Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 177 of 195
Found at i:29830818 original size:23 final size:23
Alignment explanation
Indices: 29830755--29830821 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
29830745 TAGTATATTA
* *
29830755 ATAAATATTATTATATTTATTAT
1 ATAAATATTATTATATTAATAAT
*
29830778 ATAAATAATATTATATTAATAAT
1 ATAAATATTATTATATTAATAAT
29830801 ATAATATATTATT-TATTAATA
1 ATAA-ATATTATTATATTAATA
29830822 TAATATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 32 0.82
24 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAAATATTATTATATTAATAAT
Found at i:29830822 original size:15 final size:15
Alignment explanation
Indices: 29830802--29830831 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29830792 ATTAATAATA
*
29830802 TAATATATTATTTAT
1 TAATATAATATTTAT
29830817 TAATATAATATTTAT
1 TAATATAATATTTAT
29830832 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATAATATTTAT
Found at i:29839664 original size:6 final size:6
Alignment explanation
Indices: 29839647--29839676 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
29839637 TAACAAAACT
*
29839647 GCAAAA GTAAAA GCAAAA GCAAAA GCAAAA
1 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA
29839677 AAATAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.67, C:0.13, G:0.17, T:0.03
Consensus pattern (6 bp):
GCAAAA
Found at i:29843242 original size:15 final size:15
Alignment explanation
Indices: 29843224--29843275 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
29843214 TCTTTTTATG
*
29843224 ATATTATTGTTTAAA
1 ATATTATTATTTAAA
29843239 ATATTA--ATTTAAA
1 ATATTATTATTTAAA
29843252 ATA-TATTACTTTAAA
1 ATATTATTA-TTTAAA
*
29843267 ATTTTATTA
1 ATATTATTA
29843276 ATGAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 9 0.29
14 1 0.03
15 14 0.45
16 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATTATTATTTAAA
Found at i:29844973 original size:18 final size:18
Alignment explanation
Indices: 29844950--29845018 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 18
29844940 ATGATTATTA
29844950 TCCACCACAAATATATCC
1 TCCACCACAAATATATCC
** * *
29844968 TCCACCTTAAATGTATCT
1 TCCACCACAAATATATCC
* **
29844986 TTCA-CACAAACGTATCC
1 TCCACCACAAATATATCC
*
29845003 CCCACCACAAATATAT
1 TCCACCACAAATATAT
29845019 TATCCTCAAA
Statistics
Matches: 37, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
17 11 0.30
18 26 0.70
ACGTcount: A:0.36, C:0.35, G:0.03, T:0.26
Consensus pattern (18 bp):
TCCACCACAAATATATCC
Found at i:29845417 original size:22 final size:23
Alignment explanation
Indices: 29845392--29845443 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
29845382 ATAAAAAAAT
* *
29845392 AAATTATTATA-AATTATTTTTA
1 AAATTATTAAATAAGTATTTTTA
29845414 AAATTATTAAATAAGTATTTTTA
1 AAATTATTAAATAAGTATTTTTA
*
29845437 TAATTAT
1 AAATTAT
29845444 AAGTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATTATTAAATAAGTATTTTTA
Found at i:29846216 original size:45 final size:45
Alignment explanation
Indices: 29846151--29846242 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
