Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 144 of 325
Found at i:45583959 original size:20 final size:19
Alignment explanation
Indices: 45583921--45583963 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
45583911 TAATTTTTTT
*
45583921 ATTTTTTATTTTTTAAATA
1 ATTTTTTAATTTTTAAATA
45583940 CATTTTTATAATTTTT-AATA
1 -ATTTTT-TAATTTTTAAATA
45583960 ATTT
1 ATTT
45583964 ATTCAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTTAATTTTTAAATA
Found at i:45588962 original size:27 final size:26
Alignment explanation
Indices: 45588930--45589003 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 26
45588920 ATAATTTATT
*
45588930 AAAATAAAATATATAAAATCACTTAAA
1 AAAATAAAATATATAAAA-AACTTAAA
*
45588957 AAAAT--AATGATATAAAAAATTTAAA
1 AAAATAAAAT-ATATAAAAAACTTAAA
*
45588982 AAAATATAAAAATACTAAAAAA
1 AAAATA-AAATATA-TAAAAAA
45589004 AGTCTGAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
25 14 0.36
26 8 0.21
27 8 0.21
28 9 0.23
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (26 bp):
AAAATAAAATATATAAAAAACTTAAA
Found at i:45591946 original size:23 final size:23
Alignment explanation
Indices: 45591916--45591959 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
45591906 GAGAGCCTAA
45591916 ATGGCAATTTTTCATTTAGGAGG
1 ATGGCAATTTTTCATTTAGGAGG
45591939 ATGGCAATTTTTCATTTAGGA
1 ATGGCAATTTTTCATTTAGGA
45591960 AGAGCCGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (23 bp):
ATGGCAATTTTTCATTTAGGAGG
Found at i:45593249 original size:5 final size:5
Alignment explanation
Indices: 45593248--45593276 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
45593238 GACACAATAC
45593248 AAACA AAACA AAACA AAACA AAACA AAAC
1 AAACA AAACA AAACA AAACA AAACA AAAC
45593277 CACCCCCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:45602077 original size:3 final size:3
Alignment explanation
Indices: 45602069--45602096 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45602059 GAACTTTAAG
45602069 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45602097 AGCCATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:45602725 original size:20 final size:21
Alignment explanation
Indices: 45602671--45602725 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
45602661 TGGTATAATA
45602671 ATTTTTATAATTTT-TTTATG
1 ATTTTTATAATTTTCTTTATG
* *
45602691 AATCTTAT-A-TTTCTTTAT-
1 ATTTTTATAATTTTCTTTATG
45602709 ATTTTTATAATTTTCTT
1 ATTTTTATAATTTTCTT
45602726 ACGACTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 9 0.32
19 7 0.25
20 12 0.43
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTTATAATTTTCTTTATG
Found at i:45602783 original size:10 final size:10
Alignment explanation
Indices: 45602770--45602890 Score: 54
Period size: 10 Copynumber: 12.2 Consensus size: 10
45602760 TCTCTACATA
45602770 TTTTATAATT
1 TTTTATAATT
**
45602780 TTTTACGATT
1 TTTTATAATT
45602790 TTTGTA-AATT
1 TTT-TATAATT
* **
45602800 TTTTAAAAAA
1 TTTTATAATT
* *
45602810 ATATATAATT
1 TTTTATAATT
*
45602820 TTTT-TACAAT
1 TTTTATA-ATT
45602830 TTTTAT--TT
1 TTTTATAATT
*
45602838 TTTTCTAATT
1 TTTTATAATT
*
45602848 TTTAAT-ATT
1 TTTTATAATT
**
45602857 TTTTAGTAAAA
1 TTTTA-TAATT
*
45602868 TTTAATAATT
1 TTTTATAATT
45602878 TTTTATAACTT
1 TTTTATAA-TT
45602889 TT
1 TT
45602891 ATTAAATAAC
Statistics
Matches: 78, Mismatches: 24, Indels: 17
0.66 0.20 0.14
Matches are distributed among these distances:
8 6 0.08
9 11 0.14
10 49 0.63
11 12 0.15
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:45602802 original size:29 final size:29
Alignment explanation
Indices: 45602709--45602802 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 29
45602699 ATTTCTTTAT
* *
45602709 ATTTTTATAATTTTCTTACGA-CTTAATAA
1 ATTTTTATAATTTT-TTACGATATTTATAA
* * * * * *
45602738 AATTTTATAATTTTTTTCTATATCTCTAC
1 ATTTTTATAATTTTTTACGATATTTATAA
* *
45602767 ATATTTTATAATTTTTTACGATTTTTGTAA
1 AT-TTTTATAATTTTTTACGATATTTATAA
45602797 ATTTTT
1 ATTTTT
45602803 TAAAAAAATA
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
28 4 0.08
29 21 0.44
30 23 0.48
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.59
Consensus pattern (29 bp):
ATTTTTATAATTTTTTACGATATTTATAA
Found at i:45602839 original size:17 final size:19
Alignment explanation
Indices: 45602815--45602861 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
45602805 AAAAAATATA
45602815 TAATTTTTTTAC-AATTTT
1 TAATTTTTTTACTAATTTT
45602833 T-ATTTTTTT-CTAATTTT
1 TAATTTTTTTACTAATTTT
45602850 TAATATTTTTTA
1 TAAT-TTTTTTA
45602862 GTAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.04
17 15 0.60
18 3 0.12
19 6 0.24
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (19 bp):
TAATTTTTTTACTAATTTT
Found at i:45602891 original size:20 final size:19
Alignment explanation
Indices: 45602817--45602891 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
45602807 AAAATATATA
*
45602817 ATTTTTT-TACAATTTTTAT
1 ATTTTTTATA-AATTTTAAT
* *
45602836 -TTTTTTCTAATTTTTAAT
1 ATTTTTTATAAATTTTAAT
*
45602854 ATTTTTTAGTAAAATTTAAT
1 ATTTTTTA-TAAATTTTAAT
*
45602874 AATTTTTTATAACTTTTA
1 -ATTTTTTATAAATTTTA
45602892 TTAAATAACA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 13 0.29
19 8 0.18
20 16 0.36
21 8 0.18
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (19 bp):
ATTTTTTATAAATTTTAAT
Found at i:45605019 original size:12 final size:12
Alignment explanation
Indices: 45605004--45605028 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45604994 TTTTTTTATC
45605004 ACCTTTTACTTA
1 ACCTTTTACTTA
45605016 ACCTTTTACTTA
1 ACCTTTTACTTA
45605028 A
1 A
45605029 AATAGCCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (12 bp):
ACCTTTTACTTA
Found at i:45606483 original size:6 final size:7
Alignment explanation
Indices: 45606471--45606524 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 7
45606461 ATTCTTATGA
45606471 AATTTTT
1 AATTTTT
45606478 -ATTTTT
1 AATTTTT
45606484 AATTTTTT
1 AA-TTTTT
*
45606492 AATTTTG
1 AATTTTT
45606499 AA--TTT
1 AATTTTT
45606504 AA-TTTT
1 AATTTTT
45606510 AATTTTTT
1 AA-TTTTT
45606518 AATTTTT
1 AATTTTT
45606525 TATAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 4 0.10
6 11 0.28
7 12 0.30
8 13 0.32
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:45606533 original size:26 final size:26
Alignment explanation
Indices: 45606480--45606544 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
45606470 AAATTTTTAT
**
45606480 TTTTAATTTTTTAATTTTGAATTTAA
1 TTTTAATTTTTTAATTTTGAATAAAA
**
45606506 TTTTAATTTTTTAATTTTTTATAAAA
1 TTTTAATTTTTTAATTTTGAATAAAA
45606532 TTTTAATTATTTT
1 TTTTAATT-TTTT
45606545 TTGACATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTAATTTTTTAATTTTGAATAAAA
Found at i:45608449 original size:16 final size:17
Alignment explanation
Indices: 45608424--45608457 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
45608414 AAATTTATAA
*
45608424 ATAAAGTATT-AAAAAT
1 ATAAAATATTCAAAAAT
45608440 ATAAAATATTCAAAAAT
1 ATAAAATATTCAAAAAT
45608457 A
1 A
45608458 ATCAATCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
ATAAAATATTCAAAAAT
Found at i:45609271 original size:30 final size:30
Alignment explanation
Indices: 45609230--45609301 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 30
45609220 TTTATGTAAC
*
45609230 TATATATATATTTTATATTTTTATAA-AATTT
1 TATA-ATATATTTTAT-CTTTTATAATAATTT
45609261 TATAATATATTTTATCTTTTATAATAATTT
1 TATAATATATTTTATCTTTTATAATAATTT
45609291 T-T-ATATATTTT
1 TATAATATATTTT
45609302 GAAGTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 9 0.23
29 9 0.23
30 17 0.44
31 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (30 bp):
TATAATATATTTTATCTTTTATAATAATTT
Found at i:45609311 original size:30 final size:28
Alignment explanation
Indices: 45609232--45609316 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
45609222 TATGTAACTA
45609232 TATATATATTTTATATTTTTATAAAATTT
1 TATATATATTTTA-ATTTTTATAAAATTT
45609261 TATAATATATTTT-ATCTTTTATAATAATTT
1 TAT-ATATATTTTAAT-TTTTATAA-AATTT
*
45609291 T-TATATATTTTGAAGTTTT-TAAAATT
1 TATATATATTTT-AATTTTTATAAAATT
45609317 ATAATTTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
27 4 0.08
28 14 0.28
29 16 0.32
30 16 0.32
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (28 bp):
TATATATATTTTAATTTTTATAAAATTT
Found at i:45617618 original size:176 final size:176
Alignment explanation
Indices: 45617324--45617678 Score: 710
Period size: 176 Copynumber: 2.0 Consensus size: 176
45617314 CATTGAAGAC
45617324 CATTTAATACTTACGGAGGATGATTAGAAAAGAATAAAAATGTGAATTTATTTTAATATTATCTA
1 CATTTAATACTTACGGAGGATGATTAGAAAAGAATAAAAATGTGAATTTATTTTAATATTATCTA
45617389 ACGCAGAAAACATGTAAAAATGTGGGAAATTTAAATGAAATATGCTGAACGCTGAAAGCCGATAA
66 ACGCAGAAAACATGTAAAAATGTGGGAAATTTAAATGAAATATGCTGAACGCTGAAAGCCGATAA
45617454 ATCATTTATATTATAATATGCAGAGGTTTAAAGAATTAAGAGTATA
131 ATCATTTATATTATAATATGCAGAGGTTTAAAGAATTAAGAGTATA
45617500 CATTTAATACTTACGGAGGATGATTAGAAAAGAATAAAAATGTGAATTTATTTTAATATTATCTA
1 CATTTAATACTTACGGAGGATGATTAGAAAAGAATAAAAATGTGAATTTATTTTAATATTATCTA
