Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 73 of 82
Found at i:26838483 original size:2 final size:2
Alignment explanation
Indices: 26838476--26838507 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26838466 CCTCGCGGTT
*
26838476 TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26838508 CTCCCTCGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:26852290 original size:24 final size:23
Alignment explanation
Indices: 26852266--26852312 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
26852256 TATTTTTTAT
26852266 ATTTTTTCTTTTAATAGTTTCTATA
1 ATTTTTTCTTTTAA-A-TTTCTATA
*
26852291 GATTTTTTTTTTTAAATTTCTA
1 -ATTTTTTCTTTTAAATTTCTA
26852313 CGAATCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 6 0.30
25 1 0.05
26 13 0.65
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTCTTTTAAATTTCTATA
Found at i:26860801 original size:4 final size:4
Alignment explanation
Indices: 26860782--26860850 Score: 70
Period size: 4 Copynumber: 16.8 Consensus size: 4
26860772 TAAATTTTAA
* *
26860782 AAAT AAAAT AAAAT AAAT AAAT AAAT AAAT AAAT AAAAA AAAT AAAA AAATT
1 AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAA-T
26860834 AAA- AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
26860851 AAAAAATCGG
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
3 6 0.11
4 35 0.62
5 15 0.27
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:26860818 original size:25 final size:26
Alignment explanation
Indices: 26860787--26860857 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
26860777 TTTAAAAATA
* *
26860787 AAATAAAATAAATAAATAAA-TAAAT
1 AAATAAAAAAAATAAAAAAATTAAAT
26860812 AAATAAAAAAAATAAAAAAATTAAA-
1 AAATAAAAAAAATAAAAAAATTAAAT
26860837 AAATAAAAAATAA-AAAAAAAT
1 AAATAAAAAA-AATAAAAAAAT
26860858 CGGGATGGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 36 0.86
26 6 0.14
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (26 bp):
AAATAAAAAAAATAAAAAAATTAAAT
Found at i:26860852 original size:8 final size:8
Alignment explanation
Indices: 26860786--26860854 Score: 86
Period size: 8 Copynumber: 8.5 Consensus size: 8
26860776 TTTTAAAAAT
26860786 AAAATAAA
1 AAAATAAA
26860794 ATAAATAAA
1 A-AAATAAA
*
26860803 TAAATAAA
1 AAAATAAA
*
26860811 TAAATAAAA
1 AAAAT-AAA
26860820 AAAATAAA
1 AAAATAAA
*
26860828 AAAATTAA
1 AAAATAAA
26860836 AAAAT-AA
1 AAAATAAA
26860843 AAAATAAA
1 AAAATAAA
26860851 AAAA
1 AAAA
26860855 AATCGGGATG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
7 7 0.13
8 34 0.62
9 14 0.25
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAATAAA
Found at i:26862588 original size:10 final size:10
Alignment explanation
Indices: 26862573--26862599 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26862563 AAAGGCTATA
26862573 TTAAGATAAC
1 TTAAGATAAC
26862583 TTAAGATAAC
1 TTAAGATAAC
26862593 TTAAGAT
1 TTAAGAT
26862600 TAAATGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.33
Consensus pattern (10 bp):
TTAAGATAAC
Found at i:26864271 original size:34 final size:34
Alignment explanation
Indices: 26864200--26864264 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
26864190 TTATCATCAC
* * *
26864200 TTTAATACTCTTCCTCACGTGTAGAGATAACAAA
1 TTTAATACTCTTCCTCACATGTAAAAATAACAAA
**
26864234 TTTAATACTCTTTTTCACATGTAAAAATAAC
1 TTTAATACTCTTCCTCACATGTAAAAATAAC
26864265 GGATTTATCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (34 bp):
TTTAATACTCTTCCTCACATGTAAAAATAACAAA
Found at i:26866585 original size:21 final size:22
Alignment explanation
Indices: 26866524--26866637 Score: 86
Period size: 22 Copynumber: 5.1 Consensus size: 22
26866514 TCAAAATAAC
26866524 TTTTATTATAATTAAATAATAT
1 TTTTATTATAATTAAATAATAT
** * *
26866546 TTTTACCAAAATACAAAT-ATAT
1 TTTTATTATAAT-TAAATAATAT
*
26866568 TTTTATTATAATTTAATAATAT
1 TTTTATTATAATTAAATAATAT
* * * * * *
26866590 TTTATATCAGAAGATAATTAAAAC
1 TTT-TATTATAA-TTAAATAATAT
*
26866614 TTTTATTATAATAAAATAATAT
1 TTTTATTATAATTAAATAATAT
26866636 TT
1 TT
26866638 AATATTAAAA
Statistics
Matches: 65, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
21 3 0.05
22 37 0.57
23 16 0.25
24 9 0.14
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTTATTATAATTAAATAATAT
Found at i:26866624 original size:46 final size:45
Alignment explanation
Indices: 26866517--26866653 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 45
26866507 AATAAAATCA
* *
26866517 AAAT-AACTTTTATTATAATTAAATAATATTTT-TACCAAAATAC
1 AAATAAACTTTTATTATAATTAAATAATATTTTATATCAAAAGAC
* * * * *
26866560 AAATATATTTTTATTATAATTTAATAATATTTTATATCAGAAGAT
1 AAATAAACTTTTATTATAATTAAATAATATTTTATATCAAAAGAC
* * * *
26866605 AATTAAAACTTTTATTATAATAAAATAATATTTAATATTAAAAGAC
1 AAAT-AAACTTTTATTATAATTAAATAATATTTTATATCAAAAGAC
26866651 AAA
1 AAA
26866654 ATATATTCTT
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
43 4 0.05
44 25 0.34
45 10 0.14
46 35 0.47
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (45 bp):
AAATAAACTTTTATTATAATTAAATAATATTTTATATCAAAAGAC
Found at i:26866735 original size:10 final size:10
Alignment explanation
Indices: 26866720--26866798 Score: 58
Period size: 10 Copynumber: 7.9 Consensus size: 10
26866710 ATATTCAAAT
26866720 AATAATATTA
1 AATAATATTA
*
26866730 AATAATATTCTT
1 AATAATA-T-TA
*
26866742 CATAATATT-
1 AATAATATTA
* *
26866751 TATTATAATTA
1 AATAAT-ATTA
26866762 AATAATATT-
1 AATAATATTA
26866771 AAT-ATATTA
1 AATAATATTA
26866780 AATAATATTTA
1 AATAATA-TTA
26866791 AAT-ATATT
1 AATAATATT
26866799 CATTTCGTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
8 5 0.09
9 12 0.21
10 20 0.36
11 12 0.21
12 7 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
AATAATATTA
Found at i:26866735 original size:45 final size:45
Alignment explanation
Indices: 26866675--26866768 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
26866665 ATTAAATTTA
* * *
26866675 AATAATTCTAAATAATATTATTTATTATGTTTATTAT-ATTCAAAT
1 AATAATTCTAAATAATATTATTCATAATATTTATTATAATT-AAAT
*
26866720 AATAATAT-TAAATAATATTCTTCATAATATTTATTATAATTAAAT
1 AATAAT-TCTAAATAATATTATTCATAATATTTATTATAATTAAAT
26866765 AATA
1 AATA
26866769 TTAATATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 39 0.91
46 4 0.09
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (45 bp):
AATAATTCTAAATAATATTATTCATAATATTTATTATAATTAAAT
Found at i:26866787 original size:12 final size:11
Alignment explanation
Indices: 26866710--26866798 Score: 57
Period size: 11 Copynumber: 8.5 Consensus size: 11
26866700 TATGTTTATT
*
26866710 ATATTCAAATA
1 ATATTTAAATA
26866721 ATAATATTAAATA
1 AT-AT-TTAAATA
**
26866734 ATATTCTTCATA
1 ATATT-TAAATA
*
26866746 ATATTT--ATT
1 ATATTTAAATA
*
26866755 ATAATTAAATA
1 ATATTTAAATA
26866766 ATA-TT-AAT-
1 ATATTTAAATA
26866774 ATA-TTAAATA
1 ATATTTAAATA
26866784 ATATTTAAAT-
1 ATATTTAAATA
26866794 ATATT
1 ATATT
26866799 CATTTCGTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
8 5 0.08
9 13 0.20
10 10 0.16
11 15 0.23
12 13 0.20
13 8 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATTTAAATA
Found at i:26866796 original size:20 final size:19
Alignment explanation
Indices: 26866743--26866798 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
26866733 AATATTCTTC
*
26866743 ATAATATTTATTATAATTAA
1 ATAATATTTAATAT-ATTAA
26866763 ATAATA-TTAATATATTAA
1 ATAATATTTAATATATTAA
26866781 ATAATATTTAAATATATT
1 ATAATATTT-AATATATT
26866799 CATTTCGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 11 0.33
19 8 0.24
20 14 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATATTTAATATATTAA
Found at i:26870639 original size:24 final size:24
Alignment explanation
Indices: 26870578--26870633 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
26870568 AGGTGGTGCA
26870578 GGTGGTGCTGCTGGAGGTGGACTT
1 GGTGGTGCTGCTGGAGGTGGACTT
26870602 GGTGGTGCTGCTGGAGGTGGACTT
1 GGTGGTGCTGCTGGAGGTGGACTT
26870626 GGTGGTGC
1 GGTGGTGC
26870634 AACTGGCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.07, C:0.12, G:0.52, T:0.29
Consensus pattern (24 bp):
GGTGGTGCTGCTGGAGGTGGACTT
Found at i:26871235 original size:17 final size:16
Alignment explanation
Indices: 26871194--26871238 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
26871184 AAAAACTCTT
26871194 ATATTAAATTTAA-AA
1 ATATTAAATTTAATAA
*
26871209 ATA-TAGATTTAATAA
1 ATATTAAATTTAATAA
26871224 ATATTAATATTTAAT
1 ATATTAA-ATTTAAT
26871239 TTAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 8 0.32
15 8 0.32
16 2 0.08
17 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATTAAATTTAATAA
Found at i:26871297 original size:38 final size:35
Alignment explanation
Indices: 26871222--26871310 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 35
26871212 TAGATTTAAT
26871222 AAATATTAATATTTAATTTAAAATATTAAAAAATAA
1 AAATATTAATATTTAATTTAAAATATTAAAAAAT-A
** **
26871258 AAGTATATTAATATTTAATTTAAAAGT-TTTTAATTTA
1 AA--ATATTAATATTTAATTTAAAA-TATTAAAAAATA
26871295 AAATATTAATATTTAA
1 AAATATTAATATTTAA
26871311 ATTATTCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
35 14 0.30
36 2 0.04
37 3 0.07
38 26 0.57
39 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (35 bp):
AAATATTAATATTTAATTTAAAATATTAAAAAATA
Found at i:26871308 original size:15 final size:16
Alignment explanation
Indices: 26871290--26871331 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
26871280 AAAGTTTTTA
26871290 ATTTAAAATATT-AAT
1 ATTTAAAATATTCAAT
*
26871305 ATTTAAATTATTCAAT
1 ATTTAAAATATTCAAT
26871321 ACTATTAAAAT
1 A-T-TTAAAAT
26871332 TAAAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 11 0.50
16 4 0.18
17 1 0.05
18 6 0.27
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAAAATATTCAAT
Found at i:26871523 original size:64 final size:64
Alignment explanation
Indices: 26871446--26871631 Score: 219
Period size: 64 Copynumber: 2.9 Consensus size: 64
26871436 TTTGATAAAT
* *
26871446 ACATAAAATTATAGGTTTTGGATATATTACATAATTAATAAATATTAATATTTTTATAGTGAATA
1 ACAT-AAA-TATAGGTTTTGGATATATTACATAATTGATAAATATTAATATTTTTATAGTGAACA
26871511 C
64 C
** * * * *
26871512 ATTTAAATATAGGTTTTGGATGTCTTATATAATTGATAAACATTAATATTTTTATAGTGAACAC
1 ACATAAATATAGGTTTTGGATATATTACATAATTGATAAATATTAATATTTTTATAGTGAACAC
* * * * ** *
26871576 ACATAAATAAAAGTTTTGGATTTTTTACGCAATTGATAAATATTTATATTTTTATA
1 ACATAAATATAGGTTTTGGATATATTACATAATTGATAAATATTAATATTTTTATA
26871632 ATGTTATGAT
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
64 96 0.95
65 3 0.03
66 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.44
Consensus pattern (64 bp):
ACATAAATATAGGTTTTGGATATATTACATAATTGATAAATATTAATATTTTTATAGTGAACAC
Found at i:26887438 original size:26 final size:26
Alignment explanation
Indices: 26887402--26887456 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
26887392 ACAATGTCAC
26887402 CCATTTCTTGCTTTTCTGGATTGCAT
1 CCATTTCTTGCTTTTCTGGATTGCAT
26887428 CCATTTCTTGCTTTTCTGGATTGCAT
1 CCATTTCTTGCTTTTCTGGATTGCAT
26887454 CCA
1 CCA
26887457 ATCTTTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.13, C:0.25, G:0.15, T:0.47
Consensus pattern (26 bp):
CCATTTCTTGCTTTTCTGGATTGCAT
Found at i:26889815 original size:27 final size:27
Alignment explanation
Indices: 26889778--26889830 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
26889768 GGATCATAGC
26889778 TTTTACATAGCTTTAGCAGTATAAAAT
1 TTTTACATAGCTTTAGCAGTATAAAAT
26889805 TTTTACATAGCTTTAGCAGTATAAAA
1 TTTTACATAGCTTTAGCAGTATAAAA
26889831 CCCTAATAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (27 bp):
TTTTACATAGCTTTAGCAGTATAAAAT
Found at i:26891244 original size:24 final size:24
Alignment explanation
Indices: 26891199--26891244 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
26891189 TTAATAGTTT
*
26891199 AAAATATGATGGAATAATAAATAA
1 AAAATATGATGGAATAAAAAATAA
*
26891223 AAAATAT-ATTGAATATAAAAAT
1 AAAATATGATGGAATA-AAAAAT
26891245 TCATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAATATGATGGAATAAAAAATAA
Found at i:26897061 original size:18 final size:19
Alignment explanation
Indices: 26897032--26897075 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
26897022 TCAATGGCAT
26897032 ATTTTTTGATTTTTTTCTG-
1 ATTTTTTGATTTTTTT-TGA
26897051 ATTTTTT-ATTTTTTTTGA
1 ATTTTTTGATTTTTTTTGA
26897069 ATTTTTT
1 ATTTTTT
26897076 TATTGTGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.08
18 15 0.62
19 7 0.29
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (19 bp):
ATTTTTTGATTTTTTTTGA
Found at i:26903991 original size:21 final size:21
Alignment explanation
Indices: 26903965--26904006 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26903955 GTATTTGAAT
26903965 TTTTTTAAATAATT-TAAAAAA
1 TTTTTTAAAT-ATTATAAAAAA
*
26903986 TTTTTTAAGTATTATAAAAAA
1 TTTTTTAAATATTATAAAAAA
26904007 AATTTCATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTTTAAATATTATAAAAAA
Found at i:26904394 original size:42 final size:42
Alignment explanation
Indices: 26904334--26904470 Score: 186
Period size: 42 Copynumber: 3.3 Consensus size: 42
26904324 GATTAATAGT
* * *
26904334 TCTAGCCGTGACCCACCATTGCTAAGATCATGATATACGTAA
1 TCTAGCTGTGACCCACCATTGCCAAGATCATGATATACATAA
* *
26904376 TCTAGCTGTGACCTACCATTGCCAAGCTCATGATATACATAA
1 TCTAGCTGTGACCCACCATTGCCAAGATCATGATATACATAA
* * *
26904418 GCTAGCTGTGACCCATCATTGCCAAGATCATGATATACATGA
1 TCTAGCTGTGACCCACCATTGCCAAGATCATGATATACATAA
*
26904460 -CCAGCTGTGAC
1 TCTAGCTGTGAC
26904471 TTAAGTTAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 10 0.12
42 74 0.88
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TCTAGCTGTGACCCACCATTGCCAAGATCATGATATACATAA
Found at i:26907653 original size:138 final size:138
Alignment explanation
Indices: 26907405--26907684 Score: 515
Period size: 138 Copynumber: 2.0 Consensus size: 138
26907395 GACCCTTAAT
26907405 CTTGCTGAACTCAGTTGGGATCTCACCAGTCAAATAATTCTCTGAGAAATCAATTTCTGTTGCAA
1 CTTGCTGAACTCAGTTGGGATCTCACCAGTCAAATAATTCTCTGAGAAATCAATTTCTGTTGCAA
* *
26907470 GAGATAGATTCCCTATCTCCCTTGGAATGCTTCCATTCAATTCATTCGTGTAGAGGTACAACACC
66 GAGATAGATTCCCTATCTCCCTTGGAATGCTTCCATTCAATTCATTCGCGCAGAGGTACAACACC
26907535 CTAAGAAA
131 CTAAGAAA
*
26907543 CTTGCTGAACTCAGTTGGGATCTCACCTGTCAAATAATTCTCTGAGAAATCAATTTCTGTTGCAA
1 CTTGCTGAACTCAGTTGGGATCTCACCAGTCAAATAATTCTCTGAGAAATCAATTTCTGTTGCAA
**
26907608 GAGATAGATTCCCTATCTCCCTTGGAATGCTTCCATTCAATTCATTCGCGCAGAGGTACAACGTC
66 GAGATAGATTCCCTATCTCCCTTGGAATGCTTCCATTCAATTCATTCGCGCAGAGGTACAACACC
26907673 CTAAGAAA
131 CTAAGAAA
26907681 CTTG
1 CTTG
26907685 AGGTCTCCTA
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (138 bp):
CTTGCTGAACTCAGTTGGGATCTCACCAGTCAAATAATTCTCTGAGAAATCAATTTCTGTTGCAA
GAGATAGATTCCCTATCTCCCTTGGAATGCTTCCATTCAATTCATTCGCGCAGAGGTACAACACC
CTAAGAAA
Found at i:26920646 original size:18 final size:19
Alignment explanation
Indices: 26920623--26920658 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26920613 GTTACGTATT
26920623 TTTTTTTTAAAAG-TAATA
1 TTTTTTTTAAAAGATAATA
*
26920641 TTTTTTTTGAAAGATAAT
1 TTTTTTTTAAAAGATAAT
26920659 TTTATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTTTTTAAAAGATAATA
Found at i:26921237 original size:20 final size:20
Alignment explanation
Indices: 26921214--26921266 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
26921204 ATTTTTTTAA
26921214 TTTATATTGTTATTTTTATT
1 TTTATATTGTTATTTTTATT
* *
26921234 TTTATTTTTTTA-TTTTATT
1 TTTATATTGTTATTTTTATT
26921253 TGTTCATA-TGTTAT
1 T-TT-ATATTGTTAT
26921267 AAGTTTCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATATTGTTATTTTTATT
Found at i:26937300 original size:6 final size:6
Alignment explanation
Indices: 26937289--26937317 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
26937279 TTAGGCACTG
26937289 CAAAAA CAAAAA CAAAAA CAAAAA -AAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
26937318 TGGCAGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:26937439 original size:3 final size:3
Alignment explanation
Indices: 26937431--26937464 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
26937421 TAATGTCTAA
26937431 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
26937465 CTACTGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:26937825 original size:21 final size:21
Alignment explanation
Indices: 26937800--26937854 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
26937790 GAACTCATAC
* *
26937800 AAAAACTAATTTATATTT-ATA
1 AAAAAATAAATTAT-TTTAATA
26937821 AAAAAATAAATTATTTTAATA
1 AAAAAATAAATTATTTTAATA
*
26937842 AATAAAAAAAATT
1 AA-AAAATAAATT
26937855 GAAAAGGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.10
21 17 0.59
22 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAAATAAATTATTTTAATA
Found at i:26960062 original size:26 final size:26
Alignment explanation
Indices: 26959988--26960067 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 26
26959978 ATATAACAAC
* * *
26959988 TAAATCTTTAATATGGTATGTAATAAT
1 TAAAT-TTCAATATGCTGTGTAATAAT
*
26960015 TACATTTTTCAATATGAC-GTGTAATAAT
1 TA-A-ATTTCAATATG-CTGTGTAATAAT
26960043 TAAATTTCAATATGCTGTGTAATAA
1 TAAATTTCAATATGCTGTGTAATAA
26960068 CTACATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
25 1 0.02
26 19 0.43
27 3 0.07
28 20 0.45
29 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (26 bp):
TAAATTTCAATATGCTGTGTAATAAT
Found at i:26960075 original size:26 final size:27
Alignment explanation
Indices: 26960006--26960656 Score: 187
Period size: 28 Copynumber: 23.8 Consensus size: 27
26959996 TAATATGGTA
*
26960006 TGTAATAATTACATTTTTCAATATGACG
1 TGTAATAACTACA-TTTTCAATATGACG
* *
26960034 TGTAATAATTA-AATTTCAATATG-CTG
1 TGTAATAACTACATTTTCAATATGAC-G
26960060 TGTAATAACTACATTTTTCAATATGACG
1 TGTAATAACTACA-TTTTCAATATGACG
* * * *
26960088 TATAATAACTA-AGTTTTCAACATAACA
1 TGTAATAACTACA-TTTTCAATATGACG
* * * * * *
26960115 TGTAACAATTAAATTTTTAACATGACC
1 TGTAATAACTACATTTTCAATATGACG
* * * * * *
26960142 TATAACAATTATATTTTTCAATATAACA
1 TGTAATAACTACA-TTTTCAATATGACG
* * * * ** *
26960170 TATAATAACGAAATTATCAACGTGATG
1 TGTAATAACTACATTTTCAATATGACG
* * *
26960197 TGTAATAATTACATTCTTCAATATAACA
1 TGTAATAACTACATT-TTCAATATGACG
* * * * * * *
26960225 TGGAACAACTAAATTTTTAACATAACA
1 TGTAATAACTACATTTTCAATATGACG
* *
26960252 TGTAATAATTACATTTCTCAACATGACG
1 TGTAATAACTACATTT-TCAATATGACG
* * * * *
26960280 TGTAACAATTAAATTTTCAACAT-AGCA
1 TGTAATAACTACATTTTCAATATGA-CG
* * *
26960307 TGTAACAA-TAAAATCTTT-AACATG--G
1 TGTAATAACT-ACAT-TTTCAATATGACG
* * * * *
26960332 TAGATAATAATTATATTTTTTAACATGACA
1 T-G-TAATAACTACA-TTTTCAATATGACG
** * * *
26960362 TGTAACGACTAAATTTTCAACATGAAG
1 TGTAATAACTACATTTTCAATATGACG
* * *
26960389 TGTAACAACTACATTTTTCAAAATGACA
1 TGTAATAACTACA-TTTTCAATATGACG
* *
26960417 TGTAATAACTA-AATTTCTATCATGACG
1 TGTAATAACTACATTTTCAAT-ATGACG
* * *
26960444 TGTAATAACTAAATTTTTCAACATGACA
1 TGTAATAACTACA-TTTTCAATATGACG
* * *
26960472 TGTAACAACTAAATTTTCAATAT-AGCA
1 TGTAATAACTACATTTTCAATATGA-CG
* * * *
26960499 TGTAACAAACTAAATTTTCAACATGACA
1 TGTAA-TAACTACATTTTCAATATGACG
* * * * * *
26960527 TATAACAATTATATTTTTCAACATGACA
1 TGTAATAACTACA-TTTTCAATATGACG
* * * *
26960555 TGTAACAACTAAATTTTTC-ACATGACA
1 TGTAATAACTACA-TTTTCAATATGACG
* * * * *
26960582 TGTAATAATTATATTTTTTAACATGACT
1 TGTAATAACTACA-TTTTCAATATGACG
* *
26960610 TGTAACAACTGA-A-TTTCAATAT-AGCA
1 TGTAATAACT-ACATTTTCAATATGA-CG
* *