29846141 GATGAGATGC
29846151 CATCACTAGATTTCAACCTAATTATTGATAGAATACATGCCATGT
1 CATCACTAGATTTCAACCTAATTATTGATAGAATACATGCCATGT
*
29846196 CATCACTAGATTTCATCCTAATTATTGATAGAATACATGCCATGT
1 CATCACTAGATTTCAACCTAATTATTGATAGAATACATGCCATGT
29846241 CA
1 CA
29846243 CAAGATGTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.34
Consensus pattern (45 bp):
CATCACTAGATTTCAACCTAATTATTGATAGAATACATGCCATGT
Found at i:29851870 original size:11 final size:11
Alignment explanation
Indices: 29851854--29851896 Score: 86
Period size: 11 Copynumber: 3.9 Consensus size: 11
29851844 GGCTGATTCA
29851854 ATACATTTTCC
1 ATACATTTTCC
29851865 ATACATTTTCC
1 ATACATTTTCC
29851876 ATACATTTTCC
1 ATACATTTTCC
29851887 ATACATTTTC
1 ATACATTTTC
29851897 TTTGCACACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (11 bp):
ATACATTTTCC
Found at i:29853664 original size:26 final size:28
Alignment explanation
Indices: 29853635--29853688 Score: 67
Period size: 30 Copynumber: 1.9 Consensus size: 28
29853625 ATGAAGAGGA
29853635 AAGAA-GAAAA-AAAAAAAGAAAGAAAC
1 AAGAATGAAAAGAAAAAAAGAAAGAAAC
*
29853661 AAGAATTGAAAAGGAAAGAAAGAAAGAA
1 AAGAA-TGAAAA-GAAAAAAAGAAAGAA
29853689 GAACTTTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
28 5 0.22
30 13 0.57
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (28 bp):
AAGAATGAAAAGAAAAAAAGAAAGAAAC
Found at i:29854623 original size:19 final size:19
Alignment explanation
Indices: 29854588--29854624 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29854578 ATACACCACA
* *
29854588 AAAATTTTTTCATATATTT
1 AAAATTTTTTAAAATATTT
29854607 AAAATTTTTTAAAATATT
1 AAAATTTTTTAAAATATT
29854625 CACATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
AAAATTTTTTAAAATATTT
Found at i:29854777 original size:34 final size:34
Alignment explanation
Indices: 29854739--29854825 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
29854729 TATATTTTTG
*
29854739 AAAATAAATTTTTGAGAATACAATATAATTCTTC-
1 AAAATATATTTTTGAGAATACAATATAATTC-TCA
* * *
29854773 AAAATCTATTTTTGAGAGTGCAATATAATTCTCA
1 AAAATATATTTTTGAGAATACAATATAATTCTCA
*
29854807 AAAATTTATTTTTGAGAAT
1 AAAATATATTTTTGAGAAT
29854826 TATGTTGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 2 0.04
34 44 0.96
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (34 bp):
AAAATATATTTTTGAGAATACAATATAATTCTCA
Found at i:29854851 original size:13 final size:13
Alignment explanation
Indices: 29854833--29854860 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29854823 AATTATGTTG
29854833 TATTTTCAAAATT
1 TATTTTCAAAATT
29854846 TATTTTCAAAATT
1 TATTTTCAAAATT
29854859 TA
1 TA
29854861 CATTGTACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTTTCAAAATT
Found at i:29856112 original size:2 final size:2
Alignment explanation
Indices: 29856107--29856148 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
29856097 TGTGTGTGTC
29856107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29856149 AAGTTTAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29856995 original size:10 final size:10
