Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 78 of 125
Found at i:15657074 original size:32 final size:32
Alignment explanation
Indices: 15657033--15657093 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
15657023 ATTACATAAT
15657033 ATCTATATATGTATGTATATATATATATACAC
1 ATCTATATATGTATGTATATATATATATACAC
15657065 ATCTATATATGTATGTATATATATATATA
1 ATCTATATATGTATGTATATATATATATA
15657094 TACACACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (32 bp):
ATCTATATATGTATGTATATATATATATACAC
Found at i:15665176 original size:21 final size:21
Alignment explanation
Indices: 15665152--15665210 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 21
15665142 CACTGTTATA
15665152 ATAATTAATTTTATTTTCATC
1 ATAATTAATTTTATTTTCATC
*
15665173 ATAA-T--TTTTAATTTCATC
1 ATAATTAATTTTATTTTCATC
*
15665191 A-AATTAATCTTATTGTTCAT
1 ATAATTAATTTTATT-TTCAT
15665211 TTAAATAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.06
18 14 0.45
20 6 0.19
21 9 0.29
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (21 bp):
ATAATTAATTTTATTTTCATC
Found at i:15669373 original size:5 final size:5
Alignment explanation
Indices: 15669368--15669403 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
15669358 TCTTTATTTT
*
15669368 CCTTT CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC C
1 CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC C
15669404 TTTCAATCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
CCTTC
Found at i:15676889 original size:11 final size:11
Alignment explanation
Indices: 15676873--15676912 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
15676863 AATAAGAATA
15676873 ATAAATATAAC
1 ATAAATATAAC
*
15676884 ATAAATAAAATC
1 ATAAATATAA-C
15676896 ATAAATATAAC
1 ATAAATATAAC
*
15676907 ACAAAT
1 ATAAAT
15676913 GAAAACTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (11 bp):
ATAAATATAAC
Found at i:15676903 original size:23 final size:23
Alignment explanation
Indices: 15676863--15676917 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
15676853 ACATTAATTT
*
15676863 AATAAGAATAATAAATATAACATA
1 AATAA-AATAATAAATATAACACA
*
15676887 AATAAAATCATAAATATAACACA
1 AATAAAATAATAAATATAACACA
15676910 AATGAAAA
1 AAT-AAAA
15676918 CTTATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (23 bp):
AATAAAATAATAAATATAACACA
Found at i:15678023 original size:16 final size:16
Alignment explanation
Indices: 15678004--15678043 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15677994 GCTCAAACTT
15678004 AAAATAACTCAAATCC
1 AAAATAACTCAAATCC
* **
15678020 AAAATGACTTGAATCC
1 AAAATAACTCAAATCC
15678036 AAAATAAC
1 AAAATAAC
15678044 CTGAACCGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAATAACTCAAATCC
Found at i:15678048 original size:16 final size:16
Alignment explanation
Indices: 15678015--15678048 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15678005 AAATAACTCA
* *
15678015 AATCCAAAATGACTTG
1 AATCCAAAATAACCTG
15678031 AATCCAAAATAACCTG
1 AATCCAAAATAACCTG
15678047 AA
1 AA
15678049 CCGAAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (16 bp):
AATCCAAAATAACCTG
Found at i:15678310 original size:2 final size:2
Alignment explanation
Indices: 15678299--15678328 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15678289 ATATTTGTAA
15678299 AT AT -T 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 A
15678329 AGAGTGACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15678479 original size:2 final size:2
Alignment explanation
Indices: 15678472--15678502 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15678462 AATCACTGCT
15678472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15678503 TAGTTGAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15684895 original size:28 final size:25
Alignment explanation
Indices: 15684835--15684897 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 25
15684825 TCAAAAAATA
*
15684835 TAAAAAAATATAAATTTTAAATGTT
1 TAAAAAAATATAAATTTTAAATATT
15684860 TAAAAAAATGATATAATTTTGAAATATT
1 TAAAAAAAT-ATA-AATTTT-AAATATT
15684888 TCATAAAAAA
1 T-A-AAAAAA
15684898 AAAAAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 9 0.28
26 3 0.09
27 6 0.19
28 7 0.22
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (25 bp):
TAAAAAAATATAAATTTTAAATATT
Found at i:15685957 original size:22 final size:22
Alignment explanation
Indices: 15685923--15685964 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15685913 GTCAAACCCC
**
15685923 AGAAAAATTAAAAAAAAAAAAA
1 AGAAAAAACAAAAAAAAAAAAA
*
15685945 AGAAAAAACAAAAACAAAAA
1 AGAAAAAACAAAAAAAAAAA
15685965 CCAAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.05
Consensus pattern (22 bp):
AGAAAAAACAAAAAAAAAAAAA
Found at i:15688521 original size:29 final size:29
Alignment explanation
Indices: 15688484--15688543 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
15688474 TTTATCCTTA
* * *
15688484 TTTATAATTTATATATCATATGAAAAATT
1 TTTAAAATTTAAATAGCATATGAAAAATT
*
15688513 TTTAAAATTTAAATAGCATATTAAAAATT
1 TTTAAAATTTAAATAGCATATGAAAAATT
15688542 TT
1 TT
15688544 ATTTCACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTAAAATTTAAATAGCATATGAAAAATT
Found at i:15688930 original size:22 final size:22
Alignment explanation
Indices: 15688898--15688947 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
15688888 CACGTAGTAT
15688898 TATTTAGATTT-GATCATTTATA
1 TATTTAGATTTAGATCATTT-TA
* * *
15688920 TATTTATATTTATATTATTTTA
1 TATTTAGATTTAGATCATTTTA
15688942 TATTTA
1 TATTTA
15688948 ATATCTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTTAGATTTAGATCATTTTA
Found at i:15688941 original size:16 final size:14
Alignment explanation
Indices: 15688913--15688956 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 14
15688903 AGATTTGATC
15688913 ATTTATATATTTAT
1 ATTTATATATTTAT
15688927 ATTTATATTATTTTAT
1 ATTTATA-TA-TTTAT
*
15688943 ATTTA-ATATCTAT
1 ATTTATATATTTAT
15688956 A
1 A
15688957 AAATATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.19
14 9 0.33
15 3 0.11
16 10 0.37
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTATATATTTAT
Found at i:15688951 original size:23 final size:23
Alignment explanation
Indices: 15688913--15688956 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15688903 AGATTTGATC
*
15688913 ATTTATATATTTATATTTATATT
1 ATTTATATATTTATATCTATATT
15688936 ATTT-TATATTTAATATCTATA
1 ATTTATATATTT-ATATCTATA
15688957 AAATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTATATATTTATATCTATATT
Found at i:15690130 original size:26 final size:25
Alignment explanation
Indices: 15690096--15690161 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 25
15690086 AATAATGCTC
15690096 TTTTTATCATAATTATTG-AAATATCT
1 TTTTTATCATAATTA-TGAAAATAT-T
15690122 TTTTTATCATAATTATGAAAATATT
1 TTTTTATCATAATTATGAAAATATT
*
15690147 TTTTTATTATAATTA
1 TTTTTATCATAATTA
15690162 ATCAAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (25 bp):
TTTTTATCATAATTATGAAAATATT
Found at i:15690168 original size:26 final size:26
Alignment explanation
Indices: 15690096--15690169 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
15690086 AATAATGCTC
**
15690096 TTTTTATCATAATTATTGAAATATCT
1 TTTTTATCATAATTATCAAAATATCT
*
15690122 TTTTTATCATAATTATGAAAATAT-T
1 TTTTTATCATAATTATCAAAATATCT
*
15690147 TTTTTATTATAATTAATCAAAAT
1 TTTTTATCATAATT-ATCAAAAT
15690170 TATTAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.33
26 29 0.67
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (26 bp):
TTTTTATCATAATTATCAAAATATCT
Found at i:15702259 original size:10 final size:11
Alignment explanation
Indices: 15702233--15702260 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15702223 TTACGATAAA
15702233 ATTTTTTATTT
1 ATTTTTTATTT
15702244 ATTTTTTATTT
1 ATTTTTTATTT
15702255 ATTTTT
1 ATTTTT
15702261 CTTATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:15708054 original size:16 final size:16
Alignment explanation
Indices: 15708014--15708048 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15708004 CAAGTTCCAA
* *
15708014 AATATTTCACAAAATT
1 AATATATCATAAAATT
15708030 AATATATCATAAAATT
1 AATATATCATAAAATT
15708046 AAT
1 AAT
15708049 GAATCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATATCATAAAATT
Found at i:15709347 original size:2 final size:2
Alignment explanation
Indices: 15709335--15709365 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15709325 ACAAGTTCTC
*
15709335 AT AT GT 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 A
15709366 AAACAATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15711635 original size:18 final size:18
Alignment explanation
Indices: 15711607--15711852 Score: 142
Period size: 18 Copynumber: 12.7 Consensus size: 18
15711597 TTACTTATAT
15711607 ATAATATAATATAATATTA
1 ATAA-ATAATATAATATTA
*
15711626 ATAAATAATATATTATTA
1 ATAAATAATATAATATTA
*
15711644 ACATAATACA-AT-ATATTA
1 ATA-AATA-ATATAATATTA
* * *
15711662 ATAAAAAATGTTGTAATATATTC
1 ATAAATAA---TAT-A-ATATTA
* *
15711685 ATAAAAAATATTATATTA
1 ATAAATAATATAATATTA
*
15711703 ATAAAGAATATTATTATATATTA
1 AT--A-AATAATA-TA-ATATTA
15711726 ATAAATAATATAATATTA
1 ATAAATAATATAATATTA
*
15711744 ATAAATATTATTAACTTAATTA
1 ATAAATAATA-TAA--T-ATTA
*
15711766 ATAAATATTGTAATAATATATGA
1 ATAAATA--AT-ATAATAT-T-A
*
15711789 ATAAATAATATATTATTA
1 ATAAATAATATAATATTA
15711807 ATAAATAATATAATA-T-
1 ATAAATAATATAATATTA
* *
15711823 ATTAATAA-ATATTATTA
1 ATAAATAATATAATATTA
15711840 ATAAATAATATAA
1 ATAAATAATATAA
15711853 AGAATAACAA
Statistics
Matches: 178, Mismatches: 23, Indels: 53
0.70 0.09 0.21
Matches are distributed among these distances:
15 5 0.03
16 9 0.05
17 11 0.06
18 62 0.35
19 16 0.09
20 17 0.10
21 10 0.06
22 14 0.08
23 29 0.16
24 4 0.02
25 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAAATAATATAATATTA
Found at i:15711637 original size:23 final size:23
Alignment explanation
Indices: 15711607--15711846 Score: 86
Period size: 23 Copynumber: 10.7 Consensus size: 23
15711597 TTACTTATAT
15711607 ATAATATAATATAATATTAATAA
1 ATAATATAATATAATATTAATAA
* *
15711630 ATAATATATTATTAACA-TAATACA
1 ATAATATAATA-TAATATTAATA-A
* * **
15711654 AT-ATATTAATAAAAAATGTTGTAA
1 ATAATA-TAATATAATAT-TAATAA
* * *
15711678 TATATTCATAA-AAAATATTATATTA
1 -ATAAT-ATAATATAATATTA-ATAA
*
15711703 ATAA-AGAATAT--TATTATATATTA
1 ATAATATAATATAATATTA-ATA--A
15711726 ATAA-ATAATATAATATTAATAA
1 ATAATATAATATAATATTAATAA
*
15711748 ATATTATTAACT-T-A-ATTAATAA
1 ATAATA-TAA-TATAATATTAATAA
* * *
15711770 ATATTGT-A-ATAATA-T-ATGA
1 ATAATATAATATAATATTAATAA
*
15711789 ATAA-ATAATATATTATTAATAA
1 ATAATATAATATAATATTAATAA
15711811 ATAATAT-A-AT-ATATTAATAA
1 ATAATATAATATAATATTAATAA
*
15711831 ATATTATTAATA-AATA
1 ATAATA-TAATATAATA
15711847 ATATAAAGAA
Statistics
Matches: 162, Mismatches: 26, Indels: 58
0.66 0.11 0.24
Matches are distributed among these distances:
18 1 0.01
19 8 0.05
20 22 0.14
21 14 0.09
22 29 0.18
23 41 0.25
24 23 0.14
25 19 0.12
26 4 0.02
27 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATAATATAATATAATATTAATAA
Found at i:15711704 original size:41 final size:41
Alignment explanation
Indices: 15711655--15711748 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
15711645 CATAATACAA
* * *
15711655 TATATTAATAAAAAATGTTGTAATATATTCATAAAAAATAT
1 TATATTAATAAAAAATATTATAATATATTAATAAAAAATAT
* * *
15711696 TATATTAATAAAGAATATTATTATATATTAATAAATAATAT
1 TATATTAATAAAAAATATTATAATATATTAATAAAAAATAT
*
15711737 AATATTAATAAA
1 TATATTAATAAA
15711749 TATTATTAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (41 bp):