26960636 TGTGATAACTACATTTACAAT
1 TGTAATAACTACATTTTCAAT
26960657 GCGATTTTTT
Statistics
Matches: 486, Mismatches: 105, Indels: 65
0.74 0.16 0.10
Matches are distributed among these distances:
25 4 0.01
26 47 0.10
27 209 0.43
28 216 0.44
29 9 0.02
30 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (27 bp):
TGTAATAACTACATTTTCAATATGACG
Found at i:26960132 original size:55 final size:54
Alignment explanation
Indices: 26960018--26960625 Score: 392
Period size: 55 Copynumber: 11.1 Consensus size: 54
26960008 TAATAATTAC
* * * * * * * *
26960018 ATTTTTCAATATGACGTGTAATAATTAAATTTCAATAT-GCTGTGTAATAACTAC
1 ATTTTTCAACATGACATGTAATAATTAATTTTCAACATAAC-ATGTAACAACTAA
* * * * *
26960072 ATTTTTCAATATGACGTATAATAACTAAGTTTTCAACATAACATGTAACAATTAA
1 ATTTTTCAACATGACATGTAATAATTAA-TTTTCAACATAACATGTAACAACTAA
* * * * * * *
26960127 ATTTTT-AACATGACCTATAACAATTATATTTTTCAATATAACATATAATAACGAA
1 ATTTTTCAACATGACATGTAATAATTA-A-TTTTCAACATAACATGTAACAACTAA
* * ** * *
26960182 A-TTATCAACGTGATGTGTAATAATTACATTCTTCAATATAACATGGAACAACTAA
1 ATTTTTCAACATGACATGTAATAATTA-ATT-TTCAACATAACATGTAACAACTAA
* * * *
26960237 ATTTTT-AACATAACATGTAATAATTACATTTCTCAACATGACGTGTAACAATTAA
1 ATTTTTCAACATGACATGTAATAATTA-ATTT-TCAACATAACATGTAACAACTAA
* * *** * * *
26960292 A-TTTTCAACAT-AGCATGTAACAATAAAATCTTT-AACATGGTA-GATAATAATTAT
1 ATTTTTCAACATGA-CATGTAATAAT-TAAT-TTTCAACATAACATG-TAACAACTAA
* * * * * *
26960346 ATTTTTTAACATGACATGTAACGACTAAATTTTCAACATGAA-GTGTAACAACTAC
1 ATTTTTCAACATGACATGTAA-TAATTAATTTTCAACAT-AACATGTAACAACTAA
* * * * * * *
26960401 ATTTTTCAAAATGACATGTAATAACTAAATTTCTATCATGACGTGTAATAACTAA
1 ATTTTTCAACATGACATGTAATAATTAATTTTC-AACATAACATGTAACAACTAA
* * * *
26960456 ATTTTTCAACATGACATGTAACAACTAAATTTTCAATATAGCATGTAACAAACTAA
1 ATTTTTCAACATGACATGTAATAA-TTAATTTTCAACATAACATGTAAC-AACTAA
* * *
26960512 A-TTTTCAACATGACATATAACAATTATATTTTTCAACATGACATGTAACAACTAA
1 ATTTTTCAACATGACATGTAATAATTA-A-TTTTCAACATAACATGTAACAACTAA
* * * *
26960567 ATTTTTC-ACATGACATGTAATAATTATATTTTTTAACATGACTTGTAACAACTGA
1 ATTTTTCAACATGACATGTAATAATTA-A-TTTTCAACATAACATGTAACAACTAA
26960622 ATTT
1 ATTT
26960626 CAATATAGCA
Statistics
Matches: 441, Mismatches: 88, Indels: 49
0.76 0.15 0.08
Matches are distributed among these distances:
53 1 0.00
54 81 0.18
55 313 0.71
56 46 0.10
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (54 bp):
ATTTTTCAACATGACATGTAATAATTAATTTTCAACATAACATGTAACAACTAA
Found at i:26960176 original size:136 final size:137
Alignment explanation
Indices: 26959930--26960574 Score: 482
Period size: 137 Copynumber: 4.7 Consensus size: 137
26959920 AGTCCGATGA
* ** * * * * *
26959930 AACTATATTTTTCAACGTGACATATAACAATTAAATTTTCAACATAGCATATAACAACTAAATCT
1 AACTACATTTTTCAATATGACATATAACAACTAAATTTTCAACATAACATGTAACAATTAAATTT
* ** * * * * * ** * *
26959995 TTAATATGGTATGTAATAATTACATTTTTCAATATGACGTGTAATAATTAAATT-TCAATATGCT
66 TTAACATGACATGTAACAATTAAATTTTTCAATATAACATATAATAACGAAATTATCAACATGAT
26960059 GTGTAAT
131 GTGTAAT
* * *
26960066 AACTACATTTTTCAATATGACGTATAATAACTAAGTTTTCAACATAACATGTAACAATTAAATTT
1 AACTACATTTTTCAATATGACATATAACAACTAAATTTTCAACATAACATGTAACAATTAAATTT
* * * *
26960131 TTAACATGACCTATAACAATTATATTTTTCAATATAACATATAATAACGAAATTATCAACGTGAT
66 TTAACATGACATGTAACAATTAAATTTTTCAATATAACATATAATAACGAAATTATCAACATGAT
26960196 GTGTAAT
131 GTGTAAT
* * * ** * * *
26960203 AATTACATTCTTCAATATAACATGGAACAACTAAATTTTTAACATAACATGTAATAATTACATTT
1 AACTACATTTTTCAATATGACATATAACAACTAAATTTTCAACATAACATGTAACAATTAAATTT
* * * * * * ** *
26960268 CTCAACATGACGTGTAACAATTAAA-TTTTCAACATAGCATGTAACAATAAAATCT-TTAACATG
66 -TTAACATGACATGTAACAATTAAATTTTTCAATATAACATATAATAACGAAAT-TATCAACATG
26960331 --GTAGATAAT
129 ATGT-G-TAAT
* * * * * * * * *
26960340 AATTATATTTTTTAACATGACATGTAACGACTAAATTTTCAACATGAA-GTGTAACAACTACATT
1 AACTACATTTTTCAATATGACATATAACAACTAAATTTTCAACAT-AACATGTAACAATTAAATT
* * * * * * * * *
26960404 TTTCAAAATGACATGTAATAACTAAA--TTTCTATCATGACGTGTAATAACTAAATTTTTCAACA
65 TTT-AACATGACATGTAACAATTAAATTTTTCAAT-ATAACATATAATAACGAAA-TTATCAACA
** *
26960467 TGACATGTAAC
127 TGATGTGTAAT
* * * * *
26960478 AACTA-AATTTTCAATAT-AGCATGTAACAAACTAAATTTTCAACATGACATATAACAATTATAT
1 AACTACATTTTTCAATATGA-CATATAAC-AACTAAATTTTCAACATAACATGTAACAATTAAAT
*
26960541 TTTTCAACATGACATGTAACAACTAAATTTTTCA
64 TTTT-AACATGACATGTAACAATTAAATTTTTCA
26960575 CATGACATGT
Statistics
Matches: 403, Mismatches: 89, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
135 2 0.00
136 104 0.26
137 201 0.50
138 90 0.22
139 1 0.00
140 5 0.01
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (137 bp):
AACTACATTTTTCAATATGACATATAACAACTAAATTTTCAACATAACATGTAACAATTAAATTT
TTAACATGACATGTAACAATTAAATTTTTCAATATAACATATAATAACGAAATTATCAACATGAT
GTGTAAT
Found at i:26960311 original size:110 final size:109
Alignment explanation
Indices: 26959938--26960650 Score: 437
Period size: 110 Copynumber: 6.5 Consensus size: 109
26959928 GAAACTATAT
* * * * * * * * *
26959938 TTTTCAACGTGACATATAACAATTAAATTTTCAACAT-AGCATATAACAACTA-AATCTTTAATA
1 TTTTCAACATGACGTGTAACAACTAAATTTTCAACATGA-CATGTAATAACTACATTCTTCAACA
** * * * * * * *
26960001 TGGTATGTAATAATTACATTTTTCAATATGACGTGTAATAATTAAA
65 TGACATGTAACAACTAAATTTTT-AACATGACATGTAACAACTAAA
* * * * * *
26960047 -TTTCAATATG-CTGTGTAATAACTACATTTTTCAATATGACGTATAATAACTA-AGTT-TTCAA
1 TTTTCAACATGAC-GTGTAACAACTA-AATTTTCAACATGACATGTAATAACTACA-TTCTTCAA
* * * * * *
26960108 CATAACATGTAACAATTAAATTTTTAACATGACCTATAACAATTATAT
63 CATGACATGTAACAACTAAATTTTTAACATGACATGTAACAACTA-AA
* * * * * * * * ** * *
26960156 TTTTCAATATAACATATAATAACGAAATTATCAACGTGATGTGTAATAATTACATTCTTCAATAT
1 TTTTCAACATGACGTGTAACAACTAAATTTTCAACATGACATGTAATAACTACATTCTTCAACAT
* * * * * *
26960221 AACATGGAACAACTAAATTTTTAACATAACATGTAATAATTACA
66 GACATGTAACAACTAAATTTTTAACATGACATGTAACAACTAAA
* * * * *
26960265 TTTCTCAACATGACGTGTAACAATTAAATTTTCAACAT-AGCATGTAACAA-TAAAATCTTTAAC
1 TTT-TCAACATGACGTGTAACAACTAAATTTTCAACATGA-CATGTAATAACTACATTCTTCAAC
** * * * *
26960328 ATGGTA-GATAATAATTATATTTTTTAACATGACATGTAACGACTAAA
64 ATGACATG-TAACAACTA-AATTTTTAACATGACATGTAACAACTAAA
* * * * *
26960375 TTTTCAACATGAAGTGTAACAACTACATTTTTCAAAATGACATGTAATAACTA-AAT-TTCTATC
1 TTTTCAACATGACGTGTAACAACTA-AATTTTCAACATGACATGTAATAACTACATTCTTC-AAC
* *
26960438 ATGACGTGTAATAACTAAATTTTTCAACATGACATGTAACAACTAAA
64 ATGACATGTAACAACTAAATTTTT-AACATGACATGTAACAACTAAA
* * * * * * *
26960485 TTTTCAATAT-AGCATGTAACAAACTAAATTTTCAACATGACATATAACAATTATATTTTTCAAC
1 TTTTCAACATGA-CGTGTAAC-AACTAAATTTTCAACATGACATGTAATAACTACATTCTTCAAC
* * * *
26960549 ATGACATGTAACAACTAAATTTTTCACATGACATGTAATAATTATAT
64 ATGACATGTAACAACTAAATTTTTAACATGACATGTAACAACTA-AA
* * * * *
26960596 TTTTTAACATGACTTGTAACAACTGAA-TTTCAATAT-AGCATGTGATAACTACATT
1 TTTTCAACATGACGTGTAACAACTAAATTTTCAACATGA-CATGTAATAACTACATT
26960651 TACAATGCGA
Statistics
Matches: 468, Mismatches: 110, Indels: 52
0.74 0.17 0.08
Matches are distributed among these distances:
107 1 0.00
108 34 0.07
109 139 0.30
110 238 0.51
111 52 0.11
112 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (109 bp):
TTTTCAACATGACGTGTAACAACTAAATTTTCAACATGACATGTAATAACTACATTCTTCAACAT
GACATGTAACAACTAAATTTTTAACATGACATGTAACAACTAAA
Found at i:26960625 original size:28 final size:27
Alignment explanation
Indices: 26959930--26960625 Score: 385
Period size: 27 Copynumber: 25.3 Consensus size: 27
26959920 AGTCCGATGA
* *
26959930 AACTATATTTTTCAACGTGACATATAAC
1 AACTA-ATTTTTCAACATGACATGTAAC
* * *
26959958 AATTAAATTTTCAACAT-AGCATATAAC
1 AACTAATTTTTCAACATGA-CATGTAAC
* * ** *
26959985 AACTAAATCTTT-AATATGGTATGTAAT
1 AACT-AATTTTTCAACATGACATGTAAC
* * * *
26960012 AATTACATTTTTCAATATGACGTGTAAT
1 AACTA-ATTTTTCAACATGACATGTAAC
* * * * *
26960040 AATTAA-ATTTCAATATG-CTGTGTAAT
1 AACTAATTTTTCAACATGAC-ATGTAAC
* * * *
26960066 AACTACATTTTTCAATATGACGTATAAT
1 AACTA-ATTTTTCAACATGACATGTAAC
* *
26960094 AACTAAGTTTTCAACATAACATGTAAC
1 AACTAATTTTTCAACATGACATGTAAC
* * *
26960121 AATTAAATTTTT-AACATGACCTATAAC
1 AACT-AATTTTTCAACATGACATGTAAC
* * * * *
26960148 AATTATATTTTTCAATATAACATATAAT
1 AACTA-ATTTTTCAACATGACATGTAAC
* * * * ** *
26960176 AACGAAATTATCAACGTGATGTGTAAT
1 AACTAATTTTTCAACATGACATGTAAC
* * * * *
26960203 AATTACATTCTTCAATATAACATGGAAC
1 AACTA-ATTTTTCAACATGACATGTAAC
* *
26960231 AACTAAATTTTT-AACATAACATGTAAT
1 AACT-AATTTTTCAACATGACATGTAAC
* * *
26960258 AATTACATTTCTCAACATGACGTGTAAC
1 AACTA-ATTTTTCAACATGACATGTAAC
* *
26960286 AATTAAATTTTCAACAT-AGCATGTAAC
1 AACTAATTTTTCAACATGA-CATGTAAC
* ** *
26960313 AA-TAAAATCTTT-AACATGGTA-GATAAT
1 AACT--AATTTTTCAACATGACATG-TAAC
* *
26960340 AATTATATTTTTTAACATGACATGTAAC
1 AACTA-ATTTTTCAACATGACATGTAAC
* *
26960368 GACTAAATTTTCAACATGA-AGTGTAAC
1 AACTAATTTTTCAACATGACA-TGTAAC
* *
26960395 AACTACATTTTTCAAAATGACATGTAAT
1 AACTA-ATTTTTCAACATGACATGTAAC
* * * *
26960423 AACTAA-ATTTCTATCATGACGTGTAAT
1 AACTAATTTTTC-AACATGACATGTAAC
26960450 AACTAAATTTTTCAACATGACATGTAAC
1 AACT-AATTTTTCAACATGACATGTAAC
* *
26960478 AACTAAATTTTCAATAT-AGCATGTAAC
1 AACTAATTTTTCAACATGA-CATGTAAC
* *
26960505 AAACTAAATTTTCAACATGACATATAAC
1 -AACTAATTTTTCAACATGACATGTAAC
*
26960533 AATTATATTTTTCAACATGACATGTAAC
1 AACTA-ATTTTTCAACATGACATGTAAC
*
26960561 AACTAAATTTTTC-ACATGACATGTAAT
1 AACT-AATTTTTCAACATGACATGTAAC
* * *
26960588 AATTATATTTTTTAACATGACTTGTAAC
1 AACTA-ATTTTTCAACATGACATGTAAC
26960616 AACTGAATTT
1 AACT-AATTT
26960626 CAATATAGCA
Statistics
Matches: 520, Mismatches: 109, Indels: 78
0.74 0.15 0.11
Matches are distributed among these distances:
25 1 0.00
26 36 0.07
27 237 0.46
28 235 0.45
29 11 0.02
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (27 bp):
AACTAATTTTTCAACATGACATGTAAC
