT
486105 AATAATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 11 0.29
29 8 0.21
30 16 0.42
31 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
ATATTTAAAATATTTTATTTTGATATAAAT
Found at i:486112 original size:28 final size:30
Alignment explanation
Indices: 486056--486114 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 30
486046 TTTATTTTGT
*
486056 TATAAATATATTTAAAATATTTTATATTTA
1 TATAAATATATTTAAAATATTATATATTTA
486086 TATAAA-AT-TTTAAAATATTA-ATAATTTA
1 TATAAATATATTTAAAATATTATAT-ATTTA
486114 T
1 T
486115 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 17 0.63
29 2 0.07
30 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TATAAATATATTTAAAATATTATATATTTA
Found at i:486146 original size:23 final size:21
Alignment explanation
Indices: 486101--486161 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 21
486091 AATTTTAAAA
*
486101 TATTAATAATTTATTTTATTTATT
1 TATTAAT-A-TTA-TTTAATTATT
486125 TATTAATCATATATTTAATTATT
1 TATTAAT-AT-TATTTAATTATT
486148 TATTAATATTATTT
1 TATTAATATTATTT
486162 TTGTATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 5 0.15
22 2 0.06
23 17 0.50
24 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTAATATTATTTAATTATT
Found at i:486623 original size:28 final size:28
Alignment explanation
Indices: 486544--486624 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
486534 TTTCATAATT
*
486544 TTTTAAATTTATATTTGATATATT-AATAA
1 TTTTAAATTT-TATTTAATAT-TTAAATAA
* *
486573 --TAAAATTTTA-TTAATTTTATAAATAA
1 TTTTAAATTTTATTTAATATT-TAAATAA
*
486599 TTTTAAATTTTATTTTATATTTAAAT
1 TTTTAAATTTTATTTAATATTTAAAT
486625 TTTTATTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
24 1 0.02
25 6 0.15
26 7 0.17
27 7 0.17
28 14 0.34
29 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTAAATTTTATTTAATATTTAAATAA
Found at i:488616 original size:17 final size:17
Alignment explanation
Indices: 488566--488618 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
488556 TAAATTTAAA
*
488566 ATAAAATT-TTAAAAAT
1 ATAAAATTATTAAAATT
** **
488582 ATATTATTATTATTATT
1 ATAAAATTATTAAAATT
488599 ATAAAATTATTAAAATT
1 ATAAAATTATTAAAATT
488616 ATA
1 ATA
488619 TTTATTATAA
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAAATTATTAAAATT
Found at i:489084 original size:19 final size:19
Alignment explanation
Indices: 489062--489099 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
489052 ACTCTCAAAG
489062 TTTTTCTTTTTC-TTTTTTT
1 TTTTTC-TTTTCATTTTTTT
489081 TTTTTCTTTTCATTTTTTT
1 TTTTTCTTTTCATTTTTTT
489100 GGTTGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTTTCTTTTCATTTTTTT
Found at i:489268 original size:18 final size:18
Alignment explanation
Indices: 489238--489282 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
489228 TTTATATTTT
489238 ATAATTATATTAAATAAA-A
1 ATAATT-TATT-AATAAATA
*
489257 ATATTTTATTAATAAATA
1 ATAATTTATTAATAAATA
489275 ATAATTTA
1 ATAATTTA
489283 AATTGAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 12 0.52
19 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATTTATTAATAAATA
Found at i:491191 original size:21 final size:20
Alignment explanation
Indices: 491167--491220 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
491157 AGATATTAAA
491167 TAAAAAAATTATAATTATAAT
1 TAAAAAAATT-TAATTATAAT
** *
491188 TAAATAACCTTTAATTATACT
1 TAAA-AAAATTTAATTATAAT
*
491209 TATAAAAATTTA
1 TAAAAAAATTTA
491221 TTAATCAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAAAATTTAATTATAAT
Found at i:491509 original size:2 final size:2
Alignment explanation
Indices: 491502--491538 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
491492 AACAAAAAGA
491502 TC TC TC TC TC TC -C T- TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
491539 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:491543 original size:2 final size:2
Alignment explanation
Indices: 491538--491562 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
