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 199 of 279
Found at i:65149964 original size:64 final size:65
Alignment explanation
Indices: 65149800--65149984 Score: 293
Period size: 65 Copynumber: 2.9 Consensus size: 65
65149790 ACATAACTTG
* * * *
65149800 AAAATACCTCAGCGTGTGTCTCGAGGCCCAACTCACCTATCGT-ATCATGAGTTGATAGAAACTA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAAT-ATGAGTTGATAGAAACTA
65149864 A
65 A
65149865 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATAGAAACT-A
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATAGAAACTAA
* *
65149929 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAT
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
65149985 TTTTGAAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
64 55 0.49
65 56 0.50
66 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (65 bp):
AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATAGAAACTAA
Found at i:65149996 original size:64 final size:66
Alignment explanation
Indices: 65149800--65150063 Score: 233
Period size: 75 Copynumber: 3.9 Consensus size: 66
65149790 ACATAACTTG
* * * * *
65149800 AAAATACCTCAGCGTGTGTCTCGAGGCCCAACTCACCTATCG-TATCATGAGTTGA----TAGAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT-ATGAGTTGATTTTTAG-A
65149860 ACTAA
64 A--AA
*
65149865 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA----TAGAAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAGAAA
65149926 CTA
66 --A
*
65149929 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----
*
65149994 AAAGAAATTG
61 --AGAAA--A
*
65150004 AAAATACCTC-GACGTGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAAATACCTCAG-CGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
65150064 TTGAAAAACA
Statistics
Matches: 173, Mismatches: 11, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
62 1 0.01
64 56 0.32
65 50 0.29
66 2 0.01
68 1 0.01
74 1 0.01
75 62 0.36
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (66 bp):
AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAGAAA
A
Found at i:65150049 original size:75 final size:76
Alignment explanation
Indices: 65149929--65150078 Score: 241
Period size: 75 Copynumber: 2.0 Consensus size: 76
65149919 ATAGAAACTA
65149929 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTGAAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGAAA
65149993 AAAAGAAATTG
66 AAAAGAAATTG
* *
65150004 AAAATACCTC-GACGTGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGA
1 AAAATACCTCAG-CGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTTGA
*
65150068 AAAACAGAAAT
64 AAAAAAGAAAT
65150079 AAAAATATCA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
74 1 0.01
75 51 0.74
77 17 0.25
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (76 bp):
AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGAAA
AAAAGAAATTG
Found at i:65159539 original size:7 final size:7
Alignment explanation
Indices: 65159522--65159588 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
65159512 AAAATTATAC
65159522 ATAATATA
1 ATAA-ATA
65159530 ATAAATA
1 ATAAATA
* *
65159537 ATATACA
1 ATAAATA
65159544 ATAAA-A
1 ATAAATA
65159550 TATAAATA
1 -ATAAATA
65159558 AT--ATA
1 ATAAATA
65159563 ATAAATA
1 ATAAATA
*
65159570 ATACATA
1 ATAAATA
*
65159577 AAAAATA
1 ATAAATA
65159584 ATAAA
1 ATAAA
65159589 ATAAATATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
5 5 0.10
6 1 0.02
7 37 0.77
8 5 0.10
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:65159539 original size:12 final size:12
Alignment explanation
Indices: 65159522--65159595 Score: 73
Period size: 12 Copynumber: 6.2 Consensus size: 12
65159512 AAAATTATAC
65159522 ATAATATAATAA
1 ATAATATAATAA
*
65159534 ATAATAT-A-CA
1 ATAATATAATAA
*
65159544 ATAAAAT-ATAA
1 ATAATATAATAA
65159555 ATAATATAATAA
1 ATAATATAATAA
*
65159567 ATAATACATAAAAA
1 ATAAT--ATAATAA
*
65159581 ATAATAAAATAA
1 ATAATATAATAA
65159593 ATA
1 ATA
65159596 TTTTTTTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 8 0.16
11 8 0.16
12 24 0.47
14 11 0.22
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATATAATAA
Found at i:65159572 original size:26 final size:28
Alignment explanation
Indices: 65159513--65159595 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 28
65159503 TGAAATTTTA
*
65159513 AAATTATACATAATAT-AATAA-ATAAT
1 AAATAATACATAATATAAATAATATAAT
* *
65159539 ATACAATA-A-AATATAAATAATATAAT
1 AAATAATACATAATATAAATAATATAAT
*
65159565 AAATAATACATAA-A-AAATAATAAAAT
1 AAATAATACATAATATAAATAATATAAT
65159591 AAATA
1 AAATA
65159596 TTTTTTTACA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 5 0.11
25 6 0.13
26 32 0.68
27 2 0.04
28 2 0.04
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (28 bp):
AAATAATACATAATATAAATAATATAAT
Found at i:65159577 original size:19 final size:19
Alignment explanation
Indices: 65159513--65159577 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
65159503 TGAAATTTTA
*
65159513 AAATTATACATAATATAAT
1 AAATAATACATAATATAAT
65159532 AAATAAT--ATACA-AT-A-
1 AAATAATACATA-ATATAAT
*
65159547 AAAT-ATAAATAATATAAT
1 AAATAATACATAATATAAT
65159565 AAATAATACATAA
1 AAATAATACATAA
65159578 AAAATAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
14 2 0.05
15 5 0.14
16 6 0.16
17 6 0.16
18 5 0.14
19 13 0.35
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAATACATAATATAAT
Found at i:65159588 original size:33 final size:33
Alignment explanation
Indices: 65159511--65159588 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 33
65159501 TTTGAAATTT
* *
65159511 TAAAATTATACATAATATAATAAATAATATACAA
1 TAAAA-TATAAATAATATAATAAATAATACACAA
*
65159545 TAAAATATAAATAATATAATAAATAATACATAA
1 TAAAATATAAATAATATAATAAATAATACACAA
65159578 -AAAATAATAAA
1 TAAAAT-ATAAA
65159589 ATAAATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 5 0.12
33 30 0.75
34 5 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (33 bp):
TAAAATATAAATAATATAATAAATAATACACAA
Found at i:65159671 original size:25 final size:25
Alignment explanation
Indices: 65159624--65159678 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
65159614 AAGTTTAAAG
*
65159624 TAAAATAAATAATATACAAAATATT
1 TAAAATAAATAATATACAAAATATA
* *
65159649 TAAAATAAATAA-ATTATATAATATA
1 TAAAATAAATAATA-TACAAAATATA
65159674 TAAAA
1 TAAAA
65159679 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAATAAATAATATACAAAATATA
Found at i:65161191 original size:45 final size:44
Alignment explanation
Indices: 65161141--65161407 Score: 311
Period size: 45 Copynumber: 6.0 Consensus size: 44
65161131 ACCATGCTGA
* * *
65161141 TATCTTTGATTTGCACCCCGTCTAATATAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTC-AATATAGAGACGCCAAATCTGC
* * * * *
65161186 TATCTTCGATTTGCT-CCCATCAATATGGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCAATATAGAGACGCCAAATCTGC
* *
65161229 TATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATTTAC
1 TATCTTCGATCTGCTCCCCGTC-AATATAGAGACGCCAAATCTGC
* *
65161274 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTC-AATATAGAGACGCCAAATCTGC
* * *
65161319 TTTCTTCGATCTGCTCTCCGTCAATATAGAGACACCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCAATATAGAGACGCCAAATCTGC
* * * * * *
65161363 TAACTTTGATCTGCTCTCCATCAATACAGAGACGCCAAATTTGC
1 TATCTTCGATCTGCTCCCCGTCAATATAGAGACGCCAAATCTGC
65161407 T
1 T
65161408 TTCTAGAGGA
Statistics
Matches: 191, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
43 33 0.17
44 68 0.36
45 90 0.47
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTGCTCCCCGTCAATATAGAGACGCCAAATCTGC
Found at i:65161290 original size:88 final size:89
Alignment explanation
Indices: 65161141--65161408 Score: 353
Period size: 88 Copynumber: 3.0 Consensus size: 89
65161131 ACCATGCTGA
* * * * *
65161141 TATCTTTGATTTGCACCCCGTCTAATATAGAGACGCCAAATCTGCTATCTTCGATTTGCTCCCAT
1 TATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCTCCCAT
** *
65161206 CAATATGGAGATGCCAAATCTG-T
66 CAATACAGAGACGCCAAATCTGCT
* * *
65161229 TATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATTTACTATCTTTGATCTGCTCCCCG
1 TATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCT-CCCA
65161294 TCTAATACAGAGACGCCAAATCTGCT
65 TC-AATACAGAGACGCCAAATCTGCT
* * *
65161320 T-TCTTCGATCTGCTCTCCGTC-AATATAGAGACACCAAATCTGCTAACTTTGATCTGCTCTCCA
1 TATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCTC-CCA
*
65161383 TCAATACAGAGACGCCAAATTTGCT
65 TCAATACAGAGACGCCAAATCTGCT
65161408 T
1 T
65161409 TCTAGAGGAT
Statistics
Matches: 158, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
88 77 0.49
89 42 0.27
90 37 0.23
91 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (89 bp):
TATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCTCCCAT
CAATACAGAGACGCCAAATCTGCT
Found at i:65161394 original size:133 final size:133
Alignment explanation
Indices: 65161141--65161404 Score: 377
Period size: 133 Copynumber: 2.0 Consensus size: 133
65161131 ACCATGCTGA
* * *
65161141 TATCTTTGATTTGCACCCCGTCTAATATAGAGACGCCAAATCTGCTATCTTCGATTTGCTCCCAT
1 TATCTTTGATCTGCACCCCGTCTAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCCCAT
* ** * * * *
65161206 CAATATGGAGATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATT
66 CAATATAGAGACACCAAATCTGCTAACTTCGATCTGCTCCCCATCTAATACAGAGACGCCAAATT
65161271 TAC
131 TAC
* * *
65161274 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTTTCTTCGATCTGCTCTCCG
1 TATCTTTGATCTGCACCCCGTCTAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTC-CCA
* *
65161339 TCAATATAGAGACACCAAATCTGCTAACTTTGATCTGCTCTCCATC-AATACAGAGACGCCAAAT
65 TCAATATAGAGACACCAAATCTGCTAACTTCGATCTGCTCCCCATCTAATACAGAGACGCCAAAT
65161403 TT
130 TT
65161405 GCTTTCTAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
133 75 0.65
134 40 0.35
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (133 bp):
TATCTTTGATCTGCACCCCGTCTAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCCCAT
CAATATAGAGACACCAAATCTGCTAACTTCGATCTGCTCCCCATCTAATACAGAGACGCCAAATT
TAC
Found at i:65168729 original size:5 final size:5
Alignment explanation
Indices: 65168719--65168744 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
65168709 TGAGCTTTCG
65168719 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
65168745 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:65169862 original size:9 final size:9
