Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 105 of 121
Found at i:17928763 original size:21 final size:20
Alignment explanation
Indices: 17928733--17928801 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 20
17928723 TAAAAAAGAT
*
17928733 AAATATATTAATAGATAACAAA
1 AAATAGATTAATA-ATAA-AAA
17928755 AAATA-ATTAGATAAATAAAAA
1 AAATAGATTA-AT-AATAAAAA
*
17928776 AAATAGATAAATAATAATAAA
1 AAATAGATTAATAATAA-AAA
17928797 AAATA
1 AAATA
17928802 AAAGCAGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 5 0.12
21 22 0.52
22 14 0.33
23 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (20 bp):
AAATAGATTAATAATAAAAA
Found at i:17928767 original size:18 final size:17
Alignment explanation
Indices: 17928742--17928789 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
17928732 TAAATATATT
17928742 AATAGATAACA-AAAAATA
1 AATAGATAA-ATAAAAA-A
*
17928760 ATTAGATAAATAAAAAA
1 AATAGATAAATAAAAAA
17928777 AATAGATAAATAA
1 AATAGATAAATAA
17928790 TAATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (17 bp):
AATAGATAAATAAAAAA
Found at i:17928771 original size:26 final size:25
Alignment explanation
Indices: 17928716--17928804 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
17928706 TTAATCAAAA
* *
17928716 AAATAAATAAAAAAGATAAATATAT
1 AAATAAATAAAAAAAATAAATAGAT
* * *
17928741 TAATAGATAACAAAAAATAATTAGAT
1 AAATAAATAA-AAAAAATAAATAGAT
*
17928767 AAATAAA-AAAAATAGATAAATA-AT
1 AAATAAATAAAAA-AAATAAATAGAT
*
17928791 -AATAAA-AAATAAAA
1 AAATAAATAAAAAAAA
17928805 GCAGATAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 5 0.10
25 17 0.33
26 17 0.33
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (25 bp):
AAATAAATAAAAAAAATAAATAGAT
Found at i:17928798 original size:24 final size:24
Alignment explanation
Indices: 17928771--17928852 Score: 71
Period size: 27 Copynumber: 3.4 Consensus size: 24
17928761 TTAGATAAAT
17928771 AAAAAAAATAGATAAATAATAATAA
1 AAAAAAAATAGATAAATAATAAT-A
*
17928796 AAAATAAAAGCAGATAAATAATAA-A
1 AAAA-AAAA-TAGATAAATAATAATA
* **
17928821 AATATTAATAGATAAA-AA-AATA
1 AAAAAAAATAGATAAATAATAATA
*
17928843 AAAATAAATA
1 AAAAAAAATA
17928853 TTAATAAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 2 0.04
22 11 0.23
23 7 0.15
24 2 0.04
25 8 0.17
26 4 0.09
27 13 0.28
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (24 bp):
AAAAAAAATAGATAAATAATAATA
Found at i:17928799 original size:43 final size:42
Alignment explanation
Indices: 17928718--17928887 Score: 111
Period size: 44 Copynumber: 4.0 Consensus size: 42
17928708 AATCAAAAAA
* * *
17928718 ATAAATAAAAAAGATAAATATATTAATAGATAACAAAAAATAATTAG
1 ATAAATAAAAAAAATAGATA-AATAATAGAT-A-AAAAAATAA--AG
*
17928765 ATAAATAAAAAAAATAGATAAATAATA-ATAAAAAATAAAAGCAG
1 ATAAATAAAAAAAATAGATAAATAATAGATAAAAAA-ATAA--AG
* *
17928809 ATAAATAATAAAAAT--AT---TAATAGATAAAAAAATAAAA
1 ATAAATAAAAAAAATAGATAAATAATAGATAAAAAAATAAAG
* * * *
17928846 ATAAATATTAATAAATAGACAAATAATA-AAAATAAAAATAAA
1 ATAAATA-AAAAAAATAGATAAATAATAGATAA-AAAAATAAA
17928888 AGCCAATTGG
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
37 8 0.08
38 5 0.05
39 8 0.08
40 9 0.09
42 5 0.05
43 19 0.19
44 20 0.20
45 2 0.02
46 6 0.06
47 18 0.18
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.23
Consensus pattern (42 bp):
ATAAATAAAAAAAATAGATAAATAATAGATAAAAAAATAAAG
Found at i:17928838 original size:17 final size:17
Alignment explanation
Indices: 17928720--17928839 Score: 58
Period size: 17 Copynumber: 7.2 Consensus size: 17
17928710 TCAAAAAAAT
*
17928720 AAATAA-AAAAGAT-AA
1 AAATAATAATAGATAAA
* *
17928735 ATATATTAATAGATAACA
1 AAATAATAATAGATAA-A
17928753 AAA-AATAATTAGATAAA
1 AAATAATAA-TAGATAAA
*
17928770 TAAA-AAAAATAGATAAA
1 -AAATAATAATAGATAAA
* * *
17928787 TAATAATAAAAAATAAA
1 AAATAATAATAGATAAA
17928804 AGCAGAT-A-AATA-AT-AA
1 A--A-ATAATAATAGATAAA
*
17928820 AAATATTAATAGATAAA
1 AAATAATAATAGATAAA
17928837 AAA
1 AAA
17928840 ATAAAAATAA
Statistics
Matches: 79, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
13 2 0.03
14 1 0.01
15 8 0.10
16 13 0.16
17 31 0.39
18 20 0.25
19 2 0.03
20 2 0.03
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (17 bp):
AAATAATAATAGATAAA
Found at i:17928853 original size:28 final size:30
Alignment explanation
Indices: 17928811--17928881 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 30
17928801 AAAAGCAGAT
* *
17928811 AAATAATAA-AAATATTAATAGATA-A-AA
1 AAATAAAAATAAATATTAATAAATAGACAA
17928838 AAATAAAAATAAATATTAATAAATAGACAA
1 AAATAAAAATAAATATTAATAAATAGACAA
17928868 ATAATAAAAATAAA
1 A-AATAAAAATAAA
17928882 AATAAAAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 8 0.21
28 14 0.37
29 1 0.03
30 3 0.08
31 12 0.32
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATAAAAATAAATATTAATAAATAGACAA
Found at i:17928860 original size:24 final size:24
Alignment explanation
Indices: 17928777--17928849 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
17928767 AAATAAAAAA
17928777 AATAGATAAATAATAATAAAAAATAA-
1 AATAGATAAA-AA-AAT-AAAAATAAT
* * *
17928803 AAGCAGAT-AAATAATAAAAATATT
1 AA-TAGATAAAAAAATAAAAATAAT
17928827 AATAGATAAAAAAATAAAAATAA
1 AATAGATAAAAAAATAAAAATAA
17928850 ATATTAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
23 11 0.29
24 18 0.47
25 1 0.03
26 4 0.11
27 4 0.11
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.22
Consensus pattern (24 bp):
AATAGATAAAAAAATAAAAATAAT
Found at i:17928880 original size:85 final size:83
Alignment explanation
Indices: 17928731--17928890 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 83
17928721 AATAAAAAAG
* * *
17928731 ATAAATATATTAATAGATAACAAAAAATAATTAGATAAATAAAAAAAATAGATAAATAATAATAA
1 ATAAAAATATTAATAGATAACAAAAAATAA-TAAATAAATAAAAAAAATAGACAAATAATAAT-A
17928796 AAAATAAAAGCAGATAAATA
64 AAAATAAAAGCAGATAAATA
* *
17928816 ATAAAAATATTAATAGAT-A-AAAAAATAA-AAATAAATATTAATAAATAGACAAATAATAAAAA
1 ATAAAAATATTAATAGATAACAAAAAATAATAAATAAATA-AAAAAAATAGACAAATAAT---AA
17928878 TAAAAATAAAAGC
62 TAAAAATAAAAGC
17928891 CAATTGGGCC
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
81 8 0.12
82 16 0.24
83 9 0.14
84 13 0.20
85 20 0.30
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (83 bp):
ATAAAAATATTAATAGATAACAAAAAATAATAAATAAATAAAAAAAATAGACAAATAATAATAAA
AATAAAAGCAGATAAATA
Found at i:17929074 original size:31 final size:31
Alignment explanation
Indices: 17929039--17929127 Score: 133
Period size: 31 Copynumber: 2.9 Consensus size: 31
17929029 TTTTGAAAAA
* * *
17929039 CTCAAAGATTTTCATTTCATACTCAAACATT
1 CTCAAAGATTCTCATTTAAGACTCAAACATT
* *
17929070 CTCAAAGATTCTCATTTAAGACTCGAAGATT
1 CTCAAAGATTCTCATTTAAGACTCAAACATT
17929101 CTCAAAGATTCTCATTTAAGACTCAAA
1 CTCAAAGATTCTCATTTAAGACTCAAA
17929128 GGTTTTCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (31 bp):
CTCAAAGATTCTCATTTAAGACTCAAACATT
Found at i:17929110 original size:10 final size:10
Alignment explanation
Indices: 17929060--17929114 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
17929050 TCATTTCATA
*
17929060 CTCAAACATT
1 CTCAAAGATT
17929070 CTCAAAGATT
1 CTCAAAGATT
17929080 CTCATTTAAGA--
1 CTCA---AAGATT
*
17929091 CTCGAAGATT
1 CTCAAAGATT
17929101 CTCAAAGATT
1 CTCAAAGATT
17929111 CTCA
1 CTCA
17929115 TTTAAGACTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
8 4 0.11
10 26 0.70
11 3 0.08
13 4 0.11
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (10 bp):
CTCAAAGATT
Found at i:17929400 original size:16 final size:16
Alignment explanation
Indices: 17929379--17929411 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17929369 CTCCAAACAA
17929379 TAATGCGTAATG-CATG
1 TAATGCG-AATGTCATG
17929395 TAATGCGAATGTCATG
1 TAATGCGAATGTCATG
17929411 T
1 T
17929412 CATGAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (16 bp):
TAATGCGAATGTCATG
Found at i:17930357 original size:27 final size:25
Alignment explanation
Indices: 17930319--17930399 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 25
17930309 TTTTCTCTCA
*
17930319 TTTTCATTTTTTTTCATTATTTAATTT
1 TTTTCATCTTTTTTC-TT-TTTAATTT