Found at i:26960646 original size:192 final size:190
Alignment explanation
Indices: 26959938--26960651 Score: 758
Period size: 192 Copynumber: 3.7 Consensus size: 190
26959928 GAAACTATAT
* * *
26959938 TTTTCAACGTGACATATAACAATTA-AATTTTCAACAT-AGCATATAACAACTAAATCTTT-AAT
1 TTTTCAACATGACATATAACAATTATATTTTTCAACATGA-CATATAACAACTAAAT-TTTCAAC
* * * * *
26960000 ATGGTATGTAATAATTACATTTTTCAATATGACGTGTAATAATTAAATTTCAATATGCTGTGTAA
64 ATGATATGTAATAATTACATTTTTCAATATGACATGTAACAACTAAATTTCAATATGC-ATGTAA
* * * * * *
26960065 TAACTACATTTTTCAATATGACGTATAATAACTAAGTTTTCAACATAACATGTAACAATTAAA
128 TAACTACATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATAGCATGTAACAACTAAA
* * * * * * * *
26960128 TTTTTAACATGACCTATAACAATTATATTTTTCAATATAACATATAATAACGAAATTATCAACGT
1 TTTTCAACATGACATATAACAATTATATTTTTCAACATGACATATAACAACTAAATTTTCAACAT
* * * * * * *
26960193 GATGTGTAATAATTACATTCTTCAATATAACATGGAACAACTAAATTTTTAACATAACATGTAAT
66 GATATGTAATAATTACATTTTTCAATATGACATGTAACAACTAAA-TTTCAATAT-GCATGTAAT
* * *
26960258 AATTACATTTCTCAACATGACGTGTAACAATTAAATTTTCAACATAGCATGTAACAA-TAAAA
129 AACTACATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATAGCATGTAACAACT-AAA
** * * * * *
26960320 TCTTT-AACATGGTAGATAATAATTATATTTTTTAACATGACATGTAACGACTAAATTTTCAACA
1 T-TTTCAACATGACATATAACAATTATATTTTTCAACATGACATATAACAACTAAATTTTCAACA
* * * * * *
26960384 TGA-AGTGTAACAACTACATTTTTCAAAATGACATGTAATAACTAAATTTCTATCATGACGTGTA
65 TGATA-TGTAATAATTACATTTTTCAATATGACATGTAACAACTAAATTTCAAT-ATG-CATGTA
* * *
26960448 ATAACTAAATTTTTCAACATGACATGTAACAACTAAATTTTCAATATAGCATGTAACAAACTAAA
127 ATAACTACATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATAGCATGTAAC-AACTAAA
*
26960513 TTTTCAACATGACATATAACAATTATATTTTTCAACATGACATGTAACAACTAAATTTTTC-ACA
1 TTTTCAACATGACATATAACAATTATATTTTTCAACATGACATATAACAACTAAA-TTTTCAACA
* * * * * * *
26960577 TGACATGTAATAATTATATTTTTTAACATGACTTGTAACAACTGAATTTCAATATAGCATGTGAT
65 TGATATGTAATAATTACATTTTTCAATATGACATGTAACAACTAAATTTCAATAT-GCATGTAAT
26960642 AACTACATTT
129 AACTACATTT
26960652 ACAATGCGAT
Statistics
Matches: 427, Mismatches: 81, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
190 24 0.06
191 69 0.16
192 227 0.53
193 100 0.23
194 7 0.02
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (190 bp):
TTTTCAACATGACATATAACAATTATATTTTTCAACATGACATATAACAACTAAATTTTCAACAT
GATATGTAATAATTACATTTTTCAATATGACATGTAACAACTAAATTTCAATATGCATGTAATAA
CTACATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATAGCATGTAACAACTAAA
Found at i:26960944 original size:2 final size:2
Alignment explanation
Indices: 26960937--26960979 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
26960927 TAAAGTAAGC
* *
26960937 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26960979 A
1 A
26960980 AGTTTTAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26964680 original size:22 final size:22
Alignment explanation
Indices: 26964639--26964680 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26964629 TTGTGTAATT
*
26964639 TTTAAATTAATTTTTTTTTTCA
1 TTTAAATTAATTTTTGTTTTCA
26964661 TTTAAATT-ATTTTATGTTTT
1 TTTAAATTAATTTT-TGTTTT
26964681 TATCAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTAAATTAATTTTTGTTTTCA
Found at i:26971423 original size:31 final size:31
Alignment explanation
Indices: 26971385--26971457 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 31
26971375 TTCCACCGGT
*
26971385 CTGAGATATTCATGATATATAATCCCTTAAG
1 CTGAGATATTCATGATATATAATCCCTCAAG
26971416 CTGAGATATTCATGATATATAATCCCTCAAG
1 CTGAGATATTCATGATATATAATCCCTCAAG
*
26971447 CTAAGTATATT
1 CTGAG-ATATT
26971458 GACAAGTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 34 0.87
32 5 0.13
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (31 bp):
CTGAGATATTCATGATATATAATCCCTCAAG
Found at i:26974587 original size:67 final size:68
Alignment explanation
Indices: 26974508--26974635 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 68
26974498 TGGAGGTTGA
* * *
26974508 TATAGAAGATGAGAAACAATTGGATGACAGCCC-TGAAAACTTTTGA-GATGCTCAATGCCCAGG
1 TATAGAAGATGAGAAACAATTAGATAACAGCCCGTAAAAACTTTT-ACGATGCTCAATGCCCAGG
26974571 CTGT
65 CTGT
*
26974575 TATAGAAGATGAGAAACAATTAGATAACAGCCCGTAAAAAGTTTTACGATGCTCAATGCCC
1 TATAGAAGATGAGAAACAATTAGATAACAGCCCGTAAAAACTTTTACGATGCTCAATGCCC
26974636 TAGCAGTAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
67 32 0.58
68 23 0.42
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (68 bp):
TATAGAAGATGAGAAACAATTAGATAACAGCCCGTAAAAACTTTTACGATGCTCAATGCCCAGGC
TGT
Found at i:26977410 original size:31 final size:31
Alignment explanation
Indices: 26977375--26977434 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
26977365 ATCTAAAGAT
* *
26977375 TATGAACCAATGTAGTATCATGTGCTTAGTG
1 TATGAACCAATATAATATCATGTGCTTAGTG
26977406 TATGAACCAATATAATATCATGTGCTTAG
1 TATGAACCAATATAATATCATGTGCTTAG
26977435 AGCCTCTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (31 bp):
TATGAACCAATATAATATCATGTGCTTAGTG
Found at i:26992117 original size:22 final size:22
Alignment explanation
Indices: 26992086--26992137 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
26992076 ACCCGCACAG
*
26992086 CACCATCACGCGGCGCTCTCAT
1 CACCACCACGCGGCGCTCTCAT
26992108 CACCACCACGCGGCGCTCTCAT
1 CACCACCACGCGGCGCTCTCAT
26992130 CACCACCA
1 CACCACCA
26992138 TTCGCTCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.50, G:0.15, T:0.13
Consensus pattern (22 bp):
CACCACCACGCGGCGCTCTCAT
Found at i:26998637 original size:1 final size:1
Alignment explanation
Indices: 26998631--26998655 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
26998621 AAATTCCTGC
26998631 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
26998656 CCCTCCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27019073 original size:27 final size:28
Alignment explanation
Indices: 27019041--27019096 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
27019031 CAAGTAGTTA
* *
27019041 TTAATTTAGAATATAAAAAGATTA-AAT
1 TTAATTTAAAATATAAAAAAATTATAAT
27019068 TTAATTTAAAATATAAAAAAATTATAAT
1 TTAATTTAAAATATAAAAAAATTATAAT
27019096 T
1 T
27019097 CCAGAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (28 bp):
TTAATTTAAAATATAAAAAAATTATAAT
Found at i:27026003 original size:121 final size:119
Alignment explanation
Indices: 27025776--27025994 Score: 287
Period size: 121 Copynumber: 1.8 Consensus size: 119
27025766 CATATAATAA
* * * *
27025776 TTTTTTTTTAACATAACGTGTAACTTGATTTCTATTTTTGTATTTCACTAAGACATAAATTATTG
1 TTTTTTTTTAACATAACATGTAACTTGATATCTATCTTTGTATTTCACTAAGACATAAACTATTG
* * *
27025841 AAGTTAAACAGTTTAAACATGATGTGTAATAACTTTGTTTTTCAATGTAACAAT
66 AAGTTAAACACTTTAAACATGATGTGTAACAACTATGTTTTTCAATGTAACAAT
* * * * *
27025895 TTTTTTTTTACAGCATGACATGTAATTTGATATCTATCTTTGTATTTCATTAAGATATAAACTCT
1 TTTTTTTTTA-A-CATAACATGTAACTTGATATCTATCTTTGTATTTCACTAAGACATAAACTAT
27025960 TAGAA-TTAAACACTTTAAACATGACTGTGTAACAA
64 T-GAAGTTAAACACTTTAAACATGA-TGTGTAACAA
27025995 TAATTTTTTG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 10 0.12
120 1 0.01
121 62 0.73
122 12 0.14
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (119 bp):
TTTTTTTTTAACATAACATGTAACTTGATATCTATCTTTGTATTTCACTAAGACATAAACTATTG
AAGTTAAACACTTTAAACATGATGTGTAACAACTATGTTTTTCAATGTAACAAT
Found at i:27027270 original size:57 final size:57
Alignment explanation
Indices: 27027163--27027277 Score: 140
Period size: 57 Copynumber: 2.0 Consensus size: 57
27027153 AAGCATCAGT
* * * * ** *
27027163 CCTCGACTCCAATAATTGCACCACCAGTGCCAGAGGAGAAGAGATGCAAGAATCACC
1 CCTCGACTCCAATAATTGCACCACCAGTACCAGAGAAGAAAACACCCAAGAACCACC
* * *
27027220 CCTCGACTCGAATAATTGCACCACCAGTACCGGAGAAGAAAACCCCCAAGAACCACC
1 CCTCGACTCCAATAATTGCACCACCAGTACCAGAGAAGAAAACACCCAAGAACCACC
27027277 C
1 C
27027278 AAGGTTTACT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.36, C:0.34, G:0.18, T:0.12
Consensus pattern (57 bp):
CCTCGACTCCAATAATTGCACCACCAGTACCAGAGAAGAAAACACCCAAGAACCACC
Found at i:27031272 original size:2 final size:2
Alignment explanation
Indices: 27031265--27031324 Score: 97
Period size: 2 Copynumber: 30.5 Consensus size: 2
27031255 CAGAAAAATC
27031265 TA TA TA TA TA TA TA TA GTA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
27031307 TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA T
27031325 GGAAAGTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.04
2 51 0.93
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27038562 original size:20 final size:20
Alignment explanation
Indices: 27038521--27038559 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
27038511 ATCCCAGTAT
* *
27038521 TTTTTTAATTTTTTTGTCAA
1 TTTTTTAATATTTGTGTCAA
27038541 TTTTTT-ATATTTGTGTCAA
1 TTTTTTAATATTTGTGTCAA
27038560 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTTTTAATATTTGTGTCAA
Found at i:27048107 original size:19 final size:19
Alignment explanation
Indices: 27048050--27048112 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
27048040 TATGAAAAAT
*
27048050 TTATTTTTTATTTTATATAA
1 TTATTTTTTATTATAT-TAA
* * *
27048070 -AATTTTTAATTAAATTTAA
1 TTATTTTTTATTATA-TTAA
27048089 TTATTTTTTATTATATTAA
1 TTATTTTTTATTATATTAA
*
27048108 ATATT
1 TTATT
27048113 GTAGTATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 21 0.64
20 12 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTTTTATTATATTAA
Found at i:27057705 original size:16 final size:16
Alignment explanation
Indices: 27057673--27057706 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27057663 TTTTTTACAA
* *
27057673 TTAATTTATTATTATT
1 TTAATTTATAATAATT
27057689 TTAATTTATAATAATT
1 TTAATTTATAATAATT
27057705 TT
1 TT
