Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 67 of 196
Found at i:19111907 original size:50 final size:50
Alignment explanation
Indices: 19111765--19112005 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 50
19111755 GATAATAACA
* ** * * **
19111765 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT-AA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * * ** *
19111814 TCCCAATGTCATATCTCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
19111864 TGCCCATGCCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
19111914 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19111964 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19112006 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 33, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 37 0.23
50 121 0.77
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19117421 original size:50 final size:50
Alignment explanation
Indices: 19117296--19117542 Score: 212
Period size: 50 Copynumber: 4.8 Consensus size: 50
19117286 GATAATAACA
* * ** * * *
19117296 TGCCAAAGCCATGTCCCAGACATGGTCTGACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
19117345 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
19117395 TGCCCATGTCATGTCCCAAACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATCGG
* * *
19117445 TGCCAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
19117501 TACCAATGCCATGTCCCAGATATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19117543 TTAGCCAAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 78 0.49
51 1 0.01
53 2 0.01
56 38 0.24
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:19122968 original size:50 final size:49
Alignment explanation
Indices: 19122852--19123026 Score: 156
Period size: 50 Copynumber: 3.6 Consensus size: 49
19122842 TGCCAAAGAT
* * ** *
19122852 ATGTCCCAGACATAGTCTTACATGGGATGTT-TC-TGTACTGCCAATGTC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATTTGGTGCCAATGCC
* * * *
19122900 ATATTCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-TTGGTGCCAATGCC
* ** ** * *
19122950 ATGTCCCAGACATGGTCTTCCGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-TTGGTGCCAATGCC
*
19123000 ATGTCCCAGACATGGTTTTACATGGGA
1 ATGTCCCAGACATGGTCTTACATGGGA
19123027 CCTTTCATAA
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
47 3 0.03
48 25 0.25
49 1 0.01
50 70 0.71
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATTTGGTGCCAATGCC
Found at i:19135295 original size:11 final size:11
Alignment explanation
Indices: 19135281--19135310 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19135271 GCTAACGATG
19135281 TGAATATGCAA
1 TGAATATGCAA
*
19135292 TGAATATGCAG
1 TGAATATGCAA
19135303 TGAATATG
1 TGAATATG
19135311 TATGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (11 bp):
TGAATATGCAA
Found at i:19135534 original size:12 final size:12
Alignment explanation
Indices: 19135517--19135541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19135507 ATGTGTGATT
19135517 GTTGTGTTAGAG
1 GTTGTGTTAGAG
19135529 GTTGTGTTAGAG
1 GTTGTGTTAGAG
19135541 G
1 G
19135542 GTGTTAACTA
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:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (12 bp):
GTTGTGTTAGAG
Found at i:19136866 original size:46 final size:45
Alignment explanation
Indices: 19136799--19136948 Score: 158
Period size: 46 Copynumber: 3.3 Consensus size: 45
19136789 CAAACTTAAA
* * *
19136799 AATACAGGAATAGGTTTCGAGCTCCTACGTATGTTGTGGACTCAAG
1 AATACAAGAATAGGTTTCGAGCTCCT-CGTATGTTGTGAACTCGAG
* * * * *
19136845 AATACATGAATAGGTTCCGAGCTCCTGCATATGTTGCGAACTTGAG
1 AATACAAGAATAGGTTTCGAGCTCCT-CGTATGTTGTGAACTCGAG
* *
19136891 AATACAAAAATAGGTTTTGAGCTCCT-GTATAAGTTGTGAACTCGAG
1 AATACAAGAATAGGTTTCGAGCTCCTCGTAT--GTTGTGAACTCGAG
*
19136937 AATACAATAATA
1 AATACAAGAATA
19136949 TTAAGCCCTG
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
44 3 0.03
46 83 0.97
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (45 bp):
AATACAAGAATAGGTTTCGAGCTCCTCGTATGTTGTGAACTCGAG
Found at i:19149559 original size:60 final size:60
Alignment explanation
Indices: 19149466--19149586 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
19149456 CTTCTTTACT
19149466 TACTCTCTGACTTGTTTACTTACTTGCTTACTTAAATAACTCATGATTATAACTTACTCC
1 TACTCTCTGACTTGTTTACTTACTTGCTTACTTAAATAACTCATGATTATAACTTACTCC
19149526 TACTCTCTGACTTGTTTACTTACTTGCTTACTTAAATAACTCATGATTATAACTTACTCC
1 TACTCTCTGACTTGTTTACTTACTTGCTTACTTAAATAACTCATGATTATAACTTACTCC
19149586 T
1 T
19149587 CCCTCACTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (60 bp):
TACTCTCTGACTTGTTTACTTACTTGCTTACTTAAATAACTCATGATTATAACTTACTCC
Found at i:19149842 original size:49 final size:50
Alignment explanation
Indices: 19149764--19149889 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 50
19149754 AATAATATGC
* * * * *
19149764 CAAA-GCCATGTCCCAGACATGGTCATACATGGGATGTT-TCCTGT-ACTG
1 CAAATGCCATGTCCCAGATATGGTCTTACATAGGA-GTTCTCATATCACTG
* *
19149812 CAAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAGTG
1 CAAATGCCATGTCCCAGATATGGTCTTACATAGGAGTTCTCATATCACTG
*
19149862 C-CATGCCATGTCCCAGATATGGTCTTAC
1 CAAATGCCATGTCCCAGATATGGTCTTAC
19149890 GGGGGACCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
48 7 0.11
49 55 0.83
50 4 0.06
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (50 bp):
CAAATGCCATGTCCCAGATATGGTCTTACATAGGAGTTCTCATATCACTG
Found at i:19149902 original size:49 final size:50
Alignment explanation
Indices: 19149814--19149940 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 50
19149804 CTGTACTGCA
* * ** * *
19149814 AATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAGTGCC
1 AATGCCATGTCCCAGATATGGTCTTACAGAGGACCTCTCAGATCAGTACC
* * *
19149864 -ATGCCATGTCCCAGATATGGTCTTACGGGGGACCTCTCAGCTCAGTACC
1 AATGCCATGTCCCAGATATGGTCTTACAGAGGACCTCTCAGATCAGTACC
** *
19149913 AACACCATGTCCCAGACATGGTCTTACA
1 AATGCCATGTCCCAGATATGGTCTTACA
19149941 TGGGGTCTCA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
49 40 0.63
50 23 0.37
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGATATGGTCTTACAGAGGACCTCTCAGATCAGTACC
Found at i:19153417 original size:68 final size:68
Alignment explanation
Indices: 19153303--19153429 Score: 173
Period size: 68 Copynumber: 1.9 Consensus size: 68
19153293 AGCCTATAAG
* * * **
19153303 AGTGTAAGACCATAGCTAGGCTATGGCAATATATAAAGTCCGCCAGGACAGTAAACATGGCACCA
1 AGTGTAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATGGCACCA
19153368 TAT
66 TAT
* * * *
19153371 AGTGTAAGACCAAAGCTGGGCTATGACAACGTATGAAGTCAACCAGGATAGTAAACATG
1 AGTGTAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATG
19153430 ACTTCATCTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (68 bp):
AGTGTAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATGGCACCA
TAT
Found at i:19153448 original size:68 final size:68
Alignment explanation
Indices: 19153303--19153478 Score: 172
Period size: 68 Copynumber: 2.6 Consensus size: 68
19153293 AGCCTATAAG
* ** * ** *
19153303 AGTGTAAGACCATAGCTAGGCTATGGCAATATATAAAGTCCGCCAGGACAGTAAACATGGCACCA
1 AGTGCAAGACCATAGCTAGGCTATGGCAACGTATGAAGTCAACCAGGACAGTAAACATGACACCA
19153368 TAT
66 TAT
* * * * * **
19153371 AGTGTAAGACCAAAGCTGGGCTATGACAACGTATGAAGTCAACCAGGATAGTAAACATGACTTCA
1 AGTGCAAGACCATAGCTAGGCTATGGCAACGTATGAAGTCAACCAGGACAGTAAACATGACACCA
*
19153436 TCT
66 TAT
* * ***
19153439 ATTGCAAGACCATAGTTTCACTATGGCAACGTATGAAGTC
1 AGTGCAAGACCATAGCTAGGCTATGGCAACGTATGAAGTC
19153479 CTCCACGACA
Statistics
Matches: 87, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (68 bp):
AGTGCAAGACCATAGCTAGGCTATGGCAACGTATGAAGTCAACCAGGACAGTAAACATGACACCA
TAT
Found at i:19162455 original size:11 final size:11
Alignment explanation
Indices: 19162439--19162464 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19162429 GTTGGTCTTG
19162439 GATGTCCTACT
1 GATGTCCTACT
19162450 GATGTCCTACT
1 GATGTCCTACT
19162461 GATG
1 GATG
19162465 GATAAGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (11 bp):
GATGTCCTACT
Found at i:19162619 original size:13 final size:13
Alignment explanation
Indices: 19162601--19162666 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
19162591 TTTCAGGTGG
19162601 AAAATGATTATAT
1 AAAATGATTATAT
19162614 AAAATGATTATAT
1 AAAATGATTATAT
* *
19162627 -GAATCAGTTATAT
1 AAAATGA-TTATAT
*
19162640 AGAAATAGA-TATAC
1 A-AAAT-GATTATAT
19162654 AAAATGATTATAT
1 AAAATGATTATAT
19162667 CAATCAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
12 6 0.14
13 27 0.64
14 5 0.12
15 3 0.07
16 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.35
Consensus pattern (13 bp):
AAAATGATTATAT
Found at i:19162663 original size:40 final size:40
Alignment explanation
Indices: 19162609--19162692 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
19162599 GGAAAATGAT
* * *
19162609 TATATAAAATGATTATATGAATCAGTTATATAGAAATAGA
1 TATACAAAATGATTATATCAATCAATTATATAGAAATAGA
*
19162649 TATACAAAATGATTATATCAATCAATTATATGGAAATAGA
1 TATACAAAATGATTATATCAATCAATTATATAGAAATAGA
19162689 TATA
1 TATA
19162693 TGAATTGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.35
Consensus pattern (40 bp):
TATACAAAATGATTATATCAATCAATTATATAGAAATAGA
Found at i:19165881 original size:37 final size:37
Alignment explanation
Indices: 19165831--19165910 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
19165821 ACAATTTACT
19165831 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
1 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
19165868 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
1 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
*
19165905 TTCTTT
1 TACTTT
19165911 GTTGGTCTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (37 bp):
TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
Found at i:19167362 original size:18 final size:19
Alignment explanation
Indices: 19167339--19167374 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19167329 TCTATGAGGA
19167339 GGTATTTT-TTTATTTTCT
1 GGTATTTTATTTATTTTCT
*
19167357 GGTATTTTATTTGTTTTC
1 GGTATTTTATTTATTTTC
19167375 CCGTCTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (19 bp):
GGTATTTTATTTATTTTCT
Found at i:19168291 original size:42 final size:43
Alignment explanation
Indices: 19168241--19168517 Score: 268
Period size: 42 Copynumber: 6.5 Consensus size: 43
19168231 AGATTCCCCG
* * * *
19168241 AGGGGTTGTTAAGTGCTGATTCC-CTGAAT-TATTGATTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATAT-TTGATTGTGAA
*
19168282 AGGTGGTTGTTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * * *
19168326 AGGGGTTGCTATGTGCTGATTCC-CCGTATCA-CTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAA
*
19168367 AGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * * * *
19168411 AGGGGTTGCTATGTGCTGATTCC-TCGTATCA-CTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAA
* *
19168452 AGGTGGTTGCTAAGTACT-ATTCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
*
19168495 AGGGGTTGCTATGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCC
19168518 CCATATCACT
Statistics