TATATTAATAAAAAATATTATAATATATTAATAAAAAATAT
Found at i:15711756 original size:41 final size:40
Alignment explanation
Indices: 15711677--15711839 Score: 134
Period size: 41 Copynumber: 4.0 Consensus size: 40
15711667 AAATGTTGTA
* * * *
15711677 ATATATTCATAAAAAATATTATATTAATAAAGAATATTATT
1 ATATATTAATAAATAATATAATATTAATAAA-TATATTATT
*
15711718 ATATATTAATAAATAATATAATATTAATAAATATTATTAACT
1 ATATATTAATAAATAATATAATATTAATAAATA-TATT-ATT
* * * * * *
15711760 -TA-ATTAATAAATATTGTAATAATATATGAATA-AATAAT
1 ATATATTAATAAATAATATAATATTA-ATAAATATATTATT
15711798 ATATTATTAATAAATAATATAATATATTAATAAATATTATTA
1 ATA-TATTAATAAATAATAT-A-ATATTAATAAATA-TATTA
15711840 ATAAATAATA
Statistics
Matches: 96, Mismatches: 16, Indels: 17
0.74 0.12 0.13
Matches are distributed among these distances:
38 2 0.02
39 4 0.04
40 20 0.21
41 53 0.55
42 9 0.09
43 5 0.05
44 3 0.03
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (40 bp):
ATATATTAATAAATAATATAATATTAATAAATATATTATT
Found at i:15711779 original size:12 final size:13
Alignment explanation
Indices: 15711764--15711846 Score: 54
Period size: 13 Copynumber: 6.7 Consensus size: 13
15711754 TTAACTTAAT
15711764 TAATAAATAT-TG
1 TAATAAATATATG
15711776 TAAT-AATATATG
1 TAATAAATATATG
*
15711788 -AATAAATAATATA
1 TAATAAAT-ATATG
* * *
15711801 TTATTAATA-A-A
1 TAATAAATATATG
15711812 TAATATAATATAT-
1 TAATA-AATATATG
15711825 TAATAAATATTAT-
1 TAATAAATA-TATG
15711838 TAATAAATA
1 TAATAAATA
15711847 ATATAAAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
11 12 0.21
12 18 0.31
13 23 0.40
14 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
TAATAAATATATG
Found at i:15711814 original size:33 final size:33
Alignment explanation
Indices: 15711718--15711851 Score: 136
Period size: 33 Copynumber: 4.2 Consensus size: 33
15711708 GAATATTATT
15711718 ATATATTAATAAATAATATAATATTAATAAAT-
1 ATATATTAATAAATAATATAATATTAATAAATA
* *
15711750 AT-TATTAACTTAATTAATA-AATATT-GT-AATA
1 ATATATTAA--TAAATAATATAATATTAATAAATA
* *
15711781 ATATATGAATAAATAATATATTATTAATAAATA
1 ATATATTAATAAATAATATAATATTAATAAATA
* * *
15711814 ATATAATATATTAATAA-ATATTATTAATAAATA
1 ATATATTA-ATAAATAATATAATATTAATAAATA
15711847 ATATA
1 ATATA
15711852 AAGAATAACA
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
30 11 0.13
31 14 0.16
32 14 0.16
33 39 0.46
34 7 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (33 bp):
ATATATTAATAAATAATATAATATTAATAAATA
Found at i:15711859 original size:63 final size:62
Alignment explanation
Indices: 15711679--15711852 Score: 180
Period size: 63 Copynumber: 2.8 Consensus size: 62
15711669 ATGTTGTAAT
* * * * * *
15711679 ATATTCATAAA-AA-ATATTATATTAATAAAGAATATTATTATATAT-TAATAAATAATATA
1 ATATTAATAAATAATATAATATATTAATAAATATTATTAATAAATATATAATAAATAATATA
* *
15711738 ATATTAATAAATATTATTAACT-TAATTAATAAATATT-GTAAT-AATATATGAATAAATAATAT
1 ATATTAATAAATAATA-TAA-TAT-ATTAATAAATATTATTAATAAATATAT-AATAAATAATAT
15711800 A
62 A
*
15711801 TTATTAATAAATAATATAATATATTAATAAATATTATTAATAAATAATATAA
1 ATATTAATAAATAATATAATATATTAATAAATATTATTAATAAAT-ATATAA
15711853 AGAATAACAA
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
59 10 0.11
60 1 0.01
61 19 0.20
62 15 0.16
63 44 0.47
64 4 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (62 bp):
ATATTAATAAATAATATAATATATTAATAAATATTATTAATAAATATATAATAAATAATATA
Found at i:15711944 original size:33 final size:30
Alignment explanation
Indices: 15711893--15711954 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
15711883 TTTTATATTT
15711893 ATATAATATTTTAATATTAAAAATTATTAAA
1 ATATAATATTTTAATATTAAAAATT-TTAAA
* *
15711924 ATATAATTCTTTTGAATATTAATAATTTTAA
1 ATATAA-TATTTT-AATATTAAAAATTTTAA
15711955 TGATAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 9 0.33
33 12 0.44
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (30 bp):
ATATAATATTTTAATATTAAAAATTTTAAA
Found at i:15711980 original size:26 final size:25
Alignment explanation
Indices: 15711944--15711993 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
15711934 TTTGAATATT
15711944 AATAATTTTAATGATAAATAATTTC
1 AATAATTTTAATGATAAATAATTTC
*
15711969 AATATATTTTAATTATAAATAATTT
1 AATA-ATTTTAATGATAAATAATTT
15711994 TTAATATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
AATAATTTTAATGATAAATAATTTC
Found at i:15713548 original size:234 final size:232
Alignment explanation
Indices: 15713026--15714913 Score: 960
Period size: 234 Copynumber: 8.0 Consensus size: 232
15713016 CAATTTACAT
* ***
15713026 CAAATAATACTAATTTTACATTTTTCTCACTTGTTTACGTTACC-A-TTATGTTCTTTAATTTTT
1 CAAATGATACTAATTTTATGCTTTTCTCACTTGTTTACGTTACCAATTTAT-TT-TTTAATTTTT
* * * * *
15713089 ATA-TATTTTTCTTACATATTTATAAAAATATAATTAATTAAAA-TTTATGTTGGT-AACTTATT
64 A-ACTA-TTTTCTTATATATTTA-AAAAAAATAATTAATTAAAATTTTA-CTT-GTCAACATAAT
** * * * * * ** *
15713151 TATTTACATTATAATAAT-TTTTTTATGATTGTTCCTACTTTTAATTATGTTTATAATTGTCATA
124 TATTTATGTTATAATAATATATATTAAGATTATTCTTACTTTCCATTATGTTTAGAATTGTCATA
* * * * * ** **
15713215 ACTTTTTCTTAGTGTATTACA-ACACTTTTTA-CCCATTTTAGGC
189 ACTCTTTCTTAGTATTTTA-AGAAACTTCTTATCATATTTTATAC
* * * *** * * * *
15713258 AAAATTATGCTAATTTTACATTTTTCTCACTTTTTTACATTATCTATTTATTTTTTAATTTTTAA
1 CAAATGATACTAATTTTATGCTTTTCTCACTTGTTTACGTTACCAATTTATTTTTTAATTTTTAA
* *
15713323 CTATTTCTCTTATATATTTAAAAAATAATAATTAGTTAAAATTTTACTTGCCAACATAATTATTT
66 CTATTT-TCTTATATATTTAAAAAA-AATAATTAATTAAAATTTTACTTGTCAACATAATTATTT
* * * * *
15713388 ATGTTATAGTAATATCATATTACAG-TTGTTTTTACCTTCCATTATGTTTAGAATTGTTATAACT
129 ATGTTATAATAATAT-ATATTA-AGATTATTCTTACTTTCCATTATGTTTAGAATTGTCATAACT
* *
15713452 CTTTCTTAGCATTTTATGAAACTTCTTA-CATATTTTATAC
192 CTTTCTTAGTATTTTAAGAAACTTCTTATCATATTTTATAC
* * * * * * *
15713492 AAAATGATGCTAATTTTATGCTTTTCTTACTTCTTTATGTTACCATTTTATTTTTTAATTTCTAA
1 CAAATGATACTAATTTTATGCTTTTCTCACTTGTTTACGTTACCAATTTATTTTTTAATTTTTAA
* * * * * * * *
15713557 CTATTTTC-CATAGGTATATGAAAAGAATAATTAGTTAAAATTTTATATTGTCATCATACTTATT
66 CTATTTTCTTATA--TATTTAAAAAAAATAATTAATTAAAATTTTA-CTTGTCAACATAATTATT
* * * * * * * **
15713621 TATATTATAATTATATATTTTAATGATTGTTCTTAATTTCAATTATGTTTAGAATTATCATAGTT
128 TATGTTATAATAATATATATTAA-GATTATTCTTACTTTCCATTATGTTTAGAATTGTCATAACT
* *** * * * *
15713686 CTTTCTTAGTGTACCATA-ACACTTTTTACCA-ATTTTACAC
192 CTTTCTTAGTATTTTA-AGAAACTTCTTATCATATTTTATAC
** * * * * * *
15713726 CATCTTATATTAA-TTT-T-CATTTCTCATTTGTTTACATTATCAATTTATTTTTTAATTTTTAA
1 CAAATGATACTAATTTTATGCTTTTCTCACTTGTTTACGTTACCAATTTATTTTTTAATTTTTAA
* * ** *
15713788 CTATTTT-TT-TTTATTTATAGGACTAATAATTAATTAAAATTTTACAATGTCAACATAATTATT
66 CTATTTTCTTATATATTTA-A-AAAAAATAATTAATTAAAATTTTAC-TTGTCAACATAATTATT
* * * * *
15713851 TGCT-TTACAATAATATATTCTTACA-ATTATTTTTACTTTCCATTATGTTTAAAATTGTCATAA
128 T-ATGTTATAATAATATA-TATTA-AGATTATTCTTACTTTCCATTATGTTTAGAATTGTCATAA
* * * * * * *
15713914 CTTTTTTTTAATATGTTACA-ACACCTCTTATC-TATTTTATGC
190 CTCTTTCTTAGTATTTTA-AGAAACTTCTTATCATATTTTATAC
* * *
15713956 CAAATAATACTAATTTTATG-TTTATGCTCACTTGTTTACATTACCAATTTATTTTTTAATTTCT
1 CAAATGATACTAATTTTATGCTTT-T-CTCACTTGTTTACGTTACCAATTTATTTTTTAATTTTT
* * * * *
15714020 AGCTATTTTCCTTAGATATTTACAAAACAATAATTAATTAAAATTTTACGTTGTCTATATAATTA
64 AACTATTTT-CTTATATATTTA-AAAAAAATAATTAATTAAAATTTTAC-TTGTCAACATAATTA
* * * * * ** *
15714085 TTTATATTATAATAATATATTATTATGATTGTTCGTACTTTTCATTACATTTAGAATTATCATAA
126 TTTATGTTATAATAATATA-TATTAAGATTATTCTTACTTTCCATTATGTTTAGAATTGTCATAA
* ** * * * **
15714150 CTCTTTTTTTTTATGTTTAAGATGA-TTCATA-CATAATTTATGT
190 CTCTTTCTTAGTAT-TTTAAGA-AACTTCTTATCATATTTTATAC
** *** * * *
15714193 TGAATGATACTAATTTTACATTTCTTCTAACTTATTTATGTTACCAATATGT-TTTTTTAATTTT
1 CAAATGATACTAATTTTATGCTT-TTCTCACTTGTTTACGTTACCAAT-T-TATTTTTTAATTTT
* * * * * ** *
15714257 TAGCTATTTTTTTATATGTTT--AAAAAATAATTAATTAAAATTTAAGTTGGAAACTTAATTATT
63 TAACTATTTTCTTATATATTTAAAAAAAATAATTAATTAAAATTTTACTTGTCAACATAATTATT
* * * * * * * *
15714320 TATGTTACAAGAAT-TTTTTTATGATTATTCTTACATTT-AATTACGTTCAGAATTG-CAATAAC
128 TATGTTATAATAATATATATTAAGATTATTCTTAC-TTTCCATTATGTTTAGAATTGTC-ATAAC
* ** * * *
15714382 TCTTTTTTAGT-TTATTAAGATATTTTTTTATC-CATTTTACAC
191 TCTTTCTTAGTATT-TTAAGA-AACTTCTTATCATATTTTATAC
* * * ** * * *
15714424 CAAATGATACTCATTTTAAGTTTTTTCTTGCTTTTTTACGTTACCCATTTATTTTTCAATTTTTA
1 CAAATGATACTAATTTTATG-CTTTTCTCACTTGTTTACGTTACCAATTTATTTTTTAATTTTTA
* * * * *
15714489 GCTATTTTTCTTATATATTTTTAAAGAAATAATTAGTTAAAATTTTA-TAT-TACTAATATAATT
65 ACTA-TTTTCTTATATA-TTTAAAAAAAATAATTAATTAAAATTTTACT-TGT-C-AACATAATT
* * * * * * * **
15714552 ATTTACGCTATAATAATATTTTCTTATGATTATTTTTACCTTATATTATGTTTAGAATTGTCATA
125 ATTTATGTTATAATAATA-TATATTAAGATTATTCTTACTTTCCATTATGTTTAGAATTGTCATA
* * * ** *
15714617 ACTCTTTCTTAGTA-TGTAATGACACTTTTTA-CCGATTTTATGC
189 ACTCTTTCTTAGTATTTTAA-GAAACTTCTTATCATATTTTATAC
* * * * * * * * * * *
15714660 CAAATAACACTAATTTTATGTTTCTTCCCATTTTTTTATGTTATCAAATGATTTTTTAATTTATA
1 CAAATGATACTAATTTTATGCTT-TTCTCACTTGTTTACGTTACCAATTTATTTTTTAATTTTTA
**
15714725 GTTATTTTCTTTATATATATATATATATGCAAAAGAATAATTAATTAAAATTTAATA-TTGT-AA
65 ACTATTTTC--T-TATATAT-T-TA-A---AAAA-AATAATTAATTAAAATTT--TACTTGTCAA
* * * *** * * **
15714788 TCATAATTATTTATATTACAATAATATATTTTTCCATTTGTTCTTACTTT-TAAAATGTTTAGAA
118 -CATAATTATTTATGTTATAATAATATATATTAAGA-TTATTCTTACTTTCCATTATGTTTAGAA
* * * * * * * **
15714852 TTATCATAATTCTTTTCTTAATATATTATGACACTTCTTACCA-ATTTTATGT
181 TTGTCATAACTC-TTTCTTAGTATTTTAAGAAACTTCTTATCATATTTTATAC
15714904 CAAATGATAC
1 CAAATGATAC
15714914 AAATATTACA
Statistics
Matches: 1276, Mismatches: 296, Indels: 156
0.74 0.17 0.09
Matches are distributed among these distances:
228 4 0.00
229 3 0.00
230 141 0.11
231 156 0.12
232 119 0.09
233 64 0.05
234 314 0.25
235 33 0.03
236 166 0.13
237 116 0.09
238 34 0.03
239 3 0.00
240 1 0.00
243 32 0.03
244 82 0.06
245 4 0.00
246 4 0.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (232 bp):
CAAATGATACTAATTTTATGCTTTTCTCACTTGTTTACGTTACCAATTTATTTTTTAATTTTTAA
CTATTTTCTTATATATTTAAAAAAAATAATTAATTAAAATTTTACTTGTCAACATAATTATTTAT
GTTATAATAATATATATTAAGATTATTCTTACTTTCCATTATGTTTAGAATTGTCATAACTCTTT
CTTAGTATTTTAAGAAACTTCTTATCATATTTTATAC
Found at i:15725751 original size:22 final size:22
Alignment explanation
Indices: 15725726--15725770 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
15725716 ATAAATATTT
15725726 TAAAT-AAAATATAAAAATTAAA
1 TAAATCAAAATA-AAAAATTAAA
*
15725748 TAAATCAAAATAAATAATTAAA
1 TAAATCAAAATAAAAAATTAAA
15725770 T
1 T
15725771 TTATTACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATCAAAATAAAAAATTAAA
Found at i:15729044 original size:17 final size:17
Alignment explanation
Indices: 15729022--15729072 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
15729012 TTAGGTTCAA
15729022 ATTTTTATTTTTAGAAT
1 ATTTTTATTTTTAGAAT
*
15729039 ATTTTTATTTTTTAGTA-
1 ATTTTTA-TTTTTAGAAT
*
15729056 ATTGTTATTTTTAGAAT
1 ATTTTTATTTTTAGAAT
15729073 GTTCTAGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.28
17 13 0.45
18 8 0.28
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (17 bp):
ATTTTTATTTTTAGAAT
Found at i:15732233 original size:19 final size:19
Alignment explanation
Indices: 15732209--15732308 Score: 84
Period size: 19 Copynumber: 5.4 Consensus size: 19
15732199 AAAATTACTC
*
15732209 AAATAAAAATAAAGTCAAA
1 AAATAAAAATAAAATCAAA
* *
15732228 AAATAATAA-AAAA-CTAA
1 AAATAAAAATAAAATCAAA
*
15732245 AACT-AAAATAAAAT-AAA
1 AAATAAAAATAAAATCAAA
*
15732262 CTTAA-AAAAATAAAATCAAA
1 --AAATAAAAATAAAATCAAA
*
15732282 AAATAAAAATAAAATAAAA
1 AAATAAAAATAAAATCAAA
*
15732301 AAAGAAAA
1 AAATAAAA
15732309 CTTGCGATCG
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
