Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 82 of 127
Found at i:15672189 original size:251 final size:251
Alignment explanation
Indices: 15671747--15672275 Score: 622
Period size: 251 Copynumber: 2.1 Consensus size: 251
15671737 GGTGATATCT
* * * *
15671747 AAGTATCCAAGTTTGAATTTCTT-AAAAAAATTTTCAATGATGATATCCGAGCGTTTAAGTTTGA
1 AAGTATCCAAGTTTGAATTTCTTAAAAAAAATTTACAATGATGATATCCGAGCATTCAAGTTAGA
* * * * ** ** * *
15671811 ATTTCATTTTCTCAATAGCGAAATTCGACCCTTCATTAGAACTTTTTCGGTGGTGATATTCGAGT
66 ATTTCATTTTCTCAATAGCAAAATCCAACCCTTCATTAAAACTCCTTCAATGATGATATTCAAGT
* *
15671876 ATCCAAGTTTGAATTTCTTAAAAATTTTCTTGGTAATGATATTCGAGCATTCAAGTTTGAATTTC
131 ATCCAAGTTTGAATTTCTTAAAAATTTTCATGG-AATGATATTCGAACATTCAAGTTTGAATTTC
* ** * *
15671941 ATTATCTCGATGGTGAAAT-TCAACCCTGCATTAAAACTCTCTTAATGGTAATA-TTC
195 ATTATCTCAATGGCAAAATAT-AACCCTGCATTAAAACTCTCTCAATGGTAATACTTA
* *
15671997 AAGTATCCAAGTTTGAATTTCTTAAAAAAAATTTACAATGGTGATATCTGAGCATTCAAGTTAGA
1 AAGTATCCAAGTTTGAATTTCTTAAAAAAAATTTACAATGATGATATCCGAGCATTCAAGTTAGA
* * * *
15672062 ATTTCATTTTCTTATTGGCAAAATCCAACCCTTCATTAAAACTCCCTT-AATGATGATATTCAAT
66 ATTTCATTTTCTCAATAGCAAAATCCAACCCTTCATTAAAACT-CCTTCAATGATGATATTCAAG
* *
15672126 TATTCAAGTTTGAATTTCTTAAAAAAATTTTCAAT-G-ATGATATTTGAACATTCAAGTTTGAAT
130 TATCCAAGTTTGAATTTCTT--AAAAATTTTC-ATGGAATGATATTCGAACATTCAAGTTTGAAT
* * * * * * *
15672189 TTTATTTTCTTAATGGCAAAATATGACCCTTCATTAAAACTCTCTCAGTGGTGATACTTA
192 TTCATTATCTCAATGGCAAAATATAACCCTGCATTAAAACTCTCTCAATGGTAATACTTA
15672249 AAGTATCCAAGTTTGAGATTT-TTAAAA
1 AAGTATCCAAGTTTGA-ATTTCTTAAAA
15672276 TTTTTTCAAT
Statistics
Matches: 235, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
250 23 0.10
251 169 0.72
252 27 0.11
253 15 0.06
254 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (251 bp):
AAGTATCCAAGTTTGAATTTCTTAAAAAAAATTTACAATGATGATATCCGAGCATTCAAGTTAGA
ATTTCATTTTCTCAATAGCAAAATCCAACCCTTCATTAAAACTCCTTCAATGATGATATTCAAGT
ATCCAAGTTTGAATTTCTTAAAAATTTTCATGGAATGATATTCGAACATTCAAGTTTGAATTTCA
TTATCTCAATGGCAAAATATAACCCTGCATTAAAACTCTCTCAATGGTAATACTTA
Found at i:15672340 original size:24 final size:25
Alignment explanation
Indices: 15672288--15672342 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
15672278 TTTTCAATAG
*
15672288 TGATATCTAAGTTTTCTTTGGTGAA
1 TGATATCTAAGTTTTCTTAGGTGAA
*
15672313 -GATATTTAAGTTTTCTTAGGT-AA
1 TGATATCTAAGTTTTCTTAGGTGAA
15672336 TGATATC
1 TGATATC
15672343 CAAAGTCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.47
Consensus pattern (25 bp):
TGATATCTAAGTTTTCTTAGGTGAA
Found at i:15672560 original size:24 final size:24
Alignment explanation
Indices: 15672524--15672572 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15672514 ACATTTGCTT
* *
15672524 TTTTTTTTATGGTGATATCTGAAG
1 TTTTTTTTATGGTAATATCTAAAG
*
15672548 TTTTTTTTGTGGTAATATCTAAAG
1 TTTTTTTTATGGTAATATCTAAAG
15672572 T
1 T
15672573 CATCTCATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.18, T:0.55
Consensus pattern (24 bp):
TTTTTTTTATGGTAATATCTAAAG
Found at i:15674924 original size:19 final size:19
Alignment explanation
Indices: 15674897--15675117 Score: 72
Period size: 19 Copynumber: 10.9 Consensus size: 19
15674887 ACTTAACACT
*
15674897 TAACCCTAAGCCCTAAACC
1 TAACCCTAAACCCTAAACC
* *
15674916 TAACTCTAAACCCTAAATC
1 TAACCCTAAACCCTAAACC
** * *
15674935 TAAAACTAAATCCTAAGCC
1 TAACCCTAAACCCTAAACC
* *
15674954 AAAACCCTAAA-CCTGAAATC
1 -TAACCCTAAACCCT-AAACC
* * *
15674974 TAA-ACTAAATCCTAAAAC
1 TAACCCTAAACCCTAAACC
* * *
15674992 TAATCATAAACCCTTAACC
1 TAACCCTAAACCCTAAACC
15675011 TTAAACTTAACCTAAACCCTAAAACC
1 -T-AAC----CCTAAACCCT-AAACC
*
15675037 TAACATTGACTTTAAACCCTAAACC
1 TAAC-----C-CTAAACCCTAAACC
* *
15675062 TAAACACCTAAAACCTAAA-G
1 T-AAC-CCTAAACCCTAAACC
15675082 TAAACCCTAAACCCTAAACC
1 T-AACCCTAAACCCTAAACC
* *
15675102 TAA-TCTAAATCCTAAA
1 TAACCCTAAACCCTAAA
15675118 AACCCAAACC
Statistics
Matches: 154, Mismatches: 33, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
18 23 0.15
19 62 0.40
20 17 0.11
21 12 0.08
22 2 0.01
24 3 0.02
25 20 0.13
26 15 0.10
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (19 bp):
TAACCCTAAACCCTAAACC
Found at i:15675067 original size:26 final size:25
Alignment explanation
Indices: 15674998--15675067 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
15674988 AAACTAATCA
*
15674998 TAAACCCTTAACCTTAAAC-TTAACC
1 TAAACCCTAAACC-TAAACATTAACC
* *
15675023 TAAACCCTAAAACCT-AACATTGACTT
1 TAAACCCT-AAACCTAAACATTAAC-C
15675049 TAAACCCTAAACCTAAACA
1 TAAACCCTAAACCTAAACA
15675068 CCTAAAACCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.08
25 19 0.50
26 16 0.42
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.24
Consensus pattern (25 bp):
TAAACCCTAAACCTAAACATTAACC
Found at i:15675077 original size:15 final size:13
Alignment explanation
Indices: 15674869--15675104 Score: 68
Period size: 13 Copynumber: 18.2 Consensus size: 13
15674859 AAGCCACCAA
* *
15674869 AAACCTTAAACCC
1 AAACCCTAAACCT
*
15674882 AAACCACTTAACACT
1 AAACC-CTAAAC-CT
* *
15674897 TAACCCTAAGCCCT
1 AAACCCTAA-ACCT
15674911 AAA-CCT-AACTCT
1 AAACCCTAAAC-CT
*
15674923 AAACCCTAAATCT
1 AAACCCTAAACCT
*
15674936 AAA-ACTAAATCCT
1 AAACCCTAAA-CCT
* *
15674949 -AAGCCAAAACCCT
1 AAACCCTAAA-CCT
*
15674962 AAA-CCTGAAATCT
1 AAACCCT-AAACCT
15674975 AAA--CTAAATCCT
1 AAACCCTAAA-CCT
* * *
15674987 AAA-ACTAATCAT
1 AAACCCTAAACCT
*
15674999 AAACCCTTAACCTT
1 AAACCCTAAACC-T
*
15675013 AAA--CTTAACCT
1 AAACCCTAAACCT
15675024 AAACCCTAAAACCT
1 AAACCCT-AAACCT
* ** *
15675038 -AA-CATTGACTTT
1 AAACCCTAAAC-CT
15675050 AAACCCTAAACCT
1 AAACCCTAAACCT
15675063 AAACACCTAAAACCT
1 AAAC-CCT-AAACCT
*
15675078 AAA--GTAAACCCT
1 AAACCCTAAA-CCT
15675090 AAACCCTAAACCT
1 AAACCCTAAACCT
15675103 AA
1 AA
15675105 TCTAAATCCT
Statistics
Matches: 164, Mismatches: 34, Indels: 50
0.66 0.14 0.20
Matches are distributed among these distances:
11 13 0.08
12 42 0.26
13 56 0.34
14 38 0.23
15 15 0.09
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:15675093 original size:40 final size:39
Alignment explanation
Indices: 15675019--15675104 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
15675009 CCTTAAACTT
** **
15675019 AACCTAAACCCTAAAACCTAACATTGACTTTAAACCCTA
1 AACCTAAACCCTAAAACCTAACATAAACCCTAAACCCTA
15675058 AACCTAAACACCTAAAACCTAA-AGTAAACCCTAAACCCTA
1 AACCTAAAC-CCTAAAACCTAACA-TAAACCCTAAACCCTA
15675098 AACCTAA
1 AACCTAA
15675105 TCTAAATCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (39 bp):
AACCTAAACCCTAAAACCTAACATAAACCCTAAACCCTA
Found at i:15675110 original size:25 final size:26
Alignment explanation
Indices: 15675055--15675117 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
15675045 ACTTTAAACC
15675055 CTAAACCTAAACACCTAAAACCTAAA
1 CTAAACCTAAACACCTAAAACCTAAA
* *
15675081 GTAAACCCTAAAC-CCT-AAACCTAAT
1 CTAAA-CCTAAACACCTAAAACCTAAA
15675106 CTAAATCCTAAA
1 CTAAA-CCTAAA
15675118 AACCCAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.56
26 7 0.22
27 7 0.22
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (26 bp):
CTAAACCTAAACACCTAAAACCTAAA
Found at i:15675117 original size:7 final size:7
Alignment explanation
Indices: 15675049--15675101 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
15675039 ACATTGACTT
15675049 TAAACCC
1 TAAACCC
15675056 TAAA-CC
1 TAAACCC
15675062 TAAACACC
1 TAAAC-CC
*
15675070 TAAAACC
1 TAAACCC
*
15675077 TAAA--G
1 TAAACCC
15675082 TAAACCC
1 TAAACCC
15675089 TAAACCC
1 TAAACCC
15675096 TAAACC
1 TAAACC
15675102 TAATCTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.10
6 6 0.15
7 23 0.59
8 6 0.15
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:15687602 original size:17 final size:17
Alignment explanation
Indices: 15687580--15687614 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15687570 TGGATAAATA
15687580 TTAATAAAAAAAAATTT
1 TTAATAAAAAAAAATTT
*
15687597 TTAATAGAAAAAAATTT
1 TTAATAAAAAAAAATTT
15687614 T
1 T
15687615 AAAAGGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
TTAATAAAAAAAAATTT
Found at i:15691144 original size:57 final size:57
Alignment explanation
Indices: 15691083--15691190 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
15691073 AAGCTCGCTT
*
15691083 AATCATCATTAGAAGCAATAAATTATA-ATGTAAAATAAAAGGAATAATTTAACATAA
1 AATCATCATCAGAAGCAATAAATTA-AGATGTAAAATAAAAGGAATAATTTAACATAA
* * *
15691140 AATCATCATCAGAAGGAATACATTAAGATGTAAAATAGAAGGAATAATTTA
1 AATCATCATCAGAAGCAATAAATTAAGATGTAAAATAAAAGGAATAATTTA
15691191 GTCTTTAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 1 0.02
57 45 0.98
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (57 bp):
AATCATCATCAGAAGCAATAAATTAAGATGTAAAATAAAAGGAATAATTTAACATAA
Found at i:15691617 original size:23 final size:24
Alignment explanation
Indices: 15691591--15691643 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
15691581 AAAATAGTAC
* *
15691591 TTTTTTACTAGAAAGTATGTAT-T
1 TTTTTTACCAAAAAGTATGTATAT
*
15691614 TTTTTGACCAAAAAGTATGTATAT
1 TTTTTTACCAAAAAGTATGTATAT
15691638 TTTTTT
1 TTTTTT
15691644 GCCATCTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (24 bp):
TTTTTTACCAAAAAGTATGTATAT
Found at i:15705287 original size:9 final size:8
Alignment explanation
Indices: 15705266--15705306 Score: 64
Period size: 9 Copynumber: 4.9 Consensus size: 8
15705256 AATAATATTT
15705266 AACAAAAA
1 AACAAAAA
15705274 AACAAAATA
1 AACAAAA-A
15705283 AACAAAACA
1 AACAAAA-A
15705292 AACAAAAA
1 AACAAAAA
15705300 AACAAAA
1 AACAAAA
15705307 CGGAAATAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 15 0.48