Matches: 193, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
41 18 0.09
42 94 0.49
43 70 0.36
44 11 0.06
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (43 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
Found at i:19168560 original size:84 final size:85
Alignment explanation
Indices: 19168241--19168547 Score: 465
Period size: 85 Copynumber: 3.6 Consensus size: 85
19168231 AGATTCCCCG
* * * * * * * * *
19168241 AGGGGTTGTTAAGTGCTGATTCCCTGAATTATTGATTCTAAAGGTGGTTGTTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
19168306 ACCGTATATTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
*
19168326 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
19168391 ACCGTATATTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
* *
19168411 AGGGGTTGCTATGTGCTGATTCCTCGTATCACTGAATATAAAGGTGGTTGCTAAGTACT-ATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
19168475 ACCGTATCTTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
* *
19168495 AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAAT-TTAAGGTGGTTGCTAA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAA
19168548 ATGTTGAATC
Statistics
Matches: 205, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
83 15 0.07
84 59 0.29
85 131 0.64
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATTTGATTGTGAA
Found at i:19174617 original size:4 final size:4
Alignment explanation
Indices: 19174610--19174646 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
19174600 TTATTCCTTC
*
19174610 CTTT CTTT CTTT CTTT TTTT CTTT CTTT -TTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
19174647 AATTTTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
CTTT
Found at i:19174652 original size:12 final size:11
Alignment explanation
Indices: 19174610--19174646 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
19174600 TTATTCCTTC
19174610 CTTTCTTTCTTT
1 CTTT-TTTCTTT
19174622 CTTTTTTTCTTT
1 C-TTTTTTCTTT
19174634 CTTTTTTCTTT
1 CTTTTTTCTTT
19174645 CT
1 CT
19174647 AATTTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.50
12 9 0.38
13 3 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:19182531 original size:61 final size:61
Alignment explanation
Indices: 19182436--19182557 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
19182426 AATCAATTAA
19182436 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
19182497 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
19182558 GAAGATTGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (61 bp):
TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
Found at i:19188267 original size:22 final size:23
Alignment explanation
Indices: 19188239--19188283 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19188229 ATACAATCGT
*
19188239 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATATAATCTTAGA
*
19188261 AGATATGATTTTATAATCTTAGA
1 AGATATGATTATATAATCTTAGA
19188284 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
AGATATGATTATATAATCTTAGA
Found at i:19188298 original size:23 final size:23
Alignment explanation
Indices: 19188251--19188298 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
19188241 ATATGATATG
*
19188251 TAATCTTAGAAGATATGATTTTA
1 TAATCTTAGAAGATATAATTTTA
*
19188274 TAATCTTAG-AGATTTAATTTGTA
1 TAATCTTAGAAGATATAATTT-TA
19188297 TA
1 TA
19188299 TACCTTTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTA
Found at i:19190301 original size:20 final size:20
Alignment explanation
Indices: 19190276--19190315 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19190266 AGTATGAGCT
19190276 TGGCTTGAGATATAATTGAG
1 TGGCTTGAGATATAATTGAG
19190296 TGGCTTGAGATATAATTGAG
1 TGGCTTGAGATATAATTGAG
19190316 ATACTCGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (20 bp):
TGGCTTGAGATATAATTGAG
Found at i:19196494 original size:56 final size:56
Alignment explanation
Indices: 19196395--19196552 Score: 217
Period size: 56 Copynumber: 2.8 Consensus size: 56
19196385 GAGGGGGTGT
* * * * *
19196395 TAAGATATTATTATGGGATTTTATCTTTTTAGCAATTTAATTCCTAATGAGATGTTG
1 TAAGATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAACGAGATATTA
* * * *
19196452 TAGGATGTTATTATGAGATATTATCTCTTAGCAATTTGATTCCTAACGAGATATTA
1 TAAGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
*
19196508 TAAGATATTATTATGGGGTATTATCTTTTAGCAATTTGATTCCTA
1 TAAGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
19196553 CATAACTACT
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 66 0.76
57 21 0.24
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (56 bp):
TAAGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
Found at i:19198101 original size:10 final size:9
Alignment explanation
Indices: 19198078--19198154 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 9
19198068 GTCAGCCTAA
19198078 TAAAAATTT
1 TAAAAATTT
19198087 TAAAAATTT
1 TAAAAATTT
*
19198096 TAAAAATAT
1 TAAAAATTT
*
19198105 TCAAAA--T
1 TAAAAATTT
19198112 TAAAAA-TT
1 TAAAAATTT
*
19198120 AAAAAATATAT
1 TAAAAAT-T-T
* *
19198131 AAAAAATTCA
1 TAAAAATT-T
19198141 TAAAAA-TT
1 TAAAAATTT
19198149 TAAAAA
1 TAAAAA
19198155 GAGAGCATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
7 6 0.11
8 12 0.21
9 23 0.41
10 7 0.12
11 8 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATTT
Found at i:19200623 original size:6 final size:6
Alignment explanation
Indices: 19200614--19200641 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19200604 AACATAATTA
19200614 TAATAT TAATAT TAATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAAT
19200642 TATCACATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:19202561 original size:44 final size:43
Alignment explanation
Indices: 19202489--19202736 Score: 205
Period size: 44 Copynumber: 5.6 Consensus size: 43
19202479 TTAATCCAAC
* * *
19202489 CCACTTCAACTTCA-GAGGTATAGAATTTGTCGCTTCAATCTGCT
1 CCACTGCAACTTCAGGAGATA-AG-ATTTGTAGCTTCAATCTGCT
*
19202533 CCACGGCAACTTCAGGAAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGG-AGATAAGATTTGTAGCTTCAATCTGCT
* * * * * **
19202577 CCACTACAACTTCAGGGAGACAAGA-TTGTGGCTTTTAGTCTATT
1 CCACTGCAACTTCA-GGAGATAAGATTTGTAGC-TTCAATCTGCT
* *
19202621 CCACTGCAACTTCAAGGAGATAAGATTTGTTGTTTCAATCTGCT
1 CCACTGCAACTTC-AGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * ** *
19202665 CTACTGCAACTTTA-GAGATATTAGATTTATATATTTAATCTGCT
1 CCACTGCAACTTCAGGAGATA--AGATTTGTAGCTTCAATCTGCT
*
19202709 CCACTTGCAACTTCAAAGAGATAAGATT
1 CCAC-TGCAACTTC-AGGAGATAAGATT
19202737 CGTTATGGTA
Statistics
Matches: 164, Mismatches: 29, Indels: 21
0.77 0.14 0.10
Matches are distributed among these distances:
42 6 0.04
43 7 0.04
44 116 0.71
45 24 0.15
46 5 0.03
47 6 0.04
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (43 bp):
CCACTGCAACTTCAGGAGATAAGATTTGTAGCTTCAATCTGCT
Found at i:19206342 original size:26 final size:25
Alignment explanation
Indices: 19206284--19206349 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
19206274 AAGCAAGCAC
* * *
19206284 TAACAGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCACAAAGAGCATA
*
19206309 TAATCGGGAAGCTCACGAAGAGACATA
1 TAA-CGGGAAGCTCACAAAGAG-CATA
*
19206336 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
19206350 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 26 0.76
27 5 0.15
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCATA
Found at i:19217607 original size:41 final size:41
Alignment explanation
Indices: 19217550--19217706 Score: 251
Period size: 41 Copynumber: 3.8 Consensus size: 41
19217540 TTATATAAAA
* * * *
19217550 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCGATACATTT
*
19217591 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCGATACATTT
* *
19217632 CACCGGCACAGAGCATGCTAGGCATAAAGCCCAATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCGATACATTT
19217673 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCGA
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCGA
19217707 ACTTACAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.16
Consensus pattern (41 bp):
CACCGGCACAGAGCCTGCTAGGCATAAAGCCCGATACATTT
Found at i:19217910 original size:47 final size:47
Alignment explanation
Indices: 19217824--19218284 Score: 377
Period size: 47 Copynumber: 9.3 Consensus size: 47
19217814 TTTATTTCAG
* *
19217824 TGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTC
1 TGCATAAC-AAT-TATATATACATTCGGCTATAGATTAATTCATTTCTC
* * * **
19217873 TGCATAACAATTACATATACATTCAGCTATAGATTAATCCATTTCAA
1 TGCATAACAATTATATATACATTCGGCTATAGATTAATTCATTTCTC
* * * *
19217920 TGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTC
1 TGCATAAC-AAT-TATATATACATTCGGCTATAGATTAATTCATTTCTC
* * *
19217969 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAAC
1 TGCATAACAATTATATATACATTCGGCTATAGATTAATTCATTTC-TC
* * * * *
19218017 -GTATAACAAATATATATACATTCGGCCATAGTTTAATTTATTTCTC
1 TGCATAACAATTATATATACATTCGGCTATAGATTAATTCATTTCTC
* * **
19218063 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAA
1 TGCATAACAATTATATATACATTCGGCTATAGATTAATTCATTTCTC
* * **
19218110 TGTATAACAAATATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAA
1 TGCATAAC--A-AT-TATATATACATTCGG-C-T-A--TA-G--A--T----TAATTCATTTCTC
* * * *
19218175 TGCATAACAAATATATATACATTTGGCCATAGTTTAATTCATTTCTC
1 TGCATAACAATTATATATACATTCGGCTATAGATTAATTCATTTCTC
* * *
19218222 TACATAACAATTACATATACATTCAGCTATAGATTAATTCATTT-TC
1 TGCATAACAATTATATATACATTCGGCTATAGATTAATTCATTTCTC
*
19218268 ATGCATAACAAATATAT
1 -TGCATAACAATTATAT
19218285 TTATATATAT
Statistics
Matches: 327, Mismatches: 62, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
46 3 0.01
47 206 0.63
48 10 0.03
49 44 0.13
50 2 0.01
51 14 0.04
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 4 0.01
57 1 0.00
58 1 0.00
59 1 0.00
60 1 0.00
61 15 0.05
62 1 0.00
63 1 0.00
65 19 0.06
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (47 bp):
TGCATAACAATTATATATACATTCGGCTATAGATTAATTCATTTCTC
Found at i:19218093 original size:94 final size:96
Alignment explanation
Indices: 19217811--19218144 Score: 582
Period size: 96 Copynumber: 3.5 Consensus size: 96
19217801 TAACTTCAAA
* * * *
19217811 TAATTTATTTCAGTGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
1 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
19217876 ATAACAATTACATATACATTCAGCTATAGAT
66 ATAACAATTACATATACATTCAGCTATAGAT
*
19217907 TAATCCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
1 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
19217972 ATAACAATTACATATACATTCAGCTATAGAT
66 ATAACAATTACATATACATTCAGCTATAGAT
*
19218003 TAATTCATTTCAACGTATAAC-AA-ATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
1 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
19218066 ATAACAATTACATATACATTCAGCTATAGAT
66 ATAACAATTACATATACATTCAGCTATAGAT
19218097 TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATA
1 TAATTCATTTCAATGTATAAC-AA-ATATATATATACATTCGGCCATA
19218145 ACCTATGTAA
Statistics
Matches: 226, Mismatches: 8, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
94 91 0.40
95 2 0.01
96 111 0.49
97 1 0.00
98 21 0.09