Alignment explanation
Indices: 29856977--29857016 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
29856967 TATTACATAA
29856977 AAAAT-ATAT
1 AAAATAATAT
29856986 AAAATAATAT
1 AAAATAATAT
29856996 AAAATTAATA-
1 AAAA-TAATAT
29857006 AAAA-AATAT
1 AAAATAATAT
29857015 AA
1 AA
29857017 TTAAAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.14
9 7 0.25
10 12 0.43
11 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATAATAT
Found at i:29859219 original size:60 final size:60
Alignment explanation
Indices: 29859053--29859414 Score: 329
Period size: 60 Copynumber: 5.8 Consensus size: 60
29859043 AAACATTTAC
* *
29859053 AAAAATAGTTTGAAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAAATAAAATTTAAAAAA
1 AAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAATTT-AAAAA
* * * *
29859114 AAAAATCCATTTCTTGAGGAAAAGTTGGAAGTA-CTAATTTTTCTTAAAAATAAAACTT-AAAG
1 AAAAAT--ATTT-TTAAGGAAAAGTTGAAAGTATC-AATTTTTCTTAAAAATAAAATTTAAAAA
*
29859176 AAAAATATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTAAAATAA
1 AAAAATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA--ATTT-AAA-AA
* * * * * *
29859241 AAATTTCCAAAAGCATTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAAATTAAAATTTCAA
1 AAA-----AATA--TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAAA
29859306 AA
59 AA
* * * *
29859308 AAAAATATTTTTGAGGAAAAGTT-AGAAGTATCAATTTTTCTTAAAAATAAAAATTATCAAG
1 AAAAATATTTTTAAGGAAAAGTTGA-AAGTATCAATTTTTCTTAAAAATAAAATTTA-AAAA
* *
29859369 AAAAACATTTTTAAGGAAAAGTTG-AAGATATCAATTTTTTTTAAAA
1 AAAAATATTTTTAAGGAAAAGTTGAAAG-TATCAATTTTTCTTAAAA
29859415 CAAAAAATCT
Statistics
Matches: 249, Mismatches: 29, Indels: 46
0.77 0.09 0.14
Matches are distributed among these distances:
59 3 0.01
60 84 0.34
61 47 0.19
62 14 0.06
63 4 0.02
64 38 0.15
65 6 0.02
67 5 0.02
68 2 0.01
69 3 0.01
70 3 0.01
71 36 0.14
72 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (60 bp):
AAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAAAAA
Found at i:29859361 original size:61 final size:60
Alignment explanation
Indices: 29859256--29859422 Score: 214
Period size: 61 Copynumber: 2.8 Consensus size: 60
29859246 TCCAAAAGCA
* * *
29859256 TTTTGAGGAAAAGTTGAAAATATCAATTTTTCTT-AAAATTAAAATT-TCAAAAAAAAATAT
1 TTTTGAGGAAAAGTTG-AAGTATCAATTTTTCTTAAAAATAAAAATTATC-AAAAAAAACAT
*
29859316 TTTTGAGGAAAAGTTAGAAGTATCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAACAT
1 TTTTGAGGAAAAGTT-GAAGTATCAATTTTTCTTAAAAATAAAAATTATCAAAAAAAACAT
* *
29859377 TTTTAAGGAAAAGTTGAAGATATCAATTTTTTTTAAAACA-AAAAAT
1 TTTTGAGGAAAAGTTGAAG-TATCAATTTTTCTTAAAA-ATAAAAAT
29859423 CTCCAAATGC
Statistics
Matches: 96, Mismatches: 6, Indels: 9
0.86 0.05 0.08
Matches are distributed among these distances:
60 35 0.36
61 58 0.60
62 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.35
Consensus pattern (60 bp):
TTTTGAGGAAAAGTTGAAGTATCAATTTTTCTTAAAAATAAAAATTATCAAAAAAAACAT
Found at i:29863309 original size:11 final size:11
Alignment explanation