27057707 CATAAATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTTATAATAATT
Found at i:27057723 original size:2 final size:2
Alignment explanation
Indices: 27057716--27057745 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27057706 TCATAAATAC
*
27057716 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27057746 GCTTGTAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27067182 original size:29 final size:29
Alignment explanation
Indices: 27067149--27067204 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
27067139 TTAGGCTTCA
*
27067149 AATAAAAGTATAAAAACTTAATTGAATGT
1 AATAAAAATATAAAAACTTAATTGAATGT
*
27067178 AATAAAAATATAAAAACTTATTTGAAT
1 AATAAAAATATAAAAACTTAATTGAAT
27067205 TTTACTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (29 bp):
AATAAAAATATAAAAACTTAATTGAATGT
Found at i:27069827 original size:2 final size:2
Alignment explanation
Indices: 27069820--27069864 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
27069810 GTTAGAACAA
27069820 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27069862 AG A
1 AG A
27069865 AGAAATTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27072066 original size:22 final size:23
Alignment explanation
Indices: 27072040--27072106 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 23
27072030 GTAATATTAG
*
27072040 TAACTAAATTATTAATTTTATA-
1 TAACTAAATTATTAATTTTAAAT
*
27072062 TAACTAAATATATAAAATTATTAAAT
1 TAACTAAAT-TAT-TAATT-TTAAAT
27072088 TAACTAAAATTATTAATTT
1 TAACT-AAATTATTAATTT
27072107 AATTTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 9 0.24
23 3 0.08
24 5 0.14
25 8 0.22
26 8 0.22
27 4 0.11
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TAACTAAATTATTAATTTTAAAT
Found at i:27072097 original size:18 final size:18
Alignment explanation
Indices: 27072074--27072108 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27072064 ACTAAATATA
27072074 TAAAATTATTAAATTAAC
1 TAAAATTATTAAATTAAC
*
27072092 TAAAATTATTAATTTAA
1 TAAAATTATTAAATTAA
27072109 TTTTTTTCTT
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:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATTATTAAATTAAC
Found at i:27074392 original size:30 final size:30
Alignment explanation
Indices: 27074358--27074459 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
27074348 AATCATTAAT
27074358 TATAAAAATTTATTTAATTCAAAATAAAAA
1 TATAAAAATTTATTTAATTCAAAATAAAAA
27074388 TATAAAAATTTATTTAATTCAAAATAAAAA
1 TATAAAAATTTATTTAATTCAAAATAAAAA
* *
27074418 TAT-AAAATTAAATTTAA-T-ATAATAAAAA
1 TATAAAAATT-TATTTAATTCAAAATAAAAA
*
27074446 -ATAATAATTTATTT
1 TATAAAAATTTATTT
27074460 CTATTTTCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
27 6 0.09
28 14 0.21
29 7 0.11
30 39 0.59
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
TATAAAAATTTATTTAATTCAAAATAAAAA
Found at i:27074720 original size:18 final size:19
Alignment explanation
Indices: 27074681--27074720 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27074671 ATTTTTATAT
27074681 ATTTATTTTAAATTAAATA
1 ATTTATTTTAAATTAAATA
27074700 ATTT-TTTTATAATTAAA-A
1 ATTTATTTTA-AATTAAATA
27074718 ATT
1 ATT
27074721 AATTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATTTTAAATTAAATA
Found at i:27074743 original size:25 final size:26
Alignment explanation
Indices: 27074690--27074745 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
27074680 TATTTATTTT
* *
27074690 AAATTAAATAATTTTTTTATAATTAA
1 AAATTAAATAATTATTATATAATTAA
*
27074716 AAATTAATTAATTATTAT-TAATTAA
1 AAATTAAATAATTATTATATAATTAA
27074741 AAATT
1 AAATT
27074746 TTATTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATTAAATAATTATTATATAATTAA
Found at i:27078847 original size:175 final size:168
Alignment explanation
Indices: 27078542--27078891 Score: 502
Period size: 175 Copynumber: 2.0 Consensus size: 168
27078532 CCTAAACACC
* * **
27078542 GTCTTGTATCTGTGGGGTGCTTGTTGGAGTAAGGTGTGGTTAGATTGGAGGATTGGTTTGTATAT
1 GTCTGGTATCTGTGGGGTGCATGCCGGAGTAAGGTGTGGTTAGATTGGAGGATTGGTTTGTATAT
*
27078607 CAAAAGGCAAGGAGTGGCCTCCTGAGGATTTCACTTATGATGCACTGTTTCAGATTTGAAGACTA
66 CAAAAGGCAAGGAGTAGCCTCCTGAGGATTTCACTTATGATGCACTGTTTCAGATTTGAAGACTA
27078672 ATGACATGTTGGTTTCTTAGAGACGACCAAATAGTAAT
131 ATGACATGTTGGTTTCTTAGAGACGACCAAATAGTAAT
* *
27078710 GTCTGGTATCTGTGGGGTGCATGCCGGAGTCAGGTGTGGTTAGGTTGGAGGATTGGTATGTTTGT
1 GTCTGGTATCTGTGGGGTGCATGCCGGAGTAAGGTGTGGTTAGATTGGAGGATT-G---GTTTGT
* * ** *
27078775 ATATCAAAAGGCAAGGAGGAGTAGCCTCCTGAGGATTTTACTTGTTTTGCACTGTTTCATATTTG
62 ATATCAAAAGGC-A--AGGAGTAGCCTCCTGAGGATTTCACTTATGATGCACTGTTTCAGATTTG
* *
27078840 AAGACTAATGGCATGTTGGTTTCTTAGAGACGAGCAAATAGTAAT
124 AAGACTAATGACATGTTGGTTTCTTAGAGACGACCAAATAGTAAT
*
27078885 ATCTGGT
1 GTCTGGT
27078892 GCAAGATTTC
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
168 48 0.30
169 1 0.01
172 18 0.11
173 1 0.01
175 92 0.57
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (168 bp):
GTCTGGTATCTGTGGGGTGCATGCCGGAGTAAGGTGTGGTTAGATTGGAGGATTGGTTTGTATAT
CAAAAGGCAAGGAGTAGCCTCCTGAGGATTTCACTTATGATGCACTGTTTCAGATTTGAAGACTA
ATGACATGTTGGTTTCTTAGAGACGACCAAATAGTAAT
Found at i:27093035 original size:30 final size:30
Alignment explanation
Indices: 27092939--27093035 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
27092929 TCAGTAAACT
*
27092939 TCAAATAAGTCTTTATACTTTTA--TTACAT
1 TCAAATAAGTCTTTATACTTTTATTTTA-AG
* * *
27092968 TCAATTAAGTTTTTATACTTTTATTCTAAG
1 TCAAATAAGTCTTTATACTTTTATTTTAAG
* * * * *
27092998 CCTAATAAGTCATTGTACTTTTATTTTGAG
1 TCAAATAAGTCTTTATACTTTTATTTTAAG
27093028 TCAAATAA
1 TCAAATAA
27093036 ATATTTATGA
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
29 21 0.40
30 29 0.56
31 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (30 bp):
TCAAATAAGTCTTTATACTTTTATTTTAAG
Found at i:27093171 original size:33 final size:33
Alignment explanation
Indices: 27093115--27093177 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
27093105 TCATGCTAAC
* *
27093115 ATATCATAATTGATAATGGTGTGATATACTGAT
1 ATATCATAATTGATAATGATGTGACATACTGAT
* *
27093148 ATATTATAATTGATGATGATGTGACATACT
1 ATATCATAATTGATAATGATGTGACATACT
27093178 AATTTGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (33 bp):
ATATCATAATTGATAATGATGTGACATACTGAT
Found at i:27093190 original size:33 final size:33
Alignment explanation
Indices: 27093110--27093180 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
27093100 ATGTATCATG
* * * *
27093110 CTAACATATCATAATTGATAATGGTGTGATATA
1 CTAATATATTATAATTGATAATGATGTGACATA
* *
27093143 CTGATATATTATAATTGATGATGATGTGACATA
1 CTAATATATTATAATTGATAATGATGTGACATA
27093176 CTAAT
1 CTAAT
27093181 TTGATATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (33 bp):
CTAATATATTATAATTGATAATGATGTGACATA
Found at i:27093605 original size:131 final size:130
Alignment explanation
Indices: 27093452--27093709 Score: 507
Period size: 131 Copynumber: 2.0 Consensus size: 130
27093442 TATTTAATTC
27093452 TTTGATGTTTCTTATGTTGCTCATAATACTTCTCTAGCGGGAGTTAAAAATTTATTATTATATGA
1 TTTGATGTTTCTTATGTTGCTCATAATACTTCTCTAGCGGGAGTTAAAAATTTATTATTATATGA
27093517 TATGATGGAAATATGTTTTCTTATGATGATTTCAATTTAATATTACAACTTCTCCATTGAAANTC
66 TATGATGGAAATATGTTTTCTTATGATGATTTCAATTTAATATTACAACTTCTCCATTGAAA-TC
27093582 T
130 T
27093583 TTTGATGTTTCTTATGTTGCTCATAATACTTCTCTAGCGGGAGTTAAAAATTTATTATTATATGA
1 TTTGATGTTTCTTATGTTGCTCATAATACTTCTCTAGCGGGAGTTAAAAATTTATTATTATATGA
27093648 TATGATGGAAATATGTTTTCTTATGATGATTTCAATTTAATATTACAACTTCTCCATTGAAA
66 TATGATGGAAATATGTTTTCTTATGATGATTTCAATTTAATATTACAACTTCTCCATTGAAA
27093710 AAAAAAATAC
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 127 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (130 bp):
TTTGATGTTTCTTATGTTGCTCATAATACTTCTCTAGCGGGAGTTAAAAATTTATTATTATATGA
TATGATGGAAATATGTTTTCTTATGATGATTTCAATTTAATATTACAACTTCTCCATTGAAATCT
Found at i:27104088 original size:31 final size:31
Alignment explanation
Indices: 27104042--27104136 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
27104032 TTTATCAGTC
* *
27104042 ATGTTGTAACACGCCATGCATATAACGTAAA
1 ATGTTATAACTCGCCATGCATATAACGTAAA
27104073 ATGTTATAACTCGCCATGCATATAACGTAAA
1 ATGTTATAACTCGCCATGCATATAACGTAAA
*
27104104 ATGTTATAA-TACGCCATGCATATAAAGTAAA
1 ATGTTATAACT-CGCCATGCATATAACGTAAA
27104135 AT
1 AT
27104137 ATCGTAACAC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 1 0.02
31 59 0.98
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (31 bp):
ATGTTATAACTCGCCATGCATATAACGTAAA
Found at i:27109881 original size:29 final size:28
Alignment explanation
Indices: 27109849--27109918 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
27109839 CTCGTATACT
* *
27109849 TATTCATGTACAGCTTATTCTCTTGTACC
1 TATTC-TGTACAGCTTATTCTATCGTACC
* *
27109878 TATTCTCATACAGCTTCTTCTATCGTACC
1 TATTCT-GTACAGCTTATTCTATCGTACC
27109907 TATTCTTGTACA
1 TATTC-TGTACA
27109919 CCTCTTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (28 bp):
TATTCTGTACAGCTTATTCTATCGTACC
Found at i:27117783 original size:66 final size:65
Alignment explanation
Indices: 27117696--27117851 Score: 242
Period size: 66 Copynumber: 2.4 Consensus size: 65
27117686 TATAAGTCAC
* * * *
27117696 ATAGAATCAA-AGTTTTAATGAAAAAGATATTCAATATTATTACATAATCAATAAAATATTACAA
1 ATAGAATCAAGATTTTTTATGAAAAAGATATTAAATATTATTACATAATCAATAAAATATAACAA
27117760 ATAGAATCAAGATTTTTTTATGAAAAAGATATTAAATATTATTACATAATCAATAAAATATAACA
1 ATAGAATCAAGA-TTTTTTATGAAAAAGATATTAAATATTATTACATAATCAATAAAATATAACA
27117825 A
65 A
* *
27117826 ATAGAATCAAGGTTTTTTATAAAAAA
1 ATAGAATCAAGATTTTTTATGAAAAA
27117852 AATTAACTCT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
64 10 0.12
65 14 0.17
66 60 0.71