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (96 bp):
TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
ATAACAATTACATATACATTCAGCTATAGAT
Found at i:19223660 original size:18 final size:17
Alignment explanation
Indices: 19223637--19223690 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
19223627 TGGTTATAGT
19223637 TTTTAAAACCATTAAAAA
1 TTTTAAAA-CATTAAAAA
19223655 TTTTAAATA-ATTTAAAAA
1 TTTTAAA-ACA-TTAAAAA
*
19223673 TTATAAAACA-TAAAAA
1 TTTTAAAACATTAAAAA
19223689 TT
1 TT
19223691 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 21 0.66
19 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTTAAAACATTAAAAA
Found at i:19224037 original size:17 final size:19
Alignment explanation
Indices: 19224017--19224057 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
19224007 TTTTAATAGT
19224017 TTTTAATAATT-TTTAT-A
1 TTTTAATAATTATTTATAA
19224034 TTTT-A-AATTATTTATAA
1 TTTTAATAATTATTTATAA
19224051 TTTTAAT
1 TTTTAAT
19224058 GTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 9 0.45
18 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAATAATTATTTATAA
Found at i:19225463 original size:24 final size:24
Alignment explanation
Indices: 19225432--19225497 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
19225422 ATCTAAAATA
*
19225432 ATAATATATGATAAGTTTCAAACT
1 ATAATATATGATAAATTTCAAACT
* * *
19225456 ATAGTATATAATAAATTTCAAGCT
1 ATAATATATGATAAATTTCAAACT
*
19225480 ATAATGTATGATAAATTT
1 ATAATATATGATAAATTT
19225498 AAATAATACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (24 bp):
ATAATATATGATAAATTTCAAACT
Found at i:19227288 original size:44 final size:44
Alignment explanation
Indices: 19227201--19227488 Score: 139
Period size: 44 Copynumber: 6.6 Consensus size: 44
19227191 GATCTGCTAT
19227201 ACTGCAACTTCAGGGAGATAGGATTTGAGGTTCTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAGGATTTGAGGTTCTAATCCGCTCC
* * ** *
19227245 ACTGTAACTTCAGGGAGATAGGA-TTG-GTTTCTTGTGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAGGATTTGAGGTTC-T-AATCCGCTCC
* * * * *
19227289 ACTGCAACCTT-AGGGAGACAAGA--CG-GGTTGC-AATCTGCTCT
1 ACTGCAA-CTTCAGGGAGATAGGATTTGAGGTT-CTAATCCGCTCC
* * * * * * *
19227330 ACTACAACTTCAGAGAGATAAGATCTGTA-GTTTTAATCAGTTCC
1 ACTGCAACTTCAGGGAGATAGGATTTG-AGGTTCTAATCCGCTCC
** * * * * * *
19227374 TTTGCAATTTCAAGGAGGTAGGATTATCG-GCTTC-AATCTGCTCT
1 ACTGCAACTTCAGGGAGATAGGATT-T-GAGGTTCTAATCCGCTCC
* ** **
19227418 ACTGCAACTTCAGGGAGATAGGATTATCAACTTC-AATCTACTCC
1 ACTGCAACTTCAGGGAGATAGGATT-TGAGGTTCTAATCCGCTCC
* *
19227462 ACTGCAACCTCAGGGAGATAAGATTTG
1 ACTGCAACTTCAGGGAGATAGGATTTG
19227489 CCATCTTCGA
Statistics
Matches: 183, Mismatches: 47, Indels: 29
0.71 0.18 0.11
Matches are distributed among these distances:
40 3 0.02
41 23 0.13
42 4 0.02
43 10 0.05
44 136 0.74
45 6 0.03
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAGGATTTGAGGTTCTAATCCGCTCC
Found at i:19228049 original size:129 final size:129
Alignment explanation
Indices: 19227781--19228801 Score: 1679
Period size: 129 Copynumber: 7.9 Consensus size: 129
19227771 GACCAGGAAT
*
19227781 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATTTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
19227846 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * * * *
19227909 AATCTACTTCCTCACACTTGAAGATAAGATTCGTCGTCCTCGATCTGCTCCGTTATTGCTTAGAG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19227974 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACTAGGGATATAGGACTTGTGGTTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * *
19228038 AATCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTATTGCTTAGAG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19228103 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATATGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * *
19228166 AATCTGCTTCCTGACACTTGAAGATAAGATTCGCTGTCCTCGATCTGCTCTGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * *
19228231 AGATAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACCAGGGATATAGGACTTGTGGTTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
19228295 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19228360 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGGCTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * * *
19228423 AATCTGCTTCCTGACACTTGAAGATAGGATTCGCCGTCCTCGATCTGCCCCGTTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * * *
19228488 AGACAAGATCTATAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTATGGTTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
19228552 AATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19228617 AGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCTGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
19228681 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * *
19228746 AGACAAGATCTGTAATTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
19228802 ACAATCTTCA
Statistics
Matches: 822, Mismatches: 68, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
128 305 0.37
129 517 0.63
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (129 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
Found at i:19228244 original size:257 final size:257
Alignment explanation
Indices: 19227781--19228801 Score: 1745
Period size: 257 Copynumber: 4.0 Consensus size: 257
19227771 GACCAGGAAT
*
19227781 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATTTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
19227846 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
66 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
* * * * *
19227911 TCTACTTCCTCACACTTGAAGATAAGATTCGTCGTCCTCGATCTGCTCCGTTATTGCTTAGAGAG
131 TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGAG
* *
19227976 ACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACTAGGGATATAGGACTTGTGGTTTA
196 ACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
* * *
19228038 AATCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTATTGCTTAGAG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19228103 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATATGACTTGTGGCTTAAA
66 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
* *
19228168 TCTGCTTCCTGACACTTGAAGATAAGATTCGCTGTCCTCGATCTGCTCTGCTATTGCTTAGGGAG
131 TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGAG
* * *
19228233 ATAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACCAGGGATATAGGACTTGTGGTTTA
196 ACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
*
19228295 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19228360 AGACAAGATCTGTATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGGCTTGTGGCTTAAA
66 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
* * *
19228425 TCTGCTTCCTGACACTTGAAGATAGGATTCGCCGTCCTCGATCTGCCCCGTTATTGCTTAGGGAG
131 TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGAG
* *
19228490 ACAAGATCTATAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTATGGTTTA
196 ACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
*
19228552 AATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19228617 AGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCTGGGATATAGGACTTGTGGCTTAA
66 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
* *
19228682 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
130 ATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGA
* *
19228747 GACAAGATCTGTAATTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
195 GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTT
19228802 ACAATCTTCA
Statistics
Matches: 717, Mismatches: 46, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
257 557 0.78
258 160 0.22
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (257 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGAG
ACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
Found at i:19228556 original size:386 final size:386
Alignment explanation
Indices: 19227781--19228801 Score: 1704
Period size: 386 Copynumber: 2.6 Consensus size: 386
19227771 GACCAGGAAT
*
19227781 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATTTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19227846 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
66 AGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
* * * * * *
19227910 ATCTACTTCCTCACACTTGAAGATAAGATTCGTCGTCCTCGATCTGCTCCGTTATTGCTTAGAGA
131 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
* *
19227975 GACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACTAGGGATATAGGACTTGTGGTTTAAA
196 GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAA
* * * *
19228040 TCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTATTGCTTAGAGAG
261 TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCAATCTGCCCCGCTATTGCTTAGAGAG
* * * *
19228105 ACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATATGACTTGTGGCTTA
326 ACAAGATCTATATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTATGGCTTA
* * * *
19228166 AATCTGCTTCCTGACACTTGAAGATAAGATTCGCTGTCCTCGATCTGCTCTGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19228231 AGATAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACCAGGGATATAGGACTTGTGGTTTAA
66 AGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
*
19228296 ATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
131 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
* *
19228361 GACAAGATCTGT-ATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGGCTTGTGGCTTAAA
196 GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAA
* * * *
19228425 TCTGCTTCCTGACACTTGAAGATAGGATTCGCCGTCCTCGATCTGCCCCGTTATTGCTTAGGGAG
261 TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCAATCTGCCCCGCTATTGCTTAGAGAG
*
19228490 ACAAGATCTATAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTATGGTTTA
326 ACAAGATCTAT-ATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTATGGCTTA
*
19228552 AATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19228617 AGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCTGGGATATAGGACTTGTGGCTTAA
66 AGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
19228682 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
131 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
*
19228747 GACAAGATCTGTAATTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
196 GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACTAGGGATATAGGACTT
19228802 ACAATCTTCA
Statistics
Matches: 589, Mismatches: 44, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
385 187 0.32
386 363 0.62
387 39 0.07
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (386 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAA
TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCAATCTGCCCCGCTATTGCTTAGAGAG
ACAAGATCTATATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTATGGCTTA
Found at i:19231004 original size:6 final size:6
Alignment explanation
Indices: 19230993--19231084 Score: 82
Period size: 6 Copynumber: 15.7 Consensus size: 6
19230983 CTTCTCTCTT
* * * *