9 16 0.52
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (8 bp):
AACAAAAA
Found at i:15705288 original size:17 final size:17
Alignment explanation
Indices: 15705266--15705307 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
15705256 AATAATATTT
15705266 AACAAAA-AAACAAAATA
1 AACAAAACAAACAAAA-A
15705283 AACAAAACAAACAAAAA
1 AACAAAACAAACAAAAA
15705300 AACAAAAC
1 AACAAAAC
15705308 GGAAATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (17 bp):
AACAAAACAAACAAAAA
Found at i:15705412 original size:21 final size:21
Alignment explanation
Indices: 15705386--15705427 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15705376 CCTGTCAGCC
15705386 ACCCAACCAACTCCCC-GACCA
1 ACCCAACCAAC-CCCCTGACCA
15705407 ACCCAACCAACCCCCTGACCA
1 ACCCAACCAACCCCCTGACCA
15705428 GCTCTCTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.33, C:0.57, G:0.05, T:0.05
Consensus pattern (21 bp):
ACCCAACCAACCCCCTGACCA
Found at i:15705697 original size:18 final size:18
Alignment explanation
Indices: 15705666--15705710 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
15705656 CACACCAACC
15705666 GAAAAAAAA-AAAAC-AA
1 GAAAAAAAACAAAACGAA
15705682 GAAAAAAAACAGAAACGAA
1 GAAAAAAAACA-AAACGAA
*
15705701 -AAAACAAACA
1 GAAAAAAAACA
15705711 CAGTCCTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 13 0.52
19 2 0.08
ACGTcount: A:0.80, C:0.11, G:0.09, T:0.00
Consensus pattern (18 bp):
GAAAAAAAACAAAACGAA
Found at i:15707937 original size:3 final size:3
Alignment explanation
Indices: 15707929--15707974 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
15707919 AAATTTTCAT
15707929 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15707975 CTATAAGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15709248 original size:1 final size:1
Alignment explanation
Indices: 15709242--15709266 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
15709232 TCTATACTTT
15709242 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
15709267 CTCCATGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15712747 original size:20 final size:20
Alignment explanation
Indices: 15712722--15712766 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
15712712 TTCGAAATTA
15712722 ATAAAATATTAT-TTTTAAAT
1 ATAAAATATTATCTTTT-AAT
15712742 ATAAAATATTATCTTTTAAT
1 ATAAAATATTATCTTTTAAT
15712762 ATAAA
1 ATAAA
15712767 TATAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATCTTTTAAT
Found at i:15712783 original size:16 final size:17
Alignment explanation
Indices: 15712756--15712788 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15712746 AATATTATCT
15712756 TTTAATATAAATATAAA
1 TTTAATATAAATATAAA
15712773 TTTAA-ATAAATATAAA
1 TTTAATATAAATATAAA
15712789 AATATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTTAATATAAATATAAA
Found at i:15712786 original size:22 final size:22
Alignment explanation
Indices: 15712759--15712811 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
15712749 ATTATCTTTT
*
15712759 AATATAAATATAAATTTAAATA
1 AATATAAATATAAATATAAATA
* * *
15712781 AATATAAAAATATATATAATTA
1 AATATAAATATAAATATAAATA
*
15712803 AAAATAAAT
1 AATATAAAT
15712812 TTTTATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATAAATATAAATATAAATA
Found at i:15716117 original size:46 final size:46
Alignment explanation
Indices: 15716058--15716150 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
15716048 TTTTAAGTGG
15716058 AGTTTATGAAGTTTATTTTTAAAAATAATTTAATAAAATTTTTAAT
1 AGTTTATGAAGTTTATTTTTAAAAATAATTTAATAAAATTTTTAAT
15716104 AGTTTATGAAGTTTATTTTTAAAAATAATTTAATAAAATTTTTAAT
1 AGTTTATGAAGTTTATTTTTAAAAATAATTTAATAAAATTTTTAAT
15716150 A
1 A
15716151 AAAAATTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.49
Consensus pattern (46 bp):
AGTTTATGAAGTTTATTTTTAAAAATAATTTAATAAAATTTTTAAT
Found at i:15716306 original size:14 final size:15
Alignment explanation
Indices: 15716277--15716311 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
15716267 AATTTTTGTC
*
15716277 AATATTTTTATTAAA
1 AATATTTTTATAAAA
15716292 AATATTTTT-TAAAA
1 AATATTTTTATAAAA
15716306 AATATT
1 AATATT
15716312 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTTTTATAAAA
Found at i:15718600 original size:21 final size:20
Alignment explanation
Indices: 15718575--15718628 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
15718565 ATATATATTA
*
15718575 TTTATAAAAAAATTAACATAT
1 TTTATAAAAAAACT-ACATAT
* * *
15718596 TTTATTTAAAAAACTATATTT
1 TTTA-TAAAAAAACTACATAT
15718617 TTTATAAAAAAA
1 TTTATAAAAAAA
15718629 AATTATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 7 0.26
21 12 0.44
22 8 0.30
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTATAAAAAAACTACATAT
Found at i:15718629 original size:21 final size:20
Alignment explanation
Indices: 15718568--15718639 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 20
15718558 CTTTATTATA
*
15718568 TATATTATTTATAAAAAAAT
1 TATATTTTTTATAAAAAAAT
* * * *
15718588 TAACATATTTTATTTAAAAAAC
1 T-ATATTTTTTA-TAAAAAAAT
15718610 TATATTTTTTATAAAAAAAAAT
1 TATATTTTTTAT--AAAAAAAT
15718632 TATATTTT
1 TATATTTT
15718640 AATGATATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.05
21 15 0.38
22 22 0.56
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTTTTTATAAAAAAAT
Found at i:15723710 original size:19 final size:19
Alignment explanation
Indices: 15723680--15723739 Score: 113
Period size: 19 Copynumber: 3.2 Consensus size: 19
15723670 ATATTGTTAA
15723680 TTTTCA-TCATCATTCATT
1 TTTTCATTCATCATTCATT
15723698 TTTTCATTCATCATTCATT
1 TTTTCATTCATCATTCATT
15723717 TTTTCATTCATCATTCATT
1 TTTTCATTCATCATTCATT
15723736 TTTT
1 TTTT
15723740 TAAAAATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 6 0.15
19 35 0.85
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTCATTCATCATTCATT
Found at i:15724717 original size:19 final size:20
Alignment explanation
Indices: 15724693--15724730 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15724683 AGAAGTTCTG
15724693 TAAAAG-ATTTATTGAACTA
1 TAAAAGAATTTATTGAACTA
*
15724712 TAAAAGAATTTATTTAACT
1 TAAAAGAATTTATTGAACT
15724731 TTGAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (20 bp):
TAAAAGAATTTATTGAACTA
Found at i:15729061 original size:14 final size:13
Alignment explanation
Indices: 15729029--15729073 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
15729019 TAAGAGTGTC
15729029 GAGCTTGAATAACTT
1 GAGCTTGAA-AA-TT
15729044 GAGCTCTGAAAATT
1 GAGCT-TGAAAATT
15729058 GAGCTATGAAAATT
1 GAGCT-TGAAAATT
15729072 GA
1 GA
15729074 ATCTAAGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 17 0.61
15 7 0.25
16 4 0.14
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (13 bp):
GAGCTTGAAAATT
Found at i:15730188 original size:2 final size:2
Alignment explanation
Indices: 15730181--15730213 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15730171 ATTCAACCAA
15730181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15730214 GCAGTATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15732235 original size:16 final size:16
Alignment explanation
Indices: 15732192--15732248 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
15732182 ATGACAATTT
*
15732192 TATTTTAGTAATTTAA
1 TATTTTAATAATTTAA
* * * *
15732208 TATATGATTAATTTTA
1 TATTTTAATAATTTAA
*
15732224 TATTTTAATAATTCAA
1 TATTTTAATAATTTAA
15732240 -ATTTTAATA
1 TATTTTAATA
15732249 GAACAAAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
15 9 0.28
16 23 0.72
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (16 bp):
TATTTTAATAATTTAA
Found at i:15741770 original size:17 final size:16
Alignment explanation
Indices: 15741711--15741758 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
15741701 GTGAATATCA
*
15741711 TTGATTTATTTTAAAT
1 TTGAATTATTTTAAAT
**
15741727 TCAAATTA-TTTAAAT
1 TTGAATTATTTTAAAT
15741742 TTGAATTATTTTAAAT
1 TTGAATTATTTTAAAT
15741758 T
1 T
15741759 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TTGAATTATTTTAAAT
Found at i:15741862 original size:6 final size:6
Alignment explanation
Indices: 15741842--15741883 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
15741832 ATCCCCTACG
*
15741842 TGTATA TAT-TA TGTATA TGTATA TGTATA TGTATA TGTATA T
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA T
15741884 AAAAGTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TGTATA
Found at i:15742254 original size:6 final size:6
Alignment explanation
Indices: 15742245--15742284 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
15742235 ATTATTTTGG
15742245 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGG
1 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGG
15742285 GCTGAAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.15, G:0.35, T:0.00
Consensus pattern (6 bp):
AAGGCA
Found at i:15743650 original size:18 final size:19
Alignment explanation
Indices: 15743627--15743672 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
15743617 TAACATTTTT
*
15743627 TATAATCATGATC-TTATG
1 TATAATAATGATCTTTATG
15743645 TATAATAATGATCTTTATG
1 TATAATAATGATCTTTATG
*
15743664 AATAATAAT
1 TATAATAAT
15743673 ATATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (19 bp):
TATAATAATGATCTTTATG
Found at i:15745119 original size:16 final size:17
Alignment explanation
Indices: 15745090--15745122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15745080 AAAAAACTTA
*
15745090 AAAAAATAATAAAAATG
1 AAAAAACAATAAAAATG
15745107 AAAAAACAA-AAAAATG