Alignment explanation
Indices: 65169848--65169880 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
65169838 ATTCGAGTTG
65169848 ACTCGAATA
1 ACTCGAATA
*
65169857 ACTCGATTA
1 ACTCGAATA
65169866 ACTCGAATA
1 ACTCGAATA
65169875 ACTCGA
1 ACTCGA
65169881 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:65169871 original size:18 final size:18
Alignment explanation
Indices: 65169848--65169882 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
65169838 ATTCGAGTTG
65169848 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
65169866 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
65169883 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:65174136 original size:48 final size:49
Alignment explanation
Indices: 65174078--65174173 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
65174068 ATTACATAAT
*
65174078 ATACATTAACATTTCATGCAAATATA-ATCATA-AATAAC-ATAAATATAC
1 ATACATTAACATTTCATGCAAA-ATACAACATAGAA-AACAATAAATATAC
65174126 ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATAAATATA
1 ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATAAATATA
65174174 ATAATACAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
47 3 0.07
48 30 0.68
49 11 0.25
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (49 bp):
ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATAAATATAC
Found at i:65174235 original size:119 final size:112
Alignment explanation
Indices: 65174010--65174223 Score: 268
Period size: 119 Copynumber: 1.8 Consensus size: 112
65174000 AAACTACATG
* * * ** *
65174010 ATACATACTTTAACATTTCATGCAAATATAATATAGAAAATGATAAATAACGACAAAAATTACAT
1 ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAAAGACAAAAATTACAT
*
65174075 AATATACATTAACATTTCATGCAAATATAATCATAAATAACATAAAT
66 AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
*
65174122 ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATAAATATAATA-ATACAAATT
1 ATACATACATTAACATTTCATGC-AAATACAACATAGAAAACAATAAATA-AAGACA-A-AAATT
*
65174186 ACATAATATATATACAATAATATTTCATGCAAATATAA
62 AC---ATA-ATATACAATAACATTTCATGCAAATATAA
65174224 CTTAAAATAA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
112 22 0.26
113 23 0.27
114 3 0.04
115 7 0.08
118 3 0.04
119 27 0.32
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.30
Consensus pattern (112 bp):
ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAAAGACAAAAATTACAT
AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:65174236 original size:71 final size:70
Alignment explanation
Indices: 65174097--65174236 Score: 167
Period size: 71 Copynumber: 2.0 Consensus size: 70
65174087 CATTTCATGC
* * *
65174097 AAATATAATCATAAATAACATAAATATACATACATTAACATTTCATGCAAAATACAACATAGAAA
1 AAATATAATAATAAATAACATAAATATACATACAATAACATTTCATGCAAAATACAACATAAAAA
65174162 ACAAT
66 ACAAT
* * * * *
65174167 AAATATAATAATACAAATTACAT-AATATATATACAATAATATTTCATGC-AAATATAACTTAAA
1 AAATATAATAAT--AAATAACATAAATATACATACAATAACATTTCATGCAAAATACAACATAAA
65174230 ATAACAA
64 A-AACAA
65174237 CATAATAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
70 23 0.39
71 28 0.47
72 8 0.14
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (70 bp):
AAATATAATAATAAATAACATAAATATACATACAATAACATTTCATGCAAAATACAACATAAAAA
ACAAT
Found at i:65174285 original size:18 final size:18
Alignment explanation
Indices: 65174257--65174299 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65174247 AATTTTCATG
65174257 CAAAT-ATATAAAAACAA
1 CAAATAATATAAAAACAA
* *
65174274 TAAATAATATAAAAATAA
1 CAAATAATATAAAAACAA
65174292 CAAATAAT
1 CAAATAAT
65174300 TTATGAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (18 bp):
CAAATAATATAAAAACAA
Found at i:65174705 original size:7 final size:7
Alignment explanation
Indices: 65174688--65174756 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
65174678 AAAATTATAC
65174688 ATAATATA
1 ATAA-ATA
65174696 ATAAATA
1 ATAAATA
* *
65174703 ATATACA
1 ATAAATA
65174710 ATAAA-A
1 ATAAATA
65174716 TATAAATA
1 -ATAAATA
65174724 AT--ATA
1 ATAAATA
65174729 ATAAATA
1 ATAAATA
*
65174736 ATACATAAA
1 ATA-A-ATA
65174745 ATAAATA
1 ATAAATA
65174752 ATAAA
1 ATAAA
65174757 ATAAATATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
5 5 0.10
6 1 0.02
7 32 0.64
8 7 0.14
9 5 0.10
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:65174707 original size:21 final size:21
Alignment explanation
Indices: 65174683--65174763 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
65174673 ATTTTAAAAT
65174683 TATACATAATATAATAAATAA
1 TATACATAATATAATAAATAA
*
65174704 TATACAATAAAAT-ATAAATAA
1 TATAC-ATAATATAATAAATAA
*
65174725 TATA-ATAA-ATAATACATAA
1 TATACATAATATAATAAATAA
* * *
65174744 AATAAATAATAAAATAAATA
1 TATACATAATATAATAAATA
65174764 TTTTTTTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.04
19 14 0.27
20 4 0.08
21 25 0.49
22 6 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
TATACATAATATAATAAATAA
Found at i:65174712 original size:19 final size:18
Alignment explanation
Indices: 65174690--65174752 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 18
65174680 AATTATACAT
65174690 AATATAATAAATAATATAC
1 AATATAATAAATAA-ATAC
*
65174709 AATA-AA-ATATAAAT--
1 AATATAATAAATAAATAC
65174723 AATATAATAAAT-AATAC
1 AATATAATAAATAAATAC
*
65174740 -ATAAAATAAATAA
1 AATATAATAAATAA
65174753 TAAAATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
14 4 0.11
15 5 0.14
16 15 0.42
17 6 0.17
18 2 0.06
19 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATAATAAATAAATAC
Found at i:65174714 original size:14 final size:13
Alignment explanation
Indices: 65174688--65174763 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 13
65174678 AAAATTATAC
65174688 ATAATAT-AATAA
1 ATAATATAAATAA
65174700 ATAATATACAAT-A
1 ATAATATA-AATAA
65174713 A-AATATAAAT-A
1 ATAATATAAATAA
65174724 AT-ATAATAAAT-A
1 ATAAT-ATAAATAA
65174736 ATACATA-AAATAA
1 ATA-ATATAAATAA
65174749 ATAATA-AAATAA
1 ATAATATAAATAA
65174761 ATA
1 ATA
65174764 TTTTTTTACA
Statistics
Matches: 57, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
11 7 0.12
12 38 0.67
13 7 0.12
14 5 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:65174730 original size:33 final size:31
Alignment explanation
Indices: 65174677--65174763 Score: 108
Period size: 33 Copynumber: 2.8 Consensus size: 31
65174667 TTTAAAATTT
*
65174677 TAAAATTATACATAATATAATAAATAATATACAA
1 TAAAA-TATAAATAATATAATAAATAA-ATAC-A
65174711 TAAAATATAAATAATATAATAAAT-AATACA
1 TAAAATATAAATAATATAATAAATAAATACA
*
65174741 T-AAA-ATAAATAATAAAATAAATA
1 TAAAATATAAATAATATAATAAATA
65174764 TTTTTTTACA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
28 17 0.34
29 3 0.06
30 2 0.04
31 4 0.08
32 1 0.02
33 18 0.36
34 5 0.10
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (31 bp):
TAAAATATAAATAATATAATAAATAAATACA
Found at i:65174754 original size:19 final size:20
Alignment explanation
Indices: 65174693--65174755 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 20
65174683 TATACATAAT
*
65174693 ATAATAAATAATATACAATA
1 ATAATAAATAAAATACAATA
* *
65174713 A-AATATAA-ATAATATAATAA
1 ATAATA-AATAAAATACAAT-A
*
65174733 ATAATACATAAAATA-AATA
1 ATAATAAATAAAATACAATA
65174752 ATAA
1 ATAA
65174756 AATAAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
19 16 0.47
20 9 0.26
21 9 0.26
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAATAAATAAAATACAATA
Found at i:65174759 original size:28 final size:32
Alignment explanation
Indices: 65174677--65174764 Score: 112
Period size: 28 Copynumber: 2.8 Consensus size: 32
65174667 TTTAAAATTT
*
65174677 TAAAATTATACATAATATAATAAATAATATACAA
1 TAAAA-TATAAATAATATAATAAAT-ATATACAA
65174711 TAAAATATAAATAATATAATAAATA-ATAC-A
1 TAAAATATAAATAATATAATAAATATATACAA
*
65174741 T-AAA-ATAAATAATAAAATAAATAT
1 TAAAATATAAATAATATAATAAATAT
65174765 TTTTTTACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
28 18 0.35
29 3 0.06
30 2 0.04
31 4 0.08
32 1 0.02
33 18 0.35
34 5 0.10
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (32 bp):
TAAAATATAAATAATATAATAAATATATACAA
Found at i:65174807 original size:30 final size:28
Alignment explanation
Indices: 65174773--65174837 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
65174763 ATTTTTTTAC
* *
65174773 ATATAAATAAGGTTTAAAGTAAAATAAATA
1 ATATAAA-AAGATTTAAAAT-AAATAAATA
* *
65174803 ATATACAAAATATTTAAAATAAATAAATT
1 ATATA-AAAAGATTTAAAATAAATAAATA
65174832 ATATAA
1 ATATAA
65174838 TATATATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 13 0.43
30 14 0.47
31 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
ATATAAAAAGATTTAAAATAAATAAATA
Found at i:65176274 original size:37 final size:37
Alignment explanation
Indices: 65176194--65176289 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 37
65176184 GGCCTATTAC
* *
65176194 AATAATAATAATAATAATATTGAAATACAAAAAGTAAA
1 AATAAT-ATAATAAAAATATTAAAATACAAAAAGTAAA
* * *
65176232 TATAATATAATAAAAATATTAAAATA-AAGTAATTAAA
1 AATAATATAATAAAAATATTAAAATACAA-AAAGTAAA
*
65176269 AATAATACTAAATATAAATAT
1 AATAATA-T-AATAAAAATAT
65176290 ATATACATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
36 2 0.04
37 30 0.62
38 6 0.12
39 10 0.21
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (37 bp):
AATAATATAATAAAAATATTAAAATACAAAAAGTAAA
Found at i:65176338 original size:20 final size:19
Alignment explanation
Indices: 65176285--65176347 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
65176275 ACTAAATATA
65176285 AATATAT-ATACATATACAT
1 AATATATAATA-ATATACAT
*
65176304 -ATATAATAAAAAATATACACT
1 AATAT-AT-AATAATATACA-T
65176325 AATATATAATAATAATA-AT
1 AATATATAATAAT-ATACAT
65176344 AATA
1 AATA
65176348 GTAATAGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
18 4 0.11
19 7 0.19
20 13 0.36
21 8 0.22
22 4 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATATAATAATATACAT
Found at i:65176353 original size:144 final size:141
Alignment explanation
Indices: 65176194--65176499 Score: 504
Period size: 141 Copynumber: 2.1 Consensus size: 141
65176184 GGCCTATTAC
*
65176194 AATAATAATAATAATAATATTGAAATACAAAAAGTAAATATAATATAATAAAAATATTAAAATAA
1 AATAATAATAATAATAATATTGAAATACAAAAAGCAAATATAATATAA-AAAAATATTAAAATAA
65176259 AGTAATTAAAAATAATACTAAATATAAATATATATACATATACATATATAATAAAAAATATACAC
65 AGTAATTAAAAATAATACT--ATATAAATATATATACATATACATATATAATAAAAAATATACAC