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (65 bp):
ATAGAATCAAGATTTTTTATGAAAAAGATATTAAATATTATTACATAATCAATAAAATATAACAA
Found at i:27118671 original size:29 final size:29
Alignment explanation
Indices: 27118588--27118671 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
27118578 TTGTTCTCGT
* *
27118588 ATACCTGTTCACATAC-ACATTCTTCTATT
1 ATACCTGTTCACGTACAAC-TTCTTCTATC
* * * * * * *
27118617 GTACCTATTCATGTATAGCTTATTCTCTC
1 ATACCTGTTCACGTACAACTTCTTCTATC
27118646 ATACCTGTTCACGTACAACTTCTTCT
1 ATACCTGTTCACGTACAACTTCTTCT
27118672 TTTATATCTT
Statistics
Matches: 39, Mismatches: 15, Indels: 2
0.70 0.27 0.04
Matches are distributed among these distances:
29 38 0.97
30 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.42
Consensus pattern (29 bp):
ATACCTGTTCACGTACAACTTCTTCTATC
Found at i:27122595 original size:11 final size:11
Alignment explanation
Indices: 27122579--27122609 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
27122569 GGCCATTAAG
27122579 AAAATTTATAA
1 AAAATTTATAA
27122590 AAAATTT-TAA
1 AAAATTTATAA
27122600 AAAATTTATA
1 AAAATTTATA
27122610 TAATATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAATTTATAA
Found at i:27122622 original size:21 final size:21
Alignment explanation
Indices: 27122579--27122622 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
27122569 GGCCATTAAG
* *
27122579 AAAATTTATAAAAAATTTTAA
1 AAAATTTATAAAAAATGTAAA
* *
27122600 AAAATTTATATAATATGTAAA
1 AAAATTTATAAAAAATGTAAA
27122621 AA
1 AA
27122623 TTTTCAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATTTATAAAAAATGTAAA
Found at i:27127967 original size:14 final size:15
Alignment explanation
Indices: 27127950--27127983 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
27127940 TATAATATTT
27127950 TTAATAATTT-AATA
1 TTAATAATTTAAATA
*
27127964 TTAATATTTTAAATA
1 TTAATAATTTAAATA
27127979 TTAAT
1 TTAAT
27127984 TTTTGAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATAATTTAAATA
Found at i:27127980 original size:15 final size:15
Alignment explanation
Indices: 27127950--27127997 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
27127940 TATAATATTT
*
27127950 TTAATAATTT-AATA
1 TTAATATTTTAAATA
27127964 TTAATATTTTAAATA
1 TTAATATTTTAAATA
*
27127979 TTAAT-TTTTGAATTA
1 TTAATATTTT-AAATA
27127994 TTAA
1 TTAA
27127998 GTGAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTAATATTTTAAATA
Found at i:27128154 original size:17 final size:17
Alignment explanation
Indices: 27128121--27128154 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27128111 TTAAAAGTAT
*
27128121 TAATATTTTAATCATAA
1 TAATATTTAAATCATAA
*
27128138 TAATATTTAAATTATAA
1 TAATATTTAAATCATAA
27128155 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTTAAATCATAA
Found at i:27128174 original size:51 final size:50
Alignment explanation
Indices: 27128084--27128182 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 50
27128074 ATTATATATT
27128084 ATAAAATATTTTAAATTTAAAAATTAATTAAAAGTATTAATATTTTAATC
1 ATAAAATATTTTAAATTTAAAAATTAATTAAAAGTATTAATATTTTAATC
* * *
27128134 ATAATAATA-TTTAAA-TTATAAATTAAATTACCAATTATTAATATTTTAA
1 ATAA-AATATTTTAAATTTAAAAATT-AATTA-AAAGTATTAATATTTTAA
27128183 ATCAATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 8 0.19
50 15 0.35
51 20 0.47
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (50 bp):
ATAAAATATTTTAAATTTAAAAATTAATTAAAAGTATTAATATTTTAATC
Found at i:27128257 original size:42 final size:42
Alignment explanation
Indices: 27128209--27128526 Score: 165
Period size: 42 Copynumber: 7.2 Consensus size: 42
27128199 TAATATTTAA
*
27128209 AAATAAAATAAAAATAAATAATCATAATAACATTTAAATTAT
1 AAATAAAATAAAAATAAATAATCATATTAACATTTAAATTAT
* ** * ** * * *
27128251 AGATAAAATAGTAGTATTTTATAATATTAATGA-TTAAATTAT
1 AAATAAAATAAAAATAAATAATCATATTAA-CATTTAAATTAT
* * **
27128293 AAATAAAATATTAAATATTAAATAATCAATTATTAATATTCAAAAGAT
1 AAATAAAATA--AAA-A-TAAATAATC-A-TATTAACATTTAAATTAT
* * *
27128341 AAAATTAAATAAAAACAAATAATCATAATAACATTTAAATTAT
1 -AAATAAAATAAAAATAAATAATCATATTAACATTTAAATTAT
* ** * ** * * *
27128384 AGATAAAATAGTAGTATTTTATAATATTAATGA-TTAAATTAT
1 AAATAAAATAAAAATAAATAATCATATTAA-CATTTAAATTAT
* * **
27128426 AAATAAAATATTAATACATAAATAATCAATTATTAATATTCAAAAGAT
1 AAATAAAATA--AA-A-ATAAATAATC-A-TATTAACATTTAAATTAT
* * *
27128474 AAA-ATTAATAAAAAATAAATAATCATAATAAAATTTAAATTAT
1 AAATA-AAAT-AAAAATAAATAATCATATTAACATTTAAATTAT
27128517 AAATAAAATA
1 AAATAAAATA
27128527 TTAATATTTA
Statistics
Matches: 196, Mismatches: 60, Indels: 40
0.66 0.20 0.14
Matches are distributed among these distances:
42 77 0.39
43 34 0.17
44 4 0.02
45 19 0.10
46 12 0.06
47 10 0.05
48 30 0.15
49 10 0.05
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (42 bp):
AAATAAAATAAAAATAAATAATCATATTAACATTTAAATTAT
Found at i:27128345 original size:133 final size:131
Alignment explanation
Indices: 27128208--27128824 Score: 636
Period size: 133 Copynumber: 4.8 Consensus size: 131
27128198 TTAATATTTA
27128208 AAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAGATAAAATAGTAGTATTTTAT
1 AAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAGATAAAATAGTAGTATTTTAT
27128273 AATATTAATGATTAAATTATAAATAAAATATTAAATATTAAATAATCAATTATTAATATTCAAAA
66 AATATTAATGATTAAATTATAAATAAAATATT-AATA-TAAATAATCAATTATTAATATTCAAAA
27128338 GAT
129 GAT
* *
27128341 AAAATTAAATAAAAACAAATAATCATAATAACATTTAAATTATAGATAAAATAGTAGTATTTTAT
1 AAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAGATAAAATAGTAGTATTTTAT
27128406 AATATTAATGATTAAATTATAAATAAAATATTAATACATAAATAATCAATTATTAATATTCAAAA
66 AATATTAATGATTAAATTATAAATAAAATATTAAT--ATAAATAATCAATTATTAATATTCAAAA
27128471 GAT
129 GAT
* * *
27128474 AAAAT-TAATAAAAAATAAATAATCATAATAAAATTTAAATTATAAATAAAATA-T--TA----A
1 AAAATAAAAT-AAAAATAAATAATCATAATAACATTTAAATTATAGATAAAATAGTAGTATTTTA
* * * * * *
27128531 T-AT-TTAAATGA-TAGATTATTAAT--ATTATAAATA-AAAT-ATAAATTATTAATATTTAAAA
65 TAATATT-AATGATTAAATTATAAATAAAATATTAATATAAATAATCAATTATTAATATTCAAAA
*
27128589 AAT
129 GAT
* * * **
27128592 AAATTGAAATAAAAATAAATAATCATAATAACATTTAATATTA-ATGAT-TAA-AGTA-TA-AAT
1 AAAATAAAATAAAAATAAATAATCATAATAACATTTAA-ATTATA-GATAAAATAGTAGTATTTT
* * * * * * *
27128652 AAAATATTAAT-ATTTAAACTATCAATTTTTAATATTTTTAA-ATAAATTAT-ACATTATTAATG
64 ATAATATTAATGA-TTAAATTAT-AA---ATAA-AATATTAATATAAATAATCA-ATTATTAATA
*
27128714 TTTAAAA-AT
122 TTCAAAAGAT
** * * *
27128723 AAAATAATTTAAAAATAAATAATCATAATAACATTAAAATTAT-GAATAAAATATTAGTATTTTT
1 AAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAG-ATAAAATAGTAGTATTTTA
*
27128787 TAATATTAATGATTAGATTATAAATAAAATATTAATAT
65 TAATATTAATGATTAAATTATAAATAAAATATTAATAT
27128825 TTAAAAATAA
Statistics
Matches: 408, Mismatches: 42, Indels: 71
0.78 0.08 0.14
Matches are distributed among these distances:
117 1 0.00
118 56 0.14
119 15 0.04
120 1 0.00
122 9 0.02
123 5 0.01
124 20 0.05
125 8 0.02
126 2 0.00
128 1 0.00
129 7 0.02
130 14 0.03
131 48 0.12
132 28 0.07
133 174 0.43
134 18 0.04
135 1 0.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (131 bp):
AAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAGATAAAATAGTAGTATTTTAT
AATATTAATGATTAAATTATAAATAAAATATTAATATAAATAATCAATTATTAATATTCAAAAGA
T
Found at i:27128512 original size:20 final size:19
Alignment explanation
Indices: 27128479--27128530 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
27128469 AAGATAAAAT
**
27128479 TAATAAAAAATAAATAATCA
1 TAATAAAATTTAAATAAT-A
*
27128499 TAATAAAATTTAAATTATA
1 TAATAAAATTTAAATAATA
27128518 -AATAAAATATTAA
1 TAATAAAAT-TTAA
27128531 TATTTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.29
19 5 0.18
20 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAAATTTAAATAATA
Found at i:27128575 original size:27 final size:27
Alignment explanation
Indices: 27128536--27128587 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
27128526 ATTAATATTT
*
27128536 AAATGATAGATTATTAATATTATAAATA
1 AAATGATAAATTATTAATATT-TAAATA
27128564 AAAT-ATAAATTATTAATATTTAAA
1 AAATGATAAATTATTAATATTTAAA
27128588 AAATAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.17
27 15 0.65
28 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (27 bp):
AAATGATAAATTATTAATATTTAAATA
Found at i:27128588 original size:22 final size:22
Alignment explanation
Indices: 27128519--27128596 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
27128509 TAAATTATAA
*
27128519 ATAAAATATTAATATTT-AAAT
1 ATAAATTATTAATATTTAAAAT
*
27128540 GATAGATTATTAATATTATAAATAAAAT
1 -ATAAATTATTAATA-T-T---TAAAAT
*
27128568 ATAAATTATTAATATTTAAAAA
1 ATAAATTATTAATATTTAAAAT
27128590 ATAAATT
1 ATAAATT
27128597 GAAATAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
22 24 0.52
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 14 0.30
28 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (22 bp):
ATAAATTATTAATATTTAAAAT
Found at i:27128606 original size:118 final size:118
Alignment explanation
Indices: 27128453--27128784 Score: 341
Period size: 131 Copynumber: 2.7 Consensus size: 118
27128443 ATAAATAATC
* *
27128453 AATTATTAATATTCAAAAGATAAAATT-AATAAAAAATAAATAATCATAATAAAATTTAAATTAT
1 AATTATTAATATTTAAAAAAT-AAATTAAAT-AAAAATAAATAATCATAATAAAATTTAAATTAT
27128517 AAATAAAATATTAATATTTAAA-TGAT-AGATTATTAATA-TTATAAATAAAATATA
64 AAATAAAATATTAATATTTAAACT-ATCA-ATTATTAATATTTATAAATAAAATATA
27128571 AATTATTAATATTTAAAAAATAAATTGAAATAAAAATAAATAATCATAATAACATTTAATATTAA
1 AATTATTAATATTTAAAAAATAAATT-AAATAAAAATAAATAATCATAAT-A-A---AAT-TTAA
* * *
27128636 TGATTAAAGTATAAATAAAATATTAATATTTAAACTATCAATTTTTAATATTTTTAAATAAATTA
59 --A-T----TATAAATAAAATATTAATATTTAAACTATCAATTATTAATATTTATAAATAAAATA
27128701 TA
117 TA