1 AAAAAACAATAAAAATG
15745123 TGTTTGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAACAATAAAAATG
Found at i:15754327 original size:41 final size:42
Alignment explanation
Indices: 15754130--15754523 Score: 412
Period size: 41 Copynumber: 9.5 Consensus size: 42
15754120 ATTGTTAAGA
**
15754130 AGCAATTTACTTTTCAAAAGTTACGGTGCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
*
15754172 AGCAATTTACTTTTCAAAAGTTGTGGTTGCCTCTATTTAGAGG
1 AGCAATTTACTTTTCAAAAGTTGTGG-TGCCTCTGTTTAGAGG
** *
15754215 AGCAATTTACTTTTCAAAAGTTAAGGTGCCTCTGTTTAAAGG
1 AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
* * *
15754257 AACAATTTACTTTT--AAAGTTGTGATGCCTCTATTTAGAGG
1 AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
*
15754297 AGCAATTTACTTTTC-AAAGTTGTGATGCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
* *
15754338 AGCAATTTAC-TTTCAAAAGTTGTGGTGCCTCTGTTTGGAAG
1 AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
* * * *
15754379 AGCAATTTAC-TTTC-AAAGTTGTTGTGCCTTTATTTATAGG
1 AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
* * * * * *
15754419 AGCAATTTAC-TTTCCAAAGTCGTTGAGCCTTTGTTTAGAAG
1 AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
** * * * *
15754460 AGCTTTGTTTA-TTTTC-AAAGTCGTTGAGCCTCTGTTTAGAAG
1 AGC--AATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
*
15754502 AGCTTTATTTA-TTTTCAAAAGT
1 AGC--AATTTACTTTTCAAAAGT
15754524 CATTGAGCCT
Statistics
Matches: 311, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
40 72 0.23
41 96 0.31
42 91 0.29
43 52 0.17
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (42 bp):
AGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGG
Found at i:15754393 original size:81 final size:82
Alignment explanation
Indices: 15754130--15754543 Score: 406
Period size: 81 Copynumber: 5.0 Consensus size: 82
15754120 ATTGTTAAGA
** *
15754130 AGCAATTTACTTTTCAAAAGTTACGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTG
1 AGCAATTTACTTTTC-AAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTTG
*
15754195 TGGTTGCCTCTATTTAGAGG
64 TGG-TGCCTCTATTTAGAAG
** * * * *
15754215 AGCAATTTACTTTTCAAAAGTTAAGGTGCCTCTGTTTAAAGGAACAATTTACTTT-TAAAGTTGT
1 AGCAATTTACTTTTC-AAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTTGT
* *
15754279 GATGCCTCTATTTAGAGG
65 GGTGCCTCTATTTAGAAG
15754297 AGCAATTTACTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTTGTG
1 AGCAATTTACTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTTGTG
* *
15754362 GTGCCTCTGTTTGGAAG
66 GTGCCTCTATTTAGAAG
* * * * *
15754379 AGCAATTTAC-TTTCAAAGTTGTTG-TGCCTTTATTTATAGGAGCAATTTACTTTCCAAAGTCGT
1 AGCAATTTACTTTTCAAAGTTG-TGATGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTTGT
* * * *
15754442 TGAGCCTTTGTTTAGAAG
65 GGTGCCTCTATTTAGAAG
** * * * *
15754460 AGCTTTGTTTA-TTTTCAAAGTCGTTGA-GCCTCTGTTTAGAAGAGCTTTATTTATTTTCAAAAG
1 AGC--AATTTACTTTTCAAAGTTG-TGATGCCTCTGTTTAGAGGAGC--AATTTACTTTCAAAAG
** * *
15754523 TCATTGAGCCTCTATTTAGAA
61 TTGTGGTGCCTCTATTTAGAA
15754544 AAGCTTTGTT
Statistics
Matches: 284, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
81 96 0.34
82 65 0.23
83 40 0.14
84 3 0.01
85 80 0.28
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (82 bp):
AGCAATTTACTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTTGTG
GTGCCTCTATTTAGAAG
Found at i:15754397 original size:122 final size:122
Alignment explanation
Indices: 15754130--15754462 Score: 422
Period size: 122 Copynumber: 2.7 Consensus size: 122
15754120 ATTGTTAAGA
*
15754130 AGCAATTTACTTTTCAAAAGTTACG-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTT
1 AGCAATTTAC-TTTC-AAAGTT--GTGTGCCTCTATTTAGAGGAGCAATTTACTTTTC-AAAGTT
* *
15754194 GTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAAGTTAAGGTGCCTCTGTTTAAAGG
61 GT-GATGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTAAGGTGCCTCTGTTTAAAGG
* *
15754257 AACAATTTACTTTTAAAGTTGTGATGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGA
1 AGCAATTTACTTTCAAAGTTGTG-TGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGA
** *
15754322 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTTGTGGTGCCTCTGTTTGGAA-G
65 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTAAGGTGCCTCTGTTT-AAAGG
* * * *
15754379 AGCAATTTACTTTCAAAGTTGTTGTGCCTTTATTTATAGGAGCAATTTACTTTCCAAAGTCGTTG
1 AGCAATTTACTTTCAAAGTTG-TGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTG-TG
* *
15754444 A-GCCTTTGTTTAGAAGAGC
64 ATGCCTCTGTTTAGAGGAGC
15754463 TTTGTTTATT
Statistics
Matches: 185, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
122 94 0.51
123 34 0.18
124 9 0.05
125 36 0.19
126 3 0.02
127 9 0.05
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (122 bp):
AGCAATTTACTTTCAAAGTTGTGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGAT
GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTAAGGTGCCTCTGTTTAAAGG
Found at i:15754480 original size:42 final size:42
Alignment explanation
Indices: 15754424--15754558 Score: 191
Period size: 42 Copynumber: 3.2 Consensus size: 42
15754414 ATAGGAGCAA
* *
15754424 TTTACTTTCCAAAGTCGTTGAGCCTTTGTTTAGAAGAGCTTTG
1 TTTA-TTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
*
15754467 TTTATTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTA
1 TTTATTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
* * *
15754509 TTTATTTTCAAAAGTCATTGAGCCTCTATTTAGAAAAGCTTTG
1 TTTATTTTC-AAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
15754552 -TTATTTT
1 TTTATTTT
15754559 TTCTTTTTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
42 51 0.61
43 33 0.39
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.44
Consensus pattern (42 bp):
TTTATTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
Found at i:15754541 original size:43 final size:42
Alignment explanation
Indices: 15754301--15754558 Score: 199
Period size: 41 Copynumber: 6.2 Consensus size: 42
15754291 TAGAGGAGCA
* * *
15754301 ATTTACTTTTCAAAGTTG-TGATGCCTCTGTTTAGAGGAGC--A
1 ATTTA-TTTTCAAAGTCGTTGA-GCCTCTGTTTAGAAGAGCTTT
* * * * * *
15754342 ATTTACTTTCAAAAGTTGTGGTGCCTCTGTTTGGAAGAGC--A
1 ATTTATTTTC-AAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTT
* * * * * * * *
15754383 ATTTACTTTCAAAGTTGTTGTGCCTTTATTTATAGGAGC--A
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTT
* *
15754423 ATTTACTTTCCAAAGTCGTTGAGCCTTTGTTTAGAAGAGCTTT
1 ATTTA-TTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTT
*
15754466 GTTTATTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTT
* * *
15754508 ATTTATTTTCAAAAGTCATTGAGCCTCTATTTAGAAAAGCTTT
1 ATTTATTTTC-AAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTT
*
15754551 -GTTATTTT
1 ATTTATTTT
15754559 TTCTTTTTAA
Statistics
Matches: 184, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
40 33 0.18
41 66 0.36
42 52 0.28
43 33 0.18
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (42 bp):
ATTTATTTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTT
Found at i:15755521 original size:17 final size:17
Alignment explanation
Indices: 15755495--15755540 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
15755485 TTCAAACCCA
*
15755495 AAAAAT-TAAAAAA-TT
1 AAAAATATAAAAAACAT
15755510 AAAAATAATAAAAAACAT
1 AAAAAT-ATAAAAAACAT
15755528 AAAAATATAAAAA
1 AAAAATATAAAAA
15755541 TTTTGGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 6 0.22
17 14 0.52
18 7 0.26
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATATAAAAAACAT
Found at i:15758274 original size:23 final size:23
Alignment explanation
Indices: 15758244--15758287 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
15758234 TTAAAGAAAT
15758244 ATAAAATGGTAGAGGTTTATAAG
1 ATAAAATGGTAGAGGTTTATAAG
15758267 ATAAAATGGTAGAGGTTTATA
1 ATAAAATGGTAGAGGTTTATA
15758288 TTTATGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.32
Consensus pattern (23 bp):
ATAAAATGGTAGAGGTTTATAAG
Found at i:15763683 original size:9 final size:9
Alignment explanation
Indices: 15763669--15763702 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
15763659 CGAGTAGACA
15763669 TTTAACATG
1 TTTAACATG
15763678 TTTAACATG
1 TTTAACATG
*
15763687 TTTAACATA
1 TTTAACATG
15763696 TTTAACA
1 TTTAACA
15763703 CACTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (9 bp):
TTTAACATG
Found at i:15764087 original size:25 final size:26
Alignment explanation
Indices: 15764042--15764104 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
15764032 AATGAGTTTT
*
15764042 TAAA-TTTTTAAAATTTTTTAATATG
1 TAAATTTTTTAAAATTTATTAATATG
*
15764067 TAAATTTTTTAATA-TTATTAATATG
1 TAAATTTTTTAAAATTTATTAATATG
*
15764092 TCAAATTTATTAA
1 T-AAATTTTTTAA
15764105 GTTGTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.45
26 18 0.55
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (26 bp):
TAAATTTTTTAAAATTTATTAATATG
Found at i:15764215 original size:19 final size:20
Alignment explanation
Indices: 15764181--15764221 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15764171 TTTGTGTTAG
*
15764181 TCATATCTATTCGTATATAT
1 TCATATCGATTCGTATATAT
*
15764201 TCATATCGA-TCGTATCTAT
1 TCATATCGATTCGTATATAT
15764220 TC
1 TC
15764222 GTATATATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (20 bp):
TCATATCGATTCGTATATAT
Found at i:15764225 original size:10 final size:10
Alignment explanation
Indices: 15764184--15764225 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
15764174 GTGTTAGTCA
15764184 TATCTATTCG
1 TATCTATTCG
* *
15764194 TATATATTCA
1 TATCTATTCG
*
15764204 TATCGA-TCG
1 TATCTATTCG
