Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 156 of 279
Found at i:51118491 original size:42 final size:42
Alignment explanation
Indices: 51118432--51118516 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
51118422 GGAATGGCCA
*
51118432 TAATTATAAAGTTTGGTGGGACAACTATCTTATAGATTTGAT
1 TAATTATAAAGTTTGGTGGGACAACTATCTTACAGATTTGAT
*
51118474 TAATTATAAAGTTTGGTGGGACAAGTATCTTACAGATTTGAT
1 TAATTATAAAGTTTGGTGGGACAACTATCTTACAGATTTGAT
51118516 T
1 T
51118517 TAATAATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (42 bp):
TAATTATAAAGTTTGGTGGGACAACTATCTTACAGATTTGAT
Found at i:51120793 original size:31 final size:33
Alignment explanation
Indices: 51120758--51120829 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
51120748 ATATCCAAAA
*
51120758 TCAAAATAACT-TGAATAAAAAAT-ACTTAAAT-
1 TCAAAATAA-TATAAATAAAAAATGACTTAAATC
**
51120789 TCAAAATAATATAAATCTAAAATGACTTAAATC
1 TCAAAATAATATAAATAAAAAATGACTTAAATC
51120822 TCAAAATA
1 TCAAAATA
51120830 GAAATGATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.03
31 18 0.51
32 8 0.23
33 8 0.23
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (33 bp):
TCAAAATAATATAAATAAAAAATGACTTAAATC
Found at i:51120840 original size:33 final size:31
Alignment explanation
Indices: 51120776--51120844 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 31
51120766 ACTTGAATAA
*
51120776 AAAATACTTAAATTCAAAATAATATAAATCT
1 AAAATACTTAAATTCAAAATAAAATAAATCT
*
51120807 AAAATGACTTAAATCTCAAAATAGAAAT-GATCT
1 AAAAT-ACTTAAAT-TCAAAATA-AAATAAATCT
51120840 AAAAT
1 AAAAT
51120845 CAATCTAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 5 0.15
32 8 0.24
33 17 0.52
34 3 0.09
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (31 bp):
AAAATACTTAAATTCAAAATAAAATAAATCT
Found at i:51120935 original size:23 final size:23
Alignment explanation
Indices: 51120909--51120953 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
51120899 AACTCAAATT
*
51120909 TTTTAAAATAAAGTTGTGGATTC
1 TTTTAAAATAAAATTGTGGATTC
* *
51120932 TTTTAAAGTAAAATTTTGGATT
1 TTTTAAAATAAAATTGTGGATT
51120954 TAAATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TTTTAAAATAAAATTGTGGATTC
Found at i:51127518 original size:14 final size:14
Alignment explanation
Indices: 51127499--51127526 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51127489 CTGCTTTCTA
51127499 AATTTGTTTTAAGG
1 AATTTGTTTTAAGG
51127513 AATTTGTTTTAAGG
1 AATTTGTTTTAAGG
51127527 CTGACAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
AATTTGTTTTAAGG
Found at i:51134520 original size:18 final size:19
Alignment explanation
Indices: 51134481--51134532 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
51134471 TTTATTTATA
51134481 ATTACAAATTAAA-TACATT
1 ATTA-AAATTAAATTACATT
*
51134500 ATTAAAATTAAATTAGA-T
1 ATTAAAATTAAATTACATT
51134518 ATTTAAAATATAAAT
1 A-TTAAAAT-TAAAT
51134533 AACAGTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.34
19 14 0.48
20 5 0.17
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTAAAATTAAATTACATT
Found at i:51134709 original size:12 final size:12
Alignment explanation
Indices: 51134671--51134710 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
51134661 ATATTATTTT
*
51134671 TTATTTTAAAAA
1 TTATTTTAAATA
51134683 TTATTTTAAAGTA
1 TTATTTTAAA-TA
*
51134696 TTTTTTTAAATA
1 TTATTTTAAATA
51134708 TTA
1 TTA
51134711 AATTTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TTATTTTAAATA
Found at i:51135192 original size:19 final size:20
Alignment explanation
Indices: 51135167--51135210 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
51135157 TAGATTTCAA
51135167 AATAATTTATTA-GT-ATATT
1 AATAA-TTATTATGTGATATT
*
51135186 TATAATTATTATGTGATATT
1 AATAATTATTATGTGATATT
51135206 AATAA
1 AATAA
51135211 AAATTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 6 0.29
20 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
AATAATTATTATGTGATATT
Found at i:51137396 original size:3 final size:3
Alignment explanation
Indices: 51137388--51137418 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
51137378 CGACAAACAC
51137388 CTT CTT CTT CTT CTT CTT CTT CTT CTCT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT
51137419 TTCCTTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:51138680 original size:6 final size:6
Alignment explanation
Indices: 51138669--51138695 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51138659 AGTTGAAAGG
51138669 TGATGC TGATGC TGATGC TGATGC TGA
1 TGATGC TGATGC TGATGC TGATGC TGA
51138696 CGCCATTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (6 bp):
TGATGC
Found at i:51147001 original size:17 final size:17
Alignment explanation
Indices: 51146978--51147017 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
51146968 TCGTTTGAAA
*
51146978 TAATTTAAT-TTTTTTT
1 TAATTTTATGTTTTTTT
*
51146994 TTATTTTATGTTTTTTT
1 TAATTTTATGTTTTTTT
51147011 TAATTTT
1 TAATTTT
51147018 TTTCTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TAATTTTATGTTTTTTT
Found at i:51168134 original size:21 final size:22
Alignment explanation
Indices: 51168094--51168134 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
51168084 AATATTTAAA
*
51168094 TTTTATTAAAAATTAGAAAATC
1 TTTTATTAAAAATCAGAAAATC
*
51168116 TTTTA-TAAAAATCATAAAA
1 TTTTATTAAAAATCAGAAAA
51168135 AAATTACAAA
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:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TTTTATTAAAAATCAGAAAATC
Found at i:51168213 original size:21 final size:22
Alignment explanation
Indices: 51168172--51168245 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 22
51168162 AATAAATTAT
* * *
51168172 AAAATTTTATAAAGTCG-AAAG
1 AAAATTATAAAAAATCGTAAAG
51168193 AAAATTATAAAAAAT-GTAAAG
1 AAAATTATAAAAAATCGTAAAG
* *
51168214 -AAA-TAT-AAAATTCGTAAAA
1 AAAATTATAAAAAATCGTAAAG
51168233 AAAATTATAAAAA
1 AAAATTATAAAAA
51168246 TTATCATACT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 5 0.12
19 8 0.19
20 7 0.16
21 19 0.44
22 4 0.09
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (22 bp):
AAAATTATAAAAAATCGTAAAG
Found at i:51187152 original size:31 final size:31
Alignment explanation
Indices: 51187117--51187182 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
51187107 AATTTGTCAC
* *
51187117 TATTTAAAATTTTTTATTTAAGTCATTGAAT
1 TATTTAAAAGTTTTTATTCAAGTCATTGAAT
* * * *
51187148 TATTTGAAAGTTTTTGTTCAAGTTATTGGAT
1 TATTTAAAAGTTTTTATTCAAGTCATTGAAT
51187179 TATT
1 TATT
51187183 AAGTCTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (31 bp):
TATTTAAAAGTTTTTATTCAAGTCATTGAAT
Found at i:51202689 original size:58 final size:57
Alignment explanation
Indices: 51202626--51202740 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 57
51202616 AATTATCAGA
*
51202626 AAAAAATGCAGTGAGTATATTATTGATCTGATGGGTGCTCCTGGGACGCTAATTCCT
1 AAAAAATGCAGTGAATATATTATTGATCTGATGGGTGCTCCTGGGACGCTAATTCCT
*
51202683 NAAAAAATGCAGTGAATATATTATTGATCTGATGGGTGCTCCTGGGACTCTAATTCCT
1 -AAAAAATGCAGTGAATATATTATTGATCTGATGGGTGCTCCTGGGACGCTAATTCCT
51202741 GCTGAAGTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (57 bp):
AAAAAATGCAGTGAATATATTATTGATCTGATGGGTGCTCCTGGGACGCTAATTCCT
Found at i:51207093 original size:15 final size:16
Alignment explanation
Indices: 51207073--51207104 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
51207063 AGTTACCTAT
51207073 AGGGAAAA-AAAAAAA
1 AGGGAAAAGAAAAAAA
51207088 AGGGAAAAGAAAAAAA
1 AGGGAAAAGAAAAAAA
51207104 A
1 A
51207105 AANNNNNNNN
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGGGAAAAGAAAAAAA
Found at i:51207867 original size:22 final size:22
Alignment explanation
Indices: 51207841--51207886 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
51207831 ATGCAAGTCG
51207841 TTGAATAATTTAAAAATTTTCA
1 TTGAATAATTTAAAAATTTTCA
* *
51207863 TTGAATAGTTTAAAAGTTTTCA
1 TTGAATAATTTAAAAATTTTCA
51207885 TT
1 TT
51207887 TAAATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (22 bp):
TTGAATAATTTAAAAATTTTCA
Found at i:51220047 original size:23 final size:23
Alignment explanation
Indices: 51220016--51220114 Score: 144
Period size: 23 Copynumber: 4.3 Consensus size: 23
51220006 AGTGTTATTG
* *
51220016 ATCAGTGGTAGCTTCGACTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51220039 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
51220062 AACAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51220085 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
51220108 ATCAGTG
1 ATCAGTG
51220115 TTGCACTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:51223909 original size:12 final size:12
Alignment explanation
Indices: 51223894--51223924 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51223884 TTCTCTTTTA
51223894 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
51223906 TTTTTCTTTCTC
1 TTTTTCTTTCCC
51223918 TTTTTCT
1 TTTTTCT
51223925 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:51224025 original size:16 final size:16