Indices: 29863293--29863363 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 11
29863283 AAGATGAGAG
*
29863293 AAAAAAATTAA
1 AAAAAAATGAA
29863304 AAAAAAATGAA
1 AAAAAAATGAA
*
29863315 AAATGAAA-GAA
1 AAA-AAAATGAA
*
29863326 AATGAAAATGAA
1 AA-AAAAATGAA
*
29863338 AATGAAAATGAA
1 AA-AAAAATGAA
29863350 AATGAAAAATGAA
1 AA--AAAAATGAA
29863363 A
1 A
29863364 GAATGAAAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
11 21 0.42
12 20 0.40
13 9 0.18
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.14
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:29863316 original size:6 final size:6
Alignment explanation
Indices: 29863307--29863363 Score: 82
Period size: 6 Copynumber: 9.5 Consensus size: 6
29863297 AAATTAAAAA
29863307 AAAATG AAAAATG -AAA-G AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG -AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
29863354 AAAAATG AAA
1 -AAAATG AAA
29863364 GAATGAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.02
5 6 0.13
6 28 0.60
7 12 0.26
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:29863318 original size:18 final size:18
Alignment explanation
Indices: 29863295--29863351 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
29863285 GATGAGAGAA
*
29863295 AAAAATTAAAAAAAAATG
1 AAAAATTAAAAGAAAATG
*
29863313 AAAAA-TGAAAGAAAATG
1 AAAAATTAAAAGAAAATG
*
29863330 -AAAATGAAAATGAAAATG
1 AAAAATTAAAA-GAAAATG
29863348 AAAA
1 AAAA
29863352 TGAAAAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 4 0.12
17 13 0.41
18 12 0.38
19 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (18 bp):
AAAAATTAAAAGAAAATG
Found at i:29863393 original size:15 final size:14
Alignment explanation
Indices: 29863314--29863397 Score: 50
Period size: 18 Copynumber: 5.7 Consensus size: 14
29863304 AAAAAAATGA
29863314 AAAATGAAAGAAAATG
1 AAAA-GAAAGAAAA-G
29863330 AAAATGAAAATGAAAATG
1 AAAA-G-AAA-GAAAA-G
*
29863348 AAAATG-AA-AAATG
1 AAAA-GAAAGAAAAG
*
29863361 -AAAGAATG-AAAG
1 AAAAGAAAGAAAAG
29863373 AAAAGAAAGAAAAG
1 AAAAGAAAGAAAAG
29863387 AAAAAGAAAGA
1 -AAAAGAAAGA
29863398 CTCAAATTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.02
12 7 0.12
13 8 0.14
14 7 0.12
15 10 0.18
16 8 0.14
17 3 0.05
18 13 0.23
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (14 bp):
AAAAGAAAGAAAAG
Found at i:29864173 original size:23 final size:23
Alignment explanation
Indices: 29864147--29864190 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
29864137 AAAGCCTATG
*
29864147 AATGGTGATCAAG-TGATGAAAAT
1 AATGATGATC-AGTTGATGAAAAT
29864170 AATGATGATCAGTTGATGAAA
1 AATGATGATCAGTTGATGAAA
29864191 CTTGTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (23 bp):
AATGATGATCAGTTGATGAAAAT
Found at i:29864662 original size:79 final size:79
Alignment explanation
Indices: 29864512--29864728 Score: 292
Period size: 79 Copynumber: 2.7 Consensus size: 79
29864502 ATCCTCGAAC
* * * * *
29864512 TCAAATAAGGATTTTTTAGTTTCAAATGAGAATCTTTGAG-TATGAAACCCAAAATTTATCGAAT
1 TCAAATGAGAATTTTTTAATTTCAAATGAGAATCTTTGAGATGTGAAACCCAAAATTTATCAAAT
*