16 3 0.05
17 12 0.19
18 5 0.08
19 40 0.63
20 3 0.05
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (19 bp):
AAATAAAAATAAAATCAAA
Found at i:15732270 original size:13 final size:14
Alignment explanation
Indices: 15732213--15732289 Score: 56
Period size: 13 Copynumber: 5.7 Consensus size: 14
15732203 TTACTCAAAT
*
15732213 AAAAATAAAGTC-A
1 AAAAATAAAATCAA
15732226 AAAAAT--AAT-AA
1 AAAAATAAAATCAA
* *
15732237 AAAACTAAAACTAAA
1 AAAAATAAAA-TCAA
* *
15732252 ATAAAATAAACTTAA
1 A-AAAATAAAATCAA
15732267 AAAAATAAAATC-A
1 AAAAATAAAATCAA
15732280 AAAAATAAAA
1 AAAAATAAAA
15732290 ATAAAATAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
11 8 0.16
13 19 0.37
14 10 0.20
15 7 0.14
16 7 0.14
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.17
Consensus pattern (14 bp):
AAAAATAAAATCAA
Found at i:15733148 original size:18 final size:18
Alignment explanation
Indices: 15733127--15733199 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
15733117 AACAAAAAAA
*
15733127 AATATAATGTACTATAAC
1 AATATAATATACTATAAC
* *
15733145 AATATCATATACTATAAT
1 AATATAATATACTATAAC
* *
15733163 AATAATATTATAGTAATAA-
1 AAT-ATAATATACT-ATAAC
*
15733182 AATAATAATATAATATAA
1 AAT-ATAATATACTATAA
15733200 TATACTATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 22 0.49
19 19 0.42
20 4 0.09
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (18 bp):
AATATAATATACTATAAC
Found at i:15733166 original size:3 final size:3
Alignment explanation
Indices: 15733158--15733264 Score: 76
Period size: 3 Copynumber: 39.7 Consensus size: 3
15733148 ATCATATACT
* *
15733158 ATA ATA ATA AT- ATT ATA GTA ATA A-A ATA ATA AT- ATA AT- ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15733201 ATA CT- ATA ATA ATA AT- ATT ATA GTA ATA A-A ATA ATA AT- ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
15733244 ATA AT- ATA CT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
15733265 GTAATACTAG
Statistics
Matches: 82, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
2 22 0.27
3 60 0.73
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:15733194 original size:5 final size:5
Alignment explanation
Indices: 15733145--15733270 Score: 108
Period size: 5 Copynumber: 23.8 Consensus size: 5
15733135 GTACTATAAC
* * * *
15733145 AATAT CATAT ACTAT AATAAT AATAT TATAGT AATAA AATAAT AATAT
1 AATAT AATAT AATAT AAT-AT AATAT AATA-T AATAT AAT-AT AATAT
* * *
15733193 AATAT AATAT ACTAT AATAAT AATAT TATAGT AATAA AATAAT AATAT
1 AATAT AATAT AATAT AAT-AT AATAT AATA-T AATAT AAT-AT AATAT
* *
15733241 AATAT AATAT ACTAT AATAAT AATGT AATA
1 AATAT AATAT AATAT AAT-AT AATAT AATA
15733271 CTAGTACATA
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
5 65 0.68
6 31 0.32
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:15733285 original size:48 final size:48
Alignment explanation
Indices: 15733145--15733264 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
15733135 GTACTATAAC
*
15733145 AATATCATATACTATAATAATAATATTATAGTAATAAAATAATAATAT
1 AATATAATATACTATAATAATAATATTATAGTAATAAAATAATAATAT
15733193 AATATAATATACTATAATAATAATATTATAGTAATAAAATAATAATAT
1 AATATAATATACTATAATAATAATATTATAGTAATAAAATAATAATAT
15733241 AATATAATATACTATAATAATAAT
1 AATATAATATACTATAATAATAAT
15733265 GTAATACTAG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (48 bp):
AATATAATATACTATAATAATAATATTATAGTAATAAAATAATAATAT
Found at i:15733738 original size:56 final size:56
Alignment explanation
Indices: 15733491--15733739 Score: 170
Period size: 56 Copynumber: 4.5 Consensus size: 56
15733481 TCAAACGATC
* * * * **
15733491 GAGATTTAATCACAAGTCTGAAGAACTGACCTAGATCGAGTCGAGGTCAAATGACT
1 GAGATTGAATCATAAGTCTGAAAAATTGACCTAGATCGAGTCGAGGTCAAACAACT
** * * * * *
15733547 -AGGATTGAGCCACT-AGTTTGGAAAATTGACCTAGGTTGAGTCGAGGTCAAACGA-T
1 GA-GATTGAATCA-TAAGTCTGAAAAATTGACCTAGATCGAGTCGAGGTCAAACAACT
* * * * * * * *
15733602 CGAGATTGAATCGTAAATATG-AAAATTGATCTAGA-CGAAGTCAAGATCGAAAGATC-
1 -GAGATTGAATCATAAGTCTGAAAAATTGACCTAGATCG-AGTCGAGGTC-AAACAACT
* * *
15733658 GAGATT-AAACTATAAGTCTAAAAAATTAACCTAGATCGAGTCGAGGTCAAACAACT
1 GAGATTGAATC-ATAAGTCTGAAAAATTGACCTAGATCGAGTCGAGGTCAAACAACT
*
15733714 GGGATTGAATCATAAGTCTGAAAAAT
1 GAGATTGAATCATAAGTCTGAAAAAT
15733740 AATCTGGTCG
Statistics
Matches: 142, Mismatches: 38, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
54 4 0.03
55 39 0.27
56 93 0.65
57 6 0.04
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (56 bp):
GAGATTGAATCATAAGTCTGAAAAATTGACCTAGATCGAGTCGAGGTCAAACAACT
Found at i:15733874 original size:57 final size:57
Alignment explanation
Indices: 15733715--15733892 Score: 146
Period size: 57 Copynumber: 3.2 Consensus size: 57
15733705 CAAACAACTG
* * * * ** * *
15733715 GGATTGAATCATAAGTCT-GAAAAA-TAATCTGGTCGGAGTCGAGATCAAATGATCA
1 GGATTGAATCATGAGTCTAGAAAAACTAACCTAGACTAAGTCAAGGTCAAATGATCA
* * * * * * * *
15733770 GGATTGAATCATGAGTTTGGAAAAACTGACTTGGATTGAGTCAAGGTCAAATGATCG
1 GGATTGAATCATGAGTCTAGAAAAACTAACCTAGACTAAGTCAAGGTCAAATGATCA
** *
15733827 GGATTGAA-CTATGAGTCTAGAAAAACTAACCTAGACTAAGTTGAGGTCAAATGACCA
1 GGATTGAATC-ATGAGTCTAGAAAAACTAACCTAGACTAAGTCAAGGTCAAATGATCA
*
15733884 TGATTGAAT
1 GGATTGAAT
15733893 TGCGAGTCTA
Statistics
Matches: 96, Mismatches: 23, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
55 16 0.17
56 7 0.07
57 73 0.76
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.26
Consensus pattern (57 bp):
GGATTGAATCATGAGTCTAGAAAAACTAACCTAGACTAAGTCAAGGTCAAATGATCA
Found at i:15737520 original size:298 final size:299
Alignment explanation
Indices: 15736978--15737589 Score: 1109
Period size: 298 Copynumber: 2.0 Consensus size: 299
15736968 ATAGGTCTTA
*
15736978 CTTAACCCTATCAAAGGCTTCTTGACATTCTATATTCCATTCGTCGGGATCATTCTTTCGGTGGA
1 CTTAA-CCTATCAAAGGCTTCTTGACATTCTATATTCCATTCGTCGGGATCATTCTTTCGGAGGA
* *
15737043 CCTTAAAGATGGGGTCACATTTGCAAGTGAGTTGAGAAATGAATTGGGATATATAGTTCAATCTA
65 CCTTAAAGATGAGGTCACATTTGCAAGTGAGTTAAGAAATGAATTGGGATATATAGTTCAATCTA
15737108 CTTAAGAAACCTCAAACTTCTTTTTGTGTGCTTGGAGGGGATAAGTTTTAAATGACCCTAATTTT
130 CTTAAGAAACCTCAAACTTCTTTTTGTGTGCTTGGAGGGGATAAGTTTTAAATGACCCTAATTTT
15737173 GTCCGGATCAACTTTTATCCCTTTTTCACTGACTATAAATCCCAATAGTTGCCTAACCTAGCTCT
195 GTCCGGATCAACTTTTATCCCTTTTTCACTGACTATAAATCCCAATAGTTGCCTAACCTAGCTCT
*
15737238 GAACATACATTTGGATAGATTTAGCTTGAGCTAAAACTTC
260 GAACATACATTTGGATAGATTCAGCTTGAGCTAAAACTTC
* *
15737278 CTT-ACCTATCAAAGGCTTTTTGACATTCTATATTCCATTCGTCGGGATCATTCTTTCGGAGGAG
1 CTTAACCTATCAAAGGCTTCTTGACATTCTATATTCCATTCGTCGGGATCATTCTTTCGGAGGAC
15737342 CTTAAAGATGAGGTCACATTTGCAAGTGAGTTAAGAAATGAATTGGGATATATAGTTCAATCTAC
66 CTTAAAGATGAGGTCACATTTGCAAGTGAGTTAAGAAATGAATTGGGATATATAGTTCAATCTAC
*
15737407 TTAAGAAACCTCAAACTTCTTTTTGTGTGCTTGGAGGGGATAAGTTTTGAATGACCCTAATTTTG
131 TTAAGAAACCTCAAACTTCTTTTTGTGTGCTTGGAGGGGATAAGTTTTAAATGACCCTAATTTTG
*
15737472 TCCGGATCAACTTTTATCCCTTTTTCACTGACTATAAATCCCAATAGTTGCCTAACTTAGCTCTG
196 TCCGGATCAACTTTTATCCCTTTTTCACTGACTATAAATCCCAATAGTTGCCTAACCTAGCTCTG
* *
15737537 AACATACATTTGGATAGATTCAGCTTGAGCTGAAACTTT
261 AACATACATTTGGATAGATTCAGCTTGAGCTAAAACTTC
*
15737576 CTTAACCTCTCAAA
1 CTTAACCTATCAAA
15737590 CAATTTTTTG
Statistics
Matches: 300, Mismatches: 11, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
298 287 0.96
299 10 0.03
300 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (299 bp):
CTTAACCTATCAAAGGCTTCTTGACATTCTATATTCCATTCGTCGGGATCATTCTTTCGGAGGAC
CTTAAAGATGAGGTCACATTTGCAAGTGAGTTAAGAAATGAATTGGGATATATAGTTCAATCTAC
TTAAGAAACCTCAAACTTCTTTTTGTGTGCTTGGAGGGGATAAGTTTTAAATGACCCTAATTTTG
TCCGGATCAACTTTTATCCCTTTTTCACTGACTATAAATCCCAATAGTTGCCTAACCTAGCTCTG
AACATACATTTGGATAGATTCAGCTTGAGCTAAAACTTC
Found at i:15745502 original size:20 final size:19
Alignment explanation
Indices: 15745477--15745565 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
15745467 GAAATTACTC
* *
15745477 AAATAAAAGTAAAGTCAAAA
1 AAATAAAA-TAAACTAAAAA
*
15745497 AAATAATAAAAAACTAAAAATA
1 AAATAA-AATAAACT-AAAA-A
*
15745519 AAATAAAATAAACTTAAAA
1 AAATAAAATAAACTAAAAA
* *
15745538 AAATAAAAATAAAATGAAAA
1 AAAT-AAAATAAACTAAAAA
*
15745558 AAAGAAAA
1 AAATAAAA
15745566 CCTGCGATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
19 9 0.16
20 29 0.51
21 12 0.21
22 7 0.12
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.16
Consensus pattern (19 bp):
AAATAAAATAAACTAAAAA
Found at i:15745509 original size:11 final size:10
Alignment explanation
Indices: 15745493--15745560 Score: 57
Period size: 11 Copynumber: 6.5 Consensus size: 10
15745483 AAGTAAAGTC
15745493 AAAAAAATAA
1 AAAAAAATAA
*
15745503 TAAAAAACTAA
1 -AAAAAAATAA
15745514 AAATAAAATAA
1 AAA-AAAATAA
* * *
15745525 AATAAACT-T
1 AAAAAAATAA
15745534 AAAAAAATAA
1 AAAAAAATAA
15745544 AAATAAAATGAA
1 AAA-AAAAT-AA
15745556 AAAAA
1 AAAAA
15745561 GAAAACCTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 6 0.13
10 10 0.22
11 24 0.53
12 5 0.11
ACGTcount: A:0.79, C:0.03, G:0.01, T:0.16
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:15745520 original size:14 final size:14
Alignment explanation
Indices: 15745501--15745551 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
15745491 TCAAAAAAAT
*
15745501 AATAAAAAACTAAA
1 AATAAAAAAATAAA
15745515 AATAAAATAAAATAAA
1 AAT-AAA-AAAATAAA
**
15745531 CTTAAAAAAATAAA
1 AATAAAAAAATAAA
15745545 AATAAAA
1 AATAAAA
15745552 TGAAAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 16 0.53
15 6 0.20
16 8 0.27
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (14 bp):
AATAAAAAAATAAA
Found at i:15745557 original size:6 final size:5
Alignment explanation
Indices: 15745477--15745557 Score: 51
Period size: 5 Copynumber: 15.6 Consensus size: 5
15745467 GAAATTACTC
* *
15745477 AAATA AAAGTA AAGTC AAA-A AAATA ATAA-A AAACTAA AAATA AAATA
1 AAATA AAA-TA AAATA AAATA AAATA A-AATA AAA-T-A AAATA AAATA
* *
15745524 AAATA AACTT AAA-A AAATAA AAATA AAATGA AAA
1 AAATA AAATA AAATA AAAT-A AAATA AAAT-A AAA
15745558 AAAGAAAACC
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
4 8 0.14
5 31 0.53
6 16 0.27
7 4 0.07
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:15746356 original size:3 final size:3
Alignment explanation
Indices: 15746350--15746502 Score: 126
Period size: 3 Copynumber: 53.0 Consensus size: 3
15746340 ATAAAAACAA
15746350 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
15746398 AAT AAT AGT AAG AGT AAT AAT GCAAT -AT ACT -AT AAC AAT -AT CAT
1 AAT AAT AAT AAT AAT AAT AAT --AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
15746442 ATAT TAT AAT AAT AAT -AG AAT AGT AAT AA- AAG AAT AAT -AT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15746485 -AT AAT -AT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
15746503 GTAATACTAG
Statistics
Matches: 120, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
2 16 0.13
3 99 0.82
4 2 0.02
5 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15746483 original size:5 final size:5
Alignment explanation
Indices: 15746434--15746500 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
15746424 ATACTATAAC
* * * * *
15746434 AATAT CATAT ATTAT AATAAT AATAG AATAGT AATAA AAGAAT AATAT
1 AATAT AATAT AATAT AAT-AT AATAT AATA-T AATAT AA-TAT AATAT
15746482 AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATA
15746501 ATGTAATACT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
5 37 0.76
6 12 0.24
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:15764232 original size:213 final size:214
Alignment explanation
Indices: 15763857--15764281 Score: 699
Period size: 213 Copynumber: 2.0 Consensus size: 214