45617565 ACGCAGAAAACATGTAAAAATGTGGGAAATTTAAATGAAATATGCTGAACGCTGAAAGCCGATAA
66 ACGCAGAAAACATGTAAAAATGTGGGAAATTTAAATGAAATATGCTGAACGCTGAAAGCCGATAA
45617630 ATCATTTATATTATAATATGCAGAGGTTTAAAGAATTAAGAGTATA
131 ATCATTTATATTATAATATGCAGAGGTTTAAAGAATTAAGAGTATA
45617676 CAT
1 CAT
45617679 ATTTTTGGTG
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 179 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (176 bp):
CATTTAATACTTACGGAGGATGATTAGAAAAGAATAAAAATGTGAATTTATTTTAATATTATCTA
ACGCAGAAAACATGTAAAAATGTGGGAAATTTAAATGAAATATGCTGAACGCTGAAAGCCGATAA
ATCATTTATATTATAATATGCAGAGGTTTAAAGAATTAAGAGTATA
Found at i:45620620 original size:26 final size:25
Alignment explanation
Indices: 45620559--45620622 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
45620549 GGATCCCTTA
* *
45620559 AAGCTAGTGTTAGCATATTCGAACT
1 AAGCTAGTGTTAGCATACTAGAACT
*
45620584 AAGCTAGTGTTAGCA-ACCTAGATCT
1 AAGCTAGTGTTAGCATA-CTAGAACT
45620609 GAAGCTAGTGTTAG
1 -AAGCTAGTGTTAG
45620623 TTGCCTGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.59
26 13 0.38
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (25 bp):
AAGCTAGTGTTAGCATACTAGAACT
Found at i:45620622 original size:158 final size:158
Alignment explanation
Indices: 45620334--45620622 Score: 343
Period size: 158 Copynumber: 1.8 Consensus size: 158
45620324 TAGAAAAAGG
* * * ***
45620334 AAAATGGATGTTGTGATCATGGATTAATACGATGGCTTGAAATCCAACATAAGTTGTGGATTTTT
1 AAAATGGATGTTGTGATCATGGATTAATACGATGACTGGAAATCCAACATAAGTTGCGGATCCCT
* * * * * *
45620399 TGAAGCTAGTGTTAGTAGCATCGTACTAAACTAGTGTCATCAAACCTAATTTTAAGCTAGTGTTA
66 TAAAGCTAGTGTTAGCAGCATCGAACTAAACTAGTGTCAGCAAACCTAATCTGAAGCTAGTGTTA
45620464 GCAACCCGAATATGTCAACTTGTATAAA
131 GCAACCCGAATATGTCAACTTGTATAAA
* * * *
45620492 AAAATAGG-TGTTGTGATTA-GGAATTAATTCGATGACTGGAGATCCAACATATGTTGCGGATCC
1 AAAAT-GGATGTTGTGATCATGG-ATTAATACGATGACTGGAAATCCAACATAAGTTGCGGATCC
* * *
45620555 CTTAAAGCTAGTGTTAGCA-TATTCGAACTAAGCTAGTGTTAGC-AACCTAGATCTGAAGCTAGT
64 CTTAAAGCTAGTGTTAGCAGCA-TCGAACTAAACTAGTGTCAGCAAACCTA-ATCTGAAGCTAGT
45620618 GTTAG
127 GTTAG
45620623 TTGCCTGATA
Statistics
Matches: 108, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
157 9 0.08
158 97 0.90
159 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (158 bp):
AAAATGGATGTTGTGATCATGGATTAATACGATGACTGGAAATCCAACATAAGTTGCGGATCCCT
TAAAGCTAGTGTTAGCAGCATCGAACTAAACTAGTGTCAGCAAACCTAATCTGAAGCTAGTGTTA
GCAACCCGAATATGTCAACTTGTATAAA
Found at i:45623018 original size:28 final size:28
Alignment explanation
Indices: 45622950--45623069 Score: 158
Period size: 28 Copynumber: 4.4 Consensus size: 28
45622940 GATATGACAT
* * *
45622950 TGTGCTAAGTGGAATAAGACCATGAC-A
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
45622977 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
45623002 TGTGCTAAGTGAAATAAGTCTATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
45623030 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
45623058 TGTGCTCAGTGA
1 TGTGCTAAGTGA
45623070 GAAATTTCCC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.23
25 2 0.02
27 1 0.01
28 60 0.73
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGTCCATGGCAA
Found at i:45623177 original size:51 final size:51
Alignment explanation
Indices: 45623093--45623190 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
45623083 TGAACCTTAG
*
45623093 GAATAAAATAGCTTTGGAAACAAGTGTGATACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGAAACAAGGGTGATACTATGTGAAGGCCACTTTGT
** *
45623144 GAATAAAATAGCTTTGGCTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAAACAAGGGTGATACTATGTGAAGGCCACT
45623191 GTGTATCCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGAAACAAGGGTGATACTATGTGAAGGCCACTTTGT
Found at i:45624943 original size:41 final size:41
Alignment explanation
Indices: 45624890--45625039 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
45624880 CGCTGACTCA
* *
45624890 AAAAACCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
* * * * * * * *
45624931 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
*
45624971 AAAAGCCCTTCGAGACCAAGCTCGGCTTATGACATTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
45625012 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
45625040 TAAACCCCAA
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 31 0.35
41 58 0.65
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
Found at i:45633051 original size:41 final size:41
Alignment explanation
Indices: 45632998--45633106 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 41
45632988 CGCTGACTCA
*
45632998 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
* * * * * * **
45633039 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
*
45633079 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
45633107 TAAACCCCGA
Statistics
Matches: 51, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
40 30 0.59
41 21 0.41
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
Found at i:45655080 original size:10 final size:10
Alignment explanation
Indices: 45655057--45655101 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
45655047 ATTCTAAAAA
45655057 ATAAATACAA-
1 ATAAATA-AAG
45655067 ATAAATAAAG
1 ATAAATAAAG
*
45655077 ATAATTAAAG
1 ATAAATAAAG
*
45655087 ATAAATAAAT
1 ATAAATAAAG
45655097 ATAAA
1 ATAAA
45655102 AGCTAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 2 0.06
10 29 0.94
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:45656371 original size:8 final size:8
Alignment explanation
Indices: 45656358--45656448 Score: 62
Period size: 8 Copynumber: 11.0 Consensus size: 8
45656348 TTATTTTAGA
45656358 AAATTTTT
1 AAATTTTT
45656366 AAATTTTT
1 AAATTTTT
*
45656374 AAAATTTT
1 AAATTTTT
45656382 AACATTTTTT
1 AA-A-TTTTT
45656392 ATATATTTTT
1 A-A-ATTTTT
*
45656402 AAAATTTT
1 AAATTTTT
*
45656410 ---TTTTA
1 AAATTTTT
*
45656415 AAATTTTA
1 AAATTTTT
45656423 AAATTTTTT
1 AAA-TTTTT
*
45656432 AAAAATTTT
1 -AAATTTTT
45656441 AAATTTTT
1 AAATTTTT
45656449 TTAATAATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
5 3 0.05
8 37 0.56
9 10 0.15
10 14 0.21
11 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (8 bp):
AAATTTTT
Found at i:45656378 original size:9 final size:9
Alignment explanation
Indices: 45656357--45656473 Score: 89
Period size: 10 Copynumber: 12.4 Consensus size: 9
45656347 ATTATTTTAG
45656357 AAAATTTTT
1 AAAATTTTT
45656366 -AAATTTTT
1 AAAATTTTT
45656374 AAAA-TTTT
1 AAAATTTTT
*
45656382 AACATTTTTT
1 AA-AATTTTT
*
45656392 ATATATTTTT
1 A-AAATTTTT
45656402 AAAATTTTTTTT
1 AAAA---TTTTT
45656414 AAAA-TTTT
1 AAAATTTTT
45656422 AAAATTTTTT
1 AAAA-TTTTT
*
45656432 AAAAATTTT
1 AAAATTTTT
*
45656441 AAATTTTTTT
1 AAA-ATTTTT
45656451 AATAA-TTTT
1 AA-AATTTTT
45656460 AAAATTTTTT
1 AAAA-TTTTT
45656470 AAAA
1 AAAA
45656474 ATATAAATTT
Statistics
Matches: 87, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
8 24 0.28
9 19 0.22
10 33 0.38
11 2 0.02
12 9 0.10
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (9 bp):
AAAATTTTT
Found at i:45656403 original size:20 final size:20
Alignment explanation
Indices: 45656351--45656475 Score: 138
Period size: 20 Copynumber: 6.5 Consensus size: 20
45656341 ACAATTATTA
* *
45656351 TTTTAGAAAATTTTTAAA--
1 TTTTATAAAATTTTAAAATT
*
45656369 TTTT-TAAAATTTTAACATT
1 TTTTATAAAATTTTAAAATT
* *
45656388 TTTTATATATTTTTAAAATT
1 TTTTATAAAATTTTAAAATT
*
45656408 TTTTTTAAAATTTTAAAATT
1 TTTTATAAAATTTTAAAATT
45656428 TTTTA-AAAATTTT-AAATT
1 TTTTATAAAATTTTAAAATT
45656446 TTTT-TAATAATTTTAAAATT
1 TTTTATAA-AATTTTAAAATT
45656466 TTTTA-AAAAT
1 TTTTATAAAAT
45656476 ATAAATTTTG
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
17 10 0.11
18 15 0.17
19 21 0.23
20 44 0.49
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTTATAAAATTTTAAAATT
Found at i:45656412 original size:12 final size:12
Alignment explanation
Indices: 45656397--45656421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45656387 TTTTTATATA
45656397 TTTTTAAAATTT
1 TTTTTAAAATTT
45656409 TTTTTAAAATTT
1 TTTTTAAAATTT
45656421 T
1 T
45656422 AAAATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAAAATTT
Found at i:45656445 original size:38 final size:38
Alignment explanation
Indices: 45656369--45656484 Score: 155
Period size: 38 Copynumber: 3.0 Consensus size: 38
45656359 AATTTTTAAA
* * *
45656369 TTTTTAAAATTTTAACATTTTTTATATATTTTTAAAATTT
1 TTTTTAAAATTTTAAAATTTTTTA-AAAATTTT-AAATTT
45656409 TTTTTAAAATTTTAAAATTTTTTAAAAATTTTAAA-TT
1 TTTTTAAAATTTTAAAATTTTTTAAAAATTTTAAATTT
*
45656446 TTTTTAATAATTTTAAAATTTTTTAAAAA-TATAAATTT
1 TTTTTAA-AATTTTAAAATTTTTTAAAAATTTTAAATTT
45656484 T
1 T
45656485 GAATTTTTCA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
37 14 0.20
38 27 0.39
39 6 0.09
40 23 0.33
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.59
Consensus pattern (38 bp):
TTTTTAAAATTTTAAAATTTTTTAAAAATTTTAAATTT
Found at i:45660214 original size:45 final size:45
Alignment explanation
Indices: 45660165--45660253 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
45660155 AGAAAATTTT
* * *