Alignment explanation
Indices: 51224004--51224034 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51223994 TTTATTATTT
51224004 TATTAACATAATATAA
1 TATTAACATAATATAA
*
51224020 TATTAATATAATATA
1 TATTAACATAATATA
51224035 TTAAAATATC
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:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:51225932 original size:18 final size:19
Alignment explanation
Indices: 51225909--51225946 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
51225899 TTTAAACTAA
*
51225909 ATTTAACTCCCT-AATTTC
1 ATTTAAATCCCTAAATTTC
51225927 ATTTAAATCCCTAAATTTC
1 ATTTAAATCCCTAAATTTC
51225946 A
1 A
51225947 AATTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTAAATCCCTAAATTTC
Found at i:51226855 original size:24 final size:24
Alignment explanation
Indices: 51226828--51226889 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
51226818 TAGCTCTTCG
*
51226828 GAGCTACCCGTTATTGGCTCGTAT
1 GAGCTTCCCGTTATTGGCTCGTAT
* *
51226852 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCGTAT
51226876 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
51226890 ATAGCCCGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGTAT
Found at i:51226906 original size:49 final size:49
Alignment explanation
Indices: 51226803--51226907 Score: 113
Period size: 48 Copynumber: 2.1 Consensus size: 49
51226793 TGACTATCCA
* * * *
51226803 AAGCTTCCTGAATAATAGCTCTTCGGAGCTACCCGTTATTGGCTCGTAT
1 AAGCTTCCTGAATAATAGCTCTTAGGAGCTACCCGTTATTAGCCCGGAT
* * * * *
51226852 GAGCTTCCTG-ATTATGGCTCTTATGAGCTTCCCGTTATATAGCCCGGAT
1 AAGCTTCCTGAATAATAGCTCTTAGGAGCTACCCGTTAT-TAGCCCGGAT
51226901 AAGCTTC
1 AAGCTTC
51226908 TCGTTATATG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
48 23 0.51
49 22 0.49
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (49 bp):
AAGCTTCCTGAATAATAGCTCTTAGGAGCTACCCGTTATTAGCCCGGAT
Found at i:51229371 original size:31 final size:31
Alignment explanation
Indices: 51229333--51229391 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
51229323 ATGGCAAGTA
51229333 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
51229364 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
51229392 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:51229399 original size:46 final size:46
Alignment explanation
Indices: 51229346--51229437 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
51229336 AGTGGTAGCT
* *
51229346 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
51229392 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
51229438 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:51229441 original size:31 final size:31
Alignment explanation
Indices: 51229393--51229461 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
51229383 ACCTGATCAT
* * *
51229393 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
51229424 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
51229455 CGGCTAC
1 CGGCTAC
51229462 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:51232569 original size:50 final size:50
Alignment explanation
Indices: 51232510--51232605 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
51232500 TATGGAGTGT
51232510 TAATAAGTTAGTATTAAAGTTTCGTCAAGAAATTTTAAAGTACTGATAGC
1 TAATAAGTTAGTATTAAAGTTTCGTCAAGAAATTTTAAAGTACTGATAGC
*
51232560 TAATAAGTTAGTATTAAAGTTTCGTCAAGAAATTTTAAAGTTCTGA
1 TAATAAGTTAGTATTAAAGTTTCGTCAAGAAATTTTAAAGTACTGA
51232606 GAGTTAATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (50 bp):
TAATAAGTTAGTATTAAAGTTTCGTCAAGAAATTTTAAAGTACTGATAGC
Found at i:51234411 original size:31 final size:32
Alignment explanation
Indices: 51234370--51234429 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
51234360 AATGGCAAGT
*
51234370 AAAAAGTGGTAGCTTCGGCTATCTGATCAATG
1 AAAAAGTGGTAGCTTCGGCTACCTGATCAATG
51234402 AAAAA-TGGTAGCTTCGGCTACCTGATCA
1 AAAAAGTGGTAGCTTCGGCTACCTGATCA
51234430 TCGGCTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (32 bp):
AAAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:51234511 original size:26 final size:26
Alignment explanation
Indices: 51234482--51234565 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 26
51234472 ACCAGTGAAT
51234482 AGTGATAGCTTCGGCTACAAGTGACA
1 AGTGATAGCTTCGGCTACAAGTGACA
*
51234508 AGTGAT---TTCTGTG-TAAGATAGTGA-A
1 AGTGATAGCTTC-G-GCT-ACA-AGTGACA
51234533 TAGTGATAGCTTCGGCTACAAGTGACA
1 -AGTGATAGCTTCGGCTACAAGTGACA
51234560 AGTGAT
1 AGTGAT
51234566 TTCTCTGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
23 3 0.07
24 2 0.04
25 4 0.09
26 28 0.61
27 4 0.09
28 2 0.04
29 3 0.07
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (26 bp):
AGTGATAGCTTCGGCTACAAGTGACA
Found at i:51234534 original size:52 final size:52
Alignment explanation
Indices: 51234475--51234577 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
51234465 CTACCTGACC
*
51234475 AGTGAATAGTGATAGCTTCGGCTACAAGTGACAAGTGATTTCTGTGTAAGAT
1 AGTGAATAGTGATAGCTTCGGCTACAAGTGACAAGTGATTTCTCTGTAAGAT
51234527 AGTGAATAGTGATAGCTTCGGCTACAAGTGACAAGTGATTTCTCTGTAAGA
1 AGTGAATAGTGATAGCTTCGGCTACAAGTGACAAGTGATTTCTCTGTAAGA
51234578 CCATATCTGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
AGTGAATAGTGATAGCTTCGGCTACAAGTGACAAGTGATTTCTCTGTAAGAT
Found at i:51241777 original size:55 final size:53
Alignment explanation
Indices: 51241587--51241841 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
51241577 ACGCGGGTAC
* * * *
51241587 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGT-A---T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATG-AA
* *
51241636 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATGAA
* * * *
51241689 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGG-AACATTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAAC-CTTGCCTTAT-G-AA
* * **
51241744 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATG-AA
* * * *
51241797 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTAACCTT
51241842 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 35 0.21
52 2 0.01
53 47 0.28
54 14 0.08
55 71 0.42
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATGAA
Found at i:51241778 original size:108 final size:110
Alignment explanation
Indices: 51241634--51241834 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
51241624 ATCCTTTTGA
* *
51241634 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
51241697 -TGCCATGCCTTGGCATGGTCTTACATGGAACATTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGAACATTTGCCTTATAGT
* * *
51241742 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
51241807 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
51241835 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGAACATTTGCCTTATAGT
Found at i:51244711 original size:30 final size:31
Alignment explanation
Indices: 51244677--51244745 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
51244667 TGGCCCAAGA
* * *
51244677 GTAAATATTCAAAATTTGAAGGATTAA-AGT
1 GTAAATATTAAAAAGTTGAAGGACTAATAGT
51244707 GTAAATA-TAAAAAGTTGAAGGACTAATAGT
1 GTAAATATTAAAAAGTTGAAGGACTAATAGT
*
51244737 GAAAATATT
1 GTAAATATT
51244746 TTAAGGGTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.48
30 16 0.48
31 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.30
Consensus pattern (31 bp):
GTAAATATTAAAAAGTTGAAGGACTAATAGT
Found at i:51244724 original size:29 final size:30
Alignment explanation
Indices: 51244677--51244744 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
51244667 TGGCCCAAGA
* * *
51244677 GTAAATATTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TAAAAAGTTGAAGGACTAATAGT
51244707 GTAAATATAAAAAGTTGAAGGACTAATAGT
1 GTAAATATAAAAAGTTGAAGGACTAATAGT
*
51244737 GAAAATAT
1 GTAAATAT
51244745 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATAAAAAGTTGAAGGACTAATAGT
Found at i:51246940 original size:46 final size:46
Alignment explanation
Indices: 51246888--51247115 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
51246878 AGTGTGCTCT
*
51246888 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
51246934 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAT
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
51246980 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
51247026 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
51247072 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
51247116 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:51247422 original size:16 final size:17
Alignment explanation
Indices: 51247401--51247433 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51247391 ATGATGGAGC
51247401 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
51247417 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
51247434 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:51249882 original size:30 final size:31
Alignment explanation
Indices: 51249848--51249914 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
