Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 90 of 433
Found at i:27115778 original size:29 final size:28
Alignment explanation
Indices: 27115685--27115791 Score: 90
Period size: 29 Copynumber: 3.8 Consensus size: 28
27115675 GCCTAGCGGG
* * * * *
27115685 CCATATAAAGGTGATTTGGCCTAATGGG
1 CCATATGAATGTGATTGGGCCTGATGGA
* * *
27115713 CCATATGAGTATGAATTGGGCCTGATGGGT
1 CCATATGAATGTG-ATTGGGCCTGAT-GGA
*
27115743 CGA-ATGAATGTGAATTGGGCCTGATGGA
1 CCATATGAATGTG-ATTGGGCCTGATGGA
*
27115771 CCATATGAATGAGATTGGGCC
1 CCATATGAATGTGATTGGGCC
27115792 AAGTGGGCCA
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
28 21 0.33
29 38 0.60
30 4 0.06
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (28 bp):
CCATATGAATGTGATTGGGCCTGATGGA
Found at i:27120825 original size:16 final size:16
Alignment explanation
Indices: 27120804--27120843 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
27120794 GAGCCTAGGG
27120804 GCAAAAGTGTAATTAT
1 GCAAAAGTGTAATTAT
27120820 GCAAAAGTGTAATTAT
1 GCAAAAGTGTAATTAT
*
27120836 GAAAAAGT
1 GCAAAAGT
27120844 TTAGGGGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (16 bp):
GCAAAAGTGTAATTAT
Found at i:27121588 original size:49 final size:50
Alignment explanation
Indices: 27121529--27121767 Score: 286
Period size: 49 Copynumber: 4.8 Consensus size: 50
27121519 TGAGGTAACG
*
27121529 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-GGT-AGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCA-CA
* * * * * * *
27121578 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTTAGGTCACA
* * *
27121629 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
* * *
27121679 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
* **
27121728 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
27121768 CTTTGGCTAC
Statistics
Matches: 161, Mismatches: 26, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 75 0.47
50 48 0.30
51 37 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
Found at i:27123845 original size:20 final size:19
Alignment explanation
Indices: 27123801--27123854 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
27123791 ATCTATTCTC
*
27123801 CAAGAGATACAA-T-TGTT
1 CAAGAGATACAACTATTTT
*
27123818 CAAAAGATACAACTATTTAT
1 CAAGAGATACAACTATTT-T
*
27123838 CAAGAGATAGAACTATT
1 CAAGAGATACAACTATT
27123855 GTTTTATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 2 0.07
20 16 0.53
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (19 bp):
CAAGAGATACAACTATTTT
Found at i:27125956 original size:17 final size:17
Alignment explanation
Indices: 27125934--27125991 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
27125924 AAAGAAACAG
27125934 AGTAAGCTTTATAGCTT
1 AGTAAGCTTTATAGCTT
** *
27125951 AGTAAGCCCGTATA-ATT
1 AGTAAG-CTTTATAGCTT
27125968 CAG-AAGCTTTATAGCTT
1 -AGTAAGCTTTATAGCTT
27125985 AGTAAGC
1 AGTAAGC
27125992 CTGTATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 7 0.23
17 17 0.55
18 7 0.23
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (17 bp):
AGTAAGCTTTATAGCTT
Found at i:27125980 original size:34 final size:34
Alignment explanation
Indices: 27125937--27126006 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
27125927 GAAACAGAGT
27125937 AAGCTTTATAGCTTAGTAAGCCCGTATAATTCAG
1 AAGCTTTATAGCTTAGTAAGCCCGTATAATTCAG
*
27125971 AAGCTTTATAGCTTAGTAAGCCTGTATAATTCAG
1 AAGCTTTATAGCTTAGTAAGCCCGTATAATTCAG
27126005 AA
1 AA
27126007 TTAAACTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (34 bp):
AAGCTTTATAGCTTAGTAAGCCCGTATAATTCAG
Found at i:27126344 original size:23 final size:23
Alignment explanation
Indices: 27126295--27126523 Score: 160
Period size: 23 Copynumber: 9.8 Consensus size: 23
27126285 AGTCATGGTT
*
27126295 AGTAAGCTCCTCTTGAGCTGATGAAC
1 AGTAAGCT-CTATTGAGCTGA--AAC
*
27126321 AATAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTATTGAGCTGAAAC
27126344 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTATTGAGCTGAAAC
27126367 AGTAAGCTCTATTGAGCTG-AAC
1 AGTAAGCTCTATTGAGCTGAAAC
** * *
27126389 AGTAAGCTC-ATACAAGTTGGAAC
1 AGTAAGCTCTAT-TGAGCTGAAAC
* * * * * *
27126412 GGTCAGCTCCAATGAGCTAAAAAT
1 AGTAAGCTCTATTGAGCT-GAAAC
*
27126436 AGTAAGCTCT-TTCGAGCTGAATC
1 AGTAAGCTCTATT-GAGCTGAAAC
* * * * * *
27126459 AATAAACTCCAATGAGCTAAAAT
1 AGTAAGCTCTATTGAGCTGAAAC
*
27126482 AGTAAGCTCT-TATGAGCTGAATC
1 AGTAAGCTCTAT-TGAGCTGAAAC
* * *
27126505 GGTAAGCTCCAATGAGCTG
1 AGTAAGCTCTATTGAGCTG
27126524 TGGTCAGTTC
Statistics
Matches: 156, Mismatches: 39, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.01
22 16 0.10
23 104 0.67
24 16 0.10
25 11 0.07
26 7 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAC
Found at i:27126378 original size:46 final size:45
Alignment explanation
Indices: 27126295--27126523 Score: 181
Period size: 46 Copynumber: 4.9 Consensus size: 45
27126285 AGTCATGGTT
* * *
27126295 AGTAAGCTCCTCTTGAGCTGATGAACAATAAGCTCTATTGAGCTGAAAC
1 AGTAAGCT-CT-TTGAGCTGA--AACAGTAAGCTCCAATGAGCTGAAAC
* *
27126344 AGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTATTGAGCTG-AAC
1 AGTAAGCTCT-TTGAGCTGAAACAGTAAGCTCCAATGAGCTGAAAC
*** * * * * * *
27126389 AGTAAGCTCATACAAGTTGGAACGGTCAGCTCCAATGAGCTAAAAAT
1 AGTAAGCTC-TTTGAGCTGAAACAGTAAGCTCCAATGAGCT-GAAAC
* * * * *
27126436 AGTAAGCTCTTTCGAGCTGAATCAATAAACTCCAATGAGCTAAAAT
1 AGTAAGCTCTTT-GAGCTGAAACAGTAAGCTCCAATGAGCTGAAAC
* *
27126482 AGTAAGCTCTTATGAGCTGAATCGGTAAGCTCCAATGAGCTG
1 AGTAAGCTCTT-TGAGCTGAAACAGTAAGCTCCAATGAGCTG
27126524 TGGTCAGTTC
Statistics
Matches: 148, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
45 33 0.22
46 64 0.43
47 32 0.22
48 11 0.07
49 8 0.05
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (45 bp):
AGTAAGCTCTTTGAGCTGAAACAGTAAGCTCCAATGAGCTGAAAC
Found at i:27134385 original size:2 final size:2
Alignment explanation
Indices: 27134378--27134413 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
27134368 CATTTACACT
27134378 TA TA TA TA 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 TA TA TA TA
27134414 ATCATCAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27139554 original size:27 final size:27
Alignment explanation
Indices: 27139424--27139555 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
27139414 ATTACCAAAG
* **
27139424 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
27139451 TACCCTCAATTTATAGAATTA-TCATTT
1 TACCCTCGATTTACAGAATTACT-ATTT
*
27139478 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
27139505 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
27139532 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
27139556 AAATACCCTT
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 94 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:27139554 original size:54 final size:55
Alignment explanation
Indices: 27139424--27139580 Score: 192
Period size: 54 Copynumber: 2.9 Consensus size: 55
27139414 ATTACCAAAG
** ** *
27139424 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTCATTT
27139478 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACT-ATTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTCATTT
* * *** * *
27139532 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTAC
27139581 CAAAATACCC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
54 89 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.40
Consensus pattern (55 bp):
TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTCATTT
Found at i:27139562 original size:27 final size:27
Alignment explanation
Indices: 27139389--27139835 Score: 165
Period size: 27 Copynumber: 16.5 Consensus size: 27
27139379 TAGTTTACCA
* * * *
27139389 TACTAAAATTCCCTCAAATTGTAAAAT
1 TACTAAAATACCCTCGATTTATAAAAT
* * *
27139416 TACCAAAGTACCCTCGATTTATAGAAT
1 TACTAAAATACCCTCGATTTATAAAAT
***** * *
27139443 TACCGTTTTACCCTCAATTTATAGAAT
1 TACTAAAATACCCTCGATTTATAAAAT
*** *
27139470 TA-TCATTTTACCCTCGATTTATAGAAT
1 TACT-AAAATACCCTCGATTTATAAAAT
*** * * *
27139497 TACTATTTTACCCTTGATTTACAGAAT
1 TACTAAAATACCCTCGATTTATAAAAT
*** *
27139524 TACTATTTTACCCTCGATTTACAAAAT
1 TACTAAAATACCCTCGATTTATAAAAT
* * *
27139551 TACTAAAATACCCTTGGTTTACAAAAT
1 TACTAAAATACCCTCGATTTATAAAAT
* *
27139578 TACCAAAATACCCTCGA-TCAGTAAAAT
1 TACTAAAATACCCTCGATTTA-TAAAAT
* * * * *
27139605 TACCAAAATATCCTAG-TCTGTAAAAT
1 TACTAAAATACCCTCGATTTATAAAAT
* *
27139631 TACTAAAATACCC-CTGGTTTGTAAAAT
1 TACTAAAATACCCTC-GATTTATAAAAT
** * *
27139658 TACCGAAATACCCTCAATTTGTAAAAT
1 TACTAAAATACCCTCGATTTATAAAAT
* * *
27139685 TACCAAAATACCC-CTAGTTTGTAAAAT
1 TACTAAAATACCCTCGA-TTTATAAAAT
* * * * *
27139712 TACCAAAATGCCACT-GGTTTGTGAAAT
1 TACTAAAATACC-CTCGATTTATAAAAT
* * * *
27139739 TACTGAAATACCC-CTAATTTACAAAGT
1 TACTAAAATACCCTC-GATTTATAAAAT
* * *
27139766 TAC-AGAAATACCTTTGACTTTCTAAAAAT
1 TACTA-AAATACCCTCGA-TTTAT-AAAAT
* * * * *
27139795 TA-TGGAAATACCATTGGTTTACAAAAT
1 TACT-AAAATACCCTCGATTTATAAAAT
27139822 TACTAAAATACCCT
1 TACTAAAATACCCT
27139836 TGGTTTGTAG
Statistics
Matches: 330, Mismatches: 71, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
26 23 0.07
27 281 0.85
28 10 0.03
29 16 0.05
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACTAAAATACCCTCGATTTATAAAAT
