Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 268 of 332
Found at i:89611168 original size:27 final size:27
Alignment explanation
Indices: 89611127--89611266 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
89611117 GAGGAAGCGT
*
89611127 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
89611154 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
89611181 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
89611208 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
89611236 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
89611262 TCTGG
1 TCTGG
89611267 CATCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:89611212 original size:54 final size:55
Alignment explanation
Indices: 89611127--89611266 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
89611117 GAGGAAGCGT
* * *
89611127 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
89611181 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
89611236 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
89611267 CATCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:89615280 original size:26 final size:26
Alignment explanation
Indices: 89615244--89615353 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
89615234 TGATACAAAT
89615244 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89615270 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89615296 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89615322 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89615348 TGATAA
1 TGATAA
89615354 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:89617007 original size:26 final size:27
Alignment explanation
Indices: 89616934--89617067 Score: 159
Period size: 27 Copynumber: 5.0 Consensus size: 27
89616924 GAAGCGTTCT
* *
89616934 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACATATATCTGATCTG
*
89616961 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACATATATCTGATCTG
*
89616988 GTGGCTCTG-CACATATATCTGTTCTG
1 GTGGCTCTGCCACATATATCTGATCTG
89617014 GTGGCT-TGCCACGAT-TATCTGTATCTG
1 GTGGCTCTGCCAC-ATATATCTG-ATCTG
* * *
89617041 GTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTCTGCCACATATATCTGATCTG
89617067 G
1 G
89617068 CAGCCATGCT
Statistics
Matches: 96, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
25 2 0.02
26 35 0.36
27 54 0.56
28 5 0.05
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACATATATCTGATCTG
Found at i:89617015 original size:53 final size:54
Alignment explanation
Indices: 89616934--89617067 Score: 175
Period size: 53 Copynumber: 2.5 Consensus size: 54
89616924 GAAGCGTTCT
* * *
89616934 GTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-ATCTG
1 GTGGCTCTGCCACATATATCTGTTCTGGTGGCT-TGCCACAAATATCTGTATCTG
* *
89616988 GTGGCTCTG-CACATATATCTGTTCTGGTGGCTTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACATATATCTGTTCTGGTGGCTTGCCACAAATATCTGTATCTG
* *
89617041 GTGACTCTGTCACAT-TATCTGTTCTGG
1 GTGGCTCTGCCACATATATCTGTTCTGG
89617068 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
52 13 0.18
53 46 0.64
54 13 0.18
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
GTGGCTCTGCCACATATATCTGTTCTGGTGGCTTGCCACAAATATCTGTATCTG
Found at i:89617153 original size:19 final size:22
Alignment explanation
Indices: 89617129--89617168 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
89617119 CTCTCCACAC
89617129 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
89617148 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
89617169 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:89621726 original size:19 final size:19
Alignment explanation
Indices: 89621695--89621740 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
89621685 AACGACATAG
*
89621695 TTGAGAGACTTGAGAGGGT
1 TTGAGAGACTTGAGAGAGT
* *
89621714 TTGTGAGAGTTGAGAGAGT
1 TTGAGAGACTTGAGAGAGT
89621733 TTGAGAGA
1 TTGAGAGA
89621741 AGGATGTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.41, T:0.28
Consensus pattern (19 bp):
TTGAGAGACTTGAGAGAGT
Found at i:89621732 original size:9 final size:9
Alignment explanation
Indices: 89621693--89621740 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
89621683 AAAACGACAT
89621693 AGTTGAGAG
1 AGTTGAGAG
*
89621702 ACTTGAGAG
1 AGTTGAGAG
* *
89621711 GGTTTGTGAG
1 AG-TTGAGAG
89621721 AGTTGAGAG
1 AGTTGAGAG
89621730 AGTTTGAGAG
1 AG-TTGAGAG
89621740 A
1 A
89621741 AGGATGTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.29, C:0.02, G:0.42, T:0.27
Consensus pattern (9 bp):
AGTTGAGAG
Found at i:89629806 original size:21 final size:21
Alignment explanation
Indices: 89629782--89629826 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
89629772 ATTAAACCCC
89629782 AAACCCCAAA-TCATAGACCAT
1 AAACCCCAAATTC-TAGACCAT
*
89629803 AAACCCTAAATTCTAGACCAT
1 AAACCCCAAATTCTAGACCAT
89629824 AAA
1 AAA
89629827 TCTACACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (21 bp):
AAACCCCAAATTCTAGACCAT
Found at i:89630905 original size:17 final size:18
Alignment explanation
Indices: 89630854--89631012 Score: 189
Period size: 17 Copynumber: 8.8 Consensus size: 18
89630844 TCATATCTTT
*
89630854 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
* * *
89630873 TCATATTGCAATCATATC
1 TAAGATTGCTATCATATC
89630891 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
89630908 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
*
89630926 TAAGATTG-TATCATATT
1 TAAGATTGCTATCATATC
* *
89630943 TAATATTGCAATCATATC
1 TAAGATTGCTATCATATC
89630961 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
89630978 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
89630997 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
89631013 TGAAGATTAT
Statistics
Matches: 119, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
17 46 0.39
18 44 0.37
19 29 0.24
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:89630916 original size:35 final size:35
Alignment explanation
Indices: 89630854--89631004 Score: 230
Period size: 35 Copynumber: 4.2 Consensus size: 35
89630844 TCATATCTTT
* *
89630854 TAAGATTGTATATCATATCTCATATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
89630891 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
* *
89630926 TAAGATTGTATCATATTTAATATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
89630961 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
89630997 TAAGATTG
1 TAAGATTG
89631005 CATATCATTG
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
35 83 0.78
36 15 0.14
37 8 0.08
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:89630953 original size:70 final size:72
Alignment explanation
Indices: 89630854--89631012 Score: 259
Period size: 70 Copynumber: 2.2 Consensus size: 72
89630844 TCATATCTTT
*
89630854 TAAGATTGTATATCATATCTCATATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCA-
1 TAAGATTG-ATATCATATCTAATATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCAT
*
89630918 ATCATATC
65 ATCACATC
*
89630926 TAAGATTG-TATCATATTTAATATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATA
1 TAAGATTGATATCATATCTAATATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATA
89630990 TCACATC
66 TCACATC
89630997 TAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
89631013 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
70 52 0.64
71 15 0.19
72 8 0.10
73 6 0.07
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (72 bp):
TAAGATTGATATCATATCTAATATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATA
TCACATC
Found at i:89631863 original size:207 final size:207
Alignment explanation
Indices: 89631406--89632533 Score: 1943
Period size: 207 Copynumber: 5.5 Consensus size: 207
89631396 AAATCTGCTT
* * * *
89631406 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
89631471 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * *
89631536 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
89631600 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
89631612 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACTTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
89631677 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
89631742 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATTTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
89631807 GGAGACGCCAAA
196 GGAGACGCCAAA
*
89631819 CTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
89631884 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
89631949 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCTTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
**
89632014 GGAGATACCAAA
196 GGAGACGCCAAA
* *
89632026 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
89632091 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
89632156 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
89632221 GGAGACGCTAAA
196 GGAGACGCCAAA
* *
89632233 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
89632298 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
89632363 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
89632428 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * * *
89632440 CTTCAATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
89632505 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
89632534 CTGCTCTTCG
Statistics
Matches: 875, Mismatches: 46, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
206 126 0.14
207 749 0.86
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:89632830 original size:87 final size:84
Alignment explanation
Indices: 89632645--89633031 Score: 475
Period size: 87 Copynumber: 4.6 Consensus size: 84
89632635 TCTGAAGGCC
*
89632645 AGATCTGCAATACTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGC
1 AGATCTGCAAT--TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGC
89632709 TCCACTACTGCTTAGGGAGATA
63 TCCACTACTGCTTAGGGAGATA
* * * * * *
89632731 AGATCCGCAATTTTGACCTGTTACCCTACTGCTTAGGGGTTTAAGGTGAGTCGTCGTTGATCTGT
1 AGATCTGCAATTTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGC
* *
89632796 TCCGCTACTGCTTAGGCAGATA
63 TCCACTACTGCTTAGGGAGATA
*
89632818 AGATCTGTAATTTTAACCTGTTACCCTACTGCTTACGGGG-TTAAGGCGAGTCGTCGTCGATCTG
1 AGATCTGCAATTTTAACCTGTTACCCTACTGCTTA-GGGGATTAAGGCGAGTC-T--TCGATCTG
* *
89632882 CTCCGCTACTGCTTAAGGAGATA
62 CTCCACTACTGCTTAGGGAGATA
* * *
89632905 AGATCTG-----TGAACCTGTTA-CCTCACTGCTTAGAGGATTAAGGCGAGTCTTCGATCTACTC
1 AGATCTGCAATTTTAACCTGTTACCCT-ACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTC
89632964 CACTACTGCTTAGGGAGATA
65 CACTACTGCTTAGGGAGATA
*
89632984 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 AGATCTGCAATTTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
89633032 CTGAATTTTG
Statistics
Matches: 265, Mismatches: 23, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
79 35 0.13
81 7 0.03
82 30 0.11
83 1 0.00
84 66 0.25
85 4 0.02
86 10 0.04
87 108 0.41
88 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (84 bp):
AGATCTGCAATTTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATA
Found at i:89632849 original size:43 final size:42
Alignment explanation
Indices: 89632713--89632852 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 42
89632703 ATCTGCTCCA
* *
89632713 CTACTGCTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACC
1 CTACTGCTTA-GGAGATAAGATCAGTAATTTTGACCTGTTACC
* * * * ** * *
89632756 CTACTGCTTAGGGGTTTAAGGTGAGTCGTCGTTGATCTGTT-CC
1 CTACTGCTTAGGAG-ATAAGATCAGTAAT-TTTGACCTGTTACC
* *
89632799 GCTACTGCTTAGGCAGATAAGATCTGTAATTTTAACCTGTTACC
1 -CTACTGCTTAGG-AGATAAGATCAGTAATTTTGACCTGTTACC
89632843 CTACTGCTTA
1 CTACTGCTTA
89632853 CGGGGTTAAG
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
42 3 0.04
43 37 0.51
44 31 0.43
45 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (42 bp):
CTACTGCTTAGGAGATAAGATCAGTAATTTTGACCTGTTACC
Found at i:89633006 original size:166 final size:165
Alignment explanation
Indices: 89632645--89633032 Score: 473
Period size: 166 Copynumber: 2.3 Consensus size: 165
89632635 TCTGAAGGCC
89632645 AGATCTGCAATACTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCT
1 AGATCTGCAA-A-TTTAACCTGTTACCCTACTGCTTA-GGGGTTAAGGCGCATCTTCGATCTGCT
* * * *
89632710 CCACTACTGCTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACCCTACTGCTTAGGGGTTTAA
63 CCACTACTGCTTAAGGAGATAAGAT-C-C-A-TGTGACCTGTTACCCTACTGCTTAGAGGATTAA
* * ** *
89632775 GGTGAGTCGTCGTTGATCTGTTCCGCTACTGCTTAGGCAGATA
124 GGCGAGTCGTC-TCGATCTACTCCACTACTGCTTAGGCAGATA
* *
89632818 AGATCTGTAATTTTAACCTGTTACCCTACTGCTTACGGGGTTAAGGCG-AGTCGTCGTCGATCTG
1 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTA-GGGGTTAAGGCGCA-TC-T--TCGATCTG
*
89632882 CTCCGCTACTGCTTAAGGAGATAAGAT-C-TGTGAACCTGTTA-CCTCACTGCTTAGAGGATTAA
61 CTCCACTACTGCTTAAGGAGATAAGATCCATGTG-ACCTGTTACCCT-ACTGCTTAGAGGATTAA
*
89632944 GGCGAGTC-T-TCGATCTACTCCACTACTGCTTAGGGAGATA
124 GGCGAGTCGTCTCGATCTACTCCACTACTGCTTAGGCAGATA
89632984 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGG-TTAAGGCGC
89633033 TGAATTTTGT
Statistics
Matches: 191, Mismatches: 16, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
165 4 0.02
166 67 0.35
168 7 0.04
169 30 0.16
170 1 0.01
171 39 0.20
172 1 0.01
173 9 0.05
174 33 0.17
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (165 bp):
AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGCATCTTCGATCTGCTCCA
CTACTGCTTAAGGAGATAAGATCCATGTGACCTGTTACCCTACTGCTTAGAGGATTAAGGCGAGT
CGTCTCGATCTACTCCACTACTGCTTAGGCAGATA
Found at i:89633988 original size:20 final size:20
Alignment explanation
Indices: 89633963--89634033 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
89633953 CCTCTCCATT
*
89633963 TTTCTTTTTCCTCTTTTTTC
1 TTTCTTTTTCTTCTTTTTTC
*
89633983 TTTCTTTTTTTTC-TTTTTC
1 TTTCTTTTTCTTCTTTTTTC
*
89634002 TTTTCTTTTT-TTCTTATTTTT
1 -TTTCTTTTTCTTCTT-TTTTC
89634023 TTTCTTTTTCT
1 TTTCTTTTTCT
89634034 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 9 0.20
20 30 0.68
21 5 0.11
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTCTTTTTCTTCTTTTTTC
Found at i:89633990 original size:19 final size:17
Alignment explanation
Indices: 89633976--89634016 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
89633966 CTTTTTCCTC
89633976 TTTTTTCTTTCTTTT-T
1 TTTTTTCTTTCTTTTCT
*
89633992 TTTCTT-TTTCTTTTCT
1 TTTTTTCTTTCTTTTCT
89634008 TTTTTTCTT
1 TTTTTTCTT
89634017 ATTTTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 11 0.52
17 2 0.10
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTCTTTTCT
Found at i:89634012 original size:31 final size:30
Alignment explanation
Indices: 89633961--89634033 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
89633951 GGCCTCTCCA
*
89633961 TTTTTCTTTTTC-CTC-TTTTTTCTTTCTTT
1 TTTTTCTTTTTCTCTCTTTTTTTC-TTATTT
*
89633990 TTTTTCTTTTTCTTTTCTTTTTTTCTTATTT
1 TTTTTCTTTTTC-TCTCTTTTTTTCTTATTT
89634021 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
89634034 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 12 0.31
30 1 0.03
31 19 0.49
32 7 0.18
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (30 bp):
TTTTTCTTTTTCTCTCTTTTTTTCTTATTT
Found at i:89636819 original size:125 final size:125
Alignment explanation
Indices: 89636597--89636846 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 125
89636587 TTTTAATAAC
89636597 TTTAACTAATTAGGGTCTTTTTATAGATTTAAATGCATTTGATGTGATGCAAAGCAAAAGCATGA
1 TTTAACTAATTAGGGTCTTTTTATAGATTTAAATGCATTTGATGTGATGCAAAGCAAAAGCATGA
89636662 ATGCAAAAGAAAAGGAGATGTTGATCTTGAATTCAATTCCATTAGAATAACTTTTCTAGA
66 ATGCAAAAGAAAAGGAGATGTTGATCTTGAATTCAATTCCATTAGAATAACTTTTCTAGA
89636722 TTTAACTAATTAGGGTCTTTTTATAGATTTAAATGCATTTGATGTGATGCAAAGCAAAAGCATGA
1 TTTAACTAATTAGGGTCTTTTTATAGATTTAAATGCATTTGATGTGATGCAAAGCAAAAGCATGA
*
89636787 ATGCAAAAGAAAAGGAGATGTTGATCTTGAATTCAATTCCATTATAATAACTTTTCTAGA
66 ATGCAAAAGAAAAGGAGATGTTGATCTTGAATTCAATTCCATTAGAATAACTTTTCTAGA
89636847 AAACAGATTT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (125 bp):
TTTAACTAATTAGGGTCTTTTTATAGATTTAAATGCATTTGATGTGATGCAAAGCAAAAGCATGA
ATGCAAAAGAAAAGGAGATGTTGATCTTGAATTCAATTCCATTAGAATAACTTTTCTAGA
Found at i:89639901 original size:19 final size:19
Alignment explanation
Indices: 89639877--89639965 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
89639867 TCATATCTTT
*
89639877 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
89639896 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
89639914 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
89639931 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
89639950 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
89639966 TGAAGATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:89639932 original size:35 final size:37
Alignment explanation
Indices: 89639877--89639965 Score: 137
Period size: 35 Copynumber: 2.4 Consensus size: 37
89639867 TCATATCTTT
*
89639877 TAAGATTGTATATCATATCTAAGATTGCA-ATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCACATC
89639914 TAAGATTG-TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGATATCATATCTAAGATTGCATATCACATC
89639950 TAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
89639966 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.40
36 15 0.31
37 8 0.17
38 6 0.12
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCACATC
Found at i:89639944 original size:14 final size:15
Alignment explanation
Indices: 89639889--89639944 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
89639879 AGATTGTATA
89639889 TCATATCTAAGATTG
1 TCATATCTAAGATTG
89639904 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
89639922 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
89639939 -CATATC
1 TCATATC
89639945 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:89640253 original size:21 final size:21
Alignment explanation
Indices: 89640212--89640263 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
89640202 TATAAAACAA
* *
89640212 TAAACCCCAAACCCCAGACTC
1 TAAACCCTAAACCCCAAACTC
*
89640233 TAAACCCTAAACCCTAAACTC
1 TAAACCCTAAACCCCAAACTC
* *
89640254 AAAACTCTAA
1 TAAACCCTAA
89640264 TCACAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.15
Consensus pattern (21 bp):
TAAACCCTAAACCCCAAACTC
Found at i:89640335 original size:14 final size:14
Alignment explanation
Indices: 89640318--89640349 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