15763847 ATTTATTAAT
* * *
15763857 AAATGGTGTGCCTACTATTTATTATATCATGATATGTTTTGCATTATTTGTTTGATTTAAATGTG
1 AAATGGTGTGCCTACTATCTACTATATCATGATATGTTCTGCATTATTTGTTTGATTTAAATGTG
* * *
15763922 TTCTTATTTTATTTATTTAGATCTCGTTTAAATCTTAATTGAAAAGATGTAGATCTATCATATGT
66 TTCTTATTTTATTTATTTAGATCTCATTTAAATCTCAATTGAAAACATGTAGATCTATCATATGT
* * * * *
15763987 GTTTTTCATTTTGGTTTTAGTCTTTGATCTATAGATTTTT-TTTTGGTTTATTTTTGTTAGCTGT
131 GTTCTTCATTTTGGTTTTAGTCCTTAATCTATAGATTTTTGTTTTGGTTTATTTTTATTAGATGT
15764051 GTCTTAGATTCCATCTATG
196 GTCTTAGATTCCATCTATG
**
15764070 AAATGGTGTGTGTACTATCTACTATATCATGATATGTTCTGCATTATTTGTTTGATTTAAATGTG
1 AAATGGTGTGCCTACTATCTACTATATCATGATATGTTCTGCATTATTTGTTTGATTTAAATGTG
* * *
15764135 TTCTTGTTTTATTTGTTTAGATCTCATTTAAATCTCGATTGAAAACATGTAGATCTATCATATGT
66 TTCTTATTTTATTTATTTAGATCTCATTTAAATCTCAATTGAAAACATGTAGATCTATCATATGT
15764200 GTTCTTCATTTTGGTTTTAGTCCTTAATCTATAGATTTTTGTTTTGGTTTATTTTTATTAGATGT
131 GTTCTTCATTTTGGTTTTAGTCCTTAATCTATAGATTTTTGTTTTGGTTTATTTTTATTAGATGT
15764265 GTCTTAGATTCCATCTA
196 GTCTTAGATTCCATCTA
15764282 CAAATGAACA
Statistics
Matches: 195, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
213 156 0.80
214 39 0.20
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (214 bp):
AAATGGTGTGCCTACTATCTACTATATCATGATATGTTCTGCATTATTTGTTTGATTTAAATGTG
TTCTTATTTTATTTATTTAGATCTCATTTAAATCTCAATTGAAAACATGTAGATCTATCATATGT
GTTCTTCATTTTGGTTTTAGTCCTTAATCTATAGATTTTTGTTTTGGTTTATTTTTATTAGATGT
GTCTTAGATTCCATCTATG
Found at i:15767087 original size:28 final size:30
Alignment explanation
Indices: 15767024--15767087 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
15767014 TTGACAGCTT
* *
15767024 GAATTTGGATTTGGATGCAACGAGCATAGATT
1 GAATTTGGATTTGGAT--AACGAGCATACATA
15767056 GAATTTGGATTTGGAT-ACGA-CATACATA
1 GAATTTGGATTTGGATAACGAGCATACATA
15767084 GAAT
1 GAAT
15767088 GAGTTATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.33
29 4 0.13
32 16 0.53
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (30 bp):
GAATTTGGATTTGGATAACGAGCATACATA
Found at i:15768551 original size:14 final size:14
Alignment explanation
Indices: 15768532--15768566 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15768522 ATTTTTATAT
15768532 AAAATCAAATCACA
1 AAAATCAAATCACA
* *
15768546 AAAATCAATTCATA
1 AAAATCAAATCACA
15768560 AAAATCA
1 AAAATCA
15768567 CAAATATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATCAAATCACA
Found at i:15771117 original size:10 final size:10
Alignment explanation
Indices: 15771102--15771150 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
15771092 ATTATGTCAT
15771102 TCTAACATTA
1 TCTAACATTA
15771112 TCTAACATT-
1 TCTAACATTA
*
15771121 T-TCAC-TTCA
1 TCTAACATT-A
15771130 TTCTAACATTA
1 -TCTAACATTA
15771141 TCTAACATTA
1 TCTAACATTA
15771151 CTTAGTTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
7 2 0.06
8 3 0.09
9 1 0.03
10 20 0.62
11 4 0.12
12 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (10 bp):
TCTAACATTA
Found at i:15771261 original size:80 final size:79
Alignment explanation
Indices: 15771128--15771289 Score: 245
Period size: 80 Copynumber: 2.0 Consensus size: 79
15771118 ATTTTCACTT
* *
15771128 CATTCTAACATTATCTAACATTACTTAGTTTCGGCATTGAAATGACAATAATTTAATAAGGATGA
1 CATTCTAACATTATCTAACATTACTTACTTTCAGCATTGAAATGACAATAATTTAATAAGGAT-A
15771193 AGTAGAAACGAAACC
65 AGTAGAAACGAAACC
* * * *
15771208 CATTCTAACATTATCTAACATTA-TGTACTTTTAGCATTTAAATGACAATAATTTAGTAGGGATA
1 CATTCTAACATTATCTAACATTACT-TACTTTCAGCATTGAAATGACAATAATTTAATAAGGATA
15771272 AGTAGAAACGAAACC
65 AGTAGAAACGAAACC
15771287 CAT
1 CAT
15771290 AATATCAGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 20 0.27
80 55 0.73
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (79 bp):
CATTCTAACATTATCTAACATTACTTACTTTCAGCATTGAAATGACAATAATTTAATAAGGATAA
GTAGAAACGAAACC
Found at i:15771937 original size:133 final size:132
Alignment explanation
Indices: 15771468--15771966 Score: 559
Period size: 133 Copynumber: 3.8 Consensus size: 132
15771458 TTATTAATTA
* * * *
15771468 AAAAGCTTAATTACAGTGTTTCCTTAAATATAAACATAGTAATTTATCATTGTAATTTATTTAAA
1 AAAAGCTTAATTACTGTGTTTCTTTAAAGATAAACATAGTAATTGATCATTGTAATTTATTTAAA
* * * * * *
15771533 TTAGTCATATACTATAGTTTTTAGAAGCTAAACACAGTAATTATTCTCTATAATTTTTTAAAACA
66 ATAATCAAATACTAT-GTTTTTTGAAGCTAAACATAGTAATTGTTCTCTATAATTTTTTAAAACA
15771598 TGT
130 TGT
* **
15771601 ACAAAGCTTAATTATTGCATTTCTTTAAAGATAAATGCA-A-TAATTGATCATTGTAATTTATTT
1 A-AAAGCTTAATTACTGTGTTTCTTTAAAGATAAA--CATAGTAATTGATCATTGTAATTTATTT
* * * * * *
15771664 AAAATAATCAAAAACTATTTTTTTTGAAACTAAACGTAGTAATTGTTTTCTGTAATTTTTTAAAA
63 AAAATAATCAAATACTATGTTTTTTGAAGCTAAACATAGTAATTGTTCTCTATAATTTTTTAAAA
**
15771729 GTTG-
128 CATGT
* *
15771733 AAAAGCTTAATTATTACGT-TTATCTTT--AGATAAACGTAGTAATTGATCATTGTAATTTATTT
1 AAAAGCTTAATTACT--GTGTT-TCTTTAAAGATAAACATAGTAATTGATCATTGTAATTTATTT
* ** *
15771795 AAAATAATCAAATACTATGTTGTTTTGAAGCTAAACATAGTACTTGTTCTCTATACCTATTTAAA
63 AAAATAATCAAATACTATGTT-TTTTGAAGCTAAACATAGTAATTGTTCTCTATAATTTTTTAAA
*
15771860 ACACGT
127 ACATGT
* * *
15771866 AAACAGCTTCATTACTGTGTTTCTTTGAAGATAAA-ATAGTAATTAATCATTGTAATTTATTTAA
1 AAA-AGCTTAATTACTGTGTTTCTTTAAAGATAAACATAGTAATTGATCATTGTAATTTATTTAA
15771930 AATAATCAAATAC--TGCTTTTTT-AAGCTAAACATAGTA
65 AATAATCAAATACTATG-TTTTTTGAAGCTAAACATAGTA
15771967 TTTATTCTTT
Statistics
Matches: 311, Mismatches: 40, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
129 1 0.00
130 16 0.05
131 69 0.22
132 49 0.16
133 93 0.30
134 80 0.26
135 1 0.00
136 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (132 bp):
AAAAGCTTAATTACTGTGTTTCTTTAAAGATAAACATAGTAATTGATCATTGTAATTTATTTAAA
ATAATCAAATACTATGTTTTTTGAAGCTAAACATAGTAATTGTTCTCTATAATTTTTTAAAACAT
GT
Found at i:15772611 original size:7 final size:7
Alignment explanation
Indices: 15772568--15772619 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 7
15772558 CTTGGTTCAT
15772568 TTTTTTC
1 TTTTTTC
15772575 TCTTTTCTC
1 T-TTTT-TC
*
15772584 TTTTTTG
1 TTTTTTC
*
15772591 TTTGTTTT
1 TTT-TTTC
15772599 TTTTTTC
1 TTTTTTC
15772606 TTTTTTC
1 TTTTTTC
15772613 ATTTTTT
1 -TTTTTT
15772620 TCCAAGCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
7 15 0.39
8 20 0.53
9 3 0.08
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:15775633 original size:50 final size:51
Alignment explanation
Indices: 15775575--15775681 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
15775565 ATTACTCCCT
15775575 TGCATCAAAGTTTACA-TTTTTATCAATGGCATTTT-AGTAATTTTGTTACA
1 TGCATCAAAGTTTACATTTTTTATCAATGGCATTTTGA-TAATTTTGTTACA
* *
15775625 TGCATCAAAGTTTGCATTTTTTATCAATGGTATTTTGATAATTTTGTTACA
1 TGCATCAAAGTTTACATTTTTTATCAATGGCATTTTGATAATTTTGTTACA
15775676 TGCATC
1 TGCATC
15775682 CCTAAACCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
50 15 0.28
51 37 0.70
52 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (51 bp):
TGCATCAAAGTTTACATTTTTTATCAATGGCATTTTGATAATTTTGTTACA
Found at i:15775739 original size:20 final size:19
Alignment explanation
Indices: 15775714--15775766 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
15775704 CAAACCCTAC
* *
15775714 ACCAAACCTTAATTCGTAA
1 ACCAAACCCTAAATCGTAA
15775733 GACCAAACCCCTAAATCGTAA
1 -ACCAAA-CCCTAAATCGTAA
*
15775754 ACCAAACTCTAAA
1 ACCAAACCCTAAA
15775767 ACCAAAACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.21
20 12 0.41
21 11 0.38
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.19
Consensus pattern (19 bp):
ACCAAACCCTAAATCGTAA
Found at i:15775794 original size:20 final size:19
Alignment explanation
Indices: 15775765--15775815 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
15775755 CCAAACTCTA
15775765 AAACCAAAACCTTATACCCT
1 AAACCAAAACCTTA-ACCCT
* *
15775785 AAACCCAAACTCTTAATCCT
1 AAACCAAAAC-CTTAACCCT
15775805 AAACCAAAACC
1 AAACCAAAACC
15775816 CTAAATTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (19 bp):
AAACCAAAACCTTAACCCT
Found at i:15775839 original size:73 final size:73
Alignment explanation
Indices: 15775698--15775869 Score: 174
Period size: 73 Copynumber: 2.4 Consensus size: 73
15775688 CCTAAACTTT
* * * *
15775698 AAACCTCAAACCCTACACCAAACCTTAATTCGTAAGACCAAACCCCTAAATCGTAAACCAAACTC
1 AAACCTCAAACCCTAAACCAAACCTTAATTCCTAAGACCAAAACCCTAAATCGTAAACCAAACCC
15775763 TAAAACCA
66 TAAAACCA
* * *
15775771 AAACCTTATACCCTAAACCCAAACTCTTAA-TCCTAA-ACCAAAACCCTAAATTGTAAA-CATAA
1 AAACCTCAAACCCTAAA-CCAAAC-CTTAATTCCTAAGACCAAAACCCTAAATCGTAAACCA-AA
*
15775833 CCCT-AAACCC
63 CCCTAAAACCA
* * * *
15775843 TAACCT-AGACCTTAAACCAACCCTTAA
1 AAACCTCAAACCCTAAACCAAACCTTAA
15775870 ACCATAAACC
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
69 5 0.06
70 5 0.06
71 8 0.10
72 12 0.14
73 38 0.45
74 11 0.13
75 5 0.06
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (73 bp):
AAACCTCAAACCCTAAACCAAACCTTAATTCCTAAGACCAAAACCCTAAATCGTAAACCAAACCC
TAAAACCA
Found at i:15777627 original size:9 final size:9
Alignment explanation
Indices: 15777615--15777640 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15777605 TAAAAAATAA
15777615 AAAAACAAC
1 AAAAACAAC
15777624 AAAAACAAC
1 AAAAACAAC
15777633 AAAAACAA
1 AAAAACAA
15777641 AATTTTTTCA
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:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAC
Found at i:15777938 original size:37 final size:37
Alignment explanation
Indices: 15777883--15778128 Score: 276
Period size: 37 Copynumber: 6.6 Consensus size: 37
15777873 ATAAGATAAC
* * * * * *
15777883 ACATGCACTCCATTTCATGTACATATTAATAAATAAT
1 ACATGCATTCCATCTCATGCACATCTTAATAGATAGT
* *
15777920 ACATGTATTTCATCTCATGCACATCTTAATAGATAGT
1 ACATGCATTCCATCTCATGCACATCTTAATAGATAGT
* * * * *
15777957 ACATGTATTCCATTTCATGTACATCTCAATAGATATT
1 ACATGCATTCCATCTCATGCACATCTTAATAGATAGT
*
15777994 ACATACATTCCATCTCATGCACATCTTAATAGATAGT
1 ACATGCATTCCATCTCATGCACATCTTAATAGATAGT
* * * *
15778031 ATATGCATTCCATCTCATGCACATTTTAATAAATGGT
1 ACATGCATTCCATCTCATGCACATCTTAATAGATAGT
* * *
15778068 ACGTGCATTCCATTTCATGCATATCTTAATAGATAGT
1 ACATGCATTCCATCTCATGCACATCTTAATAGATAGT
* * *
15778105 ATATGCATTTCATCTCATGAACAT
1 ACATGCATTCCATCTCATGCACAT
15778129 TCTAATGGTA
Statistics
Matches: 172, Mismatches: 37, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (37 bp):
ACATGCATTCCATCTCATGCACATCTTAATAGATAGT
Found at i:15780574 original size:20 final size:20
Alignment explanation
Indices: 15780545--15780588 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15780535 GAAGAAAGTT
* *
15780545 AAATTAGTCAAACTTGATCA
1 AAATTAGTCAAACTCGATAA
*
15780565 AAATTGGTCAAACTCGATAA
1 AAATTAGTCAAACTCGATAA
15780585 AAAT
1 AAAT
15780589 CGATAGAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (20 bp):
AAATTAGTCAAACTCGATAA
Found at i:15781726 original size:66 final size:65
Alignment explanation
Indices: 15781620--15781752 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 65
15781610 TTTAAAAAAA
15781620 TTCTTTAAGTTTGCTAGCTTAGAGGTATAATCTTACTATTTTTTTTTTTACCTTGCATTCATT-C
1 TTCTTTAAGTTTGCTAGCTTAGAGGTATAATCTTACTA--TTTTTTTTTACCTTGCATTCATTGC
15781684 AT
64 AT
15781686 TTCTTTAAGTTTGCTAGCTTAGAGGTATAATCTTACTATTTTTTTTTACCTTGCATTCATTGCAT
1 TTCTTTAAGTTTGCTAGCTTAGAGGTATAATCTTACTATTTTTTTTTACCTTGCATTCATTGCAT
15781751 TT
1 TT
15781753 TGATATCATT
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
64 23 0.35
65 5 0.08
66 38 0.58
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (65 bp):
TTCTTTAAGTTTGCTAGCTTAGAGGTATAATCTTACTATTTTTTTTTACCTTGCATTCATTGCAT
Found at i:15782699 original size:7 final size:7
Alignment explanation
Indices: 15782660--15782783 Score: 91