19230993 TTTTCA TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* * * *
19231039 TCTT-C TTTTTA TTTTTA TTTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTT
19231085 TTTTTGAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
4 3 0.04
5 3 0.04
6 65 0.86
7 5 0.07
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:19235686 original size:24 final size:24
Alignment explanation
Indices: 19235655--19235720 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
19235645 ATCTAAAATA
*
19235655 ATAATATATGATAAGTTTCAAACT
1 ATAATATATGATAAATTTCAAACT
* * *
19235679 ATAGTATATAATAAATTTCAAGCT
1 ATAATATATGATAAATTTCAAACT
*
19235703 ATAATGTATGATAAATTT
1 ATAATATATGATAAATTT
19235721 AAATAATACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (24 bp):
ATAATATATGATAAATTTCAAACT
Found at i:19237361 original size:45 final size:44
Alignment explanation
Indices: 19237307--19237393 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
19237297 GGTTCGCTGT
*
19237307 AATGGAATAGAGGC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGA-ACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
* *
19237352 AATGTAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAAT
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAAT
19237394 TGAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.03
44 18 0.49
45 18 0.49
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:19239501 original size:90 final size:90
Alignment explanation
Indices: 19239386--19239593 Score: 335
Period size: 90 Copynumber: 2.3 Consensus size: 90
19239376 TTGTATCTTC
* * * *
19239386 AATCCACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTCGATCCACTTTGCTGCCAATA
1 AATCTACTTCACTGCCAGTATAGGAAGATAAGATCTGCTATCTTCGATCCACTTTACTGCCAATA
19239451 CAAGAAGACAAGATCTGCTATCTCT
66 CAAGAAGACAAGATCTGCTATCTCT
* *
19239476 GATCTAGTTCACTGCCAGTATAGGAAGATAAGATCTGCTATCTTCGATCCACTTTACTGCCAATA
1 AATCTACTTCACTGCCAGTATAGGAAGATAAGATCTGCTATCTTCGATCCACTTTACTGCCAATA
*
19239541 CATGAAGACAAGATCTGCTATCTCT
66 CAAGAAGACAAGATCTGCTATCTCT
* *
19239566 AATCTACTTCGCTGCTAGTATAGGAAGA
1 AATCTACTTCACTGCCAGTATAGGAAGA
19239594 CAATATGTAT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 107 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (90 bp):
AATCTACTTCACTGCCAGTATAGGAAGATAAGATCTGCTATCTTCGATCCACTTTACTGCCAATA
CAAGAAGACAAGATCTGCTATCTCT
Found at i:19239594 original size:45 final size:45
Alignment explanation
Indices: 19239379--19239596 Score: 242
Period size: 45 Copynumber: 4.8 Consensus size: 45
19239369 ATAAGACTTG
* *
19239379 TATCTTCAATCCACTTCGCTGCCAGTACAGGAAGATAAGATCTGC
1 TATCTTCGATCCACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
* * *
19239424 TATCTTCGATCCACTTTGCTGCCAATACAAGAAGACAAGATCTGC
1 TATCTTCGATCCACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
* * * * *
19239469 TATC-TCTGATCTAGTTCACTGCCAGTATAGGAAGATAAGATCTGC
1 TATCTTC-GATCCACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
** * *
19239514 TATCTTCGATCCACTTTACTGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCCACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
* * * *
19239559 TATC-TCTAATCTACTTCGCTGCTAGTATAGGAAGACAA
1 TATCTTC-GATCCACTTCGCTGCCAGTACAGGAAGACAA
19239597 TATGTATATA
Statistics
Matches: 142, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
44 4 0.03
45 136 0.96
46 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCCACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
Found at i:19241158 original size:59 final size:60
Alignment explanation
Indices: 19241003--19241159 Score: 151
Period size: 59 Copynumber: 2.6 Consensus size: 60
19240993 GGCCTGTTAG
* *
19241003 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAA-TCATAATATTAAATATTATTATAT
* * * ** * * * *
19241064 GAATTTACTAAAATCATAATAAATAATACT-ATAAAAT-ATAAT-TTAAAATAATTATTAT-T
1 AAATATAATTTAATAAAAATATATAAT-TTAATAAAATCATAATATT-AAAT-ATTATTATAT
19241123 AAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAAT
19241160 TCAATATAAT
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
58 3 0.04
59 35 0.49
60 8 0.11
61 25 0.35
62 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (60 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATCATAATATTAAATATTATTATAT
Found at i:19241160 original size:10 final size:10
Alignment explanation
Indices: 19241098--19241170 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
19241088 AATACTATAA
19241098 AATATAATTT
1 AATATAATTT
*
19241108 AAAATAA-TT
1 AATATAATTT
*
19241117 -AT-T-ATTA
1 AATATAATTT
19241124 AATATAATTT
1 AATATAATTT
**
19241134 AATA-AAAAT
1 AATATAATTT
19241143 -ATATAATTT
1 AATATAATTT
* *
19241152 AATAAAATTC
1 AATATAATTT
19241162 AATATAATT
1 AATATAATT
19241171 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:19242686 original size:49 final size:49
Alignment explanation
Indices: 19242614--19242717 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
19242604 AAAAAAAAAC
* * * *
19242614 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAATTCAATATCATGAATCAAAAGCTCAACACTTTATA
19242663 AAATTAAAATTAAATTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAATTCAATATCATGAATCAAAAGCTCAACACTTTATA
19242712 AAATTA
1 AAATTA
19242718 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAATTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:19245086 original size:16 final size:16
Alignment explanation
Indices: 19245067--19245097 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19245057 TAAATTGGAA
19245067 TATTAAAAATAAAAAT
1 TATTAAAAATAAAAAT
19245083 TATTAAAAATAAAAA
1 TATTAAAAATAAAAA
19245098 AATATAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAAATAAAAAT
Found at i:19246775 original size:78 final size:78
Alignment explanation
Indices: 19246622--19246776 Score: 193
Period size: 78 Copynumber: 2.0 Consensus size: 78
19246612 ATCAGCCAAT
* *
19246622 GGGTTAACAAGGAGTGAATTTGCAATTATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
1 GGGTTAACAAGGACTGAATTTGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
* **
19246687 GCAATGACACTCA
66 ACAACAACACTCA
** * * * * *
19246700 GGGTTAATGAGGACTGAATTTGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAAG
1 GGGTTAACAAGGACTGAATTTGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
*
19246765 ACAGCAACACTC
66 ACAACAACACTC
19246777 GAAACTTGCA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (78 bp):
GGGTTAACAAGGACTGAATTTGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
ACAACAACACTCA
Found at i:19258323 original size:132 final size:132
Alignment explanation
Indices: 19258210--19259352 Score: 1618
Period size: 132 Copynumber: 8.7 Consensus size: 132
19258200 ACAAGCCTCC
* ** * *
19258210 ATGTACTCCACTGTAATCATAATGAGGTAAAATCCACCATCTTCGATTTGCTCCACTACTACTTA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
* * * *
19258275 GGGAGATGAGATCTAAAATATTCAATCTATTCCACTGCTGCCCAGGG-AGATAGAATTACTGGCT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCT
19258339 TCA
130 TCA
* * * * *
19258342 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACAACTACTTA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
***
19258407 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGG-AGATAGAATTACTGGCT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCT
19258471 TCA
130 TCA
* * * * * * *
19258474 ATATACTCTACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATATACTCCACTACTACTTA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
* * *
19258539 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTCAGAGAAATAGAATTACTGGCTT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
19258604 CA
131 CA
* ** * *
19258606 ATGTATTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTACTTA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
* *
19258671 GGGAGGTAAGATCTGAAATCTTCAATCTATTCTACTGCTGCCCAGGGAAGTAGAATGACTGGCTT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
19258736 CA
131 CA
* **
19258738 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATTTGCTCCACTACCGCCTA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
* * *
19258803 GAGAGGTAAGATCTGAAATCTTCAATCTACTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
19258868 CA
131 CA
**
19258870 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACCGCCTA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
* *
19258935 GGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGGCCAGGGAAGTAGAATTACTGGCTT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
19259000 CA
131 CA
* * * *
19259002 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTC---CTGCCCCACTTCAACCGA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
** * * *
19259064 GGGAGGCGAGGTCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
19259129 CA
131 CA
* * *
19259131 ATGTACTCCACTATAATCACAGGGAGGTAAAATCCACCATCTTC---CTGCTCCACTACAACCGA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
* * * * * *
19259193 GGGAGGCAAGGTCTGTAATCTTTAATCTATTCCACTGCTGCCCAGAGAAGTAGAATTACTAGCTT
66 GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
19259258 CA
131 CA
* * *
19259260 ATGTACTCCACTGTAATCACAGGGAGGTGAAATCCACCATCTTCGATCTACTCCACTACTGCCTA
1 ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
*
19259325 GGGAGATAAGATCTGAAATCTTCAATCT
66 GGGAGGTAAGATCTGAAATCTTCAATCT
19259353 CCTTCGCTGT
Statistics
Matches: 919, Mismatches: 88, Indels: 8
0.91 0.09 0.01
Matches are distributed among these distances:
129 236 0.26
132 682 0.74
133 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
ATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTACCTA
GGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
CA
Found at i:19258397 original size:88 final size:88
Alignment explanation
Indices: 19258295--19258667 Score: 217
Period size: 88 Copynumber: 4.2 Consensus size: 88
19258285 ATCTAAAATA
* *
19258295 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATC
1 TTCAATCTACTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATC
*
19258360 ACAGGGAGGTAAAATCCGCCATC
66 ACAGGGAGGTAAAATCTGCCATC
** ** * * * *
19258383 TTCAATCTACTCCACAACTACTTAGGGAGGTA-AGA-T-CTGAAATCTTCAATCTATTCCACTGC
1 TTCAATCTACTCCACTGCTACCCAGGGAGATAGA-ATTACTG---GCTTCAATGTACTCCACTG-
* * * * ***
19258445 CAA-C-CAGGGAGATAGAAT-TACTGGC
61 TAATCACAGGGAGGTAAAATCTGCCATC
* * * * ** *** * *
19258470 TTCAATATACTCTACTG-TAACCACAGGGAGGTAAAATCCGCCATCTTCGATATACTCCAC--TA
1 TTCAATCTACTCCACTGCT-ACC-CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTA
* * **
19258532 CT-ACTTAGGGAGGTAAGATCTGAAATC
63 ATCAC--AGGGAGGTAAAATCTGCCATC
* * * * * *
19258559 TTCAATCTATTCCACTGCTGCTCAGAGAAATAGAATTACTGGCTTCAATGTATTCCACTGTAATC
1 TTCAATCTACTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATC
19258624 ACAGGGAGGTAAAATCTGCCATC
66 ACAGGGAGGTAAAATCTGCCATC
* *
19258647 TTCGATCTACTCCACTACTAC
1 TTCAATCTACTCCACTGCTAC
19258668 TTAGGGAGGT
Statistics
Matches: 200, Mismatches: 65, Indels: 40
0.66 0.21 0.13
Matches are distributed among these distances:
85 1 0.00
86 5 0.03
87 33 0.17
88 117 0.58
89 38 0.19
90 5 0.03