45660165 TAAAATTTTAACTTTTTTTTATATT-TATTAGAATTTTTTAAAATA
1 TAAAATTTGAACTTTTTTTTAAATTAT-TTAGAATTTTTGAAAATA
** *
45660210 TAAAATTTGAGTTTTTTTTTAAATTATTTTGAATTTTTGAAAAT
1 TAAAATTTGAACTTTTTTTTAAATTATTTAGAATTTTTGAAAAT
45660254 TATTTTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (45 bp):
TAAAATTTGAACTTTTTTTTAAATTATTTAGAATTTTTGAAAATA
Found at i:45661637 original size:6 final size:6
Alignment explanation
Indices: 45661626--45661653 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45661616 TGAATTAATT
45661626 CAAATC CAAATC CAAATC CAAATC CAAA
1 CAAATC CAAATC CAAATC CAAATC CAAA
45661654 CAACGGTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (6 bp):
CAAATC
Found at i:45665117 original size:8 final size:8
Alignment explanation
Indices: 45665106--45665138 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
45665096 TTTGGTATTG
45665106 ATTTAAAA
1 ATTTAAAA
45665114 ATTTAAAA
1 ATTTAAAA
45665122 ATTTAAAA
1 ATTTAAAA
45665130 ATTTAAAA
1 ATTTAAAA
45665138 A
1 A
45665139 CATTACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTTAAAA
Found at i:45667833 original size:15 final size:17
Alignment explanation
Indices: 45667813--45667844 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
45667803 ATGAAAGAAT
45667813 CTTGAG-CTT-CAAAGA
1 CTTGAGACTTGCAAAGA
45667828 CTTGAGACTTGCAAAGA
1 CTTGAGACTTGCAAAGA
45667845 GAATACAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (17 bp):
CTTGAGACTTGCAAAGA
Found at i:45669722 original size:15 final size:15
Alignment explanation
Indices: 45669702--45669733 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
45669692 GTCAACTCCA
45669702 ACAAATAATCCAAAG
1 ACAAATAATCCAAAG
45669717 ACAAATAATCCAAAG
1 ACAAATAATCCAAAG
45669732 AC
1 AC
45669734 CTCCATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.22, G:0.06, T:0.12
Consensus pattern (15 bp):
ACAAATAATCCAAAG
Found at i:45670225 original size:14 final size:14
Alignment explanation
Indices: 45670208--45670255 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
45670198 TTAAAATTTG
45670208 TAAAATA-AAAAGA
1 TAAAATATAAAAGA
*
45670221 CTAAAAATATAAAATA
1 -T-AAAATATAAAAGA
*
45670237 TAAAATATAAAATA
1 TAAAATATAAAAGA
45670251 TAAAA
1 TAAAA
45670256 ACTATATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 19 0.61
15 7 0.23
16 5 0.16
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAAATATAAAAGA
Found at i:45670234 original size:22 final size:21
Alignment explanation
Indices: 45670208--45670255 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
45670198 TTAAAATTTG
45670208 TAAAATAAAAAGACTA-AAAATA
1 TAAAATAAAAA-A-TATAAAATA
*
45670230 TAAAATATAAAATATAAAATA
1 TAAAATAAAAAATATAAAATA
45670251 TAAAA
1 TAAAA
45670256 ACTATATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 2 0.08
21 12 0.50
22 10 0.42
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAAATAAAAAATATAAAATA
Found at i:45670236 original size:7 final size:7
Alignment explanation
Indices: 45670224--45670255 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
45670214 AAAAAGACTA
45670224 AAAATAT
1 AAAATAT
45670231 AAAATAT
1 AAAATAT
45670238 AAAATAT
1 AAAATAT
45670245 AAAATAT
1 AAAATAT
45670252 AAAA
1 AAAA
45670256 ACTATATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATAT
Found at i:45670799 original size:9 final size:9
Alignment explanation
Indices: 45670785--45670846 Score: 63
Period size: 9 Copynumber: 6.9 Consensus size: 9
45670775 AATAAGTATA
45670785 AAATTAACC
1 AAATTAACC
45670794 AAATTAACC
1 AAATTAACC
* *
45670803 GAATTACCC
1 AAATTAACC
*
45670812 AAATTACCC
1 AAATTAACC
* *
45670821 GAATTATCC
1 AAATTAACC
45670830 AAATTAA-C
1 AAATTAACC
45670838 AGAATTAAC
1 A-AATTAAC
45670847 AGAATTATCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
8 2 0.05
9 42 0.95
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:45670813 original size:18 final size:18
Alignment explanation
Indices: 45670786--45670846 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
45670776 ATAAGTATAA
45670786 AATTAACCAAATTAACCG
1 AATTAACCAAATTAACCG
* *
45670804 AATTACCCAAATTACCCG
1 AATTAACCAAATTAACCG
* *
45670822 AATTATCCAAATTAACAG
1 AATTAACCAAATTAACCG
45670840 AATTAAC
1 AATTAAC
45670847 AGAATTATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.25
Consensus pattern (18 bp):
AATTAACCAAATTAACCG
Found at i:45670928 original size:13 final size:13
Alignment explanation
Indices: 45670912--45670936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45670902 AATTTTTATG
45670912 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
45670925 ATTGGGTTGGGT
1 ATTGGGTTGGGT
45670937 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:45670936 original size:18 final size:18
Alignment explanation
Indices: 45670913--45670950 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
45670903 ATTTTTATGA
45670913 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
45670931 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
45670949 TT
1 TT
45670951 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:45672407 original size:11 final size:11
Alignment explanation
Indices: 45672391--45672430 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
45672381 GGGGAGAAAG
45672391 TTAAAATTTTT
1 TTAAAATTTTT
45672402 TTAAAATATTTT
1 TTAAAAT-TTTT
*
45672414 TT-AAATATTT
1 TTAAAATTTTT
45672424 TTAAAAT
1 TTAAAAT
45672431 GATGATGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 5 0.19
11 15 0.58
12 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAAAATTTTT
Found at i:45679323 original size:22 final size:22
Alignment explanation
Indices: 45679298--45679345 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
45679288 GTATTGTTAG
**
45679298 TTAAGGGTGGTAAATAACTTAA
1 TTAAGGGTAATAAATAACTTAA
* *
45679320 TTAAGGGTAATAATTAGCTTAA
1 TTAAGGGTAATAAATAACTTAA
45679342 TTAA
1 TTAA
45679346 TAATTAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (22 bp):
TTAAGGGTAATAAATAACTTAA
Found at i:45680572 original size:29 final size:29
Alignment explanation
Indices: 45680534--45680591 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
45680524 TTCCCGAGCC
*
45680534 TAGGGGCAAAAGTGTAATTATGCAAAGTT
1 TAGGGGCAAAAGTGTAATTATCCAAAGTT
*
45680563 TAGGGGCAAAAGTGTAATTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATCCAAAGTT
45680592 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAATTATCCAAAGTT
Found at i:45681067 original size:42 final size:42
Alignment explanation
Indices: 45681017--45681176 Score: 162
Period size: 42 Copynumber: 3.7 Consensus size: 42
45681007 GCTTGAGCAT
*
45681017 CCGAACTCGTTGAGTTGAGTCCGAGTTCATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCATGGATGCGAATGC
* * * *
45681059 CCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCATG-GATGCGAA-T--GC
* * *
45681104 ATCGAACTCGTTGAGTTGAGTCTGAGTTCACTTGGATGCGAACGC
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCA--TGGATGCGAATGC
*
45681149 CCGAGCTCGTTGAGTTGAGT-CGAGTTCA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCA
45681177 CTTAGGAGCG
Statistics
Matches: 95, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 31 0.33
43 11 0.12
44 18 0.19
45 3 0.03
46 25 0.26
47 3 0.03
48 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCATGGATGCGAATGC
Found at i:45688549 original size:46 final size:45
Alignment explanation
Indices: 45688499--45688670 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
45688489 TGGTTGAGCA
45688499 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
45688545 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
45688591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
45688637 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45688671 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:45688653 original size:92 final size:92
Alignment explanation
Indices: 45688496--45688665 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
45688486 GGATGGTTGA
* *
45688496 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45688561 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
45688588 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45688653 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45688666 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:45693147 original size:40 final size:40
Alignment explanation
Indices: 45693094--45693277 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
45693084 TATTCGAATG
* * *
45693094 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
* * * **
45693134 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTTCC
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
* * * *
45693174 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
*
45693214 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCCAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
*
45693254 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
45693278 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 120 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