51249838 TGGCCCAAGA
* *
51249848 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATACTCAAAAGTTGAAGGACTAATAGT
* *
51249878 GTAAAT-GTGAAAAGTTGAAGGACTAATAGT
1 GTAAATACTCAAAAGTTGAAGGACTAATAGT
*
51249908 GCAAATA
1 GTAAATA
51249915 TTTTAAGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAAATACTCAAAAGTTGAAGGACTAATAGT
Found at i:51254081 original size:47 final size:47
Alignment explanation
Indices: 51254022--51254116 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
51254012 GTGAGAATAA
*
51254022 CGGCTGGAAATAAGGATTAAATTGAAATAATTTTATTTTATTTTAAC
1 CGGCCGGAAATAAGGATTAAATTGAAATAATTTTATTTTATTTTAAC
*
51254069 CGGCCGGAAATAAGGATTAAATTGCAATAATTTTATTTTATTTTAAC
1 CGGCCGGAAATAAGGATTAAATTGAAATAATTTTATTTTATTTTAAC
51254116 C
1 C
51254117 TAAGGATGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (47 bp):
CGGCCGGAAATAAGGATTAAATTGAAATAATTTTATTTTATTTTAAC
Found at i:51255030 original size:28 final size:28
Alignment explanation
Indices: 51254977--51255060 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
51254967 CACTTTGTGC
51254977 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
51255006 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
51255034 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
51255061 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:51255072 original size:23 final size:24
Alignment explanation
Indices: 51254981--51255074 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
51254971 TTGTGCTATT
51254981 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
51255008 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
51255038 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
51255061 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
51255075 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:51255302 original size:22 final size:23
Alignment explanation
Indices: 51255265--51255309 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
51255255 GCTTTACTGA
51255265 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
51255288 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
51255310 CTGATTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:51256046 original size:42 final size:42
Alignment explanation
Indices: 51255999--51256083 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
51255989 TATGATATTA
*
51255999 TGTGTCTGACTTGTTTGGTTAAGTAAATGCTATGAGTAAATT
1 TGTGTCTGACTTGTTTGGTTAAGTAAATGCTATGAGCAAATT
51256041 TGTGTCTGACTTGTTTGGTTAAGTAAATGCTATGAGCAAATT
1 TGTGTCTGACTTGTTTGGTTAAGTAAATGCTATGAGCAAATT
51256083 T
1 T
51256084 ACTCAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (42 bp):
TGTGTCTGACTTGTTTGGTTAAGTAAATGCTATGAGCAAATT
Found at i:51259897 original size:46 final size:45
Alignment explanation
Indices: 51259823--51259921 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 45
51259813 TATGAAATGT
* *
51259823 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAA
1 GTAAGACCATAGTTGAAAGACACCATGGCAACATGACA-AAAATAA
* * * *
51259869 GTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAAAGATAA
1 GTAAGACCATAGTTGAAAGACACCATGGCAACATGACAAAAATAA
*
51259914 ATAAGACC
1 GTAAGACC
51259922 GTGGATGGGA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 13 0.28
46 33 0.72
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.19
Consensus pattern (45 bp):
GTAAGACCATAGTTGAAAGACACCATGGCAACATGACAAAAATAA
Found at i:51260238 original size:215 final size:215
Alignment explanation
Indices: 51259867--51260298 Score: 864
Period size: 215 Copynumber: 2.0 Consensus size: 215
51259857 GACAGAAAAT
51259867 AAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGA
1 AAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGA
51259932 GACGCGATGACATTGTAACGTCCTCCTACCCGAGACCGTCGCCGGAGTCGAGCACGAGACATTAC
66 GACGCGATGACATTGTAACGTCCTCCTACCCGAGACCGTCGCCGGAGTCGAGCACGAGACATTAC
51259997 AAAACTTATCTTAGCACTTAAACAGTTTTTGTAGTAAACTATCCATCTGCGTCACGGTCGCTAAA
131 AAAACTTATCTTAGCACTTAAACAGTTTTTGTAGTAAACTATCCATCTGCGTCACGGTCGCTAAA
51260062 AAAATCATATCTCGAGTTAC
196 AAAATCATATCTCGAGTTAC
51260082 AAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGA
1 AAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGA
51260147 GACGCGATGACATTGTAACGTCCTCCTACCCGAGACCGTCGCCGGAGTCGAGCACGAGACATTAC
66 GACGCGATGACATTGTAACGTCCTCCTACCCGAGACCGTCGCCGGAGTCGAGCACGAGACATTAC
51260212 AAAACTTATCTTAGCACTTAAACAGTTTTTGTAGTAAACTATCCATCTGCGTCACGGTCGCTAAA
131 AAAACTTATCTTAGCACTTAAACAGTTTTTGTAGTAAACTATCCATCTGCGTCACGGTCGCTAAA
51260277 AAAATCATATCTCGAGTTAC
196 AAAATCATATCTCGAGTTAC
51260297 AA
1 AA
51260299 AACTCAAAAT
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
215 217 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (215 bp):
AAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGA
GACGCGATGACATTGTAACGTCCTCCTACCCGAGACCGTCGCCGGAGTCGAGCACGAGACATTAC
AAAACTTATCTTAGCACTTAAACAGTTTTTGTAGTAAACTATCCATCTGCGTCACGGTCGCTAAA
AAAATCATATCTCGAGTTAC
Found at i:51264445 original size:4 final size:4
Alignment explanation
Indices: 51264436--51264514 Score: 52
Period size: 4 Copynumber: 19.2 Consensus size: 4
51264426 CCCTTTTTTA
* ** * **
51264436 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTT- AGTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-TTC TTTC
* *
51264486 TTTC TATA TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
51264515 CACGTTTGCT
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
3 1 0.02
4 49 0.89
5 4 0.07
6 1 0.02
ACGTcount: A:0.05, C:0.25, G:0.05, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:51264558 original size:14 final size:14
Alignment explanation
Indices: 51264539--51264569 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
51264529 GTAACTTTTC
51264539 TATTCTTTACTCAT
1 TATTCTTTACTCAT
*
51264553 TATTCTTTATTCAT
1 TATTCTTTACTCAT
51264567 TAT
1 TAT
51264570 ACTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTCTTTACTCAT
Found at i:51265203 original size:16 final size:17
Alignment explanation
Indices: 51265182--51265214 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51265172 ATGATGGAGC
51265182 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
51265198 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
51265215 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:51279097 original size:17 final size:19
Alignment explanation
Indices: 51279061--51279098 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
51279051 TCTTAACAAT
*
51279061 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTCTAA
51279080 AATTC-AAAT-ATTTCTAA
1 AATTCAAAATAATTTCTAA
51279097 AA
1 AA
51279099 ATTCCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCAAAATAATTTCTAA
Found at i:51279178 original size:39 final size:41
Alignment explanation
Indices: 51279121--51279198 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 41
51279111 ATATTTTTAA
*
51279121 AATATATATAAAAATTAAATATTCTAAAA-AAA-TCTAATG
1 AATATATATAAAAATTAAAAATTCTAAAAGAAATTCTAATG
*
51279160 AATATATA-AAAAAGTTAAAAATTTTAAAAGAAATTCTAA
1 AATATATATAAAAA-TTAAAAATTCTAAAAGAAATTCTAA
51279199 AGTAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 5 0.15
39 21 0.62
40 3 0.09
41 5 0.15
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (41 bp):
AATATATATAAAAATTAAAAATTCTAAAAGAAATTCTAATG
Found at i:51283135 original size:3 final size:3
Alignment explanation
Indices: 51283129--51283154 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51283119 AAAAAGGAAA
51283129 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
51283155 GAAGGAGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:51289374 original size:15 final size:15
Alignment explanation
Indices: 51289354--51289383 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51289344 ATGGATTCAT
*
51289354 TAAAAAGTAAATAAA
1 TAAAAAATAAATAAA
51289369 TAAAAAATAAATAAA
1 TAAAAAATAAATAAA
51289384 AGAGGGGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
TAAAAAATAAATAAA
Found at i:51289762 original size:64 final size:66
Alignment explanation
Indices: 51289658--51289789 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 66
51289648 TCCACGATGG
*
51289658 AACAGGAAAAAAATGGATGACACCCATTCTTGATTACAATGTTC-TTTAAGGATAATTCGACAAA
1 AACAGGAAAAAAATGGATGACACCCATTCTAGATTACAATGTTCTTTTAAGGATAATTCGACAAA
51289722 C
66 C
*
51289723 AACAGG-AAAAAAT-GATTGACACCCATTCTAGATTGCAATGTTCTTTTAAGGATAATTCGACAA
1 AACAGGAAAAAAATGGA-TGACACCCATTCTAGATTACAATGTTCTTTTAAGGATAATTCGACAA
51289786 AC
65 AC
51289788 AA
1 AA
51289790 GGAGGAAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
63 2 0.03
64 32 0.51
65 29 0.46
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (66 bp):
AACAGGAAAAAAATGGATGACACCCATTCTAGATTACAATGTTCTTTTAAGGATAATTCGACAAA
C
Found at i:51291413 original size:46 final size:46
Alignment explanation
Indices: 51291360--51291474 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