89640308 CCATAGACAT
*
89640318 TAAACCTTAAATCA
1 TAAACCCTAAATCA
89640332 TAAACCCTAAATCA
1 TAAACCCTAAATCA
89640346 TAAA
1 TAAA
89640350 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:89640473 original size:40 final size:40
Alignment explanation
Indices: 89640429--89640661 Score: 175
Period size: 40 Copynumber: 5.5 Consensus size: 40
89640419 TGGTCAACTT
*
89640429 TTTTGCGGCA-TTTTCTGAAAAGCGTCGCTAATGCTCGATC
1 TTTTGCGGCATTTTTC-AAAAAGCGTCGCTAATGCTCGATC
* * *
89640469 TTTTGCGGCGTTTTTCAAAAAGCGTGGCTAATTCTCGATC
1 TTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGCTCGATC
* * * * * *
89640509 TATTGCTGCGTTTTTCAAAAAGAGCCG-TAATGCCGTCGTTTTGCTAAAC
1 TTTTGCGGCATTTTTCAAAAAGCGTCGCTAATG-C-TC-----G---ATC
*
89640558 TTTTCTGCGGCA-TTTTCTAAAAAGCGTCGCTAATACTCGATC
1 -TTT-TGCGGCATTTTTC-AAAAAGCGTCGCTAATGCTCGATC
* *
89640600 TTTAGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATC
1 TTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGCTCGATC
* *
89640640 TTTAGCGGCGTTTTTCACAAAA
1 TTTTGCGGCATTTTTCA-AAAA
89640662 ACGCCACTAT
Statistics
Matches: 154, Mismatches: 22, Indels: 33
0.74 0.11 0.16
Matches are distributed among these distances:
39 4 0.03
40 97 0.63
41 19 0.12
42 2 0.01
45 1 0.01
46 1 0.01
49 2 0.01
50 9 0.06
51 15 0.10
52 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (40 bp):
TTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGCTCGATC
Found at i:89640651 original size:131 final size:132
Alignment explanation
Indices: 89640411--89640661 Score: 380
Period size: 131 Copynumber: 1.9 Consensus size: 132
89640401 CAACAAACGA
* * * * * *
89640411 CGTCGTTTTGGTCAACTTTTTTGCGGCATTTTCTGAAAAGCGTCGCTAATGCTCGATCTTTTGCG
1 CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGTCGCTAATACTCGATCTTTAGCG
* ** * *
89640476 GCGTTTTTCAAAAAGCGTGGCTAATTCTCGATCTATTGCTGCGTTTTTCA-AAAAGAGCCGTAAT
66 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACAAAAGAGCCGTAAT
89640540 GC
131 GC
89640542 CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGTCGCTAATACTCGATCTTTAGCG
1 CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGTCGCTAATACTCGATCTTTAGCG
89640607 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCT-TTAGCGGCGTTTTTCACAAAA
66 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATT-GCGGCGTTTTTCACAAAA
89640662 ACGCCACTAT
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
130 2 0.02
131 101 0.94
132 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (132 bp):
CGTCGTTTTGCTAAACTTTTCTGCGGCATTTTCTAAAAAGCGTCGCTAATACTCGATCTTTAGCG
GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACAAAAGAGCCGTAAT
GC
Found at i:89652057 original size:37 final size:37
Alignment explanation
Indices: 89651998--89652141 Score: 225
Period size: 37 Copynumber: 3.9 Consensus size: 37
89651988 AGCTCAGACG
* *
89651998 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
89652035 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
89652072 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
89652109 TAATCTCCACACGTAGTCATCGAGTCTCACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
89652142 AAATATATTT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:89652504 original size:141 final size:141
Alignment explanation
Indices: 89652297--89652606 Score: 534
Period size: 141 Copynumber: 2.2 Consensus size: 141
89652287 CCTACATATT
*
89652297 TCACACTA-GCCATTCGGCTTTA-CAACATATATGCATGTTCATATTCACCACATTGGCCATTCG
1 TCACA-TAGGCCATTCGGCCTTATC-ACATATATGCATGTTCATATTCACCACATTGGCCATTCG
* *
89652360 GCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTCATCTCATATATGC
64 GCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTCATCACACATATGC
*
89652425 ATGTTCACATTCA
129 ATGCTCACATTCA
89652438 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
*
89652503 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTCATCACACATATGCAT
89652568 GCTCACATTCA
131 GCTCACATTCA
*
89652579 TCACATTGGCCATTCGGCCTTATCACAT
1 TCACATAGGCCATTCGGCCTTATCACAT
89652607 TTATACACAT
Statistics
Matches: 161, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
140 2 0.01
141 158 0.98
142 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (141 bp):
TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTCATCACACATATGCAT
GCTCACATTCA
Found at i:89652534 original size:25 final size:25
Alignment explanation
Indices: 89652506--89652583 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
89652496 ATTCGGCCTT
89652506 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
89652531 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
89652553 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
89652578 ATCACA
1 ATCACA
89652584 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:89652558 original size:22 final size:22
Alignment explanation
Indices: 89652531--89652607 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
89652521 GCTCACATTC
89652531 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
89652553 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
89652577 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
89652600 ATCACATT
1 ATCACATT
89652608 TATACACATT
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 13 0.31
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:89652621 original size:47 final size:47
Alignment explanation
Indices: 89652305--89652631 Score: 467
Period size: 47 Copynumber: 7.0 Consensus size: 47
89652295 TTTCACACTA
* * * *
89652305 GCCATTCGGCTTTA-CAACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATC-ACACATATGCATGTTCACATTCATCACATTG
*
89652352 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
* * * *
89652399 GCCATTCGGCCTCATCTCATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
* * *
89652446 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
*
89652493 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
*
89652540 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
** * **
89652587 GCCATTCGGCCTTATCACATTTATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACAT
89652632 AAAATCCTAA
Statistics
Matches: 254, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 253 1.00
48 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
Found at i:89667351 original size:16 final size:17
Alignment explanation
Indices: 89667327--89667374 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
89667317 TTATCATTTA
89667327 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
89667343 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
89667359 TTCAATAAAATGATTA
1 TTAAATAAAAT-ATTA
89667375 AACTTCACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:89669910 original size:3 final size:3
Alignment explanation
Indices: 89669904--89669928 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
89669894 GATGATGATG
89669904 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
89669929 ATTAAATAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:89669998 original size:15 final size:15
Alignment explanation
Indices: 89669978--89670006 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
89669968 CATGCAAATT
89669978 AGAAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
89669993 AGAAAAGAAAGAAA
1 AGAAAAGAAAGAAA
89670007 GAAAAAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAGAAAA
Found at i:89671009 original size:24 final size:24
Alignment explanation
Indices: 89670975--89671022 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
89670965 TTTCAGTTTA
89670975 ACCGATAAGACACTGGGTGTCAAT
1 ACCGATAAGACACTGGGTGTCAAT
*
89670999 ACCGATGAGACACTGGGTGTCAAT
1 ACCGATAAGACACTGGGTGTCAAT
89671023 TTATATAGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (24 bp):
ACCGATAAGACACTGGGTGTCAAT
Found at i:89671222 original size:18 final size:18
Alignment explanation
Indices: 89671188--89671227 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
89671178 AATGGAAAAT
** *
89671188 ATGAGAAATGATTATGAG
1 ATGAGAAATGAAGATGAA
89671206 ATGAGAAATGAAGATGAA
1 ATGAGAAATGAAGATGAA
89671224 ATGA
1 ATGA
89671228 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.23
Consensus pattern (18 bp):
ATGAGAAATGAAGATGAA
Found at i:89671738 original size:22 final size:23
Alignment explanation
Indices: 89671712--89671757 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
89671702 CAACCAAATC
89671712 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
89671734 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
89671757 A
1 A
89671758 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:89671763 original size:23 final size:23
Alignment explanation
Indices: 89671719--89671763 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89671709 ATCAATTCAA
*
89671719 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
89671742 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
89671764 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:89676149 original size:14 final size:14
Alignment explanation
Indices: 89676130--89676157 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89676120 CATGTCTATA
89676130 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
89676144 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