Period size: 7 Copynumber: 18.4 Consensus size: 7
15782650 CTATAAGTTG
*
15782660 AAACCCC
1 AAACCCT
*
15782667 AAATCC-
1 AAACCCT
15782673 AAACCCT
1 AAACCCT
* *
15782680 AAATCCA
1 AAACCCT
15782687 AAACCCT
1 AAACCCT
15782694 AAACCCT
1 AAACCCT
15782701 -AACCCT
1 AAACCCT
*
15782707 AAACCTT
1 AAACCCT
*
15782714 GAAACCTT
1 -AAACCCT
15782722 AAA-CC-
1 AAACCCT
15782727 AAACCCT
1 AAACCCT
*
15782734 AAGCCCTT
1 AAACCC-T
**
15782742 AAA-TGT
1 AAACCCT
15782748 AAA-CCT
1 AAACCCT
15782754 AAACCCT
1 AAACCCT
15782761 -AACCCT
1 AAACCCT
*
15782767 AAGCCCT
1 AAACCCT
15782774 AAACCCT
1 AAACCCT
15782781 AAA
1 AAA
15782784 GTCAAACCTT
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
5 3 0.03
6 28 0.30
7 52 0.56
8 10 0.11
ACGTcount: A:0.44, C:0.37, G:0.03, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:15782731 original size:27 final size:29
Alignment explanation
Indices: 15782657--15782735 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 29
15782647 ATTCTATAAG
* *
15782657 TTGAAACCCCAAATCCAAACCCTAAATCC
1 TTGAAACCCTAAACCCAAACCCTAAATCC
* *
15782686 --AAAACCCTAAACCCTAACCCTAAA-CC
1 TTGAAACCCTAAACCCAAACCCTAAATCC
*
15782712 TTGAAACCTTAAA-CCAAACCCTAA
1 TTGAAACCCTAAACCCAAACCCTAA
15782736 GCCCTTAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 2 0.05
27 30 0.73
28 9 0.22
ACGTcount: A:0.44, C:0.37, G:0.03, T:0.16
Consensus pattern (29 bp):
TTGAAACCCTAAACCCAAACCCTAAATCC
Found at i:15782733 original size:33 final size:34
Alignment explanation
Indices: 15782687--15782778 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 34
15782677 CCTAAATCCA
15782687 AAACCCTAAACCCTAA-CCCTAAACCT-TGAAACCTT
1 AAACCC-AAACCCTAAGCCCTAAACCTGT-AAACC-T
15782722 AAA-CCAAACCCTAAGCCCTTAAA--TGTAAACCT
1 AAACCCAAACCCTAAGCCC-TAAACCTGTAAACCT
*
15782754 AAACCCTAACCCTAAGCCCTAAACC
1 AAACCCAAACCCTAAGCCCTAAACC
15782779 CTAAAGTCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
32 8 0.16
33 29 0.58
34 6 0.12
35 7 0.14
ACGTcount: A:0.41, C:0.37, G:0.04, T:0.17
Consensus pattern (34 bp):
AAACCCAAACCCTAAGCCCTAAACCTGTAAACCT
Found at i:15782791 original size:33 final size:33
Alignment explanation
Indices: 15782673--15782797 Score: 87
Period size: 33 Copynumber: 3.7 Consensus size: 33
15782663 CCCCAAATCC
15782673 AAACCCTAAATCCAAAACCCTAAACCCTAA-CCCT
1 AAACCCTAAAT-CAAAACCCT-AACCCTAAGCCCT
* * * *
15782707 AAACCTTGAAACCTTAAA-CCAAACCCTAAGCCCTT
1 AAACCCT-AAATC-AAAACCCTAACCCTAAGCCC-T
** * *
15782742 AAA-TGTAAACCTAAACCCTAACCCTAAGCCCT
1 AAACCCTAAATCAAAACCCTAACCCTAAGCCCT
*
15782774 AAACCCTAAAGTC-AAACCTTAACC
1 AAACCCTAAA-TCAAAACCCTAACC
15782798 TTAAACCTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
32 8 0.11
33 41 0.56
34 14 0.19
35 10 0.14
ACGTcount: A:0.42, C:0.36, G:0.04, T:0.18
Consensus pattern (33 bp):
AAACCCTAAATCAAAACCCTAACCCTAAGCCCT
Found at i:15783350 original size:21 final size:20
Alignment explanation
Indices: 15783308--15783350 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
15783298 TTTTTGTTTA
***
15783308 AAAAAAAGAAAAAAATTTTT
1 AAAAAAAGAAAAAAAGAATT
15783328 AAAAAAAGAAAAAAAGGAATT
1 AAAAAAAGAAAAAAA-GAATT
15783349 AA
1 AA
15783351 TTTTAAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAGAATT
Found at i:15783948 original size:50 final size:50
Alignment explanation
Indices: 15783888--15783992 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
15783878 CCATGTTTTG
15783888 CATTTGATGCATATTTTAATTAT-TTAATTTCATGCATATTTT-ACTTATGT
1 CATTTGATGCATATTTTAATTATGTT-ATTTCATGCATATTTTCA-TTATGT
* *
15783938 CATTTTATGCATATTTTACTTATGTTATTTCATGCATATTTTCATTATGT
1 CATTTGATGCATATTTTAATTATGTTATTTCATGCATATTTTCATTATGT
15783988 CATTT
1 CATTT
15783993 ATTATATGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
50 48 0.94
51 3 0.06
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (50 bp):
CATTTGATGCATATTTTAATTATGTTATTTCATGCATATTTTCATTATGT
Found at i:15783986 original size:25 final size:25
Alignment explanation
Indices: 15783888--15783992 Score: 140
Period size: 25 Copynumber: 4.2 Consensus size: 25
15783878 CCATGTTTTG
* * *
15783888 CATTTGATGCATATTTTAATTATTT
1 CATTTCATGCATATTTTACTTATGT
*
15783913 AATTTCATGCATATTTTACTTATGT
1 CATTTCATGCATATTTTACTTATGT
*
15783938 CATTTTATGCATATTTTACTTATGT
1 CATTTCATGCATATTTTACTTATGT
*
15783963 TATTTCATGCATATTTT-CATTATGT
1 CATTTCATGCATATTTTAC-TTATGT
15783988 CATTT
1 CATTT
15783993 ATTATATGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
24 1 0.01
25 69 0.99
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (25 bp):
CATTTCATGCATATTTTACTTATGT
Found at i:15786966 original size:40 final size:40
Alignment explanation
Indices: 15786921--15787168 Score: 190
Period size: 41 Copynumber: 6.1 Consensus size: 40
15786911 GAATTTTTAA
* *
15786921 AAACTATGAATCATTACTCTATTGTGAATCCAGGGTCTTT
1 AAACTATGAATCATTACTTTATTGTGAATCCAGAGTCTTT
* * * *
15786961 AAACTATTAATCATTGCATCTATTGTGAATCCAGAGTTTTTT
1 AAACTATGAATCATTAC-TTTATTGTGAATCCAGAG-TCTTT
* * * ** * *
15787003 AAACTATTACTCGCTTACTTTGCTATGAATCCAGAGTCTCT
1 AAACTATGAATC-ATTACTTTATTGTGAATCCAGAGTCTTT
* * *
15787044 AAACTGTGAATCATTTACTTTATTGTGAATCTAGAGTCTTG
1 AAACTATGAATCA-TTACTTTATTGTGAATCCAGAGTCTTT
* * ** * * *
15787085 CAATTATGAATTGTTACTTTAATGTGAATCTAGAGTCTTC
1 AAACTATGAATCATTACTTTATTGTGAATCCAGAGTCTTT
* * * * * *
15787125 CAACTATGAATCATTTCTTTTGTTGCGAATCCAAAGTCTCT
1 AAACTATGAATCATTAC-TTTATTGTGAATCCAGAGTCTTT
15787166 AAA
1 AAA
15787169 TTGTAAATCA
Statistics
Matches: 161, Mismatches: 42, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
40 53 0.33
41 76 0.47
42 29 0.18
43 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (40 bp):
AAACTATGAATCATTACTTTATTGTGAATCCAGAGTCTTT
Found at i:15787520 original size:51 final size:48
Alignment explanation
Indices: 15787446--15787577 Score: 122
Period size: 49 Copynumber: 2.7 Consensus size: 48
15787436 ATAATAACTT
* *
15787446 TTTCAATGTGAATCCTAAACTTTTTG-AAAATTCTAGTGTGAATCCCAGTC
1 TTTCAATGTGAATCCCAAAC-TTTTGAAAAATCCTA--GTGAATCCCAGTC
* * **
15787496 TTTCGATGTGAGTCCCAAACCTTTTGAAAAATCCTAGTGAATCCCAACC
1 TTTCAATGTGAATCCCAAA-CTTTTGAAAAATCCTAGTGAATCCCAGTC
** * *
15787545 TTTCAGCGTGAATCTCAAACCTTTTAAAAAATC
1 TTTCAATGTGAATCCCAAA-CTTTTGAAAAATC
15787578 TTGGTGTGAC
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
49 38 0.56
50 21 0.31
51 9 0.13
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (48 bp):
TTTCAATGTGAATCCCAAACTTTTGAAAAATCCTAGTGAATCCCAGTC
Found at i:15790911 original size:9 final size:9
Alignment explanation
Indices: 15790883--15790935 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
15790873 TTTTTAAAAA
15790883 TTTTAATTT
1 TTTTAATTT
* *
15790892 TCGTAAATTT
1 T-TTTAATTT
15790902 TTTTAATTT
1 TTTTAATTT
**
15790911 TTTTAATCA
1 TTTTAATTT
15790920 TTTTAA-TT
1 TTTTAATTT
15790928 TTTTAATT
1 TTTTAATT
15790936 AATTAATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTAATTT
Found at i:15790913 original size:8 final size:8
Alignment explanation
Indices: 15790900--15790949 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
15790890 TTTCGTAAAT
15790900 TTTTTTAA
1 TTTTTTAA
15790908 TTTTTTTAA
1 -TTTTTTAA
*
15790917 TCATTTTAA
1 T-TTTTTAA
15790926 TTTTTTAA
1 TTTTTTAA
**
15790934 TTAATTAA
1 TTTTTTAA
15790942 TTTTTTAA
1 TTTTTTAA
15790950 AAATTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
8 19 0.56
9 15 0.44
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTTTAA
Found at i:15794501 original size:57 final size:57
Alignment explanation
Indices: 15794282--15794567 Score: 159
Period size: 57 Copynumber: 4.9 Consensus size: 57
15794272 AAACATGAAT
* * * * * * *
15794282 ACTCGAATATCACCA-CTGAGTAAAGATGCAAATGACTTCTGATATCACTATTGAAGGAA
1 ACTCGAATATCACCATC-AAG-AAA-ATGCAAATGACTTCAGATATTACCACTAAAGGGA
* * * * * * *
15794341 ACTCGGATATCACCAACGAACAGAAATATGTAGATGCCTTCAGATATTACCATTTAAA--AA
1 ACTCGAATATCACCATC--A-AGAAA-ATGCAAATGACTTCAGATATTACCA-CTAAAGGGA
* * ** * *
15794401 ACTCAAATATCACTATCAAGTGAGTGCAAATGACTT-TGAATATTACCA-TCAAAGGGA
1 ACTCGAATATCACCATCAAGAAAATGCAAATGACTTCAG-ATATTACCACT-AAAGGGA
* * ** * *
15794458 ACTTGGATATCACCATTGAGAAAATGCAAATGACTTCAGATATTGCCACTTAAGGGA
1 ACTCGAATATCACCATCAAGAAAATGCAAATGACTTCAGATATTACCACTAAAGGGA
** * * * *
15794515 ACTCGAATATTGCCATCAAGAAAATGCAAATGATTTCAAATATCATCACTAAA
1 ACTCGAATATCACCATCAAGAAAATGCAAATGACTTCAGATATTACCACTAAA
15794568 TCGCCATCGA
Statistics
Matches: 170, Mismatches: 47, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
54 1 0.01
55 4 0.02
56 18 0.11
57 86 0.51
58 3 0.02
59 14 0.08
60 16 0.09
61 22 0.13
62 6 0.04
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (57 bp):
ACTCGAATATCACCATCAAGAAAATGCAAATGACTTCAGATATTACCACTAAAGGGA
Found at i:15794839 original size:31 final size:33
Alignment explanation
Indices: 15794794--15794879 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 33
15794784 CATAGAAGAA
*
15794794 TTTGAAAATAATTTGGATGTCACCACT-AAAAG
1 TTTGAAAATAATTTGGATGTCACCACTGAAAAC
* * * *
15794826 TTTGAGAA-AATTTGGATATTACCATTGAAAAC
1 TTTGAAAATAATTTGGATGTCACCACTGAAAAC
15794858 TTTGAAAATAATTTGGATGTCA
1 TTTGAAAATAATTTGGATGTCA
15794880 ACACCGAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 15 0.34
32 18 0.41
33 11 0.25
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (33 bp):
TTTGAAAATAATTTGGATGTCACCACTGAAAAC
Found at i:15796931 original size:23 final size:23
Alignment explanation
Indices: 15796875--15796931 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
15796865 CAAGTTGAAA
* *
15796875 ATTTTATTTTCTGCCAGTTTCCAG
1 ATTTTA-TTTCTACCAATTTCCAG
*
15796899 ATTTAATTTCTACCAATTTCCAG
1 ATTTTATTTCTACCAATTTCCAG
*
15796922 GTTTTATTTC
1 ATTTTATTTC
15796932 CTTGATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.21, C:0.19, G:0.09, T:0.51
Consensus pattern (23 bp):
ATTTTATTTCTACCAATTTCCAG
Found at i:15804985 original size:20 final size:18
Alignment explanation
Indices: 15804948--15804988 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
15804938 GTGGTAAAGA
*
15804948 TTTAGGGTTTGGTTAGGG
1 TTTAGGGTTTGATTAGGG
15804966 TTTAGAGGTTTCGATTAGGG
1 TTTAG-GGTTT-GATTAGGG
15804986 TTT
1 TTT
15804989 GGGATTGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 10 0.50
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (18 bp):
TTTAGGGTTTGATTAGGG
Found at i:15805030 original size:31 final size:32
Alignment explanation
Indices: 15804946--15805052 Score: 77
Period size: 32 Copynumber: 3.4 Consensus size: 32
15804936 ATGTGGTAAA
*
15804946 GATTTAGGGTTTGGTTAGGGTTTAGAGGTTTC
1 GATTTAGGTTTTGGTTAGGGTTTAGAGGTTTC
*
15804978 GA-TTAGGGTTTGGGATT--GGTTTA-AGG-TT-
1 GATTTA-GGTTTTGG-TTAGGGTTTAGAGGTTTC
* *
15805006 GATTTAGGTTTTTGGTTTAGGGTTTATA-GTTTA
1 GATTTAGG-TTTTGG-TTAGGGTTTAGAGGTTTC
15805039 G-TTTAAGGTTTTGG
1 GATTT-AGGTTTTGG
15805053 CTATTAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
28 4 0.07
29 12 0.20
30 3 0.05
31 16 0.26
32 20 0.33
33 6 0.10
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.48
Consensus pattern (32 bp):
GATTTAGGTTTTGGTTAGGGTTTAGAGGTTTC
Found at i:15805085 original size:20 final size:20
Alignment explanation
Indices: 15805067--15805152 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
15805057 TAATTTAGGT
*
15805067 TTTGGGATTTTGGTTTAGGG
1 TTTGGGATTTTGGTTTAAGG
* * *
15805087 TTTAAGG--TTTAGTTTAAAG
1 TTT-GGGATTTTGGTTTAAGG
15805106 TTTGGGATTTTGGTTTAAGG
1 TTTGGGATTTTGGTTTAAGG
*
15805126 TTTGGGGTTTTGGTTTAAGG
1 TTTGGGATTTTGGTTTAAGG
15805146 TTTGGGA
1 TTTGGGA
15805153 ATTGGTTAGG
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