15764213 TATCTATTCG
1 TATCTATTCG
15764223 TAT
1 TAT
15764226 ATATCATTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (10 bp):
TATCTATTCG
Found at i:15768926 original size:16 final size:17
Alignment explanation
Indices: 15768907--15768940 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15768897 CAAATAGTTA
*
15768907 TTTATGGAACAA-TGTT
1 TTTATAGAACAATTGTT
15768923 TTTATAGAACAATTGTT
1 TTTATAGAACAATTGTT
15768940 T
1 T
15768941 ACAAAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (17 bp):
TTTATAGAACAATTGTT
Found at i:15771369 original size:12 final size:12
Alignment explanation
Indices: 15771352--15771381 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15771342 CCATATCCTT
15771352 TTTTTTTTCTTG
1 TTTTTTTTCTTG
*
15771364 TTTTTTTTTTTG
1 TTTTTTTTCTTG
15771376 TTTTTT
1 TTTTTT
15771382 ATTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (12 bp):
TTTTTTTTCTTG
Found at i:15771774 original size:25 final size:25
Alignment explanation
Indices: 15771716--15771774 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
15771706 TGCTCAATCA
* * *
15771716 TTCATTTCTTTTTATTTTTCCTTTT
1 TTCATTTTTTTTTATTCTTCATTTT
* * *
15771741 TTTACTTTTTTTTGTTCTTCATTTT
1 TTCATTTTTTTTTATTCTTCATTTT
15771766 TTCATTTTT
1 TTCATTTTT
15771775 CATTTTTCTT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (25 bp):
TTCATTTTTTTTTATTCTTCATTTT
Found at i:15772353 original size:10 final size:10
Alignment explanation
Indices: 15772320--15772366 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
15772310 ATAATCAAAA
*
15772320 TTTTTCTTTC
1 TTTTTCTTTT
15772330 TTTTTCATTTT
1 TTTTTC-TTTT
15772341 TTTCTT-TTTT
1 TTT-TTCTTTT
15772351 TTTTTACTTTT
1 TTTTT-CTTTT
15772362 TTTTT
1 TTTTT
15772367 ACACAACCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 2 0.06
10 13 0.41
11 15 0.47
12 2 0.06
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:15772354 original size:12 final size:13
Alignment explanation
Indices: 15772337--15772366 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15772327 TTCTTTTTCA
15772337 TTTTTTT-CTTTT
1 TTTTTTTACTTTT
15772349 TTTTTTTACTTTT
1 TTTTTTTACTTTT
15772362 TTTTT
1 TTTTT
15772367 ACACAACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTACTTTT
Found at i:15775129 original size:32 final size:32
Alignment explanation
Indices: 15775067--15775132 Score: 116
Period size: 33 Copynumber: 2.1 Consensus size: 32
15775057 ACTATTGAAG
15775067 TACATGGATGCTCAAAAGATGAATATTTTACA
1 TACATGGATGCTCAAAAGATGAATATTTTACA
15775099 TACATGCGATGCTCAAAAGATGAATA-TTTACA
1 TACATG-GATGCTCAAAAGATGAATATTTTACA
15775131 TA
1 TA
15775133 AATACATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (32 bp):
TACATGGATGCTCAAAAGATGAATATTTTACA
Found at i:15776980 original size:41 final size:41
Alignment explanation
Indices: 15776934--15777023 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
15776924 TTTGGTTCGA
*
15776934 TTTAGGGTTAGTTTAGG-GTTTAAGTTAGGATTT-GGGATTGG
1 TTTAGGGTTAGATTAGGAGTTTAAGTT-GG-TTTAGGGATTGG
* * *
15776975 TTTAGGGTTTGATTAGGATTTTAAGTTGGTTTAGGGCTTGG
1 TTTAGGGTTAGATTAGGAGTTTAAGTTGGTTTAGGGATTGG
15777016 -TTAGGGTT
1 TTTAGGGTT
15777024 TAGGATTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
40 11 0.26
41 24 0.56
42 8 0.19
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.46
Consensus pattern (41 bp):
TTTAGGGTTAGATTAGGAGTTTAAGTTGGTTTAGGGATTGG
Found at i:15777003 original size:29 final size:29
Alignment explanation
Indices: 15776944--15777134 Score: 113
Period size: 29 Copynumber: 6.5 Consensus size: 29
15776934 TTTAGGGTTA
* **
15776944 GTTTAGGGTTTAAGTTAGGATTTGGGATTG
1 GTTTAGGGTTTGA-TTAGGATTTAAGATTG
15776974 GTTTAGGGTTTGATTAGGATTTTAAG-TTG
1 GTTTAGGGTTTGATTAGGA-TTTAAGATTG
* * * *
15777003 GTTTAGGGCTTGGTTAGGGTTTAGGATT-
1 GTTTAGGGTTTGATTAGGATTTAAGATTG
* * * *
15777031 GTTTCA-GGTTTAGTTTAGGGTTTACGATTA
1 GTTT-AGGGTTT-GATTAGGATTTAAGATTG
* * *
15777061 GTTTAGGGTTAGTTTAAGG-TTT-AGGTTG
1 GTTTAGGGTTTGATT-AGGATTTAAGATTG
* * *
15777089 ATTTAGGGTTTGAGTTAGGGTTTGAGAGTTTG
1 GTTTAGGGTTTGA-TTAGGATTT-A-AGATTG
*
15777121 GTTTGGGGTTTGAT
1 GTTTAGGGTTTGAT
15777135 GTTTAAGTTT
Statistics
Matches: 129, Mismatches: 20, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
28 29 0.22
29 56 0.43
30 27 0.21
31 1 0.01
32 16 0.12
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.46
Consensus pattern (29 bp):
GTTTAGGGTTTGATTAGGATTTAAGATTG
Found at i:15782421 original size:22 final size:23
Alignment explanation
Indices: 15782370--15782418 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
15782360 AAATATCATG
15782370 AAAAA-ATAGTTTTTTTTTTAAT
1 AAAAATATAGTTTTTTTTTTAAT
15782392 AAAAATATAG-TTTTTTTTTAAGT
1 AAAAATATAGTTTTTTTTTTAA-T
15782415 AAAA
1 AAAA
15782419 TATGTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
AAAAATATAGTTTTTTTTTTAAT
Found at i:15782430 original size:22 final size:22
Alignment explanation
Indices: 15782370--15782432 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
15782360 AAATATCATG
*
15782370 AAAAA-ATAGTTTTTTTTTTAAT
1 AAAAATATAG-TTATTTTTTAAT
*
15782392 AAAAATATAGTTTTTTTTTAAGT
1 AAAAATATAGTTATTTTTTAA-T
15782415 -AAAATAT-GTTAATTTTTT
1 AAAAATATAGTT-ATTTTTT
15782433 TGTAAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 3 0.08
22 29 0.78
23 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (22 bp):
AAAAATATAGTTATTTTTTAAT
Found at i:15783322 original size:29 final size:29
Alignment explanation
Indices: 15783285--15783345 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
15783275 ATATAATGTC
*
15783285 AAATATTTTTAGAAA-TATAAAATAATAA
1 AAATATTTTTAAAAATTATAAAATAATAA
* *
15783313 AAATATTTTTTAAAAATTATTAAATATTAA
1 AAATA-TTTTTAAAAATTATAAAATAATAA
15783343 AAA
1 AAA
15783346 AATATCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.18
29 9 0.32
30 14 0.50
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
AAATATTTTTAAAAATTATAAAATAATAA
Found at i:15789461 original size:12 final size:12
Alignment explanation
Indices: 15789444--15789474 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15789434 TAACTTCTTC
15789444 TTCTTTTTTTTT
1 TTCTTTTTTTTT
15789456 TTCTTTTTTTTT
1 TTCTTTTTTTTT
15789468 TT-TTTTT
1 TTCTTTTT
15789475 CTGTTTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:15789465 original size:15 final size:15
Alignment explanation
Indices: 15789441--15789476 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
15789431 GTGTAACTTC
15789441 TTCTTCTTTTTTTTT
1 TTCTTCTTTTTTTTT
15789456 TTCTT-TTTTTTTTT
1 TTCTTCTTTTTTTTT
*
15789470 TTTTTCT
1 TTCTTCT
15789477 GTTTAGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTCTTCTTTTTTTTT
Found at i:15797471 original size:2 final size:2
Alignment explanation
Indices: 15797464--15797500 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
15797454 TAATCCTATC
*
15797464 AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15797501 GTTACTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15797532 original size:19 final size:19
Alignment explanation
Indices: 15797508--15797553 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
15797498 ATAGTTACTA
15797508 GATACTTATTGATAATGTG
1 GATACTTATTGATAATGTG
* *
15797527 GATACTAATTGTTAATGTG
1 GATACTTATTGATAATGTG
*
15797546 GATGCTTA
1 GATACTTA
15797554 CATGGTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (19 bp):
GATACTTATTGATAATGTG
Found at i:15797563 original size:21 final size:19
Alignment explanation
Indices: 15797520--15797563 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
15797510 TACTTATTGA
*
15797520 TAATGTGGATACTAATTGT
1 TAATGTGGATACTAATGGT
*
15797539 TAATGTGGATGCTTACATGGT
1 TAATGTGGATAC-TA-ATGGT
15797560 TAAT
1 TAAT
15797564 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (19 bp):
TAATGTGGATACTAATGGT
Found at i:15798145 original size:230 final size:237
Alignment explanation
Indices: 15797738--15798337 Score: 833
Period size: 230 Copynumber: 2.6 Consensus size: 237
15797728 ACATATAACT
* *
15797738 TCATCTCAATTTAAAATCAATTTTAAAATAATTTATCTTTTTTAATTTTATTTGGAGTTAATATG
1 TCATCTCAATTTAAAATCAATTTTAAAGTAATTTATCTTTTTTAA-TTTATTTGCAGTTAATATG
* *
15797803 AGTATTTAAA-TTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTGATAAATAA
65 AGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATTTTTTTTATAAATAA
* * * *
15797867 TCCTTATATTATCTTTAGCTTTTAAATATATTTTACAAAGGAAATGTGAAAA-A-A-A-A-ATAT
130 TCCTTACATTATCTTCACCTTTTAAATATATTTCACAAAGGAAATGTGAAAATATATATATATAT
* * * *
15797927 AAACACTAGAAA-TA-TTTAGGAAAGTTT-TCTTTATACATTACC
195 AAACACCA-AAACAACTTTAGGAAAGTTTCTC-CTATACATCACC
* * * **
15797969 TCATCTCAATTTAAAATCAAGTTTAAAGTAATTTATCTTTTATAATTTATTTGCAATTAGCATGA
1 TCATCTCAATTTAAAATCAATTTTAAAGTAATTTATCTTTTTTAATTTATTTGCAGTTAATATGA
15798034 GTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTT-ATTTTTTTTATAAATAAT
66 GTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATTTTTTTTATAAATAAT
**
15798098 TTTTACATTATCTTCACCTTTTAAATATATTTCACAAAGGAAATGTGAAAATATATATATATATA
131 CCTTACATTATCTTCACCTTTTAAATATATTTCACAAAGGAAATGTGAAAATATATATATATATA
* *
15798163 AATACCAAAACAACTTTAGGAAAGTTTCTCCTATACATCACT
196 AACACCAAAACAACTTTAGGAAAGTTTCTCCTATACATCACC
* * * * * *
15798205 TTATCTTAATTTAAAATTAATTTTAAAGTAATTTATTTTTTTTCAATTTATCTACAGTTAATATG
1 TCATCTCAATTTAAAATCAATTTTAAAGTAATTTATCTTTTTT-AATTTATTTGCAGTTAATATG
*
15798270 AGTATTTAAATTTATCACAACTTTTAAAAATATTATTCAATATCTTTAATTTTTTTTTATAAATA
65 AGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAA-TTTTTTTTATAAATA