65176324 TAATATATAATAAT
128 TAATATATAATAAT
* * * *
65176338 AATAATAATAGTAATAGTATTGAAATACAAAAAGCATATATAATATAAGAAAATATTAAAATAAA
1 AATAATAATAATAATAATATTGAAATACAAAAAGCAAATATAATATAAAAAAATATTAAAATAAA
65176403 GTAATTAAAAATAATACTATATAAATATATATACATATACATATATAATAAAAAATATACACTAA
66 GTAATTAAAAATAATACTATATAAATATATATACATATACATATATAATAAAAAATATACACTAA
65176468 TATATAATAAT
131 TATATAATAAT
* *
65176479 ACTAATACATTAATAAAAATA
1 AATAATA-A-TAATAATAATA
65176500 ATAAGAATAT
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
141 64 0.42
142 1 0.01
143 42 0.28
144 44 0.29
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (141 bp):
AATAATAATAATAATAATATTGAAATACAAAAAGCAAATATAATATAAAAAAATATTAAAATAAA
GTAATTAAAAATAATACTATATAAATATATATACATATACATATATAATAAAAAATATACACTAA
TATATAATAAT
Found at i:65176479 original size:3 final size:3
Alignment explanation
Indices: 65176465--65176632 Score: 55
Period size: 3 Copynumber: 54.7 Consensus size: 3
65176455 AAATATACAC
* * * **
65176465 TAA TATA TAA TAA TAC TAA TACA TTAA TAA AAA TAA TAA GAA T-A TGT
1 TAA TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA
*
65176512 TAA TAA TAA -AA -AA TTAA TGAA TTAA TAA TAA -AA TGAA CAAA TAAA
1 TAA TAA TAA TAA TAA -TAA T-AA -TAA TAA TAA TAA T-AA -TAA T-AA
* * * * * *
65176557 TACA CAA AAA TAA -AA T-A TAA TTA TAA TAG TAA TAT TAA CAA -AA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
65176600 TAA TAA TAA TAA TAA GTTAA -AG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TA
65176633 TATGTTAATT
Statistics
Matches: 123, Mismatches: 23, Indels: 38
0.67 0.12 0.21
Matches are distributed among these distances:
2 15 0.12
3 82 0.67
4 20 0.16
5 6 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:65176479 original size:20 final size:19
Alignment explanation
Indices: 65176412--65176479 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 19
65176402 AGTAATTAAA
*
65176412 AATAATACTATATAA-ATAT
1 AATAATA-TACATAATATAT
65176431 ATATACATATACAT-ATATAAT
1 A-ATA-ATATACATAATAT-AT
*
65176452 AAAAAATATACACTAATATAT
1 -AATAATATACA-TAATATAT
65176473 AATAATA
1 AATAATA
65176480 CTAATACATT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
19 2 0.05
20 22 0.56
21 10 0.26
22 5 0.13
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATATACATAATATAT
Found at i:65176508 original size:23 final size:23
Alignment explanation
Indices: 65176459--65176517 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
65176449 AATAAAAAAT
* * **
65176459 ATACACTAATATATAATAATACTA
1 ATACATTAATA-AAAATAATAAGA
65176483 ATACATTAATAAAAATAATAAGA
1 ATACATTAATAAAAATAATAAGA
**
65176506 ATATGTTAATAA
1 ATACATTAATAA
65176518 TAAAAAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (23 bp):
ATACATTAATAAAAATAATAAGA
Found at i:65176655 original size:22 final size:21
Alignment explanation
Indices: 65176600--65176655 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
65176590 ATTAACAAAA
65176600 TAATAATAATAATAAGTTAAAG
1 TAATAATAAT-ATAAGTTAAAG
* **
65176622 TAATAATAATATATGTTAATT
1 TAATAATAATATAAGTTAAAG
65176643 TAATATATAATAT
1 TAATA-ATAATAT
65176656 GGAAAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATAATAATATAAGTTAAAG
Found at i:65177510 original size:66 final size:66
Alignment explanation
Indices: 65177433--65177560 Score: 238
Period size: 66 Copynumber: 1.9 Consensus size: 66
65177423 ATCAAATGCT
65177433 TTGTATTAAAAAATGCCCAATCCCCTTACAATATTTTGCTTGGCTTTTTATAGCCATTTTTTTAC
1 TTGTATTAAAAAATGCCCAATCCCCTTACAATATTTTGCTTGGCTTTTTATAGCCATTTTTTTAC
65177498 G
66 G
* *
65177499 TTGTATTAAAAAATGTCCAATCCCCTTACAATATTTTGCTTGGTTTTTTATAGCCATTTTTT
1 TTGTATTAAAAAATGCCCAATCCCCTTACAATATTTTGCTTGGCTTTTTATAGCCATTTTTT
65177561 ACATGCTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (66 bp):
TTGTATTAAAAAATGCCCAATCCCCTTACAATATTTTGCTTGGCTTTTTATAGCCATTTTTTTAC
G
Found at i:65179172 original size:16 final size:17
Alignment explanation
Indices: 65179153--65179186 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65179143 TAAAAAAGGG
65179153 TTTTAAA-AAAAACTAA
1 TTTTAAATAAAAACTAA
65179169 TTTTAAATTAAAAACTAA
1 TTTTAAA-TAAAAACTAA
65179187 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTTAAATAAAAACTAA
Found at i:65191512 original size:138 final size:138
Alignment explanation
Indices: 65191294--65191710 Score: 744
Period size: 138 Copynumber: 3.0 Consensus size: 138
65191284 ATAATATGAG
65191294 AAGAGAGAAAATAAAAAGGGAAGAAGAAAAGGAAAATGAAAAATAAAAAAAGTATAGGGACTGGT
1 AAGAGA-AAAATAAAAAGGGAAGAAGAAAAGGAAAATGAAAAAT-AAAAAAGTATAGGGACTGGT
*
65191359 TTTAACAAATGGAAAACATAGAAAAACTACATTTAAAAAAATAAAGATGGGAGGAAAACAAAGAG
64 TTTAACAAATGGAAAACATAGAAAAACTATATTTAAAAAAATAAAGATGGGAGGAAAACAAAGAG
65191424 GAAAGGAGAA
129 GAAAGGAGAA
65191434 AAGAGAAAAATAAAAAGGGAAGAAGAAAAGGAAAATGAAAAATAAAAAAGTATAGGGACTGGTTT
1 AAGAGAAAAATAAAAAGGGAAGAAGAAAAGGAAAATGAAAAATAAAAAAGTATAGGGACTGGTTT
* *
65191499 TAACAAATGGAAAACATAGAAAAACTATATTTAAAAAAATAAAAATGGGAGGAAAACAAAGGGGA
66 TAACAAATGGAAAACATAGAAAAACTATATTTAAAAAAATAAAGATGGGAGGAAAACAAAGAGGA
65191564 AAGGAGAA
131 AAGGAGAA
65191572 AAGAGAAAAATAAAAAGGGAAGAAGAAAAGGAAAATGAAAAATAAAAAAGTATAGGGACTGGTTT
1 AAGAGAAAAATAAAAAGGGAAGAAGAAAAGGAAAATGAAAAATAAAAAAGTATAGGGACTGGTTT
* * *
65191637 TAACAAATGGAAAACATAGAAAAACTATGTTTAAAAAAAATAAAGATGGGAGGAAAATAGAGAGG
66 TAACAAATGGAAAACATAGAAAAACTATATTT-AAAAAAATAAAGATGGGAGGAAAACAAAGAGG
*
65191702 GAAGGAGAA
130 AAAGGAGAA
65191711 GAAAATAGTA
Statistics
Matches: 267, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
138 188 0.70
139 73 0.27
140 6 0.02
ACGTcount: A:0.59, C:0.04, G:0.23, T:0.14
Consensus pattern (138 bp):
AAGAGAAAAATAAAAAGGGAAGAAGAAAAGGAAAATGAAAAATAAAAAAGTATAGGGACTGGTTT
TAACAAATGGAAAACATAGAAAAACTATATTTAAAAAAATAAAGATGGGAGGAAAACAAAGAGGA
AAGGAGAA
Found at i:65208401 original size:30 final size:30
Alignment explanation
Indices: 65208365--65208425 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
65208355 CACGGGCTGA
65208365 CACATGGGCGTGTGGCCTACCCGTGTAGAT
1 CACATGGGCGTGTGGCCTACCCGTGTAGAT
* * * *
65208395 CACATGGGTGTTTGGCCTGCCCGTGTGGAT
1 CACATGGGCGTGTGGCCTACCCGTGTAGAT
65208425 C
1 C
65208426 CTGAAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (30 bp):
CACATGGGCGTGTGGCCTACCCGTGTAGAT
Found at i:65209252 original size:12 final size:12
Alignment explanation
Indices: 65209226--65209257 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
65209216 CATAAATGTA
65209226 TTTTTTTCACTT
1 TTTTTTTCACTT
65209238 TTTTATTTCACTT
1 TTTT-TTTCACTT
65209251 TTTTTTT
1 TTTTTTT
65209258 GGAGAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTCACTT
Found at i:65210116 original size:3 final size:3
Alignment explanation
Indices: 65210072--65210105 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
65210062 AAAAAGAAAG
65210072 ATA A-A ATA ATA ATA ATA ATA AGTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA A
65210106 ACTCAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:65210201 original size:22 final size:22
Alignment explanation
Indices: 65210153--65210193 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
65210143 TGATAATAGT
65210153 AAAAAGAAAAAAATACGAAAGA
1 AAAAAGAAAAAAATACGAAAGA
65210175 AAAAAGAAAAAAATA-GAAA
1 AAAAAGAAAAAAATACGAAA
65210194 TGGCAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAAAGAAAAAAATACGAAAGA
Found at i:65210261 original size:25 final size:25
Alignment explanation
Indices: 65210210--65210264 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
65210200 AATTAAAATT
**
65210210 AAAATTAAAATAATAAAAGTATATA
1 AAAATTAAAATAATAAAAAAATATA
*
65210235 AAAATTAAAAT-ATAAAAAAAATTTA
1 AAAATTAAAATAAT-AAAAAAATATA
65210260 AAAAT
1 AAAAT
65210265 ATAAGTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATTAAAATAATAAAAAAATATA
Found at i:65210331 original size:15 final size:15
Alignment explanation
Indices: 65210301--65210329 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65210291 AATTAATTAG
65210301 TAAAATAAAAATAAA
1 TAAAATAAAAATAAA
65210316 TAAAAT-AAAATAAA
1 TAAAATAAAAATAAA
65210330 ATTGGGGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:65222075 original size:15 final size:15
Alignment explanation
Indices: 65222055--65222086 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65222045 AAAAATAATA
*
65222055 ATTTAGATTTATCTT
1 ATTTAGATTTATATT
65222070 ATTTAGATTTATATT
1 ATTTAGATTTATATT
65222085 AT
1 AT
65222087 AAAAAAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTAGATTTATATT
Found at i:65222266 original size:41 final size:41
Alignment explanation
Indices: 65222221--65222321 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
65222211 GCGTTTTTTA
* *
65222221 AAAAGCACCGCTAAAAGCTCAATCTATAGCAGCATTTCTCT
1 AAAAGCGCCGCTAAAAGCTCAATCTATAGCAGCATTTCTCC
* * * *
65222262 AAAAGCGCCGCTAACAGCTCTATCTATAGCGGCGTTTCTCC
1 AAAAGCGCCGCTAAAAGCTCAATCTATAGCAGCATTTCTCC
*
65222303 AAAAGCGCAGCTAAAAGCT
1 AAAAGCGCCGCTAAAAGCT
65222322 TGATCCAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAAGCGCCGCTAAAAGCTCAATCTATAGCAGCATTTCTCC
Found at i:65222433 original size:41 final size:40
Alignment explanation
Indices: 65222362--65222485 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 40
65222352 TATATTGGCG
** * *
65222362 TTAGCGGCGTTTCTCCAAAAGCGCCACTATTGTTCAGTTT
1 TTAGCGGCGTTTAACCAAAAACGCCACTATTGCTCAGTTT
*
65222402 TTAGCGGCGTTTGAACCAAAAACGCCGCTATTGCTCAGTTT
1 TTAGCGGCGTTT-AACCAAAAACGCCACTATTGCTCAGTTT
* * * *
65222443 TTAGCGGCGTTTAGACAAAAAACACCACTATTTCTCAATTT
1 TTAGCGGCGTTTA-ACCAAAAACGCCACTATTGCTCAGTTT
65222484 TT
1 TT
65222486 TATGGCGTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
40 13 0.18
41 59 0.82
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (40 bp):
TTAGCGGCGTTTAACCAAAAACGCCACTATTGCTCAGTTT
Found at i:65224322 original size:25 final size:26
Alignment explanation
Indices: 65224294--65224356 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
65224284 TTTTGCAATT
65224294 TATTTATTTATTTTAAATT-TTTTCA
1 TATTTATTTATTTTAAATTGTTTTCA
* *
65224319 TA-TTATTTACTTTAAATTGTTTTTA
1 TATTTATTTATTTTAAATTGTTTTCA
*
65224344 TATATA-TTATTTT
1 TATTTATTTATTTT
65224357 GTTTCGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 15 0.47
25 15 0.47
26 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTATTTATTTTAAATTGTTTTCA
Found at i:65229592 original size:81 final size:81
Alignment explanation
Indices: 65229457--65229618 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 81
65229447 ACAAACACCT
* * * * * * *
65229457 CAAATCCATGAGATAGAATTTTACAAATATAAAAGGTTACAACTGTCCAACTAAAATAAATAAGC
1 CAAATACATGAGAGAAAATTTTACAAACATAAAAGGTTACAACAGACCAACTAAAACAAATAAGC
65229522 TAATTATATATATTTA
66 TAATTATATATATTTA
* *
65229538 CAAATACATGAGAGAAAATTTTGCAAACATAAAAGGTTACAACAGACCAACTAAAACAAATAAGT
1 CAAATACATGAGAGAAAATTTTACAAACATAAAAGGTTACAACAGACCAACTAAAACAAATAAGC
65229603 TAATTATATATATTTA
66 TAATTATATATATTTA
65229619 AAAAGAAGGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.28
Consensus pattern (81 bp):
CAAATACATGAGAGAAAATTTTACAAACATAAAAGGTTACAACAGACCAACTAAAACAAATAAGC
TAATTATATATATTTA
Found at i:65229998 original size:11 final size:11
Alignment explanation
Indices: 65229980--65230019 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
65229970 ACAATAACAA
65229980 CAAAATAATAG
1 CAAAATAATAG
*
65229991 CAACATAATAG
1 CAAAATAATAG
* *
65230002 TAAAATAGTAG
1 CAAAATAATAG
65230013 CAAAATA
1 CAAAATA
65230020 TGGAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:65230454 original size:48 final size:48
Alignment explanation
Indices: 65230383--65230480 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
65230373 GGTCTACCAC
65230383 CATGGCATATCACTAGCTTGGTCCCTTCCGACACACTGGTTCAATTAT
1 CATGGCATATCACTAGCTTGGTCCCTTCCGACACACTGGTTCAATTAT
*
65230431 CATGGCATATCACTAGCTTGGTCCCTTCCGACGCACTGGTTCAATTAT
1 CATGGCATATCACTAGCTTGGTCCCTTCCGACACACTGGTTCAATTAT
65230479 CA
1 CA
65230481 GACCTACATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (48 bp):
CATGGCATATCACTAGCTTGGTCCCTTCCGACACACTGGTTCAATTAT
Found at i:65231119 original size:25 final size:25
Alignment explanation
Indices: 65231091--65231205 Score: 124
Period size: 25 Copynumber: 4.6 Consensus size: 25
65231081 TAGAGAATTT
*
65231091 GCCACAAAGGATTTCCAAATGATAC
1 GCCACAAAGGCTTTCCAAATGATAC
* * *
65231116 GCCACAAAGGCTTTTCACA-GAATTC
1 GCCACAAAGGCTTTCCAAATG-ATAC
* *
65231141 GCCACAAAGGCTTTCCAAATTATAT
1 GCCACAAAGGCTTTCCAAATGATAC
** *
65231166 GCCACAAAAACTTTCTAAATGATAC
1 GCCACAAAGGCTTTCCAAATGATAC
*
65231191 GCTACAAAGGCTTTC
1 GCCACAAAGGCTTTC
65231206 TAGAGAATTC
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
24 1 0.01
25 70 0.99
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCAAATGATAC
Found at i:65231129 original size:50 final size:49
Alignment explanation
Indices: 65231067--65231182 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 49
65231057 TAACAACTCA
* *
65231067 CCACAACAGCTTTCTAGAGAATTTGCCACAAAGGATTTCCAAATGATACG
1 CCACAA-AGCTTTCTACAGAATTCGCCACAAAGGATTTCCAAATGATACG
* * *
65231117 CCACAAAGGCTTT-TCACAGAATTCGCCACAAAGGCTTTCCAAATTATATG
1 CCACAAA-GCTTTCT-ACAGAATTCGCCACAAAGGATTTCCAAATGATACG
*
65231167 CCACAAAAACTTTCTA
1 CCAC-AAAGCTTTCTA
65231183 AATGATACGC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
49 2 0.04
50 50 0.89
51 4 0.07
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (49 bp):
CCACAAAGCTTTCTACAGAATTCGCCACAAAGGATTTCCAAATGATACG
Found at i:65236933 original size:20 final size:21
Alignment explanation
Indices: 65236891--65236945 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 21
65236881 TAGGCTGGTA
* * *
65236891 ATTGGTATATTTGAATGTGAT
1 ATTGGCATATTGGAAGGTGAT
*
65236912 ATTGG-ATATTGGAAGGTTAT
1 ATTGGCATATTGGAAGGTGAT
65236932 A-TGGCATA-TGGAAG
1 ATTGGCATATTGGAAG
65236946 TAGTTTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 9 0.30
20 16 0.53
21 5 0.17
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.38
Consensus pattern (21 bp):
ATTGGCATATTGGAAGGTGAT
Found at i:65237279 original size:26 final size:25
Alignment explanation
Indices: 65237229--65237279 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
65237219 TGAAAGTTTT
* * *
65237229 CTAAAGTTCATTTAAGCTCAGTTAA
1 CTAAAGCTCATTTAAACTCAATTAA
65237254 CTAAAGCTCATTTTAAACTCAATTAA
1 CTAAAGCTCA-TTTAAACTCAATTAA
65237280 GCTAGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (25 bp):
CTAAAGCTCATTTAAACTCAATTAA
Found at i:65239066 original size:61 final size:62
Alignment explanation
Indices: 65238968--65239090 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 62
65238958 CTCATCAAAG
*
65238968 AATCAAACATTTTTTTCTTGGACAAATGTATAAGGTTGCAACTGTTGTAGGTATTTATCTAT
1 AATCAAACATCTTTTTCTTGGACAAATGTATAAGGTTGCAACTGTTGTAGGTATTTATCTAT
* *
65239030 AATCAAACA-CTTTTTCTTGGACAAATTTATAGGGTTGCAACTGTTGTAGGTATTTATCTAT
1 AATCAAACATCTTTTTCTTGGACAAATGTATAAGGTTGCAACTGTTGTAGGTATTTATCTAT
65239091 GTTGTTTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 49 0.84
62 9 0.16
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (62 bp):
AATCAAACATCTTTTTCTTGGACAAATGTATAAGGTTGCAACTGTTGTAGGTATTTATCTAT
Found at i:65248232 original size:21 final size:21
Alignment explanation
Indices: 65248206--65248246 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
65248196 ACGGGAAAGG
*
65248206 TGACGTGGCCAGTTAACTAGA
1 TGACGTGGCCAATTAACTAGA
65248227 TGACGTGGCCAATTAACTAG
1 TGACGTGGCCAATTAACTAG
65248247 CCACGTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (21 bp):
TGACGTGGCCAATTAACTAGA
Found at i:65248322 original size:3 final size:3
Alignment explanation
Indices: 65248316--65248363 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
65248306 CTAATAACAG
65248316 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
65248364 GACTATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:65249222 original size:3 final size:3
Alignment explanation
Indices: 65249211--65249269 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
65249201 ACAACAAACC
65249211 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
65249257 CTT CTT CTT CTT C
1 CTT CTT CTT CTT C
65249270 AAGTAAGATG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:65250773 original size:32 final size:31
Alignment explanation
Indices: 65250737--65250805 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
65250727 AATATGGTTC
*
65250737 TTAAAAGAAATATAATATAC-ACATAAATAACT
1 TTAAAAGAAA-AT-ATATACAACAAAAATAACT
*
65250769 TTAAAAGAAAATATATACATAGAAAAATAACT
1 TTAAAAGAAAATATATACA-ACAAAAATAACT
65250801 TTAAA
1 TTAAA
65250806 TATGAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 6 0.18
31 2 0.06
32 25 0.76
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (31 bp):
TTAAAAGAAAATATATACAACAAAAATAACT
Found at i:65255626 original size:57 final size:57
Alignment explanation
Indices: 65255515--65255626 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
65255505 CCACTCCAAC
* * **
65255515 ATTTACAGTTTCACCTCCATTTATTTGAACAGAAGCGGAGCTTTTATTGTGCTGCAA
1 ATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTTTTATTCAGCTGCAA
*
65255572 ATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGACAG-GCTTTTCTTCAGCTGC
1 ATTTAAAGTTTCACCTCCATTTATTTGAACAGAAG-CAGAGCTTTTATTCAGCTGC
65255627 TCTTCAACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 47 0.96
58 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (57 bp):
ATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTTTTATTCAGCTGCAA
Found at i:65256706 original size:2 final size:2
Alignment explanation
Indices: 65256660--65256686 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65256650 ATATATGTAT
65256660 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
65256687 ATACCAAAGA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:65265173 original size:34 final size:34
Alignment explanation
Indices: 65265135--65265204 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
65265125 GAAGTTTAAG
* *
65265135 AAAATAACAATAAACATAAAA-AAAACTGAAAATA
1 AAAATAAAAATAAACATAAAATAAAAAT-AAAATA
* *
65265169 AAAATAAAAATGACCATAAAATAAAAATAAAATA
1 AAAATAAAAATAAACATAAAATAAAAATAAAATA
65265203 AA
1 AA
65265205 TAGACTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (34 bp):
AAAATAAAAATAAACATAAAATAAAAATAAAATA
Found at i:65266678 original size:5 final size:5
Alignment explanation
Indices: 65266668--65266695 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
65266658 TAGGGAATGA
65266668 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
65266696 CTAGTAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:65266882 original size:16 final size:15
Alignment explanation
Indices: 65266852--65266888 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
65266842 TCATAATAAT
*
65266852 AATAGATAAGAATTA
1 AATAAATAAGAATTA
65266867 AATAAATAATGAATTA
1 AATAAATAA-GAATTA
65266883 AATAAA
1 AATAAA
65266889 GAAAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (15 bp):
AATAAATAAGAATTA
Found at i:65273013 original size:426 final size:426
Alignment explanation
Indices: 65272220--65273495 Score: 2507
Period size: 426 Copynumber: 3.0 Consensus size: 426
65272210 TTGACCACCC
* *
65272220 TATGAGAAATTTAGGTGGTTCATCCATCCTGCATTATAGTTATTACTATAAGGATTATTTTGAGG
1 TATGAGAAATTTAGGTGGTTTATCCATCCTACATTATAGTTATTACTATAAGGATTATTTTGAGG
65272285 TCTAGAATTATTACCCATATAATTTAGTTGCTCATTCTCCATGCTAGGACTATAGGGTAAATATT
66 TCTAGAATTATTACCCATATAATTTAGTTGCTCATTCTCCATGCTAGGACTATAGGGTAAATATT
* *
65272350 TTGAATTATTAATTCCACCTCTATTTGCGTCGCATTGCATCACTGGATGTACCTGTGTAGAAACA
131 CTAAATTATTAATTCCACCTCTATTTGCGTCGCATTGCATCACTGGATGTACCTGTGTAGAAACA
65272415 CATAAACCATCAATTTTTTTATTTAAGAGTTCTACCAAATTCGACAACATGGTGACCGCATCTAA
196 CATAAACCATCAATTTTTTTATTTAAGAGTTCTACCAAATTCGACAACATGGTGACCGCATCTAA
65272480 GTTAAAAACACTAGCTACTTTTGTGGGCTTCGTTCTCATGACTTGCCACTGATAATTATTCAGTG
261 GTTAAAAACACTAGCTACTTTTGTGGGCTTCGTTCTCATGACTTGCCACTGATAATTATTCAGTG
65272545 ACATCTCCTCTATAAACTCATAAGCCTCTTCAGGTGTTTTATTATTCAGAGTCCCACTAGCGGTT
326 ACATCTCCTCTATAAACTCATAAGCCTCTTCAGGTGTTTTATTATTCAGAGTCCCACTAGCGGTT
65272610 GTATAGATCAATTGCCTAGTTGAGGGATTCAAACCT
391 GTATAGATCAATTGCCTAGTTGAGGGATTCAAACCT
65272646 TATGAGAAATTTAGGTGGTTTATCCATCCTACATTATAGTTATTACTATAAGGATTATTTTGAGG
1 TATGAGAAATTTAGGTGGTTTATCCATCCTACATTATAGTTATTACTATAAGGATTATTTTGAGG
65272711 TCTAGAATTATTACCCATATAATTTAGTTGCTCATTCTCCATGCTAGGACTATAGGGTAAATATT
66 TCTAGAATTATTACCCATATAATTTAGTTGCTCATTCTCCATGCTAGGACTATAGGGTAAATATT
65272776 CTAAATTATTAATTCCACCTCTATTTGCGTCGCATTGCATCACTGGATGTACCTGTGTAGAAACA
131 CTAAATTATTAATTCCACCTCTATTTGCGTCGCATTGCATCACTGGATGTACCTGTGTAGAAACA