89676158 CATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTTTAAAT
Found at i:89678319 original size:31 final size:29
Alignment explanation
Indices: 89678252--89678321 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
89678242 CAATTAGACT
* *
89678252 TTCATGTGTATAATTGCACCAAATTAAAG
1 TTCATGTATATAATTGCACCAAATTAAAA
89678281 TTCATGTATATAATTGCA-CATTAATTCAAAA
1 TTCATGTATATAATTGCACCA--AATT-AAAA
89678312 TTCATGTATA
1 TTCATGTATA
89678322 ATTTTGAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.47
30 4 0.11
31 13 0.36
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (29 bp):
TTCATGTATATAATTGCACCAAATTAAAA
Found at i:89683637 original size:18 final size:18
Alignment explanation
Indices: 89683610--89683644 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89683600 ACTTTGAAAT
* *
89683610 TCACTTCACTTCAATATA
1 TCACTACACTTAAATATA
89683628 TCACTACACTTAAATAT
1 TCACTACACTTAAATAT
89683645 GTTATTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (18 bp):
TCACTACACTTAAATATA
Found at i:89685090 original size:18 final size:18
Alignment explanation
Indices: 89685058--89685100 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
89685048 GTTTAGCAAT
89685058 TATTTTTATCATAA-TAA
1 TATTTTTATCATAATTAA
89685075 TAATTTTTAT-AGTAATTAA
1 T-ATTTTTATCA-TAATTAA
89685094 TATTTTT
1 TATTTTT
89685101 TTTAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTTATCATAATTAA
Found at i:89687306 original size:25 final size:25
Alignment explanation
Indices: 89687253--89687315 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
89687243 ACTAATTTTC
*
89687253 TCAAAATTTTATCGAGGGTAAAATCG
1 TCAAAATTTTA-CCAGGGTAAAATCG
* * *
89687279 TCAAAAATTTACCAGGGTAGAATTG
1 TCAAAATTTTACCAGGGTAAAATCG
89687304 TCAAAATTTTAC
1 TCAAAATTTTAC
89687316 TTGGTGAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACCAGGGTAAAATCG
Found at i:89694280 original size:17 final size:18
Alignment explanation
Indices: 89694258--89694301 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
89694248 GTTTGATATT
89694258 GAAATGGAAAAG-GATGA
1 GAAATGGAAAAGAGATGA
*
89694275 GAAATGGAAAAGAGATGT
1 GAAATGGAAAAGAGATGA
89694293 GAAATGGAA
1 GAAATGGAA
89694302 TATGAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (18 bp):
GAAATGGAAAAGAGATGA
Found at i:89697894 original size:34 final size:34
Alignment explanation
Indices: 89697847--89697911 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
89697837 GACAGGCTCC
*
89697847 TTTAGTTGCCATAGCCAAGCTATGGTTTTACTCA
1 TTTAGTTGCCATAGCCAAGCTATGGTCTTACTCA
*
89697881 TTTAGTTGTCATAGCCAAGCTATGGTCTTAC
1 TTTAGTTGCCATAGCCAAGCTATGGTCTTAC
89697912 AGGTTAGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (34 bp):
TTTAGTTGCCATAGCCAAGCTATGGTCTTACTCA
Found at i:89701414 original size:19 final size:19
Alignment explanation
Indices: 89701390--89701429 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
89701380 AAAACCCCAG
*
89701390 TTTACCTAGGGTGTCAGAC
1 TTTACCTAGGGCGTCAGAC
89701409 TTTACCTAGGGCGTCAGAC
1 TTTACCTAGGGCGTCAGAC
89701428 TT
1 TT
89701430 CAATTCCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (19 bp):
TTTACCTAGGGCGTCAGAC
Found at i:89707727 original size:18 final size:16
Alignment explanation
Indices: 89707703--89707746 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
89707693 AAATGACTCA
89707703 GAAATTAATTTATATAT
1 GAAATTAATTTA-ATAT
89707720 GTAAATTATTATTTAATAT
1 G-AAATTA--ATTTAATAT
89707739 GAAATTAA
1 GAAATTAA
89707747 ATAATTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 1 0.04
18 12 0.50
19 5 0.21
20 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
GAAATTAATTTAATAT
Found at i:89709179 original size:16 final size:16
Alignment explanation
Indices: 89709158--89709196 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
89709148 ATAGTGAGAG
89709158 AAAATAT-TTTATATTA
1 AAAATATATTT-TATTA
*
89709174 AAAATATATTTTTTTA
1 AAAATATATTTTATTA
89709190 AAAATAT
1 AAAATAT
89709197 CTAATAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAATATATTTTATTA
Found at i:89711560 original size:12 final size:12
Alignment explanation
Indices: 89711531--89711564 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
89711521 TTATATACAT
89711531 AAAAAA-TATTA
1 AAAAAATTATTA
89711542 AATAAAATTATTA
1 AA-AAAATTATTA
89711555 AAAAAATTAT
1 AAAAAATTAT
89711565 ATTGTCAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 12 0.57
13 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:89716637 original size:99 final size:99
Alignment explanation
Indices: 89716465--89716662 Score: 369
Period size: 99 Copynumber: 2.0 Consensus size: 99
89716455 AGAGAAATGT
*
89716465 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGGCTAACTCAGTAATTCTGAACCTATTTC
1 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
89716530 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
66 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
*
89716564 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTGTGAACCTATTTC
1 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
*
89716629 CTCTTAGGTTTGATTTGGAAAAGAAATAAATAGC
66 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
89716663 TAACCCTTTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (99 bp):
GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
Found at i:89717772 original size:39 final size:39
Alignment explanation
Indices: 89717717--89717796 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
89717707 AGATCAAACC
*
89717717 AAACCAAAAAGTTAGATGAAGTGCTTTAGGCTTTTGGGT
1 AAACCAAAAAGCTAGATGAAGTGCTTTAGGCTTTTGGGT
*
89717756 AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
1 AAACCAAAAAGCTAGATGAAGTGCTTTAGGCTTTTGGGT
89717795 AA
1 AA
89717797 CTAGTTTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (39 bp):
AAACCAAAAAGCTAGATGAAGTGCTTTAGGCTTTTGGGT
Found at i:89720723 original size:15 final size:17
Alignment explanation
Indices: 89720703--89720734 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
89720693 ATTTTATATA
89720703 TAATAT-TAAA-ATTTT
1 TAATATGTAAATATTTT
89720718 TAATATGTAAATATTTT
1 TAATATGTAAATATTTT
89720735 CAAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAATATGTAAATATTTT
Found at i:89724096 original size:93 final size:92
Alignment explanation
Indices: 89723932--89724160 Score: 298
Period size: 93 Copynumber: 2.5 Consensus size: 92
89723922 TTATCTTCGA
* * * * * * * *
89723932 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGTTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-ATTTCATGTCACGTTGCCATGGTATCT
** * *
89723996 TTCAACCATGGTCTTATTCATTTTCCCGT
65 TTCAACCATGGTCTTACACA-TTTCACAT
*
89724025 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
*
89724090 TCAACCATGGTCTTACACATTTCATAT
66 TCAACCATGGTCTTACACATTTCACAT
*
89724117 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
89724161 ATCAAAAACA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
92 51 0.43
93 68 0.57
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCACAT
Found at i:89724164 original size:46 final size:46
Alignment explanation
Indices: 89723932--89724160 Score: 291
Period size: 46 Copynumber: 5.0 Consensus size: 46
89723922 TTATCTTCGA
* * * * *
89723932 CATGATGCCATAGTATCTTTCAACTATGGTTTTACT-CGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TAC-ATTTCATGT
* * **
89723978 CATGTTGCCATGTTATCTTTCAACCATGGTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACA-TTTCATGT
* *
89724025 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
* * *
89724071 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
89724117 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
89724161 ATCAAAAACA
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 123 0.76
47 38 0.23
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
Found at i:89725721 original size:20 final size:20
Alignment explanation
Indices: 89725691--89725730 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
89725681 ACACCTTCAA
89725691 TTTTCCTTTTTC-TTCTTTC
1 TTTTCCTTTTTCTTTCTTTC
89725710 TTTTCACTTTTTCTTTCTTTC
1 TTTTC-CTTTTTCTTTCTTTC
89725731 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCCTTTTTCTTTCTTTC
Found at i:89725988 original size:18 final size:19
Alignment explanation
Indices: 89725939--89725988 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
89725929 TATAATATAA
89725939 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
89725959 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
89725979 TTATTTAATA
1 TTATTTAATA
89725989 TCTAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:89726405 original size:13 final size:13
Alignment explanation
Indices: 89726387--89726486 Score: 91
Period size: 13 Copynumber: 8.6 Consensus size: 13
89726377 AAATATCTTT
89726387 ACTCCACTAAACC
1 ACTCCACTAAACC
89726400 ACT-C-C--AACC
1 ACTCCACTAAACC
89726409 ACTCCACTAAACC
1 ACTCCACTAAACC
89726422 ACTCCACTAAACC
1 ACTCCACTAAACC
89726435 AC-CC-C--AACC
1 ACTCCACTAAACC
89726444 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
*
89726457 ACTCCACTAAAGC
1 ACTCCACTAAACC
89726470 AC-CC-C--AACC
1 ACTCCACTAAACC
89726479 ACTCCACT