29864576 GTTAATCTTCAAAT
66 GTGAATCTTCAAAT
* * *
29864590 TCAAATGAGAATTTTTTAATTTCAAATAAGAATATTTGAGATGTGAAACCCAAAATTTGTCAAAT
1 TCAAATGAGAATTTTTTAATTTCAAATGAGAATCTTTGAGATGTGAAACCCAAAATTTATCAAAT
29864655 GTGAATCTTCAAAT
66 GTGAATCTTCAAAT
* * * *
29864669 TCAAATGAAAATTTTTGAATTTCAAATGAGAATCTTTGATATGTAAAACCCTAAAGATTT
1 TCAAATGAGAATTTTTTAATTTCAAATGAGAATCTTTGAGATGTGAAACCC-AAA-ATTT
29864729 CTTGGATGTG
Statistics
Matches: 121, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 35 0.29
79 79 0.65
80 3 0.02
81 4 0.03
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (79 bp):
TCAAATGAGAATTTTTTAATTTCAAATGAGAATCTTTGAGATGTGAAACCCAAAATTTATCAAAT
GTGAATCTTCAAAT
Found at i:29864684 original size:78 final size:78
Alignment explanation
Indices: 29864524--29864761 Score: 289
Period size: 79 Copynumber: 3.0 Consensus size: 78
29864514 AAATAAGGAT
* * *
29864524 TTTTTAGTTTCAAATGAGAATCTTTGAG-TATGAAACCCAAAATTTATCGAATGTTAATCTTCAA
1 TTTTTAATTTCAAATGAGAATCTTTGAGATGTGAAACCCAAAATTTATCGAATGTGAATCTTCAA
*
29864588 ATTCAAATGAGAAT
66 ATTCAAATGA-AAA
* * * *
29864602 TTTTTAATTTCAAATAAGAATATTTGAGATGTGAAACCCAAAATTTGTCAAATGTGAATCTTCAA
1 TTTTTAATTTCAAATGAGAATCTTTGAGATGTGAAACCCAAAATTTATCGAATGTGAATCTTCAA
29864667 ATTCAAATGAAAA
66 ATTCAAATGAAAA
* * * * * *
29864680 TTTTTGAATTTCAAATGAGAATCTTTGATATGTAAAACCCTAAAGATTTCTTGGATGTGAATCTC
1 TTTTT-AATTTCAAATGAGAATCTTTGAGATGTGAAACCC-AAA-ATTTATCGAATGTGAATCTT
*
29864745 CAAAATTCTAATGAAAA
63 C-AAATTCAAATGAAAA
29864762 GCTTTAAACT
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 32 0.23
79 72 0.53
80 3 0.02
81 16 0.12
82 14 0.10
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (78 bp):
TTTTTAATTTCAAATGAGAATCTTTGAGATGTGAAACCCAAAATTTATCGAATGTGAATCTTCAA
ATTCAAATGAAAA
Found at i:29864694 original size:21 final size:21
Alignment explanation
Indices: 29864668--29864707 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29864658 AATCTTCAAA
*
29864668 TTCAAATGAAAATTTTTGAAT
1 TTCAAATGAAAATCTTTGAAT
*
29864689 TTCAAATGAGAATCTTTGA
1 TTCAAATGAAAATCTTTGA
29864708 TATGTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (21 bp):
TTCAAATGAAAATCTTTGAAT
Found at i:29865243 original size:45 final size:45
Alignment explanation
Indices: 29865142--29865295 Score: 175
Period size: 45 Copynumber: 3.3 Consensus size: 45
29865132 CAAAGTTGTA
* *
29865142 GAACCTCTGTTTAAAAGAGCCTTATTTATTTTTTTTTTCAAAAGTCATT
1 GAACCTCTGTTTAGAAGAGCCTTGTTTA---TTTTTTTC-AAAGTCATT
* * **
29865191 GAGCCTCTGTTTAGAGGAGCCTTGTTTA-TTTTTTCACAAGTTGTT
1 GAACCTCTGTTTAGAAGAGCCTTGTTTATTTTTTTCA-AAGTCATT
*
29865236 GAACCTCTGTTTAGAAGAGCTTTGTTTATTTTTTTCAAAGTCATT
1 GAACCTCTGTTTAGAAGAGCCTTGTTTATTTTTTTCAAAGTCATT
* *
29865281 GAGCCTCTATTTAGA
1 GAACCTCTGTTTAGA
29865296 GGAGTTTTGT
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 1 0.01
45 57 0.63
46 8 0.09
49 24 0.27
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (45 bp):
GAACCTCTGTTTAGAAGAGCCTTGTTTATTTTTTTCAAAGTCATT
Found at i:29865305 original size:45 final size:45
Alignment explanation
Indices: 29865173--29865308 Score: 184