65272841 CATAAACCATCAATTTTTTTATTTAAGAGTTCTACCAAATTCGACAACATGGTGACCGCATCTAA
196 CATAAACCATCAATTTTTTTATTTAAGAGTTCTACCAAATTCGACAACATGGTGACCGCATCTAA
65272906 GTTAAAAACACTAGCTACTTTTGTGGGCTTCGTTCTCATGACTTGCCACTGATAATTATTCAGTG
261 GTTAAAAACACTAGCTACTTTTGTGGGCTTCGTTCTCATGACTTGCCACTGATAATTATTCAGTG
65272971 ACATCTCCTCTATAAACTCATAAGCCTCTTCAGGTGTTTTATTATTCAGAGTCCCACTAGCGGTT
326 ACATCTCCTCTATAAACTCATAAGCCTCTTCAGGTGTTTTATTATTCAGAGTCCCACTAGCGGTT
65273036 GTATAGATCAATTGCCTAGTTGAGGGATTCAAACCT
391 GTATAGATCAATTGCCTAGTTGAGGGATTCAAACCT
65273072 TATGAGAAATTTAGGTGGTTTATCCATCCTACATTATAGTTATTACTATAAGGATTATTTTGAGG
1 TATGAGAAATTTAGGTGGTTTATCCATCCTACATTATAGTTATTACTATAAGGATTATTTTGAGG
65273137 TCTAGAATTATTACCCATATAATTTAGTTGCTCATTCTCCATGCTAGGACTATAGGGTAAATATT
66 TCTAGAATTATTACCCATATAATTTAGTTGCTCATTCTCCATGCTAGGACTATAGGGTAAATATT
65273202 CTAAATTATTAATTCCACCTCTATTTGCGTCGCATTGCATCACTGGATGTACCTGTGTAGAAACA
131 CTAAATTATTAATTCCACCTCTATTTGCGTCGCATTGCATCACTGGATGTACCTGTGTAGAAACA
*
65273267 CATAAACCATCAATTTTTTTATTCAAGAGTTCTACCAAATTCGACAACATGGTGACCGCATCTAA
196 CATAAACCATCAATTTTTTTATTTAAGAGTTCTACCAAATTCGACAACATGGTGACCGCATCTAA
65273332 GTTAAAAACACTAGCTACTTTTGTGGGCTTCGTTCTCATGACTTGCCACTGATAATTATTCAGTG
261 GTTAAAAACACTAGCTACTTTTGTGGGCTTCGTTCTCATGACTTGCCACTGATAATTATTCAGTG
65273397 ACATCTCCTCTATAAACTCATAAGCCTCTTCAGGTGTTTTATTATTCAGAGTCCCACTAGCGGTT
326 ACATCTCCTCTATAAACTCATAAGCCTCTTCAGGTGTTTTATTATTCAGAGTCCCACTAGCGGTT
65273462 GTATAGATCAATTGCCTAGTTGAGGGATTCAAAC
391 GTATAGATCAATTGCCTAGTTGAGGGATTCAAAC
65273496 TGTCGTAAAA
Statistics
Matches: 845, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
426 845 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (426 bp):
TATGAGAAATTTAGGTGGTTTATCCATCCTACATTATAGTTATTACTATAAGGATTATTTTGAGG
TCTAGAATTATTACCCATATAATTTAGTTGCTCATTCTCCATGCTAGGACTATAGGGTAAATATT
CTAAATTATTAATTCCACCTCTATTTGCGTCGCATTGCATCACTGGATGTACCTGTGTAGAAACA
CATAAACCATCAATTTTTTTATTTAAGAGTTCTACCAAATTCGACAACATGGTGACCGCATCTAA
GTTAAAAACACTAGCTACTTTTGTGGGCTTCGTTCTCATGACTTGCCACTGATAATTATTCAGTG
ACATCTCCTCTATAAACTCATAAGCCTCTTCAGGTGTTTTATTATTCAGAGTCCCACTAGCGGTT
GTATAGATCAATTGCCTAGTTGAGGGATTCAAACCT
Found at i:65276903 original size:8 final size:8
Alignment explanation
Indices: 65276890--65276917 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
65276880 ATCTATCACC
65276890 TCTTTGAG
1 TCTTTGAG
65276898 TCTTTGAG
1 TCTTTGAG
65276906 TCTTTGAG
1 TCTTTGAG
65276914 TCTT
1 TCTT
65276918 ATTGATCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.14, G:0.21, T:0.54
Consensus pattern (8 bp):
TCTTTGAG
Found at i:65281759 original size:21 final size:18
Alignment explanation
Indices: 65281712--65281747 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
65281702 TCGGCTATTT
65281712 AGCACATCCAAACAATAC
1 AGCACATCCAAACAATAC
65281730 AGCACATCCAAACAATAC
1 AGCACATCCAAACAATAC
65281748 TTAATCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.33, G:0.06, T:0.11
Consensus pattern (18 bp):
AGCACATCCAAACAATAC
Found at i:65293679 original size:37 final size:37
Alignment explanation
Indices: 65293629--65293705 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
65293619 TGGCTCGGAT
* *
65293629 AATAAAAGGAGCAGACTTGATAGATTTTTGTTAGAAG
1 AATAAAAGGAGCAGACTTGACAGATTTTTGATAGAAG
*
65293666 AATAAAAGGAGCAGACTTGACAGATTTTTGATGGAAG
1 AATAAAAGGAGCAGACTTGACAGATTTTTGATAGAAG
65293703 AAT
1 AAT
65293706 TCTGGTTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (37 bp):
AATAAAAGGAGCAGACTTGACAGATTTTTGATAGAAG
Found at i:65301661 original size:7 final size:7
Alignment explanation
Indices: 65301649--65301682 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
65301639 TCAAATCTGT
65301649 TTCATCC
1 TTCATCC
65301656 TTCATCC
1 TTCATCC
65301663 TTCATCC
1 TTCATCC
65301670 TTCATCC
1 TTCATCC
65301677 TTCATC
1 TTCATC
65301683 AATTTCTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCATCC
Found at i:65306140 original size:33 final size:33
Alignment explanation
Indices: 65306103--65306167 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
65306093 AACTTTTTTG
65306103 GCATTTGATGATGAGTACATTGAGCTCAGTTTA
1 GCATTTGATGATGAGTACATTGAGCTCAGTTTA
*
65306136 GCATTTGATGATGAGTACATTGAGCTCGGTTT
1 GCATTTGATGATGAGTACATTGAGCTCAGTTT
65306168 TGGTTAGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (33 bp):
GCATTTGATGATGAGTACATTGAGCTCAGTTTA
Found at i:65329416 original size:26 final size:26
Alignment explanation
Indices: 65329380--65329463 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
65329370 TGATACAAAC
65329380 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
65329406 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
65329432 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
65329458 TGATAA
1 TGATAA
65329464 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:65330975 original size:26 final size:26
Alignment explanation
Indices: 65330907--65330982 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
65330897 AAGAATAGAT
* *
65330907 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATAATACCCCTA-G-GTGCA
* *
65330935 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATAATACCCCTAGGTGCA
*
65330961 AAATTACTAAAATACCCCTAGG
1 AAATTACTATAATACCCCTAGG
65330983 GTTAAATTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.54
27 1 0.02
28 18 0.44
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGGTGCA
Found at i:65333259 original size:3 final size:3
Alignment explanation
Indices: 65333251--65333304 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
65333241 AAGTACCTAT
* * *
65333251 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAG CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
65333299 TAA TAA
1 TAA TAA
65333305 AGATACAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:65340470 original size:17 final size:17
Alignment explanation
Indices: 65340448--65340489 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
65340438 TTTTCAATAC
65340448 AGTTGTTCTC-AATATAG
1 AGTTGTTCTCAAATA-AG
65340465 AGTTGTTC-CAAATAAG
1 AGTTGTTCTCAAATAAG
*
65340481 AGTGGTTCT
1 AGTTGTTCT
65340490 GTGATAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (17 bp):
AGTTGTTCTCAAATAAG
Found at i:65342854 original size:14 final size:14
Alignment explanation
Indices: 65342835--65342886 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
65342825 AGTAATATAA
65342835 AATATAATAAAAAT
1 AATATAATAAAAAT
*
65342849 AATATAATGAATAAT
1 AATATAAT-AAAAAT
*
65342864 ATATATAGT-AAAAT
1 A-ATATAATAAAAAT
*
65342878 GATATAATA
1 AATATAATA
65342887 TATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 6 0.20
16 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATATAATAAAAAT
Found at i:65342889 original size:20 final size:19
Alignment explanation
Indices: 65342859--65342903 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
65342849 AATATAATGA
65342859 ATAATATATATAGTAAAATGAT
1 ATAATATAT-TA-TAAAAT-AT
65342881 ATAATATATTATAAAATAT
1 ATAATATATTATAAAATAT
65342900 ATAA
1 ATAA
65342904 ATAAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAATATATTATAAAATAT
Found at i:65342906 original size:20 final size:22
Alignment explanation
Indices: 65342836--65342903 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
65342826 GTAATATAAA
* * * *
65342836 ATATAATAAAAATAATATAATG
1 ATATAATATATATAGTAAAATG
65342858 A-ATAATATATATAGTAAAATG
1 ATATAATATATATAGTAAAATG
65342879 ATATAATATAT-TA-TAAAAT-
1 ATATAATATATATAGTAAAATG
65342898 ATATAA
1 ATATAA
65342904 ATAAAACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATATATAGTAAAATG
Found at i:65342974 original size:18 final size:17
Alignment explanation
Indices: 65342953--65343003 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
65342943 CTAAAAATAA
65342953 TATATATAATAAATCATT
1 TATATATAATAAAT-ATT
65342971 TATATATACAT-AATATT
1 TATATATA-ATAAATATT
*
65342988 TATAGTAAAATAAATA
1 TATA-TATAATAAATA
65343004 ATATATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 9 0.31
18 18 0.62
19 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
TATATATAATAAATATT
Found at i:65343248 original size:30 final size:30
Alignment explanation
Indices: 65343207--65343263 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
65343197 TAATTGCAGC
**
65343207 TAGGACCAAATTGTAACAAAAATAAAAGGT
1 TAGGACCAAATTAAAACAAAAATAAAAGGT
* *
65343237 TAGGGCCAAATTAAAATAAAAATAAAA
1 TAGGACCAAATTAAAACAAAAATAAAA
65343264 TGAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (30 bp):
TAGGACCAAATTAAAACAAAAATAAAAGGT
Found at i:65344620 original size:90 final size:90
Alignment explanation
Indices: 65344444--65345805 Score: 2306
Period size: 90 Copynumber: 15.3 Consensus size: 90
65344434 GCCATGTTAA
* * * * *
65344444 TATCCTTGATCTGCTTCCTGTCAAATACAGAGACGCCAAATATG-CTATCTTCGATCTGCTTCGA
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGA
*
65344508 TGTAAACACACGAATGTCAGATCTGC
65 TGTAAACACATGAATGTCAGATCTGC
* * * * *
65344534 TATCTTCGACCTGTTCCCCGTCTAATACAGAGACGCCAAATCTATCATTTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* * *
65344599 GCAAACACACGAATGTTAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65344624 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65344689 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65344714 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65344779 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65344804 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65344869 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65344894 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65344959 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65344984 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65345049 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65345074 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65345139 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65345164 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65345229 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65345254 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65345319 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65345344 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65345409 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