1 ACTCCACT
89726487 TGCCTACAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 25
0.73 0.02 0.25
Matches are distributed among these distances:
9 20 0.27
10 3 0.04
11 6 0.08
12 5 0.07
13 37 0.51
14 2 0.03
ACGTcount: A:0.36, C:0.50, G:0.01, T:0.13
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:89726433 original size:35 final size:35
Alignment explanation
Indices: 89726387--89726486 Score: 166
Period size: 35 Copynumber: 2.9 Consensus size: 35
89726377 AAATATCTTT
*
89726387 ACTCCACTAAACCACTCCAACCACTCCACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCCACTAAACC
89726422 ACTCCACTAAACCACCCCAACCAC-CCTACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCC-ACTAAACC
*
89726457 ACTCCACTAAAGCACCCCAACCACTCCACT
1 ACTCCACTAAACCACCCCAACCACTCCACT
89726487 TGCCTACAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.03
35 57 0.93
36 2 0.03
ACGTcount: A:0.36, C:0.50, G:0.01, T:0.13
Consensus pattern (35 bp):
ACTCCACTAAACCACCCCAACCACTCCACTAAACC
Found at i:89726819 original size:18 final size:18
Alignment explanation
Indices: 89726769--89726822 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
89726759 TAATTTTTAC
89726769 TATTAT-TTATATTATTAT
1 TATTATATTATA-TATTAT
*
89726787 TATTTCTCATGTATATATTAT
1 TA-TTAT-AT-TATATATTAT
89726808 TATTATATTATATAT
1 TATTATATTATATAT
89726823 ACCCTATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 9 0.30
19 5 0.17
20 3 0.10
21 9 0.30
22 4 0.13
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTATATTATATATTAT
Found at i:89726968 original size:3 final size:3
Alignment explanation
Indices: 89726892--89726951 Score: 68
Period size: 3 Copynumber: 19.0 Consensus size: 3
89726882 TTCTGACTAC
*
89726892 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
89726940 TAT TAT TAT TAT
1 TAT TAT TAT TAT
89726952 CACCCCTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 40 0.77
4 11 0.21
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:89729642 original size:19 final size:19
Alignment explanation
Indices: 89729620--89729666 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
89729610 CTTCCTTTCT
89729620 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
89729639 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
89729658 TTTGCATTA
1 TTTGCATTA
89729667 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:89733361 original size:53 final size:52
Alignment explanation
Indices: 89733258--89733361 Score: 127
Period size: 53 Copynumber: 2.0 Consensus size: 52
89733248 GTCCAAATAA
* * * * *
89733258 ATTTTCTTCTTATTGCATTGCTATCTTTGATTAAATCATTCGTTTTAAGTTG
1 ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCAAGTTG
* * *
89733310 ATTTCCTTTTTATTGCATTTGCAATCTTTGATTAATTTATCCATTTCAAGTT
1 ATTTCCTTCTTATTGCA-TTGCAATCTTTGATTAAATCATCCATTTCAAGTT
89733362 ATGCTCCTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 15 0.35
53 28 0.65
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (52 bp):
ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCAAGTTG
Found at i:89736207 original size:132 final size:132
Alignment explanation
Indices: 89734723--89736200 Score: 2395
Period size: 132 Copynumber: 11.2 Consensus size: 132
89734713 GATTTCAGCA
* * * * * *
89734723 TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
*
89734787 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAG
65 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG
89734852 ATT
130 ATT
* *
89734855 TGGCATCCCTGTGCTTATGGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTATAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
89734920 GAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89734985 TT
131 TT
*
89734987 TGGCATCCCTGTGCTTATGGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
89735052 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAATAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89735117 TT
131 TT
* * * *
89735119 TGGCATCCCTGTGCTTATGGGGAACAGATCAAAGATAGCAGATCTGACATTCATGTGCTTATAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
89735184 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTTAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89735249 TT
131 TT
* *
89735251 TGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAAATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
89735316 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89735381 TT
131 TT
*
89735383 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
89735448 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTT-AAAGATAGTAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACAGCAG
89735512 ATT
130 ATT
* *
89735515 TGGCATTCCTGTGCTTATAGGGAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
89735580 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTT-AAAGATAGTAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACAGCAG
89735644 ATT
130 ATT
* * *
89735647 TGGCATACCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTATAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
** *
89735712 GAAGCAGATCGAAGATTTCAGCATGGCATCTATGTGCTTATAGGGAACAAGTTGAAAACAGTAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89735777 TT
131 TT
*
89735779 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
** * *
89735844 GAAGCAGATTAAAGATTTCAGTATGGCATCCCCGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89735909 TT
131 TT
* * * * *
89735911 TGGCATCCCTGTGCTTATGGGGAACGGATCGAAGATAGCATAACTGACATTCTTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
89735976 GAAGTAGATCGAAGATTTTAGCATGGCATCCCTGTGCTTACAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89736041 TT
131 TT
* * * *
89736043 TGGCATCCCTGTGCTTATAGGGAACAGATTGAAAATAGCAGATCTAACATTCCTATGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * **
89736108 GAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATTGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89736173 TT
131 TT
*
89736175 TGGCATCCCTGTGTTTATAGGGAACA
1 TGGCATCCCTGTGCTTATAGGGAACA
89736201 AGTTGAATAC
Statistics
Matches: 1266, Mismatches: 77, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
131 2 0.00
132 1260 1.00
133 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:89736535 original size:13 final size:13
Alignment explanation
Indices: 89736517--89736651 Score: 115
Period size: 13 Copynumber: 11.6 Consensus size: 13
89736507 AAATATCTTT
89736517 ACTCCACTAAACC
1 ACTCCACTAAACC
89736530 ACT-C-C--AACC
1 ACTCCACTAAACC
89736539 ACTCCACTAAACC
1 ACTCCACTAAACC
89736552 ACT-C-C--AACC
1 ACTCCACTAAACC
89736561 ACTCCACTAAACC
1 ACTCCACTAAACC
*
89736574 ACTACACTAAACC
1 ACTCCACTAAACC
89736587 ACTCCACTAAACC
1 ACTCCACTAAACC
89736600 AC-CC-C--AACC
1 ACTCCACTAAACC
*
89736609 AC-CCTACTAAATC
1 ACTCC-ACTAAACC
*
89736622 ACTCCATTAAACC
1 ACTCCACTAAACC
89736635 AC-CC-C--AACC
1 ACTCCACTAAACC
89736644 ACTCCACT
1 ACTCCACT
89736652 TGCCAACAAA
Statistics
Matches: 100, Mismatches: 6, Indels: 33
0.72 0.04 0.24
Matches are distributed among these distances:
9 28 0.28
10 4 0.04
11 7 0.07
12 6 0.06
13 53 0.53
14 2 0.02
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:89736542 original size:22 final size:22
Alignment explanation
Indices: 89736517--89736627 Score: 152
Period size: 22 Copynumber: 4.9 Consensus size: 22
89736507 AAATATCTTT
89736517 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
89736539 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
89736561 ACTCCACTAAACCACTACACTAAACC
1 ACTCCACTAAACCACT-C-C--AACC
*
89736587 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
*
89736609 AC-CCTACTAAATCACTCCA
1 ACTCC-ACTAAACCACTCCA
89736628 TTAAACCACC
Statistics
Matches: 81, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
21 2 0.02
22 56 0.69
23 1 0.01
24 2 0.02
25 1 0.01
26 19 0.23
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:89736609 original size:35 final size:35
Alignment explanation
Indices: 89736517--89736651 Score: 157
Period size: 35 Copynumber: 3.9 Consensus size: 35
89736507 AAATATCTTT
*
89736517 ACTCCACTAAACCACTCCAACCACTCCACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCCACTAAACC
* ** ** *
89736552 ACTCCAACCACTCCA-CTAAACCACTACACTAAACC
1 ACTCC-ACTAAACCACCCCAACCACTCCACTAAACC
*
89736587 ACTCCACTAAACCACCCCAACCAC-CCTACTAAATC
1 ACTCCACTAAACCACCCCAACCACTCC-ACTAAACC
*
89736622 ACTCCATTAAACCACCCCAACCACTCCACT
1 ACTCCACTAAACCACCCCAACCACTCCACT
89736652 TGCCAACAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
34 7 0.09
35 66 0.81
36 8 0.10
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (35 bp):
ACTCCACTAAACCACCCCAACCACTCCACTAAACC
Found at i:89736927 original size:3 final size:3
Alignment explanation
Indices: 89736916--89736998 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
89736906 TTTATTTTTT
* *
89736916 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
89736959 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
89736999 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:89736973 original size:21 final size:18
Alignment explanation
Indices: 89736920--89737002 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
89736910 TTTTTTTTAT
* *