51291350 GACGGTTTGG
*
51291360 CTCGAATTATTTATTTAAATTAATCTATAAATTTAATCCGGATTGA
1 CTCGAATTATTTATTTAAATTAATCTATAAATTTAATCCAGATTGA
* * * *
51291406 CTCGAATTATTTACTTAAACTAATCTATAAATTTAATTCAGTTTGA
1 CTCGAATTATTTATTTAAATTAATCTATAAATTTAATCCAGATTGA
51291452 CTCGAATTATTTATTTAAATTAA
1 CTCGAATTATTTATTTAAATTAA
51291475 CCGTTGAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (46 bp):
CTCGAATTATTTATTTAAATTAATCTATAAATTTAATCCAGATTGA
Found at i:51295021 original size:16 final size:16
Alignment explanation
Indices: 51295002--51295046 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
51294992 CAAGAGTTTG
*
51295002 AAATAACTCAAAATCA
1 AAATAATTCAAAATCA
* *
51295018 AAATTATTCAAATTCA
1 AAATAATTCAAAATCA
51295034 AAATAATTCAAAA
1 AAATAATTCAAAA
51295047 AATTTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAATTCAAAATCA
Found at i:51299197 original size:20 final size:20
Alignment explanation
Indices: 51299169--51299206 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51299159 TTTAATTAAT
*
51299169 TTAGCTTAATTAACTTAAAC
1 TTAGCTTAATTAAATTAAAC
*
51299189 TTAGTTTAATTAAATTAA
1 TTAGCTTAATTAAATTAA
51299207 GCTAACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAGCTTAATTAAATTAAAC
Found at i:51299907 original size:26 final size:26
Alignment explanation
Indices: 51299871--51299922 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
51299861 GAGAGATGAA
51299871 GGCAATCTACAGTAAAATCTCGTCGC
1 GGCAATCTACAGTAAAATCTCGTCGC
51299897 GGCAATCTACAGTAAAATCTCGTCGC
1 GGCAATCTACAGTAAAATCTCGTCGC
51299923 TGTTCATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (26 bp):
GGCAATCTACAGTAAAATCTCGTCGC
Found at i:51306162 original size:25 final size:25
Alignment explanation
Indices: 51306112--51306163 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
51306102 TTATGTAAAG
* * **
51306112 AAATATTTCATAAATAATGATGAAT
1 AAATAATTCATAAATAATAACAAAT
51306137 AAATAATTCATAAATAATAACAAAT
1 AAATAATTCATAAATAATAACAAAT
51306162 AA
1 AA
51306164 CTCGAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATAATTCATAAATAATAACAAAT
Found at i:51307979 original size:31 final size:30
Alignment explanation
Indices: 51307912--51307980 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
51307902 ATAATAATAT
* *
51307912 AAGTGACTAAAACGTAACATTTCAAACATG
1 AAGTGACTAAAACGTAACATGTCAAACATA
*
51307942 AA-TGACTAAAATGTAACATGAGTCAAACA-A
1 AAGTGACTAAAACGTAACAT--GTCAAACATA
51307972 AAGTGACTA
1 AAGTGACTA
51307981 TTTTTGAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 16 0.48
30 4 0.12
31 13 0.39
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (30 bp):
AAGTGACTAAAACGTAACATGTCAAACATA
Found at i:51317514 original size:18 final size:18
Alignment explanation
Indices: 51317491--51317530 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
51317481 ACGTAAAAAG
51317491 TAAAAAGTAAA-AGATGAAA
1 TAAAAA-TAAATA-ATGAAA
51317510 TAAAAATAAATAATGAAA
1 TAAAAATAAATAATGAAA
51317528 TAA
1 TAA
51317531 TTTAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (18 bp):
TAAAAATAAATAATGAAA
Found at i:51322066 original size:21 final size:21
Alignment explanation
Indices: 51322042--51322101 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
51322032 AACACATAAA
51322042 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* * *
51322063 GTGCCTGATACGAC-CACGAT
1 GTGCCTAAAACGACACACGAG
51322083 GTGCCTGAAATACGACACA
1 GTGCCT-AAA-ACGACACA
51322102 TAAAGTGCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 11 0.35
21 13 0.42
22 5 0.16
23 2 0.06
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.15
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:51322086 original size:20 final size:21
Alignment explanation
Indices: 51322042--51322101 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
51322032 AACACATAAA
* *
51322042 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
*
51322063 GTGCCTGATACGAC-CACGAT
1 GTGCCTGATACGACACACGAG
51322083 GTGCCTGAAATACGACACA
1 GTGCCTG--ATACGACACA
51322102 TAAAGTGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 12 0.36
21 12 0.36
22 7 0.21
23 2 0.06
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.15
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:51339254 original size:46 final size:44
Alignment explanation
Indices: 51339150--51339257 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
51339140 TGTCTTTGAC
** * * *
51339150 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
51339194 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
51339240 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
51339258 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:51346644 original size:46 final size:44
Alignment explanation
Indices: 51346540--51346647 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
51346530 TGTCTTTGAC
** * * *
51346540 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
51346584 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
51346630 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
51346648 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:51353734 original size:46 final size:44
Alignment explanation
Indices: 51353630--51353737 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
51353620 TGTCTTTGAC
** * * *
51353630 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
51353674 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
51353720 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
51353738 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:51354726 original size:19 final size:20
Alignment explanation
Indices: 51354704--51354744 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
51354694 TTCTATTCTG
*
51354704 TTTCTTTTCTTTCTTTT-TT
1 TTTCTATTCTTTCTTTTGTT
51354723 TTTCTATTCTTTCTTTTGTT
1 TTTCTATTCTTTCTTTTGTT
51354743 TT
1 TT
51354745 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTCTATTCTTTCTTTTGTT
Found at i:51354732 original size:15 final size:15
Alignment explanation
Indices: 51354694--51354739 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
51354684 GTTTCGTCTC
*
51354694 TTCTATTCTGTTTCTT
1 TTCTATTCT-TTTTTT
51354710 TTCT-TTCTTTTTTT
1 TTCTATTCTTTTTTT
51354724 TTCTATTCTTTCTTTT
1 TTCTATTCTTT-TTTT
51354740 GTTTTATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 9 0.33
15 10 0.37
16 8 0.30
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTATTCTTTTTTT
Found at i:51354761 original size:5 final size:5
Alignment explanation
Indices: 51354748--51354820 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
51354738 TTGTTTTATG
51354748 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
51354796 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
51354821 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:51354773 original size:19 final size:19
Alignment explanation
Indices: 51354749--51354791 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
51354739 TGTTTTATGT
51354749 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
51354768 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
51354787 ATATA
1 ATATA
51354792 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:51354801 original size:24 final size:24
Alignment explanation
Indices: 51354755--51354819 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
51354745 ATGTATATAT
* * *
51354755 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
51354779 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
51354803 ATTACTATAATATAATA
1 A-TAATATAATATAATA
51354820 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:51359350 original size:28 final size:23
Alignment explanation
Indices: 51359256--51359335 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
51359246 GTTTTAAAAT
* *
51359256 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
51359278 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
51359301 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
51359324 TTGGGCTAGGTT
1 TTGGGCTAGGTT
51359336 AGTTGGGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
21 9 0.17
22 9 0.17
23 36 0.67
ACGTcount: A:0.14, C:0.06, G:0.41, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:51360009 original size:44 final size:43
Alignment explanation
Indices: 51359942--51360342 Score: 316
Period size: 44 Copynumber: 9.1 Consensus size: 43
51359932 CGCCATCGTC
* * * *
51359942 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAG
1 GATCTGC-ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAA
* * * * * * * *
51359987 GATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAG
1 GATCTGCATCTTCGATCTACTTCCCACCAATATAGGAAGACAA
* * * * * * *
51360030 GACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTG-CATCTTCGATCTACTTCCCACCAATATAGGAAGACAA
* *
51360074 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGC-ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAA
* * * **
51360119 GATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACCG
1 GATCTGCATCTTCGATCTACTTCCCACCAATATAGGAAGACAA
* * * * * * *
51360162 GACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTG-CATCTTCGATCTACTTCCCACCAATATAGGAAGACAA
* *
51360206 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGC-ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAA
* * * *
51360251 GATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCATCTTCGATCTACTTCCCACCAATATAGGAAGACAA
* * * * * *
51360294 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAG
1 GATCTGC-ATCTTCGATCTACTTCCCACCAATATAGGAAGACAA
51360338 GATCT
1 GATCT
51360343 ACTTTAATGA
Statistics
Matches: 277, Mismatches: 72, Indels: 15
0.76 0.20 0.04
Matches are distributed among these distances:
43 64 0.23
44 163 0.59
45 50 0.18
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GATCTGCATCTTCGATCTACTTCCCACCAATATAGGAAGACAA
Found at i:51360179 original size:132 final size:132
Alignment explanation
Indices: 51359942--51360347 Score: 659
Period size: 132 Copynumber: 3.1 Consensus size: 132
51359932 CGCCATCGTC
* * * * *
51359942 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
51360007 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
51360072 AA
131 AA
*
51360074 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
**
51360139 TTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
51360204 AA
131 AA
51360206 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
51360271 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
*
51360336 AG
131 AA
*
51360338 GATCTACTTT
1 GATCTGCTTT
51360348 AATGACTTCA
Statistics
Matches: 254, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 254 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:51372182 original size:142 final size:141
Alignment explanation
Indices: 51372000--51372281 Score: 546
Period size: 142 Copynumber: 2.0 Consensus size: 141
51371990 TCGAAAATTG
51372000 AAAATTTGAAGAGTTTTAAAAAAATGCGATCCTTAAAAGAAAATCTGATATCGTGAATTGAAACA
1 AAAATTTGAAGAGTTTTAAAAAAATGCGATCCTTAAAAGAAAATCTGATATCGTGAATTGAAACA
51372065 TAAGATTCTCTTGTTCCGAAGGAATATCACATCCAGCACGTTAGGACACGATACTCTAAACCATC
66 TAAGATTCTCTTGTTCCGAAGGAATATCACATCCAGCACGTTAGGACACGATACTCTAAACCATC
51372130 AAAACCAAGAA
131 AAAACCAAGAA
51372141 AAAATTTGAAGAGTTTTAAAAAAAATGCGATCCTTAAAAGAAAATCTGATATCGTGAATTGAAAC
1 AAAATTTGAAGAGTTTT-AAAAAAATGCGATCCTTAAAAGAAAATCTGATATCGTGAATTGAAAC
*
51372206 ATAAGATTCTCTTGTTCCGAATGAATATCACATCCAGCACGTTAGGACACGATACTCTAAACCAT
65 ATAAGATTCTCTTGTTCCGAAGGAATATCACATCCAGCACGTTAGGACACGATACTCTAAACCAT
51372271 CAAAACCAAGA
130 CAAAACCAAGA
51372282 TCACCTTATA
Statistics
Matches: 139, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
141 17 0.12
142 122 0.88
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (141 bp):
AAAATTTGAAGAGTTTTAAAAAAATGCGATCCTTAAAAGAAAATCTGATATCGTGAATTGAAACA
TAAGATTCTCTTGTTCCGAAGGAATATCACATCCAGCACGTTAGGACACGATACTCTAAACCATC
AAAACCAAGAA
Found at i:51373510 original size:79 final size:81
Alignment explanation
Indices: 51373367--51373528 Score: 283
Period size: 79 Copynumber: 2.0 Consensus size: 81
51373357 GACCCTTCCA
51373367 CAAAAACACGCGGATCTTCCTCGTGGGTCGGGTCGGGTCGGTCCGACCCAGGGCAAAACGACGTC
1 CAAAAACACGCGGATCTTCCTC---GGTCGGGTCGGGTCGGTCCGACCCAGGGCAAAACGACGTC
51373432 GTTTTATCCCCTGGGTCAG
63 GTTTTATCCCCTGGGTCAG
51373451 CAAAAACACGCGGATCTTCCTC-GT-GGGTCGGGTCGGTCCGACCCAGGGCAAAACGACGTCGTT
1 CAAAAACACGCGGATCTTCCTCGGTCGGGTCGGGTCGGTCCGACCCAGGGCAAAACGACGTCGTT
51373514 TTATCCCCTGGGTCA
66 TTATCCCCTGGGTCA
51373529 TTTCCGCAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
79 54 0.69
80 2 0.03
84 22 0.28
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (81 bp):
CAAAAACACGCGGATCTTCCTCGGTCGGGTCGGGTCGGTCCGACCCAGGGCAAAACGACGTCGTT
TTATCCCCTGGGTCAG
Found at i:51374418 original size:88 final size:87
Alignment explanation
Indices: 51374302--51374471 Score: 288
Period size: 88 Copynumber: 1.9 Consensus size: 87
51374292 GTTTTAAAAT
*
51374302 TTGGGCTCAGGTAGTTTTAGGATTGGGCTAGGTTGGTTTAGGGTATTGGGCTAGGTTAGTTGGGT
1 TTGGGCTCAGGTAGGTTTAGGATTGGGCTAGGTTGGTTTAGGGTATTGGGCTAGGTTAGTTGGGT
51374367 TTTGGGTTTAGTAGTTTTAGGA
66 TTTGGGTTTAGTAGTTTTAGGA
*
51374389 TTGGGCT-AGGTTGGTTTAGGGTATTGGGCTAGGTTGGTTTAGGGTATTGGGCTAGGTTAGTTGG
1 TTGGGCTCAGGTAGGTTTA-GG-ATTGGGCTAGGTTGGTTTAGGGTATTGGGCTAGGTTAGTTGG
*
51374453 GTTTTGGGTTTAGTTGTTT
64 GTTTTGGGTTTAGTAGTTT
51374472 ATGCTTGGTT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
86 9 0.12
87 9 0.12
88 60 0.77
ACGTcount: A:0.13, C:0.04, G:0.40, T:0.43
Consensus pattern (87 bp):
TTGGGCTCAGGTAGGTTTAGGATTGGGCTAGGTTGGTTTAGGGTATTGGGCTAGGTTAGTTGGGT
TTTGGGTTTAGTAGTTTTAGGA
Found at i:51374461 original size:28 final size:23
Alignment explanation
Indices: 51374302--51374446 Score: 160
Period size: 23 Copynumber: 6.5 Consensus size: 23
51374292 GTTTTAAAAT
* *
51374302 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
51374324 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
* *
51374347 TTGGGCTAGGTTAG-TT-GGGTT
1 TTGGGCTAGGTTGGTTTAGGGTA
* * *
51374368 TTGGGTTTA-GTAGTTTTA-GG-A
1 TTGGG-CTAGGTTGGTTTAGGGTA
51374389 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
51374412 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
51374435 TTGGGCTAGGTT
1 TTGGGCTAGGTT
51374447 AGTTGGGTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.02
21 32 0.31
22 19 0.18
23 50 0.49
ACGTcount: A:0.14, C:0.05, G:0.41, T:0.41
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:51378071 original size:91 final size:91
Alignment explanation
Indices: 51377916--51378761 Score: 1692
Period size: 91 Copynumber: 9.3 Consensus size: 91
51377906 GTAAAATTAG
51377916 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51377981 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378007 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378072 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378098 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378163 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378189 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378254 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378280 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378345 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378371 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378436 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378462 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378527 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378553 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378618 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378644 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
1 GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
51378709 CAGGCTTTAAAAAATTAATTTTTTTA
66 CAGGCTTTAAAAAATTAATTTTTTTA
51378735 GTTTTGGCCTGTCAATGGCCGGCACCA
1 GTTTTGGCCTGTCAATGGCCGGCACCA
51378762 GGGTATTTTT
Statistics
Matches: 755, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 755 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (91 bp):
GTTTTGGCCTGTCAATGGCCGGCACCAACTCGTATTTTGCACCCATGATTGTCAAATAATTGCGT
CAGGCTTTAAAAAATTAATTTTTTTA
Found at i:51381721 original size:17 final size:18
Alignment explanation
Indices: 51381689--51381722 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51381679 TTAAGCAATG
51381689 CAAACAAATAAATGCACA
1 CAAACAAATAAATGCACA
*
51381707 CAAACACAT-AATGCAC
1 CAAACAAATAAATGCAC
51381723 GTTCAGCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.26, G:0.06, T:0.12
Consensus pattern (18 bp):
CAAACAAATAAATGCACA
Found at i:51382499 original size:43 final size:43
Alignment explanation
Indices: 51382447--51382601 Score: 229
Period size: 43 Copynumber: 3.6 Consensus size: 43
51382437 CCGGCATTAC
* * *
51382447 GCCTCCTAGGCACGAAGGCCCGAATTCACGTCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*** * *
51382490 GCCTGCTAGGCACGAAGGCGTAAATACACATCTCTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
51382533 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
51382576 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
51382602 TAATACCAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 98 1.00
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:51386045 original size:16 final size:16
Alignment explanation
Indices: 51385994--51386061 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
51385984 TGGGAATGGG
* *
51385994 AATGAAAATGAAATTAG
1 AATG-AAATAAAATTAA
* *
51386011 AATGAAATAAAGTTGA
1 AATGAAATAAAATTAA
51386027 AATGAAATAAAATTAA
1 AATGAAATAAAATTAA
* *
51386043 AATAAAATGAAAATGAA
1 AATGAAAT-AAAATTAA
51386060 AA
1 AA
51386062 GAAGCGAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 29 0.69
17 13 0.31
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (16 bp):
AATGAAATAAAATTAA