65345434 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65345499 GTAAACACATGAATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
* * *
65345524 TATCTTTGATCTGCTCCCCATCTAATACAAAGATGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
*
65345589 GTAAACACATGAATGTTAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
* * * * *
65345614 TATCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCAT-TTCGATATGCTTCAAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
65345678 GT-------T-AATGTCAGATCTGC
66 GTAAACACATGAATGTCAGATCTGC
* * * * *
65345695 TATCTTCGATCTACTCTCCGTCTAATACAGAGACGTCACATCTGTCATCTTCGATCTGCTTC---
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
65345757 G---ACACACGAATGTCAGATCTAC
66 GTAAACACATGAATGTCAGATCTGC
* * *
65345779 TATCTTCGATATGCTCCCCATCTAATA
1 TATCTTTGATCTGCTCCCCGTCTAATA
65345806 TAGAAACGTC
Statistics
Matches: 1220, Mismatches: 44, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
79 1 0.00
81 55 0.05
82 13 0.01
84 36 0.03
89 16 0.01
90 1098 0.90
91 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (90 bp):
TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
GTAAACACATGAATGTCAGATCTGC
Found at i:65349703 original size:32 final size:35
Alignment explanation
Indices: 65349652--65349717 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 35
65349642 TTGGGTTTTA
* *
65349652 GGCCTGTTGGGCTATTGGAATTTT-TTA-TATTTG
1 GGCCTGATGGACTATTGGAATTTTGTTATTATTTG
65349685 GGCCTGATGGACT-TTGGAATTTTGTTATTATTT
1 GGCCTGATGGACTATTGGAATTTTGTTATTATTT
65349718 TTTGGTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.34
33 14 0.48
34 5 0.17
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.48
Consensus pattern (35 bp):
GGCCTGATGGACTATTGGAATTTTGTTATTATTTG
Found at i:65349988 original size:45 final size:44
Alignment explanation
Indices: 65349921--65350339 Score: 288
Period size: 45 Copynumber: 9.4 Consensus size: 44
65349911 AGGAACTGTA
** * *
65349921 ATTTCAATCTACTCTGCTGCAACATCAAAAAGATAAGATTTGTT
1 ATTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
* * * * *
65349965 ATCATCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTATG
1 AT-TTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
* * * * * * *
65350010 GTTTTAATCTGCTCTACTGCAACTTCAGGAAGATAATATTTGCT
1 ATTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
*
65350054 ATTTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTT-TT
1 A-TTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
* * * * * * *
65350098 GGCTTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGTA
1 --ATTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
* * * * *
65350144 ACTTCAATCTGCTCTACTACAACTT-TAGAGAGATAAGATTT-TCT
1 ATTTCAATCTACTCCACTGCAACTTCAAGA-AGATAAGATTTGT-T
* * * * * * *
65350188 ATCTTCAATGTGCCCCACTGCAACTTCAGGGAGAGAAGATTTGTA
1 AT-TTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
* * * * * *
65350233 ACTTT-AATCTACTCTACTGTAACTTCAGGGAGATAAAATTTGCT
1 A-TTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
** ** *
65350277 ATTTTCAATCTACTCCACTATAACTTCAAGGTGATAAGATTTGTG
1 A-TTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
* *
65350322 GTTTTAATCTACTCCACT
1 ATTTCAATCTACTCCACT
65350340 AGAACTTGAG
Statistics
Matches: 294, Mismatches: 69, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
43 2 0.01
44 118 0.40
45 170 0.58
46 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (44 bp):
ATTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTT
Found at i:65350051 original size:89 final size:87
Alignment explanation
Indices: 65349950--65350357 Score: 338
Period size: 89 Copynumber: 4.6 Consensus size: 87
65349940 CAACATCAAA
* *
65349950 AAGATAAGATTTGTTATCATCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTATGGTTTT
1 AAGATAAGATTTG-TAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT-TGGTTTT
*
65350015 AATCTGCTCTACTGCAACTTCAGG
64 AATCTGCTCCACTGCAACTTCAGG
* ** * * *
65350039 AAGATAATATTTGCTATTTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTTTGGCTTT
1 AAGATAAGATTTG-TAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTTTGG-TTT
* * *
65350104 CAATCTGCTCCACTGTAACTTTAGG
63 TAATCTGCTCCACTGCAACTTCAGG
* * * * * * *
65350129 GAGATAAGATTTGTAACTTCAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTT-CTATCTT
1 AAGATAAGATTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTGGT-T-TT
* *
65350193 CAATGTGCCCCACTGCAACTTCAGG
64 -AATCTGCTCCACTGCAACTTCAGG
* * * * * * *
65350218 GAGAGAAGATTTGTAACTTTAATCTACTCTACTGTAACTTCAGGGAGATAA-AATTTGCTATTTT
1 AAGATAAGATTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTG--GTTTT
* **
65350282 CAATCTACTCCACTATAACTTCAAGG
64 -AATCTGCTCCACTGCAACTTC-AGG
* *** * *
65350308 -TGATAAGATTTGTGGTTTTAATCTACTCCACTAG-AACTTGAGGGAGATAA
1 AAGATAAGATTTGTAACTTCAATCTACTCCACT-GCAACTTCAGGGAGATAA
65350358 AATTCACCAT
Statistics
Matches: 261, Mismatches: 48, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 9 0.03
89 206 0.79
90 43 0.16
91 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (87 bp):
AAGATAAGATTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTGGTTTTAA
TCTGCTCCACTGCAACTTCAGG
Found at i:65350088 original size:134 final size:134
Alignment explanation
Indices: 65349922--65350319 Score: 399
Period size: 134 Copynumber: 3.0 Consensus size: 134
65349912 GGAACTGTAA
* ** * * * * *
65349922 TTTCAATCTACTCTGCTGCAACATCAAAAAGATAAGATTTGTTATCATCAATCTACTCCACTGCA
1 TTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGTTAACTTCAATCTACTCCACTGTA
*** * * *
65349987 ACTTCAGGGAGATAAGATTTATGGTTTTAATCTGCTCTACTGCAACTTCAG-GAAGATAATATTT
66 ACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCTACTACAACTTCAGAG-AGATAAGATTT
65350051 GCTAT
130 GCTAT
** *
65350056 TTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTT-TTGGCTTTCAATCTGCTCCACTGT
1 TTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGTTAAC-TTCAATCTACTCCACTGT
* * *
65350120 AACTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTACAACTTTAGAGAGATAAGATTT
65 AACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCTACTACAACTTCAGAGAGATAAGATTT
*
65350185 TCTAT
130 GCTAT
* * * * * * * *
65350190 CTTCAATGTGCCCCACTGCAACTTCAGGGAGAGAAGATTTG-TAACTTTAATCTACTCTACTGTA
1 TTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGTTAACTTCAATCTACTCCACTGTA
* * ** * * * *
65350254 ACTTCAGGGAGATAAAATTTGCTATTTTCAATCTACTCCACTATAACTTCA-AGGTGATAAGATT
66 ACTTCAGGGAGATAAGATTT-ATAACTTCAATCTGCTCTACTACAACTTCAGA-GAGATAAGATT
65350318 TG
129 TG
65350320 TGGTTTTAAT
Statistics
Matches: 217, Mismatches: 42, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
133 38 0.18
134 178 0.82
135 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (134 bp):
TTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGTTAACTTCAATCTACTCCACTGTA
ACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTG
CTAT
Found at i:65353458 original size:24 final size:23
Alignment explanation
Indices: 65353431--65353487 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
65353421 TATGTATTTG
65353431 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
65353455 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
65353479 TTATTAAAT
1 TTATTAAAT
65353488 TATGATTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 17 0.61
25 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:65353592 original size:3 final size:3
Alignment explanation
Indices: 65353578--65353644 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
65353568 ATATTTATGA
65353578 ATT ATAT ATT ATT A-T ATT A-T ATT A-T ATT A-T ATT A-T ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
65353619 ATA ATGT ATT ATT ATT ATT AAT ATT A
1 ATT AT-T ATT ATT ATT ATT ATT ATT A
65353645 GTAAGTAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
2 10 0.19
3 38 0.72
4 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:65353593 original size:10 final size:10
Alignment explanation
Indices: 65353578--65353644 Score: 58
Period size: 10 Copynumber: 7.1 Consensus size: 10
65353568 ATATTTATGA
65353578 ATTATATATT
1 ATTATATATT
65353588 A-T-TATATT
1 ATTATATATT
65353596 A-TATTATATT
1 ATTA-TATATT
65353606 A-TATTATATT
1 ATTA-TATATT
65353616 ATTATA-ATGT
1 ATTATATAT-T
65353626 ATTAT-TATT
1 ATTATATATT
65353635 ATTA-ATATT
1 ATTATATATT
65353644 A
1 A
65353645 GTAAGTAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
8 8 0.16
9 13 0.25
10 28 0.55
11 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTATATATT
Found at i:65353597 original size:5 final size:5
Alignment explanation
Indices: 65353578--65353617 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
65353568 ATATTTATGA
65353578 ATTAT A-TATT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
65353618 TATAATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 29 0.88
6 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:65353598 original size:13 final size:13
Alignment explanation
Indices: 65353582--65353644 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
65353572 TTATGAATTA
65353582 TATATTATTATAT
1 TATATTATTATAT
65353595 TATATTATATTATAT
1 TATA-T-TATTATAT
*
65353610 TATATTATTATAA
1 TATATTATTATAT
*
65353623 TGTATTATTATTAT
1 TATATTATTA-TAT
65353637 TAATATTA
1 T-ATATTA
65353645 GTAAGTAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
13 20 0.48
14 5 0.12
15 17 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATATTATTATAT
Found at i:65359761 original size:16 final size:16
Alignment explanation
Indices: 65359742--65359773 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65359732 AATTGTTTTA
65359742 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
65359758 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
65359774 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:65360038 original size:50 final size:50
Alignment explanation
Indices: 65359973--65360361 Score: 359
Period size: 50 Copynumber: 7.7 Consensus size: 50
65359963 ACCGAAGCTT
* * * *
65359973 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
*
65360023 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
65360073 TCTGATACATGTAGTAGCCTGCACTTAGTACTACACAGGTGATCGAAGT-TA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * * ** * *