*
17930346 TTTTCATCTTTTTTCTTTTT--TCT
1 TTTTCATCTTTTTTCTTTTTAATTT
*
17930369 CTTTC-TCTTTTTT-TTTTTAATTT
1 TTTTCATCTTTTTTCTTTTTAATTT
17930392 TTTTCATC
1 TTTTCATC
17930400 CATTAGTGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 5 0.11
22 8 0.17
23 12 0.26
24 2 0.04
25 3 0.07
26 2 0.04
27 14 0.30
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCATCTTTTTTCTTTTTAATTT
Found at i:17930371 original size:16 final size:16
Alignment explanation
Indices: 17930344--17930381 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17930334 ATTATTTAAT
*
17930344 TTTTTTCATCTTTTTTC
1 TTTTTTCATC-TTTCTC
17930361 TTTTTTC-TCTTTCTC
1 TTTTTTCATCTTTCTC
17930376 TTTTTT
1 TTTTTT
17930382 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCATCTTTCTC
Found at i:17930776 original size:10 final size:9
Alignment explanation
Indices: 17930757--17930796 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
17930747 GTGGCATTCA
17930757 TTTTTTTTC
1 TTTTTTTTC
17930766 TTTTCTTTTC
1 TTTT-TTTTC
*
17930776 TTTTTTTTA
1 TTTTTTTTC
*
17930785 TTTTTTATC
1 TTTTTTTTC
17930794 TTT
1 TTT
17930797 GAAACCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:17935020 original size:18 final size:18
Alignment explanation
Indices: 17934986--17935021 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17934976 TAACGACTCG
*
17934986 ACTCAGAAGCTTAGCTCA
1 ACTCAGAAGCATAGCTCA
*
17935004 ACTCAGAAGCATGGCTCA
1 ACTCAGAAGCATAGCTCA
17935022 GCTCGACTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (18 bp):
ACTCAGAAGCATAGCTCA
Found at i:17937073 original size:2 final size:2
Alignment explanation
Indices: 17937068--17937094 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17937058 TGTGTGTGTC
17937068 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 T
17937095 TAGATTTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17939340 original size:2 final size:2
Alignment explanation
Indices: 17939333--17939368 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17939323 TCATCTGTCA
*
17939333 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17939369 TGCTAAAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17940790 original size:28 final size:26
Alignment explanation
Indices: 17940752--17940816 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 26
17940742 TTTTCTTTAC
17940752 TATTTGTTTTTGGCTTTTT-ATTTAAGTTT
1 TATTT-TTTTTGGCTTTTTCATTT-A--TT
*
17940781 TATTTTTTTT-TCTTTTTCATTTATT
1 TATTTTTTTTGGCTTTTTCATTTATT
17940806 TATTTTTTTTG
1 TATTTTTTTTG
17940817 TAAAAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 12 0.36
27 7 0.21
28 9 0.27
29 5 0.15
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.75
Consensus pattern (26 bp):
TATTTTTTTTGGCTTTTTCATTTATT
Found at i:17940997 original size:16 final size:16
Alignment explanation
Indices: 17940976--17941011 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17940966 TTATTTTTTC
*
17940976 TATACAAACATATATA
1 TATACAAACAAATATA
*
17940992 TATACATACAAATATA
1 TATACAAACAAATATA
17941008 TATA
1 TATA
17941012 TGTATATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (16 bp):
TATACAAACAAATATA
Found at i:17941024 original size:18 final size:18
Alignment explanation
Indices: 17941003--17941047 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
17940993 ATACATACAA
*
17941003 ATATATATATGTATATGT
1 ATATATATACGTATATGT
*
17941021 ATATGTATACGTATATGT
1 ATATATATACGTATATGT
*
17941039 ATTTATATA
1 ATATATATA
17941048 ATAATTGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (18 bp):
ATATATATACGTATATGT
Found at i:17941034 original size:6 final size:6
Alignment explanation
Indices: 17941003--17941040 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
17940993 ATACATACAA
* *
17941003 ATATAT ATATGT ATATGT ATATGT ATACGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT
17941041 TTATATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (6 bp):
ATATGT
Found at i:17941047 original size:12 final size:12
Alignment explanation
Indices: 17941003--17941047 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
17940993 ATACATACAA
17941003 ATATATATATGT
1 ATATATATATGT
*
17941015 ATATGTATATGT
1 ATATATATATGT
**
17941027 ATACGTATATGT
1 ATATATATATGT
*
17941039 ATTTATATA
1 ATATATATA
17941048 ATAATTGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (12 bp):
ATATATATATGT
Found at i:17951298 original size:7 final size:7
Alignment explanation
Indices: 17951286--17951337 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
17951276 CAATCGTAAG
17951286 TTTTTAT
1 TTTTTAT
17951293 TTTTTATT
1 TTTTTA-T
17951301 TCTTGTTAT
1 T-TT-TTAT
17951310 TTTTTAT
1 TTTTTAT
*
17951317 TTTTGATT
1 TTTTTA-T
17951325 TATTTTAT
1 T-TTTTAT
17951333 TTTTT
1 TTTTT
17951338 GTGGTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 19 0.50
8 8 0.21
9 8 0.21
10 3 0.08
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:17951311 original size:17 final size:17
Alignment explanation
Indices: 17951289--17951381 Score: 66
Period size: 17 Copynumber: 5.5 Consensus size: 17
17951279 TCGTAAGTTT
17951289 TTATTTTTTATTTCTTG
1 TTATTTTTTATTTCTTG
17951306 TTATTTTTTATTT-TTG
1 TTATTTTTTATTTCTTG
* *
17951322 ATT-TATTTTATTTTTTG
1 -TTATTTTTTATTTCTTG
** * * *
17951339 TGGTTTTTTGTTTTTTA
1 TTATTTTTTATTTCTTG
* *
17951356 TTATCTTTT-TTTCTTAC
1 TTATTTTTTATTTCTT-G
17951373 TTATTTTTT
1 TTATTTTTT
17951382 TAATTGTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
16 18 0.30
17 43 0.70
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (17 bp):
TTATTTTTTATTTCTTG
Found at i:17951317 original size:24 final size:23
Alignment explanation
Indices: 17951286--17951337 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
17951276 CAATCGTAAG
* *
17951286 TTTTTATTTTTTATTTCTTGTTAT
1 TTTTTATTTTTGATTTATT-TTAT
17951310 TTTTTATTTTTGATTTATTTTAT
1 TTTTTATTTTTGATTTATTTTAT
17951333 TTTTT
1 TTTTT
17951338 GTGGTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (23 bp):
TTTTTATTTTTGATTTATTTTAT
Found at i:17951334 original size:33 final size:32
Alignment explanation
Indices: 17951286--17951381 Score: 88
Period size: 33 Copynumber: 3.0 Consensus size: 32
17951276 CAATCGTAAG
17951286 TTTTT-ATT-TTTTATTTCTTGTTATTTTTTA
1 TTTTTGATTATTTTATTTCTTGTTATTTTTTA
* ** *
17951316 TTTTTGATTTATTTTATTTTTTGTGGTTTTTTG
1 TTTTTGA-TTATTTTATTTCTTGTTATTTTTTA
* * *
17951349 TTTTTTATTATCTTTTTTTCTTACTTATTTTTT
1 TTTTTGATTAT-TTTATTTCTT-GTTATTTTTT
17951382 TAATTGTGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
30 5 0.10
31 1 0.02
32 6 0.12
33 32 0.63
34 7 0.14
ACGTcount: A:0.11, C:0.04, G:0.06, T:0.78
Consensus pattern (32 bp):
TTTTTGATTATTTTATTTCTTGTTATTTTTTA
Found at i:17956688 original size:24 final size:24
Alignment explanation
Indices: 17956661--17956712 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17956651 ACATACGGAC
** *
17956661 ATATATGTATATATGTGTATATGT
1 ATATATGTATATATACGTATATCT
17956685 ATATATGTATATATACGTATATCT
1 ATATATGTATATATACGTATATCT
17956709 ATAT
1 ATAT
17956713 GGTAATTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (24 bp):
ATATATGTATATATACGTATATCT
Found at i:17956706 original size:8 final size:8
Alignment explanation
Indices: 17956661--17956698 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
17956651 ACATACGGAC
17956661 ATATATGT
1 ATATATGT
17956669 ATATATGT
1 ATATATGT
*
17956677 GTATATGT
1 ATATATGT
17956685 ATATATGT
1 ATATATGT
17956693 ATATAT
1 ATATAT
17956699 ACGTATATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (8 bp):
ATATATGT
Found at i:17958633 original size:16 final size:16
Alignment explanation
Indices: 17958614--17958659 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
17958604 ATACACACAC
* *
17958614 ATATATATGTATTTGT
1 ATATATATATATATGT
17958630 ATATATATATATATGT
1 ATATATATATATATGT
* *
17958646 ATATGTATTTATAT
1 ATATATATATATAT
17958660 AATAATTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (16 bp):
ATATATATATATATGT
Found at i:17958639 original size:22 final size:22