Found at i:51386501 original size:24 final size:24
Alignment explanation
Indices: 51386453--51386501 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
51386443 ACTAATAATA
*
51386453 TGAAAAAAATAATATGAAATGAAT
1 TGAAAAAAATAATATGAAATAAAT
51386477 TGAAAAAAATAAT-TGAAATTAAAT
1 TGAAAAAAATAATATGAAA-TAAAT
51386501 T
1 T
51386502 AAATTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (24 bp):
TGAAAAAAATAATATGAAATAAAT
Found at i:51386767 original size:16 final size:16
Alignment explanation
Indices: 51386748--51386788 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
51386738 TTTTAAAATT
51386748 AATTTGAAAAAATTAA
1 AATTTGAAAAAATTAA
*
51386764 AATTTAAAAAAAATTAA
1 AATTT-GAAAAAATTAA
51386781 AATATTGA
1 AAT-TTGA
51386789 TGAAAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AATTTGAAAAAATTAA
Found at i:51386911 original size:25 final size:26
Alignment explanation
Indices: 51386858--51386916 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
51386848 AAAATGACTT
51386858 AAAAAAATTAATATGAGGAATAATATG
1 AAAAAAATTAATATGA-GAATAATATG
*
51386885 AAAAAAATTAATATGA-ATTGAAT-TG
1 AAAAAAATTAATATGAGAAT-AATATG
51386910 AAAAAAA
1 AAAAAAA
51386917 AATAATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 11 0.37
26 3 0.10
27 16 0.53
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (26 bp):
AAAAAAATTAATATGAGAATAATATG
Found at i:51389420 original size:108 final size:105
Alignment explanation
Indices: 51388926--51389429 Score: 502
Period size: 109 Copynumber: 4.7 Consensus size: 105
51388916 TATATATATA
* * * * * **
51388926 TTTTTTTTTGCACTGGGTGCC-GACATTGACAGGCTAGCACCCAAAAAAAATTTTTTTTGGAACT
1 TTTTTTTTTGTACTGGGTGCCGGCCATTGTCAGGCCAGCACCC----AAATTTTTTTTTAAAACT
* * *
51388990 CGTA-TTTTCGAGAG-AAAAAAAAA-TTGAAAAAAAAATTTTAAGT
62 CGTATTTTTAGAGAGAAAAAAAAAATTTTAAAAAAAAA-TTGAA-T
* * *****
51389033 TTTTTTTTTGTACTGGGTGCTGGCCATTGAT-AGGCCAGCACCTAAAATTTTAAAAAAAAAAACT
1 TTTTTTTTTGTACTGGGTGCCGGCCATTG-TCAGGCCAGCACC-CAAATTTT--TTTTTAAAACT
*
51389097 CGTATTTTTTA-AGAGCAAAAAAAAAATTTCGAAAAAAAAATT-AAT
62 CGTA-TTTTTAGAGAG-AAAAAAAAAATTT-TAAAAAAAAATTGAAT
* * *
51389142 TTTTTTTTGGTACTGAGTGCCGGCCATT-TACAGGCCAGCATCCCAAATTTTTTTTTAAAAAAAT
1 TTTTTTTTTGTACTGGGTGCCGGCCATTGT-CAGGCCAGCA-CCCAAATTTTTTTTT--AAAACT
* * *
51389206 CGTGTTTTTAGAGAGCAAAAAAAAATTTTGAAAAAAAAAATGAAT
62 CGTATTTTTAGAGAGAAAAAAAAAATTTT-AAAAAAAAATTGAAT
* *
51389251 TTTTTTTCTGGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTAAAACTCG
1 TTTTTTT-TTGTACTGGGTGCCGGCCATTGTCAGGCCAGCACCCAAA-TTTTTTTTTAAAACTCG
*
51389316 TATTTTTAGAGAGTAAAAAAAAAATTTTAAAAAAAAGTTGAATT
64 TATTTTTAGAGAG-AAAAAAAAAATTTTAAAAAAAAATTGAA-T
51389360 TTTTTTTATTGTACTGGGTGCCGGCCATTGTCAGGCCAGCACCCAAATTTTTTTTTAAAACTCGT
1 TTTTTTT-TTGTACTGGGTGCCGGCCATTGTCAGGCCAGCACCCAAATTTTTTTTTAAAACTCGT
51389425 ATTTT
65 ATTTT
51389430 GTATACCAAT
Statistics
Matches: 334, Mismatches: 39, Indels: 47
0.80 0.09 0.11
Matches are distributed among these distances:
105 6 0.02
107 28 0.08
108 102 0.31
109 132 0.40
110 52 0.16
111 4 0.01
112 10 0.03
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (105 bp):
TTTTTTTTTGTACTGGGTGCCGGCCATTGTCAGGCCAGCACCCAAATTTTTTTTTAAAACTCGTA
TTTTTAGAGAGAAAAAAAAAATTTTAAAAAAAAATTGAAT
Found at i:51391942 original size:2 final size:2
Alignment explanation
Indices: 51391931--51391959 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
51391921 TTTTATATCG
51391931 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
51391960 TGGTGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:51394692 original size:25 final size:22
Alignment explanation
Indices: 51394664--51394708 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
51394654 TTTTAAAAAT
51394664 ATTTATAACAAAATATTATAATTAA
1 ATTTA-AACAAAA-A-TATAATTAA
*
51394689 ATTTAAATAAAAATATAATT
1 ATTTAAACAAAAATATAATT
51394709 TTTTTTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 6 0.32
25 5 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAAACAAAAATATAATTAA
Found at i:51396183 original size:11 final size:11
Alignment explanation
Indices: 51396167--51396200 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
51396157 CGGGCCTGCC
51396167 TATATTAATTT
1 TATATTAATTT
*
51396178 TATATTATTTT
1 TATATTAATTT
51396189 TATA-TAATTT
1 TATATTAATTT
51396199 TA
1 TA
51396201 AAATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTAATTT
Found at i:51396439 original size:11 final size:11
Alignment explanation
Indices: 51396421--51396461 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
51396411 ACAATAACAA
51396421 CAAAATAGTAG
1 CAAAATAGTAG
*
51396432 CAACATAGTAG
1 CAAAATAGTAG
*
51396443 TAAAATAGTAG
1 CAAAATAGTAG
*
51396454 CAGAATAG
1 CAAAATAG
51396462 GTAGAAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:51396461 original size:22 final size:22
Alignment explanation
Indices: 51396422--51396469 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
51396412 CAATAACAAC
51396422 AAAATAGTAGCAACATA-GTAG
1 AAAATAGTAGCAACATAGGTAG
51396443 TAAAATAGTAGCAGA-ATAGGTAG
1 -AAAATAGTAGCA-ACATAGGTAG
51396466 AAAA
1 AAAA
51396470 CAATAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.54, C:0.06, G:0.21, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAACATAGGTAG
Found at i:51396904 original size:15 final size:15
Alignment explanation
Indices: 51396878--51396920 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
51396868 TTTACTAAAG
51396878 TTTATGAAAAAA-AAT
1 TTTAT-AAAAAATAAT
51396893 TGTTATAAAAAATAAT
1 T-TTATAAAAAATAAT
*
51396909 TTAATAAAAAAT
1 TTTATAAAAAAT
51396921 CTATATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (15 bp):
TTTATAAAAAATAAT
Found at i:51408972 original size:60 final size:60
Alignment explanation
Indices: 51408874--51409034 Score: 252
Period size: 60 Copynumber: 2.7 Consensus size: 60
51408864 AGGAAAAGGG
*
51408874 AAGCCAGCGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACGGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACGGGA
* * *
51408934 AAGCCAGGGGGTGGCACTCATGTGAATGTTGGAGGCAAAGGAGTTGGGGTGAACACTGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA
* *
51408994 AAGCCAGGAGGTGGCACCCATGTGAACGTTGGAGGCAAAGG
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGG
51409035 TGGAGGAGTA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 92 0.99
61 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.40, T:0.16
Consensus pattern (60 bp):
AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA
Found at i:51415532 original size:43 final size:43
Alignment explanation
Indices: 51415397--51415534 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 43
51415387 AGATCCACTA
* *
51415397 TCTTCAACTAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
* * * * ** * * *
51415440 TCTTCGACCTGCTTCGCTGTCGATACAG-GA-AGGCAAGATCTGTTG
1 TCTTCAACCAGCTCCAC-CAC-A-ACCGAGAGAGGCAAGGTTTG-TG
51415485 TCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
51415528 TCTTCAA
1 TCTTCAA
51415535 TCTGCTTCGT
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
42 3 0.04
43 24 0.34
44 22 0.31
45 18 0.26
46 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (43 bp):
TCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
Found at i:51415702 original size:88 final size:88
Alignment explanation
Indices: 51415377--51415683 Score: 427
Period size: 88 Copynumber: 3.5 Consensus size: 88
51415367 ACCGTCAGTA
** * *
51415377 CAGGAAGGCAAGATCCACTATCTTCAACTAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* * ** *
51415442 TTCGACCTGCTTCGCTGTCGATA
66 TTCGATCTGCTTCGTTGTTAATG
* *
51415465 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
*
51415530 TTCAATCTGCTTCGTTGTTAATG
66 TTCGATCTGCTTCGTTGTTAATG
* * *
51415553 CAGGAAGGCAAGATCTGCTGTTTTCAACCAGCTCTACTACACCCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* *
51415618 TTCGATCTACTTCGTTGTTAACG
66 TTCGATCTGCTTCGTTGTTAATG
* * *
51415641 CTGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACC
1 CAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCACTACAACC
51415684 AATGAAGGCG
Statistics
Matches: 193, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
87 19 0.10
88 174 0.90
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (88 bp):
CAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
TTCGATCTGCTTCGTTGTTAATG
Found at i:51420057 original size:19 final size:20
Alignment explanation
Indices: 51420028--51420076 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
51420018 CACTTCGTGA
* *
51420028 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
51420047 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
51420067 AAATG-AATGC
1 AAATGTAATGC
51420077 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:51421980 original size:12 final size:12
Alignment explanation
Indices: 51421965--51421996 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
51421955 TAATGAAAAT
51421965 ATAAATAAAGAA
1 ATAAATAAAGAA
51421977 ATAAATAAAGAA