Period size: 45 Copynumber: 3.0 Consensus size: 45
29865163 TTATTTATTT
*
29865173 TTTTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTGTTTA
1 TTTTTTTC-AAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTGTTTA
** * *
29865219 -TTTTTTCACAAGTTGTTGAACCTCTGTTTAGAAGAGCTTTGTTTA
1 TTTTTTTCA-AAGTCATTGAGCCTCTGTTTAGAGGAGCTTTGTTTA
* *
29865264 TTTTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGTTTTGTTTA
1 TTTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTGTTTA
29865309 AAAAAAATAA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.01
45 68 0.88
46 8 0.10
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (45 bp):
TTTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTGTTTA
Found at i:29865306 original size:90 final size:93
Alignment explanation
Indices: 29865129--29865308 Score: 260
Period size: 90 Copynumber: 2.0 Consensus size: 93
29865119 AGCATTTTAC
* *
29865129 TTTCAAAGTTGTAGAACCTCTGTTTAAAAGAGCCTTATTTATTTTTTTTTTCAAAAGTCATTGAG
1 TTTCAAAGTTGTAGAACCTCTGTTTAAAAGAGCCTTATGTATTATTTTTTTCAAAAGTCATTGAG
*
29865194 CCTCTGTTTAGAGGAGCCTTGTTTATTT
66 CCTCTATTTAGAGGAGCCTTGTTTATTT
* *
29865222 TTTCACAAGTTGTTGAACCTCTGTTTAGAAGAG-CTT-TGT-TTATTTTTTTC-AAAGTCATTGA
1 TTTCA-AAGTTGTAGAACCTCTGTTTAAAAGAGCCTTATGTATTATTTTTTTCAAAAGTCATTGA
**
29865283 GCCTCTATTTAGAGGAGTTTTGTTTA
65 GCCTCTATTTAGAGGAGCCTTGTTTA
29865309 AAAAAAATAA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
90 34 0.43
91 10 0.13
92 2 0.03
93 8 0.10
94 25 0.32
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (93 bp):
TTTCAAAGTTGTAGAACCTCTGTTTAAAAGAGCCTTATGTATTATTTTTTTCAAAAGTCATTGAG
CCTCTATTTAGAGGAGCCTTGTTTATTT
Found at i:29865535 original size:25 final size:25
Alignment explanation
Indices: 29865507--29865559 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
29865497 TTTTCTTTCA
*
29865507 TTTTCATTT-TTATTTTAT-TTTATT
1 TTTTTATTTCTTA-TTTATCTTTATT
*
29865531 TTTTTGTTTCTTATTTATCTTTATT
1 TTTTTATTTCTTATTTATCTTTATT
29865556 TTTT
1 TTTT
29865560 GGTTGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTTATTTCTTATTTATCTTTATT
Found at i:29867051 original size:19 final size:19
Alignment explanation
Indices: 29867017--29867057 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
29867007 TTGGGTAATC
*
29867017 TTTGTCCATTTTTGTC-AT
1 TTTGCCCATTTTTGTCAAT
29867035 TTTGCCCATTATTTGTCAAT
1 TTTGCCCATT-TTTGTCAAT
29867055 TTT
1 TTT
29867058 TTTTGAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 6 0.30
20 5 0.25
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (19 bp):
TTTGCCCATTTTTGTCAAT
Found at i:29867257 original size:60 final size:61
Alignment explanation
Indices: 29867103--29867274 Score: 190
Period size: 60 Copynumber: 2.8 Consensus size: 61
29867093 AAAACATTTT
* ** * *
29867103 AAAAAAA-TATTTTTAAA-AAAAAGTTGAAAAAATCAATTTTTTTTAAAAATAAAATTTAAAA
1 AAAAAAAGTATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAAATAAAACTT--AA
* * *
29867164 AAAAAAAGCATTTCTT-GAGGAAAAGTTGGAAGTATCAATTTTTTTAAAAAATAAAACTT-A
