Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 172 of 222
Found at i:55366433 original size:352 final size:352
Alignment explanation
Indices: 55365785--55366440 Score: 1118
Period size: 352 Copynumber: 1.9 Consensus size: 352
55365775 TCCCTCGGTT
*
55365785 GTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
*
55365850 CAATAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAATATTTCAGATCTTGTCTCCCTAAG
66 CAATAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
*
55365915 CAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAA
131 CAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
*
55365980 GCCAGTAATTCTACTTCCCTAGGCAGTAGCGGAATAGATTGAAGATTTCAAATCTTGTCTCCCTA
196 GCCAATAATTCTACTTCCCTAGGCAGTAGCGGAATAGATTGAAGATTTCAAATCTTGTCTCCCTA
55366045 AGCAGTAGCGGAGCAAATAAAAGATGGCAGATTTTACCTCCCTGGGCAGCAGCGGAATAGATTGA
261 AGCAGTAGCGGAGCAAATAAAAGATGGCAGATTTTACCTCCCTGGGCAGCAGCGGAATAGATTGA
55366110 AAATTTCAGATCTTGTCTCCCTAAGCA
326 AAATTTCAGATCTTGTCTCCCTAAGCA
*
55366137 GTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * * *
55366202 CAGTAATTCTACTTCCTTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66 CAATAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
**
55366267 CAGTAGTGGAGCAGATCAAAGATG-GTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGA
131 CAGTAGTGGAGCAGATCAAAGATGACAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGA
* * *
55366331 AGCCAATAATTCTACTTCCCTGGGTAGTAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCT
195 AGCCAATAATTCTACTTCCCTAGGCAGTAGCGGAATAGATTGAAGATTTCAAATCTTGTCTCCCT
* * * *
55366396 AAGCAGTAGTGGAGCAGATCAAAGATGG-TGAATTTTACCTCCCTG
260 AAGCAGTAGCGGAGCAAATAAAAGATGGCAG-ATTTTACCTCCCTG
55366441 TGGTTACAGT
Statistics
Matches: 284, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
351 2 0.01
352 282 0.99
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (352 bp):
GTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
CAATAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
GCCAATAATTCTACTTCCCTAGGCAGTAGCGGAATAGATTGAAGATTTCAAATCTTGTCTCCCTA
AGCAGTAGCGGAGCAAATAAAAGATGGCAGATTTTACCTCCCTGGGCAGCAGCGGAATAGATTGA
AAATTTCAGATCTTGTCTCCCTAAGCA
Found at i:55366472 original size:264 final size:264
Alignment explanation
Indices: 55366083--55366727 Score: 1047
Period size: 264 Copynumber: 2.5 Consensus size: 264
55366073 AGATTTTACC
*
55366083 TCCCTGGGCAGCAGCGGAATAGATTGAAAATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCA
1 TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCA
55366148 GATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
66 GATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
* * *
55366213 CTTCCTTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAG
131 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAG
*
55366278 CAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTC
196 CAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTC
55366343 TACT-
261 TA-TA
* *
55366347 TCCCTGGGTAGTAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCA
1 TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCA
*
55366412 GATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCAGTAATTCTA
66 GATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
*
55366477 CTTCCCTGGGCAGCAGTGGAATAGATTGAGGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAG
131 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAG
* *
55366542 CAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTC
196 CAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTC
55366607 TATA
261 TATA
* * * *
55366611 TCCCTGGGCAGCAGTGGAATAGATTAAAGA-TT---A-C--ATATCCCTAAGCAGTAGTGGAGCA
1 TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCA
* * *
55366669 GATCAATGATGG-CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
66 GATCAAAGATGGTGA-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
55366728 TTCCTATCTT
Statistics
Matches: 358, Mismatches: 21, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
256 1 0.00
257 75 0.21
259 1 0.00
260 1 0.00
263 3 0.01
264 277 0.77
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (264 bp):
TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCA
GATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAG
CAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTC
TATA
Found at i:55367602 original size:12 final size:11
Alignment explanation
Indices: 55367583--55367622 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
55367573 ATCGAGACTA
55367583 TTTTTTTATTT
1 TTTTTTTATTT
55367594 TTCTTTTTATTT
1 TT-TTTTTATTT
55367606 TATTTTTTATTT
1 T-TTTTTTATTT
55367618 TTTTT
1 TTTTT
55367623 ATTTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.22
12 20 0.74
13 1 0.04
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:55367608 original size:17 final size:16
Alignment explanation
Indices: 55367583--55367626 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
55367573 ATCGAGACTA
55367583 TTTTTTTATTTTTCT-T
1 TTTTTTTATTTTT-TAT
55367599 TTTATTTTATTTTTTAT
1 TTT-TTTTATTTTTTAT
55367616 TTTTTTTATTT
1 TTTTTTTATTT
55367627 ATAATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTATTTTTTAT
Found at i:55368347 original size:24 final size:24
Alignment explanation
Indices: 55368276--55368355 Score: 90
Period size: 26 Copynumber: 3.3 Consensus size: 24
55368266 TTTTACATAA
* * *
55368276 TATATATACATTTTTTTCATATAG
1 TATATATGCATATTTTTAATATAG
* *
55368300 TACATACGCATATTTTTTATATATAG
1 TATATATGCATA-TTTTTA-ATATAG
55368326 TATATATGCATATTTTTAATATA-
1 TATATATGCATATTTTTAATATAG
55368349 TATATAT
1 TATATAT
55368356 TAAGCTTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 7 0.15
24 13 0.28
25 11 0.23
26 16 0.34
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.51
Consensus pattern (24 bp):
TATATATGCATATTTTTAATATAG
Found at i:55372065 original size:33 final size:33
Alignment explanation
Indices: 55372023--55372087 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
55372013 GGTTGAGAAG
*
55372023 ATTTGATCCAAGTTATGTAATTGGGATGCGAAT
1 ATTTGATCCAAATTATGTAATTGGGATGCGAAT
55372056 ATTTGATCCAAATTATGTAATTGGGATGCGAA
1 ATTTGATCCAAATTATGTAATTGGGATGCGAA
55372088 ACAGCTCTCC
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:0.32, C:0.09, G:0.23, T:0.35
Consensus pattern (33 bp):
ATTTGATCCAAATTATGTAATTGGGATGCGAAT
Found at i:55373569 original size:15 final size:15
Alignment explanation
Indices: 55373539--55373584 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
55373529 ATAATGTAAA
55373539 TTCAATACTTGATTTT
1 TTCAATACTT-ATTTT
*
55373555 TT-AGTACTTATTTT
1 TTCAATACTTATTTT
*
55373569 TTCAATGCTTATTTT
1 TTCAATACTTATTTT
55373584 T
1 T
55373585 CATCATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 7 0.27
15 17 0.65
16 2 0.08
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.61
Consensus pattern (15 bp):
TTCAATACTTATTTT
Found at i:55373783 original size:18 final size:18
Alignment explanation
Indices: 55373762--55373806 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
55373752 AAATTCAAAC
*
55373762 TAACAATAATCTAA-ATT
1 TAACAATAAACTAACATT
55373779 ATAACAATAAACTAACATT
1 -TAACAATAAACTAACATT
55373798 TAA-AATAAA
1 TAACAATAAA
55373807 AAATTTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 16 0.64
19 3 0.12
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAATAAACTAACATT
Found at i:55374223 original size:19 final size:19
Alignment explanation
Indices: 55374199--55374239 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
55374189 GAGAAGCTGT
55374199 TGGAAGAATGAAAAGAATG
1 TGGAAGAATGAAAAGAATG
*
55374218 TGGAAGAATGGAAAGAATG
1 TGGAAGAATGAAAAGAATG
55374237 TGG
1 TGG
55374240 CTTTATATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (19 bp):
TGGAAGAATGAAAAGAATG
Found at i:55374587 original size:32 final size:29
Alignment explanation
Indices: 55374540--55374610 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 29
55374530 TGCCAACTTC
55374540 AAAAGTTATACTTAAATTCATTAAATTATTA
1 AAAAGTTATACTTAAATT-ATTAAATT-TTA
* * *
55374571 ATAAATTTATATTTAAATTATTTAATTTTA
1 A-AAAGTTATACTTAAATTATTAAATTTTA
55374601 AAAAGTTATA
1 AAAAGTTATA
55374611 AAATAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 8 0.23
30 4 0.11
31 8 0.23
32 15 0.43
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (29 bp):
AAAAGTTATACTTAAATTATTAAATTTTA
Found at i:55376795 original size:18 final size:17
Alignment explanation
Indices: 55376762--55376800 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55376752 TTGTATAAAT