Found at i:45693227 original size:80 final size:80
Alignment explanation
Indices: 45693094--45693277 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
45693084 TATTCGAATG
* * *
45693094 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAATGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAG-TCCCGAAGGC
* * **
45693158 ATTTGTGCGAGTTTCC
65 ATTTATGCCAGTGACC
* * *
45693174 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAGTCCCGAAGGCA
45693239 TTTATGCCAGTGACC
66 TTTATGCCAGTGACC
45693254 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
45693278 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 92 0.99
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCCAGTGACC
Found at i:45696757 original size:14 final size:14
Alignment explanation
Indices: 45696740--45696766 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45696730 TTCTTTACTT
45696740 TTTTTTAATTTTTG
1 TTTTTTAATTTTTG
45696754 TTTTTTAATTTTT
1 TTTTTTAATTTTT
45696767 CTTGTTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTTAATTTTTG
Found at i:45702034 original size:5 final size:5
Alignment explanation
Indices: 45702024--45702061 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
45702014 CCAATTTGTA
45702024 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
45702062 GAACACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:45705148 original size:225 final size:221
Alignment explanation
Indices: 45704768--45705204 Score: 730
Period size: 225 Copynumber: 2.0 Consensus size: 221
45704758 TAATTAGATC
* * * * *
45704768 ATTCAACAAAATAAGAAATCTGAATCCTATGTTCTTCGGATTTGGGTGAGTCTGTGTTCAGTTTT
1 ATTCAACAAAACAAGAAATCTGAATACTATGTTATTCGGATTTGGATGAGTCTGAGTTCAGTTTT
* *
45704833 TCATGTATTTGGTAGGTTCTTGCCTATCCGTATATATATGTCGAAATGTGTTGAATACAGTTATT
66 TCATGTATTTGGTAGGTTCTTGCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGGTATT
45704898 TCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGCCATA
131 TCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGCCATA
45704963 TTGGTAATAATAATGAATCCTATGTT
196 TTGGTAATAATAATGAATCCTATGTT
* *
45704989 ATTCAACAAAACAAGAAATTTGAATACTATGTTATTCGGATTTGGATGAGTTTGAGTTCAGTTTT
1 ATTCAACAAAACAAGAAATCTGAATACTATGTTATTCGGATTTGGATGAGTCTGAGTTCAGTTTT
*
45705054 TCATGTATTTGGTGGGTTCTTGGGGTCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
66 TCATGTATTTGGTAGGTTCTT---G-CCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
* *
45705119 TATTTCCGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCATCAGC
127 TATTTCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGC
45705184 CATATTGGTAATAATAATGAA
192 CATATTGGTAATAATAATGAA
45705205 ACTACGATGC
Statistics
Matches: 200, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
221 78 0.39
224 1 0.00
225 121 0.61
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (221 bp):
ATTCAACAAAACAAGAAATCTGAATACTATGTTATTCGGATTTGGATGAGTCTGAGTTCAGTTTT
TCATGTATTTGGTAGGTTCTTGCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGGTATT
TCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCAGCCATA
TTGGTAATAATAATGAATCCTATGTT
Found at i:45711560 original size:53 final size:53
Alignment explanation
Indices: 45711454--45711561 Score: 164
Period size: 53 Copynumber: 2.0 Consensus size: 53
45711444 AAGAACCCCT
* * *
45711454 ATAATCAAGGATTGACTCAATCCTAAATAAAGAAATAAATAAAATATCTTCAA
1 ATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATACCTTCAA
*
45711507 ATAATCAAGGATTGACTTAATCCTAAAGAAAGAAAGAAATAAAAT-CCTATCAA
1 ATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATACCT-TCAA
45711560 AT
1 AT
45711562 TTGTCTCAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 2 0.04
53 48 0.96
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.25
Consensus pattern (53 bp):
ATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATACCTTCAA
Found at i:45711974 original size:13 final size:13
Alignment explanation
Indices: 45711956--45711991 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
45711946 CTAAAAACCA
45711956 TGCCTCTGCATTT
1 TGCCTCTGCATTT
*
45711969 TGCCTCTGTATTT
1 TGCCTCTGCATTT
45711982 TGCCTCTGCA
1 TGCCTCTGCA
45711992 CTTGACCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.08, C:0.31, G:0.17, T:0.44
Consensus pattern (13 bp):
TGCCTCTGCATTT
Found at i:45720863 original size:12 final size:12
Alignment explanation
Indices: 45720846--45720870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45720836 ATCATGTTAG
45720846 AAAAAATTCAAA
1 AAAAAATTCAAA
45720858 AAAAAATTCAAA
1 AAAAAATTCAAA
45720870 A
1 A
45720871 TATGTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAATTCAAA
Found at i:45723151 original size:77 final size:77
Alignment explanation
Indices: 45723060--45723207 Score: 251
Period size: 77 Copynumber: 1.9 Consensus size: 77
45723050 TCAAAGCAGT
* * *
45723060 AAAAAAACCATGCAAGGTTTCATGCTTTCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
1 AAAAAAAACATGCAAGGTTTCATGATTCCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
45723125 AAAAGACAATAA
66 AAAAGACAATAA
* *
45723137 AAAAAAAACATGCAAGGTTTCATGATTCCATCTAAATAAGTTTCATCCAAATCATTGCCCATATC
1 AAAAAAAACATGCAAGGTTTCATGATTCCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
45723202 AAAAGA
66 AAAAGA
45723208 GGGATATGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (77 bp):
AAAAAAAACATGCAAGGTTTCATGATTCCATCCAAATAAGTTTCATCCAAAACATTGCCCATATC
AAAAGACAATAA
Found at i:45725157 original size:19 final size:20
Alignment explanation
Indices: 45725133--45725170 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
45725123 AGTAAATTAA
*
45725133 AGCTTAATTAAGAA-AATTT
1 AGCTTAACTAAGAATAATTT
45725152 AGCTTAACTAAGAATAATT
1 AGCTTAACTAAGAATAATT
45725171 AAGTATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (20 bp):
AGCTTAACTAAGAATAATTT
Found at i:45725432 original size:13 final size:13
Alignment explanation
Indices: 45725414--45725438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45725404 TAAAATAAAA
45725414 GAAATAAAGAAAT
1 GAAATAAAGAAAT
45725427 GAAATAAAGAAA
1 GAAATAAAGAAA
45725439 AAGGAAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:45725509 original size:19 final size:19
Alignment explanation
Indices: 45725466--45725510 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
45725456 CACGGTTAGC
45725466 AGGG-AAAGAAAGAAGAAA
1 AGGGAAAAGAAAGAAGAAA
*
45725484 AGAGAAAAGAAA-AAGAAAA
1 AGGGAAAAGAAAGAAG-AAA
45725503 AGGGAAAA
1 AGGGAAAA
45725511 CTAGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (19 bp):
AGGGAAAAGAAAGAAGAAA
Found at i:45733282 original size:17 final size:17
Alignment explanation
Indices: 45733260--45733331 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
45733250 CTAGGCATGG
45733260 AAGCTTGAATTTTTTAC
1 AAGCTTGAATTTTTTAC
*
45733277 AAGCTT--ATTTTTTCC
1 AAGCTTGAATTTTTTAC
* *
45733292 AATTTGGTATGTATTTTTTAC
1 AA---GCT-TGAATTTTTTAC
45733313 AAGCTTGAATTTTTTAC
1 AAGCTTGAATTTTTTAC
45733330 AA
1 AA
45733332 TTGATTAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
15 10 0.23
17 19 0.43
18 4 0.09
19 1 0.02
21 10 0.23
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (17 bp):
AAGCTTGAATTTTTTAC
Found at i:45748560 original size:24 final size:24
Alignment explanation
Indices: 45748533--45748580 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45748523 TCTTCAAACT
45748533 TACCCCTGTTCTGCTATCTGACAG
1 TACCCCTGTTCTGCTATCTGACAG
45748557 TACCCCTGTTCTGCTATCTGACAG
1 TACCCCTGTTCTGCTATCTGACAG
45748581 CTTCGACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (24 bp):
TACCCCTGTTCTGCTATCTGACAG
Found at i:45752588 original size:46 final size:46
Alignment explanation
Indices: 45752503--45752624 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
45752493 CGCCCCTAAG
* * *
45752503 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
* * *
45752549 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
45752595 TGAACTCGGACTCAACTCAACGAGCTCGGA
1 TGAACTCGGACTCAACTCAACGAGCTCGGA
45752625 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
Found at i:45752643 original size:46 final size:45
Alignment explanation
Indices: 45752501--45752643 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
45752491 CCCGCCCCTA
* ** *
45752501 AGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCACCATCC-T
* * ** **
45752546 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCACCATCC-T
*
45752592 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTC-ACCATCCT
45752639 AGTGA
1 AGTGA
45752644 CATGTCACTT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
46 76 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCACCATCCT
Found at i:45753081 original size:30 final size:30
Alignment explanation
Indices: 45753047--45753106 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45753037 ATTTAATATG
45753047 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
45753077 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
45753107 GGCTCGGAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:45760143 original size:93 final size:93