91 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (88 bp):
TTCAATCTACTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATC
ACAGGGAGGTAAAATCTGCCATC
Found at i:19258410 original size:44 final size:44
Alignment explanation
Indices: 19258337--19258970 Score: 167
Period size: 44 Copynumber: 14.4 Consensus size: 44
19258327 GAATTACTGG
* * *
19258337 CTTCAATGTACTCCACTGTAA-TCAC-AGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* *
19258382 CTTCAATCTACTCCAC-AACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTAC-TAGGGAGGTAAAATCTGCAAT
* ** * * * * * ***
19258426 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
* * * * *
19258469 CTTCAATATACTCTACTGTAACCAC-AGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCAC--TAACTACTAGGGAGGTAAAATCTGCAAT
* * * *
19258514 CTTCGATATACTCCACT-ACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTAC-TAGGGAGGTAAAATCTGCAAT
* * * * ** * * ***
19258558 CTTCAATCTATTCCACT-GCTGCTCAGAGAAATAGAAT-TACTGG
1 CTTCAATCTACTCCACTAACTACT-AGGGAGGTAAAATCTGCAAT
* * *
19258601 CTTCAATGTATTCCACTGTAA-TCAC-AGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* * *
19258646 CTTCGATCTACTCCACT-ACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTAC-TAGGGAGGTAAAATCTGCAAT
* * * * * * * *
19258690 CTTCAATCTATTCTACT-GCTGCCCAGGGAAGTAGAATGACTG---G
1 CTTCAATCTACTCCACTAACT-ACTAGGGAGGTAAAAT--CTGCAAT
* ** *
19258733 CTTCAATGTACTCCACTGTAA-TCAC-AGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* * * * ** * * *
19258778 CTTCGATTTGCTCCACTACCGCCTAGAGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
* * * * * ***
19258822 CTTCAATCTACTCCACT-ACTGCCCAGGGAAGTAGAAT-TACTGG
1 CTTCAATCTACTCCACTAACT-ACTAGGGAGGTAAAATCTGCAAT
* ** *
19258865 CTTCAATGTACTCCACTGTAA-TCAC-AGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* * * ** * * *
19258910 CTTCGATCTGCTCCACTACCGCCTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
*
19258954 CTTCAATCTATTCCACT
1 CTTCAATCTACTCCACT
19258971 GCTGGCCAGG
Statistics
Matches: 411, Mismatches: 142, Indels: 73
0.66 0.23 0.12
Matches are distributed among these distances:
42 12 0.03
43 71 0.17
44 234 0.57
45 89 0.22
46 5 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
Found at i:19261556 original size:5 final size:6
Alignment explanation
Indices: 19261543--19261592 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
19261533 CATTGGCCTC
* *
19261543 TCATTT TC-TTT TCTTTTTT TCATTT TCATTT TCATTT TCATTT TGATTT
1 TCATTT TCATTT TC-ATT-T TCATTT TCATTT TCATTT TCATTT TCATTT
19261592 T
1 T
19261593 GACTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 5 0.13
6 27 0.69
7 4 0.10
8 3 0.08
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (6 bp):
TCATTT
Found at i:19261565 original size:19 final size:19
Alignment explanation
Indices: 19261543--19261620 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 19
19261533 CATTGGCCTC
19261543 TCATTTTCTTTTCTTTTTT
1 TCATTTTCTTTTCTTTTTT
*
19261562 TCATTTTCATTTTC--ATTT
1 TCATTTTC-TTTTCTTTTTT
*
19261580 TCATTTTGATTTTGACTTTTTT
1 TCATTTT-CTTTT--CTTTTTT
*
19261602 TC-TTTTTTCTTTCTTTTTT
1 TCATTTTCT-TTTCTTTTTT
19261621 CTTTTTTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
18 14 0.29
19 15 0.31
20 7 0.15
21 7 0.15
22 5 0.10
ACGTcount: A:0.09, C:0.14, G:0.03, T:0.74
Consensus pattern (19 bp):
TCATTTTCTTTTCTTTTTT
Found at i:19261594 original size:6 final size:6
Alignment explanation
Indices: 19261559--19261592 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19261549 TCTTTTCTTT
*
19261559 TTTTCA TTTTCA TTTTCA TTTTCA TTTTGA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
19261593 GACTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:19261619 original size:20 final size:19
Alignment explanation
Indices: 19261595--19261703 Score: 78
Period size: 20 Copynumber: 5.4 Consensus size: 19
19261585 TTGATTTTGA
* *
19261595 CTTTTTTTCTTTTTTCTTT
1 CTTTTTTTTTTTTTTATTT
* *
19261614 CTTTTTTCTTTTTTGTGTTT
1 CTTTTTT-TTTTTTTTATTT
19261634 CTTTCTTTTTTTGTTTTATATT
1 CTTT-TTTTTTT-TTTTAT-TT
*
19261656 -TTTTGCTTTTGTTTTTTATTG
1 CTTTT--TTTT-TTTTTTATTT
19261677 CTTTTTTTTATTTTTCT-TTT
1 CTTTTTTTT-TTTTT-TATTT
19261697 CTTTTTT
1 CTTTTTT
19261704 GATTGTGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
19 7 0.10
20 36 0.49
21 12 0.16
22 16 0.22
23 2 0.03
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.81
Consensus pattern (19 bp):
CTTTTTTTTTTTTTTATTT
Found at i:19261638 original size:17 final size:16
Alignment explanation
Indices: 19261596--19261649 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 16
19261586 TGATTTTGAC
19261596 TTTT-TTTCTTT-TTT
1 TTTTGTTTCTTTCTTT
* *
19261610 CTTTCTTT-TTTCTTT
1 TTTTGTTTCTTTCTTT
19261625 TTTGTGTTTCTTTCTTT
1 TTT-TGTTTCTTTCTTT
19261642 TTTTGTTT
1 TTTTGTTT
19261650 TATATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 9 0.27
17 10 0.30
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTGTTTCTTTCTTT
Found at i:19261643 original size:18 final size:17
Alignment explanation
Indices: 19261597--19261647 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
19261587 GATTTTGACT
*
19261597 TTTTTTCTTTTTTCTTTC
1 TTTTTTCTTTTTT-TGTC
19261615 TTTTTTCTTTTTTGTGT-
1 TTTTTTCTTTTTT-TGTC
*
19261632 TTCTTTCTTTTTTTGT
1 TTTTTTCTTTTTTTGT
19261648 TTTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 3 0.10
17 12 0.40
18 15 0.50
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTTTTTTGTC
Found at i:19261716 original size:31 final size:32
Alignment explanation
Indices: 19261655--19261716 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
19261645 TGTTTTATAT
* **
19261655 TTTTTGCTTTTGTTTTTTATTGCTTTTTTTTA
1 TTTTTGCTTTTCTTTTTTATTGCTGATTTTTA
19261687 TTTTT-CTTTTCTTTTTTGATTG-TGATTTTT
1 TTTTTGCTTTTCTTTTTT-ATTGCTGATTTTT
19261717 TTGATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.77
Consensus pattern (32 bp):
TTTTTGCTTTTCTTTTTTATTGCTGATTTTTA
Found at i:19261716 original size:32 final size:32
Alignment explanation
Indices: 19261655--19261717 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
19261645 TGTTTTATAT
* *
19261655 TTTTTGCTTTTGTTTTTTATTGCTTTTTTTTA
1 TTTTTGCTTTTCTTTTTTATTGCTATTTTTTA
19261687 TTTTT-CTTTTCTTTTTTGATTG-TGATTTTTT
1 TTTTTGCTTTTCTTTTTT-ATTGCT-ATTTTTT
19261718 TGATTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.78
Consensus pattern (32 bp):
TTTTTGCTTTTCTTTTTTATTGCTATTTTTTA
Found at i:19269097 original size:30 final size:30
Alignment explanation
Indices: 19269056--19269112 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
19269046 TGACTCAGCT
*
19269056 ATGTATGGCACACAGCCTGGCGACATGACC
1 ATGTATGGCACACAGCCTGGCAACATGACC
* *
19269086 ATGTGTGGCACACGGCCTGGCAACATG
1 ATGTATGGCACACAGCCTGGCAACATG
19269113 GCTGTGGGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.18
Consensus pattern (30 bp):
ATGTATGGCACACAGCCTGGCAACATGACC
Found at i:19281509 original size:20 final size:22
Alignment explanation
Indices: 19281481--19281520 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
19281471 AGAATAAATG
*
19281481 AGAATAAAGA-AA-CTAAGTTC
1 AGAAGAAAGATAACCTAAGTTC
19281501 AGAAGAAAGATAACCTAAGT
1 AGAAGAAAGATAACCTAAGT
19281521 GCATTAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (22 bp):
AGAAGAAAGATAACCTAAGTTC
Found at i:19287436 original size:17 final size:17
Alignment explanation
Indices: 19287414--19287454 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
19287404 GTTGAATTCT
*
19287414 AATAGCTAAATGTATTA
1 AATAGCTAAAGGTATTA
19287431 AATAGCTAAAGGTATTA
1 AATAGCTAAAGGTATTA
19287448 AATAGCT
1 AATAGCT
19287455 CAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (17 bp):
AATAGCTAAAGGTATTA
Found at i:19288583 original size:25 final size:25
Alignment explanation
Indices: 19288528--19288583 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
19288518 GTTTCGACCC
* ** *
19288528 ACAGCTCATGTGAGCATATTGATTT
1 ACAGCTCATGAGAGCATATCAATCT
* *
19288553 ATAGCTCGTGAGAGCATATCAATCT
1 ACAGCTCATGAGAGCATATCAATCT
19288578 ACAGCT
1 ACAGCT
19288584 TGAGTGAGCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
ACAGCTCATGAGAGCATATCAATCT
Found at i:19296284 original size:41 final size:41
Alignment explanation
Indices: 19296234--19296329 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
19296224 CACCGGCATG
* *
19296234 AAGCCTGCTAGGCACAAGGCCTAAAACATTTCACTGACCTA
1 AAGCCTGCTAGGCACAAGACCTAAAACATTTCACCGACCTA
* * * * * * *
19296275 AAGCATGCTATGCTCAAGACTTGAAACATTTCACCGGCTTA
1 AAGCCTGCTAGGCACAAGACCTAAAACATTTCACCGACCTA
19296316 AAGCCTGCTAGGCA
1 AAGCCTGCTAGGCA
19296330 ATAAGCCCAT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
AAGCCTGCTAGGCACAAGACCTAAAACATTTCACCGACCTA
Found at i:19301060 original size:21 final size:21
Alignment explanation
Indices: 19301034--19301076 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
19301024 GATAGGCTAA
19301034 ATTGTCATG-TGAGTGGGTCAC
1 ATTGTCATGTTGA-TGGGTCAC
*
19301055 ATTGTCGTGTTGATGGGTCAC
1 ATTGTCATGTTGATGGGTCAC
19301076 A
1 A
19301077 CGGCTGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.35
Consensus pattern (21 bp):
ATTGTCATGTTGATGGGTCAC
Found at i:19303101 original size:26 final size:26
Alignment explanation
Indices: 19303058--19303120 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 26
19303048 GGCTAAACAG
19303058 CAAAATTTGCAATGTTAGGGACTAATAA
1 CAAAATTT--AATGTTAGGGACTAATAA
19303086 CAAAATTTAATGTTAGGGACTAATAA
1 CAAAATTTAATGTTAGGGACTAATAA
*
19303112 GAAAATTTA
1 CAAAATTTA
19303121 TCTTTTCCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 26 0.76
28 8 0.24
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (26 bp):
CAAAATTTAATGTTAGGGACTAATAA
Found at i:19304531 original size:30 final size:30
Alignment explanation
Indices: 19304492--19304564 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
19304482 CTTGAAATAC
* *
19304492 TATGAAAAGGGATAGCTTCGGCTATTGAA-T
1 TATGAAAAGGGATAACTTCGGCTA-TCAATT
*
19304522 TATGGAAAGGGATAACTTCGGCTATCAATT
1 TATGAAAAGGGATAACTTCGGCTATCAATT
19304552 TATGAAAAGGGAT
1 TATGAAAAGGGAT
19304565 GGTGACGACC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 3 0.08
30 35 0.92
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.29
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTCGGCTATCAATT
Found at i:19304579 original size:30 final size:30
Alignment explanation
Indices: 19304552--19304684 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 30
19304542 GCTATCAATT
19304552 TATGAAAAGGGATGGTGACGACCATCAAAA
1 TATGAAAAGGGATGGTGACGACCATCAAAA
* * * * * *
19304582 TATGAAATGGGATAGCT-TCGGCTATCAAAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAAA
* * * **
19304612 TATGCAATAGGGATGGTGCCAACCAT-AACC
1 TATG-AAAAGGGATGGTGACGACCATCAAAA
* *
19304642 TATGAAAAGGAATAGTGACGACCATCAAAA
1 TATGAAAAGGGATGGTGACGACCATCAAAA
19304672 TATGAAAAGGGAT
1 TATGAAAAGGGAT
19304685 AGCTTCAGCT
Statistics
Matches: 76, Mismatches: 23, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
29 16 0.21
30 47 0.62
31 13 0.17
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAA
Found at i:19304646 original size:90 final size:88
Alignment explanation
Indices: 19304552--19304722 Score: 261
Period size: 90 Copynumber: 1.9 Consensus size: 88
19304542 GCTATCAATT
* * * *
19304552 TATGAAAAGGGATGGTGACGACCATCAAAATATGAAATGGGATAGCTTCGGCTATCAAATTATGC
1 TATGAAAAGGAATAGTGACGACCATCAAAATATGAAAAGGGATAGCTTCAGCTATCAAATTATGC
*
19304617 AATAGGGATGGTGCCAACCATAACC
66 AA-A-GGATGGTGACAACCATAACC
* *
19304642 TATGAAAAGGAATAGTGACGACCATCAAAATATGAAAAGGGATAGCTTCAGCTATCGAATTATGG
1 TATGAAAAGGAATAGTGACGACCATCAAAATATGAAAAGGGATAGCTTCAGCTATCAAATTATGC
19304707 AAAGGATGGTGACAAC
66 AAAGGATGGTGACAAC
19304723 TATCGTGATT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
88 12 0.16
89 1 0.01
90 61 0.82
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (88 bp):
TATGAAAAGGAATAGTGACGACCATCAAAATATGAAAAGGGATAGCTTCAGCTATCAAATTATGC
AAAGGATGGTGACAACCATAACC
Found at i:19308370 original size:66 final size:66
Alignment explanation
Indices: 19308291--19308419 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
19308281 GCCAACTCAA
*
19308291 AAAATTTACGATCAATAAGAAATACCCATTACCGCGTATTGATTATCTGTTTGATCAGTTGAACT
1 AAAATTTACGATCAATAAGAAATAACCATTACCGCGTATTGATTATCTGTTTGATCAGTTGAACT
19308356 C
66 C
* *
19308357 AAAATTTATGATCAATAAGAAATAACCATTACCTCGTATTGATTATCTGTTTGATCAGTTGAA
1 AAAATTTACGATCAATAAGAAATAACCATTACCGCGTATTGATTATCTGTTTGATCAGTTGAA
19308420 AGGTACAACA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (66 bp):
AAAATTTACGATCAATAAGAAATAACCATTACCGCGTATTGATTATCTGTTTGATCAGTTGAACT
C
Found at i:19314996 original size:30 final size:29
Alignment explanation
Indices: 19314956--19315103 Score: 134
Period size: 30 Copynumber: 4.9 Consensus size: 29
19314946 ACAGGAATAG
* *
19314956 CTTCGACTATCGACAAATGAAAAGGGATAA
1 CTTCGGCTATC-AAAAATGAAAAGGGATAA
*
19314986 CTTCGGCTATCAAATAATGAAAAGGGATAT
1 CTTCGGCTATCAAA-AATGAAAAGGGATAA
*
19315016 CTTCGGCTATCAAAATATGAAAAGGGATAG
1 CTTCGGCTATCAAAA-ATGAAAAGGGATAA
* ** ** * * *
19315046 TTTCAACTATCGAATTACGAAAAAGGATAG
1 CTTCGGCTATC-AAAAATGAAAAGGGATAA
*
19315076 CTTCGGCTATCAAATTATGAAAAGGGAT
1 CTTCGGCTATCAAA-AATGAAAAGGGAT
19315104 GGTGACGACC
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
29 5 0.05
30 90 0.93
31 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (29 bp):
CTTCGGCTATCAAAAATGAAAAGGGATAA
Found at i:19315036 original size:60 final size:60
Alignment explanation
Indices: 19314952--19315103 Score: 180
Period size: 60 Copynumber: 2.5 Consensus size: 60
19314942 CGTTACAGGA
* * ** * *
19314952 ATAGCTTCGACTATCGACAA-ATGAAAAGGGATAACTTCGGCTATCAAATAATGAAAAGGG
1 ATAGCTTCGGCTATC-AAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAAAAGG
* ** * *
19315012 ATATCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACTATCGAATTACGAAAAAGG
1 ATAGCTTCGGCTATCAAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAAAAGG
*
19315072 ATAGCTTCGGCTATCAAATTATGAAAAGGGAT
1 ATAGCTTCGGCTATCAAAATATGAAAAGGGAT
19315104 GGTGACGACC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 3 0.04
60 75 0.96
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (60 bp):
ATAGCTTCGGCTATCAAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAAAAGG
Found at i:19315118 original size:30 final size:30
Alignment explanation
Indices: 19315084--19315223 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 30
19315074 AGCTTCGGCT
*
19315084 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
* * * *
19315114 ATCAAAATATTAAAAGGGATAGCT-TC-AGCT
1 ATCAAAATATGAAAAGGGAT-GGTGACGA-CC
* * * *
19315144 ATCGAATTATGGGAAAGGGATTGTGACGACC
1 ATCAAAATAT-GAAAAGGGATGGTGACGACC
* **
19315175 ATC-AACTATGAAAAGGGATGGTGGTGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
*
19315204 ATCAAAATATGAAAACGGAT
1 ATCAAAATATGAAAAGGGAT
19315224 AGCTTCACCT
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
29 20 0.24
30 48 0.57
31 15 0.18
32 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (30 bp):
ATCAAAATATGAAAAGGGATGGTGACGACC
Found at i:19315118 original size:90 final size:91
Alignment explanation
Indices: 19314952--19315248 Score: 300
Period size: 90 Copynumber: 3.3 Consensus size: 91
19314942 CGTTACAGGA
* * * *
19314952 ATAGCTTCGACTATCGACA-AAT-GAAAAGGGATAACTTCGGCTATCAAATAATGAAAAGGGAT-
1 ATAGCTTCAACTATCGA-ATTATCGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATG
* ** * *
19315014 ATCTTCGGCTATCAAAATATGAAAAGGG
65 GT-GACGACCATCAAAATATGAAAAGGG
* *
19315042 ATAGTTTCAACTATCGAATTA-CGAAAAAGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGG
1 ATAGCTTCAACTATCGAATTATCGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGG
*
19315106 TGACGACCATCAAAATATTAAAAGGG
66 TGACGACCATCAAAATATGAAAAGGG
* * * * * * * *
19315132 ATAGCTTCAGCTATCGAATTATGGGAAAGGGATTG-TGACGACCATC-AACTATGAAAAGGGATG
1 ATAGCTTCAACTATCGAATTATCGAAAAGGGATAGCT-TCGGCTATCAAATTATGAAAAGGGATG
** *
19315195 GTGGTGACCATCAAAATATGAAAACGG
65 GTGACGACCATCAAAATATGAAAAGGG
* *
19315222 ATAGCTTCACCTATCGAATTATGGAAA
1 ATAGCTTCAACTATCGAATTATCGAAA
19315249 GGATGGTGAC
Statistics
Matches: 174, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
89 1 0.01
90 157 0.90
91 16 0.09
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (91 bp):
ATAGCTTCAACTATCGAATTATCGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGG
TGACGACCATCAAAATATGAAAAGGG
Found at i:19315134 original size:60 final size:59
Alignment explanation
Indices: 19314994--19315193 Score: 220
Period size: 60 Copynumber: 3.3 Consensus size: 59
19314984 AACTTCGGCT
* * ** * *
19314994 ATCAAATAATGAAAAGGGATATCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACT
1 ATCAAAT-ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACC
* * * *
19315054 ATCGAATTACGAAAAAGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACC
1 ATC-AAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACC
* * * * *
19315114 ATCAAAATATTAAAAGGGATAGCTTCAGCTATCGAATTATGGGAAAGGGATTGTGACGACC
1 ATC-AAATATGAAAAGGGATAGCTTCGGCTATCAAATTAT-GAAAAGGGATAGTGACGACC
*
19315175 ATCAACTATGAAAAGGGAT
1 ATCAAATATGAAAAGGGAT
19315194 GGTGGTGACC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
60 93 0.79
61 24 0.21
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.24
Consensus pattern (59 bp):
ATCAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACC
Found at i:19325194 original size:18 final size:17
Alignment explanation
Indices: 19325171--19325204 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19325161 TTTTAGCACT
19325171 TGTTTTTAATAATTTTTA
1 TGTTTTTAAT-ATTTTTA
*
19325189 TGTTTTTGATATTTTT
1 TGTTTTTAATATTTTT
19325205 GTAGCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TGTTTTTAATATTTTTA
Found at i:19325476 original size:33 final size:33
Alignment explanation
Indices: 19325438--19325501 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
19325428 TATAGGGACT
* *
19325438 ATGAAAAATTTGGTTACCATAGTTTGGGGTTAA
1 ATGAAAAATTTGGTTACCAAAGTTTCGGGTTAA
*
19325471 ATGAAAATTTTGGTTACCAAAGTTTCGGGTT
1 ATGAAAAATTTGGTTACCAAAGTTTCGGGTT
19325502 TAGGAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (33 bp):
ATGAAAAATTTGGTTACCAAAGTTTCGGGTTAA
Found at i:19327265 original size:5 final size:5
Alignment explanation
Indices: 19327255--19327283 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
19327245 AAATAAGGTT
19327255 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
19327284 ATGATATCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19330995 original size:50 final size:51
Alignment explanation
Indices: 19330888--19331135 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 51
19330878 ATTTGGGTAA
* * * *
19330888 AGAGATCCCATGTAAGGCCATGTCTGGGACATGACATTGGCATCATTAAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT--GA-TATG
*
19330944 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
*
19330994 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCT-AGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
** * *
19331044 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACC-AATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
** * * * *
19331094 AGAACTCTCATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19331136 GAACAGAAAA
Statistics
Matches: 170, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
50 127 0.75
51 4 0.02
53 1 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
Found at i:19333325 original size:23 final size:23
Alignment explanation
Indices: 19333265--19333412 Score: 124
Period size: 23 Copynumber: 6.5 Consensus size: 23
19333255 TAGTACGTTG
* *
19333265 TGGCATATTTTGCAATGCCTTT-
1 TGGCATATTCTGTAATGCCTTTC
** * * *
19333287 TTACGTATTCTATAATGTCTTTC
1 TGGCATATTCTGTAATGCCTTTC
*
19333310 TGGCATGTTCTGTAATGCCTTTC
1 TGGCATATTCTGTAATGCCTTTC
* *
19333333 TGGCATATTTTGTAATGCC-TTG
1 TGGCATATTCTGTAATGCCTTTC
* * *
19333355 T-GCAGTATTTTGCAATGCCTTTA
1 TGGCA-TATTCTGTAATGCCTTTC
*
19333378 TGGCATATTCTATAATGCCTTTC
1 TGGCATATTCTGTAATGCCTTTC
19333401 TGGCGA-ATTCTG
1 TGGC-ATATTCTG
19333413 CAATATTTTT
Statistics
Matches: 98, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
21 3 0.03
22 31 0.32
23 60 0.61
24 4 0.04
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (23 bp):
TGGCATATTCTGTAATGCCTTTC
Found at i:19333338 original size:68 final size:68
Alignment explanation
Indices: 19333265--19333404 Score: 174
Period size: 68 Copynumber: 2.1 Consensus size: 68
19333255 TAGTACGTTG
* * * * * *
19333265 TGGCATATTTTGCAATGCCTTTTTAC-GTATTCTATAATGTCTTTCTGGCATGTTCTGTAATGCC
1 TGGCATATTTTGCAATGCC-TTGTACAGTATTCTACAATGCCTTTATGGCATATTCTATAATGCC
19333329 TTTC
65 TTTC
* * * *
19333333 TGGCATATTTTGTAATGCCTTGTGCAGTATTTTGCAATGCCTTTATGGCATATTCTATAATGCCT
1 TGGCATATTTTGCAATGCCTTGTACAGTATTCTACAATGCCTTTATGGCATATTCTATAATGCCT
19333398 TTC
66 TTC
19333401 TGGC
1 TGGC
19333405 GAATTCTGCA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
67 4 0.07
68 57 0.93
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.45
Consensus pattern (68 bp):
TGGCATATTTTGCAATGCCTTGTACAGTATTCTACAATGCCTTTATGGCATATTCTATAATGCCT
TTC
Found at i:19333366 original size:22 final size:22
Alignment explanation
Indices: 19333243--19333404 Score: 101
Period size: 23 Copynumber: 7.2 Consensus size: 22
19333233 AAAGCCTTTG
* * * *
19333243 TGGCATATTTTGTAGTACGTTG
1 TGGCATATTTTGTAATGCCTTC
* *
19333265 TGGCATATTTTGCAATGCCTTT
1 TGGCATATTTTGTAATGCCTTC
** * * * *
19333287 TTACGTATTCTATAATGTCTTTC
1 TGGCATATTTTGTAATG-CCTTC
* *
19333310 TGGCATGTTCTGTAATGCCTTTC
1 TGGCATATTTTGTAATGCC-TTC
*
19333333 TGGCATATTTTGTAATGCCTTG
1 TGGCATATTTTGTAATGCCTTC
* *
19333355 T-GCAGTATTTTGCAATGCCTTTA
1 TGGCA-TATTTTGTAATGCC-TTC
* *
19333378 TGGCATATTCTATAATGCCTTTC
1 TGGCATATTTTGTAATGCC-TTC
19333401 TGGC
1 TGGC
19333405 GAATTCTGCA
Statistics
Matches: 107, Mismatches: 28, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
21 3 0.03
22 45 0.42
23 56 0.52
24 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (22 bp):
TGGCATATTTTGTAATGCCTTC
Found at i:19333394 original size:45 final size:44
Alignment explanation
Indices: 19333229--19333398 Score: 144