Alignment explanation
Indices: 17958614--17958660 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
17958604 ATACACACAC
*
17958614 ATATATATGTATTTGTATATAT
1 ATATATATGTATATGTATATAT
*
17958636 ATATATATGTATATGTATTTAT
1 ATATATATGTATATGTATATAT
17958658 ATA
1 ATA
17958661 ATAATTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
ATATATATGTATATGTATATAT
Found at i:17964039 original size:15 final size:15
Alignment explanation
Indices: 17964019--17964050 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17964009 GGCTTGCCAA
17964019 AGGGGTTTTCAAGCT
1 AGGGGTTTTCAAGCT
17964034 AGGGGTTTTCAAGCT
1 AGGGGTTTTCAAGCT
17964049 AG
1 AG
17964051 TGATGGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.34, T:0.31
Consensus pattern (15 bp):
AGGGGTTTTCAAGCT
Found at i:17965928 original size:22 final size:20
Alignment explanation
Indices: 17965901--17965941 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
17965891 TTGAGTGATC
17965901 AATTCATGATTTAGTGATTACA
1 AATTCA-GATTT-GTGATTACA
*
17965923 AATTCAGCTTTGTGATTAC
1 AATTCAGATTTGTGATTAC
17965942 TTGTGTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (20 bp):
AATTCAGATTTGTGATTACA
Found at i:17973355 original size:20 final size:20
Alignment explanation
Indices: 17973291--17973355 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
17973281 AGCTCTGGGA
* *
17973291 TTTTTAAATTTTTAGG-CTT
1 TTTTTGAATTTTTAGGTTTT
* * * *
17973310 TTTTAGAAAGTTTTAGATTTC
1 TTTTTG-AATTTTTAGGTTTT
17973331 TTTTTGAATTTTTAGGTTTT
1 TTTTTGAATTTTTAGGTTTT
17973351 TTTTT
1 TTTTT
17973356 AGGTTTTGGC
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
19 4 0.12
20 24 0.71
21 6 0.18
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (20 bp):
TTTTTGAATTTTTAGGTTTT
Found at i:17973781 original size:26 final size:25
Alignment explanation
Indices: 17973745--17973838 Score: 93
Period size: 25 Copynumber: 3.7 Consensus size: 25
17973735 CTATCACAAG
* *
17973745 TTTTTGTTTTTCTATTTCATTTTAT
1 TTTTTATTTTTTTATTTCATTTTAT
*
17973770 TTTTTATTTTTTGATTT-ATTTTAT
1 TTTTTATTTTTTTATTTCATTTTAT
* *
17973794 TTTTT-GTTTTTTATTATTCCTTTTATT
1 TTTTTATTTTTTTA-T-TTCATTTTA-T
17973821 TTTTTATTTTTTTTATTT
1 TTTTTA-TTTTTTTATTT
17973839 TTGATTGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
23 6 0.11
24 13 0.23
25 16 0.29
26 5 0.09
27 8 0.14
28 1 0.02
29 7 0.12
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.80
Consensus pattern (25 bp):
TTTTTATTTTTTTATTTCATTTTAT
Found at i:17973834 original size:17 final size:17
Alignment explanation
Indices: 17973745--17973840 Score: 81
Period size: 17 Copynumber: 5.6 Consensus size: 17
17973735 CTATCACAAG
* *
17973745 TTTTTGTTTTTCTATTT
1 TTTTTATTTTTTTATTT
*
17973762 CATTTTA-TTTTTTA-TT
1 -TTTTTATTTTTTTATTT
*
17973778 TTTTGATTTATTTTATTT
1 TTTTTATTT-TTTTATTT
* *
17973796 TTTGTT-TTTTATTATTC
1 TTT-TTATTTTTTTATTT
*
17973813 CTTTTATTTTTTTATTT
1 TTTTTATTTTTTTATTT
17973830 TTTTTATTTTT
1 TTTTTATTTTT
17973841 GATTGTGATT
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
15 4 0.07
16 6 0.10
17 38 0.62
18 12 0.20
19 1 0.02
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTATTTTTTTATTT
Found at i:17973840 original size:7 final size:7
Alignment explanation
Indices: 17973764--17973832 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
17973754 TTCTATTTCA
17973764 TTTTATT
1 TTTTATT
17973771 TTTTATT
1 TTTTATT
17973778 TTTTGATTT
1 TTTT-A-TT
17973787 ATTTTATT
1 -TTTTATT
*
17973795 TTTTGTT
1 TTTTATT
17973802 TTTTATT
1 TTTTATT
* **
17973809 ATTCCTT
1 TTTTATT
*
17973816 TTAT-TT
1 TTTTATT
17973822 TTTTATT
1 TTTTATT
17973829 TTTT
1 TTTT
17973833 TTATTTTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
6 5 0.10
7 34 0.69
8 3 0.06
9 3 0.06
10 4 0.08
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:17979289 original size:24 final size:24
Alignment explanation
Indices: 17979262--17979307 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17979252 TATTTGATGT
*
17979262 ATTATGAG-TATATAGATTTTATAA
1 ATTATGAGTTATAT-CATTTTATAA
*
17979286 ATTATTAGTTATATCATTTTAT
1 ATTATGAGTTATATCATTTTAT
17979308 TAATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (24 bp):
ATTATGAGTTATATCATTTTATAA
Found at i:17980550 original size:6 final size:6
Alignment explanation
Indices: 17980541--17980593 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
17980531 ACATACGGAC
* * * * * *
17980541 ATATAT ATATGT ATGTGT ATATGT ATATAT GTATGT ATACGT ATATCT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
17980589 ATATG
1 ATATG
17980594 GTAATTGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (6 bp):
ATATGT
Found at i:17980568 original size:24 final size:24
Alignment explanation
Indices: 17980541--17980592 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17980531 ACATACGGAC
** *
17980541 ATATATATATGTATGTGTATATGT
1 ATATATATATGTATACGTATATCT
*
17980565 ATATATGTATGTATACGTATATCT
1 ATATATATATGTATACGTATATCT
17980589 ATAT
1 ATAT
17980593 GGTAATTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (24 bp):
ATATATATATGTATACGTATATCT
Found at i:17982385 original size:13 final size:13
Alignment explanation
Indices: 17982367--17982392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17982357 CTCCAAAGGA
17982367 AAAGATTTCATTT
1 AAAGATTTCATTT
17982380 AAAGATTTCATTT
1 AAAGATTTCATTT
17982393 TTGTAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAGATTTCATTT
Found at i:17985465 original size:16 final size:15
Alignment explanation
Indices: 17985430--17985484 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
17985420 TGATTCAAAC
*
17985430 TCATTTTT-TTATTT
1 TCATTTTTATTTTTT
17985444 TC-TTTTTATTTTTAT
1 TCATTTTTATTTTT-T
17985459 TCATTTTTATTTATTT
1 TCATTTTTATTT-TTT
*
17985475 T-ATATTTATT
1 TCATTTTTATT
17985485 ATATCTATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 5 0.14
14 6 0.17
15 11 0.31
16 11 0.31
17 2 0.06
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
TCATTTTTATTTTTT
Found at i:17985481 original size:11 final size:10
Alignment explanation
Indices: 17985433--17985484 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
17985423 TTCAAACTCA
17985433 TTTT-TTTAT
1 TTTTATTTAT
*
17985442 TTTCTTTTTAT
1 TTT-TATTTAT
*
17985453 TTTTATTCAT
1 TTTTATTTAT
17985463 TTTTATTTAT
1 TTTTATTTAT
17985473 TTTATATTTAT
1 TTT-TATTTAT
17985484 T
1 T
17985485 ATATCTATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 3 0.08
10 18 0.49
11 16 0.43
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:17987414 original size:25 final size:25
Alignment explanation
Indices: 17987377--17987428 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
17987367 GGAAAACTTT
*
17987377 ATTTGTTTGGTTTTAAAGAGACAAA
1 ATTTATTTGGTTTTAAAGAGACAAA
* * *
17987402 ATTTATTTTGTTTTAGAGAGAGAAA
1 ATTTATTTGGTTTTAAAGAGACAAA
17987427 AT
1 AT
17987429 AAATTGACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (25 bp):
ATTTATTTGGTTTTAAAGAGACAAA
Found at i:17993983 original size:23 final size:24
Alignment explanation
Indices: 17993954--17994001 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
17993944 AAGTTTCAAT
*
17993954 TTTTTAA-AAATATATATTTAAAA
1 TTTTTAATAAATATAAATTTAAAA
17993977 TTTTTAATTAAATATAAATTTAAAA
1 TTTTTAA-TAAATATAAATTTAAAA
17994002 AATTAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
25 15 0.68
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTTAATAAATATAAATTTAAAA
Found at i:17994019 original size:20 final size:20
Alignment explanation
Indices: 17993982--17994019 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17993972 TAAAATTTTT
*
17993982 AATTAAATATAAATTTAAAA
1 AATTAAATATAAAATTAAAA
17994002 AATTAAA-ATCAAAATTAA
1 AATTAAATAT-AAAATTAA
17994020 GTTATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAATATAAAATTAAAA
Found at i:17994613 original size:22 final size:22
Alignment explanation
Indices: 17994579--17994628 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
17994569 ATTTTTTGAC
* *