55376762 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55376780 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55376797 TGTG
1 TGTG
55376801 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55377053 original size:23 final size:23
Alignment explanation
Indices: 55377026--55377123 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55377016 AGTGTTATTG
55377026 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55377049 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55377072 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55377094 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55377117 ATCAGTG
1 ATCAGTG
55377124 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55377092 original size:45 final size:45
Alignment explanation
Indices: 55377028--55377116 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55377018 TGTTATTGAT
* *
55377028 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55377073 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55377117 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55383692 original size:18 final size:17
Alignment explanation
Indices: 55383659--55383697 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55383649 TTGTATAAAT
55383659 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55383677 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55383694 TGTG
1 TGTG
55383698 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55383950 original size:23 final size:23
Alignment explanation
Indices: 55383923--55384020 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55383913 AGTGTTATTG
55383923 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55383946 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55383969 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55383991 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55384014 ATCAGTG
1 ATCAGTG
55384021 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55383989 original size:45 final size:45
Alignment explanation
Indices: 55383925--55384013 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55383915 TGTTATTGAT
* *
55383925 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55383970 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55384014 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55390576 original size:18 final size:17
Alignment explanation
Indices: 55390543--55390581 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55390533 TTGTATAAAT
55390543 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55390561 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55390578 TGTG
1 TGTG
55390582 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55390834 original size:23 final size:23
Alignment explanation
Indices: 55390807--55390904 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55390797 AGTGTTATTG
55390807 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55390830 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55390853 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55390875 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55390898 ATCAGTG
1 ATCAGTG
55390905 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55390873 original size:45 final size:45
Alignment explanation
Indices: 55390809--55390897 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55390799 TGTTATTGAT
* *
55390809 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55390854 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55390898 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55395203 original size:17 final size:18
Alignment explanation
Indices: 55395170--55395204 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
55395160 AAGATGGTTG
55395170 GAATTGTTGAAAGATTAT
1 GAATTGTTGAAAGATTAT
*
55395188 GAATTG-TGATAGATTAT
1 GAATTGTTGAAAGATTAT
55395205 CATCCGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (18 bp):
GAATTGTTGAAAGATTAT
Found at i:55397167 original size:18 final size:17
Alignment explanation
Indices: 55397134--55397172 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55397124 TTGTATAAAT
55397134 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55397152 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55397169 TGTG
1 TGTG
55397173 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55397423 original size:23 final size:23
Alignment explanation
Indices: 55397396--55397493 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55397386 AGTGTTATTG
55397396 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55397419 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55397442 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55397464 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55397487 ATCAGTG
1 ATCAGTG
55397494 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55397462 original size:45 final size:45
Alignment explanation
Indices: 55397398--55397486 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55397388 TGTTATTGAT
* *
55397398 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55397443 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55397487 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55414467 original size:18 final size:17
Alignment explanation
Indices: 55414434--55414472 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55414424 TTGTATAAAT
55414434 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55414452 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55414469 TGTG
1 TGTG
55414473 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55414725 original size:23 final size:23
Alignment explanation
Indices: 55414698--55414796 Score: 164
Period size: 23 Copynumber: 4.3 Consensus size: 23
55414688 AGTGTTATTG
55414698 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55414721 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55414744 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55414766 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55414789 ATCAGTGG
1 ATCAGTGG
55414797 CACTTATGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
22 20 0.29
23 50 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55414764 original size:45 final size:45
Alignment explanation
Indices: 55414700--55414788 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55414690 TGTTATTGAT
* *
55414700 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55414745 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55414789 ATCAGTGGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55420916 original size:1 final size:1
Alignment explanation
Indices: 55420905--55420984 Score: 151
Period size: 1 Copynumber: 80.0 Consensus size: 1
55420895 TGATTAAATG
*
55420905 AAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
55420970 AAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAA
55420985 GTTGGGAAAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.99, C:0.00, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:55421173 original size:18 final size:17
Alignment explanation
Indices: 55421140--55421178 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55421130 TTGTATAAAT
55421140 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55421158 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55421175 TGTG
1 TGTG
55421179 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55421431 original size:23 final size:23
Alignment explanation
Indices: 55421404--55421501 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55421394 AGTGTTATTG
55421404 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55421427 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55421450 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55421472 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55421495 ATCAGTG
1 ATCAGTG
55421502 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55421470 original size:45 final size:45
Alignment explanation
Indices: 55421406--55421494 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55421396 TGTTATTGAT
* *
55421406 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55421451 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55421495 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55428064 original size:18 final size:17
Alignment explanation
Indices: 55428031--55428069 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55428021 TTGTATAAAT
55428031 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55428049 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55428066 TGTG