Alignment explanation
Indices: 45760033--45760203 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45760023 GCCCCTAAGT
* *
45760033 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45760098 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
45760126 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45760191 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45760204 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45760200 original size:46 final size:46
Alignment explanation
Indices: 45760028--45760200 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
45760018 AACCCGCCCC
* * * *
45760028 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
45760074 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
45760122 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
45760167 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45760201 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:45760655 original size:30 final size:30
Alignment explanation
Indices: 45760621--45760680 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45760611 ATTTAATACG
45760621 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
45760651 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
45760681 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:45767719 original size:93 final size:93
Alignment explanation
Indices: 45767608--45767778 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
45767598 GCCCCTAAGT
* * *
45767608 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45767673 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
45767701 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45767766 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45767779 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45767768 original size:46 final size:46
Alignment explanation
Indices: 45767603--45767775 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
45767593 AACCCGCCCC
* * * * *
45767603 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
45767649 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
45767697 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
45767742 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45767776 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:45768231 original size:30 final size:30
Alignment explanation
Indices: 45768197--45768256 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
45768187 ATTTAATACG
*
45768197 AACTTTGATAAAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
* * *
45768227 AACTTTTACATAATTACACTTTTTCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
45768257 GGCTCGGGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:45768998 original size:11 final size:12
Alignment explanation
Indices: 45768973--45769003 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
45768963 CAATCATATC
45768973 ATAATTATCAAA
1 ATAATTATCAAA
45768985 ATAATTAT-AAA
1 ATAATTATCAAA
45768996 ATAATTAT
1 ATAATTAT
45769004 TTCTATCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATTATCAAA
Found at i:45772137 original size:20 final size:20
Alignment explanation
Indices: 45772112--45772162 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
45772102 ACTGAAGTGT
45772112 AACAGAGGCA-TCAAAGTCCA
1 AACAGAGGCACT-AAAGTCCA
*
45772132 AACAGAGGCACTAAAGTGCA
1 AACAGAGGCACTAAAGTCCA
*
45772152 AACAAAGGCAC
1 AACAGAGGCAC
45772163 CGAATTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.47, C:0.24, G:0.22, T:0.08
Consensus pattern (20 bp):
AACAGAGGCACTAAAGTCCA
Found at i:45778620 original size:11 final size:11
Alignment explanation
Indices: 45778604--45778641 Score: 60
Period size: 10 Copynumber: 3.5 Consensus size: 11
45778594 CATAGGATTA
45778604 TTCTTTTCTTT
1 TTCTTTTCTTT
45778615 TTCTTTTC-TT
1 TTCTTTTCTTT
45778625 TTCTTTTCTTT
1 TTCTTTTCTTT
45778636 CTTCTT
1 -TTCTT
45778642 CTCTAGCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.40
11 10 0.40
12 5 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:45778638 original size:4 final size:5
Alignment explanation
Indices: 45778604--45778635 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
45778594 CATAGGATTA
45778604 TTCTT TTCTTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT T
45778636 CTTCTTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:45779777 original size:25 final size:25
Alignment explanation
Indices: 45779728--45779778 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
45779718 CCCTTATAAT
* * *
45779728 GTGAAAATGACCATTTTGCCTCTAG
1 GTGAAAATGACCATTATACCCCTAG
45779753 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
45779778 G
1 G
45779779 GATATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:45779833 original size:10 final size:10
Alignment explanation
Indices: 45779818--45779857 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
45779808 CTGTTTTGTA
45779818 CATGATATGC
1 CATGATATGC
45779828 CATGATATGC
1 CATGATATGC
*
45779838 ACCTGATATGC
1 -CATGATATGC
45779849 CATGATATG
1 CATGATATG
45779858 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:45779970 original size:25 final size:25
Alignment explanation
Indices: 45779903--45779972 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
45779893 GAAGAAGTGC
* *
45779903 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
45779928 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
45779953 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
45779973 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:45779985 original size:24 final size:24
Alignment explanation
Indices: 45779902--45779999 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 24
45779892 GGAAGAAGTG
* *
45779902 CAAAAG-GGCTTTGCCCCAATTTAC
1 CAAAAGAGGCTTTGCCCC-AGTTAT
45779926 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
45779951 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
45779975 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
45780000 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
24 21 0.33
25 42 0.67
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:45779996 original size:50 final size:50
Alignment explanation
Indices: 45779903--45779997 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
45779893 GAAGAAGTGC
* **
45779903 AAAAGGGCTTTGCCCCAATTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAAGTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
45779953 AAAAGGGCTTTGCCCC-AGTTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAAGTTACCGAAAAG-GGCTAGGCC-CCAGTT
45779998 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 11 0.29
50 22 0.58
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAAGTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:45784939 original size:48 final size:48
Alignment explanation
Indices: 45784859--45784950 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
45784849 TTCTTGGCTT
* *
45784859 AAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCGTA
1 AAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCGTA
45784907 AAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 AAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
45784951 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.18
Consensus pattern (48 bp):
AAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCGTA
Found at i:45785167 original size:27 final size:27
Alignment explanation
Indices: 45785136--45785277 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
45785126 TTAGTTTACC
* *
45785136 AAATTACCCAAATACCCTCGACTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
*
45785163 AAATTA-CCAAAGTACCCTCAATTTATA
1 AAATTACCCAAA-TACCCTCAATTTGTA
* **
45785190 AAATTACCCAAATATCCTTGATTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
* * * *
45785217 AAATTATCGAAATACCCTCAGTTTGCA
1 AAATTACCCAAATACCCTCAATTTGTA
**
45785244 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
45785271 AAATTAC
1 AAATTAC
45785278 TGAAATAGTC
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
26 5 0.05
27 85 0.89
28 5 0.05
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCAATTTGTA
Found at i:45785283 original size:54 final size:54
Alignment explanation
Indices: 45785130--45785284 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
45785120 AATACTTTAG
* * *
45785130 TTTACCAAATTACCCAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCTCAA
1 TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAA-TACCCTCAA
* * * *
45785184 TTTATAAAATTACCCAAATATCCTTGATTTGTAAAATTA-TCGAAATACCCTCAG
1 TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCAA
* ** *
45785238 TTTGCAAAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATA
1 TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAATA
45785285 GTCCTGTAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
54 80 0.95
55 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAA
Found at i:45785329 original size:27 final size:27
Alignment explanation