17994579 AAAA-AATTGATTGGTTAACGA
1 AAAATAATTGATTGATCAACGA
* *
17994600 AAAATAATTTATTGATCAATGA
1 AAAATAATTGATTGATCAACGA
17994622 AAAATAA
1 AAAATAA
17994629 GATTATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (22 bp):
AAAATAATTGATTGATCAACGA
Found at i:17994780 original size:19 final size:18
Alignment explanation
Indices: 17994740--17994785 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
17994730 AATTTTGTTT
* *
17994740 ATAAATAATATTATATTA
1 ATAAATAATATAATAATA
17994758 ATAAATAATATAAATAATA
1 ATAAATAATAT-AATAATA
17994777 ATAAATAAT
1 ATAAATAAT
17994786 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAATAATATAATAATA
Found at i:17994838 original size:19 final size:20
Alignment explanation
Indices: 17994797--17994843 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
17994787 TTATTTTAAG
17994797 TATTTTT-ATATTAACATAA
1 TATTTTTAATATTAACATAA
*
17994816 TATTTTTAATATTAA-ATAT
1 TATTTTTAATATTAACATAA
*
17994835 TATTATTAA
1 TATTTTTAA
17994844 AATATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTTAATATTAACATAA
Found at i:18000048 original size:49 final size:49
Alignment explanation
Indices: 17999991--18000091 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
17999981 GTGCTCAACA
*
17999991 TTGTATAATTTTAAATTTTACTTCAACCAACCTACCTATTTCCAGCCTG
1 TTGTATAATTTTAAATTTTACTTCAACCAACCTACCTATTTCCACCCTG
** *
18000040 TTGTATAATTTTAAATTTTACTTCAATGAACCTCCCTATTTCCACCCTG
1 TTGTATAATTTTAAATTTTACTTCAACCAACCTACCTATTTCCACCCTG
18000089 TTG
1 TTG
18000092 AGATATGGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.43
Consensus pattern (49 bp):
TTGTATAATTTTAAATTTTACTTCAACCAACCTACCTATTTCCACCCTG
Found at i:18000104 original size:49 final size:49
Alignment explanation
Indices: 18000002--18000104 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
17999992 TGTATAATTT
* * **
18000002 TAAATTTTACTTCAACCAACCTACCTATTTCCAGCCTGTTGTATAATTT
1 TAAATTTTACTTCAACCAACCTACCTATTTCCACCCTGTTGGATAATGG
** *
18000051 TAAATTTTACTTCAATGAACCTCCCTATTTCCACCCTGTTGAGAT-ATGG
1 TAAATTTTACTTCAACCAACCTACCTATTTCCACCCTGTTG-GATAATGG
18000100 TAAAT
1 TAAAT
18000105 GAAAGAGTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
49 44 0.96
50 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (49 bp):
TAAATTTTACTTCAACCAACCTACCTATTTCCACCCTGTTGGATAATGG
Found at i:18000442 original size:64 final size:64
Alignment explanation
Indices: 18000363--18000491 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
18000353 GACACTACTT
* *
18000363 TCGCCTAATTTCATTGTTCAAGATGAACAGCAAAACCAATGCAGAATCAGAAAAAGGAAGAATA
1 TCGCCTAATTTCATTGATCAAGATGAACAGCAAAACCAATACAGAATCAGAAAAAGGAAGAATA
*
18000427 TCGCCTAATTTCATTGATCAATATGAACAGCAAAACCAATACAGAATCAGAAAAAGGAAGAATA
1 TCGCCTAATTTCATTGATCAAGATGAACAGCAAAACCAATACAGAATCAGAAAAAGGAAGAATA
18000491 T
1 T
18000492 GTTATGAGGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.21
Consensus pattern (64 bp):
TCGCCTAATTTCATTGATCAAGATGAACAGCAAAACCAATACAGAATCAGAAAAAGGAAGAATA
Found at i:18004140 original size:13 final size:13
Alignment explanation
Indices: 18004124--18004149 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18004114 CATGATTAAT
18004124 ATAAAAATCAACC
1 ATAAAAATCAACC
18004137 ATAAAAATCAACC
1 ATAAAAATCAACC
18004150 CACTTATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAATCAACC
Found at i:18005856 original size:99 final size:93
Alignment explanation
Indices: 18005730--18005912 Score: 267
Period size: 99 Copynumber: 1.9 Consensus size: 93
18005720 AGGTCAATCA
* *
18005730 TTGGCTTCTTTAATACAACTTTCATTGAAAATTGAAAAGCAACAGGCATGAAAGATTTTTTTTTT
1 TTGGCTTCTTTAATACAACTTTCATTGAAAATTGAAAAGCAACAAGCATGAAA-A-----TTTTC
18005795 TTTTCAAATTGTATACAACTCATAAAGTCAAACC
60 TTTTCAAATTGTATACAACTCATAAAGTCAAACC
* * *
18005829 TTGGCTTTTTTTATACAACTTTCATTGAAAATTGAAGAGCAACAAGCATGAAAATTTTCTTTTCA
1 TTGGCTTCTTTAATACAACTTTCATTGAAAATTGAAAAGCAACAAGCATGAAAATTTTCTTTTCA
18005894 AATTGTATACAACTCATAA
66 AATTGTATACAACTCATAA
18005913 TCATCACCAA
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
93 29 0.37
98 1 0.01
99 49 0.62
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (93 bp):
TTGGCTTCTTTAATACAACTTTCATTGAAAATTGAAAAGCAACAAGCATGAAAATTTTCTTTTCA
AATTGTATACAACTCATAAAGTCAAACC
Found at i:18007991 original size:10 final size:10
Alignment explanation
Indices: 18007976--18008009 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18007966 CTTGGGTATG
18007976 AAAAAAAA-A
1 AAAAAAAACA
18007985 AAAAAAAACA
1 AAAAAAAACA
*
18007995 AAACAAAACA
1 AAAAAAAACA
18008005 AAAAA
1 AAAAA
18008010 CTTAAGGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:18008002 original size:17 final size:17
Alignment explanation
Indices: 18007977--18008010 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18007967 TTGGGTATGA
18007977 AAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAC
* *
18007994 AAAACAAAACAAAAAAC
1 AAAAAAAAAAAAAAAAC
18008011 TTAAGGTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAC
Found at i:18010190 original size:17 final size:18
Alignment explanation
Indices: 18010168--18010201 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18010158 ACCTCTAAGT
*
18010168 TCTTTTA-TTATGAAACA
1 TCTTTTAGTGATGAAACA
18010185 TCTTTTAGTGATGAAAC
1 TCTTTTAGTGATGAAAC
18010202 TACTTTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (18 bp):
TCTTTTAGTGATGAAACA
Found at i:18016087 original size:17 final size:16
Alignment explanation
Indices: 18016061--18016095 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
18016051 GACAACTCCC
*
18016061 TTTTCTTTTTTTCCTTT
1 TTTTCATTTTTT-CTTT
18016078 TTTTCATTTTTTCTTT
1 TTTTCATTTTTTCTTT
18016094 TT
1 TT
18016096 GGATTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCATTTTTTCTTT
Found at i:18016607 original size:11 final size:11
Alignment explanation
Indices: 18016591--18016629 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
18016581 CTCATAAGAA
18016591 ATTTGTTTGAG
1 ATTTGTTTGAG
*
18016602 ATTTGTTAGAG
1 ATTTGTTTGAG
*
18016613 ATTTGTTTGGG
1 ATTTGTTTGAG
18016624 ATTTGT
1 ATTTGT
18016630 CAGATATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (11 bp):
ATTTGTTTGAG
Found at i:18016810 original size:52 final size:52
Alignment explanation
Indices: 18016654--18016798 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
18016644 TGGACAAGAA
* * * * *
18016654 GACTTGCAAAAGAAGAATT-TCAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAG-GGATTCTTAATAGGTAAGTTT
* * *
18016706 GACTTGCAAGCGAAGAATTCTAAAAAGAAATGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAATAGGTAAGTTT
* * *
18016758 GACTTACAAGAGAAGAATTCTAAGAGGAGAGGGATTCTTAA
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAA
18016799 GGGGCAAGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 72 0.90
53 8 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:18017336 original size:31 final size:31
Alignment explanation
Indices: 18017296--18017380 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
18017286 AGGCTTTTAG
18017296 CCCAACAAATGGTATCAGAGCTGCGATGATC
1 CCCAACAAATGGTATCAGAGCTGCGATGATC
* * * *
18017327 CTCAACAAATAGTATCAGAGCTGTGGTGATC
1 CCCAACAAATGGTATCAGAGCTGCGATGATC
18017358 CCCAACAAATGGTATCAGAGCTG
1 CCCAACAAATGGTATCAGAGCTG
18017381 AAGGTTCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGCGATGATC
Found at i:18017402 original size:25 final size:25
Alignment explanation
Indices: 18017374--18017456 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
18017364 AAATGGTATC
*
18017374 AGAGCTGAAGGTTCAAAACGTGAGA
1 AGAGCTGAAGGTTCAAGACGTGAGA
* * *
18017399 AGAGTTGAAGATTCAAGATGTG-GAA
1 AGAGCTGAAGGTTCAAGACGTGAG-A
*
18017424 AGAG-TCGAAGGTTCGAGACGTGA-A
1 AGAGCT-GAAGGTTCAAGACGTGAGA
18017448 AGAGCTGAA
1 AGAGCTGAA
18017457 AGTTTAAGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
24 10 0.21
25 37 0.79
ACGTcount: A:0.39, C:0.10, G:0.34, T:0.18
Consensus pattern (25 bp):
AGAGCTGAAGGTTCAAGACGTGAGA
Found at i:18017719 original size:11 final size:11
Alignment explanation