1 TGTG
55428070 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55428322 original size:23 final size:23
Alignment explanation
Indices: 55428295--55428392 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55428285 AGTGTTATTG
55428295 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55428318 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55428341 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55428363 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55428386 ATCAGTG
1 ATCAGTG
55428393 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55428361 original size:45 final size:45
Alignment explanation
Indices: 55428297--55428385 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55428287 TGTTATTGAT
* *
55428297 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55428342 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55428386 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55434962 original size:18 final size:17
Alignment explanation
Indices: 55434929--55434967 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55434919 TTGTATAAAT
55434929 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55434947 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55434964 TGTG
1 TGTG
55434968 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55435220 original size:23 final size:23
Alignment explanation
Indices: 55435193--55435290 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55435183 AGTGTTATTG
55435193 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55435216 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55435239 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55435261 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55435284 ATCAGTG
1 ATCAGTG
55435291 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55435259 original size:45 final size:45
Alignment explanation
Indices: 55435195--55435283 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55435185 TGTTATTGAT
* *
55435195 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55435240 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55435284 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55438179 original size:28 final size:27
Alignment explanation
Indices: 55438142--55438212 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
55438132 CTAGCTTGCT
* **
55438142 AAACAAACTGGAGAAACTCCAACTTGCC
1 AAACAGACTGGAG-AACTCCAACTCACC
* * *
55438170 AAATAGACTGGCGAACTCCAGCTCACC
1 AAACAGACTGGAGAACTCCAACTCACC
*
55438197 AAACAGACTGGCGAAC
1 AAACAGACTGGAGAAC
55438213 CTGGCTTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 26 0.72
28 10 0.28
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.13
Consensus pattern (27 bp):
AAACAGACTGGAGAACTCCAACTCACC
Found at i:55439238 original size:10 final size:9
Alignment explanation
Indices: 55439223--55439275 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
55439213 CCAAGGTAAG
55439223 AAAAAAATGA
1 AAAAAAAT-A
55439233 AAAAAAATA
1 AAAAAAATA
*
55439242 AGGAAAAATA
1 A-AAAAAATA
*
55439252 AAAAAAAAA
1 AAAAAAATA
*
55439261 AAGAAAAAGA
1 AA-AAAAATA
55439271 AAAAA
1 AAAAA
55439276 GATGTACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 13 0.35
10 24 0.65
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (9 bp):
AAAAAAATA
Found at i:55439250 original size:20 final size:20
Alignment explanation
Indices: 55439225--55439275 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
55439215 AAGGTAAGAA
* *
55439225 AAAAATGAAAAAAAATAAGG
1 AAAAATGAAAAAAAAAAAAG
55439245 AAAAAT-AAAAAAAAAAAAG
1 AAAAATGAAAAAAAAAAAAG
55439264 AAAAA-GAAAAAA
1 AAAAATGAAAAAA
55439276 GATGTACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (20 bp):
AAAAATGAAAAAAAAAAAAG
Found at i:55439276 original size:13 final size:13
Alignment explanation
Indices: 55439225--55439277 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
55439215 AAGGTAAGAA
55439225 AAAAATGAAAAAA-
1 AAAAA-GAAAAAAG
* * *
55439238 AATAAGGAAAAAT
1 AAAAAGAAAAAAG
*
55439251 AAAAAAAAAAAAG
1 AAAAAGAAAAAAG
55439264 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
55439277 A
1 A
55439278 TGTACAAAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
12 6 0.19
13 26 0.81
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:55452554 original size:38 final size:39
Alignment explanation
Indices: 55452435--55452558 Score: 151
Period size: 39 Copynumber: 3.2 Consensus size: 39
55452425 AGTACTAAAA
* * ** *
55452435 TACAACAGGGGCACGTAGGTGCGTTCAGGGGTACCAAAG
1 TACAACAGGGGCACGAAAGTGCAATCAGGGGTACCGAAG
* * *
55452474 TATAACAGGGGCACGTAAGTGCAATTAGGGGTACCGAAG
1 TACAACAGGGGCACGAAAGTGCAATCAGGGGTACCGAAG
* *
55452513 TACAACAGGGGCATGAAAGTGCAATCA-TGGTACCGAAG
1 TACAACAGGGGCACGAAAGTGCAATCAGGGGTACCGAAG
55452551 TACAACAG
1 TACAACAG
55452559 TTTTCTACTA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 18 0.24
39 56 0.76
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (39 bp):
TACAACAGGGGCACGAAAGTGCAATCAGGGGTACCGAAG
Found at i:55453473 original size:16 final size:17
Alignment explanation
Indices: 55453451--55453489 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
55453441 TTGATTTTAA
55453451 ATTTTATT-TTATGTTAT
1 ATTTTATTGTTA-GTTAT
55453468 -TTTTATTGTTAGTTAT
1 ATTTTATTGTTAGTTAT
55453484 ATTTTA
1 ATTTTA
55453490 GGATTTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (17 bp):
ATTTTATTGTTAGTTAT
Found at i:55470838 original size:4 final size:4
Alignment explanation
Indices: 55470816--55470849 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
55470806 ACAATGGAAT
*
55470816 ATAA ATAA TATAA ACAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA A
55470850 AACAAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:55470852 original size:22 final size:21
Alignment explanation
Indices: 55470816--55470862 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
55470806 ACAATGGAAT
*
55470816 ATAAATAATATAAACAAATAA
1 ATAAATAATAAAAACAAATAA
*
55470837 ATAAATAAATAAAAACAAATCA
1 ATAAAT-AATAAAAACAAATAA
55470859 ATAA
1 ATAA
55470863 CATGCAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (21 bp):
ATAAATAATAAAAACAAATAA
Found at i:55471015 original size:25 final size:26
Alignment explanation
Indices: 55470987--55471055 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
55470977 AAAAGGGTAC
*
55470987 AAAA-TATATACATGTACATATATAAA
1 AAAATTATATACATATACAT-TATAAA
* *
55471013 AAAATTATATAGATATATATTATAAA
1 AAAATTATATACATATACATTATAAA
*
55471039 AAAGATAAT-TACATATA
1 AAA-ATTATATACATATA
55471056 TATAAACAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 20 0.56
27 16 0.44
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATTATATACATATACATTATAAA
Found at i:55471124 original size:24 final size:24
Alignment explanation
Indices: 55471096--55471145 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55471086 AAAATTAATT
55471096 AATTTA-GAAAAATATATATAAAAA
1 AATTTATGAAAAATA-ATATAAAAA
* *
55471120 AATTTATGAAGAATAATATAAGAA
1 AATTTATGAAAAATAATATAAAAA
55471144 AA
1 AA
55471146 CATACGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (24 bp):
AATTTATGAAAAATAATATAAAAA
Found at i:55471243 original size:17 final size:17
Alignment explanation
Indices: 55471223--55471266 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
55471213 GGAAATAAAA
55471223 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
55471240 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
55471257 -ATATGTATAT
1 AAAATGTATAT
55471267 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:55471393 original size:3 final size:3
Alignment explanation
Indices: 55471385--55471420 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
55471375 GTATATATAG
* *
55471385 TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
55471421 CTTAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:55471456 original size:7 final size:7
Alignment explanation
Indices: 55471444--55471474 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
55471434 AAATCAAATT
55471444 TAATAAA
1 TAATAAA
55471451 TAATAAA
1 TAATAAA
55471458 TAATAAA
1 TAATAAA
55471465 TAATAAA
1 TAATAAA
55471472 TAA
1 TAA
55471475 AAAAACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:55471737 original size:21 final size:21
Alignment explanation
Indices: 55471688--55471785 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
55471678 AAATTAAATC
*
55471688 TCTAAGATTACA-AAATCATATA
1 TCTAAGATTGCATAAATC--ATA
55471710 TTCTAAGATTGCATAAATCATA
1 -TCTAAGATTGCATAAATCATA
*