18 2 0.04
19 12 0.22
20 38 0.70
21 2 0.04
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (20 bp):
TTTGGGATTTTGGTTTAAGG
Found at i:15805097 original size:59 final size:59
Alignment explanation
Indices: 15805015--15805148 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 59
15805005 TGATTTAGGT
* * *
15805015 TTTTGGTTTAGGGTTTATAGTTTAGTTTAAGGTTTTGGCTATTAATTT-AGGTTTTGGGA
1 TTTTGGTTTAGGGTTTATAGTTTAGTTTAAAGTTTGGGATATTAATTTAAGG-TTTGGGA
* ** *
15805074 TTTTGGTTTAGGGTTTA-AGGTTTAGTTTAAAGTTTGGGATTTTGGTTTAAGGTTTGGGG
1 TTTTGGTTTAGGGTTTATA-GTTTAGTTTAAAGTTTGGGATATTAATTTAAGGTTTGGGA
*
15805133 TTTTGGTTTAAGGTTT
1 TTTTGGTTTAGGGTTT
15805149 GGGAATTGGT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
58 1 0.02
59 61 0.94
60 3 0.05
ACGTcount: A:0.17, C:0.01, G:0.30, T:0.52
Consensus pattern (59 bp):
TTTTGGTTTAGGGTTTATAGTTTAGTTTAAAGTTTGGGATATTAATTTAAGGTTTGGGA
Found at i:15805115 original size:39 final size:40
Alignment explanation
Indices: 15805067--15805167 Score: 127
Period size: 39 Copynumber: 2.6 Consensus size: 40
15805057 TAATTTAGGT
15805067 TTTGGGATTTTGGTTTAGGGTTTAAGG-TTTAGTTTAAAG
1 TTTGGGATTTTGGTTTAGGGTTTAAGGTTTTAGTTTAAAG
* ** * *
15805106 TTTGGGATTTTGGTTTAAGGTTTGGGGTTTTGGTTTAAGG
1 TTTGGGATTTTGGTTTAGGGTTTAAGGTTTTAGTTTAAAG
*
15805146 TTTGGGA-ATTGG-TTAGGGTTTA
1 TTTGGGATTTTGGTTTAGGGTTTA
15805168 TTCGATTGTG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 8 0.15
39 28 0.53
40 17 0.32
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.49
Consensus pattern (40 bp):
TTTGGGATTTTGGTTTAGGGTTTAAGGTTTTAGTTTAAAG
Found at i:15805493 original size:20 final size:19
Alignment explanation
Indices: 15805409--15805518 Score: 79
Period size: 18 Copynumber: 5.8 Consensus size: 19
15805399 ATTTGGGATT
*
15805409 GGTTT-GGGGTTTG-GTTA
1 GGTTTAGGGGTTTGCATTA
* *
15805426 GAGTTTA-GGGTTTGAATTT
1 G-GTTTAGGGGTTTGCATTA
*
15805445 GGTTTA-GGGTTTAG-ATTC
1 GGTTTAGGGGTTT-GCATTA
15805463 GGTTT-GAGGGTTTGCATTA
1 GGTTTAG-GGGTTTGCATTA
*
15805482 GTGTTTAGGGGTTTGCATAA
1 G-GTTTAGGGGTTTGCATTA
*
15805502 GGGTTTAAGGGTTTGCA
1 -GGTTTAGGGGTTTGCA
15805519 ATGAGCAATG
Statistics
Matches: 77, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.01
18 31 0.40
19 14 0.18
20 29 0.38
21 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.37, T:0.43
Consensus pattern (19 bp):
GGTTTAGGGGTTTGCATTA
Found at i:15805741 original size:117 final size:117
Alignment explanation
Indices: 15805531--15805766 Score: 420
Period size: 117 Copynumber: 2.0 Consensus size: 117
15805521 GAGCAATGCT
*
15805531 TGTGATAAAATAAACAGTAAATCAATGTAAAATGTAACATTTAATGCATGAAATTAGACTAAACA
1 TGTGATAAAATAAACAGTAAATCAATGTAAAATGTAACATTTAATCCATGAAATTAGACTAAACA
15805596 TGGAAGCCAAAACTTAAGCAAATTCACAAACATATCATAAACTAACTAAGCA
66 TGGAAGCCAAAACTTAAGCAAATTCACAAACATATCATAAACTAACTAAGCA
*
15805648 TGTGATAAAATAAACAGTAAATCAATGTAAAATGTAACATTTAATCCATGAAATTGGACTAAACA
1 TGTGATAAAATAAACAGTAAATCAATGTAAAATGTAACATTTAATCCATGAAATTAGACTAAACA
* *
15805713 TGGAAGCCAAAACTTAAGC-AATTGCACAAACATATCATAAACTAATTATGCA
66 TGGAAGCCAAAACTTAAGCAAATT-CACAAACATATCATAAACTAACTAAGCA
15805765 TG
1 TG
15805767 CAAAAACTTA
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
116 4 0.04
117 110 0.96
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (117 bp):
TGTGATAAAATAAACAGTAAATCAATGTAAAATGTAACATTTAATCCATGAAATTAGACTAAACA
TGGAAGCCAAAACTTAAGCAAATTCACAAACATATCATAAACTAACTAAGCA
Found at i:15807271 original size:144 final size:143
Alignment explanation
Indices: 15807066--15807339 Score: 354
Period size: 143 Copynumber: 1.9 Consensus size: 143
15807056 GAATTTTTTG
* * * *
15807066 CAAAAAACCAATTTCAGGAAAGTCAAATTATGAAAATACCTTTAAAGGGTATTTAGGTAATTTCA
1 CAAAAAACCAATCTCAGAAAAGTCAAATTATGAAAATACCTCTAAAAGGTATTTAGGTAA-TTCA
* * * * * * * * *
15807131 TACTTTCTTAGGTGCGATTAAAGTTTTTAATGCATTAAAAGTCATGAAATAGTATCAAAACATGA
65 TACCTTCTAAAGTGCAATTAAAGTTTTGAATACATCAAAAATCATGAAATAATATCAAAACATGA
15807196 TATGGAGCTTTTCA
130 TATGGAGCTTTTCA
* *
15807210 CAAAAAACCAATCTCA-AAAAGGTCAAATTATGAAAAT-TCTCCTAAAAGGTATTTTGGTAATTC
1 CAAAAAACCAATCTCAGAAAA-GTCAAATTATGAAAATACCT-CTAAAAGGTATTTAGGTAATTC
* *
15807273 ATGCCTTCTAAAGTGCAATTAAAGTTTTGAATATATCAAAAATCATGAAATAATATCAAAACATG
64 ATACCTTCTAAAGTGCAATTAAAGTTTTGAATACATCAAAAATCATGAAATAATATCAAAACATG
15807338 AT
129 AT
15807340 GCGAAGCTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
143 64 0.58
144 47 0.42
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (143 bp):
CAAAAAACCAATCTCAGAAAAGTCAAATTATGAAAATACCTCTAAAAGGTATTTAGGTAATTCAT
ACCTTCTAAAGTGCAATTAAAGTTTTGAATACATCAAAAATCATGAAATAATATCAAAACATGAT
ATGGAGCTTTTCA
Found at i:15807359 original size:143 final size:142
Alignment explanation
Indices: 15807022--15807562 Score: 409
Period size: 144 Copynumber: 3.8 Consensus size: 142
15807012 TTTAAAGAAC
*** * * * *
15807022 CAAAAATCATGAAATAATATTTGATCATGATCTAGAA-TTTTTTGCA-AAAAACCAATTTCAGGA
1 CAAAAATCATGAAATAATATCAAAACATGATC--GAAGCTTTTTG-AGAAAAACCAATCTCA-AA
* * * * * * *
15807085 AA-GTCAAATTATGAAAATAC-CTTTAAAGGGTATTTAGGTAATTTCATACTTTCTTAGGTGCGA
62 AAGGTCAAATTATGAAAATACTC-CTAAAAGGCATTTTGGTAATTTCATACCTTCTAAAGTGC-A
*
15807148 TTAAAGTTTTTAATGCAT
125 TTAAAGTTTTTAATGTAT
* * * * * * *
15807166 TAAAAGTCATGAAATAGTATCAAAACATGATATGGAGC-TTTTCACAAAAAACCAATCTCAAAAA
1 CAAAAATCATGAAATAATATCAAAACATGAT-CGAAGCTTTTTGA-GAAAAACCAATCTCAAAAA
* * *
15807230 GGTCAAATTATGAAAATTCTCCTAAAAGGTATTTTGGTAA-TTCATGCCTTCTAAAGTGCAATTA
64 GGTCAAATTATGAAAATACTCCTAAAAGGCATTTTGGTAATTTCATACCTTCTAAAGTGC-ATTA
* *
15807294 AAGTTTTGAATATAT
128 AAGTTTTTAATGTAT
* * * **
15807309 CAAAAATCATGAAATAATATCAAAACATGATGCGAAGCTTTTTGAGAAAAACTAACCTTAGGAAG
1 CAAAAATCATGAAATAATATCAAAACATGAT-CGAAGCTTTTTGAGAAAAACCAATCTCAAAAAG
* ** * *
15807374 GTCAAATTA-CAAGAATACTAGTAAAAAGCATTTTGGTAATTTCATACCTTTTAAGATGTG-ATG
65 GTCAAATTATGAA-AATACTCCTAAAAGGCATTTTGGTAATTTCATACCTTCTAA-A-GTGCAT-
****
15807437 GGGGGTTTTTAATGTAT
126 TAAAGTTTTTAATGTAT
* * * * ** *
15807454 CAAAAATCAAGAAATAATATCAAAACATAATCGAACCTTTTTGTGAAAAACTGA-CTTCAAGAAG
1 CAAAAATCATGAAATAATATCAAAACATGATCGAAGCTTTTTGAGAAAAACCAATC-TCAAAAAG
** *
15807518 GTCAAATTACAAAAATA-TGTCTAAAAGGCATTTTGGTAATTTCAT
65 GTCAAATTATGAAAATACT-CCTAAAAGGCATTTTGGTAATTTCAT
15807563 TTCTTTCGAA
Statistics
Matches: 319, Mismatches: 63, Indels: 30
0.77 0.15 0.07
Matches are distributed among these distances:
142 3 0.01
143 118 0.37
144 151 0.47
145 44 0.14
146 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (142 bp):
CAAAAATCATGAAATAATATCAAAACATGATCGAAGCTTTTTGAGAAAAACCAATCTCAAAAAGG
TCAAATTATGAAAATACTCCTAAAAGGCATTTTGGTAATTTCATACCTTCTAAAGTGCATTAAAG
TTTTTAATGTAT
Found at i:15809512 original size:144 final size:142
Alignment explanation
Indices: 15809245--15809752 Score: 454
Period size: 144 Copynumber: 3.5 Consensus size: 142
15809235 ATTTGGATTC
* * * * * * *
15809245 TTAAAAATTTTGATTGCA-CTTCATAAGGGTAAAATTACCAAAATATCTTTTTAA-GATATCTTT
1 TTAAAAACTTTGATTGTACCTT-AAAAAGGTGAAATTACCAAAATATC-TTTTAAGGGTATTTTT
* * * * *
15809308 GTAATTT-ATCCTTTTCAAAGTTAGTTTTTTGTGA-AAAA-CTCTAGTTCATGTCTTGATATTAT
64 GTAATTTGA-CCTTTTC-AAGATAG-CTTTTAT-ACAAAAGCTCTAGATCATGTTTTGATATTAT
* *
15809370 TCCATGAATTTTGATGCA
125 TCCATAAATTTTGATGAA
* * * *
15809388 TTCAAAACTTTGATTGTACCTTAGAAAAGTTGAAATTACCAAAATGTTTTTTAAGGGTATTTTTG
1 TTAAAAACTTTGATTGTACCTTA-AAAAGGTGAAATTACCAAAATATCTTTTAAGGGTATTTTTG
* *
15809453 TAATTTGACCTTTTCGAAGACAGCTTTTATACAAAAGCTCTAGATCATGTTTTGGTATTATTCCA
65 TAATTTGACCTTTTC-AAGATAGCTTTTATACAAAAGCTCTAGATCATGTTTTGATATTATTCCA
*
15809518 CAAATTTTGATGAA
129 TAAATTTTGATGAA
* * * * *
15809532 TTAAAAACCTTGGTTATACCTTAAAAAGAGTGAAATTACCAAAATACCATTTAAGGGTATTTTTG
1 TTAAAAACTTTGATTGTACCTTAAAAAG-GTGAAATTACCAAAATATCTTTTAAGGGTATTTTTG
* * * * * * * * * * *
15809597 TAATTTGACATTCTCAAGGTTGCTTTTTTGCGAAAAGCTCCATATCATGTTTTAATTTTAATCCA
65 TAATTTGACCTTTTCAAGATAGCTTTTATAC-AAAAGCTCTAGATCATGTTTTGATATTATTCCA
15809662 TAAATTTTGATGAA
129 TAAATTTTGATGAA
* * * * * * * *
15809676 TTGAAAA-TCTTGATTGCA-CATAAAAGGGTGAAATTACCAAAATAACCTTTAGGGGTATTTTCG
1 TTAAAAACT-TTGATTGTACCTTAAAAAGGTGAAATTACCAAAATATCTTTTAAGGGTATTTTTG
*
15809739 TAATTTAACCTTTT
65 TAATTTGACCTTTT
15809753 TATGTTAGTT
Statistics
Matches: 297, Mismatches: 59, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
142 44 0.15
143 54 0.18
144 198 0.67
145 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (142 bp):
TTAAAAACTTTGATTGTACCTTAAAAAGGTGAAATTACCAAAATATCTTTTAAGGGTATTTTTGT
AATTTGACCTTTTCAAGATAGCTTTTATACAAAAGCTCTAGATCATGTTTTGATATTATTCCATA
AATTTTGATGAA
Found at i:15811280 original size:19 final size:19
Alignment explanation
Indices: 15811256--15811366 Score: 98
Period size: 19 Copynumber: 5.5 Consensus size: 19
15811246 TAAATACCTT
15811256 AAACCTT-AACCCTAAATC
1 AAACCTTAAACCCTAAATC
*
15811274 AAAACCTCATAAATACCCTAAAGCC
1 -AAACCT--T-AA-ACCCTAAA-TC
* *
15811299 TAACCCTAAACCCTAAAGTC
1 AAACCTTAAACCCTAAA-TC
* *
15811319 AAACCTTAAACCTTAAAAC
1 AAACCTTAAACCCTAAATC
*
15811338 AAACCTTAAACCCTAAACC
1 AAACCTTAAACCCTAAATC
15811357 AAACCTTAAA
1 AAACCTTAAA
15811367 ACTTACTCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
19 34 0.45
20 24 0.32
21 3 0.04
22 1 0.01
23 1 0.01
24 12 0.16
25 1 0.01
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.19
Consensus pattern (19 bp):
AAACCTTAAACCCTAAATC
Found at i:15811303 original size:37 final size:35
Alignment explanation
Indices: 15811231--15811310 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 35
15811221 CCTAAAAAAG
*
15811231 CCTAAACCAAAACCCTAAATACCTTAAACCTTAAC
1 CCTAAACCAAAACCCTAAATACCCTAAACCTTAAC
*
15811266 CCTAAATCAAAACCTCATAAATACCCTAAAGCC-TAAC
1 CCTAAACCAAAACC-C-TAAATACCCTAAA-CCTTAAC
15811303 CCTAAACC
1 CCTAAACC
15811311 CTAAAGTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 13 0.33
36 1 0.03
37 23 0.59
38 2 0.05
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (35 bp):
CCTAAACCAAAACCCTAAATACCCTAAACCTTAAC
Found at i:15811361 original size:31 final size:30
Alignment explanation
Indices: 15811326--15811396 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
15811316 GTCAAACCTT
* *
15811326 AAACCTTAAAACAAACCTTAAACCCTAAACC
1 AAACCTTAAAACAAA-CTCAAACCCTAAAAC
**
15811357 AAACCTTAAAACTTACTCAAACCCTAAAAC
1 AAACCTTAAAACAAACTCAAACCCTAAAAC
*
15811387 AAACCCTAAA
1 AAACCTTAAA
15811397 CCCAAAACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 22 0.63
31 13 0.37
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (30 bp):
AAACCTTAAAACAAACTCAAACCCTAAAAC
Found at i:15816148 original size:7 final size:7
Alignment explanation
Indices: 15816123--15816170 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
15816113 TGGATGTGAC
15816123 TATTTA-
1 TATTTAT
15816129 TATTTA-
1 TATTTAT
15816135 TATTTTAT
1 TA-TTTAT
15816143 TATTTAT
1 TATTTAT
*
15816150 TATTAAT
1 TATTTAT
15816157 TATTT-T
1 TATTTAT
15816163 TA-TTAT
1 TATTTAT
15816169 TA
1 TA
15816171 AATTCTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 2 0.05
6 14 0.38
7 19 0.51
8 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TATTTAT
Found at i:15816164 original size:16 final size:17
Alignment explanation
Indices: 15816139--15816181 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
15816129 TATTTATATT
15816139 TTATTATTTATTATTAA
1 TTATTATTTATTATTAA
15816156 TTATT-TTTATTATTAAA
1 TTATTATTTATTATT-AA
*
15816173 TTCTTATTT
1 TTATTATTT
15816182 TTAAGTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 9 0.39
17 11 0.48
18 3 0.13
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTATTAA
Found at i:15816242 original size:131 final size:133
Alignment explanation
Indices: 15816082--15816348 Score: 448
Period size: 136 Copynumber: 2.0 Consensus size: 133
15816072 ATAAGGAGAC
**
15816082 CACATAGACGTTTTAACCTTTAAGCAGAATTTGGATGTGACTATTTATATTTATATTTTA-TTA-
1 CACATAGACACTTTAACCTTTAAGCAGAATTTGGATGTGACTATTTATATTTATATTTTATTTAT
*
15816145 TTTATTATTAATTATTTTTATTATTAAATTCTTATTTTTAAGTTATAGAAATATACGAAAATTCT
66 TTTATTATTAATTATTTTTATTATTAAATTCTTATTTTTAAGTTATAGAAATATACAAAAATTCT
15816210 TAA
131 TAA
*
15816213 CACATAGACACTTTAACCTTTAAGCAGAATTTGGATGTGATTATTTATATTTATATTTTATTTTA
1 CACATAGACACTTTAACCTTTAAGCAGAATTTGGATGTGACTATTTATATTTATATTTTA-TTTA
*
15816278 TTTTTTATTATTAATTATTTTTATTATTAAATTTTTATTTTTAAGTTATAGAAATATACAAAAAT
65 --TTTTATTATTAATTATTTTTATTATTAAATTCTTATTTTTAAGTTATAGAAATATACAAAAAT
15816343 TCTTAA
128 TCTTAA
15816349 TAAAATAAGA
Statistics
Matches: 126, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
131 57 0.45
133 3 0.02
136 66 0.52
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (133 bp):
CACATAGACACTTTAACCTTTAAGCAGAATTTGGATGTGACTATTTATATTTATATTTTATTTAT
TTTATTATTAATTATTTTTATTATTAAATTCTTATTTTTAAGTTATAGAAATATACAAAAATTCT
TAA
Found at i:15816286 original size:17 final size:17
Alignment explanation
Indices: 15816252--15816306 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
15816242 TTTGGATGTG
*
15816252 ATTATTTATATTTATATT
1 ATTATTTAT-TTTTTATT
15816270 -TTATTTTATTTTTTATT
1 ATTA-TTTATTTTTTATT
*
15816287 ATTAATTA-TTTTTATT
1 ATTATTTATTTTTTATT
15816303 ATTA
1 ATTA
15816307 AATTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 12 0.36
17 13 0.39
18 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTATTTATTTTTTATT
Found at i:15816298 original size:16 final size:16
Alignment explanation
Indices: 15816279--15816326 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 16
15816269 TTTATTTTAT
15816279 TTTTTATTATTAATTA
1 TTTTTATTATTAATTA
15816295 TTTTTATTATTAA--A
1 TTTTTATTATTAATTA
*
15816309 TTTTTATTTTTAAGTTA
1 TTTTTATTATTAA-TTA
15816326 T
1 T
15816327 AGAAATATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 13 0.46
16 13 0.46
17 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTATTATTAATTA
Found at i:15819134 original size:85 final size:85
Alignment explanation
Indices: 15818991--15819160 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
15818981 GCCCATATCT
15818991 TATCAAGAATTGGTAAAGGTTATAACAAACCTAGAGAGATAGTTTTGTATTTGCATTTTTGACAA
1 TATCAAGAATTGGTAAAGGTTATAACAAACCTAGAGAGATAGTTTTGTATTTGCATTTTTGACAA
15819056 ATTGTGCATTCTCTGACATG
66 ATTGTGCATTCTCTGACATG
*
15819076 TATCAAGAATTGGTAAAGGTTATAACAAACCTGGAGAGATAGTTTTGTATTTGCATTTTTGACAA
1 TATCAAGAATTGGTAAAGGTTATAACAAACCTAGAGAGATAGTTTTGTATTTGCATTTTTGACAA
15819141 ATTGTGCATTCTCTGACATG
66 ATTGTGCATTCTCTGACATG
15819161 CTACCAAACT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (85 bp):
TATCAAGAATTGGTAAAGGTTATAACAAACCTAGAGAGATAGTTTTGTATTTGCATTTTTGACAA
ATTGTGCATTCTCTGACATG
Found at i:15823055 original size:19 final size:17
Alignment explanation
Indices: 15823013--15823055 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
15823003 TTTTCCTATT
*
15823013 TTTTTTTATTTTTGTTC
1 TTTTTTTATTTTAGTTC
*
15823030 TCTTTTTATCTTCTAGTTC
1 TTTTTTTAT-TT-TAGTTC
15823049 TTTTTTT
1 TTTTTTT
15823056 TGTTTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 11 0.52
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTATTTTAGTTC
Found at i:15824054 original size:8 final size:8
Alignment explanation
Indices: 15824041--15824083 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
15824031 CTCTTCAAGC
15824041 TTTATTAT
1 TTTATTAT
15824049 TTTATTAT
1 TTTATTAT
*
15824057 CTTATACTAT
1 -TT-TATTAT
15824067 TTTATTA-
1 TTTATTAT
15824074 TTTATTAT
1 TTTATTAT
15824082 TT
1 TT
15824084 ATTTAACAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 7 0.23
8 14 0.47
9 4 0.13
10 5 0.17
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTATTAT
Found at i:15825206 original size:15 final size:16
Alignment explanation
Indices: 15825177--15825207 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15825167 GCCATAAGCA
15825177 TATCTTTTGCCTCCAC
1 TATCTTTTGCCTCCAC
15825193 TATCTTTT-CCTCCAC
1 TATCTTTTGCCTCCAC
15825208 AAGTTTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.13, C:0.39, G:0.03, T:0.45
Consensus pattern (16 bp):
TATCTTTTGCCTCCAC
Found at i:15834699 original size:357 final size:356
Alignment explanation
Indices: 15834032--15834930 Score: 1180
Period size: 357 Copynumber: 2.5 Consensus size: 356
15834022 TTGAACATAT
* * * * *
15834032 CGCCACACAAATTCTAATACTATTATTGAAGGCGTATATCCAACAAAGACACCTTTAATAATTCC
1 CGCCACATAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCC
* *
15834097 TATCACAATTTGTAGTTAATTACTGAAGGCAGTTGTAGAAAACAATGCCTTCAATAATTTTCTTT
66 TATCACAATTTGTAGTTAATTACTGAAGGCAGTTGCAGAAAACAATGCCTTCAATAA-TTTCCTT
* * * *
15834162 AAAAAAATTTT-TTAGATTATTAAAGGCATCTTTTGTTATGACAC-ACTTTCAATATACCACGAT
130 AAAAAAATTTTCATAGATTATTAAAGGCTTCTTTTATTAT-AAACGACTTT-AATATACCACGAT
** * *
15834225 ATTAATGGAAGGTGTTTATTAGAAAAGGCACCTTTAATATACCTTTAAACTTAGTAATCCATTAC
193 AGCAATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTAC
*
15834290 TAAAGGCATTTGTTAACAATAGACGCCTTCAAAATATTCTCACTTAATATTTTGAGAATTATTAA
258 TAAAGGCATTTGTTAACAACAGACGCCTTCAAAATATTCTCACTTAATATTTTGAGAATTATTAA
* *
15834355 AGGCATATTCTACTGTAAAATGCTTTTTATATAC
323 AGGCATATTCTACTGTAAAATGCCTTCTATATAC
** * *
15834389 CGCCACATAAATTCTAACACTGTTATTGAAGGCGTATATTTAAGATAGACGCCTTTAATAATTTC
1 CGCCACATAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCC
* * * * * ** *
15834454 TATCATAGTTTGTAGTTAATTACTAAAGGCAGTTACAGAAAATAACACCTTCAATAGTTTCCTTA
66 TATCACAATTTGTAGTTAATTACTGAAGGCAGTTGCAGAAAACAATGCCTTCAATAATTTCCTTA
* *
15834519 AAAAAATTTTCATAGATTTTTAAAGGCTTCTTTTATTATAAACTGACTTTAATATACCACGATGG
131 AAAAAATTTTCATAGATTATTAAAGGCTTCTTTTATTATAAAC-GACTTTAATATACCACGATAG
*
15834584 CAATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
195 CAATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTA
* * * *
15834649 AAGGCATTTGTTAATAACAGATGCCTTCAAAAT-TTTTCCACTTCATATTTTGAGAATTATTAAA
260 AAGGCATTTGTTAACAACAGACGCCTTCAAAATATTCT-CACTTAATATTTTGAGAATTATTAAA
* *
15834713 GGCATCTTCTATTGTAAAATGCCTTCTATATAC
324 GGCATATTCTACTGTAAAATGCCTTCTATATAC
* * * * *
15834746 CGCCACATAAATTCCAACACTGTTATTAAAGGTG-AGCATCCAAGAAAGACGTCTTTAATAATTC
1 CGCCACATAAATTCTAACACTGTTATTGAAGGCGTA-TATCCAAGAAAGACGCCTTTAATAATTC
* * * * * *
15834810 CTATAACAATTTGTAGATAATAACTGAAGGCGGATGCAGAAAAACAATGCCTTCAATAATTTCCC
65 CTATCACAATTTGTAGTTAATTACTGAAGGCAGTTGCAG-AAAACAATGCCTTCAATAATTTCCT
* * * *
15834875 TCAAAAAATTTTCGT-GAATTATTAAAGGCATT-TTTTAGTATAAACCGCCTTTAATA
129 TAAAAAAATTTTCATAG-ATTATTAAAGGC-TTCTTTTATTATAAA-CGACTTTAATA
15834931 AATTGTTATA
Statistics
Matches: 466, Mismatches: 67, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
356 24 0.05
357 370 0.79
358 69 0.15
359 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (356 bp):
CGCCACATAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCC
TATCACAATTTGTAGTTAATTACTGAAGGCAGTTGCAGAAAACAATGCCTTCAATAATTTCCTTA
AAAAAATTTTCATAGATTATTAAAGGCTTCTTTTATTATAAACGACTTTAATATACCACGATAGC
AATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTAA
AGGCATTTGTTAACAACAGACGCCTTCAAAATATTCTCACTTAATATTTTGAGAATTATTAAAGG
CATATTCTACTGTAAAATGCCTTCTATATAC
Found at i:15842756 original size:57 final size:56
Alignment explanation
Indices: 15842661--15842805 Score: 191
Period size: 57 Copynumber: 2.6 Consensus size: 56
15842651 TTGTGCAGAA
* * ** * * *
15842661 AAAATTAATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAATCTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ACATTTTAAAAAATTTAATCTTAAGG
* *
15842718 AAAATTGATACTTTCAACTTTTCCTCAAAAACCATTTTAAAAAATTTACTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CATTTTAAAAAATTTAATCTTAAGG
15842775 AAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA
15842806 TTTTTTTTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 1 0.01
57 77 0.99
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTAAAAAATTTAATCTTAAGG
Found at i:15842824 original size:8 final size:8
Alignment explanation
Indices: 15842811--15842840 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
15842801 AAAAATTTTT
15842811 TTTTATCA
1 TTTTATCA
15842819 TTTTATCA
1 TTTTATCA
15842827 TTTTATCA
1 TTTTATCA
15842835 TTTTAT
1 TTTTAT
15842841 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTATCA
Found at i:15845440 original size:41 final size:41
Alignment explanation
Indices: 15845390--15845476 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
15845380 TCCTCTAAGT
* * *
15845390 AGAGGCTCAATGACTTTGAAAAATAAATGGCTCTTCTAATC
1 AGAGGCTCAACGACTTTAAAAAATAAAAGGCTCTTCTAATC
15845431 AGAGGCTCAACGACTTTAAAAAATAAAAGGCTCTTCTAATC
1 AGAGGCTCAACGACTTTAAAAAATAAAAGGCTCTTCTAATC
15845472 AGAGG
1 AGAGG
15845477 TAATTTTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (41 bp):
AGAGGCTCAACGACTTTAAAAAATAAAAGGCTCTTCTAATC
Found at i:15845650 original size:97 final size:98
Alignment explanation
Indices: 15845491--15845756 Score: 381
Period size: 97 Copynumber: 2.7 Consensus size: 98
15845481 TTTGTTGTTT
* * *
15845491 TTTTTTTAATTTTTATTTAAATTTTGATCAGAGCTCTTCTAAGCAGAGGCTCAACGACTTTGAGA
1 TTTTTTT-A-TTTT-TTTAAATTTTGATCAAAGCTCCTCTAAGCAGAAGCTCAACGACTTTGAGA
15845556 AATATAAACAAAGCTCCTCTAAATAGAGGCAA-TTG
63 AATATAAACAAAGCTCCTCTAAATAGAGGCAATTTG
* * * *
15845591 TTTTTTTATTTTTTTAAATTTTAATCAAAACTCCTCTAAGCAGAAGCTCAAAGACTTTGAGAAAC
1 TTTTTTTATTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAGAAGCTCAACGACTTTGAGAAAT
* *
15845656 ATAAACAAAGCTCCTCTAAATAGAGGTAATTTT
66 ATAAACAAAGCTCCTCTAAATAGAGGCAATTTG
* *
15845689 TATTTTGTTTTTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAGAAGCTCAACGACTTTGAAAA
1 T-TTTT-TTATTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAGAAGCTCAACGACTTTGAGAA
15845754 ATA
64 ATA
15845757 AATGGCTCCT
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
97 74 0.50
98 7 0.05
99 5 0.03
100 62 0.42
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (98 bp):
TTTTTTTATTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAGAAGCTCAACGACTTTGAGAAAT
ATAAACAAAGCTCCTCTAAATAGAGGCAATTTG
Found at i:15845789 original size:41 final size:41
Alignment explanation
Indices: 15845744--15845883 Score: 139
Period size: 41 Copynumber: 3.6 Consensus size: 41
15845734 AAGCTCAACG
* *
15845744 ACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCAACGAA
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAA
* * * *
15845785 ACTTTGGAAAGTAAATTGCTCCTCTAAGC--A--CCACG--
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAA
* * *
15845820 ACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCAACAAA
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAA
* *
15845861 ACTTTGGAAAATAAATTACTCCT
1 ACTTTGAAAAATAAATTGCTCCT
15845884 TGATAATCAT
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
35 26 0.32
37 5 0.06
39 4 0.05
41 46 0.57
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (41 bp):
ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAA
Found at i:15845829 original size:76 final size:76
Alignment explanation
Indices: 15845741--15845883 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 76
15845731 CAGAAGCTCA
* * * * *
15845741 ACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCAACGAAACTTTGGAAAGTAAATTGCTC
1 ACGACTTTGAAAAATAAATGACTCCTCTAAACAGAGGCAACAAAACTTTGGAAAATAAATTACTC
15845806 CTCTAAGCACC
66 CTCTAAGCACC
* *