89736920 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
89736939 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
89736957 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
89736978 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
89736995 TTATATAT
1 TT-TATAT
89737003 GCCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:89737079 original size:3 final size:3
Alignment explanation
Indices: 89737073--89737123 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
89737063 TTCTGACTAC
*
89737073 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
89737121 TAT
1 TAT
89737124 CACCCCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:89737247 original size:16 final size:17
Alignment explanation
Indices: 89737221--89737262 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
89737211 ATATATTAGT
* *
89737221 GTATATTTTTATGTATA
1 GTATATATTTATATATA
89737238 -TATATATTTATATATA
1 GTATATATTTATATATA
89737254 GTAT-TATTT
1 GTATATATTT
89737263 TTTATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
GTATATATTTATATATA
Found at i:89745212 original size:51 final size:50
Alignment explanation
Indices: 89745037--89745237 Score: 260
Period size: 51 Copynumber: 3.9 Consensus size: 50
89745027 AACGGATACC
* * *
89745037 AGTGGCCTGCACATAGTACCACCCTTGTAGT-CAAAGCTACCTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTA-TTTATTCACAA
* * * *
89745088 AGTCGCCTTCACATAGTATCACACTTGTGACCAAAACTATCTTACTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTAT-TTA-TTCACAA
*
89745140 AGTGGCCTTCACATAGAACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT-TATTCACAA
*
89745191 AGTGGCTTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA-TTTATTC
89745238 CTAAGGTTCA
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
50 1 0.01
51 84 0.64
52 46 0.35
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTATTCACAA
Found at i:89745216 original size:103 final size:103
Alignment explanation
Indices: 89745037--89745230 Score: 275
Period size: 103 Copynumber: 1.9 Consensus size: 103
89745027 AACGGATACC
* *
89745037 AGTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTATTCACAAAGTCGCCTTCACAT
1 AGTGGCCTGCACATAGAACCACACTTGTAGTCAAAGCTACCTTATTCACAAAGTCGCCTTCACAT
*
89745102 AGTATCACACTTGTGACCAAAACTATCTTACTTCACAA
66 AGTACCACACTTGTGACCAAAACTATCTTACTTCACAA
* * * *
89745140 AGTGGCCTTCACATAGAACCACACTTGT-GTCCAAAGCTA-TTATATTCACAAAGTGGCTTTCAC
1 AGTGGCCTGCACATAGAACCACACTTGTAGT-CAAAGCTACCT-TATTCACAAAGTCGCCTTCAC
* *
89745203 ATAGTACCACACTTGTGTCCAAAGCTAT
64 ATAGTACCACACTTGTGACCAAAACTAT
89745231 TTTATTCCTA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 3 0.04
103 77 0.96
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (103 bp):
AGTGGCCTGCACATAGAACCACACTTGTAGTCAAAGCTACCTTATTCACAAAGTCGCCTTCACAT
AGTACCACACTTGTGACCAAAACTATCTTACTTCACAA
Found at i:89747182 original size:42 final size:42
Alignment explanation
Indices: 89747082--89747183 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
89747072 ATGTCCCAGC
* * *
89747082 TCGTGTGTCTAACCATGTAACTCACTGACTTGGCACACACGG
1 TCGTGTTTCAAACCATGTAACCCACTGACTTGGCACACACGG
* * * **
89747124 CCATG-TGCTAGCCCATGTAACCCACTGACTTGAG-ACACACGG
1 TCGTGTTTC-AAACCATGTAACCCACTGACTTG-GCACACACGG
89747166 TCGTGTTTCAAACCATGT
1 TCGTGTTTCAAACCATGT
89747184 CTCAGACCGT
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
41 1 0.02
42 40 0.91
43 3 0.07
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (42 bp):
TCGTGTTTCAAACCATGTAACCCACTGACTTGGCACACACGG
Found at i:89747546 original size:3 final size:3
Alignment explanation
Indices: 89747538--89747569 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
89747528 AAACTAACCA
89747538 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
89747570 CATTTTGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:89750582 original size:46 final size:46
Alignment explanation
Indices: 89750532--89750704 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
89750522 TGGTTGAGCA
89750532 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
89750578 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
89750623 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
89750671 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89750705 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89750688 original size:93 final size:93
Alignment explanation
Indices: 89750529--89750699 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
89750519 GGATGGTTGA
* *
89750529 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
89750594 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
89750622 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
89750687 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
89750700 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:89755624 original size:20 final size:21
Alignment explanation
Indices: 89755586--89755624 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
89755576 CTGTTTATCT
*
89755586 TTTATTAATTCTTTATTTGTG
1 TTTATTAATTCTATATTTGTG
*
89755607 TTTATT-ATTCTATGTTTG
1 TTTATTAATTCTATATTTG
89755625 ACTTAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (21 bp):
TTTATTAATTCTATATTTGTG
Found at i:89757113 original size:5 final size:5
Alignment explanation
Indices: 89757103--89757135 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
89757093 TCCATTTATT
89757103 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
89757136 TTGAAGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:89757136 original size:15 final size:15
Alignment explanation
Indices: 89757096--89757136 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
89757086 CTCTGAGTCC
89757096 ATTTATTTTTTATTTT
1 ATTTA-TTTTTATTTT
89757112 ATTT-TATTTTATTTT
1 ATTTAT-TTTTATTTT
89757127 ATTTATTTTT
1 ATTTATTTTT
89757137 TGAAGACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 17 0.74
16 5 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTATTTTTATTTT
Found at i:89762674 original size:25 final size:25
Alignment explanation
Indices: 89762636--89762683 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
89762626 TTGTAAATTA
89762636 GAAAAATATCTCTAGA-AATTTTTT
1 GAAAAATATCTCTAGAGAATTTTTT
*
89762660 GAAATAATCTCTCTAGAGAATTTT
1 GAAA-AATATCTCTAGAGAATTTT
89762684 CTCTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (25 bp):
GAAAAATATCTCTAGAGAATTTTTT
Found at i:89762987 original size:37 final size:37
Alignment explanation
Indices: 89762909--89762999 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 37
89762899 ATTAAATGAA
89762909 TATTAAGATAATCACTTTAATATTAAATTAATAAAATAC
1 TATTAAGATAAT-A-TTTAATATTAAATTAATAAAATAC
* *
89762948 TATTAAGATAAGTATTTAAT-TTAATTTAATATTAA-AC
1 TATTAAGATAA-TATTTAATATTAAATTAATA-AAATAC
*
89762985 TATTAAAATAATATT
1 TATTAAGATAATATT
89763000 ATTTTTGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 4 0.09
37 22 0.47
38 8 0.17
39 12 0.26
40 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (37 bp):
TATTAAGATAATATTTAATATTAAATTAATAAAATAC
Found at i:89767161 original size:20 final size:20
Alignment explanation
Indices: 89767106--89767162 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
89767096 AAAAAAAAAA
*
89767106 ATTGTTTCT-GTGTTTTGCT
1 ATTGTTTCTACTGTTTTGCT
* *
89767125 ATTGTTTCCACTATTTTGCT
1 ATTGTTTCTACTGTTTTGCT
* *
89767145 GTTGTTTCTATTGTTTTG
1 ATTGTTTCTACTGTTTTG
89767163 TTGCTGTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.61
Consensus pattern (20 bp):
ATTGTTTCTACTGTTTTGCT
Found at i:89767188 original size:20 final size:23
Alignment explanation
Indices: 89767136--89767189 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
89767126 TTGTTTCCAC
89767136 TATTTTGCTGTTGTTTCTATTGTT
1 TATTTTGCTG-TGTTTCTATTGTT
*
89767160 T-TGTTGCTGTGTTT-T-TT-TT
1 TATTTTGCTGTGTTTCTATTGTT
89767179 TATTTTGCTGT
1 TATTTTGCTGT
89767190 CATTTTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 10 0.37
21 1 0.04
22 5 0.19
23 7 0.26
24 1 0.04
ACGTcount: A:0.06, C:0.07, G:0.19, T:0.69
Consensus pattern (23 bp):
TATTTTGCTGTGTTTCTATTGTT
Found at i:89767431 original size:17 final size:19
Alignment explanation
Indices: 89767389--89767432 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
89767379 TCATATTTTT
*
89767389 TAAATTTATATTTATATAA
1 TAAATTAATATTTATATAA
89767408 -AAA-TAATA-TTATA-AA
1 TAAATTAATATTTATATAA
89767423 TAAATTAATA
1 TAAATTAATA
89767433 CGGGCGGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.09
16 8 0.36
17 9 0.41
18 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATTAATATTTATATAA
Found at i:89783126 original size:18 final size:18
Alignment explanation
Indices: 89783075--89783127 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
89783065 CCGGCACTTT
* *
89783075 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* * *
89783093 GTAACAATCATTTATTCA
1 ATAACAGTCAATTATTCA
89783111 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
89783128 CGTAGCAGTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:89783332 original size:48 final size:48
Alignment explanation
Indices: 89783265--89783373 Score: 164
Period size: 48 Copynumber: 2.3 Consensus size: 48
89783255 CCGTAAGTGT