55471732 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
55471753 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
* *
55471772 TATAAGATTACATA
1 TCTAAGATTGCATA
55471786 TCCTTGAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.25
21 33 0.48
22 3 0.04
23 11 0.16
24 5 0.07
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:55472251 original size:128 final size:128
Alignment explanation
Indices: 55472071--55472322 Score: 285
Period size: 128 Copynumber: 2.0 Consensus size: 128
55472061 AGATGAATTT
* * * *
55472071 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * * * *
55472136 GCCTT-AGGGAGATAGGATTTGTTTA-TTTAGTCTGCTCCACTGGAACTTCAGAGAGATAAGACT
66 -ACTTCAGGGAGATAGGA-TT-ATCACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT
55472199 A
128 A
* * ** * * * *
55472200 GATGCGTTCTGCTCT-CTGCAACTTCAGAGAGATAAGATCGAAGGTTTTAATCCGCTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
*
55472264 ACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
66 ACTTCAGGGAGATAGGATTATCA-CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
55472323 AATTTGCCAT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
126 2 0.02
127 5 0.05
128 81 0.79
129 14 0.14
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (128 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAGGGAGATAGGATTATCACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTA
Found at i:55472695 original size:44 final size:44
Alignment explanation
Indices: 55472637--55473004 Score: 358
Period size: 44 Copynumber: 8.5 Consensus size: 44
55472627 CCACCTACTG
* *
55472637 CACTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTC
1 CACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * *
55472681 TACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTC
1 CACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCAACCTATTC
* * * * * * *
55472725 CACTACTGCCCAGAGAGATAGAATTCTCAATTTTCAACCTATTT
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * *
55472769 CATTGCAGACCAGGGAGATAGGATTCACAATCTTTAACCTATTC
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * *
55472813 CACTGCTGTCCATGGAGATAGGATT--C--T-TT-AATCTATTC
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * *
55472851 CACTGCTG-CCTAGGGAGATAGAATTCTCAATCTTCAACATATTC
1 CACTGCTGACC-AGGGAGATAGGATTCACAATCTTCAACCTATTC
* * *
55472895 CATTGCTAACCAGGGAGATAGGATTCACAATCTTTAACCTATTC
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * * * * * *
55472939 CACTGTTGTCTAGGGAGATAGGATTCACAATTTTTAACTTATTT
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
*
55472983 CACTGCTGACCAGGGACATAGG
1 CACTGCTGACCAGGGAGATAGG
55473005 GCAAGGGTCA
Statistics
Matches: 261, Mismatches: 52, Indels: 22
0.78 0.16 0.07
Matches are distributed among these distances:
37 2 0.01
38 28 0.11
39 2 0.01
40 2 0.01
42 2 0.01
43 3 0.01
44 218 0.84
45 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
Found at i:55472850 original size:38 final size:38
Alignment explanation
Indices: 55472799--55472877 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
55472789 GGATTCACAA
* *
55472799 TCTTTAACCTATTCCACTGCTGTCC-ATGGAGATAGGAT
1 TCTTTAACCTATTCCACTGCTG-CCTAGGGAGATAGAAT
*
55472837 TCTTTAATCTATTCCACTGCTGCCTAGGGAGATAGAAT
1 TCTTTAACCTATTCCACTGCTGCCTAGGGAGATAGAAT
55472875 TCT
1 TCT
55472878 CAATCTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 2 0.05
38 35 0.95
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTGCTGCCTAGGGAGATAGAAT
Found at i:55472868 original size:170 final size:170
Alignment explanation
Indices: 55472675--55473004 Score: 398
Period size: 170 Copynumber: 1.9 Consensus size: 170
55472665 GATCTTCAAC
* * **
55472675 CTATTCTACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATC-TATTCCACTACTGCCCAG
1 CTATTCCACTGCTGACCAGGGAGATAGAATCCT-CAATCTTCAA-CATATTCCACTACTAACCAG
* * *
55472738 AGAGATAGAATTCTCAAT-TTTCAACCTATTTCATTGCAGACCAGGGAGATAGGATTCACAATCT
64 AGAGATAGAATTCACAATCTTT-AACCTATTCCACTGCAGACCAGGGAGATAGGATTCACAATCT
* * *
55472802 TTAACCTATTCCACTGCTGTCCATGGAGATAGGATTCTTTAAT
128 TTAACCTATTCCACTGCTGACCAGGGACATAGGATTCTTTAAT
* * * *
55472845 CTATTCCACTGCTG-CCTAGGGAGATAGAATTCTCAATCTTCAACATATTCCATTGCTAACCAGG
1 CTATTCCACTGCTGACC-AGGGAGATAGAATCCTCAATCTTCAACATATTCCACTACTAACCAGA
* ** * * *
55472909 GAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGTCTAGGGAGATAGGATTCACAATTTTT
65 GAGATAGAATTCACAATCTTTAACCTATTCCACTGCAGACCAGGGAGATAGGATTCACAATCTTT
* *
55472974 AACTTATTTCACTGCTGACCAGGGACATAGG
130 AACCTATTCCACTGCTGACCAGGGACATAGG
55473005 GCAAGGGTCA
Statistics
Matches: 134, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
169 3 0.02
170 126 0.94
171 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (170 bp):
CTATTCCACTGCTGACCAGGGAGATAGAATCCTCAATCTTCAACATATTCCACTACTAACCAGAG
AGATAGAATTCACAATCTTTAACCTATTCCACTGCAGACCAGGGAGATAGGATTCACAATCTTTA
ACCTATTCCACTGCTGACCAGGGACATAGGATTCTTTAAT
Found at i:55472907 original size:126 final size:126
Alignment explanation
Indices: 55472647--55472964 Score: 431
Period size: 126 Copynumber: 2.5 Consensus size: 126
55472637 CACTGCTGCT
* * * * *
55472647 CAGGGAGATAGGGTTCACGATCTTCAACCTATTCTACTGCTGACCAGGGAGATAGGACCTACAAT
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGA--T----T
* * *
55472712 CTTCAATCTATTCCACTACTGCCCAGAGAGATAGAATTCTCAATTTTCAACCTATTTCATTGCAG
60 CTTCAATCTATTCCACTACTGCCCAGAGAGATAGAATTCTCAATCTTCAACATATTCCATTGCAG
55472777 AC
125 AC
* *
55472779 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCATGGAGATAGGATTCTTTAA
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTCAA
* * *
55472844 TCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATCTTCAACATATTCCATTGCTA-AC
66 TCTATTCCACTACTGCCCAGAGAGATAGAATTCTCAATCTTCAACATATTCCATTGC-AGAC
* *
55472905 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGTCTAGGGAGATAGGATTC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTC
55472965 ACAATTTTTA
Statistics
Matches: 169, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
126 116 0.69
127 1 0.01
130 1 0.01
132 51 0.30
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (126 bp):
CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTCAA
TCTATTCCACTACTGCCCAGAGAGATAGAATTCTCAATCTTCAACATATTCCATTGCAGAC
Found at i:55473132 original size:88 final size:88
Alignment explanation
Indices: 55473018--55473326 Score: 528
Period size: 88 Copynumber: 3.5 Consensus size: 88
55473008 AGGGTCATCA
* * *
55473018 ATCTGCTTTGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
*
55473083 TGGAGGCAAGGCTGGTGTCTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * * *
55473106 ATTTGATTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCTGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
*
55473171 GGGAGGCAAGGCTGGTATCTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
*
55473194 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCTA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
55473259 GGGAGGCAAGGCTGGTGTCTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
55473282 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
55473327 CTGATCTGCT
Statistics
Matches: 206, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 206 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
GGGAGGCAAGGCTGGTGTCTTCG
Found at i:55473294 original size:43 final size:42
Alignment explanation
Indices: 55473160--55473294 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
55473150 AACCTGCTCT
55473160 GCTGCAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTC
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTC
*** * * * * ** * *
55473203 GCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCC
1 GCTG-C-AACCAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTC
*
55473248 GCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC
1 GCTGCAACC-AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTC
55473291 GCTG
1 GCTG
55473295 TCGGTGCAGG
Statistics
Matches: 65, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 23 0.35
44 23 0.35
45 19 0.29
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (42 bp):
GCTGCAACCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTC
Found at i:55473310 original size:44 final size:44
Alignment explanation
Indices: 55473086--55473312 Score: 147
Period size: 44 Copynumber: 5.2 Consensus size: 44
55473076 CAACCCATGG
* * *
55473086 AGGCAAGGCTGGTGTCTTCGATTTGATTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* ** * ** * **** *
55473130 AGGCAAGATCTACTATTTTTAACCTGC-TCTGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGCTTC-GCTGTCGGTGCAGGA