15798335 ATC
129 ATC
15798338 ATTGTATTCA
Statistics
Matches: 323, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
230 86 0.27
231 79 0.24
232 1 0.00
233 1 0.00
234 4 0.01
235 11 0.03
236 59 0.18
237 64 0.20
238 1 0.00
239 17 0.05
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.46
Consensus pattern (237 bp):
TCATCTCAATTTAAAATCAATTTTAAAGTAATTTATCTTTTTTAATTTATTTGCAGTTAATATGA
GTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATTTTTTTTATAAATAAT
CCTTACATTATCTTCACCTTTTAAATATATTTCACAAAGGAAATGTGAAAATATATATATATATA
AACACCAAAACAACTTTAGGAAAGTTTCTCCTATACATCACC
Found at i:15800184 original size:15 final size:15
Alignment explanation
Indices: 15800166--15800214 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15800156 ATCAAAATAA
15800166 AAATAAAAATATTTT
1 AAATAAAAATATTTT
*
15800181 AAATTATAAA-ATTTT
1 AAA-TAAAAATATTTT
15800196 --ATAAAATATATTTT
1 AAATAAAA-ATATTTT
15800210 AAATA
1 AAATA
15800215 TATAAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
12 4 0.15
13 2 0.07
14 5 0.19
15 8 0.30
16 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATAAAAATATTTT
Found at i:15800191 original size:17 final size:17
Alignment explanation
Indices: 15800165--15800205 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15800155 TATCAAAATA
15800165 AAAATA-AAAATATTT-T
1 AAAATATAAAAT-TTTAT
*
15800181 AAATTATAAAATTTTAT
1 AAAATATAAAATTTTAT
15800198 AAAATATA
1 AAAATATA
15800206 TTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATATAAAATTTTAT
Found at i:15800191 original size:29 final size:30
Alignment explanation
Indices: 15800148--15800221 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 30
15800138 ATTTTATTGA
15800148 TAAATCATATCAAAATAAAAATAAAA-ATATTT
1 TAAAT-ATAT-AAAAT-AAAATAAAATATATTT
***
15800180 TAAAT-TATAAAATTTTATAAAATATATTT
1 TAAATATATAAAATAAAATAAAATATATTT
15800209 TAAATATATAAAA
1 TAAATATATAAAA
15800222 ATCAATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 6 0.16
29 16 0.43
30 10 0.27
32 5 0.14
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
TAAATATATAAAATAAAATAAAATATATTT
Found at i:15801137 original size:19 final size:20
Alignment explanation
Indices: 15801104--15801146 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
15801094 TTGACTTCAA
15801104 TGAC-TCAATGATGTGGCAT
1 TGACTTCAATGATGTGGCAT
*
15801123 TGACTTCAATG-TGTGGTAT
1 TGACTTCAATGATGTGGCAT
15801142 TGACT
1 TGACT
15801147 ATTGATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (20 bp):
TGACTTCAATGATGTGGCAT
Found at i:15801288 original size:31 final size:31
Alignment explanation
Indices: 15801216--15801324 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
15801206 ACTCATTTGT
* * * *
15801216 AATTTAAAATTTA-ATCTATGTACTCACACGA
1 AATTTAAAATTTAGTTCT-TATACTCATACAA
* * * *
15801247 AACTTGAAATTTAG-TCTCTATACTTATATAA
1 AATTTAAAATTTAGTTCT-TATACTCATACAA
*
15801278 AATTTAAAATTTAGTTCTTATACTCATACGA
1 AATTTAAAATTTAGTTCTTATACTCATACAA
*
15801309 AATTTGAAATTTAGTT
1 AATTTAAAATTTAGTT
15801325 TCTTTAATAT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
31 59 0.95
32 3 0.05
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (31 bp):
AATTTAAAATTTAGTTCTTATACTCATACAA
Found at i:15802996 original size:13 final size:13
Alignment explanation
Indices: 15802978--15803011 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15802968 TAGATTTTTT
* *
15802978 AATATTGTGATAG
1 AATATTATGAGAG
15802991 AATATTATGAGAG
1 AATATTATGAGAG
15803004 AATATTAT
1 AATATTAT
15803012 AGCAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (13 bp):
AATATTATGAGAG
Found at i:15803753 original size:12 final size:12
Alignment explanation
Indices: 15803719--15803744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15803709 ATTTGAATTA
15803719 TAAATAATATTT
1 TAAATAATATTT
15803731 TAAATAATATTT
1 TAAATAATATTT
15803743 TA
1 TA
15803745 TATATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:15810380 original size:2 final size:2
Alignment explanation
Indices: 15810373--15810399 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15810363 ATCCAATTTG
15810373 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15810400 ACAACTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15813009 original size:16 final size:15
Alignment explanation
Indices: 15812988--15813029 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
15812978 AAAAAAGGAT
15812988 TTTATTTTATTTTATC
1 TTTATTTTATTTT-TC
15813004 TTTATTTTTATTTTTC
1 TTTA-TTTTATTTTTC
*
15813020 TAT-TTTTATT
1 TTTATTTTATT
15813030 ATTTGGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTATTTTTC
Found at i:15813033 original size:17 final size:17
Alignment explanation
Indices: 15812988--15813029 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 17
15812978 AAAAAAGGAT
15812988 TTTA-TTTTATTTTATC
1 TTTATTTTTATTTTATC
15813004 TTTATTTTTATTTT-TC
1 TTTATTTTTATTTTATC
15813020 --TATTTTTATT
1 TTTATTTTTATT
15813030 ATTTGGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.40
16 6 0.24
17 9 0.36
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTATC
Found at i:15814781 original size:18 final size:18
Alignment explanation
Indices: 15814754--15814804 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
15814744 ATAATATGAA
*
15814754 ATTAATATAATAAAATAT-
1 ATTAAAATAATAAAAT-TC
15814772 ATTAAAATAAGTTAAAATTC
1 ATTAAAATAA--TAAAATTC
15814792 ATTAAAAATAATA
1 ATT-AAAATAATA
15814805 TAACTAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 9 0.32
21 7 0.25
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
ATTAAAATAATAAAATTC
Found at i:15815672 original size:58 final size:58
Alignment explanation
Indices: 15815536--15815808 Score: 338
Period size: 64 Copynumber: 4.6 Consensus size: 58
15815526 TTTTGTACAG
* ** **
15815536 GAAAAATTGATACTTTCAACTTTT-TTCAAAAATATTTTTTAGAAATTTTAATTTAGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTT-ATTTTCAA
*
15815594 G-AAAATTG-TACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTCCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
* *
15815650 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAGCTTATTTTCAA
*
15815709 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTATTTTTTTTTA-AAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAA-A--TA---TTTTTTAGAAAGCTTATTTTCAA
* *
15815773 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
15815809 ATATTTTTTG
Statistics
Matches: 192, Mismatches: 12, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
56 21 0.11
57 37 0.19
58 33 0.17
59 39 0.20
60 6 0.03
61 1 0.01
62 1 0.01
63 6 0.03
64 41 0.21
66 7 0.04
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
Found at i:15815715 original size:59 final size:58
Alignment explanation
Indices: 15815538--15815808 Score: 343
Period size: 57 Copynumber: 4.6 Consensus size: 58
15815528 TTGTACAGGA
* ** * *
15815538 AAAATTGATACTTTCAACTTTT-TTCAAAAATATTTTTTAGAAATTTTAATTT-AGAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCA-AGG
* *
15815595 AAAATTG-TACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTCCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
* *
15815652 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAGCTTATTTTCAAGG
15815711 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTATTTTTTTTTA-AAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAA-A--TA---TTTTTTAGAAAGCTTATTTTCAAGG
*
15815775 AAAATTGATACTTTCAACTTTTCCTTAAAAATAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT
15815809 ATATTTTTTG
Statistics
Matches: 189, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
56 14 0.07
57 41 0.22
58 33 0.17
59 39 0.21
60 6 0.03
61 1 0.01
62 1 0.01
63 6 0.03
64 41 0.22
66 7 0.04
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
Found at i:15815785 original size:123 final size:115
Alignment explanation
Indices: 15815536--15815808 Score: 363
Period size: 123 Copynumber: 2.3 Consensus size: 115
15815526 TTTTGTACAG
**
15815536 GAAAAATTGATACTTTCAACTTTTT-TCAAAAATATTTTTTAGAAATTTTAATTTAGAAGAAAAT
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTAATTTAGAAGAAAAT
15815600 TGTACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTCCAA
66 TGTACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTCCAA
* *
15815650 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTTCA-AGGAAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAG-AAAACTTAATTT-AGAAGAAA
*
15815714 ATTGATACTTTCAACTTTTCCTCAAAAATATTTATTTTTTTTTA-AAAGCTTATTTTCAA
64 ATTG-TACTTTCAACTTTTCCTC-AAAA-A--TA---TTTTTTAGAAAGCTTATTTCCAA
* * *
15815773 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATAT
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT
15815809 ATATTTTTTG
Statistics
Matches: 140, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
114 25 0.18
115 17 0.12
116 18 0.13
117 19 0.14
118 4 0.03
119 1 0.01
121 2 0.01
123 47 0.34
124 7 0.05
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (115 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTAATTTAGAAGAAAAT
TGTACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTCCAA
Found at i:15815855 original size:5 final size:5
Alignment explanation
Indices: 15815833--15815887 Score: 80
Period size: 5 Copynumber: 11.4 Consensus size: 5
15815823 TTATTTAAAG
15815833 AAAAT -AAAT -AAA- AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
15815881 AAAAT AA
1 AAAAT AA
15815888 TAAAAAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
4 10 0.21
5 32 0.68