Indices: 18017702--18017742 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
18017692 AAATCTCATA
18017702 AGATTTGTTTG
1 AGATTTGTTTG
*
18017713 GGATTTGTTTG
1 AGATTTGTTTG
18017724 AGATTTGTTTG
1 AGATTTGTTTG
18017735 AGATTTGT
1 AGATTTGT
18017743 CAGATATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:18017847 original size:52 final size:52
Alignment explanation
Indices: 18017779--18017921 Score: 157
Period size: 52 Copynumber: 2.8 Consensus size: 52
18017769 CTTGTAAAAG
* *
18017779 AAGAATTCAAAGAG-AAAGATGATTCTTAATAGGTAAGTTTAACTTGCAAGAA
1 AAGAATTCAAAGAGAAAAGA-GATTCTTAATAGGCAAGTTTAACTTACAAGAA
* *
18017831 AAGAATTCTAAA-AGAAAAGAGATTCTTAATAGGCAAGTTTGACTTACAAGAG
1 AAGAATTC-AAAGAGAAAAGAGATTCTTAATAGGCAAGTTTAACTTACAAGAA
** * * * *
18017883 AAGAATTTTAAGAGGAGAG-GATCCTTAATGGGCAAGTTT
1 AAGAATTCAAAGAGAAAAGAGATTCTTAATAGGCAAGTTT
18017922 GTATGATTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
51 20 0.26
52 50 0.64
53 8 0.10
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (52 bp):
AAGAATTCAAAGAGAAAAGAGATTCTTAATAGGCAAGTTTAACTTACAAGAA
Found at i:18018450 original size:31 final size:31
Alignment explanation
Indices: 18018410--18018494 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
18018400 AGGCTTTTAG
18018410 CCCAACAAATGGTATCAGAGCTGTGGTGATC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
* * *
18018441 CTCAACAAATAGTATCAGAGCTGTGGTGTTC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
* *
18018472 CCCAACAAGTGGTATCAAAGCTG
1 CCCAACAAATGGTATCAGAGCTG
18018495 AAGGTTCGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGTGGTGATC
Found at i:18018849 original size:11 final size:11
Alignment explanation
Indices: 18018833--18018871 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18018823 CTCATAAGAA
18018833 ATTTGTTTGAG
1 ATTTGTTTGAG
*
18018844 ATTTGTTAGAG
1 ATTTGTTTGAG
* *
18018855 ATTTATTTGGG
1 ATTTGTTTGAG
18018866 ATTTGT
1 ATTTGT
18018872 CAGATATTGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.54
Consensus pattern (11 bp):
ATTTGTTTGAG
Found at i:18018976 original size:52 final size:53
Alignment explanation
Indices: 18018896--18019052 Score: 214
Period size: 52 Copynumber: 3.0 Consensus size: 53
18018886 TGGACAAGAA
*
18018896 GACTTGCAAAAGAAGAATT-TCAAGAGAAAGA-GGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCT-AAGAGAAAGAGGGATTCTTAATAGGTAAGTTT
* *
18018948 GACTTGCAAGAGAAGAATTCTAAAAGAAA-ATGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGGATTCTTAATAGGTAAGTTT
* * * *
18019000 GACTTACAAGAGAAGAATTCTAAGAG-GAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGGATTCTTAATAGGTAAGTTT
18019052 G
1 G
18019053 TATGGTTATA
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 2 0.02
52 91 0.97
53 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (53 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGGATTCTTAATAGGTAAGTTT
Found at i:18019574 original size:31 final size:31
Alignment explanation
Indices: 18019537--18019621 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
18019527 AGGCTTTTAG
18019537 CCCAACAAATGGTATCAGAGCTGTGGTGATC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
* * *
18019568 CTCAACAAATAGTATCAGAGCTATGGTGATC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
18019599 CCCAACAAATGGTATCAGAGCTG
1 CCCAACAAATGGTATCAGAGCTG
18019622 AAGGTTCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGTGGTGATC
Found at i:18019643 original size:25 final size:25
Alignment explanation
Indices: 18019615--18019702 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
18019605 AAATGGTATC
*
18019615 AGAGCTGAAGGTTCAAAACGTGAGA
1 AGAGCTGAAGGTTCAAGACGTGAGA
* * *
18019640 AGAGTTGAAGATTCAAGATGTG-GAA
1 AGAGCTGAAGGTTCAAGACGTGAG-A
* * *
18019665 AGAGCCGAAGGTTCGAGACGTTA-A
1 AGAGCTGAAGGTTCAAGACGTGAGA
*
18019689 AGAGCTGAAAGTTC
1 AGAGCTGAAGGTTC
18019703 GAGGTTTGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
24 14 0.29
25 35 0.71
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.19
Consensus pattern (25 bp):
AGAGCTGAAGGTTCAAGACGTGAGA
Found at i:18019960 original size:11 final size:11
Alignment explanation
Indices: 18019943--18019983 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
18019933 AAATCCCATA
18019943 AGATTTGTTTG
1 AGATTTGTTTG
*
18019954 GGATTTGTTTG
1 AGATTTGTTTG
18019965 AGATTTGTTTG
1 AGATTTGTTTG
18019976 AGATTTGT
1 AGATTTGT
18019984 CAGATATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:18020163 original size:51 final size:51
Alignment explanation
Indices: 18020008--18020163 Score: 195
Period size: 52 Copynumber: 3.0 Consensus size: 51
18019998 TGGACAAGAA
* * * *
18020008 GACTTGCAAAAGAAGAATTCCAAGAGAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAG-AAGAGGATTCTTAATAGGCAAGTTT
* * * *
18020060 AACTTGCAAGAAAAGAATTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAGA-GGATTCTTAATAGGCAAGTTT
* * *
18020112 GACTTACAAGAGAAGAATTCTAAGAGGAGAGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAGAGGATTCTTAATAGGCAAGTTT
18020163 G
1 G
18020164 TATGGTTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
51 24 0.27
52 64 0.73
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAGAGGATTCTTAATAGGCAAGTTT
Found at i:18020605 original size:12 final size:12
Alignment explanation
Indices: 18020588--18020622 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
18020578 TGTCTCTTGT
18020588 TTGTTTGATTTA
1 TTGTTTGATTTA
18020600 TTGTTTGATTTA
1 TTGTTTGATTTA
18020612 TTGTTTGATTT
1 TTGTTTGATTT
18020623 CGTTTCCGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (12 bp):
TTGTTTGATTTA
Found at i:18020699 original size:31 final size:31
Alignment explanation
Indices: 18020659--18020743 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
18020649 AGGCTTTTAG
18020659 CCCAACAAATGGTATCAGAGCTGTGGTGATC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
* * *
18020690 CTCAACAAATAGTATCAGAGCTGTGGTGTTC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
* *
18020721 CCCAACAAGTGGTATCAAAGCTG
1 CCCAACAAATGGTATCAGAGCTG
18020744 AAGGTTCGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGTGGTGATC
Found at i:18021098 original size:11 final size:11
Alignment explanation
Indices: 18021082--18021120 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
18021072 CTCATAAGAA
18021082 ATTTGTTTGAG
1 ATTTGTTTGAG
*
18021093 ATTTGTTAGAG
1 ATTTGTTTGAG
*
18021104 ATTTGTTTGGG
1 ATTTGTTTGAG
18021115 ATTTGT
1 ATTTGT
18021121 CAGATATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (11 bp):
ATTTGTTTGAG
Found at i:18021232 original size:52 final size:52
Alignment explanation
Indices: 18021145--18021301 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
18021135 TGGACAAGAA
* *
18021145 GACTTGCAAAAGAAGAATTTTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAA-AGGATTCTTAATAGGTAAGTTT
* *
18021197 GACTTGCAAGAGAAGAATTCTAAAAGGAAATGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGTAAGTTT
* * * * *
18021249 GACTTACAAGCA-AAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGTAAGTTT
18021301 G
1 G
18021302 TATGGTTATA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 88 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGTAAGTTT
Found at i:18025531 original size:11 final size:12
Alignment explanation
Indices: 18025516--18025549 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18025506 CTTTTCTACT
18025516 TTTTAAAAAATA
1 TTTTAAAAAATA
*
18025528 -TTTAATAAATA
1 TTTTAAAAAATA
18025539 TTTTAAAAAAT
1 TTTTAAAAAAT
18025550 TATAAAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTTAAAAAATA
Found at i:18026102 original size:22 final size:23
Alignment explanation
Indices: 18026065--18026116 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
18026055 TTTTTTTAAA
*
18026065 AAAATATTTAATAAATATTTTCT
1 AAAATATTTAAAAAATATTTTCT
18026088 AAAAT-TTTAAAAAATA-TTT-T
1 AAAATATTTAAAAAATATTTTCT
18026108 AAAATATTT
1 AAAATATTT
18026117 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 6 0.22
21 6 0.22