Found at i:27139590 original size:81 final size:81
Alignment explanation
Indices: 27139411--27139595 Score: 183
Period size: 81 Copynumber: 2.3 Consensus size: 81
27139401 CTCAAATTGT
* * * * * *
27139411 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTATCAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCAA
** *
27139476 TTTACCCTCGATTTAT
66 AATACCCTCGATTTAC
* * *** * * *
27139492 AGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-CTA
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATC-A
* *
27139556 AAATACCCTTGGTTTAC
65 AAATACCCTCGATTTAC
27139573 AAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAAATACCCTCGAT
27139596 CAGTAAAATT
Statistics
Matches: 79, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
80 1 0.01
81 78 0.99
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTATCAA
AATACCCTCGATTTAC
Found at i:27139758 original size:81 final size:80
Alignment explanation
Indices: 27139546--27139751 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
27139536 CTCGATTTAC
* ** * * **
27139546 AAAATTACTAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
*
27139610 AAATATCCTAGTCTGT
65 AAATACCCTAGTCTGT
* *
27139626 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
27139691 AATACCCCTAGTTTGT
66 AATA-CCCTAGTCTGT
* * *
27139707 AAAATTACCAAAATGCCACTGGTTTGTGAAATTACTGAAATACCC
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCC
27139752 CTAATTTACA
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
80 61 0.55
81 50 0.45
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:27139775 original size:81 final size:81
Alignment explanation
Indices: 27139546--27139777 Score: 240
Period size: 81 Copynumber: 2.9 Consensus size: 81
27139536 CTCGATTTAC
* ** * * * *
27139546 AAAATTACTAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACC
1 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTA-CAAAATTACC
*
27139609 AAAATA-TCCTAGTCTGT
64 AAAATACCCCTAGTCTGT
* * **
27139626 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTACAAAATTACCAA
*
27139691 AATACCCCTAGTTTGT
66 AATACCCCTAGTCTGT
* * * *
27139707 AAAATTACCAAAATGCCACTGGTTTGTGAAATTACTGAAATACCC-CTAATTTACAAAGTTA-CA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTC-AATTTACAAAATTACCA
27139770 GAAATACC
65 -AAATACC
27139778 TTTGACTTTC
Statistics
Matches: 131, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
80 62 0.47
81 69 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTACAAAATTACCAA
AATACCCCTAGTCTGT
Found at i:27139925 original size:27 final size:27
Alignment explanation
Indices: 27139895--27139985 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
27139885 ACCCTTATTA
*
27139895 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
27139922 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
27139949 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
27139976 GGTAAAATGA
1 GGTAAAATGA
27139986 TGAATATGCC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:27140859 original size:25 final size:26
Alignment explanation
Indices: 27140788--27140884 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
27140778 GAGGAAATGC
*
27140788 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
27140814 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
27140840 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
27140865 AAAAGGGCTT-TGCTCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
27140885 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 32 0.49
26 33 0.51
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:27141088 original size:42 final size:42
Alignment explanation
Indices: 27141029--27141120 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
27141019 TAGTCTCCCC
* ** *
27141029 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
27141071 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
27141113 AAATGGGC
1 AAATGGGC
27141121 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:27145454 original size:55 final size:55
Alignment explanation
Indices: 27145356--27145475 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
27145346 GATAAAATAG
* * * *
27145356 CACGGGCGTACGACATGCCCGTGCCTTGAACCCGTGGCTGAACCTGTCATATTAA
1 CACGGGCGTGCGACACGCCCGTGCCTTGAACCCATGGCTGAACCTGTCAAATTAA
* * *
27145411 CACGGGCGTGCGACACGCCCGTGTCTAT-CACCCATGG-TCGAACCTGTTAAATTAA
1 CACGGGCGTGCGACACGCCCGTGCCT-TGAACCCATGGCT-GAACCTGTCAAATTAA
*
27145466 CATGGGCGTG
1 CACGGGCGTG
27145476 GGCCTATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 1 0.02
55 53 0.96
56 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.22
Consensus pattern (55 bp):
CACGGGCGTGCGACACGCCCGTGCCTTGAACCCATGGCTGAACCTGTCAAATTAA
Found at i:27148674 original size:3 final size:3
Alignment explanation
Indices: 27148661--27148710 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
27148651 CTTGTTCTTA
*
27148661 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27148709 AA
1 AA
27148711 ACTATGTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:27164391 original size:28 final size:28
Alignment explanation
Indices: 27164359--27164458 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
27164349 ATAGTGAATC
*
27164359 CGCACACTTAGTGCTATATATATC-AGCT
1 CGCACACTTAGTGCTATATA-ATCAAACT
27164387 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27164415 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
27164445 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27164459 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 3 0.05
28 42 0.66
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27172099 original size:28 final size:29
Alignment explanation
Indices: 27172032--27172132 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
27172022 ATAGTGAATC
*
27172032 CGCACACTTAGTGCTATATATATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
27172061 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
27172089 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
27172119 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27172133 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:27172828 original size:19 final size:19
Alignment explanation
Indices: 27172804--27172844 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27172794 ATGAGCATGC
27172804 CATGGCCGAATACATCCCA
1 CATGGCCGAATACATCCCA
27172823 CATGGCCGAATACATCCCA
1 CATGGCCGAATACATCCCA
27172842 CAT
1 CAT
27172845 CATTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.37, G:0.15, T:0.17
Consensus pattern (19 bp):
CATGGCCGAATACATCCCA
Found at i:27173875 original size:28 final size:27
Alignment explanation
Indices: 27173826--27173879 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
27173816 GCGAGGCTGC
*
27173826 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* *
27173853 CAGATATATGTGGCGAGGCCACCAGAT
1 CAGATAT-TGTGACGAAGCCACCAGAT
27173880 TGCAGCGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:27174640 original size:27 final size:27
Alignment explanation
Indices: 27174610--27174677 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
27174600 GAGGGTAAAA
*
27174610 TGGTAATTCTATAAATCGA-GGGTACTT
1 TGGTAATTCTACAAA-CGAGGGGTACTT
* * *
27174637 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTCTACAAACGAGGGGTACTT
27174664 TGGTAATTCTACAA
1 TGGTAATTCTACAA
27174678 CTTATCCACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
TGGTAATTCTACAAACGAGGGGTACTT
Found at i:27180236 original size:27 final size:26
Alignment explanation
Indices: 27180188--27180247 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
27180178 AGCGAGCTGC
*
27180188 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
27180215 CAGATATTGTGGCTATGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
27180241 CAGATAT
1 CAGATAT
27180248 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:27180948 original size:27 final size:27
Alignment explanation
Indices: 27180901--27180972 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
27180891 ATAGTTATTT
* ** *
27180901 TACCCTCCAGGGGTAAATCGGTAGTCC
1 TACCCTACAGGGGTATTTCGGTAATCC
*
27180928 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATCC
* *
27180955 TACCTTACAAGGGTATTT
1 TACCCTACAGGGGTATTT
27180973 TTATAATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATCC
Found at i:27184261 original size:12 final size:13
Alignment explanation
Indices: 27184245--27184282 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
27184235 AAGTAATGCA
27184245 AGGTATAATATAT
1 AGGTATAATATAT
*
27184258 -GGTAAAATATAT
1 AGGTATAATATAT
27184270 AGTGTATAATATA
1 AG-GTATAATATA
27184283 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:27184575 original size:17 final size:17
Alignment explanation
Indices: 27184536--27184658 Score: 72
Period size: 17 Copynumber: 6.9 Consensus size: 17
27184526 ATAATTTAAA
27184536 AAAATAAAA-ATATATAT
1 AAAATAAAATATATA-AT
*
27184553 ATAATAAAATATATAAT
1 AAAATAAAATATATAAT
* *
27184570 AAAATATAATTTATAAGT
1 AAAATAAAATATATAA-T
*
27184588 AAAATAGAATA-ATAA-
1 AAAATAAAATATATAAT
** **
27184603 AATAATATGATGGATAAT