Period size: 45 Copynumber: 3.8 Consensus size: 44
19333219 GGTAAGTTAC
* * * * * *
19333229 TTGCAAAGCCTTTGTGGCATATTTTGTAGTACGTTGTGGCATATT
1 TTGCAATGCCTTT-TGGCATATTCTATAATGCCTTGTGGCATATT
** * * * *
19333274 TTGCAATGCCTTTTTACGTATTCTATAATGTCTTTCTGGCATGTT
1 TTGCAATGCCTTTTGGCATATTCTATAATG-CCTTGTGGCATATT
* * * *
19333319 CTGTAATGCCTTTCTGGCATATTTTGTAATGCCTTGT-GCAGTATT
1 TTGCAATGCCTTT-TGGCATATTCTATAATGCCTTGTGGCA-TATT
19333364 TTGCAATGCCTTTATGGCATATTCTATAATGCCTT
1 TTGCAATGCCTTT-TGGCATATTCTATAATGCCTT
19333399 TCTGGCGAAT
Statistics
Matches: 96, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
44 13 0.14
45 71 0.74
46 12 0.12
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (44 bp):
TTGCAATGCCTTTTGGCATATTCTATAATGCCTTGTGGCATATT
Found at i:19355851 original size:16 final size:17
Alignment explanation
Indices: 19355830--19355864 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19355820 AGATTTGATC
19355830 ATATTT-TATTTAATAA
1 ATATTTATATTTAATAA
*
19355846 ATATTTATTTTTAATAA
1 ATATTTATATTTAATAA
19355863 AT
1 AT
19355865 TAATAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATATTTAATAA
Found at i:19359772 original size:107 final size:102
Alignment explanation
Indices: 19359632--19359837 Score: 306
Period size: 107 Copynumber: 2.0 Consensus size: 102
19359622 TAACAAGAAA
* *
19359632 GATAATTTAAAGGATAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAGAATAACAAAGT
1 GATAATTTAAAGGACAAAGCTTTAATTTATTAAATAAAACTTAAAT---AA-A-AA-AACAAAGT
* *
19359697 TATCATCTTCCTAAAAGGGAACC-GCCAAAAATTAGGGTGCAC
60 TATCATCTTCCTAAAAGGGAACCAACAAAAAATTAGGGTGCAC
*
19359739 GATAATTTAAAGGACAAAGTTTTAATTTATTAAATAAAACTTAAATAAAAAAACAAAGTTATCAT
1 GATAATTTAAAGGACAAAGCTTTAATTTATTAAATAAAACTTAAATAAAAAAACAAAGTTATCAT
19359804 CTTCCTAAAAGGGAACCAACAAAAAATTAGGGTG
66 CTTCCTAAAAGGGAACCAACAAAAAATTAGGGTG
19359838 TTAAAACACC
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
101 31 0.33
102 16 0.17
103 1 0.01
104 2 0.02
107 43 0.46
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (102 bp):
GATAATTTAAAGGACAAAGCTTTAATTTATTAAATAAAACTTAAATAAAAAAACAAAGTTATCAT
CTTCCTAAAAGGGAACCAACAAAAAATTAGGGTGCAC
Found at i:19360598 original size:40 final size:40
Alignment explanation
Indices: 19360549--19360782 Score: 207
Period size: 40 Copynumber: 5.8 Consensus size: 40
19360539 TTATTGAATG
* * *
19360549 AATGAACATACCTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* ** * * *
19360589 AATGCACATATGTGCCCCTAAATATACTTCGATACCCCTG
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * *
19360629 AATGCACATACATGCCCCTTTTTGCACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* ** * * * * *
19360669 AATACACATTTGTTCCCCTAATTGTACCTCGATACCCTTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* ** *
19360709 AATACACATACGTGCCCCGGTTTGTACTTCGGTTCCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
** * *
19360749 AATGCATTTACGTGCCCCTATTTATACTCCGGTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTA
19360783 ACTCTGAATC
Statistics
Matches: 147, Mismatches: 47, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 147 1.00
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:19360645 original size:80 final size:80
Alignment explanation
Indices: 19360547--19360768 Score: 264
Period size: 80 Copynumber: 2.8 Consensus size: 80
19360537 AATTATTGAA
* *
19360547 TGAATGAACATACCTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
*
19360612 ATACTTCGATACCCC
66 ATACCTCGATACCCC
* * * * * * *
19360627 TGAATGCACATACATGCCCCTTTTTGCACTTCGGTACCCCTGAATACACATTTGTTCCCCTAATT
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
* *
19360692 GTACCTCGATACCCT
66 ATACCTCGATACCCC
* * * * * ** *
19360707 TAAATACACATACGTGCCCCGGTTTGTACTTCGGTTCCCCTAAATGCATTTACGTGCCCCTA
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTA
19360769 TTTATACTCC
Statistics
Matches: 116, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 116 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.31
Consensus pattern (80 bp):
TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
ATACCTCGATACCCC
Found at i:19363372 original size:13 final size:11
Alignment explanation
Indices: 19363331--19363363 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19363321 TATCAAATTG
19363331 TAAAATAAAAA
1 TAAAATAAAAA
*
19363342 TATAAT-AAAA
1 TAAAATAAAAA
19363352 TAAAATAAAAA
1 TAAAATAAAAA
19363363 T
1 T
19363364 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:19365456 original size:85 final size:84
Alignment explanation
Indices: 19365279--19365653 Score: 289
Period size: 85 Copynumber: 4.4 Consensus size: 84
19365269 TTCGATCTAT
* * * * * *
19365279 TCCACTGTAATCTCAGGGAGATAAGA-CCT-GATGCGATCTACTCTACTGTAA-CTTCAGAGAGA
1 TCCACTGTAATCTCAGGGAGATAGGATACTAGATTCGATCTGCTCCACTGTAATC-TCAGGGAGA
* * *
19365341 TAAGATCCTTTATTTTAATCCGC
65 TAAGAT--TTGA-TTCAATCTGC
*
19365364 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGGA-TACTAGATTCGATCTGCTCCACTGTAATCTCAGGGAGA
* *
19365429 TAAGATTTGATACGATCTGC
65 TAAGATTTGATTCAATCTGC
* * * * ** ** *
19365449 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTAATCTGCTCCACTATAATCTCAGGGAGA
1 TCCACTGTAATC-TCAGGGAGATAGGATACTAGATTCGATCTGCTCCACTGTAATCTCAGGGAGA
* *
19365513 TAGGATTACTAGCTTCAATCTGC
65 TAAGATT--T-GATTCAATCTGC
* * * *
19365536 TCCACTGTAATCTCAGGGAGATAAGG--CCT-GATACGATCTGCTCTACTGTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGGGAGAT-AGGATACTAGATTCGATCTGCTCCACTGTAATC-TCAGGGAG
* * *
19365597 ATAAGATCCTTTATTTTAATCTTC
64 ATAAGAT--TTGA-TTCAATCTGC
19365621 TCCACTGTAATCTCAGGGAGATAGGATTACTAG
1 TCCACTGTAATCTCAGGGAGATAGGA-TACTAG
19365654 CTTCAGTCTG
Statistics
Matches: 230, Mismatches: 42, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
84 42 0.18
85 112 0.49
86 7 0.03
87 32 0.14
88 36 0.16
89 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (84 bp):
TCCACTGTAATCTCAGGGAGATAGGATACTAGATTCGATCTGCTCCACTGTAATCTCAGGGAGAT
AAGATTTGATTCAATCTGC
Found at i:19365553 original size:128 final size:129
Alignment explanation
Indices: 19365279--19365663 Score: 673
Period size: 128 Copynumber: 3.0 Consensus size: 129
19365269 TTCGATCTAT
* *
19365279 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
* *
19365344 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGC
66 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
**
19365408 TCCACTGTAATCTCAGGGAGATAAGATTTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
*
19365473 GATCCTTTA-TTTAATCTGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
66 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
*
19365536 TCCACTGTAATCTCAGGGAGATAAGGCCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
* *
19365601 GATCCTTTATTTTAATCTTCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAGTCTG
66 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
19365664 TTCTACCACT
Statistics
Matches: 242, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
128 122 0.50
129 120 0.50
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
Found at i:19365969 original size:26 final size:26
Alignment explanation
Indices: 19365933--19365984 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
19365923 TTCTTCCGAG
19365933 AATGATCCCACTTAGGTTGTCATTAC
1 AATGATCCCACTTAGGTTGTCATTAC
19365959 AATGATCCCACTTAGGTTGTCATTAC
1 AATGATCCCACTTAGGTTGTCATTAC
19365985 TCAAAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (26 bp):
AATGATCCCACTTAGGTTGTCATTAC
Found at i:19374141 original size:18 final size:19
Alignment explanation
Indices: 19374104--19374142 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
19374094 AGTGGACCTG
19374104 AATGCATATGATGCAATGT
1 AATGCATATGATGCAATGT
19374123 AATGCA-ATGCATG-AATGT
1 AATGCATATG-ATGCAATGT
19374141 AA
1 AA
19374143 AGAGGCGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (19 bp):
AATGCATATGATGCAATGT
Found at i:19378006 original size:11 final size:11
Alignment explanation
Indices: 19377950--19378010 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
19377940 ATTATTTCTA
19377950 AAAAT-ATATT
1 AAAATAATATT
* *
19377960 AAAAGAAAATT
1 AAAATAATATT
19377971 CGAAAATAATATT
1 --AAAATAATATT
**
19377984 AAGCTAAATATT
1 AAAAT-AATATT
19377996 AAAATAATATT
1 AAAATAATATT
19378007 AAAA
1 AAAA
19378011 ACAATGAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
10 4 0.10
11 17 0.44
12 9 0.23
13 9 0.23
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (11 bp):
AAAATAATATT
Found at i:19379467 original size:24 final size:23
Alignment explanation
Indices: 19379436--19379482 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
19379426 GACTGTGGAC
* *
19379436 ATTTTAAATTTGGTTTTATTTTT
1 ATTTTAAAATTGGGTTTATTTTT
19379459 ATTTATAAAATTGGGTTTATTTTT
1 ATTT-TAAAATTGGGTTTATTTTT
19379483 GGTTTGCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.64
Consensus pattern (23 bp):
ATTTTAAAATTGGGTTTATTTTT
Found at i:19384908 original size:40 final size:40
Alignment explanation
Indices: 19384851--19384949 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
19384841 AATTATTGAA
* * * *
19384851 TGAATGCACATATGTGCCCCTATTTGTACTTCAGTACTCC
1 TGAATGCACATACGTGCCCATAATTGTACTTCAGTACCCC
* *
19384891 TGAATGCACATACGTGCCAATAATTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCATAATTGTACTTCAGTACCCC
* *
19384931 TGAATGCACTTACATGCCC
1 TGAATGCACATACGTGCCC
19384950 TTGCTTATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCATAATTGTACTTCAGTACCCC
Found at i:19386997 original size:7 final size:7
Alignment explanation
Indices: 19386985--19387011 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19386975 GCAATTTAAT
19386985 AATTTTA
1 AATTTTA
19386992 AATTTTA
1 AATTTTA
19386999 AATTTTA
1 AATTTTA
19387006 AATTTT
1 AATTTT
19387012 GAAGTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:19387512 original size:28 final size:29
Alignment explanation
Indices: 19387477--19387550 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
19387467 ATAAAATTTT
19387477 AATAATTTTAATAATTTTT-ATTTTTAAA
1 AATAATTTTAATAATTTTTGATTTTTAAA
* *
19387505 AATAATTTTTATAATTGTTTTGATTTTTTAA
1 AATAATTTTAATAA-T-TTTTGATTTTTAAA
*
19387536 AA-AATTTGAA-AATTT
1 AATAATTTTAATAATTT
19387551 AATTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 2 0.05
28 14 0.36
29 3 0.08
30 10 0.26
31 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (29 bp):
AATAATTTTAATAATTTTTGATTTTTAAA
Found at i:19393023 original size:4 final size:4
Alignment explanation
Indices: 19393016--19393051 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
19393006 TTGGTTATGG
*
19393016 AGTT AGTT ATTT AGTT AGTT AGTT AGTT AGTT AGTT
1 AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT
19393052 GGTTGGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (4 bp):
AGTT
Found at i:19397135 original size:15 final size:15
Alignment explanation
Indices: 19397096--19397147 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
19397086 ATGCATGAAT
19397096 AATAATAATGCAAGTAAC
1 AATAATAAT--AA-TAAC
19397114 AAT-ATAATAATAAC
1 AATAATAATAATAAC
*
19397128 AATAATAACAATAAC
1 AATAATAATAATAAC
*