22 10 0.37
23 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATATTTAAAAAATATTTTCT
Found at i:18028508 original size:27 final size:27
Alignment explanation
Indices: 18028470--18028526 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
18028460 CATTTTTCAT
18028470 GTTGAATTGTTGTAACAGCCAATCCAA
1 GTTGAATTGTTGTAACAGCCAATCCAA
18028497 GTTGAATTGTTGTAACAGCCAATCCAA
1 GTTGAATTGTTGTAACAGCCAATCCAA
18028524 GTT
1 GTT
18028527 TGCAGCTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (27 bp):
GTTGAATTGTTGTAACAGCCAATCCAA
Found at i:18028984 original size:3 final size:3
Alignment explanation
Indices: 18028976--18029005 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18028966 TTTTATTCTT
18028976 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18029006 ATCTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18029811 original size:18 final size:18
Alignment explanation
Indices: 18029790--18029830 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18029780 GTTTTGCAGG
18029790 TTTTTCCTTTTT-TTTTTC
1 TTTTT-CTTTTTATTTTTC
18029808 TTTTTCTTTTTATTTTTC
1 TTTTTCTTTTTATTTTTC
*
18029826 GTTTT
1 TTTTT
18029831 GATTTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTATTTTTC
Found at i:18029861 original size:12 final size:12
Alignment explanation
Indices: 18029829--18029867 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18029819 ATTTTTCGTT
* *
18029829 TTGATTTTGATT
1 TTGATTTTTATG
18029841 TTGATTTTTTATG
1 TTGA-TTTTTATG
18029854 TTGATTTTTATG
1 TTGATTTTTATG
18029866 TT
1 TT
18029868 ATTATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTGATTTTTATG
Found at i:18029874 original size:3 final size:3
Alignment explanation
Indices: 18029866--18029897 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18029856 GATTTTTATG
18029866 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18029898 GTTGTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18030698 original size:51 final size:51
Alignment explanation
Indices: 18030607--18030712 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 51
18030597 CCAAAATTGA
* * * * * **
18030607 GATAATCTTAAAACTTATTCAAAATTTTTTAGAATTTCACCGAAGTGTCGG
1 GATAATATTAAAACTTATTCAAAAATTTTGAGAATCTCACCAAAAAGTCGG
* *
18030658 GATAATATTAAAATTTATTTAATAAATTTTGAGAA-CTCACCAAAAAGTCGG
1 GATAATATTAAAACTTATTCAA-AAATTTTGAGAATCTCACCAAAAAGTCGG
18030709 GATA
1 GATA
18030713 TTCCTAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
51 35 0.78
52 10 0.22
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (51 bp):
GATAATATTAAAACTTATTCAAAAATTTTGAGAATCTCACCAAAAAGTCGG
Found at i:18030868 original size:3 final size:3
Alignment explanation
Indices: 18030860--18030892 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18030850 TAGAATACGA
18030860 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18030893 GTTAATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18039748 original size:211 final size:211
Alignment explanation
Indices: 18039378--18039802 Score: 690
Period size: 211 Copynumber: 2.0 Consensus size: 211
18039368 GAAAGCCTTT
*
18039378 TGATTCAAGGAGAAAATTTGCAACTCATCACTCTTACCGTAAAGACTTTTCACAGAACATTCCAG
1 TGATTCAAGGAGAAAATTTGCAACTCATCACTCTTACCATAAAGACTTTTCACAGAACATTCCAG
* *
18039443 ATTTCACAAGCAATAGATAAGCGTAAATAACGCTTCATAATTTCTGACTCATGGACGTCATAGTC
66 ATTTCACAAGCAATAGATAAGCGTAAATAACGCTTCATAATTTCTAACTCATGGACATCATAGTC
* *
18039508 AACTCTTTACTTTTTGATTTTCGGCATATCACTTTTCATA-TCCATCTTCTTTTTTTGCAAGTGG
131 AACTCTTTACTTTCTGATTTTCAGCATATCACTTTTCATAGT-CATCTTCTTTTTTTGCAAGTGG
*
18039572 CTTCGTACGTCTTGCCA
195 CTTCGTACATCTTGCCA
* * * * *
18039589 TGATTCAAGGAGAAAGTTTGGAACTCATCACTCTTATCATAAAGACTTTTCATAGAGCATTCCAG
1 TGATTCAAGGAGAAAATTTGCAACTCATCACTCTTACCATAAAGACTTTTCACAGAACATTCCAG
* * * *
18039654 ATTTCACAAGCAATGGGTAAGTGTAAATAACGCTTCATAATTTCTAACTCATGTACATCATAGTC
66 ATTTCACAAGCAATAGATAAGCGTAAATAACGCTTCATAATTTCTAACTCATGGACATCATAGTC
*
18039719 AACTCTTTACTTTCTGATTTTTAGCATATCACTTTTCATAGTCATCTTCTTTTTTTGCAAGTGGC
131 AACTCTTTACTTTCTGATTTTCAGCATATCACTTTTCATAGTCATCTTCTTTTTTTGCAAGTGGC
18039784 TTCGTACATCTTGCCA
196 TTCGTACATCTTGCCA
18039800 TGA
1 TGA
18039803 ATATAGGTTA
Statistics
Matches: 197, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
211 196 0.99
212 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (211 bp):
TGATTCAAGGAGAAAATTTGCAACTCATCACTCTTACCATAAAGACTTTTCACAGAACATTCCAG
ATTTCACAAGCAATAGATAAGCGTAAATAACGCTTCATAATTTCTAACTCATGGACATCATAGTC
AACTCTTTACTTTCTGATTTTCAGCATATCACTTTTCATAGTCATCTTCTTTTTTTGCAAGTGGC
TTCGTACATCTTGCCA
Found at i:18040169 original size:18 final size:18
Alignment explanation
Indices: 18040146--18040180 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18040136 GACAGAAAGG
*
18040146 AAAATTACCTAATTATCT
1 AAAATTACATAATTATCT
18040164 AAAATTACATAATTATC
1 AAAATTACATAATTATC
18040181 ATCCAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTACATAATTATCT
Found at i:18048361 original size:27 final size:23
Alignment explanation
Indices: 18048322--18048376 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 23
18048312 TAAAAATTAT
18048322 TAAATAAATTTATGTATTTATTATAA
1 TAAATAAATTTAT-TA-TTA-TATAA
18048348 TAAATAAAATTTATTATTATATAA
1 TAAAT-AAATTTATTATTATATAA
18048372 TAAAT
1 TAAAT
18048377 TAATAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.36
25 3 0.11
26 7 0.25
27 8 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAATAAATTTATTATTATATAA
Found at i:18048384 original size:27 final size:29
Alignment explanation
Indices: 18048324--18048384 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 29
18048314 AAAATTATTA
18048324 AATAAATTTATGTATTTATTATAATAAAT
1 AATAAATTTATGTATTTATTATAATAAAT
18048353 -A-AAATTTAT-TA-TTA-TATAATAAATT
1 AATAAATTTATGTATTTATTATAATAAA-T
18048378 AATAAAT
1 AATAAAT
18048385 AAATAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
24 9 0.31
25 4 0.14
26 3 0.10
27 12 0.41
28 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AATAAATTTATGTATTTATTATAATAAAT
Found at i:18048411 original size:33 final size:36
Alignment explanation
Indices: 18048346--18048443 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 36
18048336 TATTTATTAT
18048346 AATAAATAAAATTTATTATTATATAATAAATTAATA
1 AATAAATAAAATTTATTATTATATAATAAATTAATA
* *
18048382 AATAAAT-AAA-TT-TTATTATATTATGAATTAATA
1 AATAAATAAAATTTATTATTATATAATAAATTAATA
* * *
18048415 AATAAACAAAAATGTATTATTACATAATA
1 AATAAA-TAAAATTTATTATTATATAATA
18048444 CATTTTTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
33 25 0.49
34 2 0.04
35 6 0.12
36 8 0.16
37 10 0.20
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (36 bp):
AATAAATAAAATTTATTATTATATAATAAATTAATA
Found at i:18050190 original size:3 final size:3
Alignment explanation
Indices: 18050178--18050232 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
18050168 AATATTCTTG
18050178 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18050224 TTA TTA TTA
1 TTA TTA TTA
18050233 AGATTTCTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18052052 original size:14 final size:14
Alignment explanation
Indices: 18052029--18052154 Score: 51
Period size: 14 Copynumber: 8.7 Consensus size: 14
18052019 ATATGGAAGG
*
18052029 TTTAGGGTTTTGAT
1 TTTAGAGTTTTGAT
* *
18052043 TTTAGAGTTTAGAG
1 TTTAGAGTTTTGAT
**
18052057 TTTAGAGATTTTAGGG
1 TTTAGAG-TTTT-GAT
*
18052073 TTT-GGGTTTTG-T
1 TTTAGAGTTTTGAT
* *
18052085 GGTTTGGGGTTTTGAT
1 --TTTAGAGTTTTGAT
* *
18052101 TTAAGAGTTTGGAT
1 TTTAGAGTTTTGAT
18052115 TTTA-AGGATTTTGGAT
1 TTTAGA-G-TTTT-GAT
* *
18052131 TTTAAAGTTTGGAT
1 TTTAGAGTTTTGAT
*
18052145 TTAAGAGTTT
1 TTTAGAGTTT
18052155 AAAGGTTTGG
Statistics
Matches: 86, Mismatches: 16, Indels: 20
0.70 0.13 0.16
Matches are distributed among these distances:
13 2 0.02
14 50 0.58
15 19 0.22
16 14 0.16
17 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTAGAGTTTTGAT
Found at i:18052129 original size:16 final size:16
Alignment explanation
Indices: 18052108--18052228 Score: 65