1 AAAAAAAGTATTT-TTAAAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAAATAAAACTTAA
* *
29867224 AAGAAACGTATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
1 AAAAAAAGTATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAA
29867275 TATCAATTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
59 2 0.02
60 36 0.39
61 14 0.15
62 5 0.05
63 36 0.39
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (61 bp):
AAAAAAAGTATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAAATAAAACTTAA
Found at i:29867292 original size:18 final size:19
Alignment explanation
Indices: 29867256--29867295 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
29867246 AAGTTGAAAG
29867256 TATCAATTTTTCTTAAAAA
1 TATCAATTTTTCTTAAAAA
29867275 TATCAATTTTTCTTAAAAA
1 TATCAATTTTTCTTAAAAA
29867294 TA
1 TA
29867296 AAATTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (19 bp):
TATCAATTTTTCTTAAAAA
Found at i:29867300 original size:18 final size:19
Alignment explanation
Indices: 29867260--29867301 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
29867250 TGAAAGTATC
*
29867260 AATTTTTCTTAAAAATATC
1 AATTTTTCTTAAAAATATA
29867279 AATTTTTCTTAAAAATA-A
1 AATTTTTCTTAAAAATATA
29867297 AATTT
1 AATTT
29867302 CTAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
AATTTTTCTTAAAAATATA
Found at i:29868676 original size:18 final size:21
Alignment explanation
Indices: 29868655--29868705 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
29868645 CCATGGAATT
29868655 AGAGAGAAG-GA-AAAGG-GA
1 AGAGAGAAGAGAGAAAGGAGA
29868673 AGAGAG-AGAGAGAAAGGAGA
1 AGAGAGAAGAGAGAAAGGAGA
29868693 AGA-AGAAGA-AGAA
1 AGAGAGAAGAGAGAA
29868706 GAAACAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.07
18 8 0.28
19 11 0.38
20 8 0.28
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (21 bp):
AGAGAGAAGAGAGAAAGGAGA
Found at i:29868737 original size:72 final size:71
Alignment explanation
Indices: 29868647--29868828 Score: 260
Period size: 60 Copynumber: 2.7 Consensus size: 71
29868637 AGAGAAAGCC
29868647 ATGGAATTAGAGAGAAGGAAAAGGGAAGAGAGAGAGAGAAAGGAGAAGAAGAAGAAGAAGAAACA
1 ATGGAATTAGAGAGAAGGAAAAGGGAAGAGAGAGAGAG-AAGGAGAAGAAGAAGAAGAAGAAACA
29868712 ATTAGCA
65 ATTAGCA
29868719 ATGGAATTAGAGAGAAGGAAAA--G--G-GA-AGAGAG-A-GAG-AG--GAAGAAGAAGAAACAA
1 ATGGAATTAGAGAGAAGGAAAAGGGAAGAGAGAGAGAGAAGGAGAAGAAGAAGAAGAAGAAACAA
29868773 TTAGCA
66 TTAGCA
*
29868779 ATGGAATTAGAGAGAAGGAAAAGGGAAGAGAGAGAGAGGAAGAAGAAGAA
1 ATGGAATTAGAGAGAAGGAAAAGGGAAGAGAGAGAGA-GAAGGAGAAGAA
29868829 ACAATTAGCA
Statistics
Matches: 97, Mismatches: 1, Indels: 24
0.80 0.01 0.20
Matches are distributed among these distances:
60 44 0.45
62 3 0.03
63 3 0.03
64 2 0.02
65 2 0.02
66 11 0.11
67 3 0.03
68 2 0.02
69 2 0.02
70 3 0.03
72 22 0.23
ACGTcount: A:0.54, C:0.02, G:0.36, T:0.07
Consensus pattern (71 bp):
ATGGAATTAGAGAGAAGGAAAAGGGAAGAGAGAGAGAGAAGGAGAAGAAGAAGAAGAAGAAACAA
TTAGCA
Found at i:29868889 original size:60 final size:60
Alignment explanation
Indices: 29868689--29868844 Score: 296
Period size: 60 Copynumber: 2.6 Consensus size: 60
29868679 AGAGAGAAAG