491528 TCTCTCTCTC
491538 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 T
491563 GATGGGTTAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:493198 original size:13 final size:14
Alignment explanation
Indices: 493180--493283 Score: 63
Period size: 11 Copynumber: 8.2 Consensus size: 14
493170 TAATTTTTAA
493180 TATATTA-ATAATT
1 TATATTATATAATT
493193 TATATTATATAATT
1 TATATTATATAATT
493207 T-T-TTATAT-ATT
1 TATATTATATAATT
*
493218 TATA--A-ATATTT
1 TATATTATATAATT
* * *
493229 TATTATTTTTTAAAT
1 TA-TATTATATAATT
493244 TATATTATAT--TT
1 TATATTATATAATT
493256 TA-ATTAT-T--TT
1 TATATTATATAATT
493266 TATATTATATAATAT
1 TATATTATATAAT-T
493281 TAT
1 TAT
493284 CATAACCAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 24
0.69 0.08 0.24
Matches are distributed among these distances:
10 7 0.10
11 19 0.27
12 13 0.19
13 8 0.11
14 14 0.20
15 9 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATATTATATAATT
Found at i:493206 original size:32 final size:33
Alignment explanation
Indices: 493158--493222 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
493148 CTGTATATTT
493158 TTTAAATTATCATAATTTTTAATATATTAATAA
1 TTTAAATTATCATAATTTTTAATATATTAATAA
* * *
493191 TTTATATTAT-ATAATTTTTTATATATTTATAA
1 TTTAAATTATCATAATTTTTAATATATTAATAA
493223 ATATTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.69
33 9 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTAAATTATCATAATTTTTAATATATTAATAA
Found at i:493211 original size:17 final size:17
Alignment explanation
Indices: 493154--493278 Score: 69
Period size: 17 Copynumber: 7.1 Consensus size: 17
493144 TCCTCTGTAT
*
493154 ATTTTTTAAATTATCATA
1 ATTTTTTATATTAT-ATA
*
493172 ATTTTTAATA-TAT-TA
1 ATTTTTTATATTATATA
**
493187 ATAATTTATATTATATA
1 ATTTTTTATATTATATA
*
493204 ATTTTTTATATATTTATAA
1 ATTTTTTATAT-TATAT-A
* * *
493223 ATATTTTATTATTTTTTAA
1 ATTTTTTA-TATTATAT-A
*
493242 ATTATATTATATT-T-TA
1 ATT-TTTTATATTATATA
493258 ATTATTTTTATATTATATA
1 A-T-TTTTTATATTATATA
493277 AT
1 AT
493279 ATTATCATAA
Statistics
Matches: 84, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
15 9 0.11
16 5 0.06
17 24 0.29
18 16 0.19
19 23 0.27
20 7 0.08
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTTATATTATATA
Found at i:493253 original size:27 final size:27
Alignment explanation
Indices: 493153--493281 Score: 92
Period size: 27 Copynumber: 4.9 Consensus size: 27
493143 TTCCTCTGTA
493153 TATTTTTTAAATTATCATAAT-TTTTA-
1 TATTTTTTAAATTAT-ATAATATTTTAT
* * * * *
493179 -ATATATT-AATAAT-TTATATTATAT
1 TATTTTTTAAATTATATAATATTTTAT
*
493203 AATTTTTTATATATTTATA-AATATTTTAT
1 TATTTTTTA-A-A-TTATATAATATTTTAT
*
493232 TATTTTTTAAATTATATTATATTTTAAT
1 TATTTTTTAAATTATATAATATTTT-AT
*
493260 TA-TTTTTATATTATATAATATT
1 TATTTTTTAAATTATATAATATT
493282 ATCATAACCA
Statistics
Matches: 79, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
22 3 0.04
23 4 0.05
24 5 0.06
25 10 0.13
26 5 0.06
27 27 0.34
28 6 0.08
29 19 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (27 bp):
TATTTTTTAAATTATATAATATTTTAT
Found at i:493967 original size:5 final size:5
Alignment explanation
Indices: 493957--493981 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
493947 CAAATCACTG
493957 CTAAT CTAAT CTAAT CTAAT CTAAT
1 CTAAT CTAAT CTAAT CTAAT CTAAT
493982 TATTACTGCA
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:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
CTAAT
Found at i:494174 original size:32 final size:32
Alignment explanation
Indices: 494138--494210 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
494128 TAAATATGAC
* * *
494138 ATAATATGAA-TATAAAATATTTTAAAATTTAT
1 ATAATATAAATTAT-AAATATATCAAAATTTAT
*
494170 ATAATATAAATTATTAATATATCAAAATTTAT
1 ATAATATAAATTATAAATATATCAAAATTTAT
494202 ATAA-ATAAA
1 ATAATATAAA
494211 AAATATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 5 0.14
32 28 0.78
33 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (32 bp):