1 AA-AATAAAATATATAAT
*
27184621 AAAATAATATATAACTAAT
1 AAAATAAAATAT-A-TAAT
27184640 AAAAATAAATAATATATAA
1 -AAAAT-AA-AATATATAA
27184659 GGTATTTAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.02
16 6 0.07
17 37 0.45
18 18 0.22
19 4 0.05
20 8 0.10
21 3 0.04
22 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (17 bp):
AAAATAAAATATATAAT
Found at i:27184579 original size:10 final size:12
Alignment explanation
Indices: 27184549--27184577 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
27184539 ATAAAAATAT
27184549 ATATATAATAAA
1 ATATATAATAAA
27184561 ATATATAATAAA
1 ATATATAATAAA
27184573 ATATA
1 ATATA
27184578 ATTTATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:27184603 original size:31 final size:28
Alignment explanation
Indices: 27184510--27184627 Score: 93
Period size: 31 Copynumber: 4.1 Consensus size: 28
27184500 TTTACACAAT
* *
27184510 TAAATAATAATAATACATA-AT-TTAAAA
1 TAAATAATAA-AATATATATATAATAAAA
27184537 -AAAT-A-AAAATATATATATAATAAAA
1 TAAATAATAAAATATATATATAATAAAA
* *
27184562 TATATAATAAAATATAATTTATAAGTAAAA
1 TAAATAATAAAATAT-ATATATAA-TAAAA
27184592 TAGAATAATAAAATAATATGATGGATAATAAAA
1 TA-AATAATAAAAT-ATAT-AT--ATAATAAAA
27184625 TAA
1 TAA
27184628 TATATAACTA
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
23 7 0.10
24 4 0.05
25 6 0.08
26 7 0.10
27 1 0.01
28 7 0.10
29 7 0.10
30 7 0.10
31 12 0.16
32 4 0.05
33 7 0.10
34 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (28 bp):
TAAATAATAAAATATATATATAATAAAA
Found at i:27184646 original size:25 final size:26
Alignment explanation
Indices: 27184618--27184685 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 26
27184608 TATGATGGAT
27184618 AATAAAATAATATATAA-CTAATAAA
1 AATAAAATAATATATAAGCTAATAAA
* * *
27184643 AAT-AAATAATATATAAGGTATTTAA
1 AATAAAATAATATATAAGCTAATAAA
*
27184668 AATAAATTACATATATAA
1 AATAAAATA-ATATATAA
27184686 AAAGGATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.36
25 11 0.31
26 4 0.11
27 8 0.22
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AATAAAATAATATATAAGCTAATAAA
Found at i:27186157 original size:44 final size:44
Alignment explanation
Indices: 27186100--27186424 Score: 418
Period size: 44 Copynumber: 7.4 Consensus size: 44
27186090 TCCGTCGAGC
* * * * * *
27186100 ACAGAGACACCAAATTTTCTATCTTTAATCTGCTCCCTAACAAT
1 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
* * * *
27186144 ACAGAGACGCCAAATTTTCTATCTTCGATCTGCTCTCTGACCAT
1 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
* *
27186188 ACAGAGACGCCAAATCTACTATCTTCGATTTGCTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
** *
27186232 ACAGAGACGCCAAATCTACTATCTCCGATCTGCTCTCTGACCAT
1 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
* *
27186276 ACAGAGACACCAAATCTACTATCTTTGATCTGCTCTCTAACAAT
1 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
* * * *
27186320 ACAGAGACGCCAAATCTGCTATTTTTGACCTGCTCCCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
* * *
27186364 ACAGAGACGCCAAATCTGCTAT-TTTCGACCTGCTCCCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTT-GATCTGCTCTCTGACAAT
27186408 ACAGAGACGCCAAATCT
1 ACAGAGACGCCAAATCT
27186425 TGGATCTGCT
Statistics
Matches: 256, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
43 3 0.01
44 253 0.99
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (44 bp):
ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
Found at i:27186613 original size:45 final size:45
Alignment explanation
Indices: 27186548--27186685 Score: 140
Period size: 44 Copynumber: 3.1 Consensus size: 45
27186538 TGAAGTTTAG
* * ** *
27186548 ATCTGTTATGTCTTCGATCTGCTCTTCGTCA-AATATGGAGATGCCAA
1 ATCTGTTA--TCTTCTATCTGCTCTTC-TAACAATACAGAGACGCCAA
27186595 ATCTGTTATCTTCTATCTGCTC-TCTAACAATACAGAGACGCCAA
1 ATCTGTTATCTTCTATCTGCTCTTCTAACAATACAGAGACGCCAA
* * *
27186639 ATCTGCTATCTT-TGATCTGCTC-TCTGACAATACAGAGATGCCAA
1 ATCTGTTATCTTCT-ATCTGCTCTTCTAACAATACAGAGACGCCAA
27186683 ATC
1 ATC
27186686 ATCTTGGATT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
43 3 0.04
44 57 0.70
45 13 0.16
47 8 0.10
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCTATCTGCTCTTCTAACAATACAGAGACGCCAA
Found at i:27186649 original size:44 final size:44
Alignment explanation
Indices: 27186585--27186685 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
27186575 GTCAAATATG
*
27186585 GAGATGCCAAATCTGTTATCTTCT-ATCTGCTCTCTAACAATACA
1 GAGATGCCAAATCTGCTATCTT-TGATCTGCTCTCTAACAATACA
* *
27186629 GAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACA
1 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTAACAATACA
27186673 GAGATGCCAAATC
1 GAGATGCCAAATC
27186686 ATCTTGGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTAACAATACA
Found at i:27193106 original size:18 final size:18
Alignment explanation
Indices: 27193085--27193127 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
27193075 CTCCTCCCAA
27193085 ATCACCTTCATAGGCATC
1 ATCACCTTCATAGGCATC
*
27193103 ATCACCTTTATAGGCATC
1 ATCACCTTCATAGGCATC
*
27193121 CTCACCT
1 ATCACCT
27193128 CAGCAACATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.09, T:0.30
Consensus pattern (18 bp):
ATCACCTTCATAGGCATC
Found at i:27194703 original size:22 final size:22
Alignment explanation
Indices: 27194676--27194717 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
27194666 TGACTTAGCA
27194676 CACGTACCGTAGGGATGTGTGG
1 CACGTACCGTAGGGATGTGTGG
27194698 CACGTACCGTAGGGATGTGT
1 CACGTACCGTAGGGATGTGT
27194718 TGCTTCCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.24
Consensus pattern (22 bp):
CACGTACCGTAGGGATGTGTGG
Found at i:27198646 original size:12 final size:13
Alignment explanation
Indices: 27198630--27198667 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
27198620 AAGTAATGTA
27198630 AGGTATAATATAT
1 AGGTATAATATAT
*
27198643 -GGTAAAATATAT
1 AGGTATAATATAT
27198655 AGTGTATAATATA
1 AG-GTATAATATA
27198668 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:27198725 original size:17 final size:18
Alignment explanation
Indices: 27198678--27198728 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
27198668 ATTTGTAAAC
27198678 AAAATATATAATAATATG
1 AAAATATATAATAATATG
27198696 AATAATATGATAAGTAATAT-
1 AA-AATAT-ATAA-TAATATG
27198716 AAAA-ATATAATAA
1 AAAATATATAATAA
27198729 AATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 4 0.13
19 7 0.23
20 6 0.20
21 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAATATATAATAATATG
Found at i:27198961 original size:17 final size:17
Alignment explanation
Indices: 27198941--27199045 Score: 63
Period size: 20 Copynumber: 5.8 Consensus size: 17
27198931 TAATATTTAT
27198941 AATAAAATATATAATAA
1 AATAAAATATATAATAA
* *
27198958 AATATAATTTATAAGTAA
1 AATAAAATATATAA-TAA
*
27198976 AACAAAATA-AT-A-AA
1 AATAAAATATATAATAA
*
27198990 AATAATATGATGGATAATAA
1 AATAAAAT-AT--ATAATAA
*
27199010 AATAATATATAACTAATAAA
1 AATAAAATAT-A-TAAT-AA
27199030 AATAAATAATATATAA
1 AAT-AA-AATATATAA
27199046 GGTATTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
14 8 0.12
15 1 0.01
16 1 0.01
17 14 0.21
18 12 0.18
19 7 0.10
20 18 0.26
21 3 0.04
22 4 0.06
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
AATAAAATATATAATAA
Found at i:27198965 original size:10 final size:12
Alignment explanation
Indices: 27198938--27198963 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27198928 AAATAATATT
27198938 TATAATAAAATA
1 TATAATAAAATA
27198950 TATAATAAAATA
1 TATAATAAAATA
27198962 TA
1 TA
27198964 ATTTATAAGT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATAATAAAATA
Found at i:27199031 original size:20 final size:21
Alignment explanation
Indices: 27198981--27199034 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
27198971 AGTAAAACAA
27198981 AATAATAAAAATAATATGATG
1 AATAATAAAAATAATATGATG
*
27199002 GATAAT-AAAATAATAT-AT-
1 AATAATAAAAATAATATGATG
27199020 AACTAATAAAAATAA
1 AA-TAATAAAAATAA
27199035 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 6 0.21
20 17 0.59
21 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (21 bp):
AATAATAAAAATAATATGATG
Found at i:27199040 original size:24 final size:25
Alignment explanation
Indices: 27199009--27199072 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
27198999 ATGGATAATA
27199009 AAATAATATATAA-CTAATAAAAAT
1 AAATAATATATAAGCTAATAAAAAT
* * *
27199033 AAATAATATATAAGGTATTTAAAAT
1 AAATAATATATAAGCTAATAAAAAT
27199058 AAATTAAATATATAA
1 AAA-T-AATATATAA
27199073 AAAGGATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.38
25 11 0.32
26 1 0.03
27 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (25 bp):
AAATAATATATAAGCTAATAAAAAT
Found at i:27200502 original size:44 final size:45
Alignment explanation
Indices: 27200452--27200644 Score: 214
Period size: 44 Copynumber: 4.4 Consensus size: 45
27200442 TCCATCGAGC
* * * ** *
27200452 ACAGAGACACCAAATTTTCTATCTTTAATCTGCTTC-CTGAGAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTTCTCTGACAAT
* * *
27200496 ACAGAGACGCCAAATTTGCTATCTTCGATCTGC-TCTCTGACCAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTTCTCTGACAAT
* * *
27200540 ACAGAGACGCCATATCTACTATCTTCGAT-TTCCTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTTCTCTGACAAT
* * * *
27200584 ACAGAGACACCAAATCTACTATTTTCGACCTGC-TCCCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTTCTCTGACAAT
27200628 ACAGAGACGCCAAATCT
1 ACAGAGACGCCAAATCT
27200645 TGGATCTGCT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
43 4 0.03
44 122 0.95
45 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (45 bp):
ACAGAGACGCCAAATCTACTATCTTCGATCTGCTTCTCTGACAAT
Found at i:27200876 original size:44 final size:44
Alignment explanation
Indices: 27200778--27200905 Score: 175
Period size: 44 Copynumber: 2.9 Consensus size: 44
27200768 ATCTGTTATG
* * * *
27200778 TCTTCGATCTGCTCTCCGTCAAATATGGAGATGCCAAATCTATTA
1 TCTTCGATCTGCTCTCTGAC-AATATAGAGATGCCAAATCTACTA
* * *
27200823 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGACAATATAGAGATGCCAAATCTACTA
*
27200867 TCTTTGATCTGCTCTCTGACAATATAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCTGACAATATAGAGATGCCAAATC
27200906 ATCTTGGATC
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 55 0.75
45 18 0.25
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGACAATATAGAGATGCCAAATCTACTA
Found at i:27206563 original size:41 final size:41
Alignment explanation
Indices: 27206510--27206659 Score: 185
Period size: 41 Copynumber: 3.7 Consensus size: 41
27206500 CGCTGACTCA
* * *
27206510 AAAAGGCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * * **
27206551 GAAGGCCCTTCGAAACTAGGTTTGG-TTACAACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
27206591 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
27206632 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
27206660 TAAACCCCAA
Statistics
Matches: 87, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 29 0.33
41 58 0.67
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:27215592 original size:2 final size:2
Alignment explanation
Indices: 27215587--27215611 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27215577 AAAATCATTA
27215587 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 A
27215612 AACCATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27215863 original size:21 final size:19
Alignment explanation
Indices: 27215812--27215859 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
27215802 ATTTGTAAAC
*
27215812 AAAATATATAATAATATGA
1 AAAATATATAATAATATAA
**
27215831 ATCATATGATAAGTAATATAA
1 AAAATAT-ATAA-TAATATAA
27215852 AAAATATA
1 AAAATATA
27215860 ATAAAATGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 5 0.23
20 5 0.23
21 12 0.55
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (19 bp):
AAAATATATAATAATATAA
Found at i:27215872 original size:14 final size:14
Alignment explanation
Indices: 27215855--27215885 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27215845 AATATAAAAA
27215855 ATATAATAAAATGT
1 ATATAATAAAATGT
*
27215869 ATATAATGAAATGT
1 ATATAATAAAATGT
27215883 ATA
1 ATA
27215886 ATAAAAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (14 bp):
ATATAATAAAATGT
Found at i:27216081 original size:11 final size:11
Alignment explanation
Indices: 27216059--27216094 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
27216049 AAAAAATAAA
27216059 AATAATATATAT
1 AATAA-ATATAT
27216071 AATAAATATAT
1 AATAAATATAT
27216082 AATAAA-ATAT
1 AATAAATATAT
27216092 AAT
1 AAT
27216095 TTATAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.29
11 12 0.50
12 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAAATATAT
Found at i:27216088 original size:28 final size:32
Alignment explanation
Indices: 27216053--27216126 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 32
27216043 AATTTTAAAA
*
27216053 AATAAAAATAATATATATAA-T-AAATA-TAT
1 AATAAAAATAATATATATAAGTAAAATAGAAT
27216082 AATAAAATATAAT-T-TATAAGTAAAATAGAAT
1 AATAAAA-ATAATATATATAAGTAAAATAGAAT
27216113 AATAAAAATAATAT
1 AATAAAAATAATAT
27216127 GATGGATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
28 5 0.13
29 9 0.23
30 15 0.38
31 10 0.26
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (32 bp):
AATAAAAATAATATATATAAGTAAAATAGAAT
Found at i:27216117 original size:17 final size:15
Alignment explanation
Indices: 27216058--27216174 Score: 54
Period size: 17 Copynumber: 6.8 Consensus size: 15
27216048 TAAAAAATAA
*
27216058 AAATAATATATATAAT
1 AAATAATA-ATAAAAT
27216074 AAATATATAATAAAAT
1 AAATA-ATAATAAAAT
*
27216090 ATAATTTATAAGTAAAAT
1 A-AA-TAATAA-TAAAAT
*
27216108 AGAATAATAAAAATAAT
1 A-AATAATAATAA-AAT
* *
27216125 ATGATGGATAATAAAAT
1 A-AAT-AATAATAAAAT
27216142 AATATATAACTAATAAAAAT
1 -A-A-ATAA-TAAT-AAAAT
27216162 AAATAATATATAA
1 AAATAATA-ATAA
27216175 GGTATTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
16 18 0.23
17 29 0.37
18 20 0.25
19 7 0.09
20 5 0.06
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:27216160 original size:20 final size:21
Alignment explanation
Indices: 27216109--27216163 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
27216099 AAGTAAAATA
27216109 GAATAATAAAAATAATATGAT
1 GAATAATAAAAATAATATGAT
*
27216130 GGATAAT-AAAATAATAT-AT
1 GAATAATAAAAATAATATGAT
27216149 -AACTAATAAAAATAA
1 GAA-TAATAAAAATAA
27216164 ATAATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 6 0.20
20 17 0.57
21 6 0.20
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (21 bp):
GAATAATAAAAATAATATGAT
Found at i:27216169 original size:24 final size:25
Alignment explanation
Indices: 27216138--27216201 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
27216128 ATGGATAATA
27216138 AAATAATATATAA-CTAATAAAAAT
1 AAATAATATATAAGCTAATAAAAAT
* * *
27216162 AAATAATATATAAGGTATTTAAAAT
1 AAATAATATATAAGCTAATAAAAAT
27216187 AAATTAAATATATAA
1 AAA-T-AATATATAA
27216202 AAAGGATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.38
25 11 0.32
26 1 0.03
27 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (25 bp):
AAATAATATATAAGCTAATAAAAAT
Found at i:27218051 original size:45 final size:44
Alignment explanation
Indices: 27217987--27218114 Score: 179
Period size: 45 Copynumber: 2.9 Consensus size: 44
27217977 TGTACAGTAC
27217987 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTC-GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
27218032 TATTCGGACCTTTGAGCCTAGTAGGCTATAATGCCGATGAGATAT
1 TATTCGG-CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
27218077 TATTCAGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTC-GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
27218115 ATGAATTCGG
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 10 0.13
44 16 0.21
45 47 0.63
46 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (44 bp):
TATTCGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:27221565 original size:25 final size:25
Alignment explanation
Indices: 27221528--27221577 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27221518 AAGGGAAGTA
*
27221528 AGCTTTTTGGGGCATATTGTATCTG
1 AGCTTTTTAGGGCATATTGTATCTG
27221553 AGCTTTTTAGGGCATATTGTATCTG
1 AGCTTTTTAGGGCATATTGTATCTG
27221578 CATCGGGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (25 bp):
AGCTTTTTAGGGCATATTGTATCTG
Found at i:27226262 original size:45 final size:45
Alignment explanation
Indices: 27226205--27226309 Score: 185
Period size: 45 Copynumber: 2.4 Consensus size: 45
27226195 TACTATTCAA
27226205 GCCTTTGAGCCTAGCAAGCTATAATGCCAGTGAGATATTATTCGG
1 GCCTTTGAGCCTAGCAAGCTATAATGCCAGTGAGATATTATTCGG
*
27226250 GCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATATTATTCGG
1 GCCTTTGAGCCTAGCAAGCTATAATGCCAGTGAGATATTATTCGG
*
27226295 GCC-TCGAGCCTAGCA
1 GCCTTTGAGCCTAGCA
27226310 GGCGAAATGC
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
44 11 0.19
45 47 0.81
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (45 bp):
GCCTTTGAGCCTAGCAAGCTATAATGCCAGTGAGATATTATTCGG
Found at i:27230210 original size:7 final size:7
Alignment explanation
Indices: 27230194--27230229 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
27230184 TAAAACCATA
27230194 ATAATAT
1 ATAATAT
*
27230201 ATATTAT
1 ATAATAT
27230208 ATAATAT
1 ATAATAT
*
27230215 AAAATAT
1 ATAATAT
27230222 ATAATAT
1 ATAATAT
27230229 A
1 A
27230230 CGAAAAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATAATAT
Found at i:27230281 original size:20 final size:19
Alignment explanation
Indices: 27230243--27230291 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
27230233 AAAAGGAAGA
*
27230243 AAAATATTATGATGTATAG
1 AAAATATAATGATGTATAG
27230262 TAAAATATAAT-ATGTAATAG
1 -AAAATATAATGATGT-ATAG
27230282 AAATATATAA
1 AAA-ATATAA
27230292 ATTGAATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (19 bp):
AAAATATAATGATGTATAG
Found at i:27230444 original size:12 final size:12
Alignment explanation
Indices: 27230427--27230451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27230417 TAAATATTAT
27230427 ATATATAATAAA
1 ATATATAATAAA
27230439 ATATATAATAAA
1 ATATATAATAAA
27230451 A
1 A
27230452 ATTTTTAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:27234956 original size:24 final size:24
Alignment explanation
Indices: 27234924--27234970 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
27234914 CTCTCAGGAG