Indices: 45785299--45785412 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
45785289 TGTAAGATAG
*
45785299 AATTACCATTTTACCCTTAATTTACAA
1 AATTACCATTTTACCCTCAATTTACAA
*** * * *
45785326 AATTATTGTCTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCAATTTACAA
* *
45785353 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCAATTTACAA
45785380 AATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCAATTTACAA
45785407 AATTAC
1 AATTAC
45785413 TGAAATACCC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCAATTTACAA
Found at i:45785421 original size:27 final size:27
Alignment explanation
Indices: 45785337--45785531 Score: 124
Period size: 27 Copynumber: 7.2 Consensus size: 27
45785327 ATTATTGTCT
* * ***
45785337 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACCAAAA
* * ***
45785364 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACCAAAA
**
45785391 TACCCTCAATTTACAAAATTACTGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
***
45785418 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* ** *
45785445 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
** **
45785472 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
***
45785499 TACCC-CTAATTTTTGAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
45785526 TACCCT
1 TACCCT
45785532 TGTAGGGTAG
Statistics
Matches: 139, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:45785465 original size:81 final size:81
Alignment explanation
Indices: 45785229--45785468 Score: 232
Period size: 81 Copynumber: 3.0 Consensus size: 81
45785219 ATTATCGAAA
* * * ** ** *
45785229 TACCCTCAGTTTGCAAAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATAGTCCT-G-T
1 TACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAATA-CCCTCGAT
45785292 AAGATAGAATTACCATTT
65 AA-ATAGAATTACCATTT
* * *** * *** * *
45785310 TACCCTTAATTTACAAAATTATTGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
1 TACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
*
45785375 TATAGAATTACCATTT
66 AATAGAATTACCATTT
* * *
45785391 TACCCTCAATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
*
45785456 AATAAAATTACCA
66 AATAGAATTACCA
45785469 AAATACCCCT
Statistics
Matches: 122, Mismatches: 35, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
80 3 0.02
81 118 0.97
82 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (81 bp):
TACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
AATAGAATTACCATTT
Found at i:45785476 original size:81 final size:81
Alignment explanation
Indices: 45785136--45785476 Score: 211
Period size: 81 Copynumber: 4.2 Consensus size: 81
45785126 TTAGTTTACC
* * * ** * * * *
45785136 AAATTACCCAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCTCAATTTATAAAATTACCCA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAA-TACCCTCGATTTACAAAATTACCAA
* * ***
45785200 AATATCCTTGATTTGTA
65 AATACCCTCGATAAATA
* * * * * ** **
45785217 AAATTATCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCAATTTGTAAAATTACTGAA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAA
*
45785282 ATAGTCCT-G-TAAGATA
66 ATA-CCCTCGATAA-ATA
* *** * * *** * **
45785298 GAATTACCATTTTACCCTTAATTTACAAAATTATTGTCTTACCCTCGATTTACAGAATTACCATT
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAA
* * **
45785363 TTACCCTCAATTTATA
66 ATACCCTCGATAAATA
* *** * *
45785379 GAATTACCATTTTACCCTCAATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAA
*
45785444 ATACCCTCGATCAATA
66 ATACCCTCGATAAATA
45785460 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
45785477 CTGGTTTGTA
Statistics
Matches: 198, Mismatches: 57, Indels: 10
0.75 0.22 0.04
Matches are distributed among these distances:
80 4 0.02
81 186 0.94
82 8 0.04
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.33
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAA
ATACCCTCGATAAATA
Found at i:45785518 original size:54 final size:54
Alignment explanation
Indices: 45785391--45785530 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 54
45785381 ATTACCATTT
** * ** *
45785391 TACCCTCAATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATCAATAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAA
* **
45785445 TACCCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATCAATAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAA
*** *
45785499 TACCC-CTAATTTTTGAAATTACCAAAATACCC
1 TACCCTC-AATCAATAAAATTACCAAAATACCC
45785531 TTGTAGGGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 70 0.99
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (54 bp):
TACCCTCAATCAATAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAA
Found at i:45785545 original size:27 final size:27
Alignment explanation
Indices: 45785515--45785737 Score: 241
Period size: 27 Copynumber: 8.3 Consensus size: 27
45785505 TAATTTTTGA
*
45785515 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
45785542 AATTATTGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
45785569 AATTACCGAAATACCCTTGTAAGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
*
45785596 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
45785623 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
**
45785650 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
45785677 AAATACCGAAATACCC-CGTTAGGGTAG
1 AATTACCGAAATACCCTTG-TAGGGTAG
** * * *
45785704 AATTACCGGGATACTCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
45785731 AATTACC
1 AATTACC
45785738 ATTTTGCCCC
Statistics
Matches: 162, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 160 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:45785546 original size:54 final size:54
Alignment explanation
Indices: 45785432--45785692 Score: 208
Period size: 54 Copynumber: 4.8 Consensus size: 54
45785422 CTTGGTTTAC
* * * **
45785432 AAAATTACCAAAATACCCTCGATCA--ATAAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCAAAATACCC-CTAT-AGGGTAAAATTACCAAAATA-CCCTTGTAAGGT
*** * *
45785486 AAAATTACCAAAATACCCCTA-ATTTTTGAAATTACCAAAATACCCTTGTAGGGT
1 AAAATTACCAAAATACCCCTATA-GGGTAAAATTACCAAAATACCCTTGTAAGGT
* *** *
45785540 AGAATTATTGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAAGGT
1 AAAATTACCAAAATACCCCTATAGGGTAAAATTACCAAAATACCCTTGTAAGGT
* * * ** *
45785594 AAAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGT
1 AAAATTACCAAAATACCCCTATAGGGTAAAATTACCAAAATACCCTTGTAAGGT
* * * * *
45785648 AGAATTACTAAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCC
1 AAAATTACCAAAATACCCCTATAGGGTA-AAATTACCAAAATACCC
45785693 CGTTAGGGTA
Statistics
Matches: 172, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
51 1 0.01
53 8 0.05
54 160 0.93
55 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTATAGGGTAAAATTACCAAAATACCCTTGTAAGGT
Found at i:45785546 original size:81 final size:81
Alignment explanation
Indices: 45785484--45785709 Score: 246
Period size: 81 Copynumber: 2.8 Consensus size: 81
45785474 CCCCTGGTTT
** * *
45785484 GTAAAATTACCAAAATACCC-CTAATTTTTGAAATTACCAAAATACCCTTGTAGGGTAGAATTAT
1 GTAAAATTACCAAAATACCCTCTAA--GGTAAAATTACCAAAATACCCTTGTAGGGTAGAATTAC
45785548 TGAAATACCCCT-ATAGG
64 TGAAATACCCCTGATAGG
* *
45785565 GTAAAATTACCGAAATACCCTTGTAAGGTAAAATTACCAAAATACCCTTGTAGGGTAGAATTACT
1 GTAAAATTACCAAAATACCC-TCTAAGGTAAAATTACCAAAATACCCTTGTAGGGTAGAATTACT
*
45785630 GAAATACCCCTG-TAAG
65 GAAATACCCCTGATAGG
* * * * * *
45785646 GTAGAATTACTAAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCC-CGTTAGGGTAGAATTA
1 GTAAAATTACCAAAATACCC-TCTAAGGTA-AAATTACCAAAATACCCTTG-TAGGGTAGAATTA
45785709 C
63 C
45785710 CGGGATACTC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
80 1 0.01
81 120 0.94
82 3 0.02
83 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCTCTAAGGTAAAATTACCAAAATACCCTTGTAGGGTAGAATTACTG
AAATACCCCTGATAGG
Found at i:45786171 original size:6 final size:6
Alignment explanation
Indices: 45786140--45786196 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
45786130 TTGCATTCAC
* *
45786140 ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
45786188 AGTTCTG AT
1 A-TTCTG AT
45786197 AATGTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 35 0.83
7 4 0.10
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:45788063 original size:46 final size:46
Alignment explanation
Indices: 45787996--45788171 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
45787986 TGTAACCCGC
*
45787996 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCACAT
* * * *
45788042 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTC-G--GAC-A-TTCACAT
* * * ** *
45788092 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCACAT
* *
45788135 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
45788172 TGACCAAATA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 3 0.03
45 2 0.02
46 60 0.57
47 25 0.24
48 2 0.02
49 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:45794396 original size:40 final size:40
Alignment explanation
Indices: 45794352--45794544 Score: 162
Period size: 37 Copynumber: 5.1 Consensus size: 40
45794342 CATGTTGCGT