Period size: 16 Copynumber: 7.6 Consensus size: 16
18052098 GATTTAAGAG
18052108 TTTGGATTTTAAGGAT
1 TTTGGATTTTAAGGAT
*
18052124 TTTGGATTTTAA--AG
1 TTTGGATTTTAAGGAT
*
18052138 TTTGGA-TTTAA-GAG
1 TTTGGATTTTAAGGAT
** * **
18052152 TTTAAAGGTTTGGGGAT
1 TTTGGA-TTTTAAGGAT
18052169 TTTGGATTTTTGAAGG-T
1 TTTGGA-TTTT-AAGGAT
18052186 TTTGGATTTT-AGGAGT
1 TTTGGATTTTAAGGA-T
* * *
18052202 TTCGGATTTTATGGGGT
1 TTTGGATTTTA-AGGAT
18052219 TTTGGATTTT
1 TTTGGATTTT
18052229 TATGAGTTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
13 5 0.06
14 16 0.20
16 29 0.36
17 26 0.32
18 4 0.05
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.50
Consensus pattern (16 bp):
TTTGGATTTTAAGGAT
Found at i:18052237 original size:17 final size:16
Alignment explanation
Indices: 18052168--18052238 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 16
18052158 GGTTTGGGGA
18052168 TTTTGGATTTT-TGAAGG
1 TTTTGGATTTTATG-A-G
*
18052185 TTTTGGATTTTAGGAG
1 TTTTGGATTTTATGAG
* *
18052201 TTTCGGATTTTATGGGG
1 TTTTGGATTTTAT-GAG
18052218 TTTTGGATTTTTATGAG
1 TTTTGGA-TTTTATGAG
18052235 TTTT
1 TTTT
18052239 AGAAACTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
16 12 0.27
17 26 0.58
18 7 0.16
ACGTcount: A:0.15, C:0.01, G:0.28, T:0.55
Consensus pattern (16 bp):
TTTTGGATTTTATGAG
Found at i:18053541 original size:23 final size:23
Alignment explanation
Indices: 18053481--18053535 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
18053471 TTTTGAAAAG
* *
18053481 AGGGGGTTCCAGA-AGGATGTTGA
1 AGGGGATTCCAGAGA-GCTGTTGA
*
18053504 ATGGGATTCCAGAGAGCTGTTGA
1 AGGGGATTCCAGAGAGCTGTTGA
18053527 AGGGGATTC
1 AGGGGATTC
18053536 TCGAGAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.25, C:0.11, G:0.40, T:0.24
Consensus pattern (23 bp):
AGGGGATTCCAGAGAGCTGTTGA
Found at i:18053748 original size:16 final size:16
Alignment explanation
Indices: 18053703--18053748 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
18053693 AGCCACCCTA
*
18053703 CTTTTTG-TTTTTTCT
1 CTTTTTGTTTTTTTTT
*
18053718 CTTTTCGTTTTTTTTT
1 CTTTTTGTTTTTTTTT
*
18053734 GTTTTTGTTTTTTTT
1 CTTTTTGTTTTTTTT
18053749 ATATAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (16 bp):
CTTTTTGTTTTTTTTT
Found at i:18053767 original size:3 final size:3
Alignment explanation
Indices: 18053761--18053801 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
18053751 ATAATTAATA
*
18053761 ATT ATT ATT -TT ATT -TT A-A ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18053802 GAAAATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 5 0.15
3 28 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18054031 original size:19 final size:19
Alignment explanation
Indices: 18054007--18054044 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18053997 TCCTGATCAA
18054007 ATAAAATTCCTATACTTAT
1 ATAAAATTCCTATACTTAT
**
18054026 ATAAAATTTTTATACTTAT
1 ATAAAATTCCTATACTTAT
18054045 CTTATATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAAAATTCCTATACTTAT
Found at i:18056703 original size:21 final size:21
Alignment explanation
Indices: 18056674--18056713 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18056664 AAGACACTTT
* *
18056674 AAATGTATTTGAGTTGGTTTC
1 AAATATATTTCAGTTGGTTTC
*
18056695 AAATATATTTCATTTGGTT
1 AAATATATTTCAGTTGGTT
18056714 ATCATAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (21 bp):
AAATATATTTCAGTTGGTTTC
Found at i:18057556 original size:17 final size:17
Alignment explanation
Indices: 18057534--18057567 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18057524 CTGTCAGGTG
*
18057534 ATCAATTACTGCATTTT
1 ATCAATTACTACATTTT
18057551 ATCAATTACTACATTTT
1 ATCAATTACTACATTTT
18057568 CAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
ATCAATTACTACATTTT
Found at i:18058560 original size:16 final size:16
Alignment explanation
Indices: 18058539--18058569 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18058529 ATAAAGGCTA
*
18058539 AATAGCTATTATGTGG
1 AATAGCCATTATGTGG
18058555 AATAGCCATTATGTG
1 AATAGCCATTATGTG
18058570 AACCAAAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (16 bp):
AATAGCCATTATGTGG
Found at i:18060767 original size:20 final size:19
Alignment explanation
Indices: 18060730--18060784 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
18060720 AATAATAATA
*
18060730 ATAATTTAATA-TATTCAAT
1 ATAATATAATATTA-TCAAT
18060749 ATTAATATAATATTATCAA-
1 A-TAATATAATATTATCAAT
18060768 ATAATATTAATTATTAT
1 ATAATA-TAA-TATTAT
18060785 TTAATAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 19 0.61
21 2 0.06
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATATAATATTATCAAT
Found at i:18060790 original size:20 final size:21
Alignment explanation
Indices: 18060767--18060879 Score: 117
Period size: 20 Copynumber: 5.4 Consensus size: 21
18060757 AATATTATCA
*
18060767 AATAATATTAATTATT-ATTT
1 AATAATATTAAATATTAATTT
* *
18060787 AATAATATTAAATACT-ATTG
1 AATAATATTAAATATTAATTT
*
18060807 AACAATATTAAATATTAATTT
1 AATAATATTAAATATTAATTT
*
18060828 AATCAA-CTTAAATATTCAATTT
1 AAT-AATATTAAATATT-AATTT
*
18060850 AATAATATTAAA-ATTTAATTA
1 AATAATATTAAATA-TTAATTT
18060871 AATAATATT
1 AATAATATT
18060880 CAACATTTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
20 31 0.40
21 30 0.38
22 17 0.22
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (21 bp):
AATAATATTAAATATTAATTT
Found at i:18060800 original size:30 final size:31
Alignment explanation
Indices: 18060724--18060861 Score: 83
Period size: 30 Copynumber: 4.5 Consensus size: 31
18060714 AAATAAAATA
*
18060724 ATAATAATAATTTAAT-ATATTCAATATTAAT
1 ATAATAAT-ATTAAATAATATTCAATATTAAT
* *
18060755 ATAATATTATCAAATAATATT-AATTATT-AT
1 ATAATAATATTAAATAATATTCAA-TATTAAT
* *
18060785 TTAATAATATTAAATACTATTGAACAATATTAA-
1 ATAATAATATTAAATAATATT---CAATATTAAT
* * *
18060818 ATATTAAT-TT-AATCAA-CTTAAATATTCAAT
1 ATAATAATATTAAAT-AATATTCAATATT-AAT
*
18060848 TTAATAATATTAAA
1 ATAATAATATTAAA
18060862 ATTTAATTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
28 6 0.07
29 2 0.02
30 32 0.40
31 23 0.28
32 5 0.06
33 10 0.12
34 3 0.04
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAATAATATTAAATAATATTCAATATTAAT
Found at i:18060874 original size:21 final size:21
Alignment explanation
Indices: 18060767--18060879 Score: 76
Period size: 21 Copynumber: 5.4 Consensus size: 21
18060757 AATATTATCA
*
18060767 AATAATATT--AATTATTATTT
1 AATAATATTAAAATT-TAATTT
* *
18060787 AATAATATT-AAATACT-ATTG
1 AATAATATTAAAAT-TTAATTT
*
18060807 AACAATATT-AAATATTAATTT
1 AATAATATTAAAAT-TTAATTT
* *
18060828 AATCAA-CTTAAATATTCAATTT
1 AAT-AATATTAAA-ATTTAATTT
*
18060850 AATAATATTAAAATTTAATTA
1 AATAATATTAAAATTTAATTT
18060871 AATAATATT
1 AATAATATT
18060880 CAACATTTTA
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
20 26 0.35
21 29 0.39
22 18 0.24
23 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (21 bp):
AATAATATTAAAATTTAATTT
Found at i:18060918 original size:28 final size:28
Alignment explanation
Indices: 18060884--18060954 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
18060874 AATATTCAAC
18060884 ATTTTAATAATATTTTACACTAAATATT
1 ATTTTAATAATATTTTACACTAAATATT
* * ** * *
18060912 CA-TTTAATGATTTTTTGTATTTAATATT
1 -ATTTTAATAATATTTTACACTAAATATT
18060940 ATTTTAATAATATTT
1 ATTTTAATAATATTT
18060955 CAATATTAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
27 1 0.03
28 31 0.94
29 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (28 bp):
ATTTTAATAATATTTTACACTAAATATT
Found at i:18060947 original size:11 final size:12
Alignment explanation
Indices: 18060931--18060982 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 12
18060921 ATTTTTTGTA
18060931 TTTAATATT-AT
1 TTTAATATTAAT
*
18060942 TTTAATAAT-AT
1 TTTAATATTAAT
*
18060953 TTCAATATTAAGT
1 TTTAATATTAA-T
18060966 TTTAAATATTAAT
1 TTT-AATATTAAT
18060979 TTTA
1 TTTA
18060983 GCAATATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 17 0.50
12 2 0.06
13 7 0.21
14 8 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
TTTAATATTAAT