* * * * * * *
27128703 CATTATTAATGTTT-AAAAATAAAATAATTTAAAAATAAATAATCATAATAACATTAAAATTATG
1 AATTATTAATATTTAAAAAATAAATTAA-ATAAAAATAAATAATCATAATAAAATTTAAATTATA
*
27128767 AATAAAATATTAGTATTT
65 AATAAAATATTAATATTT
27128785 TTTAATATTA
Statistics
Matches: 182, Mismatches: 13, Indels: 38
0.78 0.06 0.16
Matches are distributed among these distances:
117 5 0.03
118 58 0.32
119 4 0.02
120 1 0.01
122 1 0.01
123 4 0.02
124 4 0.02
125 3 0.02
126 3 0.02
127 1 0.01
129 1 0.01
130 3 0.02
131 66 0.36
132 28 0.15
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (118 bp):
AATTATTAATATTTAAAAAATAAATTAAATAAAAATAAATAATCATAATAAAATTTAAATTATAA
ATAAAATATTAATATTTAAACTATCAATTATTAATATTTATAAATAAAATATA
Found at i:27128742 original size:15 final size:16
Alignment explanation
Indices: 27128714--27128745 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27128704 ATTATTAATG
27128714 TTTAAAAATAAAATAA
1 TTTAAAAATAAAATAA
27128730 TTTAAAAAT-AAATAA
1 TTTAAAAATAAAATAA
27128745 T
1 T
27128746 CATAATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTAAAAATAAAATAA
Found at i:27137720 original size:15 final size:15
Alignment explanation
Indices: 27137697--27137730 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27137687 ACAAAAATAT
*
27137697 AAAACAATTTAGATG
1 AAAAAAATTTAGATG
*
27137712 AAAAAAATTTATATG
1 AAAAAAATTTAGATG
27137727 AAAA
1 AAAA
27137731 TTATATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (15 bp):
AAAAAAATTTAGATG
Found at i:27172812 original size:2 final size:2
Alignment explanation
Indices: 27172805--27172860 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
27172795 ACATAATGTG
* * *
27172805 TA TA TA TA T- TA TA TA TA TA TA TA TA TA CA CA T- TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27172845 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
27172861 AAGATTAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:27172967 original size:7 final size:7
Alignment explanation
Indices: 27172901--27172958 Score: 80
Period size: 7 Copynumber: 8.3 Consensus size: 7
27172891 TTTTAATTAT
*
27172901 TTTTTAT
1 TTTTTAC
27172908 TTTTTAC
1 TTTTTAC
27172915 TTTTTAC
1 TTTTTAC
*
27172922 CTTTTAC
1 TTTTTAC
27172929 TTTTTAC
1 TTTTTAC
27172936 TTTTTAC
1 TTTTTAC
*
27172943 TTTTTCC
1 TTTTTAC
*
27172950 TTATTAC
1 TTTTTAC
27172957 TT
1 TT
27172959 ATTTTTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAC
Found at i:27173398 original size:19 final size:20
Alignment explanation
Indices: 27173376--27173417 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
27173366 TCATTTGAAT
*
27173376 TAAAAATATGAAT-TTATAA
1 TAAAAATATGAATCTAATAA
* *
27173395 TAAATATATTAATCTAATAA
1 TAAAAATATGAATCTAATAA
27173415 TAA
1 TAA
27173418 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAATATGAATCTAATAA
Found at i:27175529 original size:25 final size:28
Alignment explanation
Indices: 27175494--27175553 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 28
27175484 TAATTTTAGG
*
27175494 ATTTTTTTGAAA-AT-TATCATT-ACAA
1 ATTTTTATGAAATATCTATCATTGACAA
* *
27175519 ATTTTTATGAAATTTCTATCATTGAGAA
1 ATTTTTATGAAATATCTATCATTGACAA
27175547 ATTTTTA
1 ATTTTTA
27175554 AAATTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 11 0.38
26 1 0.03
27 7 0.24
28 10 0.34
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (28 bp):
ATTTTTATGAAATATCTATCATTGACAA
Found at i:27176224 original size:26 final size:26
Alignment explanation
Indices: 27176192--27176278 Score: 117
Period size: 26 Copynumber: 3.5 Consensus size: 26
27176182 AGAAACCTAA
27176192 AACCGGTTTAACAGAAGAAACCCTCG
1 AACCGGTTTAACAGAAGAAACCCTCG
* * **
27176218 AACCGGTTTAAC---TGAAACCATAA
1 AACCGGTTTAACAGAAGAAACCCTCG
27176241 AACCGGTTTAACAGAAGAAACCCTCG
1 AACCGGTTTAACAGAAGAAACCCTCG
27176267 AACCGGTTTAAC
1 AACCGGTTTAAC
27176279 TGAAACCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
23 19 0.38
26 31 0.62
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.18
Consensus pattern (26 bp):
AACCGGTTTAACAGAAGAAACCCTCG
Found at i:27176243 original size:49 final size:49
Alignment explanation
Indices: 27176183--27176300 Score: 229
Period size: 49 Copynumber: 2.4 Consensus size: 49
27176173 ACCGGAACCA
27176183 GAAACC-TAAAACCGGTTTAACAGAAGAAACCCTCGAACCGGTTTAACT
1 GAAACCATAAAACCGGTTTAACAGAAGAAACCCTCGAACCGGTTTAACT
27176231 GAAACCATAAAACCGGTTTAACAGAAGAAACCCTCGAACCGGTTTAACT
1 GAAACCATAAAACCGGTTTAACAGAAGAAACCCTCGAACCGGTTTAACT
27176280 GAAACCATAAAACCGGTTTAA
1 GAAACCATAAAACCGGTTTAA
27176301 ATCTTTAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
48 6 0.09
49 63 0.91
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.19
Consensus pattern (49 bp):
GAAACCATAAAACCGGTTTAACAGAAGAAACCCTCGAACCGGTTTAACT
Found at i:27176244 original size:23 final size:24
Alignment explanation
Indices: 27176182--27176300 Score: 109
Period size: 23 Copynumber: 4.9 Consensus size: 24
27176172 CACCGGAACC
27176182 AGAAACC-TAAAACCGGTTTAACAGA
1 AGAAACCATAAAACCGGTTTAAC--A
* **
27176207 AGAAACCCTCGAACCGGTTTAAC-
1 AGAAACCATAAAACCGGTTTAACA
*
27176230 TGAAACCATAAAACCGGTTTAACAGA
1 AGAAACCATAAAACCGGTTTAAC--A
* **
27176256 AGAAACCCTCGAACCGGTTTAAC-
1 AGAAACCATAAAACCGGTTTAACA
*
27176279 TGAAACCATAAAACCGGTTTAA
1 AGAAACCATAAAACCGGTTTAA
27176301 ATCTTTAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
23 37 0.49
25 7 0.09
26 32 0.42
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (24 bp):
AGAAACCATAAAACCGGTTTAACA
Found at i:27176475 original size:11 final size:11
Alignment explanation
Indices: 27176459--27176485 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27176449 ACGGCTCGCT
27176459 CTTTCCTTCCC
1 CTTTCCTTCCC
27176470 CTTTCCTTCCC
1 CTTTCCTTCCC
27176481 CTTTC
1 CTTTC
27176486 TGAAAAAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (11 bp):
CTTTCCTTCCC
Found at i:27183887 original size:100 final size:99
Alignment explanation
Indices: 27183706--27183900 Score: 248
Period size: 100 Copynumber: 2.0 Consensus size: 99
27183696 GTCACACAAA
* ** * *
27183706 CATGCACATAAAACTTCTGTTGTTTAACCAATCTATATTTTGTAATTTCATATATGTAGTGAGTA
1 CATGCACAGAAAACTTCTGTTGTAGAACCAATATATATTTTGTAATTTCAAATATGTAGTGAGTA
* *
27183771 AGCCTTCTGCTTAACATCAATAAGATCAACTTTC
66 AGCCTTCAGCTTAACATCAATAACATCAACTTTC
* * * *
27183805 CATGGACAGAAAACTTCTGTTGTAAGAACCAATATATA-TTTGATGATTTCAAATATTTAGTGTG
1 CATGCACAGAAAACTTCTGTTGT-AGAACCAATATATATTTTG-TAATTTCAAATATGTAGTGAG
**
27183869 TAAGTTTTCAGCTTAACATCAATAACATCAAC
64 TAAGCCTTCAGCTTAACATCAATAACATCAAC
27183901 CTTCTACTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
99 25 0.31
100 56 0.69
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (99 bp):
CATGCACAGAAAACTTCTGTTGTAGAACCAATATATATTTTGTAATTTCAAATATGTAGTGAGTA
AGCCTTCAGCTTAACATCAATAACATCAACTTTC
Found at i:27206793 original size:19 final size:19
Alignment explanation
Indices: 27206749--27206795 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
27206739 GATAAAATAA
*
27206749 TAAAAATATATTTAAAATT
1 TAAAAATATATTTAAAAAT
**
27206768 TTTAAATA-ATTTAAAAAAT
1 TAAAAATATATTT-AAAAAT
27206787 TAAAAATAT
1 TAAAAATAT
27206796 TAAGTAAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAATATATTTAAAAAT
Found at i:27207274 original size:85 final size:87
Alignment explanation
Indices: 27207154--27207325 Score: 233
Period size: 85 Copynumber: 2.0 Consensus size: 87
27207144 TTTAGCACTG
* * * *
27207154 TTTAATTATTTAATGATAAATGTATACCTCGTATTTAAAAAGTTGAATTTCA-T-TTTTT-TAAT
1 TTTAATTATTTAATGACAAACGTATACCTCATATTTAAAAAGTCGAATTT-ATTATTTTTCTAAT
** *
27207216 TAAAAAATGATGTTTAAAAATAA
65 TAAAAAAACAAGTTTAAAAATAA
*
27207239 TTTAATTATTTAATGACAAACGTATATCTCATATTTAAAAAGTCGAATTTATTTATTTTTCTAAT
1 TTTAATTATTTAATGACAAACGTATACCTCATATTTAAAAAGTCGAATTTA-TTATTTTTCTAAT
27207304 TAAAAAAACAAGTTTAAAAATA
65 TAAAAAAACAAGTTTAAAAATA
27207326 GCATCCATTG
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 1 0.01
85 45 0.60
86 1 0.01
87 5 0.07
88 23 0.31
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (87 bp):
TTTAATTATTTAATGACAAACGTATACCTCATATTTAAAAAGTCGAATTTATTATTTTTCTAATT
AAAAAAACAAGTTTAAAAATAA
Found at i:27207691 original size:17 final size:17
Alignment explanation
Indices: 27207661--27207703 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
27207651 TTCTTAATAA
*
27207661 ATATTTA-TATTTTTTTT
1 ATATTTATTA-TTTTATT
*
27207678 ATTTTTATTATTTTATT
1 ATATTTATTATTTTATT
27207695 ATATTTATT
1 ATATTTATT
27207704 TAAAATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATATTTATTATTTTATT
Found at i:27209463 original size:3 final size:3
Alignment explanation
Indices: 27209455--27209490 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
27209445 CAAAGCTTTG
*
27209455 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
27209491 GTGTTACGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:27225499 original size:35 final size:35
Alignment explanation
Indices: 27225453--27225523 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
27225443 TTCACTAACC
27225453 TTTATTATCTAAATTATACAAGTGATCATTGCAAA
1 TTTATTATCTAAATTATACAAGTGATCATTGCAAA
*
27225488 TTTATTATCTAAATTATACATGTGATCATTGCAAA
1 TTTATTATCTAAATTATACAAGTGATCATTGCAAA
27225523 T
1 T
27225524 GCGTATCGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.42
Consensus pattern (35 bp):
TTTATTATCTAAATTATACAAGTGATCATTGCAAA
Found at i:27232556 original size:25 final size:25
Alignment explanation
Indices: 27232527--27232578 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
27232517 GTAAGAAAAC
27232527 TAATAAAAGTGTGCTAAGATAGGTT
1 TAATAAAAGTGTGCTAAGATAGGTT
27232552 TAATAAAAGTGTGCTAAGATAGGTT