65360124 TCGGGTACGCATAATAGCCTGCAAGTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * *
65360174 TCTGGTACACGTAGTATCCTGCACTTAGTACTACACCCGTGACCTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
65360224 TCTGATATACGTAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGT-TA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* ** * * * *
65360275 TCGGGTATGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
*** * * *
65360325 TCTTAAACACATAGTAGCCTGCACATAGTATTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
65360362 TGTGTTCTCA
Statistics
Matches: 271, Mismatches: 62, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.00
50 194 0.72
51 74 0.27
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:65360239 original size:151 final size:151
Alignment explanation
Indices: 65359976--65360361 Score: 565
Period size: 151 Copynumber: 2.6 Consensus size: 151
65359966 GAAGCTTTCT
*
65359976 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
65360041 CTGCACTTAGTACTACACACGTGACCTATCAATCTGATACATGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACGTAGTAGCCTGCACTTAGTACTA
*
65360106 CACAGGTGATCGAAGTTATCG
131 CACACGTGATCGAAGTTATCG
* ** *
65360127 GGTACGCATAATAGCCTGCAAGTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTATC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
65360192 CTGCACTTAGTACTACACCCGTGACCTATCCATCTGATATACGTAGTAGTCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACGTAGTAGCCTGCACTTAGTACTA
65360257 CACACGTGATCGAAGTTATCG
131 CACACGTGATCGAAGTTATCG
* *** * * *** *
65360278 GGTATGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTTAAACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
65360343 CTGCACATAGTATTACACA
66 CTGCACTTAGTACTACACA
65360362 TGTGTTCTCA
Statistics
Matches: 207, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
151 207 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAGTTATCG
Found at i:65365731 original size:67 final size:67
Alignment explanation
Indices: 65365655--65365788 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
65365645 CTTACAATTT
65365655 CTATTGATTCTTTGTGAGGTAGAATCTGTTTCTCCTCTTGTTCTGTCATCCTTAACAAATCGGAA
1 CTATTGATTCTTTGTGAGGTAGAATCTGTTTCTCCTCTTGTTCTGTCATCCTTAACAAATCGGAA
65365720 GA
66 GA
*
65365722 CTATTGATTCTTTGTGAGGTAGAATCTGTTTCTCCTCTTGTTCTGTCATCCTTAACAAATTGGAA
1 CTATTGATTCTTTGTGAGGTAGAATCTGTTTCTCCTCTTGTTCTGTCATCCTTAACAAATCGGAA
65365787 GA
66 GA
65365789 GAGGTTGCAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (67 bp):
CTATTGATTCTTTGTGAGGTAGAATCTGTTTCTCCTCTTGTTCTGTCATCCTTAACAAATCGGAA
GA
Found at i:65375247 original size:3 final size:3
Alignment explanation
Indices: 65375241--65376048 Score: 1607
Period size: 3 Copynumber: 269.3 Consensus size: 3
65375231 TAATAATAAT
65375241 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375289 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375337 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375385 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375433 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375481 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375529 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375577 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375625 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375673 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375721 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375769 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375817 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375865 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375913 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
65375961 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
65376009 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
65376049 CGAACAATAA
Statistics
Matches: 803, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 803 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:65377094 original size:3 final size:3
Alignment explanation
Indices: 65377086--65377110 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65377076 GTGCGTTCCT
65377086 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
65377111 ATATATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65381551 original size:73 final size:72
Alignment explanation
Indices: 65381393--65381561 Score: 203
Period size: 73 Copynumber: 2.3 Consensus size: 72
65381383 AAAAAAAGCA
* * * *
65381393 TTAGCGGCGTTTTTGAGCAAAGCGCCGCAAATAACCTAAGCCCAACGACGCAGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCAGTTTTCTGAACTT
* *
65381458 TCGGGGAT
65 TCAGAGAT
** * * *
65381466 TTAGCGATGTTTTTGGTAAAGCGCCGCAAAAAAACCCAAGCCCAGCGATGCCGTTTTCTGAACTT
1 TTAGCGGCGTTTTTGGTAAAGCGCCGC-AAAAAACCCAAGCCCAACGACGCAGTTTTCTGAACTT
65381531 TCAGAGAT
65 TCAGAGAT
**
65381539 TTAGCGGCGTTTTTCATAAAGCG
1 TTAGCGGCGTTTTTGGTAAAGCG
65381562 TCGCTAAAGG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
72 11 0.14
73 69 0.86
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCAGTTTTCTGAACTTT
CAGAGAT
Found at i:65381641 original size:20 final size:20
Alignment explanation
Indices: 65381606--65381643 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65381596 AAAACGCCGC
**
65381606 AAAAAATAAATCAATTTATA
1 AAAAAATAAAAAAATTTATA
65381626 AAAAAATAAAAAAATTTA
1 AAAAAATAAAAAAATTTA
65381644 GAATAGCAAA
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATAAAAAAATTTATA
Found at i:65381853 original size:147 final size:145
Alignment explanation
Indices: 65381557--65382075 Score: 948
Period size: 145 Copynumber: 3.6 Consensus size: 145
65381547 GTTTTTCATA
*
65381557 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
65381622 TATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
66 TATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
65381687 GCGGCGCTTTATAAG
131 GCGGCGCTTTATAAG
* *
65381702 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAACT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
* *
65381767 TATAAAAAAAATAAAAAATTGTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
66 TAT-AAAAAAATAAAAAAAT-TTAGAATAGCAAAAAGGCGTCGTTTTGTTCAAAATGAAAAAATT
*
65381832 TTGCGGTGCTTTATAAG
129 TTGCGGCGCTTTATAAG
*
65381849 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAATGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
65381914 TATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
66 TATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
65381979 GCGGCGCTTTATAAG
131 GCGGCGCTTTATAAG
*
65381994 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAATGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
65382059 TATAAAAAAATAAAAAA
66 TATAAAAAAATAAAAAA
65382076 GAGTGTTTCT
Statistics
Matches: 360, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
145 206 0.57
146 30 0.08
147 124 0.34
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (145 bp):
AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
TATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
GCGGCGCTTTATAAG
Found at i:65381933 original size:20 final size:20
Alignment explanation
Indices: 65381898--65381935 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65381888 AAAATGCCGC
**
65381898 AAAAAATAAATCAATTTATA
1 AAAAAATAAAAAAATTTATA
65381918 AAAAAATAAAAAAATTTA
1 AAAAAATAAAAAAATTTA
65381936 GAATAGCAAA
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATAAAAAAATTTATA
Found at i:65382617 original size:7 final size:7
Alignment explanation
Indices: 65382608--65382657 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
65382598 TTAATGTGAT
*
65382608 TTAAGGT
1 TTAAGGG
*
65382615 TTATGGG
1 TTAAGGG
65382622 TTAAGGG
1 TTAAGGG
*
65382629 TTAGGGG
1 TTAAGGG
65382636 TTAAGGG
1 TTAAGGG
65382643 TT-A-GG
1 TTAAGGG
*
65382648 TTAGGGG
1 TTAAGGG
65382655 TTA
1 TTA
65382658 GATGTTAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 4 0.11
6 1 0.03
7 30 0.86
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (7 bp):
TTAAGGG
Found at i:65382627 original size:14 final size:14
Alignment explanation
Indices: 65382608--65382674 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
65382598 TTAATGTGAT
* *
65382608 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
65382622 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
65382636 TTAAGGGTTA--GG
1 TTAAGGGTTAGGGG
* **
65382648 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
*
65382662 TTAAGAGTTAGGG
1 TTAAGGGTTAGGG
65382675 ATTTAGGGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 11 0.26
14 32 0.74
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:65382655 original size:26 final size:26
Alignment explanation
Indices: 65382620--65382673 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
65382610 AAGGTTTATG
* *
65382620 GGTTAAGGGTTAGGGGTTAAGGGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
* *
65382646 GGTTAGGGGTTAGATGTTAAGAGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
65382672 GG
1 GG
65382674 GATTTAGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.31
Consensus pattern (26 bp):
GGTTAAGGGTTAGAGGTTAAGAGTTA
Found at i:65382664 original size:19 final size:20
Alignment explanation
Indices: 65382619--65382657 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
65382609 TAAGGTTTAT
65382619 GGGTTAAGGGTTAGGGGTTAA
1 GGGTTAA-GGTTAGGGGTTAA
65382640 GGGTT-AGGTTAGGGGTTA
1 GGGTTAAGGTTAGGGGTTA
65382658 GATGTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 1 0.06
21 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.31
Consensus pattern (20 bp):
GGGTTAAGGTTAGGGGTTAA
Found at i:65382960 original size:21 final size:20
Alignment explanation
Indices: 65382945--65382999 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
65382935 AGGTTAGGAT
*
65382945 TTAAGGTTTAGGGGTTAGTGG
1 TTAAGGGTTAGGGGTTAG-GG
*
65382966 TTAGGGGTTAGGGGTTAGGGG
1 TTAAGGGTTAGGGGTTA-GGG
*
65382987 TTAAGAGTTAGGG
1 TTAAGGGTTAGGG
65383000 ATTTAGGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (20 bp):
TTAAGGGTTAGGGGTTAGGG
Found at i:65382962 original size:7 final size:7
Alignment explanation
Indices: 65382952--65383013 Score: 79
Period size: 7 Copynumber: 8.7 Consensus size: 7
65382942 GATTTAAGGT