6 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:15815858 original size:11 final size:11
Alignment explanation
Indices: 15815833--15815896 Score: 80
Period size: 10 Copynumber: 5.9 Consensus size: 11
15815823 TTATTTAAAG
*
15815833 AAAATAAATAAA
1 AAAATAAA-ATA
15815845 AAAATAAAATA
1 AAAATAAAATA
15815856 AAAATAAAAT-
1 AAAATAAAATA
15815866 AAAATAAAAT-
1 AAAATAAAATA
15815876 AAAATAAAATA
1 AAAATAAAATA
15815887 ATAAA-AAAAT
1 A-AAATAAAAT
15815897 TAATAAACAA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
10 20 0.41
11 18 0.37
12 11 0.22
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:15815894 original size:15 final size:16
Alignment explanation
Indices: 15815833--15815896 Score: 85
Period size: 16 Copynumber: 4.0 Consensus size: 16
15815823 TTATTTAAAG
*
15815833 AAAATAAATAAAAAAAT
1 AAAAT-AATAATAAAAT
*
15815850 AAAATAAAAATAAAAT
1 AAAATAATAATAAAAT
15815866 AAAATAA-AATAAAAT
1 AAAATAATAATAAAAT
*
15815881 AAAATAATAAAAAAAT
1 AAAATAATAATAAAAT
15815897 TAATAAACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.35
16 23 0.53
17 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAATAAAAT
Found at i:15816772 original size:6 final size:6
Alignment explanation
Indices: 15816757--15816857 Score: 60
Period size: 6 Copynumber: 14.8 Consensus size: 6
15816747 TAATTAGATA
* *
15816757 AATAAA AATATT AATAAT AATAAT AGATAAAT AATAAT ATATAAAT AGATAAAT
1 AATAAT AATAAT AATAAT AATAAT A-AT-AAT AATAAT A-AT-AAT A-AT-AAT
15816811 AATAAT AAATACAT -ATATAT AATATAT AAATAGAT AAATAAT AATAA
1 AATAAT -AATA-AT AATA-AT AATA-AT -AATA-AT -AATAAT AATAA
15816858 ATATATATAA
Statistics
Matches: 81, Mismatches: 6, Indels: 16
0.79 0.06 0.16
Matches are distributed among these distances:
6 33 0.41
7 20 0.25
8 28 0.35
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (6 bp):
AATAAT
Found at i:15816779 original size:22 final size:23
Alignment explanation
Indices: 15816745--15816870 Score: 72
Period size: 22 Copynumber: 5.7 Consensus size: 23
15816735 ATTAAAAGAA
15816745 AATAATTAGATAAATA-AAAATATT
1 AATAA-TAGATAAATAGAAAATA-T
*
15816769 AATAATA-AT-AATAGATAA-AT
1 AATAATAGATAAATAGAAAATAT
* *
15816789 AATAATATATAAATAGATAA-AT
1 AATAATAGATAAATAGAAAATAT
* * *
15816811 AATAATAAATACATATATATAATAT
1 AATAATAGATA-A-ATAGAAAATAT
*
15816836 -ATAAATAGATAAATA-ATAATA-
1 AAT-AATAGATAAATAGAAAATAT
*
15816857 AAT-ATATATAAATA
1 AATAATAGATAAATA
15816871 TTAACAGATA
Statistics
Matches: 89, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
20 18 0.20
21 7 0.08
22 34 0.38
23 6 0.07
24 15 0.17
25 9 0.10
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (23 bp):
AATAATAGATAAATAGAAAATAT
Found at i:15816812 original size:39 final size:40
Alignment explanation
Indices: 15816769--15816966 Score: 167
Period size: 39 Copynumber: 5.0 Consensus size: 40
15816759 TAAAAATATT
* *
15816769 AATAATAAT-AATAGATAAATAATAATATATAAATAGATA
1 AATAATAATAAATAAATAAATAATAATATATAAATAAATA
* * *
15816808 AATAATAATAAATACATATAT-ATAATATATAAATAGATA
1 AATAATAATAAATAAATAAATAATAATATATAAATAAATA
* * *
15816847 AATAATAATAAATATATATAAATATTAACAGATAAA-AAATA
1 AATAATAATAAATA-A-ATAAATAATAATATATAAATAAATA
* * *
15816888 AAT-ATATATTAATAAAT-AGTAATAATTAAATAAATAAATA
1 AATAATA-ATAAATAAATAAATAATAA-TATATAAATAAATA
* *
15816928 AATAATAAATACATAAGATACAA-AATAAAATA-AAATAAA
1 AATAAT-AATAAATAA-ATA-AATAATAATATATAAATAAA
15816967 ATATAAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
38 6 0.05
39 49 0.38
40 21 0.16
41 33 0.26
42 14 0.11
43 5 0.04
44 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (40 bp):
AATAATAATAAATAAATAAATAATAATATATAAATAAATA
Found at i:15816819 original size:61 final size:60
Alignment explanation
Indices: 15816726--15816938 Score: 183
Period size: 61 Copynumber: 3.5 Consensus size: 60
15816716 TAAAAAATGT
15816726 TAATAGATAATTAAA-AGA-AAATAATTAGATAAATAAAAATATTAATAATAATAATAGATAAA
1 TAATA-ATAA-TAAATAGATAAATAA-TA-ATAAATAAAAATATTAATAATAATAATAGATAAA
* *
15816788 TAATAATATATAAATAGATAAATAATAATAAATACATATA-T-ATAATATATAAATAGATAAA
1 TAATAATA-ATAAATAGATAAATAATAATAAATAAAAATATTAATAATA-AT-AATAGATAAA
* * * * * * *
15816849 TAATAATAA-ATATATATAAATATTAACAGATAAAAA-ATAAAT-AT-ATATTA-ATAAA
1 TAATAATAATAAATAGATAAATAATAATAAATAAAAATATTAATAATAATAATAGATAAA
* *
15816904 TAGTAATAATTAAATAAATAAATAAATAATAAATA
1 TAATAATAA-TAAATAGATAAAT-AATAATAAATA
15816939 CATAAGATAC
Statistics
Matches: 124, Mismatches: 17, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
55 13 0.10
56 3 0.02
57 12 0.10
58 9 0.07
59 28 0.23
60 6 0.05
61 36 0.29
62 11 0.09
63 6 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (60 bp):
TAATAATAATAAATAGATAAATAATAATAAATAAAAATATTAATAATAATAATAGATAAA
Found at i:15816821 original size:4 final size:4
Alignment explanation
Indices: 15816744--15816975 Score: 96
Period size: 4 Copynumber: 58.2 Consensus size: 4
15816734 AATTAAAAGA
* * * *
15816744 AAAT AATT AGAT AAAT AAA- AATAT TAAT -AAT -AAT -AAT AGAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
15816789 -AAT -AAT ATAT AAAT AGAT AAAT -AAT -AAT AAAT ACAT ATAT ATAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT
* * * *
15816834 ATAT AAAT AGAT AAAT -AAT -AAT AAAT ATATAT AAAT ATTAAC AGAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT A--AAT AAAT
* *
15816880 AAA- AAAT AAAT ATATAT TAAT AAAT AGTAAT AATT AAAT AAAT AAAT
1 AAAT AAAT AAAT A-A-AT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
* * *
15816927 AAAT -AAT AAAT ACAT AAGAT ACA- AAAT AAAAT AAAAT AAA- ATAT AAAT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT
15816975 A
1 A
15816976 TAAATAGAAA
Statistics
Matches: 175, Mismatches: 32, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
3 39 0.22
4 104 0.59
5 20 0.11
6 12 0.07
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:15816870 original size:81 final size:81
Alignment explanation
Indices: 15816745--15816935 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
15816735 ATTAAAAGAA
* * * *
15816745 AATAATTAGATAAATAAA-AATATTAATAATAATAATAGATAAATAATAATATATAAATAGATAA
1 AATAATTAAATAAATAAATAA-A-TAATAATAATAATAGATAAATAATAACAGATAAA-AAATAA
*
15816809 ATA-ATAATAAATACATA-T
63 ATATAT-ATAAATAAATAGT
* * * *
15816827 ATATAA-TATATAAATAGATAAATAATAATAA-ATATATATAAATATTAACAGATAAAAAATAAA
1 A-ATAATTAAATAAATAAATAAATAATAATAATA-ATAGATAAATAATAACAGATAAAAAATAAA
*
15816890 TATATATTAATAAATAGT
64 TATATATAAATAAATAGT
15816908 AATAATTAAATAAATAAATAAATAATAA
1 AATAATTAAATAAATAAATAAATAATAA
15816936 ATACATAAGA
Statistics
Matches: 92, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
80 22 0.24
81 52 0.57
82 12 0.13
83 6 0.07
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (81 bp):
AATAATTAAATAAATAAATAAATAATAATAATAATAGATAAATAATAACAGATAAAAAATAAATA
TATATAAATAAATAGT
Found at i:15816959 original size:5 final size:5
Alignment explanation
Indices: 15816949--15817006 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
15816939 CATAAGATAC
* *
15816949 AAAAT AAAAT AAAAT AAAAT ATAAAT ATAAAT AGAA- AATAT AAAAT ACAAAAT
1 AAAAT AAAAT AAAAT AAAAT A-AAAT A-AAAT AAAAT AAAAT AAAAT --AAAAT
15817002 AAAAT
1 AAAAT
15817007 GGGCTTACCC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 2 0.04
5 27 0.60
6 11 0.24
7 5 0.11
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:15817005 original size:12 final size:11
Alignment explanation
Indices: 15816949--15817006 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 11
15816939 CATAAGATAC
15816949 AAAATAAAAT-
1 AAAATAAAATA
15816959 AAAATAAAATA
1 AAAATAAAATA
*
15816970 TAAATATAAATAGA
1 -AAA-ATAAA-ATA
15816984 AAATATAAAATA
1 AAA-ATAAAATA
15816996 CAAAATAAAAT
1 -AAAATAAAAT
15817007 GGGCTTACCC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 10 0.24
12 12 0.29
13 17 0.41
14 2 0.05
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:15817328 original size:41 final size:41
Alignment explanation
Indices: 15817189--15817507 Score: 293
Period size: 41 Copynumber: 7.4 Consensus size: 41
15817179 TCAAAACTTT
* *
15817189 TCTAAGCAGAGGCTCAACGAC-TTTGAAAAACATAGACAAAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTTG--AAA-ATA-A-ACAGCTCC
*
15817234 TCTAATCAGAGGCTCAACGACTTTTGGAAATAAATAAACAAAACTCC
1 TCTAATCAGAGGCTCAACGACTTTT-G--A-AAATAAAC--AGCTCC
* * *
15817281 TTTAATCAGAGGCTCAATGACTTTTGAAAATAAACGGCTCC
1 TCTAATCAGAGGCTCAACGACTTTTGAAAATAAACAGCTCC
* * **
15817322 TCTAATCAGAGGCTCAACGACTTTTGGGAAGTAAATTGCTCC
1 TCTAATCAGAGGCTCAACGACTTTT-GAAAATAAACAGCTCC
* * *
15817364 TCTAATCAGAGGTTCTATGAC-TTTGAGAAATAAACAAAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTTGA-AAATAAAC--AGCTCC
* * *
15817407 TCTAATCAGAGGCTCAACAACTTTTAAAAATAAATAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTTGAAAATAAACAGCTCC
* *
15817448 TCTAATCAGAGGTTCAACGAC-TTTGAAAATAAATAAAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTTGAAAAT-AA-ACAGCTCC
*
15817490 TCTAAACAGAGGCTCAAC
1 TCTAATCAGAGGCTCAAC
15817508 TTTGGGAAGT
Statistics
Matches: 230, Mismatches: 32, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
40 9 0.04
41 63 0.27
42 53 0.23
43 37 0.16
44 5 0.02
45 21 0.09
46 5 0.02
47 35 0.15
48 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
TCTAATCAGAGGCTCAACGACTTTTGAAAATAAACAGCTCC
Found at i:15817423 original size:126 final size:129
Alignment explanation
Indices: 15817229--15817507 Score: 352
Period size: 126 Copynumber: 2.2 Consensus size: 129
15817219 CATAGACAAA
* *
15817229 GCTCCTCTAATCAGAGGCTCAACGACTTTTGGAAATAAATAAACAAAACTCCTTTAATCAGAGGC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGG-AAGAAATAAACAAAACTCCTCTAATCAGAGGC