1 TAATAAAAGTGTGCTAAGATAGGTT
27232577 TA
1 TA
27232579 GGCATTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (25 bp):
TAATAAAAGTGTGCTAAGATAGGTT
Found at i:27246301 original size:25 final size:25
Alignment explanation
Indices: 27246273--27246323 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
27246263 CCTCTAGTAG
27246273 AGTTTCTAACCATAAAATGGCAGCC
1 AGTTTCTAACCATAAAATGGCAGCC
*
27246298 AGTTTCTAACCATAAAATTGCAGCC
1 AGTTTCTAACCATAAAATGGCAGCC
27246323 A
1 A
27246324 TTATGACTTC
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:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (25 bp):
AGTTTCTAACCATAAAATGGCAGCC
Found at i:27247023 original size:80 final size:81
Alignment explanation
Indices: 27246924--27247109 Score: 295
Period size: 81 Copynumber: 2.3 Consensus size: 81
27246914 TAAATTGGAG
* * * *
27246924 CAATCAAAATTTAACTATTGGTCATCCAATTTGTCTCT-AATTAAT-AAGGATAATTTAGAGATA
1 CAATCAAAATTTAATTATTGATCATCCAATTTGTCTCTAAATAAATCAAGG-TAATTTAAAGATA
*
27246987 ATATTCATATTTTTGAC
65 ATATTCACATTTTTGAC
*
27247004 CAATCAAAATTTAGTTATTGATCATCCAATTTGTCTCTAAATAAATCAAGGTAATTTAAAGATAA
1 CAATCAAAATTTAATTATTGATCATCCAATTTGTCTCTAAATAAATCAAGGTAATTTAAAGATAA
27247069 TATTCACATTTTTGAC
66 TATTCACATTTTTGAC
27247085 CAATCAAAATTTAATTATTGATCAT
1 CAATCAAAATTTAATTATTGATCAT
27247110 TTAATTTATC
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
80 35 0.36
81 58 0.60
82 4 0.04
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (81 bp):
CAATCAAAATTTAATTATTGATCATCCAATTTGTCTCTAAATAAATCAAGGTAATTTAAAGATAA
TATTCACATTTTTGAC
Found at i:27252728 original size:2 final size:2
Alignment explanation
Indices: 27252721--27252747 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27252711 CAAATTGCAA
27252721 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27252748 CACATACTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27261774 original size:36 final size:36
Alignment explanation
Indices: 27261722--27261830 Score: 191
Period size: 36 Copynumber: 3.0 Consensus size: 36
27261712 TCGCGGAAGA
* * *
27261722 CATAGTCAAGCGTTACAACATCACGATTTGATTCAT
1 CATAATCAAGCGTTACAACATCACGATTGGATCCAT
27261758 CATAATCAAGCGTTACAACATCACGATTGGATCCAT
1 CATAATCAAGCGTTACAACATCACGATTGGATCCAT
27261794 CATAATCAAGCGTTACAACATCACGATTGGATCCAT
1 CATAATCAAGCGTTACAACATCACGATTGGATCCAT
27261830 C
1 C
27261831 GGAATCCATT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (36 bp):
CATAATCAAGCGTTACAACATCACGATTGGATCCAT
Found at i:27262584 original size:23 final size:23
Alignment explanation
Indices: 27262554--27262602 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
27262544 ATTATATGAT
*
27262554 TATATCATATTTTTCACTTTTTG
1 TATATCATATTTTTCACTTTTCG
*
27262577 TATATCATATTTTTTACTTTTCG
1 TATATCATATTTTTCACTTTTCG
27262600 TAT
1 TAT
27262603 CAATTCTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.04, T:0.61
Consensus pattern (23 bp):
TATATCATATTTTTCACTTTTCG
Found at i:27263036 original size:2 final size:2
Alignment explanation
Indices: 27263029--27263056 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27263019 ATACCACTTT
27263029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27263057 ATGAAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27263461 original size:17 final size:17
Alignment explanation
Indices: 27263439--27263471 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27263429 AAAATAATAA
27263439 TATTTTT-TTCTATTTTT
1 TATTTTTATTCT-TTTTT
27263456 TATTTTTATTCTTTTT
1 TATTTTTATTCTTTTT
27263472 CAACAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TATTTTTATTCTTTTTT
Found at i:27264059 original size:30 final size:30
Alignment explanation
Indices: 27264025--27264081 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
27264015 TCGAATCCAT
* *
27264025 AATAGAATGAGTAATACGGATGAGACCTTG
1 AATAGAATGAGAAACACGGATGAGACCTTG
27264055 AATAGAATGAGAAACACGGATGAGACC
1 AATAGAATGAGAAACACGGATGAGACC
27264082 CCATCGGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (30 bp):
AATAGAATGAGAAACACGGATGAGACCTTG
Found at i:27266576 original size:10 final size:10
Alignment explanation
Indices: 27266561--27266585 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27266551 CTTTTTTGAG
27266561 ATGACAGCTA
1 ATGACAGCTA
27266571 ATGACAGCTA
1 ATGACAGCTA
27266581 ATGAC
1 ATGAC
27266586 TGTAAACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (10 bp):
ATGACAGCTA
Found at i:27303370 original size:16 final size:15
Alignment explanation
Indices: 27303327--27303380 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
27303317 TGCTATTTGC
27303327 TTTTTTCT-TTTTTAT
1 TTTTTTCTCTTTTT-T
*
27303342 TTTATTCTTTCTTTCTTT
1 TTT-TT-TCTCTTT-TTT
27303360 TTTTTTCTCTTTTTT
1 TTTTTTCTCTTTTTT
27303375 TTTTTT
1 TTTTTT
27303381 GCAAAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 12 0.36
16 8 0.24
17 4 0.12
18 7 0.21
19 2 0.06
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTCTCTTTTTT
Found at i:27307471 original size:2 final size:2
Alignment explanation
Indices: 27307464--27307495 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27307454 AAGCACGACA
27307464 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27307496 AGATGCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27307929 original size:3 final size:3
Alignment explanation
Indices: 27307921--27307948 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27307911 GAACCATACC
27307921 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
27307949 TTTTCTTTAA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:27310597 original size:2 final size:2
Alignment explanation
Indices: 27310590--27310632 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
27310580 TGGTTGATAA
27310590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27310632 A
1 A
27310633 CTACCTAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27314769 original size:29 final size:29
Alignment explanation
Indices: 27314727--27314782 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
27314717 GGTACAGTAT
27314727 CTTATAGTGCTTTGGTTCTTCACTTTTAC
1 CTTATAGTGCTTTGGTTCTTCACTTTTAC
27314756 CTTATAGTGCTTTGGTTCTTCACTTTT
1 CTTATAGTGCTTTGGTTCTTCACTTTT
27314783 CTTTTTGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.12, C:0.20, G:0.14, T:0.54
Consensus pattern (29 bp):
CTTATAGTGCTTTGGTTCTTCACTTTTAC
Found at i:27320086 original size:2 final size:2
Alignment explanation
Indices: 27320079--27320131 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
27320069 AATTTTTAAT
27320079 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A CT- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
27320119 TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA
27320132 ATTACTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:27320133 original size:20 final size:20
Alignment explanation
Indices: 27320079--27320133 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
27320069 AATTTTTAAT
27320079 TATATATAT-ATAT-ATATA
1 TATATATATAATATAATATA
27320097 TATATATATAACT-TAATATA
1 TATATATATAA-TATAATATA
27320117 TATATATATAATATAAT
1 TATATATATAATATAAT
27320134 TACTTTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.27
19 3 0.09
20 21 0.64
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATATATAATATAATATA
Found at i:27320161 original size:11 final size:12
Alignment explanation
Indices: 27320128--27320161 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27320118 ATATATATAA
27320128 TATAATTACTTT
1 TATAATTACTTT
27320140 TATAATTACTTT
1 TATAATTACTTT
*
27320152 T-TAATCACTT
1 TATAATTACTT
27320162 CGCATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TATAATTACTTT
Found at i:27322509 original size:20 final size:21
Alignment explanation
Indices: 27322484--27322522 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
27322474 TTTTATATTC
*
27322484 TTTTTATGA-TTCTAATTGGT
1 TTTTTATGACTACTAATTGGT
27322504 TTTTTATGACTACTAATTG
1 TTTTTATGACTACTAATTG
27322523 ACTAATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTTATGACTACTAATTGGT
Found at i:27324877 original size:2 final size:2
Alignment explanation
Indices: 27324872--27324905 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
27324862 TTTTGGTTTC
*
27324872 AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27324906 TGATGCATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27325977 original size:2 final size:2
Alignment explanation
Indices: 27325970--27326010 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
27325960 TCAATTATCA
27325970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27326011 AATGATGNNN
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27327203 original size:2 final size:2
Alignment explanation
Indices: 27327198--27327229 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27327188 ATATATATAT
27327198 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27327230 GTAAGATGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27329720 original size:2 final size:2
Alignment explanation
Indices: 27329713--27329749 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27329703 NNNNNNCTAC
27329713 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27329750 TTTGGGAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27332694 original size:2 final size:2
Alignment explanation
Indices: 27332687--27332717 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27332677 TGATTTATGC
*
27332687 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27332718 AACCCTGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Done.