65382952 TTAGGGG
1 TTAGGGG
*
65382959 TTAGTGG
1 TTAGGGG
65382966 TTAGGGG
1 TTAGGGG
65382973 TTAGGGG
1 TTAGGGG
65382980 TTAGGGG
1 TTAGGGG
* *
65382987 TTAAGAG
1 TTAGGGG
*
65382994 TTAGGGAT
1 TTAGGG-G
65383002 TTAGGGG
1 TTAGGGG
65383009 TTAGG
1 TTAGG
65383014 ACTTAAGGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:65383019 original size:29 final size:28
Alignment explanation
Indices: 65382965--65383020 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
65382955 GGGGTTAGTG
**
65382965 GTTAGGGGTTAGGGGTTAGGGGTTAAGA
1 GTTAGGGGTTAGGGGTTAGGACTTAAGA
*
65382993 GTTAGGGATTTAGGGGTTAGGACTTAAG
1 GTTAGGG-GTTAGGGGTTAGGACTTAAG
65383021 GATTCAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.23, C:0.02, G:0.45, T:0.30
Consensus pattern (28 bp):
GTTAGGGGTTAGGGGTTAGGACTTAAGA
Found at i:65383023 original size:22 final size:22
Alignment explanation
Indices: 65382980--65383024 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
65382970 GGGTTAGGGG
* *
65382980 TTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAAGACTTAAGGAT
*
65383002 TTAGGGGTTAGGACTTAAGGAT
1 TTAGGGGTTAAGACTTAAGGAT
65383024 T
1 T
65383025 CAAGGGTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (22 bp):
TTAGGGGTTAAGACTTAAGGAT
Found at i:65383360 original size:19 final size:18
Alignment explanation
Indices: 65383331--65383384 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
65383321 GGACCAAATT
*
65383331 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
65383349 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
65383368 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
65383385 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:65383438 original size:47 final size:48
Alignment explanation
Indices: 65383369--65383467 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
65383359 AAAAATGAAA
*
65383369 TAAAAACACTAAAATTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
65383417 TAAAAA-ACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
65383464 TAAA
1 TAAA
65383468 CAAAACTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (48 bp):
TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
Found at i:65383808 original size:16 final size:15
Alignment explanation
Indices: 65383787--65383826 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
65383777 TGGTTGAAAT
65383787 ATTTATTCCCCTCCAA
1 ATTTATTCCCCTCC-A
*
65383803 ATTTATTCCCCTTCA
1 ATTTATTCCCCTCCA
65383818 ATTT-TTCCC
1 ATTTATTCCC
65383827 ATACCCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTATTCCCCTCCA
Found at i:65385392 original size:103 final size:104
Alignment explanation
Indices: 65385148--65385413 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
65385138 GTTGTACATA
** *
65385148 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
65385213 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
65385252 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
65385316 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
65385355 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
65385414 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:65387754 original size:24 final size:25
Alignment explanation
Indices: 65387727--65387774 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
65387717 TTAAGTTGAT
*
65387727 AAGAATT-CTCTTTGAGTTT-TTTTC
1 AAGAATTACT-TTTAAGTTTCTTTTC
65387751 AAGAATTACTTTTAAGTTTCTTTT
1 AAGAATTACTTTTAAGTTTCTTTT
65387775 AGAGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (25 bp):
AAGAATTACTTTTAAGTTTCTTTTC
Found at i:65389722 original size:95 final size:97
Alignment explanation
Indices: 65389559--65389748 Score: 303
Period size: 95 Copynumber: 2.0 Consensus size: 97
65389549 GGAGGAATAG
* * *
65389559 GATTGAGCTATCACATTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
65389624 GTCCAATTAAA-ATCTAAATAGAG-AGAAAAC
66 GTCCAATTAAATATCCAAATAGAGAAGAAAAC
* *
65389654 GATTGAGCTATCACCTTTTATGAAATGTTATTAGTGTAGTTCACAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
65389719 GTCCAATTAAATATCCAACTAGAGAAGAAA
66 GTCCAATTAAATATCCAAATAGAGAAGAAA
65389749 GTAAGTATGA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 71 0.83
96 10 0.12
97 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (97 bp):
GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
GTCCAATTAAATATCCAAATAGAGAAGAAAAC
Found at i:65394418 original size:150 final size:150
Alignment explanation
Indices: 65394147--65394447 Score: 602
Period size: 150 Copynumber: 2.0 Consensus size: 150
65394137 TCTTGGTAGT
65394147 TGTGTAATGTCTTCTTTTCTTTTCCTTATTTTTTGCAGCAAGGTAAAGTTCATCTTTTTGGGAGT
1 TGTGTAATGTCTTCTTTTCTTTTCCTTATTTTTTGCAGCAAGGTAAAGTTCATCTTTTTGGGAGT
65394212 CTTGAGTTAAGAGCAAGAGAAAATGGGGGATAAAAATGAAGTCTTGGAGGCTGTATTGAAGGAAA
66 CTTGAGTTAAGAGCAAGAGAAAATGGGGGATAAAAATGAAGTCTTGGAGGCTGTATTGAAGGAAA
65394277 CTGTGGATTTGGTAAATAGA
131 CTGTGGATTTGGTAAATAGA
65394297 TGTGTAATGTCTTCTTTTCTTTTCCTTATTTTTTGCAGCAAGGTAAAGTTCATCTTTTTGGGAGT
1 TGTGTAATGTCTTCTTTTCTTTTCCTTATTTTTTGCAGCAAGGTAAAGTTCATCTTTTTGGGAGT
65394362 CTTGAGTTAAGAGCAAGAGAAAATGGGGGATAAAAATGAAGTCTTGGAGGCTGTATTGAAGGAAA
66 CTTGAGTTAAGAGCAAGAGAAAATGGGGGATAAAAATGAAGTCTTGGAGGCTGTATTGAAGGAAA
65394427 CTGTGGATTTGGTAAATAGA
131 CTGTGGATTTGGTAAATAGA
65394447 T
1 T
65394448 CTGACCAAAC
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.36
Consensus pattern (150 bp):
TGTGTAATGTCTTCTTTTCTTTTCCTTATTTTTTGCAGCAAGGTAAAGTTCATCTTTTTGGGAGT
CTTGAGTTAAGAGCAAGAGAAAATGGGGGATAAAAATGAAGTCTTGGAGGCTGTATTGAAGGAAA
CTGTGGATTTGGTAAATAGA
Found at i:65398376 original size:43 final size:43
Alignment explanation
Indices: 65398330--65399255 Score: 1753
Period size: 43 Copynumber: 21.5 Consensus size: 43
65398320 TCAAAAGCGT
* * * * * *
65398330 CGCTAAAGATCATGTTTTTTAGCGGCGTTTGTGGTTAAAGTGT
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
* * ** *
65398373 CGCTAAAGATCATGTTCTTTAGCGGCATTTGTGTTTAAAGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398416 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398459 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398502 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398545 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398588 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398631 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398674 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398717 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398760 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398803 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398846 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398889 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398932 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65398975 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65399018 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65399061 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65399104 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65399147 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65399190 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
1 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
65399233 CGCTAAAGATCATGTTCTTTAGC
1 CGCTAAAGATCATGTTCTTTAGC
65399256 GGCGCTTTAC
Statistics
Matches: 873, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 873 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAGGCGC
Found at i:65399277 original size:43 final size:43
Alignment explanation
Indices: 65399230--65399370 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
65399220 GTGGGTAAGG
* *
65399230 CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTACCCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
*
65399273 CGCCGCTAAAGAACATGATCTTTAGCGGCGCCTTACCCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
* *
65399316 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTACCTCATAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACC-CACAAA
*
65399360 CGCCGCAAAAG
1 CGCCGCTAAAG
65399371 TTAGCGACGT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
43 75 0.83
44 15 0.17
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
Found at i:65402167 original size:26 final size:23
Alignment explanation
Indices: 65402144--65402194 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
65402134 ATATTATTCC
65402144 CAATAATAAATAAATAAATTTATT
1 CAATAA-AAATAAATAAATTTATT
*
65402168 -AATAAAAATTAAT-AATTTATT
1 CAATAAAAATAAATAAATTTATT
*
65402189 CTATAA
1 CAATAA
65402195 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
CAATAAAAATAAATAAATTTATT
Found at i:65402194 original size:22 final size:23
Alignment explanation
Indices: 65402145--65402188 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
65402135 TATTATTCCC
65402145 AATAATAAATAAATAAATTTATT
1 AATAATAAATAAATAAATTTATT
*
65402168 AATAA-AAATTAAT-AATTTATT
1 AATAATAAATAAATAAATTTATT
65402189 CTATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATAATAAATAAATAAATTTATT
Found at i:65426712 original size:49 final size:49
Alignment explanation
Indices: 65426563--65426719 Score: 131
Period size: 49 Copynumber: 3.2 Consensus size: 49
65426553 TATGAAGGCA
* * * * * * *
65426563 CACTAATAGGGGATGTTAGTTGCAAACCAAAATGGCAG-ATATGCT-AGAC
1 CACTAGTAGGGCATGCTAGTTGCTAACC-AGATGGAAGAATATGATAAG-C
* * *
65426612 CACTAGTAGGGCATGCTAGTTGCTAGCTAGATGGAAGAATATGATAGGC
1 CACTAGTAGGGCATGCTAGTTGCTAACCAGATGGAAGAATATGATAAGC
* * ** *
65426661 CACTAGTAGGGCATGGTAGTTGCTAACCAGATTGG-TGTGTATGTTAAGC
1 CACTAGTAGGGCATGCTAGTTGCTAACCAGA-TGGAAGAATATGATAAGC
65426710 CACTAGTAGG
1 CACTAGTAGG
65426720 ACTTGTGTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
48 7 0.08
49 76 0.87
50 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (49 bp):
CACTAGTAGGGCATGCTAGTTGCTAACCAGATGGAAGAATATGATAAGC
Found at i:65429880 original size:21 final size:21
Alignment explanation
Indices: 65429835--65429880 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
65429825 CTAGTCAAAT
* *
65429835 TTTTATCACTTATTTATAGAT
1 TTTTATCACTTATTTATACAC
65429856 TTTTATCACTTATTT-TACACC
1 TTTTATCACTTATTTATACA-C
65429877 TTTT
1 TTTT
65429881 TCAATCTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATCACTTATTTATACAC
Done.