Found at i:18060963 original size:28 final size:28
Alignment explanation
Indices: 18060932--18061123 Score: 97
Period size: 28 Copynumber: 6.6 Consensus size: 28
18060922 TTTTTTGTAT
18060932 TTAATATTATTTTAATAATATTTCAATATTAA
1 TTAATATTATTTTAATAATATTTC-A-A-T-A
** *
18060964 GTTTTAAATATTAATTTTAGCAATATTTTAAT-
1 ---TT-AATATT-ATTTTAATAATATTTCAATA
* * *
18060996 TAAATATTAATTTAACAATATTTC-ATA
1 TTAATATTATTTTAATAATATTTCAATA
* * * *
18061023 TAAAATATT-TTTTCATATTTTTTC-ATA
1 T-TAATATTATTTTAATAATATTTCAATA
* *
18061050 TTAAATATTAATTTAACAATATTTCACATA
1 TT-AATATTATTTTAATAATATTTCA-ATA
* * *
18061080 -AAATATTATTTTGATAATATTTTAATA
1 TTAATATTATTTTAATAATATTTCAATA
*
18061107 TTAATATTAATTTAATA
1 TTAATATTATTTTAATA
18061124 GTTTGTTAAT
Statistics
Matches: 122, Mismatches: 26, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
26 2 0.02
27 37 0.30
28 55 0.45
29 1 0.01
30 3 0.02
34 1 0.01
35 3 0.02
36 7 0.06
37 13 0.11
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (28 bp):
TTAATATTATTTTAATAATATTTCAATA
Found at i:18061042 original size:10 final size:10
Alignment explanation
Indices: 18061027--18061051 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18061017 TTCATATAAA
18061027 ATATTTTTTC
1 ATATTTTTTC
18061037 ATATTTTTTC
1 ATATTTTTTC
18061047 ATATT
1 ATATT
18061052 AAATATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATATTTTTTC
Found at i:18061062 original size:55 final size:57
Alignment explanation
Indices: 18060985--18061121 Score: 203
Period size: 55 Copynumber: 2.5 Consensus size: 57
18060975 TAATTTTAGC
*
18060985 AATATTTT-A-ATTAAATATTAATTTAACAATATTTCATATAAAATATT-TTTTCAT
1 AATATTTTAATATTAAATATTAATTTAACAATATTTCACATAAAATATTATTTTCAT
* * *
18061039 -ATTTTTTCATATTAAATATTAATTTAACAATATTTCACATAAAATATTATTTTGAT
1 AATATTTTAATATTAAATATTAATTTAACAATATTTCACATAAAATATTATTTTCAT
18061095 AATATTTTAATATT-AATATTAATTTAA
1 AATATTTTAATATTAAATATTAATTTAA
18061122 TAGTTTGTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
53 6 0.08
54 1 0.01
55 37 0.50
56 19 0.26
57 11 0.15
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (57 bp):
AATATTTTAATATTAAATATTAATTTAACAATATTTCACATAAAATATTATTTTCAT
Found at i:18061122 original size:25 final size:23
Alignment explanation
Indices: 18061094--18061198 Score: 69
Period size: 25 Copynumber: 4.5 Consensus size: 23
18061084 ATTATTTTGA
18061094 TAATATTTTAATATTAATATTAATT
1 TAATATTTTAATATT-AT-TTAATT
18061119 TAATAGTTTGTTAATATTATTTAA-T
1 TAATA--TT-TTAATATTATTTAATT
18061144 TAAT-TTTATAATA-T-TTTAATT
1 TAATATTT-TAATATTATTTAATT
* *
18061165 T--TATTTTCATATTAATATTAAAT
1 TAATATTTTAATATT-AT-TTAATT
*
18061188 TATTATTTTAA
1 TAATATTTTAA
18061199 AAAAATTCTA
Statistics
Matches: 65, Mismatches: 3, Indels: 24
0.71 0.03 0.26
Matches are distributed among these distances:
19 5 0.08
20 9 0.14
21 4 0.06
22 8 0.12
23 6 0.09
25 17 0.26
26 4 0.06
27 4 0.06
28 8 0.12
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (23 bp):
TAATATTTTAATATTATTTAATT
Found at i:18061155 original size:22 final size:22
Alignment explanation
Indices: 18061107--18061158 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18061097 TATTTTAATA
*
18061107 TTAATATTAATTTAATAGTTTG
1 TTAATATTAATTTAATAATTTG
18061129 TTAATATT-ATTTAATTAATTT-
1 TTAATATTAATTTAA-TAATTTG
18061150 TATAATATT
1 T-TAATATT
18061159 TTAATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTAATATTAATTTAATAATTTG
Found at i:18061317 original size:14 final size:14
Alignment explanation
Indices: 18061298--18061343 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
18061288 AATATTTTGT
18061298 AATATTTTATAATA
1 AATATTTTATAATA
18061312 AATATTAATT-TAAT-
1 AATATT--TTATAATA
18061326 AATATTTTAATAATA
1 AATATTTT-ATAATA
18061341 AAT
1 AAT
18061344 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
12 2 0.07
14 16 0.59
15 7 0.26
16 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTTATAATA
Found at i:18061339 original size:29 final size:28
Alignment explanation
Indices: 18061297--18061363 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
18061287 AAATATTTTG
*
18061297 TAATATTTT-ATAATAAATATTAATTTAA
1 TAATATTTTAATAATAAAT-TTAAATTAA
18061325 TAATATTTTAATAATAAATTTAAATTAA
1 TAATATTTTAATAATAAATTTAAATTAA
18061353 -AATA-TTTAATA
1 TAATATTTTAATA
18061364 TTTTACTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 7 0.19
27 4 0.11
28 17 0.46
29 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAATATTTTAATAATAAATTTAAATTAA
Found at i:18061359 original size:14 final size:15
Alignment explanation
Indices: 18061307--18061361 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
18061297 TAATATTTTA
*
18061307 TAATAA-ATATTAATT
1 TAATAATAT-TTAAAT
*
18061322 TAATAATATTTTAA-
1 TAATAATATTTAAAT
18061336 TAATAA-ATTTAAAT
1 TAATAATATTTAAAT
18061350 TAA-AATATTTAA
1 TAATAATATTTAA
18061362 TATTTTACTG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 8 0.24
14 15 0.44
15 9 0.26
16 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAATATTTAAAT
Found at i:18061411 original size:22 final size:22
Alignment explanation
Indices: 18061372--18061425 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
18061362 TATTTTACTG
18061372 TTAAATATTAATTTATTAATATT
1 TTAAATATTAATTTATTAAT-TT
18061395 TTAAA-ATT-ATTTAATTAATTT
1 TTAAATATTAATTT-ATTAATTT
18061416 TATAAATATT
1 T-TAAATATT
18061426 TTATGTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.25
22 13 0.46
23 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAATATTAATTTATTAATTT
Found at i:18061543 original size:22 final size:22
Alignment explanation
Indices: 18061501--18061543 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18061491 TTAATATAAA
**
18061501 ATATTATTTAAATAATTTTTTG
1 ATATTATTTAAATAAAATTTTG
*
18061523 ATATTATTTATATAAAATTTT
1 ATATTATTTAAATAAAATTTT
18061544 TTAAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATTATTTAAATAAAATTTTG
Found at i:18061570 original size:11 final size:10
Alignment explanation
Indices: 18061556--18061677 Score: 57
Period size: 10 Copynumber: 12.6 Consensus size: 10
18061546 AAATTTTTTA
18061556 ATTTAATATTT
1 ATTTAATA-TT
18061567 ATTTAATATT
1 ATTTAATATT
*
18061577 ATTT-TTA-T
1 ATTTAATATT
18061585 ATTTAATA-T
1 ATTTAATATT
18061594 ATTTTAATA--
1 A-TTTAATATT
18061603 ATTTAGA-A-T
1 ATTTA-ATATT
18061612 A-TTACATATT
1 ATTTA-ATATT
* *
18061622 ATTCAATAGT
1 ATTTAATATT
*
18061632 GTTT--TATT
1 ATTTAATATT
*
18061640 ATTTAACATT
1 ATTTAATATT
*
18061650 AATTTAATAAT
1 -ATTTAATATT
*
18061661 ATTTTAATTTT
1 A-TTTAATATT
18061672 ATTTAA
1 ATTTAA
18061678 CTATGTTATC
Statistics
Matches: 86, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
8 20 0.23
9 10 0.12
10 30 0.35
11 26 0.30
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTTAATATT
Found at i:18061606 original size:18 final size:18
Alignment explanation
Indices: 18061566--18061607 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18061556 ATTTAATATT
*
18061566 TATTTAATATTATTTTTA
1 TATTTAATATTATTTTAA
18061584 TATTTAATA-TATTTTAA
1 TATTTAATATTATTTTAA
18061601 TAATTTA
1 T-ATTTA
18061608 GAATATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTAATATTATTTTAA
Found at i:18065324 original size:29 final size:29
Alignment explanation
Indices: 18065282--18065345 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
18065272 AATGGAGGCA
* *
18065282 GTAATTTTGATATGATCCTTGACACTGTG
1 GTAATTTTGATATGATCCCTGACACGGTG
18065311 GTAATTTTGATATGATCCCTGACACGGTG
1 GTAATTTTGATATGATCCCTGACACGGTG
*
18065340 ATAATT
1 GTAATT
18065346 GAAGGTACCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (29 bp):
GTAATTTTGATATGATCCCTGACACGGTG
Found at i:18068043 original size:10 final size:11
Alignment explanation
Indices: 18068020--18068048 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
18068010 CAGGTTCCGC
18068020 TTTTCTTTTCT
1 TTTTCTTTTCT
18068031 TTTTCTTTT-T
1 TTTTCTTTTCT
18068041 TTTTCTTT
1 TTTTCTTT
18068049 ATTTCTCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTCT
Done.