1 ATAAATAAAGAA
*
51421989 ATGAATAA
1 ATAAATAA
51421997 GGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:51424374 original size:18 final size:18
Alignment explanation
Indices: 51424360--51424394 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51424350 GAAAAAAAGT
51424360 AAAAAATAAA-TAAAATAG
1 AAAAAA-AAACTAAAATAG
51424378 AAAAAAAAACTAAAATA
1 AAAAAAAAACTAAAATA
51424395 TGATAACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAAAAAACTAAAATAG
Found at i:51428059 original size:10 final size:10
Alignment explanation
Indices: 51428044--51428068 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51428034 ATGAAAATTT
51428044 TTTTTTATAA
1 TTTTTTATAA
51428054 TTTTTTATAA
1 TTTTTTATAA
51428064 TTTTT
1 TTTTT
51428069 AAATTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:51430249 original size:30 final size:30
Alignment explanation
Indices: 51430213--51430272 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
51430203 TTCCCGAGCC
51430213 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
51430243 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
51430273 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:51431613 original size:18 final size:19
Alignment explanation
Indices: 51431590--51431628 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51431580 TACAAATACA
*
51431590 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
51431608 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
51431627 AA
1 AA
51431629 TCATATTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:51432176 original size:31 final size:31
Alignment explanation
Indices: 51432138--51432200 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
51432128 GTATTTACAA
* *
51432138 CATATTTCACTTTATATTTTCAATTCATTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
*
51432169 CATATTTCACATTCTATTTTCAATTCACTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
51432200 C
1 C
51432201 TCATATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.51
Consensus pattern (31 bp):
CATATTTCACATTATATTTTCAATTCACTAT
Found at i:51432614 original size:47 final size:46
Alignment explanation
Indices: 51432558--51432692 Score: 216
Period size: 47 Copynumber: 2.9 Consensus size: 46
51432548 TAGGATGGTT
* *
51432558 GAACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
51432604 GAAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 G-AACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
51432651 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51432693 GCGGGTTACA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
46 39 0.48
47 43 0.52
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:51433529 original size:18 final size:19
Alignment explanation
Indices: 51433506--51433544 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51433496 TACAAATACA
*
51433506 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
51433524 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
51433543 AA
1 AA
51433545 TCATATTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:51434092 original size:31 final size:31
Alignment explanation
Indices: 51434054--51434116 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
51434044 GTATTTACAA
* *
51434054 CATATTTCACTTTATATTTTCAATTCATTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
*
51434085 CATATTTCACATTCTATTTTCAATTCACTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
51434116 C
1 C
51434117 TCATATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.51
Consensus pattern (31 bp):
CATATTTCACATTATATTTTCAATTCACTAT
Found at i:51434310 original size:27 final size:25
Alignment explanation
Indices: 51434246--51434303 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
51434236 ATGTACTAAA
* *
51434246 CAGATAGCAATAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
51434271 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
*
51434296 CAAAGAGC
1 CAGAGAGC
51434304 GCGCTAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:51435245 original size:7 final size:7
Alignment explanation
Indices: 51435223--51435255 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
51435213 TTATTATATA
51435223 ATATAAT
1 ATATAAT
51435230 ATA-ACAT
1 ATATA-AT
51435237 ATATAAT
1 ATATAAT
51435244 ATATAAT
1 ATATAAT
51435251 ATATA
1 ATATA
51435256 CTTAACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATAAT
Found at i:51435289 original size:29 final size:28
Alignment explanation
Indices: 51435240--51435294 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
51435230 ATAACATATA
*
51435240 TAATATATAATATATACTTAACTTTTAAG
1 TAATATATAAGATATACTTAA-TTTTAAG
*
51435269 TAATATTATAAGATAT-TTTAATTTTA
1 TAATA-TATAAGATATACTTAATTTTA
51435295 GATTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 9 0.39
30 9 0.39
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TAATATATAAGATATACTTAATTTTAAG
Found at i:51445764 original size:18 final size:18
Alignment explanation
Indices: 51445724--51445766 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
51445714 CCCTCGCTAT
* *
51445724 TGAAGAAGAAGAGGAGGA
1 TGAAGAAGAAGAAGAAGA
*
51445742 GGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
51445760 TGAAGAA
1 TGAAGAA
51445767 CATCACGAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.05
Consensus pattern (18 bp):
TGAAGAAGAAGAAGAAGA
Found at i:51455981 original size:31 final size:31
Alignment explanation
Indices: 51455946--51456008 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
51455936 TTTTTAAATG
51455946 TATACA-ATTGAATCAAAATTAAAATTTTATA
1 TATACATA-TGAATCAAAATTAAAATTTTATA
* *
51455977 TATACATATGAATCACAATTCAAATTTTATA
1 TATACATATGAATCAAAATTAAAATTTTATA
51456008 T
1 T
51456009 GTATAATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (31 bp):
TATACATATGAATCAAAATTAAAATTTTATA
Found at i:51456156 original size:19 final size:20
Alignment explanation
Indices: 51456122--51456164 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
51456112 AACTTCCCTT
*
51456122 TTTCCATTTTTACAATTAAC
1 TTTCCATTTTTACAATAAAC
*
51456142 TTTCC-TTTTTCCAATAAAC
1 TTTCCATTTTTACAATAAAC
51456161 TTTC
1 TTTC
51456165 TTAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTCCATTTTTACAATAAAC
Found at i:51458859 original size:29 final size:29
Alignment explanation
Indices: 51458813--51458871 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
51458803 GTGAAGTTAG
*
51458813 TCAATACATCACTGGTCTTATACTCTTTA
1 TCAATACATCACTAGTCTTATACTCTTTA
*
51458842 TCAATACATCACTAGTCTTATACTTTTTA
1 TCAATACATCACTAGTCTTATACTCTTTA
51458871 T
1 T
51458872 AATCTCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (29 bp):
TCAATACATCACTAGTCTTATACTCTTTA
Found at i:51461725 original size:35 final size:35
Alignment explanation
Indices: 51461686--51462022 Score: 431
Period size: 35 Copynumber: 9.6 Consensus size: 35
51461676 CATGGCAAAG
* ** *
51461686 TGTGAAATGTAGGTATGACATTAACCATGCTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * *
51461721 TGTGAAACGTATGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
51461756 TGTGAAACGTAGGTATAGTATTAACCATATTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
51461791 TGTGAAACTTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
51461826 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
51461861 TGTGAAACGTAGGTATAGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
51461896 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * * * *
51461931 TGTGAAATGGAGGGATGGTATTATCCATATTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
** ** ** *
51461966 TAAGAAACGTAGGTATGACATTTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
**
51462001 TGTGAAATATAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
51462023 TCAATAAGGA
Statistics
Matches: 260, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 260 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
Found at i:51464256 original size:37 final size:38
Alignment explanation
Indices: 51464214--51464310 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 38
51464204 CGGATAGATT
*
51464214 CGATGAGGCGTTGGTCGCCAC-TTTGCTTCG-GCTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAAC-TAGC
* ** *
51464251 CGATGAGACGTTGGTCATCACTTATTTGCTTCGAACTATC
1 CGATGAGGCGTTGGTCGCCAC-T-TTTGCTTCGAACTAGC
*
51464291 CGATGAGGCCTTGGTCGCCA
1 CGATGAGGCGTTGGTCGCCA
51464311 TTCTGGTGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 18 0.38
40 28 0.60
41 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (38 bp):
CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:51465999 original size:19 final size:20
Alignment explanation
Indices: 51465967--51466006 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
51465957 AATGTAAAAT
* *
51465967 AATATTATTTAAAT-TATTA
1 AATATAATTAAAATATATTA
51465986 AATATAATTAAAATATATTA
1 AATATAATTAAAATATATTA
51466006 A
1 A