19397143 GATAA
1 AATAA
19397148 AGATAATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 7 0.23
15 16 0.52
17 5 0.16
18 3 0.10
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.23
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:19399171 original size:44 final size:44
Alignment explanation
Indices: 19399081--19399330 Score: 205
Period size: 44 Copynumber: 5.6 Consensus size: 44
19399071 AATCCACTCT
* * * * * *
19399081 ACTGCAACTTTAGGGAGATAGGATTAGTAACTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
* * *
19399125 ACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
* * * * * *
19399169 ACTACAACTTCAGGGGGACAAGGTTTGT-TACTTCAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAT-CTTCAATCTGCTCC
* * * ** * *
19399213 ACTGTAACTTCAGAGAGATAAGGTTTGTGGCTTTAATTTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
* *
19399257 ACTGAAACTTCAGGAAGATAAGATTTGTAGCCTGTCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTA-----TCTTCAATCTGCTCC
* *
19399306 ACTGCAAATTCAGAGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
19399331 GGTTTATTTT
Statistics
Matches: 161, Mismatches: 38, Indels: 9
0.77 0.18 0.04
Matches are distributed among these distances:
43 1 0.01
44 127 0.79
49 33 0.20
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
Found at i:19400977 original size:39 final size:39
Alignment explanation
Indices: 19400923--19401002 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
19400913 CTTCTCATGC
*
19400923 CAATCTCAAAATTTAAGCTTATTTTAGTATCAATCATTT
1 CAATCTCAAAATTTAAGCTTATTTTAGTATCAATCAGTT
19400962 CAATCTCAAAATTTAAGCTTATTTTAGTATCAATCAGTT
1 CAATCTCAAAATTTAAGCTTATTTTAGTATCAATCAGTT
19401001 CA
1 CA
19401003 GCTAGAGTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.41
Consensus pattern (39 bp):
CAATCTCAAAATTTAAGCTTATTTTAGTATCAATCAGTT
Found at i:19403281 original size:20 final size:19
Alignment explanation
Indices: 19403237--19403288 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
19403227 AATATATGTT
19403237 TATTT-AATATATTATAAA
1 TATTTAAATATATTATAAA
* *
19403255 T-TATAAATATATTTTAAA
1 TATTTAAATATATTATAAA
*
19403273 TAATTTAAAAATATTA
1 T-ATTTAAATATATTA
19403289 AATTAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 14 0.54
20 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAAATATATTATAAA
Found at i:19406009 original size:5 final size:5
Alignment explanation
Indices: 19405999--19406023 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19405989 GAACAAGTTT
19405999 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
19406024 ATGAATAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:19406301 original size:40 final size:36
Alignment explanation
Indices: 19406221--19406314 Score: 113
Period size: 36 Copynumber: 2.6 Consensus size: 36
19406211 CATTAGTCTA
19406221 AATAAT-TAATATATATATAAAATGAAAAGTTTAAT
1 AATAATATAATATATATATAAAATGAAAAGTTTAAT
* *
19406256 AATAATATAATATATATAATGATAT-AAAAGTTTAAT
1 AATAATATAATATATAT-ATAAAATGAAAAGTTTAAT
* *
19406292 AA-CATATAATAATATGTATAAAA
1 AATAATATAAT-ATATATATAAAA
19406315 AAAATCAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
35 17 0.34
36 28 0.56
37 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (36 bp):
AATAATATAATATATATATAAAATGAAAAGTTTAAT
Found at i:19414196 original size:15 final size:14
Alignment explanation
Indices: 19414176--19414218 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 14
19414166 TATTTTAAAT
19414176 TTTTTAAAAATTATA
1 TTTTTAAAAATTA-A
19414191 TTTTTAAAATAATTAA
1 TTTTT-AAA-AATTAA
19414207 TATTTTAAAAAT
1 T-TTTTAAAAAT
19414219 AAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTTAAAAATTAA
Found at i:19414211 original size:18 final size:18
Alignment explanation
Indices: 19414170--19414220 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
19414160 AAAAAATATT
*
19414170 TTAA-ATTTTTTAAA-AA
1 TTAATATTTTTAAAATAA
19414186 TT-ATATTTTTAAAATAA
1 TTAATATTTTTAAAATAA
*
19414203 TTAATATTTTAAAAATAA
1 TTAATATTTTTAAAATAA
19414221 AAATATAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 11 0.37
17 4 0.13
18 14 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATTTTTAAAATAA
Found at i:19414225 original size:17 final size:18
Alignment explanation
Indices: 19414188--19414226 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19414178 TTTAAAAATT
* *
19414188 ATATTTTTAAAATAATTA
1 ATATTTTAAAAATAATAA
19414206 ATATTTTAAAAATAA-AA
1 ATATTTTAAAAATAATAA
19414223 ATAT
1 ATAT
19414227 AAGATACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTTTAAAAATAATAA
Found at i:19417279 original size:19 final size:18
Alignment explanation
Indices: 19417226--19417275 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
19417216 CGTGTTGTTC
*
19417226 ATTTCCAAAACATTATTA
1 ATTTACAAAACATTATTA
* *
19417244 ATTTACAAATCGTTATTCA
1 ATTTACAAAACATTATT-A
19417263 ATTT-CAAAACATT
1 ATTTACAAAACATT
19417276 TATTTTATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTTACAAAACATTATTA
Found at i:19417279 original size:37 final size:36
Alignment explanation
Indices: 19417204--19417275 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
19417194 TTACTTTATG
*
19417204 TTAATTTCAAATCGTGTTGTTCATTTCCAAAACATTA
1 TTAATTTCAAATCG-GTTATTCATTTCCAAAACATTA
19417241 TTAATTTACAAATC-GTTATTCAATTT-CAAAACATT
1 TTAATTT-CAAATCGGTTATTC-ATTTCCAAAACATT
19417276 TATTTTATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 15 0.47
37 11 0.34
38 6 0.19
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (36 bp):
TTAATTTCAAATCGGTTATTCATTTCCAAAACATTA
Found at i:19422488 original size:50 final size:50
Alignment explanation
Indices: 19422301--19422489 Score: 170
Period size: 50 Copynumber: 3.8 Consensus size: 50
19422291 GATAATAACA
* * * * *
19422301 TGCCAAAGCCATGTCCCAGACTTGGTCTTACATGGGA--TGTT-TCTTGTCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--G
* * * ** * *
19422350 TGCCAATGCCATATCCCAGATACGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * * *
19422400 TGCCCATGCTATGTCCTAGACATGGTCTTAC-GGAGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTTATCTCGG
*
19422450 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
19422490 TTCATAGTCT
Statistics
Matches: 109, Mismatches: 26, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
49 33 0.30
50 70 0.64
51 3 0.03
52 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:19423698 original size:10 final size:10
Alignment explanation
Indices: 19423683--19423707 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19423673 TCCTCATTGG
19423683 ATTTTCTAAA
1 ATTTTCTAAA
19423693 ATTTTCTAAA
1 ATTTTCTAAA
19423703 ATTTT
1 ATTTT
19423708 TTTATTTCAA
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTCTAAA
Found at i:19437491 original size:9 final size:9
Alignment explanation
Indices: 19437477--19437502 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19437467 TTTATTTTTC
19437477 AAAAAAAAT
1 AAAAAAAAT
19437486 AAAAAAAAT
1 AAAAAAAAT
19437495 AAAAAAAA
1 AAAAAAAA
19437503 CAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:19439798 original size:16 final size:16
Alignment explanation
Indices: 19439777--19439809 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19439767 ACACTTAAGT
19439777 TGTTCACACTAAAACA
1 TGTTCACACTAAAACA
19439793 TGTTCACACTAAAACA
1 TGTTCACACTAAAACA
19439809 T
1 T
19439810 CAATGTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (16 bp):
TGTTCACACTAAAACA
Found at i:19443837 original size:19 final size:20
Alignment explanation
Indices: 19443778--19443835 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
19443768 AATAAACACC
19443778 AAAAAAA-ATTTTAGAAAATTA
1 AAAAAAATATTTTA-AAAA-TA
19443799 AAAAAAATATTTTAAAAATA
1 AAAAAAATATTTTAAAAATA
*
19443819 AAAAAAGTATTTTAAAA
1 AAAAAAATATTTTAAAA
19443836 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 18 0.51
21 11 0.31
22 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAAAATATTTTAAAAATA
Found at i:19449071 original size:18 final size:19
Alignment explanation
Indices: 19449048--19449091 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
19449038 TTTAGAAATT
*
19449048 ATTTTTATCGT-ATTAATA
1 ATTTTTATAGTAATTAATA
*
19449066 ATTTTTGTAGTAATTAATA
1 ATTTTTATAGTAATTAATA
*
19449085 TTTTTTA
1 ATTTTTA
19449092 AATTATAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (19 bp):
ATTTTTATAGTAATTAATA
Found at i:19450020 original size:30 final size:30
Alignment explanation
Indices: 19449984--19450049 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
19449974 CTTAACAAAA
* * * *
19449984 TAAAAATGCTTAATACACTAAAGATTATAT
1 TAAAAATACTTAATACACAAAACACTATAT
* *
19450014 TAAAAATATTTAATGCACAAAACACTATAT
1 TAAAAATACTTAATACACAAAACACTATAT
19450044 TAAAAA
1 TAAAAA
19450050 CATTCAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (30 bp):
TAAAAATACTTAATACACAAAACACTATAT
Found at i:19459326 original size:42 final size:42
Alignment explanation
Indices: 19459280--19459363 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
19459270 TTTCACTTAG
19459280 ATTATAAAAACCAAACACAAAACACACTTA-AGAAAATACAAA
1 ATTATAAAAACCAAACACAAAACACACTTAGA-AAAATACAAA
19459322 ATTATAAAAACCAAACACAAAACACACTTAGAAAAATACAAA
1 ATTATAAAAACCAAACACAAAACACACTTAGAAAAATACAAA
19459364 TACACCAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.64, C:0.19, G:0.02, T:0.14
Consensus pattern (42 bp):
ATTATAAAAACCAAACACAAAACACACTTAGAAAAATACAAA
Found at i:19462250 original size:16 final size:16
Alignment explanation
Indices: 19462229--19462259 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19462219 TACATATATA
19462229 AAATATAAGTAAATAG
1 AAATATAAGTAAATAG
*
19462245 AAATATAATTAAATA
1 AAATATAAGTAAATA
19462260 TAATAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AAATATAAGTAAATAG
Found at i:19463830 original size:44 final size:43
Alignment explanation
Indices: 19463776--19464050 Score: 142
Period size: 44 Copynumber: 6.4 Consensus size: 43
19463766 TCTACTCTAA
* *
19463776 TGCAATTTCAGAGAGATAAGATCTGAAGTTTTAATCCGCTCCAA
1 TGCAACTTCAGAGAGATAAGATCT-AAGTTTTAATCCGCTCCAC
* * ** *
19463820 TGCAACTTCAGGGAGATAGGAT-T-AGATTCTTCTGTCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATCTAAG-TT-TT-AATCCGCTCCAC
* ** * *
19463864 TGCAACTTCAGCGAGATAAGA-CTATACG---CGATCTGCT-CTC
1 TGCAACTTCAGAGAGATAAGATCTA-A-GTTTTAATCCGCTCCAC
* *
19463904 TGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCAT
1 TGCAACTTCAGAGAGATAAGATCTA-AGTTTTAATCCGCTCCAC
* * * * * * * * *
19463948 TGCAACTTTAGGGGGAT-AGAAT-T-GGATGTGATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAG-ATCTAAGTTTTAATCCGCTCCAC
*
19463989 TGCAACTTCAGAGAGATAAGATCTGAGGTTTTAA-CCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATCT-AAGTTTTAATCC-GCTCCAC
*
19464033 TACAACTTCA-AGGAGATA
1 TGCAACTTCAGA-GAGATA
19464051 GGATTATTGG
Statistics
Matches: 174, Mismatches: 38, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
40 23 0.13
41 40 0.23
42 5 0.03
43 14 0.08
44 90 0.52
46 1 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
TGCAACTTCAGAGAGATAAGATCTAAGTTTTAATCCGCTCCAC
Done.