** * *
15817294 TCAATGACTTTTGAAAATAAACGGCTCCTCTAATCAGAGGCTCAACGACTTTTGGGAAGTAAATT
65 TCAACAACTTTTAAAAATAAACAGCTCCTCTAATCAGAGGCTCAACGACTTTTGGGAAGTAAATT
* * * *
15817359 GCTCCTCTAATCAGAGGTTCTATGAC-TTT-G-AGAAATAAACAAAGCTCCTCTAATCAGAGGCT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGGAAGAAATAAACAAAACTCCTCTAATCAGAGGCT
* * * *
15817421 CAACAACTTTTAAAAATAAATAGCTCCTCTAATCAGAGGTTCAACGAC-TTT-GAAAATAAATAA
66 CAACAACTTTTAAAAATAAACAGCTCCTCTAATCAGAGGCTCAACGACTTTTGGGAAGTAAAT--
*
15817484 A
129 T
*
15817485 GCTCCTCTAAACAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAAC
15817508 TTTGGGAAGT
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
124 8 0.06
125 3 0.02
126 90 0.70
128 1 0.01
129 3 0.02
130 23 0.18
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (129 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTTGGAAGAAATAAACAAAACTCCTCTAATCAGAGGCT
CAACAACTTTTAAAAATAAACAGCTCCTCTAATCAGAGGCTCAACGACTTTTGGGAAGTAAATT
Found at i:15818534 original size:17 final size:16
Alignment explanation
Indices: 15818509--15818543 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
15818499 TCCTTTTTCA
15818509 TTCACTTTTTTTCATTT
1 TTCACTTTTTTT-ATTT
*
15818526 TTCATTTTTTTTATTT
1 TTCACTTTTTTTATTT
15818542 TT
1 TT
15818544 TTTTCAAGCA
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:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCACTTTTTTTATTT
Found at i:15818544 original size:17 final size:17
Alignment explanation
Indices: 15818509--15818543 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15818499 TCCTTTTTCA
15818509 TTCACTTTTTTTCATTT
1 TTCACTTTTTTTCATTT
*
15818526 TTCA-TTTTTTTTATTT
1 TTCACTTTTTTTCATTT
15818542 TT
1 TT
15818544 TTTTCAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (17 bp):
TTCACTTTTTTTCATTT
Found at i:15829120 original size:120 final size:119
Alignment explanation
Indices: 15828950--15829332 Score: 418
Period size: 120 Copynumber: 3.2 Consensus size: 119
15828940 ACTTTCAACT
*
15828950 TTTCAACTTTTCCTCAAAAGAAAAAAAAAACCTTTTATGAAACTTATTTTTAAGGAAAATTGGTA
1 TTTCAACTTTTCCTCAAAAG----AAAAAACCTTTTA-GAAACTTATTTTTAAGGAAAATTGATA
* ** *
15829015 CTTTCAACTTTTTCTCAAAAACAATTTTTAGAAATTTTAATTTCGAAA-AAAGTTGATAC
61 CTTTCAACTTTTCCTCAAAAACAATTTTTAGAAAGCTT-ATTTCGAAAGAAAATTGATAC
15829074 TTTCAACTTTTCCTCAAAAGAAAAAACCTTTTACGAAACTTATTTTTAAGGAAAATTGATACTTT
1 TTTCAACTTTTCCTCAAAAGAAAAAACCTTTTA-GAAACTTATTTTTAAGGAAAATTGATACTTT
* * *
15829139 CAACTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTCGAAAGAAAATTGATAC
65 CAACTTTTCCTCAAAAACAATTTTTAGAAAGCTTATTTCGAAAGAAAATTGATAC
* * ** *
15829194 TTTCAACTTTTTCTC---A-AAAATATGTTTTAGAAAAACTTATTTTCAAGGAAAATTGATACTT
1 TTTCAACTTTTCCTCAAAAGAAAAAACCTTTTAG--AAACTTATTTTTAAGGAAAATTGATACTT
* **** * *
15829255 TTAACTTTTCCTCAAATATTTTTTTTTTTGAAAAGCTTATTTTC-AAGGAAAATTGATAC
64 TCAACTTTTCCTCAAA-A-ACAATTTTTAG-AAAGCTTA-TTTCGAAAGAAAATTGATAC
*
15829314 TTTCAACTTTTCCTTAAAA
1 TTTCAACTTTTCCTCAAAA
15829333 ATATATATTT
Statistics
Matches: 227, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
115 1 0.00
116 10 0.04
117 43 0.19
118 1 0.00
119 17 0.07
120 130 0.57
121 4 0.02
123 1 0.00
124 20 0.09
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (119 bp):
TTTCAACTTTTCCTCAAAAGAAAAAACCTTTTAGAAACTTATTTTTAAGGAAAATTGATACTTTC
AACTTTTCCTCAAAAACAATTTTTAGAAAGCTTATTTCGAAAGAAAATTGATAC
Found at i:15829299 original size:61 final size:59
Alignment explanation
Indices: 15828992--15829336 Score: 353
Period size: 58 Copynumber: 5.8 Consensus size: 59
15828982 TTTTATGAAA
* * * * * *
15828992 CTTATTTTTAAGGAAAATTGGTACTTTCAACTTTTTCTCAAAAACAATTTTTAG-AAAT
1 CTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAG
* * * **
15829050 TTTAATTTCGAA--AAAAGTTGATACTTTCAACTTTTCCTCAAAAGAAAAAACCTTTTACG-AAA
1 CTTATTTTC-AAGGAAAA-TTGATACTTTCAACTTTTCCTC---A-AAAATATTTTTTA-GAAAA
15829112 -
59 G
* *
15829112 CTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAG-AAAG
1 CTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAG
* * * *
15829170 CTTA-TTTCGAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATGTTTTAGAAAAA
1 CTTATTTTC-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAG
* * * *
15829229 CTTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTCAAATATTTTTTTTTTTGAAAAG
1 CTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAA-A-ATATTTTTTAGAAAAG
*
15829290 CTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATAT
1 CTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
15829337 ATATTTTTTG
Statistics
Matches: 239, Mismatches: 33, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
57 11 0.05
58 81 0.34
59 42 0.18
60 6 0.03
61 54 0.23
62 37 0.15
63 8 0.03
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.41
Consensus pattern (59 bp):
CTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAG
Found at i:15829372 original size:12 final size:12
Alignment explanation
Indices: 15829357--15829408 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
15829347 AATTTTATTT
15829357 TAAAAAAATAAA
1 TAAAAAAATAAA
15829369 TAAAAAAATAAA
1 TAAAAAAATAAA
*
15829381 -AGAAAAATAAA
1 TAAAAAAATAAA
15829392 -AATAAAAA-AAA
1 TAA-AAAAATAAA
15829403 TAAAAA
1 TAAAAA
15829409 GTACTAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
11 17 0.47
12 19 0.53
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:15829416 original size:25 final size:25
Alignment explanation
Indices: 15829358--15829407 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
15829348 ATTTTATTTT
15829358 AAAAA-AATAAATAAAAAAATAAAAG
1 AAAAATAA-AAATAAAAAAATAAAAG
15829383 AAAAATAAAAATAAAAAAAATAAAA
1 AAAAATAAAAAT-AAAAAAATAAAA
15829408 AGTACTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (25 bp):
AAAAATAAAAATAAAAAAATAAAAG
Found at i:15830331 original size:22 final size:20
Alignment explanation
Indices: 15830295--15830372 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 20
15830285 TAAAAAATGT
* *
15830295 TAATAGATTATTAAAAGAAAA
1 TAATAGATAAATAAAA-AAAA
* *
15830316 TAATTAGATAAATAAAAATAT
1 TAA-TAGATAAATAAAAAAAA
* *
15830337 TAATAGATAAATAATAATATA
1 TAATAGATAAATAA-AAAAAA
15830358 TAAATAGATAAATAA
1 T-AATAGATAAATAA
15830373 TAATAAATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 11 0.24
21 11 0.24
22 24 0.52
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
TAATAGATAAATAAAAAAAA
Found at i:15830350 original size:4 final size:4
Alignment explanation
Indices: 15830313--15830526 Score: 94
Period size: 4 Copynumber: 54.2 Consensus size: 4
15830303 TATTAAAAGA
* * * * *
15830313 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT -AAT -AAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
15830359 AAAT AGAT AAAT -AAT -AAT AAAT ACAT ATAT ATAAT ATAT AAAT AGAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT
* * * *
15830406 AAAT -AAT -AAT AAAT ATAT AAA- AATAT TAAC AGAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
*
15830452 ATTAAT AAAT AGTAAT -AAT AAAT AAAT AAAT -AAT AAA- ACAT AAGAT
1 A--AAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT
* *
15830498 ACA- AAAT AAAATT AAAT AAA- ATAT AAAT A
1 AAAT AAAT -AAA-T AAAT AAAT AAAT AAAT A
15830527 TAAATATAAA
Statistics
Matches: 157, Mismatches: 33, Indels: 40
0.68 0.14 0.17
Matches are distributed among these distances:
3 34 0.22
4 101 0.64
5 14 0.09
6 8 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:15830404 original size:39 final size:37
Alignment explanation
Indices: 15830314--15830487 Score: 166
Period size: 39 Copynumber: 4.7 Consensus size: 37
15830304 ATTAAAAGAA
* * *
15830314 AATAATTAGATAAATA-A-AAATATTAATAGATAA-AT
1 AATAA-TATATAAATAGATAAATAATAATAAATAATAT
15830349 AATAATATATAAATAGATAAATAATAATAAATACATAT
1 AATAATATATAAATAGATAAATAATAATAAATA-ATAT
15830387 ATATAATATATAAATAGATAAATAATAATAAAT-ATAT
1 A-ATAATATATAAATAGATAAATAATAATAAATAATAT
* *
15830424 AA-AA-ATATTAACAGATAAATAAATAAATATTAATAA-AT
1 AATAATATATAAATAGATAAAT-AAT-AATA--AATAATAT
* *
15830462 AGTAATA-ATAAATAAATAAATAATAA
1 AATAATATATAAATAGATAAATAATAA
15830488 AACATAAGAT
Statistics
Matches: 118, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
34 23 0.19
35 11 0.09
36 18 0.15
37 8 0.07
38 12 0.10
39 45 0.38
40 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (37 bp):
AATAATATATAAATAGATAAATAATAATAAATAATAT
Found at i:15830481 original size:81 final size:81
Alignment explanation
Indices: 15830313--15830488 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 81
15830303 TATTAAAAGA
* * * * *
15830313 AAATAATTAGATAAATAAAAATATTAATAGATAAATAATAATATATAAATAGATAAATAATAATA
1 AAATAAATAGATAAATAAAAATAATAATAGATAAATAATAACAGATAAATAAATAAATAATAATA
*
15830378 AATACATATATATAAT
66 AATAAATATATATAAT
* * * *
15830394 ATATAAATAGATAAATAATAATAAATATATA-A-AAATATTAACAGATAAATAAATAAATATTAA
1 AAATAAATAGATAAATAAAAAT-AATA-ATAGATAAATAATAACAGATAAATAAATAAATAATAA
15830457 TAAATAGTAATA-ATA-AAT
64 TAAATA--AATATATATAAT
15830475 AAATAAATA-ATAAA
1 AAATAAATAGATAAA
15830489 ACATAAGATA
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
80 5 0.06
81 62 0.77
82 7 0.09
83 6 0.08
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (81 bp):
AAATAAATAGATAAATAAAAATAATAATAGATAAATAATAACAGATAAATAAATAAATAATAATA
AATAAATATATATAAT
Found at i:15830518 original size:29 final size:29
Alignment explanation
Indices: 15830483--15830538 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
15830473 ATAAATAAAT