**
27234924 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
27234948 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
27234971 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:27236457 original size:27 final size:26
Alignment explanation
Indices: 27236387--27236499 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
27236377 AGGAAGCGTC
* *
27236387 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
27236415 CTGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
27236442 CTGGTGGTTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
27236470 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
27236496 CTGG
1 CTGG
27236500 CAGCCATACT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.50
28 29 0.40
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:27240050 original size:46 final size:46
Alignment explanation
Indices: 27239993--27240258 Score: 168
Period size: 46 Copynumber: 5.7 Consensus size: 46
27239983 TTGAGCATCT
* *
27239993 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * * *
27240039 GAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * * * * *
27240086 GAGCACGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * * *
27240132 GAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * * *
27240179 GAACTTGTTGAGTTGAGTCCGAATTCACCTATGGATGCGAACG-CTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-C
* ** *
27240225 GAGCTCGTTGAGTTGAGTTTGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27240259 GCGGGTTACA
Statistics
Matches: 162, Mismatches: 43, Indels: 30
0.69 0.18 0.13
Matches are distributed among these distances:
43 11 0.07
45 7 0.04
46 77 0.48
47 52 0.32
48 5 0.03
50 10 0.06
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:27240101 original size:47 final size:47
Alignment explanation
Indices: 27240038--27240200 Score: 174
Period size: 47 Copynumber: 3.5 Consensus size: 47
27240028 TGCAAACGTT
27240038 CGAACTCGTTGAGTTGAGCCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGCCCGAGTTCGTGAGATGTAACTAGGCATC
* * * * *
27240085 CGAGCACGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAA-T--GC--C
1 CGAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--GATG-TAACTAGGCATC
* *
27240131 CGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGCCCGAGTTCGTGAGATGTAACTAGGCATC
* *
27240178 CGAACTTGTTGAGTTGAGTCCGA
1 CGAACTCGTTGAGTTGAGCCCGA
27240201 ATTCACCTAT
Statistics
Matches: 93, Mismatches: 14, Indels: 18
0.74 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 24 0.26
47 47 0.51
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGCCCGAGTTCGTGAGATGTAACTAGGCATC
Found at i:27240250 original size:93 final size:93
Alignment explanation
Indices: 27240000--27240251 Score: 369
Period size: 93 Copynumber: 2.7 Consensus size: 93
27239990 TCTGAACTCA
* * *
27240000 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTTCGAACTCGTTGAGTTGAGCCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGTTGAGTCCGAGTTC
*
27240065 GTGAGATGTAACTAGGCATCCGAGCACG
66 GTGAGATGTAACTAGGCATCCGAACACG
* * * *
27240093 TTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCAAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGTTGAGTCCGAGTTC
**
27240158 GTGAGATGTAACTAGGCATCCGAACTTG
66 GTGAGATGTAACTAGGCATCCGAACACG
* * * **
27240186 TTGAGTTGAGTCCGAATTCACCTATGGATGCGAACGCTCGAGCTCGTTGAGTTGAGTTTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGTTGAGTCCGAGTTC
27240251 G
66 G
27240252 CTTATGGGCG
Statistics
Matches: 140, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 140 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGTTGAGTCCGAGTTC
GTGAGATGTAACTAGGCATCCGAACACG
Found at i:27246218 original size:17 final size:17
Alignment explanation
Indices: 27246196--27246230 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27246186 AAAGAATATT
27246196 AACTTCTATAAATACTA
1 AACTTCTATAAATACTA
27246213 AACTTCTATAAATACTA
1 AACTTCTATAAATACTA
27246230 A
1 A
27246231 CTCTGGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (17 bp):
AACTTCTATAAATACTA
Found at i:27251652 original size:43 final size:43
Alignment explanation
Indices: 27251587--27251681 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
27251577 GGATTTCTGG
* *
27251587 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCGA
1 TATGTGATTACATGTAACACCACGTCTGGGACATTGGCATCGA
* *
27251630 TATGTGATTACGTGTAACACCACGTCTGGTACATTGGCATCGA
1 TATGTGATTACATGTAACACCACGTCTGGGACATTGGCATCGA
27251673 TATGTGATT
1 TATGTGATT
27251682 TCGATATGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TATGTGATTACATGTAACACCACGTCTGGGACATTGGCATCGA
Found at i:27251723 original size:56 final size:56
Alignment explanation
Indices: 27251663--27251986 Score: 465
Period size: 56 Copynumber: 5.8 Consensus size: 56
27251653 GTCTGGTACA
* *
27251663 TTGGCATCGATATGTGATTTCGATATGTGTGTACGAGTAAGACCACATTTAATACG
1 TTGGCATCGATATGTGATTTCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
* ** *
27251719 TTGGCATCGATATGTGATTTTGATATGTGTACGCGAGTAAGACCACATTTAATACG
1 TTGGCATCGATATGTGATTTCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
*
27251775 TTGGCATCGATATGTGA-TTCTGATATGTGTGTGCGAGTAAGACCACGTTTAATATG
1 TTGGCATCGATATGTGATTTC-GATATGTGTGTGCGAGTAAGACCACGTTTAATACG
*
27251831 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACAG
1 TTGGCATCGATATGTGATTTCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC-G
*
27251888 -TGGCATCGATATGTGA-TTCTGATATGTGTGTGCGAGTAAAACCACGTTTAATACG
1 TTGGCATCGATATGTGATTTC-GATATGTGTGTGCGAGTAAGACCACGTTTAATACG
* * * * * *
27251943 TTAGCATCAATAGGTGATTCCGATATGTGTTTACGAGTAAGACC
1 TTGGCATCGATATGTGATTTCGATATGTGTGTGCGAGTAAGACC
27251987 TTGTCTTGGA
Statistics
Matches: 242, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
55 5 0.02
56 232 0.96
57 5 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
TTGGCATCGATATGTGATTTCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
Found at i:27252000 original size:112 final size:111
Alignment explanation
Indices: 27251627--27252013 Score: 472
Period size: 112 Copynumber: 3.5 Consensus size: 111
27251617 ACGTTGGCAT
* * * * *
27251627 CGATATGTGATTACGTGTAACACCACGTCTGGTACATTGGCATCGATATGTGATT-TCGATATGT
1 CGATATGTGTTTACGAGTAAGACCACGTTTGG-ACAGTGGCATCGATATGTGATTCT-GATATGT
* * *
27251691 GTGTACGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTT
64 GTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *** * * *
27251739 TGATATGTGTACGCGAGTAAGACCACATTT-AATACGTTGGCATCGATATGTGATTCTGATATGT
1 CGATATGTGTTTACGAGTAAGACCACGTTTGGACA-G-TGGCATCGATATGTGATTCTGATATGT
*
27251803 GTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTC
64 GTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * **
27251851 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACAGTGGCATCGATATGTGATTCTGATATGTG
1 CGATATGTGTTTACGAGTAAGACCACGTTT-GGACAGTGGCATCGATATGTGATTCTGATATGTG
* * * *
27251916 TGTGCGAGTAAAACCACGTTTAATACGTTAGCATCAATAGGTGATTC
65 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
**
27251963 CGATATGTGTTTACGAGTAAGACCTTGTCTTGGACAGTGGCATCGATATGT
1 CGATATGTGTTTACGAGTAAGACCACGT-TTGGACAGTGGCATCGATATGT
27252014 AATTACATGT
Statistics
Matches: 236, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
110 2 0.01
112 228 0.97
113 4 0.02
114 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (111 bp):
CGATATGTGTTTACGAGTAAGACCACGTTTGGACAGTGGCATCGATATGTGATTCTGATATGTGT
GTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:27252006 original size:168 final size:168
Alignment explanation
Indices: 27251627--27252013 Score: 512
Period size: 168 Copynumber: 2.3 Consensus size: 168
27251617 ACGTTGGCAT
* * * * *
27251627 CGATATGTGATTACGTGTAACACCACGTC-TGGTACATTGGCATCGATATGTGATTTCGATATGT
1 CGATATGTGTTTACGAGTAAGACCACGTCTTGG-ACAGTGGCATCGATATGTGATTCCGATATGT
*
27251691 GTGTACGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTTTGATATGTGTACGCGAG
65 GTGTACGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTACGCGAG
* * * *
27251756 TAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
130 TAAAACCACATTTAATACGTTAGCATCAATAGGTGATTC
* * * * *
27251795 TGATATGTGTGTGCGAGTAAGACCACGT-TT-AATATGTTGGCATCGATATGTGATTCCGATATG
1 CGATATGTGTTTACGAGTAAGACCACGTCTTGGACA-G-TGGCATCGATATGTGATTCCGATATG
* * **
27251858 TGTGTGCGAGTAAGACCACGTTTAATACAG-TGGCATCGATATGTGATTCTGATATGTGTGTGCG
64 TGTGTACGAGTAAGACCACATTTAATAC-GTTGGCATCGATATGTGATTCTGATATGTGTACGCG
*
27251922 AGTAAAACCACGTTTAATACGTTAGCATCAATAGGTGATTC
128 AGTAAAACCACATTTAATACGTTAGCATCAATAGGTGATTC
**
27251963 CGATATGTGTTTACGAGTAAGACCTTGTCTTGGACAGTGGCATCGATATGT
1 CGATATGTGTTTACGAGTAAGACCACGTCTTGGACAGTGGCATCGATATGT
27252014 AATTACATGT
Statistics
Matches: 186, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
166 2 0.01
168 178 0.96
169 4 0.02
170 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (168 bp):
CGATATGTGTTTACGAGTAAGACCACGTCTTGGACAGTGGCATCGATATGTGATTCCGATATGTG
TGTACGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTACGCGAGT
AAAACCACATTTAATACGTTAGCATCAATAGGTGATTC
Found at i:27255587 original size:40 final size:40
Alignment explanation
Indices: 27255542--27255721 Score: 274