** * *
89783265 AACAGTCTTAGTCATGGTACACAAAGTACCTCATCGGAACTAATCTGA
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGA
* *
89783313 AATAGTCACAGTCACGGTACACTAAGTACCTCATCGGAACGAATCTGA
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGA
89783361 AACAGTCACAGTC
1 AACAGTCACAGTC
89783374 TGGCGACACT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGA
Found at i:89784378 original size:21 final size:23
Alignment explanation
Indices: 89784325--89784379 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
89784315 TTCTCCCCTA
89784325 TTTTGTTTCTTCTCTGTTTCTTTC
1 TTTTGTTT-TTCTCTGTTTCTTTC
* * *
89784349 TATTCTTTTTCT-T-TTTCTTTG
1 TTTTGTTTTTCTCTGTTTCTTTC
89784370 TTTTGTTTTT
1 TTTTGTTTTT
89784380 TTTATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.58
22 1 0.04
23 4 0.15
24 6 0.23
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (23 bp):
TTTTGTTTTTCTCTGTTTCTTTC
Found at i:89784419 original size:11 final size:11
Alignment explanation
Indices: 89784394--89784435 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 11
89784384 TATATAATAA
89784394 TAATAATAA--
1 TAATAATAACT
89784403 TAATAATAACT
1 TAATAATAACT
89784414 TAATAATATACT
1 TAATAATA-ACT
89784426 TATATAATAA
1 TA-ATAATAA
89784436 GTAAATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
11 8 0.28
12 6 0.21
13 6 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAACT
Found at i:89784435 original size:3 final size:3
Alignment explanation
Indices: 89784387--89784421 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
89784377 TTTTTTATAT
89784387 ATA ATA ATA ATA ATA ATA ATA ATA ACTTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA
89784422 TACTTATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 27 0.90
5 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:89787279 original size:30 final size:30
Alignment explanation
Indices: 89787225--89787281 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
89787215 CACGACCATG
* *
89787225 ATACACGAGCGTGTGGCCTGCCCGTGTGTC
1 ATACACGAGCGTGTAGCCTACCCGTGTGTC
**
89787255 ATACACGAGCGTGTAGTTTACCCGTGT
1 ATACACGAGCGTGTAGCCTACCCGTGT
89787282 AAAAATGCCT
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:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (30 bp):
ATACACGAGCGTGTAGCCTACCCGTGTGTC
Found at i:89790720 original size:3 final size:3
Alignment explanation
Indices: 89790712--89790736 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
89790702 AATGCATAAC
89790712 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
89790737 CAAAACAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:89797048 original size:19 final size:19
Alignment explanation
Indices: 89797024--89797070 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
89797014 AATGTACTTG
89797024 TGTCTTTAAGTGACATTTA
1 TGTCTTTAAGTGACATTTA
*
89797043 TGTCTTTAAGTGACTTTTA
1 TGTCTTTAAGTGACATTTA
89797062 TGTCTTTAA
1 TGTCTTTAA
89797071 ATGTTGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (19 bp):
TGTCTTTAAGTGACATTTA
Found at i:89798701 original size:30 final size:29
Alignment explanation
Indices: 89798667--89798726 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
89798657 GATAATAATT
89798667 AAATAAGTA-TTCAAAATTTTTAAAATTTAA
1 AAATAAGTACTT-AAAA-TTTTAAAATTTAA
* *
89798697 AAATAATTACTTAATATTTTAAAATTTAA
1 AAATAAGTACTTAAAATTTTAAAATTTAA
89798726 A
1 A
89798727 TTTTGATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 14 0.52
30 11 0.41
31 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (29 bp):
AAATAAGTACTTAAAATTTTAAAATTTAA
Found at i:89800764 original size:74 final size:74
Alignment explanation
Indices: 89800643--89800791 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
89800633 TGAAGAAAAA
89800643 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
1 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
89800708 ATAAAAATT
66 ATAAAAATT
*
89800717 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTTAACTAAGTAAAATAAATAAATAAATA
1 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
89800782 ATAAAAATT
66 ATAAAAATT
89800791 T
1 T
89800792 CAACGCACGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (74 bp):
TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
ATAAAAATT
Found at i:89804500 original size:22 final size:22
Alignment explanation
Indices: 89804472--89804514 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
89804462 TATTTAACCC
89804472 AAATTAAATTAGATTA-AAATTA
1 AAATT-AATTAGATTATAAATTA
*
89804494 AAATTAATTATATTATAAATT
1 AAATTAATTAGATTATAAATT
89804515 GATACACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATTAATTAGATTATAAATTA
Found at i:89804678 original size:22 final size:22
Alignment explanation
Indices: 89804652--89804695 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
89804642 GAAAATAATC
*
89804652 AAAATGAA-TCAAAATTTATTAT
1 AAAATGAAGT-AAAATTCATTAT
*
89804674 AAAATTAAGTAAAATTCATTAT
1 AAAATGAAGTAAAATTCATTAT
89804696 GTTAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
AAAATGAAGTAAAATTCATTAT
Found at i:89804730 original size:27 final size:27
Alignment explanation
Indices: 89804678--89804731 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
89804668 TATTATAAAA
*
89804678 TTAAGTAAAATTCATTATGTTAATAAT
1 TTAAGTAAAATTAATTATGTTAATAAT
* *
89804705 TTAAGTACAATTTAATTAT-TTTATAAT
1 TTAAGTA-AAATTAATTATGTTAATAAT
89804732 AATTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (27 bp):
TTAAGTAAAATTAATTATGTTAATAAT
Found at i:89811963 original size:2 final size:2
Alignment explanation
Indices: 89811956--89811985 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89811946 ACGTGTGAAA
89811956 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
89811986 TGTGTGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:89811990 original size:2 final size:2
Alignment explanation
Indices: 89811985--89812015 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
89811975 GAGAGAGAGA
*
89811985 GT GT GT GT GT GT GT GT GT GT GT AT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
89812016 GTGAGACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.48, T:0.48
Consensus pattern (2 bp):
GT
Found at i:89815040 original size:18 final size:19
Alignment explanation
Indices: 89815007--89815042 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89814997 TAATTATCAA
*
89815007 TAAAATAAAAATAAATAAT
1 TAAAACAAAAATAAATAAT
89815026 TAAAACAAAAA-AAATAA
1 TAAAACAAAAATAAATAA
89815043 CTAATTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
TAAAACAAAAATAAATAAT
Found at i:89815073 original size:17 final size:17
Alignment explanation
Indices: 89815053--89815088 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
89815043 CTAATTTAGT
*
89815053 AATTGAACTTACGATAC
1 AATTGAACCTACGATAC
89815070 AATTGAACCTACGATAC
1 AATTGAACCTACGATAC
89815087 AA
1 AA
89815089 AATAAGTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (17 bp):
AATTGAACCTACGATAC
Found at i:89815118 original size:17 final size:17
Alignment explanation
Indices: 89815096--89815129 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89815086 CAAAATAAGT
89815096 CGTAGTGGTGAAGTTTA
1 CGTAGTGGTGAAGTTTA
89815113 CGTAGTGGTGAAGTTTA
1 CGTAGTGGTGAAGTTTA
89815130 TCTTTAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.35, T:0.35
Consensus pattern (17 bp):
CGTAGTGGTGAAGTTTA
Found at i:89817822 original size:68 final size:68
Alignment explanation
Indices: 89817673--89817800 Score: 175
Period size: 68 Copynumber: 1.9 Consensus size: 68
89817663 TAGCTAAGCT
* * * * * * *
89817673 ATGGTCTTAAACAATATGGTCCCATGTTTAATGTCCTGGCGAACTCCCTTTATTACCATATCCGA
1 ATGGTCTTACATATTATGGTCCCATATTGAACGTCCTGACGAACTCCCTTTATTACCATATCCGA
89817738 GTA
66 GTA
* *
89817741 ATGGTCTTACATATTATGGTCCCATATTGAACGTCCTGACGGACTCCCTTTGTTACCATA
1 ATGGTCTTACATATTATGGTCCCATATTGAACGTCCTGACGAACTCCCTTTATTACCATA
89817801 GTCGAGCTCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (68 bp):
ATGGTCTTACATATTATGGTCCCATATTGAACGTCCTGACGAACTCCCTTTATTACCATATCCGA
GTA
Found at i:89823824 original size:42 final size:42
Alignment explanation
Indices: 89823777--89823858 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
89823767 ATATATTTTT
* *
89823777 AAATTTTATAATAATTTATTTTCATAAATGAAACAACTATTG
1 AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTATTG
89823819 AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTAT
1 AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTAT
89823859 ATAATTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (42 bp):
AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTATTG
Found at i:89826437 original size:40 final size:40
Alignment explanation
Indices: 89826393--89826469 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
89826383 ACACATCATG
*
89826393 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* *
89826433 TGGGGATATAATCAACCCATCCAACCCTACACACCAA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAA
89826470 AAGGTACCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.35, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:89827113 original size:144 final size:145
Alignment explanation