55473174 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * * ** * * *** *
55473218 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-C-AACCTAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCGGTGC-AGGA
*
55473262 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGA
55473306 AGGCAAG
1 AGGCAAG
55473313 ATCTGCTATT
Statistics
Matches: 125, Mismatches: 50, Indels: 16
0.65 0.26 0.08
Matches are distributed among these distances:
43 35 0.28
44 57 0.46
45 33 0.26
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.27
Consensus pattern (44 bp):
AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGA
Found at i:55479534 original size:22 final size:21
Alignment explanation
Indices: 55479500--55479544 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
55479490 AATGGAATAA
*
55479500 AAATAATATAAACAAATAAAT
1 AAATAATAAAAACAAATAAAT
*
55479521 AAATAAATAAAAACAAATCAAT
1 AAAT-AATAAAAACAAATAAAT
55479543 AA
1 AA
55479545 CATGCAAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAATAAAAACAAATAAAT
Found at i:55479703 original size:27 final size:26
Alignment explanation
Indices: 55479647--55479705 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
55479637 AAAATGGTAC
* *
55479647 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
55479673 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
55479702 AAAA
1 AAAA
55479706 GAGAATTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 15 0.56
28 2 0.07
29 6 0.22
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:55479790 original size:23 final size:24
Alignment explanation
Indices: 55479762--55479810 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
55479752 AAAATTAATT
55479762 AATTTA-GAAAAATATATATAA-AA
1 AATTTATGAAAAATA-ATATAAGAA
*
55479785 AATTTATGAAGAATAATATAAGAA
1 AATTTATGAAAAATAATATAAGAA
55479809 AA
1 AA
55479811 CATACGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
AATTTATGAAAAATAATATAAGAA
Found at i:55479908 original size:17 final size:17
Alignment explanation
Indices: 55479886--55479929 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
55479876 TAGGAAATAA
55479886 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
55479903 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
55479920 -ATATGTATAT
1 AAAATGTATAT
55479930 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:55480065 original size:3 final size:3
Alignment explanation
Indices: 55480057--55480098 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
55480047 GTATATATAG
* *
55480057 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
55480099 CTTAATAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:55480442 original size:23 final size:24
Alignment explanation
Indices: 55480414--55480458 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
55480404 AAATTAAATC
55480414 TCTAAGATTACA-AAATCATATAT
1 TCTAAGATTACATAAATCATATAT
*
55480437 TCTAAGATTGCATAAATCATAT
1 TCTAAGATTACATAAATCATAT
55480459 CTAAGATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATAT
Found at i:55480463 original size:21 final size:21
Alignment explanation
Indices: 55480414--55480511 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
55480404 AAATTAAATC
*
55480414 TCTAAGATTACA-AAATCATATA
1 TCTAAGATTGCATAAATC--ATA
55480436 TTCTAAGATTGCATAAATCATA
1 -TCTAAGATTGCATAAATCATA
**
55480458 TCTAAGATTGCATTTATCATA
1 TCTAAGATTGCATAAATCATA
55480479 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
*
55480498 TCTAAGATTACATA
1 TCTAAGATTGCATA
55480512 TCCTTGAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.26
21 32 0.46
22 3 0.04
23 11 0.16
24 5 0.07
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:55483579 original size:54 final size:54
Alignment explanation
Indices: 55483516--55483628 Score: 226
Period size: 54 Copynumber: 2.1 Consensus size: 54
55483506 TTTACTTATC
55483516 TAAATTGTGATTAAATGGTAAGTTAAATTCTATGTTATACGAACTTACTAAGCT
1 TAAATTGTGATTAAATGGTAAGTTAAATTCTATGTTATACGAACTTACTAAGCT
55483570 TAAATTGTGATTAAATGGTAAGTTAAATTCTATGTTATACGAACTTACTAAGCT
1 TAAATTGTGATTAAATGGTAAGTTAAATTCTATGTTATACGAACTTACTAAGCT
55483624 TAAAT
1 TAAAT
55483629 GCCTAGTCTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (54 bp):
TAAATTGTGATTAAATGGTAAGTTAAATTCTATGTTATACGAACTTACTAAGCT
Found at i:55491693 original size:9 final size:9
Alignment explanation
Indices: 55491679--55491748 Score: 122
Period size: 9 Copynumber: 7.8 Consensus size: 9
55491669 TTTGGTTAAA
55491679 AATTACCCG
1 AATTACCCG
55491688 AATTACCCG
1 AATTACCCG
55491697 AATTACCCG
1 AATTACCCG
55491706 AATTACCCG
1 AATTACCCG
55491715 AATTACCCG
1 AATTACCCG
*
55491724 AATTAACCG
1 AATTACCCG
*
55491733 AATTAACCG
1 AATTACCCG
55491742 AATTACC
1 AATTACC
55491749 GAAAAATACC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:55492563 original size:18 final size:18
Alignment explanation
Indices: 55492540--55492575 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55492530 ATTTATTTAC
55492540 TATTAACATAAATATTAA
1 TATTAACATAAATATTAA
* *
55492558 TATTAATATAAATTTTAA
1 TATTAACATAAATATTAA
55492576 ATTTATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAACATAAATATTAA
Found at i:55492588 original size:21 final size:20
Alignment explanation
Indices: 55492558--55492596 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
55492548 TAAATATTAA
55492558 TATTAATATAAATTTTAAATT
1 TATTAATAT-AATTTTAAATT
* *
55492579 TATTATTATATTTTTAAA
1 TATTAATATAATTTTAAA
55492597 ATATTTATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTAATATAATTTTAAATT
Found at i:55496993 original size:3 final size:3
Alignment explanation
Indices: 55496985--55497011 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
55496975 TGATCTATAC
55496985 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
55497012 ATCAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:55499687 original size:76 final size:75
Alignment explanation
Indices: 55499496--55499778 Score: 458
Period size: 75 Copynumber: 3.8 Consensus size: 75
55499486 TCCCCCAAGA
*
55499496 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
55499561 ATGTGAAAGG
66 ATGTGAAAGG
* *
55499571 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAATGCTAATTCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
*
55499636 ATGTGAAGGGG
66 ATGTGAA-AGG
* * * * *
55499647 GGTTGCTAAGTGCTGCTTCCCCTAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
55499712 ATGTGAAAGG
66 ATGTGAAAGG
* *
55499722 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGTTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
55499779 ATAACGGATA
Statistics
Matches: 190, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
75 123 0.65
76 67 0.35
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
ATGTGAAAGG
Found at i:55507056 original size:33 final size:33
Alignment explanation
Indices: 55507014--55507141 Score: 139
Period size: 33 Copynumber: 3.6 Consensus size: 33
55507004 TCTCCCAAGG
*
55507014 GGTTACTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
55507047 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
55507089 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
55507122 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
55507142 ACCGTATCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
33 40 0.50
34 3 0.04
35 1 0.01
36 2 0.03
37 4 0.05
38 3 0.04
39 2 0.03
40 1 0.01
41 3 0.04
42 21 0.26
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:55507106 original size:42 final size:42
Alignment explanation
Indices: 55507047--55507225 Score: 250
Period size: 42 Copynumber: 4.5 Consensus size: 42
55507037 ATTCATTGGT
55507047 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* *
55507089 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
55507122 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
55507164 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
55507206 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
55507226 CCGACTCATT
Statistics
Matches: 120, Mismatches: 8, Indels: 18
0.82 0.05 0.12
Matches are distributed among these distances:
33 21 0.17
34 3 0.03
35 1 0.01
36 3 0.03
37 3 0.03
38 3 0.03
39 3 0.03
40 1 0.01
41 3 0.03
42 79 0.66
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
Found at i:55507133 original size:75 final size:75
Alignment explanation
Indices: 55507010--55507180 Score: 315
Period size: 75 Copynumber: 2.3 Consensus size: 75
55507000 TGATTCTCCC
* *
55507010 AAGGGGTTACTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
55507075 TTAAATGTGA
66 TTAAATGTGA