Period size: 40 Copynumber: 4.5 Consensus size: 40
27255532 TTCAAATGAT
27255542 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
27255582 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
27255622 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
27255662 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
27255703 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
27255722 ACAATCGAGT
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:27255746 original size:80 final size:80
Alignment explanation
Indices: 27255542--27255761 Score: 223
Period size: 80 Copynumber: 2.8 Consensus size: 80
27255532 TTCAAATGAT
* * * * * * *
27255542 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGCTAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATT
* *
27255607 TGTGCGAGTTACTAA
66 TGCGCGAATTACTAA
* * * * *
27255622 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATT
27255687 TGCGCGAATTACTATA
66 TGCGCGAATTACTA-A
* * * *
27255703 A-CCGGGCT-ATGTCCCGAAGACAATCGAGTGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAT-TCCCGAAGACAATCGAGCGAGTTA-CCAAATCCGGGTTAAATCCCGAAGG
27255762 TACGTGATTC
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 18 0.15
80 103 0.84
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATT
TGCGCGAATTACTAA
Found at i:27255755 original size:120 final size:119
Alignment explanation
Indices: 27255542--27255761 Score: 277
Period size: 120 Copynumber: 1.8 Consensus size: 119
27255532 TTCAAATGAT
* * * * * *
27255542 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAAT
* *
27255607 TGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
66 CGAGCGAGTTACTAAATCCGGGTTAATT-CCGAAGGCAATTGTGCGAGTTACCAA
27255662 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAGACA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTA-AATCCGGGCTAAT-TCCCGAAGACA
* *
27255725 ATCGAGTGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
64 ATCGAGCGAGTTA-CTAAATCCGGGTT-AATTCCGAAGG
27255762 TACGTGATTC
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
119 15 0.17
120 69 0.80
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (119 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAAT
CGAGCGAGTTACTAAATCCGGGTTAATTCCGAAGGCAATTGTGCGAGTTACCAA
Found at i:27258769 original size:20 final size:19
Alignment explanation
Indices: 27258738--27258782 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
27258728 TAATTTAGCC
*
27258738 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAATTTA
*
27258757 ATATTTTTGTTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
27258777 ATTTTT
1 ATTTTT
27258783 ACATTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:27261687 original size:22 final size:22
Alignment explanation
Indices: 27261662--27261704 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
27261652 TTTGAGCATG
27261662 CCATG-TAATATCTATGTTGCTT
1 CCATGATAATAT-TATGTTGCTT
27261684 CCATGTATAATATTATGTTGC
1 CCATG-ATAATATTATGTTGC
27261705 ATTGCATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (22 bp):
CCATGATAATATTATGTTGCTT
Found at i:27265322 original size:22 final size:23
Alignment explanation
Indices: 27265294--27265353 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
27265284 GTCATGGTTG
*
27265294 GTAAGCTCCT-TCGAGCTGAACA
1 GTAAGCTCCTATCGAGCAGAACA
* *
27265316 GTAAGCT-CTATTGAGCAGAACG
1 GTAAGCTCCTATCGAGCAGAACA
*
27265338 GTAAGCT-CTATTGAGC
1 GTAAGCTCCTATCGAGC
27265354 TAAATGGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (23 bp):
GTAAGCTCCTATCGAGCAGAACA
Found at i:27265362 original size:22 final size:22
Alignment explanation
Indices: 27265316--27265391 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
27265306 GAGCTGAACA
*
27265316 GTAAGCTCTATTGAGC-AGAACG
1 GTAAGCTCTATTGAGCTA-AATG
27265338 GTAAGCTCTATTGAGCTAAATG
1 GTAAGCTCTATTGAGCTAAATG
* * *
27265360 GTAAGCTCCAATGAGCTGAAATA
1 GTAAGCTCTATTGAGCT-AAATG
27265383 GTAAGCTCT
1 GTAAGCTCT
27265392 TACGAGCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
22 34 0.72
23 13 0.28
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTAAATG
Found at i:27265398 original size:23 final size:22
Alignment explanation
Indices: 27265350--27265400 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
27265340 AAGCTCTATT
* *
27265350 GAGCTAAATGGTAAGCTCCAAT
1 GAGCTAAATAGTAAGCTCCAAC
**
27265372 GAGCTGAAATAGTAAGCTCTTAC
1 GAGCT-AAATAGTAAGCTCCAAC
27265395 GAGCTA
1 GAGCTA
27265401 TGGTGAATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (22 bp):
GAGCTAAATAGTAAGCTCCAAC
Found at i:27272701 original size:22 final size:23
Alignment explanation
Indices: 27272675--27272773 Score: 139
Period size: 22 Copynumber: 4.4 Consensus size: 23
27272665 GTCATGGTCG
*
27272675 GTAAGCTCTTTTGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACA
*
27272697 ATAAGCTCTATTGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAAACA
*
27272720 GTAAGCTCTATTGAGCTG-AACG
1 GTAAGCTCTATTGAGCTGAAACA
* *
27272742 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAAACA
27272765 GTAAGCTCT
1 GTAAGCTCT
27272774 TACGAGCTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 35 0.52
23 32 0.48
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACA
Found at i:27272739 original size:45 final size:45
Alignment explanation
Indices: 27272675--27272773 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
27272665 GTCATGGTCG
* * *
27272675 GTAAGCTCTTTTGAGCTGAACAATAAGCTCTATTGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAACAATAAGCTCCAATGAGCTGAAACA
**
27272720 GTAAGCTCTATTGAGCTGAACGGTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAACAATAAGCTCCAATGAGCTGAAACA
27272765 GTAAGCTCT
1 GTAAGCTCT
27272774 TACGAGCTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (45 bp):
GTAAGCTCTATTGAGCTGAACAATAAGCTCCAATGAGCTGAAACA
Found at i:27272781 original size:23 final size:21
Alignment explanation
Indices: 27272675--27272773 Score: 108
Period size: 23 Copynumber: 4.4 Consensus size: 21
27272665 GTCATGGTCG
*
27272675 GTAAGCTCTTTTGAGCTGAACA
1 GTAAGCTC-TATGAGCTGAACA
*
27272697 ATAAGCTCTATTGAGCTGAAACA
1 GTAAGCTCTA-TGAGCTG-AACA
*
27272720 GTAAGCTCTATTGAGCTGAACG
1 GTAAGCTCTA-TGAGCTGAACA
*
27272742 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCT-CTATGAGCTG-AACA
27272765 GTAAGCTCT
1 GTAAGCTCT
27272774 TACGAGCTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.02
22 32 0.48
23 33 0.50
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (21 bp):
GTAAGCTCTATGAGCTGAACA
Found at i:27277510 original size:17 final size:17
Alignment explanation
Indices: 27277481--27277530 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
27277471 TACTGACTGG
*
27277481 TTTATTCATTTTTATCA
1 TTTATTTATTTTTATCA
* * *
27277498 TTTGTTTATTTTTCTTA
1 TTTATTTATTTTTATCA
27277515 TTTATTTATTTTTATC
1 TTTATTTATTTTTATC
27277531 TCATCAACAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTATTTATTTTTATCA
Found at i:27277883 original size:6 final size:6
Alignment explanation
Indices: 27277872--27277926 Score: 83
Period size: 6 Copynumber: 9.0 Consensus size: 6
27277862 AATAGATATG
* *
27277872 ATTTTT ATTTTT ATTTTTT ACTTTT ACTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
27277921 ATTTTT
1 ATTTTT
27277927 TTCAGGTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:27281663 original size:40 final size:40
Alignment explanation
Indices: 27281529--27281680 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
27281519 TCGAATGATG
* * *
27281529 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
27281569 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
27281609 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
27281650 T-CGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
27281681 TCGCTATATC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:27283916 original size:12 final size:12
Alignment explanation
Indices: 27283901--27283927 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27283891 ATGATCTTCG
27283901 AAGATATTTATC
1 AAGATATTTATC
27283913 AAGATATTTATC
1 AAGATATTTATC
27283925 AAG
1 AAG
27283928 TTTGCACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (12 bp):
AAGATATTTATC
Found at i:27286212 original size:20 final size:20
Alignment explanation
Indices: 27286187--27286224 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27286177 GTTTATTCGC
*
27286187 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
27286207 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
27286225 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:27287885 original size:28 final size:28
Alignment explanation
Indices: 27287853--27287921 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
27287843 GCGTAGATCA
27287853 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
27287881 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27287909 CGATA-TACCCCTA
1 CGAAATTACCCCTA
27287922 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:27294221 original size:20 final size:20
Alignment explanation
Indices: 27294196--27294233 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27294186 GTTTATTCGC