15830483 AATAAAACATAAGATACAAA-ATAAAATTA
1 AATAAAACATAA-ATACAAATATAAAATTA
* *
15830512 AATAAAATATAAATATAAATATAAAAT
1 AATAAAACATAAATACAAATATAAAAT
15830539 ACAAAATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (29 bp):
AATAAAACATAAATACAAATATAAAATTA
Found at i:15830525 original size:6 final size:6
Alignment explanation
Indices: 15830501--15830536 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15830491 ATAAGATACA
15830501 AAATA- AAAT-T AAATA- AAATAT AAATAT AAATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAA
15830537 ATACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 13 0.46
6 15 0.54
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAATAT
Found at i:15830533 original size:12 final size:11
Alignment explanation
Indices: 15830501--15830536 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
15830491 ATAAGATACA
15830501 AAATAAAAT-T
1 AAATAAAATAT
15830511 AAATAAAATAT
1 AAATAAAATAT
15830522 AAATATAAATAT
1 AAATA-AAATAT
15830534 AAA
1 AAA
15830537 ATACAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.38
11 6 0.25
12 9 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:15830538 original size:7 final size:7
Alignment explanation
Indices: 15830513--15830553 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
15830503 ATAAAATTAA
15830513 ATAAAAT
1 ATAAAAT
15830520 AT-AAAT
1 ATAAAAT
15830526 AT-AAAT
1 ATAAAAT
15830532 ATAAAAT
1 ATAAAAT
*
15830539 ACAAAAT
1 ATAAAAT
*
15830546 ACAAAAT
1 ATAAAAT
15830553 A
1 A
15830554 AAATGAGCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.38
7 20 0.62
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAAAT
Found at i:15830556 original size:19 final size:19
Alignment explanation
Indices: 15830479--15830557 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 19
15830469 ATAAATAAAT
*
15830479 AAATAATAAAACATAAGATAC
1 AAAT-ATAAAA-ATAAAATAC
* *
15830500 AAAATAAAATTAAATAAAATAT
1 -AAATATAA--AAATAAAATAC
*
15830522 AAATATAAATATAAAATAC
1 AAATATAAAAATAAAATAC
15830541 AAA-ATACAAAATAAAAT
1 AAATATA-AAAATAAAAT
15830558 GAGCCTACCC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.06
19 21 0.45
21 10 0.21
22 11 0.23
23 2 0.04
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.23
Consensus pattern (19 bp):
AAATATAAAAATAAAATAC
Found at i:15832122 original size:36 final size:34
Alignment explanation
Indices: 15832082--15832163 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 34
15832072 TTGTTATAAT
*
15832082 TTTTTTCATGATTTTCATTATGATATTATTGCATGA
1 TTTTTTCATGATTTTCATTA-GATATT-TTACATGA
* * *
15832118 TTTTTACATGATTTTTATTAGGTATTTTACATGA
1 TTTTTTCATGATTTTCATTAGATATTTTACATGA
15832152 TTTTATT-ATGAT
1 TTTT-TTCATGAT
15832164 ATATATCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 16 0.40
35 6 0.15
36 18 0.45
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (34 bp):
TTTTTTCATGATTTTCATTAGATATTTTACATGA
Found at i:15834964 original size:20 final size:20
Alignment explanation
Indices: 15834932--15834970 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15834922 TTATAGTTTC
*
15834932 TTTTATTATTTTTTTATTCT
1 TTTTATTATTTTTTAATTCT
15834952 TTTTAGTTA-TTTTTAATTC
1 TTTTA-TTATTTTTTAATTC
15834971 AAGGCTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATTATTTTTTAATTCT
Found at i:15835087 original size:21 final size:19
Alignment explanation
Indices: 15835054--15835109 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 19
15835044 ATTTAGTTTC
15835054 TTTCAAGTTAATTTAAATT
1 TTTCAAGTTAATTTAAATT
*
15835073 TTTACAAGTTTAATTTAAGTT
1 TTT-CAAG-TTAATTTAAATT
*
15835094 TTTCAAG-AAATTTAAA
1 TTTCAAGTTAATTTAAA
15835110 ATTTGTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 7 0.22
19 3 0.09
20 8 0.25
21 14 0.44
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (19 bp):
TTTCAAGTTAATTTAAATT
Found at i:15840984 original size:19 final size:19
Alignment explanation
Indices: 15840942--15840985 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15840932 CGAGAAGATT
15840942 TTCCTAGGTTGACTAGGAA
1 TTCCTAGGTTGACTAGGAA
* * * *
15840961 ATCCTAGGTTTACTTGGCA
1 TTCCTAGGTTGACTAGGAA
15840980 TTCCTA
1 TTCCTA
15840986 CCTAGTGTAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (19 bp):
TTCCTAGGTTGACTAGGAA
Found at i:15841752 original size:20 final size:19
Alignment explanation
Indices: 15841725--15841784 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
15841715 ATTCAGTTTC
15841725 TTTT-AAGTTAATTTAAAT
1 TTTTCAAGTTAATTTAAAT
**
15841743 TTTTGCAAGTTTAATTTAAGC
1 TTTT-CAAG-TTAATTTAAAT
*
15841764 TTTTCAAG-CAATTTAAAT
1 TTTTCAAGTTAATTTAAAT
15841782 TTT
1 TTT
15841785 GTTTTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 14 0.41
20 7 0.21
21 13 0.38
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (19 bp):
TTTTCAAGTTAATTTAAAT
Found at i:15841767 original size:21 final size:20
Alignment explanation
Indices: 15841724--15841771 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
15841714 AATTCAGTTT
15841724 CTTTT-AAG-TTAATTTAAA
1 CTTTTCAAGTTTAATTTAAA
* *
15841742 TTTTTGCAAGTTTAATTTAAG
1 CTTTT-CAAGTTTAATTTAAA
15841763 CTTTTCAAG
1 CTTTTCAAG
15841772 CAATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
20 7 0.29
21 13 0.54
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (20 bp):
CTTTTCAAGTTTAATTTAAA
Found at i:15844647 original size:19 final size:20
Alignment explanation
Indices: 15844620--15844665 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15844610 TGGTTGTGAT
*
15844620 TTTTTAATGGTTT-ATTAAA
1 TTTTCAATGGTTTGATTAAA
* *
15844639 TTTTCAATGTTTTGATTTAA
1 TTTTCAATGGTTTGATTAAA
15844659 TTTTCAA
1 TTTTCAA
15844666 AAAAAATGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (20 bp):
TTTTCAATGGTTTGATTAAA
Found at i:15844908 original size:23 final size:23
Alignment explanation
Indices: 15844882--15844928 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15844872 TTTTGGCACA
15844882 TGCATTCATTAATGATATTTTTG
1 TGCATTCATTAATGATATTTTTG
15844905 TGCATTCATTAATGATATTTTTG
1 TGCATTCATTAATGATATTTTTG
15844928 T
1 T
15844929 AATTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.53
Consensus pattern (23 bp):
TGCATTCATTAATGATATTTTTG
Found at i:15845019 original size:24 final size:24
Alignment explanation
Indices: 15844991--15845041 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
15844981 TCCAGACTTG
15844991 AAACCCCAAATTCC-ATCAAACCCT
1 AAACCCCAAA-TCCTATCAAACCCT
** *
15845015 AAACCGTAAATCCTATGAAACCCT
1 AAACCCCAAATCCTATCAAACCCT
15845039 AAA
1 AAA
15845042 TCAAAACCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.45, C:0.33, G:0.04, T:0.18
Consensus pattern (24 bp):
AAACCCCAAATCCTATCAAACCCT
Found at i:15846259 original size:25 final size:23
Alignment explanation
Indices: 15846207--15846260 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
15846197 TGTGTGTTTT
15846207 GCATTTCATGCATTTTTTAATTG
1 GCATTTCATGCATTTTTTAATTG
* *
15846230 TCATTTCATGCATATTTTTATTATG
1 GCATTTCATGCAT-TTTTTAAT-TG
15846255 GCATTT
1 GCATTT
15846261 ATTATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 12 0.46
24 7 0.27
25 7 0.27
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (23 bp):
GCATTTCATGCATTTTTTAATTG
Found at i:15850393 original size:17 final size:17
Alignment explanation
Indices: 15850354--15850386 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15850344 AAATGCCTTG
15850354 AAAAAAGAAAAAAAATT
1 AAAAAAGAAAAAAAATT
*
15850371 AAAAAAGAAGAAAAAT
1 AAAAAAGAAAAAAAAT
15850387 AGAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAAAGAAAAAAAATT
Found at i:15851063 original size:14 final size:14
Alignment explanation
Indices: 15851046--15851115 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
15851036 AAAGGCATGC
15851046 AAAGAAAAAAAAGA
1 AAAGAAAAAAAAGA
*** *
15851060 AAAGAGGGAAAATA
1 AAAGAAAAAAAAGA
*
15851074 AAAG-AAAAAAATA
1 AAAGAAAAAAAAGA
15851087 AAAGAAAAAAAAAGA
1 AAAG-AAAAAAAAGA
15851102 AAGAGATAAAAAAA
1 AA-AGA-AAAAAAA
15851116 AAGGAGGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 10 0.23
14 14 0.32
15 11 0.25
16 9 0.20
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAGAAAAAAAAGA
Found at i:15851086 original size:13 final size:13
Alignment explanation
Indices: 15851068--15851097 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
15851058 GAAAAGAGGG
15851068 AAAATAAAAGAAA
1 AAAATAAAAGAAA
15851081 AAAATAAAAGAAA
1 AAAATAAAAGAAA
15851094 AAAA
1 AAAA
15851098 AAGAAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAATAAAAGAAA
Found at i:15851093 original size:23 final size:23
Alignment explanation
Indices: 15851067--15851117 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
15851057 AGAAAAGAGG
*
15851067 GAAAATAAAAGAAAAAAATAAAA
1 GAAAAAAAAAGAAAAAAATAAAA
* *
15851090 GAAAAAAAAAGAAAGAGATAAAA
1 GAAAAAAAAAGAAAAAAATAAAA
15851113 -AAAAA
1 GAAAAA
15851118 GGAGGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (23 bp):
GAAAAAAAAAGAAAAAAATAAAA
Found at i:15851112 original size:13 final size:11
Alignment explanation
Indices: 15851068--15851117 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 11
15851058 GAAAAGAGGG
15851068 AAAATAAAAGAAA
1 AAAATAAAAG--A
15851081 AAAATAAAAGA
1 AAAATAAAAGA
15851092 AAAA-AAAAGA
1 AAAATAAAAGA
15851102 AAGAGATAAAA-A
1 AA-A-ATAAAAGA
15851114 AAAA
1 AAAA
15851118 GGAGGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.26
11 7 0.21
12 4 0.12
13 14 0.41
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAATAAAAGA
Done.