15845817 ACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCAACAAAACTTTGGAAAATAAATTACTC
1 ACGACTTTGAAAAATAAATGACTCCTCTAAACAGAGGCAACAAAACTTTGGAAAATAAATTACTC
15845882 CT
66 CT
15845884 TGATAATCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (76 bp):
ACGACTTTGAAAAATAAATGACTCCTCTAAACAGAGGCAACAAAACTTTGGAAAATAAATTACTC
CTCTAAGCACC
Found at i:15846164 original size:53 final size:54
Alignment explanation
Indices: 15846098--15846207 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 54
15846088 AAGACTCGCA
** * *
15846098 TCAAAGATCCTCATTT-G-AATTTTGGAAGCTCACATCCAAAAGTTCAAGGCTTT
1 TCAAAGATCCTCATTTGGCAAACTTGGAA-CTCACATCCAAAAATTCAAAGCTTT
* * * *
15846151 TCAAAGGTTCTCATTTGGCAAACTTGGAATTCATATCCAAAAATTCAAAGCTTT
1 TCAAAGATCCTCATTTGGCAAACTTGGAACTCACATCCAAAAATTCAAAGCTTT
15846205 TCA
1 TCA
15846208 TTTGAGTTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
53 14 0.30
54 25 0.53
55 8 0.17
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (54 bp):
TCAAAGATCCTCATTTGGCAAACTTGGAACTCACATCCAAAAATTCAAAGCTTT
Found at i:15847736 original size:24 final size:25
Alignment explanation
Indices: 15847709--15847770 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
15847699 CATTTTCTCA
* *
15847709 TTTTTTTCTTCTTTC-T-TTCTTTT
1 TTTTTTTTTTCTTTCATAATCTTTT
*
15847732 TTTTTATTTTTTTTTCATAATCTTTT
1 TTTTT-TTTTTCTTTCATAATCTTTT
15847758 TTTCTTTTTTTCT
1 TTT-TTTTTTTCT
15847771 CATTTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 5 0.16
24 8 0.26
25 1 0.03
26 15 0.48
27 2 0.06
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTTCTTTCATAATCTTTT
Found at i:15848135 original size:12 final size:11
Alignment explanation
Indices: 15848100--15848127 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15848090 GTGGCATTTA
15848100 TTTTTTTCTTT
1 TTTTTTTCTTT
15848111 TTTTTTTCTTT
1 TTTTTTTCTTT
15848122 TTTTTT
1 TTTTTT
15848128 CCATTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:15854991 original size:13 final size:14
Alignment explanation
Indices: 15854963--15855001 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
15854953 AAAAATTAAA
*
15854963 AAATGATAAATATG
1 AAATGAAAAATATG
*
15854977 AAAT-AAAAATCTG
1 AAATGAAAAATATG
15854990 AAATGAAAAATA
1 AAATGAAAAATA
15855002 ATAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (14 bp):
AAATGAAAAATATG
Found at i:15857980 original size:166 final size:166
Alignment explanation
Indices: 15857697--15858036 Score: 529
Period size: 166 Copynumber: 2.0 Consensus size: 166
15857687 TTTTTTATGC
** * *
15857697 AATTAATGAAAGTGTTTTTAGCAAGAAAACACCTTCAATCACCCCTAACAGAAAATATTGAAGGC
1 AATTAATGAAAGCATTTTTAGCAAGAAAACACATTCAATCACCCCTAACAGAAAACATTGAAGGC
* * *
15857762 ATTTTTTTTACCAAAATCACTTTCAATAATCCCCCCAGGAAATTATTGTTTGGAATATTAAAGGC
66 A-GTTTTTTACCAAAATCACCTTCAATAATCCCCCCAAGAAATTATTGTTTGGAATATTAAAGGC
*
15857827 ATTTTGGGCAAAAAATGCCTTCAAAAATACCAATTAAA
130 ATTTTGGG-AAAAAATGCCTTCAAAAATACCAACTAAA
* * * *
15857865 AATTAATGAAGGCATTTTTAGCAAGAAAACGCATTCAATCACCCTTAATAGAAAACATTGAAGGC
1 AATTAATGAAAGCATTTTTAGCAAGAAAACACATTCAATCACCCCTAACAGAAAACATTGAAGGC
*
15857930 -GTTTTTTACCAAAATCGCCTTCAATAATCCCCCCAAGAAATTATTGTTTGGAATATTAAAGGCA
66 AGTTTTTTACCAAAATCACCTTCAATAATCCCCCCAAGAAATTATTGTTTGGAATATTAAAGGCA
*
15857994 TTTTGGGAAAAAATGCCTTCAATAATACCAACTAAA
131 TTTTGGGAAAAAATGCCTTCAAAAATACCAACTAAA
15858030 AATTAAT
1 AATTAAT
15858037 CAAATGGATT
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
165 34 0.22
166 67 0.42
168 57 0.36
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (166 bp):
AATTAATGAAAGCATTTTTAGCAAGAAAACACATTCAATCACCCCTAACAGAAAACATTGAAGGC
AGTTTTTTACCAAAATCACCTTCAATAATCCCCCCAAGAAATTATTGTTTGGAATATTAAAGGCA
TTTTGGGAAAAAATGCCTTCAAAAATACCAACTAAA
Found at i:15860214 original size:28 final size:26
Alignment explanation
Indices: 15860178--15860231 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15860168 TATATCATAG
*
15860178 TGAGTTAAAAAACTGTTAAAAAACAATT
1 TGAGCTAAAAAA-TG-TAAAAAACAATT
* *
15860206 TGAGCTAAAACATGTACAAAACAATT
1 TGAGCTAAAAAATGTAAAAAACAATT
15860232 GAGTTCTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.48
27 2 0.09
28 10 0.43
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (26 bp):
TGAGCTAAAAAATGTAAAAAACAATT
Found at i:15863185 original size:22 final size:22
Alignment explanation
Indices: 15863144--15863184 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15863134 AAATAAGAAC
15863144 AAGAAAAGAAAATGAAAAAATT
1 AAGAAAAGAAAATGAAAAAATT
*
15863166 AAGAAAA-AAAGTGAAAAAA
1 AAGAAAAGAAAATGAAAAAA
15863185 AAGAATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (22 bp):
AAGAAAAGAAAATGAAAAAATT
Found at i:15864188 original size:103 final size:104
Alignment explanation
Indices: 15864081--15864283 Score: 223
Period size: 104 Copynumber: 2.0 Consensus size: 104
15864071 TCCAGTTATA
* ** * *
15864081 TTTAGTTATTGACTTGTGATTCAATCTCAGTCATTTTT-TTTT-TGACAAGTGATTT-AGTTTTG
1 TTTAGTTATTAACTTACGATTCAATCCCAGTCATTTTTATTTTCTGACAAGTG-TTTCA-TTTTA
* *
15864143 GTCATTTTTATTTCCTGACTTATGGTTTACTCTTGATTAGT
64 GTCATTTTTATTTCCTGACTTACGATTTACTCTTGATTAGT
* * * * **
15864184 TTTAGTTTTTAACTTACGATTCAGTCCCAGTCGTTTTTATTTTCTTACTTGTGTTTCATTTTAGT
1 TTTAGTTATTAACTTACGATTCAATCCCAGTCATTTTTATTTTCTGACAAGTGTTTCATTTTAGT
** *
15864249 CATTTTTATTTTTTGACTTACGATTTAGTCTTGAT
66 CATTTTTATTTCCTGACTTACGATTTACTCTTGAT
15864284 CATTTTTATT
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
103 31 0.38
104 43 0.53
105 7 0.09
ACGTcount: A:0.19, C:0.13, G:0.14, T:0.55
Consensus pattern (104 bp):
TTTAGTTATTAACTTACGATTCAATCCCAGTCATTTTTATTTTCTGACAAGTGTTTCATTTTAGT
CATTTTTATTTCCTGACTTACGATTTACTCTTGATTAGT
Found at i:15864268 original size:69 final size:71
Alignment explanation
Indices: 15864183--15864351 Score: 184
Period size: 69 Copynumber: 2.4 Consensus size: 71
15864173 TCTTGATTAG
* * * * * ***
15864183 TTTTAGTTTTTAACTTACGATTCAGTCCCAG-TCGTTTTTATTTTCTTACTTGT-GTTTCA-TTT
1 TTTTATTTTTTGACTTACGATTCAGTCCCAGATCATTTTTATTTCCTAACTTGTAG-TTCAGCCC
15864245 TAGTCAT
65 TAGTCAT
* **
15864252 TTTTATTTTTTGACTTACGATTTAGT-CTTGATCATTTTTATTTCCTAACTTGTAGTTCAGCCCT
1 TTTTATTTTTTGACTTACGATTCAGTCCCAGATCATTTTTATTTCCTAACTTGTAGTTCAGCCCT
15864316 AGTCAT
66 AGTCAT
**
15864322 TTTTATTTTTTGACTTGTGATTCAGTCCCA
1 TTTTATTTTTTGACTTACGATTCAGTCCCA
15864352 TTCATTTCAT
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
68 2 0.03
69 46 0.57
70 31 0.39
71 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.12, T:0.53
Consensus pattern (71 bp):
TTTTATTTTTTGACTTACGATTCAGTCCCAGATCATTTTTATTTCCTAACTTGTAGTTCAGCCCT
AGTCAT
Found at i:15864291 original size:104 final size:104
Alignment explanation
Indices: 15864109--15864345 Score: 245
Period size: 104 Copynumber: 2.3 Consensus size: 104
15864099 ATTCAATCTC
** * * * *
15864109 AGTCA-TTTT-TTTTTTGACAAGTGATTTAGTTTTGGTCATTTTTATTTCCTGACTTATGGTTTA
1 AGTCATTTTTATTTTTTGACTTGTGATTCA-TTTTAGTCATTTTTATTTCCTGACTTACGATTTA
* *
15864172 CTCTTGATTAGTTTTAGTTT-TTAAC-T-TACGATTCAGTCCC-
65 CTCTTGATCAGTTTTA-TTTCCTAACTTGTA-G-TTCAG-CCCT
* * **
15864212 AGTCGTTTTTATTTTCTT-ACTTGTGTTTCATTTTAGTCATTTTTATTTTTTGACTTACGATTTA
1 AGTCATTTTTATTTT-TTGACTTGTGATTCATTTTAGTCATTTTTATTTCCTGACTTACGATTTA
* *
15864276 GTCTTGATCATTTTTATTTCCTAACTTGTAGTTCAGCCCT
65 CTCTTGATCAGTTTTATTTCCTAACTTGTAGTTCAGCCCT
15864316 AGTCATTTTTATTTTTTGACTTGTGATTCA
1 AGTCATTTTTATTTTTTGACTTGTGATTCA
15864346 GTCCCATTCA
Statistics
Matches: 110, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
103 12 0.11
104 80 0.73
105 14 0.13
106 4 0.04
ACGTcount: A:0.19, C:0.14, G:0.13, T:0.54
Consensus pattern (104 bp):
AGTCATTTTTATTTTTTGACTTGTGATTCATTTTAGTCATTTTTATTTCCTGACTTACGATTTAC
TCTTGATCAGTTTTATTTCCTAACTTGTAGTTCAGCCCT
Found at i:15864357 original size:35 final size:35
Alignment explanation
Indices: 15864039--15864399 Score: 143
Period size: 35 Copynumber: 10.5 Consensus size: 35
15864029 GTTTAGTCTT
* * *
15864039 AGTCATTTTTGTTTCTTGACTTGA-GATTCAGTTCC
1 AGTCATTTTTATTTTTTGACTT-ATGATTCAGTCCC
* * * * * * *
15864074 AGTTATATTTAGTTATTGACTTGTGATTCAATCTC
1 AGTCATTTTTATTTTTTGACTTATGATTCAGTCCC
* * ***
15864109 AGTCA-TTTT-TTTTTTGAC-AAGTGATTTAGTTTT
1 AGTCATTTTTATTTTTTGACTTA-TGATTCAGTCCC
* ** * * * *
15864142 GGTCATTTTTATTTCCTGACTTATGGTTTACT-CT
1 AGTCATTTTTATTTTTTGACTTATGATTCAGTCCC
* * * * * *
15864176 TGATTAGTTTTAGTTTTTAACTTACGATTCAGTCCC
1 AG-TCATTTTTATTTTTTGACTTATGATTCAGTCCC
* * * ***
15864212 AGTCGTTTTTATTTTCTT-ACTTGTGTTTCA-TTTT
1 AGTCATTTTTATTTT-TTGACTTATGATTCAGTCCC
* * *
15864246 AGTCATTTTTATTTTTTGACTTACGATTTAGT-CT
1 AGTCATTTTTATTTTTTGACTTATGATTCAGTCCC
* ** * *
15864280 TGATCATTTTTATTTCCTAACTTGT-AGTTCAG-CCC
1 AG-TCATTTTTATTTTTTGACTTATGA-TTCAGTCCC
*
15864315 TAGTCATTTTTATTTTTTGACTTGTGATTCAGTCCC
1 -AGTCATTTTTATTTTTTGACTTATGATTCAGTCCC
* * * *
15864351 ATTCA-TTTCA-TTTTGGACTTATGATTTAGTCCC
1 AGTCATTTTTATTTTTTGACTTATGATTCAGTCCC
*
15864384 AATCATTTTTATTTTT
1 AGTCATTTTTATTTTT
15864400 CAACTTGCGT
Statistics
Matches: 234, Mismatches: 74, Indels: 36
0.68 0.22 0.10
Matches are distributed among these distances:
33 45 0.19
34 43 0.18
35 136 0.58
36 10 0.04
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (35 bp):
AGTCATTTTTATTTTTTGACTTATGATTCAGTCCC
Found at i:15864376 original size:33 final size:33
Alignment explanation
Indices: 15864328--15864391 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
15864318 TCATTTTTAT
* * *
15864328 TTTTTGACTTGTGATTCAGTCCCATTCATTTCA
1 TTTTGGACTTATGATTCAGTCCCAATCATTTCA
*
15864361 TTTTGGACTTATGATTTAGTCCCAATCATTT
1 TTTTGGACTTATGATTCAGTCCCAATCATTT
15864392 TTATTTTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (33 bp):
TTTTGGACTTATGATTCAGTCCCAATCATTTCA
Found at i:15864668 original size:35 final size:36
Alignment explanation
Indices: 15864601--15864679 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
15864591 ATCATTGTCG
*
15864601 TTTTTATTTCCTAACTTATGGTTCAGTCTTGGTCAT
1 TTTTTATTTCCTAACATATGGTTCAGTCTTGGTCAT
* * *
15864637 TTTTTGTTTCTTAACATGTGGTTCAGT-TTGGTCA-
1 TTTTTATTTCCTAACATATGGTTCAGTCTTGGTCAT
*
15864671 TCTTTATTT
1 TTTTTATTT
15864680 TTTAACCTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 7 0.19
35 7 0.19
36 23 0.62
ACGTcount: A:0.15, C:0.14, G:0.15, T:0.56
Consensus pattern (36 bp):
TTTTTATTTCCTAACATATGGTTCAGTCTTGGTCAT
Found at i:15864850 original size:35 final size:35
Alignment explanation
Indices: 15864805--15864943 Score: 125
Period size: 35 Copynumber: 4.0 Consensus size: 35
15864795 TCAATCTAGT
* * * * *
15864805 TCATCTTTATTTTTTAACTTACGATTTATTCTTGG
1 TCATTTTTATTTCTTGACTTACGATTCAGTCTTGG
* * * * * * *
15864840 TCATTTTTATTTCCTCACTTGCGGTTGAGTCTCGA
1 TCATTTTTATTTCTTGACTTACGATTCAGTCTTGG
* **
15864875 TCATTTTTATTTCTTGACTCATTATTCAGTCTTGG
1 TCATTTTTATTTCTTGACTTACGATTCAGTCTTGG
* *
15864910 TCATTTTTATTTTTTGACTTACGGTTCAGTCTTG
1 TCATTTTTATTTCTTGACTTACGATTCAGTCTTG
15864944 AACATTATAT
Statistics
Matches: 79, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 79 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (35 bp):
TCATTTTTATTTCTTGACTTACGATTCAGTCTTGG
Found at i:15865345 original size:10 final size:10
Alignment explanation
Indices: 15865332--15865376 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
15865322 TTAAACATGA
15865332 TCAAACTTAG
1 TCAAACTTAG
*
15865342 TCAAACTTGG
1 TCAAACTTAG
*
15865352 TCAAATTTAG
1 TCAAACTTAG
15865362 TCAAACTTGAG
1 TCAAACTT-AG
15865373 TCAA
1 TCAA
15865377 CCCTTGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 24 0.80
11 6 0.20
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (10 bp):
TCAAACTTAG
Done.