*
27294196 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
27294216 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
27294234 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:27295892 original size:28 final size:28
Alignment explanation
Indices: 27295860--27295928 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
27295850 GCGTAGATCA
27295860 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
27295888 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27295916 CGATA-TACCCCTA
1 CGAAATTACCCCTA
27295929 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:27300802 original size:12 final size:12
Alignment explanation
Indices: 27300767--27300805 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
27300757 ACACCTATTA
27300767 TTTATTTTTA-C
1 TTTATTTTTATC
27300778 -TT-TTTTTAT-
1 TTTATTTTTATC
27300787 TTTATTTTTATC
1 TTTATTTTTATC
27300799 TTTATTT
1 TTTATTT
27300806 ATATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 7 0.29
12 7 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTTATC
Found at i:27301955 original size:3 final size:3
Alignment explanation
Indices: 27301949--27301979 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27301939 TTTTTAAATA
27301949 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27301980 TTTCAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27305789 original size:48 final size:48
Alignment explanation
Indices: 27305718--27305814 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
27305708 ACCCTAATCT
*
27305718 AAAGTTAGTTAAAAACCTTGAAGCGAGTTAATCTTCCTGATTTGTTTA
1 AAAGTTAGTTAAAAACCCTGAAGCGAGTTAATCTTCCTGATTTGTTTA
*
27305766 AAAGTTAGTTAAAAACCCTGAAGCGGGTTAATCTTCCTGATTTGTTTA
1 AAAGTTAGTTAAAAACCCTGAAGCGAGTTAATCTTCCTGATTTGTTTA
27305814 A
1 A
27305815 TGATTTTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (48 bp):
AAAGTTAGTTAAAAACCCTGAAGCGAGTTAATCTTCCTGATTTGTTTA
Found at i:27305848 original size:17 final size:18
Alignment explanation
Indices: 27305828--27305866 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
27305818 TTTTTATCTT
27305828 TTTTTCTT-ATTTATTTA
1 TTTTTCTTGATTTATTTA
*
27305845 -TTTTCTTGCTTTATTTA
1 TTTTTCTTGATTTATTTA
27305862 TTTTT
1 TTTTT
27305867 ATTTTATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTCTTGATTTATTTA
Found at i:27310304 original size:13 final size:13
Alignment explanation
Indices: 27310287--27310317 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27310277 GCACATGGGT
27310287 GTGTCACACGGGC
1 GTGTCACACGGGC
*
27310300 TTGTCACACGGGC
1 GTGTCACACGGGC
27310313 GTGTC
1 GTGTC
27310318 CTTGCCGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.29, G:0.35, T:0.23
Consensus pattern (13 bp):
GTGTCACACGGGC
Found at i:27322473 original size:40 final size:39
Alignment explanation
Indices: 27322400--27322584 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
27322390 CGAATGATGA
*
27322400 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTTACTAAAT
1 CCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAAT
* *
27322440 CCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAAT
* * **
27322480 CTGGACTAAGATCCGAAGGCATGGGTGCGAGTTACTAAAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
27322520 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AAT
*
27322560 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGT-CCGAAGGCATTTG
27322585 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 114 0.90
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:27322591 original size:80 final size:80
Alignment explanation
Indices: 27322429--27322607 Score: 179
Period size: 80 Copynumber: 2.2 Consensus size: 80
27322419 CTTTGTGCTA
** * * *
27322429 AGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAATCTGGACTAAGATCC
1 AGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCC
**
27322494 GAAGGCATGGGTGCG
66 GAAGGCATGGGAACG
* *
27322509 AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-T
1 AGTTACTAAATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT
**
27322571 CCCGAAGGCATTTGAACG
64 -CCGAAGGCATGGGAACG
*
27322589 AG-TAGCTATATCC-GGTTAA
1 AGTTA-CTAAATCCGGGTTAA
27322608 ACTTTGAAGG
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
79 10 0.12
80 71 0.86
81 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (80 bp):
AGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCC
GAAGGCATGGGAACG
Found at i:27322598 original size:40 final size:40
Alignment explanation
Indices: 27322507--27322603 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
27322497 GGCATGGGTG
* * **
27322507 CGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGAGCTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGAA
*
27322547 CGAGCTACTATAACCGGGCTATGTCCCGAAGGCATTTGAA
1 CGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAA
*
27322587 CGAG-TAGCTATATCCGG
1 CGAGCTA-CTATAACCGG
27322604 TTAAACTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.04
40 45 0.92
41 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAA
Found at i:27327474 original size:19 final size:20
Alignment explanation
Indices: 27327450--27327487 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27327440 CCTTTACCCG
27327450 CTCACC-GCCTTATTTCTCA
1 CTCACCTGCCTTATTTCTCA
*
27327469 CTCACCTTCCTTATTTCTC
1 CTCACCTGCCTTATTTCTC
27327488 CATAAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.13, C:0.42, G:0.03, T:0.42
Consensus pattern (20 bp):
CTCACCTGCCTTATTTCTCA
Found at i:27341040 original size:40 final size:40
Alignment explanation
Indices: 27341010--27341234 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
27341000 GCTACTCGTT
* *
27341010 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
27341050 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
27341090 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
27341130 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
27341169 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
27341210 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
27341235 CATCATTCGA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 118 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27341194 original size:119 final size:120
Alignment explanation
Indices: 27341012--27341234 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
27341002 TACTCGTTCA
*
27341012 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * * *
27341077 TTAGTGAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTCACTTAGCACAAA-GCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
* **
27341132 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
27341194 ATATAGTCACTTAGCACAAAGCCTTCAGGACTTAGCCCGGA
64 ATATAGTCACTTAGCACAAAGCCTTCAGGACTTAACCCGGA
27341235 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTCACTTAGCACAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:27345764 original size:2 final size:2
Alignment explanation
Indices: 27345757--27345783 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27345747 CAACATGATC
27345757 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
27345784 CACATTTATG
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:27347606 original size:30 final size:29
Alignment explanation
Indices: 27347512--27347613 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
27347502 TATAGTGAAT
* * *
27347512 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
27347541 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
27347569 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
27347599 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
27347614 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:27355446 original size:30 final size:29
Alignment explanation
Indices: 27355352--27355453 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
27355342 TATAGTGAAT
* * *
27355352 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
27355381 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
27355409 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
27355439 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
27355454 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:27358633 original size:40 final size:39
Alignment explanation
Indices: 27358588--27358717 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
27358578 CGGAATATAA
27358588 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
27358628 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
27358668 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
27358708 CCGGATATAA
1 CCGGATATAA
27358718 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:27358732 original size:40 final size:40
Alignment explanation
Indices: 27358604--27358753 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
27358594 ATAACCATGT
* * *
27358604 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
27358644 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
27358684 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
27358724 GCATAATTGTCTTC-GG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