51466007 CTTATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATAATTAAAATATATTA
Found at i:51466699 original size:27 final size:28
Alignment explanation
Indices: 51466669--51466722 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
51466659 AAAAAAAAAA
51466669 CCCAAAATCCATATTT-AAAAAACCCTT
1 CCCAAAATCCATATTTAAAAAAACCCTT
51466696 CCCAAAATCCATATTTAAAAAAACCCT
1 CCCAAAATCCATATTTAAAAAAACCCT
51466723 AACTGGCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (28 bp):
CCCAAAATCCATATTTAAAAAAACCCTT
Found at i:51472606 original size:38 final size:38
Alignment explanation
Indices: 51472564--51472639 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
51472554 GAAGATGAAG
51472564 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
1 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
51472602 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
1 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
51472640 TTGTTAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (38 bp):
ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
Found at i:51472630 original size:19 final size:19
Alignment explanation
Indices: 51472570--51472631 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
51472560 GAAGATAAAC
51472570 AACAAATGTAAATAGATTA
1 AACAAATGTAAATAGATTA
* * * * * *
51472589 AACAAGTCTTACTATA-AA
1 AACAAATGTAAATAGATTA
51472607 CAACAAATGTAAATAGATTA
1 -AACAAATGTAAATAGATTA
51472627 AACAA
1 AACAA
51472632 GTCTTACTTT
Statistics
Matches: 29, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.24
Consensus pattern (19 bp):
AACAAATGTAAATAGATTA
Found at i:51472825 original size:122 final size:123
Alignment explanation
Indices: 51472670--51472903 Score: 407
Period size: 122 Copynumber: 1.9 Consensus size: 123
51472660 TCAATAGCAC
51472670 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAAT-AAAAAA
1 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
*
51472734 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGTAGATCAATACTATTGAT
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAATACTATTGAT
* *
51472792 GATCATATTTATCTGCATGATTATAAACTCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
1 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
* * *
51472857 CAAATGCTACAGTTTAACTAGACTACGAGCAAAAGCTGAGCAGATCA
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCA
51472904 CAGCTAAGAT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 56 0.53
123 49 0.47
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (123 bp):
GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAATACTATTGAT
Found at i:51474651 original size:904 final size:904
Alignment explanation
Indices: 51472904--51474713 Score: 3620
Period size: 904 Copynumber: 2.0 Consensus size: 904
51472894 GAGCAGATCA
51472904 CAGCTAAGATTCAACTACACCTGATTGGCCTGCCTAAGCCTTACACTACAAATGGTAAGGAAAAT
1 CAGCTAAGATTCAACTACACCTGATTGGCCTGCCTAAGCCTTACACTACAAATGGTAAGGAAAAT
51472969 GGAGGAAATGGAATAGATGAAGATATGACAAAGGAGACGCTAAAGAGACATATTTCCTTCATCCT
66 GGAGGAAATGGAATAGATGAAGATATGACAAAGGAGACGCTAAAGAGACATATTTCCTTCATCCT
51473034 GTTAGGCATGTATGACAGGAAATAAAGAAAACAAGGTTAAAGCAGTAAATAAAATTGTTAAGTTG
131 GTTAGGCATGTATGACAGGAAATAAAGAAAACAAGGTTAAAGCAGTAAATAAAATTGTTAAGTTG
51473099 AAATAGTGTTTTCATCCCACAATAGGAAGGATTGGGTTTGGATGAAGGAAAAATGGAAATCTACT
196 AAATAGTGTTTTCATCCCACAATAGGAAGGATTGGGTTTGGATGAAGGAAAAATGGAAATCTACT
51473164 CAGTTTCCTTCCATCTTCCTATTGCTGTCTTACCAAATGAAGGAAATGAAGGAGGCAGTTTTTTC
261 CAGTTTCCTTCCATCTTCCTATTGCTGTCTTACCAAATGAAGGAAATGAAGGAGGCAGTTTTTTC
51473229 TCTCACCATCCATCTTTTCTCTCCTACCATAGTGTTAAGTTTACAGAGGAAGAGAACATAAACCC
326 TCTCACCATCCATCTTTTCTCTCCTACCATAGTGTTAAGTTTACAGAGGAAGAGAACATAAACCC
51473294 TTTGTTTTTCCTTTTAAAATATTAAGTAGAATGTAAATTCAACATAAATCAACAATAGCTTAACT
391 TTTGTTTTTCCTTTTAAAATATTAAGTAGAATGTAAATTCAACATAAATCAACAATAGCTTAACT
51473359 CAGGTAGGAACTTTCAGCATTTCCAATCACCATAGATTCAAGTGAAGTTATTAACTTGACCTTTA
456 CAGGTAGGAACTTTCAGCATTTCCAATCACCATAGATTCAAGTGAAGTTATTAACTTGACCTTTA
51473424 TAGAATGCATGTCCAAATAAAGATAAAGCAATTTTTACAGGTTTATAGCTAAAAGGATCATCGGA
521 TAGAATGCATGTCCAAATAAAGATAAAGCAATTTTTACAGGTTTATAGCTAAAAGGATCATCGGA
51473489 TTGTAACAATAGCAGGAAAGAAGTTTCCATCATACCAAATGTGTAACTGACAGGCCTACGATTGC
586 TTGTAACAATAGCAGGAAAGAAGTTTCCATCATACCAAATGTGTAACTGACAGGCCTACGATTGC
51473554 GACATGAGCGGGTAATCTCAGTACCAGAAGAATTTCTCAAGTCATTTAGGAGCATTTCTTGCCTT
651 GACATGAGCGGGTAATCTCAGTACCAGAAGAATTTCTCAAGTCATTTAGGAGCATTTCTTGCCTT
51473619 TCCTTCCGTTTCAGTGCCCTGTCTTTCTTCTATATAACACAATAAATTGAACAGGTTTACCAACA
716 TCCTTCCGTTTCAGTGCCCTGTCTTTCTTCTATATAACACAATAAATTGAACAGGTTTACCAACA
51473684 GAAATAAAACAGAAGCATAGGAACAGTGAGATACACCAAGATTTAGTAGAAGATAAAGGACCTGT
781 GAAATAAAACAGAAGCATAGGAACAGTGAGATACACCAAGATTTAGTAGAAGATAAAGGACCTGT
51473749 CAAGCTTACCTTTTGAAATTTCTCCACAACAGGAATGACATCATTATTGATAGTCTTGC
846 CAAGCTTACCTTTTGAAATTTCTCCACAACAGGAATGACATCATTATTGATAGTCTTGC
51473808 CAGCTAAGATTCAACTACACCTGATTGGCCTGCCTAAGCCTTACACTACAAATGGTAAGGAAAAT
1 CAGCTAAGATTCAACTACACCTGATTGGCCTGCCTAAGCCTTACACTACAAATGGTAAGGAAAAT
51473873 GGAGGAAATGGAATAGATGAAGATATGACAAAGGAGACGCTAAAGAGACATATTTCCTTCATCCT
66 GGAGGAAATGGAATAGATGAAGATATGACAAAGGAGACGCTAAAGAGACATATTTCCTTCATCCT
51473938 GTTAGGCATGTATGACAGGAAATAAAGAAAACAAGGTTAAAGCAGTAAATAAAATTGTTAAGTTG
131 GTTAGGCATGTATGACAGGAAATAAAGAAAACAAGGTTAAAGCAGTAAATAAAATTGTTAAGTTG
51474003 AAATAGTGTTTTCATCCCACAATAGGAAGGATTGGGTTTGGATGAAGGAAAAATGGAAATCTACT
196 AAATAGTGTTTTCATCCCACAATAGGAAGGATTGGGTTTGGATGAAGGAAAAATGGAAATCTACT
51474068 CAGTTTCCTTCCATCTTCCTATTGCTGTCTTACCAAATGAAGGAAATGAAGGAGGCAGTTTTTTC
261 CAGTTTCCTTCCATCTTCCTATTGCTGTCTTACCAAATGAAGGAAATGAAGGAGGCAGTTTTTTC
51474133 TCTCACCATCCATCTTTTCTCTCCTACCATAGTGTTAAGTTTACAGAGGAAGAGAACATAAACCC
326 TCTCACCATCCATCTTTTCTCTCCTACCATAGTGTTAAGTTTACAGAGGAAGAGAACATAAACCC
51474198 TTTGTTTTTCCTTTTAAAATATTAAGTAGAATGTAAATTCAACATAAATCAACAATAGCTTAACT
391 TTTGTTTTTCCTTTTAAAATATTAAGTAGAATGTAAATTCAACATAAATCAACAATAGCTTAACT
51474263 CAGGTAGGAACTTTCAGCATTTCCAATCACCATAGATTCAAGTGAAGTTATTAACTTGACCTTTA
456 CAGGTAGGAACTTTCAGCATTTCCAATCACCATAGATTCAAGTGAAGTTATTAACTTGACCTTTA
51474328 TAGAATGCATGTCCAAATAAAGATAAAGCAATTTTTACAGGTTTATAGCTAAAAGGATCATCGGA
521 TAGAATGCATGTCCAAATAAAGATAAAGCAATTTTTACAGGTTTATAGCTAAAAGGATCATCGGA
51474393 TTGTAACAATAGCAGGAAAGAAGTTTCCATCATACCAAATGTGTAACTGACAGGCCTACGATTGC
586 TTGTAACAATAGCAGGAAAGAAGTTTCCATCATACCAAATGTGTAACTGACAGGCCTACGATTGC
51474458 GACATGAGCGGGTAATCTCAGTACCAGAAGAATTTCTCAAGTCATTTAGGAGCATTTCTTGCCTT
651 GACATGAGCGGGTAATCTCAGTACCAGAAGAATTTCTCAAGTCATTTAGGAGCATTTCTTGCCTT
51474523 TCCTTCCGTTTCAGTGCCCTGTCTTTCTTCTATATAACACAATAAATTGAACAGGTTTACCAACA
716 TCCTTCCGTTTCAGTGCCCTGTCTTTCTTCTATATAACACAATAAATTGAACAGGTTTACCAACA
51474588 GAAATAAAACAGAAGCATAGGAACAGTGAGATACACCAAGATTTAGTAGAAGATAAAGGACCTGT
781 GAAATAAAACAGAAGCATAGGAACAGTGAGATACACCAAGATTTAGTAGAAGATAAAGGACCTGT
51474653 CAAGCTTACCTTTTGAAATTTCTCCACAACAGGAATGACATCATTATTGATAGTCTTGC
846 CAAGCTTACCTTTTGAAATTTCTCCACAACAGGAATGACATCATTATTGATAGTCTTGC
51474712 CA
1 CA
51474714 ATAGCAACTT
Statistics
Matches: 906, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
904 906 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (904 bp):
CAGCTAAGATTCAACTACACCTGATTGGCCTGCCTAAGCCTTACACTACAAATGGTAAGGAAAAT
GGAGGAAATGGAATAGATGAAGATATGACAAAGGAGACGCTAAAGAGACATATTTCCTTCATCCT
GTTAGGCATGTATGACAGGAAATAAAGAAAACAAGGTTAAAGCAGTAAATAAAATTGTTAAGTTG
AAATAGTGTTTTCATCCCACAATAGGAAGGATTGGGTTTGGATGAAGGAAAAATGGAAATCTACT
CAGTTTCCTTCCATCTTCCTATTGCTGTCTTACCAAATGAAGGAAATGAAGGAGGCAGTTTTTTC
TCTCACCATCCATCTTTTCTCTCCTACCATAGTGTTAAGTTTACAGAGGAAGAGAACATAAACCC
TTTGTTTTTCCTTTTAAAATATTAAGTAGAATGTAAATTCAACATAAATCAACAATAGCTTAACT
CAGGTAGGAACTTTCAGCATTTCCAATCACCATAGATTCAAGTGAAGTTATTAACTTGACCTTTA
TAGAATGCATGTCCAAATAAAGATAAAGCAATTTTTACAGGTTTATAGCTAAAAGGATCATCGGA
TTGTAACAATAGCAGGAAAGAAGTTTCCATCATACCAAATGTGTAACTGACAGGCCTACGATTGC
GACATGAGCGGGTAATCTCAGTACCAGAAGAATTTCTCAAGTCATTTAGGAGCATTTCTTGCCTT
TCCTTCCGTTTCAGTGCCCTGTCTTTCTTCTATATAACACAATAAATTGAACAGGTTTACCAACA
GAAATAAAACAGAAGCATAGGAACAGTGAGATACACCAAGATTTAGTAGAAGATAAAGGACCTGT
CAAGCTTACCTTTTGAAATTTCTCCACAACAGGAATGACATCATTATTGATAGTCTTGC
Found at i:51477864 original size:18 final size:18
Alignment explanation
Indices: 51477841--51477877 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
51477831 TTGAATAAGA
51477841 ACACCAAAAATAGTTATG
1 ACACCAAAAATAGTTATG
*
51477859 ACACCAGAAATAGTTATG
1 ACACCAAAAATAGTTATG
51477877 A
1 A
51477878 TGTAATTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (18 bp):
ACACCAAAAATAGTTATG
Found at i:51500278 original size:20 final size:19
Alignment explanation
Indices: 51500236--51500283 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
51500226 AAAAATATTG
* *
51500236 TTAAAATATATTTAATAGT
1 TTAAAATATATTTAAAAGC
*
51500255 TTAAAATCATGTTTAAAAGC
1 TTAAAAT-ATATTTAAAAGC
*
51500275 TTAAGATAT
1 TTAAAATAT
51500284 TGTTAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (19 bp):
TTAAAATATATTTAAAAGC
Done.