45794352 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
1 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
* * * * * *
45794392 AGACTAAGATTTG-GGT--TTGATTAGCATGTTG-CGT---
1 AGACTAAGAATGGTGGTAAATAATT-GTAGGTTGCCGTGGG
45794426 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
1 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
* * * * * *
45794466 AGACTAAGATTTG-GGT--TTGATTAGCATGTTG-CGT---
1 AGACTAAGAATGGTGGTAAATAATT-GTAGGTTGCCGTGGG
45794500 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
1 AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
45794540 AGACT
1 AGACT
45794545 TTATTGGCGA
Statistics
Matches: 113, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
34 22 0.19
35 6 0.05
36 12 0.11
37 28 0.25
38 12 0.11
39 6 0.05
40 27 0.24
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (40 bp):
AGACTAAGAATGGTGGTAAATAATTGTAGGTTGCCGTGGG
Found at i:45794430 original size:34 final size:34
Alignment explanation
Indices: 45794322--45794508 Score: 126
Period size: 37 Copynumber: 5.1 Consensus size: 34
45794312 TTTGGTAAGG
45794322 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
* * * * * *
45794356 TAAGAATGGTGGTAAATAATT-GTAGGTTGCCGTGGGAGAC
1 TAAGATTTG-GGT--TTGATTAGCATGTTG-CGT---AGAC
45794396 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
* * * * * *
45794430 TAAGAATGGTGGTAAATAATT-GTAGGTTGCCGTGGGAGAC
1 TAAGATTTG-GGT--TTGATTAGCATGTTG-CGT---AGAC
45794470 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
45794504 TAAGA
1 TAAGA
45794509 ATGGTGGTAA
Statistics
Matches: 113, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
34 27 0.24
35 6 0.05
36 12 0.11
37 28 0.25
38 12 0.11
39 6 0.05
40 22 0.19
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.33
Consensus pattern (34 bp):
TAAGATTTGGGTTTGATTAGCATGTTGCGTAGAC
Found at i:45794443 original size:74 final size:74
Alignment explanation
Indices: 45794322--45794544 Score: 446
Period size: 74 Copynumber: 3.0 Consensus size: 74
45794312 TTTGGTAAGG
45794322 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
45794387 GTGGGAGAC
66 GTGGGAGAC
45794396 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
45794461 GTGGGAGAC
66 GTGGGAGAC
45794470 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
1 TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
45794535 GTGGGAGAC
66 GTGGGAGAC
45794544 T
1 T
45794545 TTATTGGCGA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 149 1.00
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.33
Consensus pattern (74 bp):
TAAGATTTGGGTTTGATTAGCATGTTGCGTAGACTAAGAATGGTGGTAAATAATTGTAGGTTGCC
GTGGGAGAC
Found at i:45795079 original size:25 final size:25
Alignment explanation
Indices: 45795051--45795101 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
45795041 CTCTTATAAT
*
45795051 GTGAAAATGACCATTTTACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
45795076 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
45795101 G
1 G
45795102 GATATGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:45795156 original size:10 final size:10
Alignment explanation
Indices: 45795141--45795180 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
45795131 CTGTTTTGTA
45795141 CATGATATGC
1 CATGATATGC
45795151 CATGATATGC
1 CATGATATGC
*
45795161 ACCTGATATGC
1 -CATGATATGC
45795172 CATGATATG
1 CATGATATG
45795181 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:45796660 original size:12 final size:12
Alignment explanation
Indices: 45796643--45796668 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45796633 ATTCTACCAC
45796643 TTAACTTTTTAG
1 TTAACTTTTTAG
45796655 TTAACTTTTTAG
1 TTAACTTTTTAG
45796667 TT
1 TT
45796669 CTACACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (12 bp):
TTAACTTTTTAG
Found at i:45801327 original size:27 final size:27
Alignment explanation
Indices: 45801296--45801388 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
45801286 TGGATAAGTT
45801296 GTAGAATTACCAAAATACCCCTGT-AG
1 GTAGAATTACCAAAATACCCCTGTAAG
* *
45801322 GATAGAATTATCGAAATACCCCTGTAAG
1 G-TAGAATTACCAAAATACCCCTGTAAG
* * * * *
45801350 GTAGAATTATCGAGATACCCTTGTGAG
1 GTAGAATTACCAAAATACCCCTGTAAG
*
45801377 GTAAAATTACCA
1 GTAGAATTACCA
45801389 TTTTGCCCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAAG
Found at i:45809218 original size:93 final size:93
Alignment explanation
Indices: 45809059--45809235 Score: 284
Period size: 93 Copynumber: 1.9 Consensus size: 93
45809049 TATTTGGGCA
* *
45809059 TCCGAACTCGTTGAGTTGAGCTCGAGTTCGTGAAATGTAACAAGGCATCCGAGCTCGTTTAGTTG
1 TCCGAACTCGTTGAGTTGAGCTCGAGTTCATGAAATGTAACAAGGCATCCGAGCTCGTTGAGTTG
45809124 AGTCCGAGTTCACTTATGGATGTGAACG
66 AGTCCGAGTTCACTTATGGATGTGAACG
* * *
45809152 TCCGAACTCGTTGAGTTGAG-TCTGAGTTCATGAGATGTAACTAGGCATCTGAGCTCGTTGAGTT
1 TCCGAACTCGTTGAGTTGAGCTC-GAGTTCATGAAATGTAACAAGGCATCCGAGCTCGTTGAGTT
*
45809216 GAGTCCGAGTTCGCTTATGG
65 GAGTCCGAGTTCACTTATGG
45809236 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGCTCGAGTTCATGAAATGTAACAAGGCATCCGAGCTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGTGAACG
Found at i:45809219 original size:47 final size:46
Alignment explanation
Indices: 45809055--45809227 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 46
45809045 TAGATATTTG
* *
45809055 GGCATCCGAACTCGTTGAGTTGAG-CTCGAGTTCGTGAAATGTAACAA
1 GGCATCCGAACTCGTTGAGTTGAGTC-CGAGTTCATGAGATGTAAC-A
* * *
45809102 GGCATCCGAGCTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGTGAAC-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGT-AACA
*
45809151 -G--TCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC-A
* *
45809195 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
45809228 GCTTATGGGC
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 3 0.03
46 27 0.26
47 55 0.53
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACA
Found at i:45810911 original size:46 final size:45
Alignment explanation
Indices: 45810844--45811018 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
45810834 TGTAACCCGC
*
45810844 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
45810890 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * **
45810936 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
45810983 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
45811019 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:45810965 original size:93 final size:93
Alignment explanation
Indices: 45810852--45811023 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45810842 GCCCATAAGT
** *
45810852 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45810917 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
45810945 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
45811010 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
45811024 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:45812566 original size:49 final size:49
Alignment explanation
Indices: 45812479--45812715 Score: 246
Period size: 49 Copynumber: 4.8 Consensus size: 49
45812469 GAGGTTAGGG
* **
45812479 GTGTAGTACTAAGTGCAGGCTATTACGTGTACTGGATAATTGGTTGCA-T
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTT-CAGT
* * * * *
45812528 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTGGTTCA-GT
* ** **
45812579 GTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAGG-TCATGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTTCA-GT
*
45812629 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA-T
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGT-TCAGT
* * *
45812678 GTGTAGTACTAAGTGCGGGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
45812716 GCTTTTGCTA
Statistics
Matches: 156, Mismatches: 26, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
49 74 0.47
50 47 0.30
51 35 0.22
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTCAGT
Found at i:45812661 original size:101 final size:97
Alignment explanation
Indices: 45812479--45812702 Score: 270
Period size: 101 Copynumber: 2.3 Consensus size: 97
45812469 GAGGTTAGGG
* *
45812479 GTGTAGTACTAAGTGCAGGCTATTACGTGTACTGGATAATTGGTTGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTTG-ATGTGTAGTACTAAGTGC
* * *
45812544 AGGCTACTATGCGTACCCGATAACTTCGATCACGT
65 AGGCTACTACGCGTACCAGATAA-TT-GATCACAT
* * **
45812579 GTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAGGTCATG-TGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT-GGT--TGATGTGTAGTACTAAGT
* * *
45812643 GCAGGCTACTACGTGTACCAGATAATTGGTCGCAT
63 GCAGGCTACTACGCGTACCAGATAATTGATCACAT
*
45812678 GTGTAGTACTAAGTGCGGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
45812703 TGCGTACCAG
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 28 0.26
100 37 0.35
101 40 0.37
103 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (97 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTTGATGTGTAGTACTAAGTGCA
GGCTACTACGCGTACCAGATAATTGATCACAT
Found at i:45813026 original size:11 final size:11
Alignment explanation
Indices: 45813010--45813049 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