Indices: 89826859--89827142 Score: 480
Period size: 144 Copynumber: 2.0 Consensus size: 145
89826849 CGCCCGTGTA
* *
89826859 GCCCACACGGCCCAACTTGTCTTTGCCCGTGTGGATCACACGGTTTGGACCAAAGTCCCACACGC
1 GCCCACACGGCCCAACTTGTATTTGCCCGTGTGGATCACACGGTCTGGACCAAAGTCCCACACGC
* * * *
89826924 CCGTGTGGCTTACCCACACGCCCGTGCGGCCTACACGGCCCAATTGGTCGAGCCTGTTCCTAGCA
66 CCGTGTAGCTTACCCACACGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCA
89826989 CACGGCCTCGTGTGG
131 CACGGCCTCGTGTGG
** *
89827004 GCCCACACGGCTGAACTTGTATTTGCCCGTGTGGATTACAC-GTCTGGACCAAAGTCCCACACGC
1 GCCCACACGGCCCAACTTGTATTTGCCCGTGTGGATCACACGGTCTGGACCAAAGTCCCACACGC
89827068 CCGTGTAGCTTACCCACACGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCA
66 CCGTGTAGCTTACCCACACGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCA
89827133 CACGGCCTCG
131 CACGGCCTCG
89827143 CCAGCCACAC
Statistics
Matches: 130, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
144 93 0.72
145 37 0.28
ACGTcount: A:0.18, C:0.37, G:0.25, T:0.20
Consensus pattern (145 bp):
GCCCACACGGCCCAACTTGTATTTGCCCGTGTGGATCACACGGTCTGGACCAAAGTCCCACACGC
CCGTGTAGCTTACCCACACGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCA
CACGGCCTCGTGTGG
Found at i:89833731 original size:38 final size:40
Alignment explanation
Indices: 89833689--89833783 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
89833679 CCATCTTCGA
* *
89833689 CCAACCCAACACACCATGTA-GG-GATAGAATCGACCCAC
1 CCAACCCAACACACCAAGTATGGAGATAGAATCAACCCAC
* * * *
89833727 CCAACCCTACACACTAAGTATGGAGATATAATCAACCCAT
1 CCAACCCAACACACCAAGTATGGAGATAGAATCAACCCAC
* *
89833767 CTAACCCCACACACCAA
1 CCAACCCAACACACCAA
89833784 AAGGTACCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
38 17 0.37
39 2 0.04
40 27 0.59
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.14
Consensus pattern (40 bp):
CCAACCCAACACACCAAGTATGGAGATAGAATCAACCCAC
Found at i:89834268 original size:21 final size:21
Alignment explanation
Indices: 89834244--89834283 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
89834234 ACACCCGTAT
89834244 GGCTAACCCACACGCTCATGC
1 GGCTAACCCACACGCTCATGC
*
89834265 GGCTCACCCACACGCTCAT
1 GGCTAACCCACACGCTCAT
89834284 ACGACCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.45, G:0.17, T:0.15
Consensus pattern (21 bp):
GGCTAACCCACACGCTCATGC
Found at i:89842298 original size:17 final size:18
Alignment explanation
Indices: 89842278--89842315 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
89842268 ACCTTAAACC
*
89842278 AAAAAA-TCATAAACCCT
1 AAAAAATTCAAAAACCCT
*
89842295 AAAAAATTTAAAAACCCT
1 AAAAAATTCAAAAACCCT
89842313 AAA
1 AAA
89842316 CCTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAAATTCAAAAACCCT
Found at i:89842319 original size:24 final size:25
Alignment explanation
Indices: 89842287--89842338 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
89842277 CAAAAAATCA
89842287 TAAACCCTAAAAA-ATTTAAAAACCC
1 TAAACCCTAAAAATA-TTAAAAACCC
*
89842312 TAAA-CCTAAAAATATTAAAAATCC
1 TAAACCCTAAAAATATTAAAAACCC
89842336 TAA
1 TAA
89842339 CCTTGGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (25 bp):
TAAACCCTAAAAATATTAAAAACCC
Found at i:89856248 original size:42 final size:42
Alignment explanation
Indices: 89856141--89856258 Score: 166
Period size: 43 Copynumber: 2.8 Consensus size: 42
89856131 ATACTAATGA
**
89856141 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGC
*
89856183 CGATAGCCCAGCA-ATGGTCTTACATGAAATCTCATATCGATGC
1 C-ATATCCCAG-ATATGGTCTTACATGAAATCTCATATCGATGC
* *
89856226 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCAGATATGGTCTTACATGAAATCTCA
89856259 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 28 0.42
43 37 0.55
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGC
Found at i:89875183 original size:25 final size:24
Alignment explanation
Indices: 89875137--89875237 Score: 82
Period size: 25 Copynumber: 4.2 Consensus size: 24
89875127 AAATGTTTTT
* * *
89875137 TTTAATTTATTAAATAATATATTA
1 TTTATTTTAATAATTAATATATTA
*
89875161 TTTATTTTAAGTAATTAATATATGA
1 TTTATTTTAA-TAATTAATATATTA
** * *
89875186 TTTAAATTATTAAAT-ATA-ATTA
1 TTTATTTTAATAATTAATATATTA
89875208 TTTATTTTAATAATTAA-ATTATTA
1 TTTATTTTAATAATTAATA-TATTA
89875232 TATTAT
1 T-TTAT
89875238 ATTCCATGAC
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
22 15 0.25
23 4 0.07
24 17 0.29
25 23 0.39
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTATTTTAATAATTAATATATTA
Found at i:89879294 original size:27 final size:27
Alignment explanation
Indices: 89879264--89879318 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
89879254 TTAAAAATAA
*
89879264 TTTTATAATTCTTTTTAAAACTTTTATT
1 TTTTATAAAT-TTTTTAAAACTTTTATT
* *
89879292 TTTTATAAATTTTTTAATATTTTTATT
1 TTTTATAAATTTTTTAAAACTTTTATT
89879319 GATGAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTATAAATTTTTTAAAACTTTTATT
Found at i:89883589 original size:23 final size:22
Alignment explanation
Indices: 89883551--89883606 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
89883541 TATAAAACCT
89883551 AATAAAAATAAGCTTAAAGA-AA
1 AATAAAAATAAGCTTAAA-ATAA
89883573 AATAAAAAGT-AGTCTTAAAATAA
1 AATAAAAA-TAAG-CTTAAAATAA
89883596 AATAAAAATAA
1 AATAAAAATAA
89883607 CAACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAAAAATAAGCTTAAAATAA
Found at i:89904567 original size:24 final size:26
Alignment explanation
Indices: 89904517--89904569 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
89904507 TTTTTGGAGA
*
89904517 AAAAAGGAGAGAGATTCGAATACAAG
1 AAAAAGGAGAGACATTCGAATACAAG
*
89904543 AAAAA-GAGAGACTTTC-AATACAAG
1 AAAAAGGAGAGACATTCGAATACAAG
89904567 AAA
1 AAA
89904570 TACACGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 9 0.36
26 5 0.20
ACGTcount: A:0.57, C:0.09, G:0.21, T:0.13
Consensus pattern (26 bp):
AAAAAGGAGAGACATTCGAATACAAG
Found at i:89904874 original size:3 final size:3
Alignment explanation
Indices: 89904866--89904919 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
89904856 AATATAGTTG
* * *
89904866 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTT TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89904914 TTA TTA
1 TTA TTA
89904920 CTCTTACTAT
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:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:89905268 original size:3 final size:3
Alignment explanation
Indices: 89905014--89905250 Score: 55
Period size: 3 Copynumber: 77.3 Consensus size: 3
89905004 TTTTACCTTT
* * * * *
89905014 TTA TTA CTA TTA TTA TTAA CCTA TTA TTA TTA TTT TTA TCA ATA -TA
1 TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * ** *
89905060 GTA TTA TT- TTC TT- TTT TTA -TA TTA TTA TAA TTA TTA GCA CGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * *
89905103 -TA TTA TTA TTAA TGTA TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT-
1 TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA
* * *
89905149 TTA TTA CTA TTG TT- TCTA TTA TTA TTA TT- TTCA TTA CTTCC TCTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA -TT-A T-TA
* * * *
89905194 TTA TTA TCA TTA TTT TCTA TTA TCA TTA ATA TGTCA TT- TGT- TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A TTA T-TA TTA TTA
89905241 TTA TTA TTA T
1 TTA TTA TTA T
89905251 CTTTAACACA
Statistics
Matches: 173, Mismatches: 35, Indels: 52
0.67 0.13 0.20
Matches are distributed among these distances:
2 19 0.11
3 126 0.73
4 23 0.13
5 5 0.03
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:89905308 original size:22 final size:24
Alignment explanation
Indices: 89905282--89905334 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
89905272 TATATTTACT
*
89905282 TTTTTTTAA-TATTATTACCATTA
1 TTTTTTAAATTATTATTACCATTA
*
89905305 TTTTTTAAAATTATTATTACTATTA
1 TTTTTT-AAATTATTATTACCATTA
89905330 TTTTT
1 TTTTT
89905335 ATTATCCGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 2 0.08
25 18 0.69
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTTAAATTATTATTACCATTA
Found at i:89905681 original size:125 final size:127
Alignment explanation
Indices: 89905499--89905760 Score: 338
Period size: 125 Copynumber: 2.1 Consensus size: 127
89905489 ATTTTTCAAG
*
89905499 TAAAGGCAATATTCAGTACTTGAAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCGATTTT
1 TAAAGGCAATATTCAGTACTTGAAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCAATTTT
* * * *
89905564 -TCGTTTGATCTAAGTAACCGATTATCC-TTTT-AAATTAAAATACATGAGTTTTAAATTAAA
66 CT-ATTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
* * *
89905624 TAAAGGCAATATTTC-GTA-TTTAGAAATTCGAGGAGTCGTG-CCTTAACGTACTGGGTTTCAAT
1 TAAAGGCAATA-TTCAGTACTTGA-AAATTCGAGAAATCGTGTCC-TAACGTACTGGGTTTCAAT
* * *
89905686 TTTCTATTTGATCTAAATATCCGAATATCCTTTTTAAAATTTACATACATGAGTTTTAAATGAAA
63 TTTCTATTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
89905751 TAGAAGGCAA
1 TA-AAGGCAA
89905761 GCTCATACTC
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
124 5 0.04
125 71 0.60
126 8 0.07
127 28 0.24
128 7 0.06
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (127 bp):
TAAAGGCAATATTCAGTACTTGAAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCAATTTT
CTATTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
Done.