55507085 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
55507150 TTAAATGTGA
66 TTAAATGTGA
*
55507160 AGGGGGTTGCTAAGTGCTGAT
1 AAGGGGTTGCTAAGTGCTGAT
55507181 CCCACCGTAT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 93 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:55507253 original size:117 final size:117
Alignment explanation
Indices: 55507047--55507262 Score: 396
Period size: 117 Copynumber: 1.8 Consensus size: 117
55507037 ATTCATTGGT
*
55507047 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
* *
55507112 ACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
66 ACTCATTGGTGGGTGCTAAGTGCTGAATCCACCGTATCTTAAATGTGAAGGG
*
55507164 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCG
1 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
55507229 ACTCATTGGTGGGTGCTAAGTGCTGAATCCACCG
66 ACTCATTGGTGGGTGCTAAGTGCTGAATCCACCG
55507263 ATAACGGATA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 95 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (117 bp):
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
ACTCATTGGTGGGTGCTAAGTGCTGAATCCACCGTATCTTAAATGTGAAGGG
Found at i:55514035 original size:37 final size:37
Alignment explanation
Indices: 55513993--55514064 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
55513983 CAAAACATGC
* *
55513993 CAAACTCTCATTAGA-GCTAATCCAACCGGTAACACAA
1 CAAACTCTCATGAGAGGC-AATCCAACCGATAACACAA
55514030 CAAACTCTCATGAGAGGCAATCCAACCGATAACAC
1 CAAACTCTCATGAGAGGCAATCCAACCGATAACAC
55514065 GCCTCAACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (37 bp):
CAAACTCTCATGAGAGGCAATCCAACCGATAACACAA
Found at i:55520826 original size:16 final size:16
Alignment explanation
Indices: 55520805--55520835 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55520795 TTTTCTCTTC
55520805 TCTGTTTCTTTTCATT
1 TCTGTTTCTTTTCATT
*
55520821 TCTGTTTTTTTTCAT
1 TCTGTTTCTTTTCAT
55520836 ATGCGAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.71
Consensus pattern (16 bp):
TCTGTTTCTTTTCATT
Found at i:55522029 original size:22 final size:25
Alignment explanation
Indices: 55522004--55522051 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
55521994 ATGTACATTG
55522004 TTTATTTCAAAT-CT-ATT-TCCAA
1 TTTATTTCAAATACTAATTATCCAA
55522026 TTTATTTCAAATACTAATTATCCAA
1 TTTATTTCAAATACTAATTATCCAA
55522051 T
1 T
55522052 GTTCTATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.52
23 2 0.09
24 3 0.13
25 6 0.26
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTATTTCAAATACTAATTATCCAA
Found at i:55523462 original size:17 final size:17
Alignment explanation
Indices: 55523440--55523472 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55523430 TAGAATTGGG
55523440 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
*
55523457 TTGAGAAATTTATTTA
1 TTGAGAAAATTATTTA
55523473 TTTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:55523852 original size:20 final size:21
Alignment explanation
Indices: 55523823--55523871 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
55523813 AAATAGTGAG
* *
55523823 AATT-TATTTTCT-AAGTATA
1 AATTCTATTTTCTAAAATAAA
55523842 AATTCTATTTTCTAAAATAAA
1 AATTCTATTTTCTAAAATAAA
55523863 AATTCTATT
1 AATTCTATT
55523872 GGTTTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 14 0.54
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTCTATTTTCTAAAATAAA
Found at i:55523861 original size:19 final size:19
Alignment explanation
Indices: 55523823--55523862 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
55523813 AAATAGTGAG
*
55523823 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
55523842 AATTCTATTTTCTAA-AATA
1 AATT-TATTTTCTAAGAATA
55523861 AA
1 AA
55523863 AATTCTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:55532147 original size:25 final size:25
Alignment explanation
Indices: 55532119--55532172 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
55532109 GTAAGCAAAT
55532119 CTTTGCTTAGTAAGTTCGTAATAAA
1 CTTTGCTTAGTAAGTTCGTAATAAA
55532144 CTTTGCTTAGTAAGTTCGTAATAAA
1 CTTTGCTTAGTAAGTTCGTAATAAA
55532169 CTTT
1 CTTT
55532173 AACTTTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (25 bp):
CTTTGCTTAGTAAGTTCGTAATAAA
Found at i:55552377 original size:96 final size:98
Alignment explanation
Indices: 55552175--55552470 Score: 467
Period size: 96 Copynumber: 3.1 Consensus size: 98
55552165 TGGTTCAAAA
*
55552175 AAAATGAATGGGAATGAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
1 AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
55552240 TATGATTGATAAAGTGTTCGCACTTATTATGTTG
66 TAT-ATTGATAAAGTGTTCGCACTTATTATGTTG
* *
55552274 AAAATGAATGGAAATTAATCAGGTATGAAAATGTTAAT-TATCATGTTGCATA-TTGATATTCTG
1 AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
* *
55552337 TATATTAATAAAGTGTTTGCACTTATTATGTTG
66 TATATTGATAAAGTGTTCGCACTTATTATGTTG
* *
55552370 AAAATGAATGGGAATAAATCAGGTATGAAAGTGTTAATATATCATGTTGCATACTTGATATACTG
1 AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
* *
55552435 TATGTTGATAAAGTGTTCG--CTCATTATG-TG
66 TATATTGATAAAGTGTTCGCACTTATTATGTTG
55552465 AAAATG
1 AAAATG
55552471 TTTTTGGTTT
Statistics
Matches: 183, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
95 8 0.04
96 71 0.39
97 28 0.15
98 40 0.22
99 36 0.20
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (98 bp):
AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
TATATTGATAAAGTGTTCGCACTTATTATGTTG
Found at i:55586295 original size:98 final size:99
Alignment explanation
Indices: 55586120--55586417 Score: 489
Period size: 98 Copynumber: 3.1 Consensus size: 99
55586110 TGGTTCAAAA
*
55586120 AAAATGAATGGGAATGAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
1 AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
55586185 TATGATTGATAAAGTGTTCGCACTTATTATGTTG
66 TATGATTGATAAAGTGTTCGCACTTATTATGTTG
* *
55586219 AAAATGAATGGAAATTAATCAGGTATGAAAATGTTAAT-TATCATGTTGCATACTTGATATTCTG
1 AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
* *
55586283 TATGATTAATAAAGTGTTTGCACTTATTATGTTG
66 TATGATTGATAAAGTGTTCGCACTTATTATGTTG
* *
55586317 AAAATGAATGGGAATAAATCAGGTATGAAAGTGTTAATATATCATGTTGCATACTTGATATACTG
1 AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
*
55586382 TATG-TTGATAAAGTGTTCG--CTCATTATG-TG
66 TATGATTGATAAAGTGTTCGCACTTATTATGTTG
55586412 AAAATG
1 AAAATG
55586418 TTTTTGGTTT
Statistics
Matches: 187, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
95 8 0.04
96 8 0.04
98 106 0.57
99 65 0.35
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (99 bp):
AAAATGAATGGGAATAAATCAGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTG
TATGATTGATAAAGTGTTCGCACTTATTATGTTG
Found at i:55590526 original size:81 final size:82
Alignment explanation
Indices: 55590391--55590548 Score: 264
Period size: 81 Copynumber: 1.9 Consensus size: 82
55590381 TAGTATTACC
* * * *
55590391 TTAACATTTTATGGTGATTCAAAGATGTTTTGAGATTTTTGTTTTTCATCCAAGATTAAAAGAAC
1 TTAACATTTTATAGTGATTCAAAGATGTTTTAAGATTTTCGTTTTTCATCCAAGATTAAAACAAC
55590456 CAATAAA-AAAATTATG
66 CAATAAAGAAAATTATG
*
55590472 TTAACATTTTATAGTGATTCAAAGATGTTTTAAGATTTTCGTTTTTCATCCAAGATTAACACAAC
1 TTAACATTTTATAGTGATTCAAAGATGTTTTAAGATTTTCGTTTTTCATCCAAGATTAAAACAAC
55590537 CAATAAAGAAAA
66 CAATAAAGAAAA
55590549 ATAAAATGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
81 67 0.94
82 4 0.06
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (82 bp):
TTAACATTTTATAGTGATTCAAAGATGTTTTAAGATTTTCGTTTTTCATCCAAGATTAAAACAAC
CAATAAAGAAAATTATG
Found at i:55594555 original size:5 final size:5
Alignment explanation
Indices: 55594542--55594573 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
55594532 AGGAATTGGG
*
55594542 GCCAG GCCAT GCCAT GCCAT GCCAT GCCAT GC
1 GCCAT GCCAT GCCAT GCCAT GCCAT GCCAT GC
55594574 AATCGACTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.41, G:0.25, T:0.16
Consensus pattern (5 bp):
GCCAT
Found at i:55596589 original size:7 final size:7
Alignment explanation
Indices: 55596572--55596622 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
55596562 TAAATATATA
55596572 TTTT-AT
1 TTTTAAT
*
55596578 TTTTATT
1 TTTTAAT
55596585 TTTTAAT
1 TTTTAAT
55596592 TTTTAAT
1 TTTTAAT
55596599 TTTTAAT
1 TTTTAAT
55596606 TTTTAAT
1 TTTTAAT
55596613 TTTTAAT
1 TTTTAAT
55596620 TTT
1 TTT
55596623 AAAATACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
6 4 0.10
7 38 0.90
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:55597738 original size:42 final size:42
Alignment explanation
Indices: 55597691--55597803 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
55597681 GTGCTAAACA
* * * *