45813000 TAAGTTGAAT
45813010 TAAATTTCAAA
1 TAAATTTCAAA
* *
45813021 TAAATTTTGAAT
1 TAAA-TTTCAAA
45813033 TAAATTTCAAA
1 TAAATTTCAAA
45813044 TAAATT
1 TAAATT
45813050 ATGGCATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (11 bp):
TAAATTTCAAA
Found at i:45813030 original size:23 final size:23
Alignment explanation
Indices: 45813004--45813049 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
45812994 ATTGTGTAAG
45813004 TTGAATTAAATTTCAAATAAATT
1 TTGAATTAAATTTCAAATAAATT
45813027 TTGAATTAAATTTCAAATAAATT
1 TTGAATTAAATTTCAAATAAATT
45813050 ATGGCATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTGAATTAAATTTCAAATAAATT
Found at i:45813363 original size:23 final size:23
Alignment explanation
Indices: 45813333--45813378 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
45813323 GAAGCTGTCA
45813333 AACAGCAAAATAGGGGAGAATTT
1 AACAGCAAAATAGGGGAGAATTT
45813356 AACAGCAAAATAGGGGAGAATTT
1 AACAGCAAAATAGGGGAGAATTT
45813379 GAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.26, T:0.17
Consensus pattern (23 bp):
AACAGCAAAATAGGGGAGAATTT
Found at i:45815769 original size:18 final size:18
Alignment explanation
Indices: 45815746--45815780 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45815736 ATTTCAGAAT
*
45815746 TATGGGCCCACATGCCCC
1 TATGGGCCCACACGCCCC
45815764 TATGGGCCCACACGCCC
1 TATGGGCCCACACGCCC
45815781 AGATTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
TATGGGCCCACACGCCCC
Found at i:45827324 original size:46 final size:46
Alignment explanation
Indices: 45827271--45827441 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
45827261 ATTGTGAACT
45827271 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCC
* * *
45827317 AGTGTAAGACCATGTCT-GAGACATGGCAT---CAACATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTAG-GACAT-GCATCGGCCACATT---ATGAGAGCC
* * ** * *
45827365 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA-AGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATG-AGAGCC
45827411 AGTGTAAGACATGTCTAGGACATGCATCGGC
1 AGTGTAAGACATGTCTAGGACATGCATCGGC
45827442 TACGAGATGT
Statistics
Matches: 102, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
45 6 0.06
46 47 0.46
47 25 0.25
48 21 0.21
49 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCC
Found at i:45835212 original size:20 final size:20
Alignment explanation
Indices: 45835196--45835288 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
45835186 TTTTGCAATA
45835196 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
* ** * *
45835216 ATAAACACCAAAGTG-TAAC
1 AGAGGCACCGAAGTGCAAAC
* *
45835235 AGAGGCGCTGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
45835255 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
* *
45835275 AAAGGGACCGAAGT
1 AGAGGCACCGAAGT
45835289 TCAATCCTGT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
19 12 0.21
20 44 0.79
ACGTcount: A:0.42, C:0.22, G:0.28, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:45847599 original size:24 final size:24
Alignment explanation
Indices: 45847548--45847608 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
45847538 AATATCCAAT
* * *
45847548 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
45847572 GCACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
*
45847596 GCACTACGTGTGC
1 GCACTATGTGTGC
45847609 AAATTCGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:45856189 original size:27 final size:27
Alignment explanation
Indices: 45856123--45856191 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
45856113 ATCGGCACAC
* **
45856123 AGCCATGGGTAAATATGATTTACATAG
1 AGCCATCGGTAAATATGATAGACATAG
* * * *
45856150 AGTCATCGATAAATATGATAGGCATAT
1 AGCCATCGGTAAATATGATAGACATAG
*
45856177 AGCCATTGGTAAATA
1 AGCCATCGGTAAATA
45856192 AGATTTGCAC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (27 bp):
AGCCATCGGTAAATATGATAGACATAG
Found at i:45856608 original size:27 final size:26
Alignment explanation
Indices: 45856578--45856731 Score: 137
Period size: 27 Copynumber: 5.7 Consensus size: 26
45856568 TACCCTATAG
45856578 GGGTATTTCGATAATTTTACACTACAA
1 GGGTATTTCGATAATTTTACA-TACAA
* * **
45856605 GGGTATTTCGATAACTTTACAAACTGG
1 GGGTATTTCGATAATTTTACATAC-AA
* * * *
45856632 GGGTATATCGGTAATTTTACAAACTAG
1 GGGTATTTCGATAATTTTACATAC-AA
** * *
45856659 GGGTATTTTAATAATTTTACAATTCGA
1 GGGTATTTCGATAATTTTAC-ATACAA
*
45856686 GGGTATTTCGATAATTTTACAATTCAA
1 GGGTATTTCGATAATTTTAC-ATACAA
*
45856713 GGGTATTTCGGTAATTTTA
1 GGGTATTTCGATAATTTTA
45856732 AATAGTTTGG
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 101 0.96
28 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACATACAA
Found at i:45856624 original size:54 final size:53
Alignment explanation
Indices: 45856564--45856731 Score: 151
Period size: 54 Copynumber: 3.1 Consensus size: 53
45856554 CAAAACAGTC
*
45856564 ATTTTACCCTATAGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACCATATAGGGGTATTTCGATAATTTTACA-TACAAGGGTATTTCGATA
* * * * * * * **
45856618 ACTTTA-CAAACTGGGGGTATATCGGTAATTTTACAAACTAGGGGTATTTTAATA
1 ATTTTACCATA-TAGGGGTATTTCGATAATTTTACATAC-AAGGGTATTTCGATA
* * * *
45856672 ATTTTACAAT-TCGAGGGTATTTCGATAATTTTACAATTCAAGGGTATTTCGGTA
1 ATTTTACCATATAG-GGGTATTTCGATAATTTTAC-ATACAAGGGTATTTCGATA
45856726 ATTTTA
1 ATTTTA
45856732 AATAGTTTGG
Statistics
Matches: 87, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
53 6 0.07
54 78 0.90
55 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (53 bp):
ATTTTACCATATAGGGGTATTTCGATAATTTTACATACAAGGGTATTTCGATA
Found at i:45856717 original size:81 final size:81
Alignment explanation
Indices: 45856575--45856731 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
45856565 TTTTACCCTA
* * **
45856575 TAGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAACTTTACAAACTGGGGGTATAT
1 TAGGGGTATTTCAATAATTTTACAATACAAGGGTATTTCGATAACTTTACAAACTAAGGGTATAT
45856640 CGGTAATTTTACAAAC
66 CGGTAATTTTACAAAC
* * * * * *
45856656 TAGGGGTATTTTAATAATTTTACAATTCGAGGGTATTTCGATAATTTTAC-AATTCAAGGGTATT
1 TAGGGGTATTTCAATAATTTTACAATACAAGGGTATTTCGATAACTTTACAAACT-AAGGGTATA
45856720 TCGGTAATTTTA
65 TCGGTAATTTTA
45856732 AATAGTTTGG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.05
81 62 0.95
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (81 bp):
TAGGGGTATTTCAATAATTTTACAATACAAGGGTATTTCGATAACTTTACAAACTAAGGGTATAT
CGGTAATTTTACAAAC
Found at i:45858100 original size:24 final size:24
Alignment explanation
Indices: 45858072--45858138 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
45858062 CTCCTTAAAT
*
45858072 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCTTGATA
* * *
45858096 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCTTGATA
*
45858120 CACTCCATAAATCACTCCT
1 CTCTCCATAAATCACTCCT
45858139 ACCTCTCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.27, C:0.34, G:0.03, T:0.36
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCTTGATA
Found at i:45860017 original size:38 final size:38
Alignment explanation
Indices: 45859966--45860041 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
45859956 TAATCACTTC
* *
45859966 ACTTTGCTTAAGGGTTCGTGTTAAAACACAAGCAAATT
1 ACTTTGCTTAAGGGCTCATGTTAAAACACAAGCAAATT
*
45860004 ACTTTGCTTAAGGGCTCATGTTAAAACACAAGCGAATT
1 ACTTTGCTTAAGGGCTCATGTTAAAACACAAGCAAATT
45860042 TGAAGGGGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (38 bp):
ACTTTGCTTAAGGGCTCATGTTAAAACACAAGCAAATT
Found at i:45864663 original size:37 final size:37
Alignment explanation
Indices: 45864602--45864680 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
45864592 TTATTACGAA
* * *
45864602 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
45864639 TTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
45864676 GTCTT
1 GTCTT
45864681 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:45864864 original size:47 final size:47
Alignment explanation
Indices: 45864798--45865294 Score: 763
Period size: 47 Copynumber: 10.7 Consensus size: 47
45864788 CCCTTCGGGA
* * * * * * *
45864798 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
45864845 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45864892 CCTGTCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45864939 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45864986 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45865033 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45865080 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45865127 CTTATCACATATATACACTTTCACATTCATCACATCGGCC--TA---
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45865169 ATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45865216 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45865263 CTTATCACATATATACACATTTCACA-TCATCA
1 CTTATCACATATATACAC-TTTCACATTCATCA
45865295 TCATATATAC
Statistics
Matches: 427, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
42 39 0.09
44 2 0.00
45 2 0.00
47 377 0.88
48 7 0.02
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.