27358754 CATTCAATTT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
38 12 0.13
39 4 0.04
40 71 0.80
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:27358738 original size:80 final size:78
Alignment explanation
Indices: 27358604--27358751 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 78
27358594 ATAACCATGT
* *
27358604 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTC-GG-ATTAGCC
27358669 CGGATGTAGCCACTA
64 CGGATGTAGCCACTA
* * * * *
27358684 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGATTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGATTAGCC
27358747 CGGAT
64 CGGAT
27358752 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 11 0.19
79 5 0.08
80 43 0.73
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGATTAGCCCG
GATGTAGCCACTA
Found at i:27366623 original size:40 final size:39
Alignment explanation
Indices: 27366578--27366707 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
27366568 CGGAATATAA
27366578 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
27366618 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
27366658 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
27366698 CCGGATATAA
1 CCGGATATAA
27366708 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:27366722 original size:40 final size:40
Alignment explanation
Indices: 27366594--27366745 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
27366584 ATAACCATGT
* * *
27366594 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
27366634 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
27366674 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
27366714 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
27366746 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:27366728 original size:80 final size:80
Alignment explanation
Indices: 27366594--27366743 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
27366584 ATAACCATGT
*
27366594 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
27366658 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
27366674 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
27366737 CCCGGAT
64 CCCGGAT
27366744 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:27368876 original size:29 final size:29
Alignment explanation
Indices: 27368810--27368933 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
27368800 AAGTTTATAT
* *
27368810 ACATGCATATGGCCC-CTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
27368837 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
27368866 ATATTCGTATGGCCCATTGGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
27368895 ACATTCATAAGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
27368924 ACATTCATAT
1 ACATTCATAT
27368934 ACATGCTTTC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 13 0.16
28 7 0.08
29 63 0.76
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:27369172 original size:16 final size:16
Alignment explanation
Indices: 27369153--27369195 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
27369143 CTTTCAAATA
27369153 TTTGGCATTTCGGCTT
1 TTTGGCATTTCGGCTT
27369169 TTTGGCATTTCGGCTT
1 TTTGGCATTTCGGCTT
*
27369185 TTCGGCATTTC
1 TTTGGCATTTC
27369196 AGGATTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.07, C:0.21, G:0.23, T:0.49
Consensus pattern (16 bp):
TTTGGCATTTCGGCTT
Found at i:27369189 original size:8 final size:8
Alignment explanation
Indices: 27369152--27369195 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
27369142 ACTTTCAAAT
27369152 ATTT-GGC
1 ATTTCGGC
27369159 ATTTCGGC
1 ATTTCGGC
* *
27369167 TTTTTGGC
1 ATTTCGGC
27369175 ATTTCGGC
1 ATTTCGGC
*
27369183 TTTTCGGC
1 ATTTCGGC
27369191 ATTTC
1 ATTTC
27369196 AGGATTTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
7 4 0.13
8 26 0.87
ACGTcount: A:0.09, C:0.20, G:0.23, T:0.48
Consensus pattern (8 bp):
ATTTCGGC
Found at i:27379214 original size:19 final size:19
Alignment explanation
Indices: 27379192--27379229 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27379182 AGCTATCTGG
27379192 TCATTTTCTTACTATGTAT
1 TCATTTTCTTACTATGTAT
27379211 TCATTTTCTTACTATGTAT
1 TCATTTTCTTACTATGTAT
27379230 CTGTAACAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (19 bp):
TCATTTTCTTACTATGTAT
Found at i:27382297 original size:53 final size:53
Alignment explanation
Indices: 27382114--27382320 Score: 164
Period size: 53 Copynumber: 3.8 Consensus size: 53
27382104 ATTAGGGTGT
* * * * * * *
27382114 AAGGATACCAAGTAAGACCATGCTAAGGCATGACATTGG-AAGGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAA-G-TTCATAAGGC
* * * * * * * *
27382168 AAGGAAATCATGTAAGACCATGTCAAGACATGGCAGTGATAAACTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
27382223 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* ** *
27382276 AAGGATACCACGTAAGACCATGTTAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
27382321 TAAAAACGAA
Statistics
Matches: 116, Mismatches: 34, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
53 43 0.37
54 34 0.29
55 37 0.32
56 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:27391422 original size:22 final size:22
Alignment explanation
Indices: 27391325--27391423 Score: 101
Period size: 22 Copynumber: 4.5 Consensus size: 22
27391315 CGAAGTTCTT
*
27391325 TAAAT-AGTAGTCACCGAAGTG
1 TAAATCAGTAGGCACCGAAGTG
** * *
27391346 TTGATCAATAGGCACCAAAGTG
1 TAAATCAGTAGGCACCGAAGTG
* * *
27391368 TAAAGCAGTAAGCACCGACGTG
1 TAAATCAGTAGGCACCGAAGTG
* *
27391390 TGAATCAGTAGGCACCGTAGTG
1 TAAATCAGTAGGCACCGAAGTG
27391412 TAAATCAGTAGG
1 TAAATCAGTAGG
27391424 TATTATAATG
Statistics
Matches: 59, Mismatches: 18, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
21 3 0.05
22 56 0.95
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (22 bp):
TAAATCAGTAGGCACCGAAGTG
Found at i:27395364 original size:22 final size:22
Alignment explanation
Indices: 27395337--27395458 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
27395327 CATGCATATG
27395337 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
27395359 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
27395382 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * * *
27395406 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
27395431 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
27395453 TGTGAT
1 TGTGAT
27395459 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 26 0.35
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:27395446 original size:25 final size:25
Alignment explanation
Indices: 27395328--27395446 Score: 65
Period size: 25 Copynumber: 5.0 Consensus size: 25
27395318 GAATGTGAAC
*
27395328 ATGCATATGTGTGATAAGGCCGAAT
1 ATGCATATATGTGATAAGGCCGAAT
* * * * *
27395353 -GGC-CA-ATGTGATGAATG-TGAAC
1 ATGCATATATGTGAT-AAGGCCGAAT
*
27395375 ATGCATATGTGTGATAAGGCCGAAT
1 ATGCATATATGTGATAAGGCCGAAT
* * * *
27395400 -GGC-CA-ATGTGATGAATG-TGAAT
1 ATGCATATATGTGAT-AAGGCCGAAT
27395422 ATGCATATATGTGATAAGGCCGAAT
1 ATGCATATATGTGATAAGGCCGAAT
27395447 GGCCAATGTG
Statistics
Matches: 63, Mismatches: 21, Indels: 20
0.61 0.20 0.19
Matches are distributed among these distances:
22 19 0.30
23 12 0.19
24 12 0.19
25 20 0.32
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (25 bp):
ATGCATATATGTGATAAGGCCGAAT
Found at i:27395521 original size:47 final size:47
Alignment explanation
Indices: 27395217--27395515 Score: 481
Period size: 47 Copynumber: 6.4 Consensus size: 47
27395207 TTAGGATTTT
** * * *
27395217 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
27395264 ATGTGATGAATGTGAACATGCATATGTGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
27395311 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
27395358 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
27395405 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
27395452 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
27395499 GTGTGATGAATGTGAAC
1 ATGTGATGAATGTGAAC
27395516 GTGTATGAGA
Statistics
Matches: 240, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 240 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:27395566 original size:46 final size:46
Alignment explanation
Indices: 27395513--27395619 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
27395503 GATGAATGTG
**
27395513 AACGTGTATGAGATGGATATGAGGTAAAGCTGAATGGCTAATGCAA
1 AACGTGTATGAGATGGATATGAGGTAAAGCCAAATGGCTAATGCAA
* **
27395559 AACGTGTATGAGATGGATATGTGGTAAAGCCAAATGGCTAATGTGA
1 AACGTGTATGAGATGGATATGAGGTAAAGCCAAATGGCTAATGCAA
**
27395605 AATATGTATGAGATG
1 AACGTGTATGAGATG
27395620 TGTATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.26
Consensus pattern (46 bp):
AACGTGTATGAGATGGATATGAGGTAAAGCCAAATGGCTAATGCAA
Found at i:27402854 original size:16 final size:17
Alignment explanation
Indices: 27402820--27402865 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
27402810 TATTATCAAA
*
27402820 TATTAAT-ATAAATATT
1 TATTAATAATAAAGATT
27402836 TATTAATAATAAAGA-T
1 TATTAATAATAAAGATT
*
27402852 TATTGAAAAATAAA
1 TATT-AATAATAAA
27402866 ATATATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
TATTAATAATAAAGATT
Done.