55597691 GAAACCCGTGAGGGTTGAATAGAAGCTCATA-AAAGCTGAATG
1 GAAACCCATAAGGGTTGAACAGAAGCTCA-ACAAAGCTAAATG
* *
55597733 GAAACCCATAAGGGTTAAACAGAAGCTCAACAGAGCTAAATG
1 GAAACCCATAAGGGTTGAACAGAAGCTCAACAAAGCTAAATG
* * *
55597775 GAAACCCATTAGGGTTGAACGGAAACTCA
1 GAAACCCATAAGGGTTGAACAGAAGCTCA
55597804 TATGAGTTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTGAACAGAAGCTCAACAAAGCTAAATG
Found at i:55600930 original size:54 final size:54
Alignment explanation
Indices: 55600848--55600950 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
55600838 AAATTATGAG
55600848 TAAGTTTTTATTTTGGTCACTCAATTAAAAAATTTACAATTTGACCACTGAAGA
1 TAAGTTTTTATTTTGGTCACTCAATTAAAAAATTTACAATTTGACCACTGAAGA
* *
55600902 TAAGTTTTTGTTTTGGTCACTCAATTAAAAAATTTACAATTTGATCACT
1 TAAGTTTTTATTTTGGTCACTCAATTAAAAAATTTACAATTTGACCACT
55600951 AAATTATTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (54 bp):
TAAGTTTTTATTTTGGTCACTCAATTAAAAAATTTACAATTTGACCACTGAAGA
Found at i:55609823 original size:33 final size:31
Alignment explanation
Indices: 55609785--55609848 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 31
55609775 TATGTATCTA
*
55609785 TATATTTTTAATAAATTTATAAATTTTTATTTT
1 TATATTTTAAATAAATTT-T-AATTTTTATTTT
*
55609818 TATATTTTAAATAAATTTTATTTTTTATTTT
1 TATATTTTAAATAAATTTTAATTTTTATTTT
55609849 ATAACTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.38
32 1 0.03
33 17 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TATATTTTAAATAAATTTTAATTTTTATTTT
Found at i:55609831 original size:25 final size:23
Alignment explanation
Indices: 55609803--55609849 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
55609793 TAATAAATTT
55609803 ATAAATTTTTATTTTTATATTTTAA
1 ATAAA-TTTTATTTTT-TATTTTAA
55609828 ATAAATTTTATTTTTTATTTTA
1 ATAAATTTTATTTTTTATTTTA
55609850 TAACTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.32
24 10 0.45
25 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATAAATTTTATTTTTTATTTTAA
Found at i:55609860 original size:21 final size:23
Alignment explanation
Indices: 55609812--55609863 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
55609802 TATAAATTTT
*
55609812 TATTTTTATATTTTAAATAAATTT
1 TATTTTTATATTTTA-ATAAATTA
*
55609836 TATTTTT-TATTTT-ATAACTTA
1 TATTTTTATATTTTAATAAATTA
55609857 TATTTTT
1 TATTTTT
55609864 CATAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 13 0.50
23 6 0.23
24 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTTTATATTTTAATAAATTA
Found at i:55609934 original size:26 final size:26
Alignment explanation
Indices: 55609854--55609941 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
55609844 ATTTTATAAC
55609854 TTATATTTTTCATAATATTT-TATGCTTT
1 TTATATTTTT-ATAA-ATTTATATG-TTT
* * *
55609882 TTAT-TTATTT-TTAATTGTATGTATTT
1 TTATATT-TTTATAAATT-TATATGTTT
*
55609908 TTATATTTTTATAAATTTATTTGTTT
1 TTATATTTTTATAAATTTATATGTTT
55609934 TTATATTT
1 TTATATTT
55609942 AATATGTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
25 3 0.06
26 28 0.57
27 11 0.22
28 7 0.14
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (26 bp):
TTATATTTTTATAAATTTATATGTTT
Found at i:55610154 original size:17 final size:18
Alignment explanation
Indices: 55610134--55610168 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
55610124 ACATGATATT
55610134 ATATAAAA-AATAAAAAC
1 ATATAAAATAATAAAAAC
55610151 ATATAAAATTAATAAAAA
1 ATATAAAA-TAATAAAAA
55610169 TGCGTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
ATATAAAATAATAAAAAC
Found at i:55614428 original size:23 final size:23
Alignment explanation
Indices: 55614396--55614439 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55614386 TAATTATCAT
*
55614396 TAAAATAATAAAGTAAA-TAAACA
1 TAAAAGAATAAAG-AAACTAAACA
55614419 TAAAAGAATAAAGAAACTAAA
1 TAAAAGAATAAAGAAACTAAA
55614440 AGAGCAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (23 bp):
TAAAAGAATAAAGAAACTAAACA
Found at i:55614441 original size:17 final size:18
Alignment explanation
Indices: 55614409--55614473 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
55614399 AATAATAAAG
*
55614409 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
*
55614427 TAAAGAAAC-TAAAAGAG
1 TAAAGAAACATAAAAGAA
* *
55614444 CAAAGAAAACA-AATAGAA
1 TAAAG-AAACATAAAAGAA
*
55614462 GGAAAGAAACAT
1 -TAAAGAAACAT
55614474 GATAGCCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
17 11 0.30
18 22 0.59
19 4 0.11
ACGTcount: A:0.68, C:0.08, G:0.14, T:0.11
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:55618985 original size:11 final size:11
Alignment explanation
Indices: 55618969--55619014 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
55618959 TTTTTATTTT
55618969 AAAAATTTTAA
1 AAAAATTTTAA
55618980 AAAAA--TTAA
1 AAAAATTTTAA
55618989 AAAAGTATTTTAA
1 AAAA--ATTTTAA
*
55619002 AAATATTTTAA
1 AAAAATTTTAA
55619013 AA
1 AA
55619015 TTAAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
9 8 0.27
11 15 0.50
13 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:55619001 original size:31 final size:30
Alignment explanation
Indices: 55618963--55619022 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55618953 AGCCCATTTT
55618963 TATTTTAAAAAT-TTTAAAAAAATTAAAAAAG
1 TATTTTAAAAATATTT--AAAAATTAAAAAAG
*
55618994 TATTTTAAAAATATTTTAAAATTAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAA
55619023 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.44
31 12 0.44
32 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAG
Found at i:55619003 original size:12 final size:11
Alignment explanation
Indices: 55618963--55619014 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
55618953 AGCCCATTTT
55618963 TATTTT-AAAA
1 TATTTTAAAAA
55618973 -ATTTTAAAAA
1 TATTTTAAAAA
* *
55618983 -AATTAAAAAA
1 TATTTTAAAAA
55618993 GTATTTTAAAAA
1 -TATTTTAAAAA
55619005 TATTTTAAAA
1 TATTTTAAAA
55619015 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 12 0.34
11 10 0.29
12 8 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:55619046 original size:32 final size:32
Alignment explanation
Indices: 55619000--55619063 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
55618990 AAAGTATTTT
55619000 AAAAATATTTTAAAATT-AAAAAATTAAAAAA
1 AAAAATATTTTAAAATTAAAAAAATTAAAAAA
55619031 AAAAAGTATTTTAAAATTAAAAAAATTAAAAAA
1 AAAAA-TATTTTAAAATTAAAAAAATTAAAAAA
55619064 GTATGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 5 0.16
32 12 0.39
33 14 0.45
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (32 bp):
AAAAATATTTTAAAATTAAAAAAATTAAAAAA
Found at i:55619073 original size:11 final size:11
Alignment explanation
Indices: 55619048--55619100 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
55619038 ATTTTAAAAT
55619048 TAAAAAA-AT-
1 TAAAAAATATG
55619057 TAAAAAAGTATG
1 TAAAAAA-TATG
*
55619069 TAAAAAATATT
1 TAAAAAATATG
* *
55619080 TTAAAATTATG
1 TAAAAAATATG
55619091 TAAAAAATAT
1 TAAAAAATAT
55619101 TTTAAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 7 0.20
11 21 0.60
12 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (11 bp):
TAAAAAATATG
Found at i:55619074 original size:22 final size:22
Alignment explanation
Indices: 55619049--55619097 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
55619039 TTTTAAAATT
55619049 AAAAAAATTAAAAAAGTATGTA
1 AAAAAAATTAAAAAAGTATGTA
* ** *
55619071 AAAAATATTTTAAAATTATGTA
1 AAAAAAATTAAAAAAGTATGTA
55619093 AAAAA
1 AAAAA
55619098 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (22 bp):
AAAAAAATTAAAAAAGTATGTA
Found at i:55619098 original size:22 final size:22
Alignment explanation
Indices: 55619060--55619108 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
55619050 AAAAAATTAA
*
55619060 AAAAGTATGTAAAAAATATTTT
1 AAAATTATGTAAAAAATATTTT
55619082 AAAATTATGTAAAAAATATTTT
1 AAAATTATGTAAAAAATATTTT
55619104 AAAAT
1 AAAAT
55619109 AAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (22 bp):
AAAATTATGTAAAAAATATTTT
Found at i:55619106 original size:12 final size:11
Alignment explanation
Indices: 55619047--55619107 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
55619037 TATTTTAAAA
55619047 TTAAAAAA-A-
1 TTAAAAAATAT
55619056 TTAAAAAAGTAT
1 TTAAAAAA-TAT
*
55619068 GTAAAAAATAT
1 TTAAAAAATAT
* *
55619079 TTTAAAATTAT
1 TTAAAAAATAT
*
55619090 GTAAAAAATATT
1 TTAAAAAATA-T
55619102 TTAAAA
1 TTAAAA
55619108 TAAAAAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
9 8 0.20
11 19 0.47
12 13 0.32
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (11 bp):
TTAAAAAATAT
Found at i:55619121 original size:21 final size:22
Alignment explanation
Indices: 55619070--55619126 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