ATAATATAAATTATAAATATATCAAAATTTAT
Found at i:494239 original size:5 final size:5
Alignment explanation
Indices: 494221--494262 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
494211 AAATATTTTA
* *
494221 AATAT AATTAT AATAT AATAA AATAT AA-AA AATAT AATAT AA
1 AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT AATAT AA
494263 ATTTATGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 3 0.10
5 23 0.74
6 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
AATAT
Found at i:494246 original size:21 final size:20
Alignment explanation
Indices: 494206--494264 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
494196 ATTTATATAA
*
494206 ATAAAAAATAT--TTTAAAT
1 ATAAAAAATATAATATAAAT
*
494224 ATAATTATAATATAATA-AAAT
1 ATAA--AAAATATAATATAAAT
494245 ATAAAAAATATAATATAAAT
1 ATAAAAAATATAATATAAAT
494265 TTATGAATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.12
19 10 0.30
20 10 0.30
21 8 0.24
22 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAAAATATAATATAAAT
Found at i:494254 original size:9 final size:10
Alignment explanation
Indices: 494220--494264 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
494210 AAAATATTTT
494220 AAATATAATTA
1 AAATATAA-TA
*
494231 TAATATAATA
1 AAATATAATA
494241 AAATATAA-A
1 AAATATAATA
494250 AAATATAATA
1 AAATATAATA
494260 TAAAT
1 -AAAT
494265 TTATGAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 9 0.30
10 10 0.33
11 11 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATATAATA
Found at i:494261 original size:57 final size:60
Alignment explanation
Indices: 494138--494264 Score: 140
Period size: 59 Copynumber: 2.2 Consensus size: 60
494128 TAAATATGAC
* * * * *
494138 ATAATATGAATATAAAATATTTTAAAATTTATATAATATAAATTATTAATATATCAAAAT
1 ATAATATAAATAAAAAATATTTTAAAATATATATAATATAAATTATAAATATATAAAAAT
*
494198 -TTATATAAATAAAAAATATTTT-AAATATAATTATAATAT-AA-TA-AAATATA-AAAAAT
1 ATAATATAAATAAAAAATATTTTAAAATAT-A-TATAATATAAATTATAAATATATAAAAAT
494254 ATAATATAAAT
1 ATAATATAAAT
494265 TTATGAATAG
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
56 5 0.09
57 15 0.26
58 7 0.12
59 22 0.39
60 8 0.14
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (60 bp):
ATAATATAAATAAAAAATATTTTAAAATATATATAATATAAATTATAAATATATAAAAAT
Found at i:495946 original size:2 final size:2
Alignment explanation
Indices: 495939--495972 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
495929 ATGCTTCATT
495939 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
495973 GCTGTTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:497071 original size:3 final size:3
Alignment explanation
Indices: 497060--497092 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
497050 CTACTACTAC
*
497060 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
497093 GGATAATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:497436 original size:27 final size:26
Alignment explanation
Indices: 497386--497440 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
497376 TTTAAATTAA
*
497386 AAAATATTTTTATATCATTTTAAATAT
1 AAAATATTTTTATATCATTATAAA-AT
*
497413 AAAATATTTATTTTAT-ATTATAAAAT
1 AAAATATTT-TTATATCATTATAAAAT
497439 AA
1 AA
497441 TTAAAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 16 0.64
28 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
AAAATATTTTTATATCATTATAAAAT
Found at i:499496 original size:25 final size:25
Alignment explanation
Indices: 499468--499549 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
499458 TGGTTAACCA
499468 AAATTGGTACAATCACTTAAGCTTG
1 AAATTGGTACAATCACTTAAGCTTG
* * **
499493 AAATTAAGTGAC-AGCA-TTGAATGAC-CA
1 AAATT-GGT-ACAATCACTT-AA-G-CTTG
499520 AAATTGGTACAATCACTTAAGCTTG
1 AAATTGGTACAATCACTTAAGCTTG
499545 AAATT
1 AAATT
499550 AAGTGACAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
24 1 0.02
25 15 0.37
26 14 0.34
27 10 0.24
28 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (25 bp):
AAATTGGTACAATCACTTAAGCTTG
Done.