55619060 AAAAGTATGT
**
55619070 AAAAAATATTTTAAAATTATGT
1 AAAAAATATTTTAAAATTATAA
55619092 AAAAAATATTTTAAAA-TA-AA
1 AAAAAATATTTTAAAATTATAA
55619112 AAATAAATATATTTA
1 AAA-AAATAT-TTTA
55619127 TTATATATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 3 0.10
21 8 0.26
22 20 0.65
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAAATATTTTAAAATTATAA
Found at i:55621238 original size:16 final size:17
Alignment explanation
Indices: 55621207--55621241 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
55621197 TTCAAAATTT
*
55621207 TAATTATAATTCTTATA
1 TAATTATAATTATTATA
55621224 TAATTA-AATTATTATA
1 TAATTATAATTATTATA
55621240 TA
1 TA
55621242 CTAGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTATAATTATTATA
Found at i:55622891 original size:8 final size:8
Alignment explanation
Indices: 55622878--55622902 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55622868 ATAAATATGT
55622878 TTTTAAAA
1 TTTTAAAA
55622886 TTTTAAAA
1 TTTTAAAA
55622894 TTTTAAAA
1 TTTTAAAA
55622902 T
1 T
55622903 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:55622927 original size:20 final size:20
Alignment explanation
Indices: 55622902--55622941 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
55622892 AATTTTAAAA
*
55622902 TATTTTTAAAATACATTTTT
1 TATTTTTAAAATAAATTTTT
55622922 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
55622942 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:55622949 original size:20 final size:20
Alignment explanation
Indices: 55622906--55622949 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
55622896 TTAAAATATT
* * *
55622906 TTTAAAATACATTTTTTATT
1 TTTAAAATAAATTTTTGATG
*
55622926 TTTAAAATAAATTTTTGGTG
1 TTTAAAATAAATTTTTGATG
55622946 TTTA
1 TTTA
55622950 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTAAAATAAATTTTTGATG
Found at i:55636505 original size:16 final size:16
Alignment explanation
Indices: 55636475--55636522 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
55636465 TTCTGAACAT
55636475 AGTTATTCTAGAACAAC
1 AGTTATTCTA-AACAAC
*
55636492 AGTTGTTCTAAACAAC
1 AGTTATTCTAAACAAC
**
55636508 AACTATTCTAAACAA
1 AGTTATTCTAAACAA
55636523 TATTTGTTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (16 bp):
AGTTATTCTAAACAAC
Found at i:55637430 original size:20 final size:20
Alignment explanation
Indices: 55637405--55637442 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55637395 TGTTTTTTAA
*
55637405 TTAATATTGTTAATAGTAGT
1 TTAATATTGTTAAAAGTAGT
55637425 TTAATATTGTTAAAAGTA
1 TTAATATTGTTAAAAGTA
55637443 TGTTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (20 bp):
TTAATATTGTTAAAAGTAGT
Found at i:55637744 original size:18 final size:19
Alignment explanation
Indices: 55637701--55637745 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
55637691 TTTTATTTAT
55637701 TTAATATTGTTAATAGTAG
1 TTAATATTGTTAATAGTAG
55637720 TTAATATTGTTAA-AGTATG
1 TTAATATTGTTAATAGTA-G
55637739 TT-ATATT
1 TTAATATT
55637746 TTTTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (19 bp):
TTAATATTGTTAATAGTAG
Found at i:55648957 original size:43 final size:43
Alignment explanation
Indices: 55648845--55648958 Score: 99
Period size: 43 Copynumber: 2.7 Consensus size: 43
55648835 AGTGTTTTCG
* * ***
55648845 TGTAAAACCACGTCTGGGACGTTGGCATCGACTTGTGTTTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGGTTACA
* ** *
55648888 TGTAAGGCTC-TTTCTAGGACAG-TGGCATCGA-TCTGTGGTTACA
1 TGTAAGAC-CACGTCTGGGAC-GTTGGCATCGACT-TGTGGTTACA
55648931 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
55648959 TATACGAGCC
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
42 3 0.06
43 48 0.91
44 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGGTTACA
Found at i:55651235 original size:15 final size:15
Alignment explanation
Indices: 55651215--55651243 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55651205 TCTTCTTACT
55651215 GATTTATTAATTATC
1 GATTTATTAATTATC
55651230 GATTTATTAATTAT
1 GATTTATTAATTAT
55651244 TGTCATTCAT
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:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
GATTTATTAATTATC
Found at i:55653449 original size:35 final size:35
Alignment explanation
Indices: 55653403--55653523 Score: 170
Period size: 35 Copynumber: 3.5 Consensus size: 35
55653393 TACACAGTTA
* * *
55653403 ACCATCCAACACACTAGATGCTCATAAGAGCCAAT
1 ACCATCCAACACACCAGATGCTCATAAGAGCTAGT
*
55653438 ACCATCCAACACACCAGATGCTCATAAGAACTAGT
1 ACCATCCAACACACCAGATGCTCATAAGAGCTAGT
* *
55653473 ACCATCCAACACACCAGATGCTTAGAAGAGCTAGT
1 ACCATCCAACACACCAGATGCTCATAAGAGCTAGT
* *
55653508 ACCATCTAGCACACCA
1 ACCATCCAACACACCA
55653524 AATAACATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.39, C:0.32, G:0.12, T:0.17
Consensus pattern (35 bp):
ACCATCCAACACACCAGATGCTCATAAGAGCTAGT
Found at i:55662008 original size:40 final size:41
Alignment explanation
Indices: 55661926--55662067 Score: 162
Period size: 41 Copynumber: 3.5 Consensus size: 41
55661916 TTTTAATTCT
* * *
55661926 ATGAAAAGGTTGAAAAGGAAGCTATCC-AGAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGATGCTATCCGA-AAAAGATATCAA
* *
55661967 ATAAAAAGGTTGAAAAGGATG-TATCCGAAAATGATATCAA
1 ATGAAAAGGTTGAAAAGGATGCTATCCGAAAAAGATATCAA
* * *
55662007 ATGAAAAGGTTGAAAATGATGTTATTCGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGATGCTATCCGAAAAAGATATCAA
** *
55662048 GGGAAAATGTTGAAAAGGAT
1 ATGAAAAGGTTGAAAAGGAT
55662068 AGCAATGAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 34 0.39
41 53 0.61
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.21
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGATGCTATCCGAAAAAGATATCAA
Found at i:55673656 original size:14 final size:14
Alignment explanation
Indices: 55673637--55673664 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55673627 CTAAAAACTT
55673637 TGACAAAACAGTTA
1 TGACAAAACAGTTA
55673651 TGACAAAACAGTTA
1 TGACAAAACAGTTA
55673665 CGCGAAGGAA
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:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
TGACAAAACAGTTA
Found at i:55676560 original size:25 final size:25
Alignment explanation
Indices: 55676532--55676613 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
55676522 ATGTTATAAA
*
55676532 ATAATATATAAAAATAATGCATATG
1 ATAATATACAAAAATAATGCATATG
*
55676557 ATAATATACAAAAGTAATGCA-A-G
1 ATAATATACAAAAATAATGCATATG
*
55676580 --AATGTACAAAAAT-ATGCATATG
1 ATAATATACAAAAATAATGCATATG
*
55676602 ATAATACACAAA
1 ATAATATACAAA
55676614 CAAGGTTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 5 0.11
21 12 0.26
22 1 0.02
23 1 0.02
24 9 0.19
25 19 0.40
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.26
Consensus pattern (25 bp):
ATAATATACAAAAATAATGCATATG
Found at i:55676895 original size:16 final size:16
Alignment explanation
Indices: 55676847--55676913 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
55676837 GGTTGGGGTG
55676847 AATGGAAT-AAGATTGT
1 AATGGAATAAAG-TTGT
*
55676863 AATGGAATAGAA-ATGT
1 AATGGAATA-AAGTTGT
*
55676879 ACTGGAATAAAGTTGT
1 AATGGAATAAAGTTGT
* * *
55676895 AGTAGAATAGAGTTGT
1 AATGGAATAAAGTTGT
55676911 AAT
1 AAT
55676914 CAGTAATTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 2 0.05
16 37 0.90
18 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.25, T:0.30
Consensus pattern (16 bp):
AATGGAATAAAGTTGT
Found at i:55677149 original size:62 final size:59
Alignment explanation
Indices: 55677081--55677336 Score: 262
Period size: 62 Copynumber: 4.3 Consensus size: 59
55677071 TTGTTATTAA
* *
55677081 ATTTTAATA-AGATTATTAGTAAATATAATTTAATAAATATAAAAAGTAAATAATTAAATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAATAT--AAA-TAAATAATTTAATCAT
* *
55677143 ATTTTAATATAATTATTATTAAATATAATTTAATAAA-AT-AATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAATATAAATAAATAATTTAATCAT
*
55677200 ATTCTTAATATATTTATTATTAAAATATGAA-TTAATAAATATCATAATAAATAATTTAATCAT
1 ATT-TTAATATAATTATTATT-AAATAT-AATTTAATAAATAT-A-AATAAATAATTTAATCAT
* * * * *
55677263 ATTTTAACAT-A--ATTATT-AATACAATTTAATAAA-AT-AATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAATATAAATAAATAATTTAATCAT
55677316 ATTCTTAATATAATTATTATT
1 ATT-TTAATATAATTATTATT
55677337 TTAGATACAT
Statistics
Matches: 167, Mismatches: 14, Indels: 31
0.79 0.07 0.15
Matches are distributed among these distances:
53 18 0.11
54 6 0.04
55 1 0.01
56 4 0.02
57 34 0.20
58 18 0.11
59 20 0.12
60 4 0.02
61 2 0.01
62 40 0.24
63 20 0.12
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (59 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAATATAAATAAATAATTTAATCAT
Done.