*
29868689 GAGA-AGAAGAAGAAGAAGAAACAATTAGCAATGGAATTAGAGAGAAGGAAAAGGGAAGA
1 GAGAGAGAGGAAGAAGAAGAAACAATTAGCAATGGAATTAGAGAGAAGGAAAAGGGAAGA
29868748 GAGAGAGAGGAAGAAGAAGAAACAATTAGCAATGGAATTAGAGAGAAGGAAAAGGGAAGA
1 GAGAGAGAGGAAGAAGAAGAAACAATTAGCAATGGAATTAGAGAGAAGGAAAAGGGAAGA
29868808 GAGAGAGAGGAAGAAGAAGAAACAATTAGCAATGGAA
1 GAGAGAGAGGAAGAAGAAGAAACAATTAGCAATGGAA
29868845 GAGCAGCAGA
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
59 4 0.04
60 91 0.96
ACGTcount: A:0.54, C:0.04, G:0.33, T:0.08
Consensus pattern (60 bp):
GAGAGAGAGGAAGAAGAAGAAACAATTAGCAATGGAATTAGAGAGAAGGAAAAGGGAAGA
Found at i:29883760 original size:29 final size:29
Alignment explanation
Indices: 29883692--29883770 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
29883682 AATTTTATTT
* *
29883692 AATTAAGAATTTAATTGAATCAAAATTAAA
1 AATTAAAAATTTAATT-AATTAAAATTAAA
*
29883722 AATTAAAAATTTAATTAATTATAA-TAAA
1 AATTAAAAATTTAATTAATTAAAATTAAA
* *
29883750 ATATTAAAAATATAAATAATT
1 A-ATTAAAAATTTAATTAATT
29883771 TTTTAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.12
29 23 0.53
30 15 0.35
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (29 bp):
AATTAAAAATTTAATTAATTAAAATTAAA
Found at i:29887403 original size:24 final size:24
Alignment explanation
Indices: 29887371--29887417 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
29887361 TTTTTTCTTG
*
29887371 AATTATATTT-TAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
*
29887395 AATTTTATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
29887418 GATATGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Found at i:29888620 original size:65 final size:64
Alignment explanation
Indices: 29888486--29888633 Score: 174
Period size: 64 Copynumber: 2.3 Consensus size: 64
29888476 TTTTTTGTAT
* * * *
29888486 GATTATTAAAGACATTTTTGGATAAAAACACATTCAATAATCCATACAAAAAATTTATTAAGAG
1 GATTATTAAAGACATTTTTAGATAAAAAAACATTCAATAATCCAAACAAAAAATTTATAAAGAG
* * * *
29888550 GATTATTGAAGACGTTTTTAG-TCAAAAAAACCTTTAATAATCCAAACAAAAAATTTTATCAAAG
1 GATTATTAAAGACATTTTTAGAT-AAAAAAACATTCAATAATCCAAACAAAAAA-TTTAT-AAAG
29888614 -G
63 AG
*
29888615 GATTATTAAAAACATTTTT
1 GATTATTAAAGACATTTTT
29888634 TACCTAAAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 44 0.63
65 22 0.31
66 3 0.04
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (64 bp):
GATTATTAAAGACATTTTTAGATAAAAAAACATTCAATAATCCAAACAAAAAATTTATAAAGAG
Found at i:29888747 original size:29 final size:31
Alignment explanation
Indices: 29888688--29888748 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
29888678 AATTTTAATG
*
29888688 ATAATATTAATAATAATAATAATATTTAAAA
1 ATAATATTAATAATAATAATAATATATAAAA
*
29888719 ATAATTATTAATTAT-ATAA-AA-ATATAAAA
1 ATAA-TATTAATAATAATAATAATATATAAAA
29888748 A
1 A
29888749 CAAAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.30
30 2 0.07
31 8 0.30
32 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
ATAATATTAATAATAATAATAATATATAAAA
Found at i:29888762 original size:13 final size:12
Alignment explanation
Indices: 29888746--29888797 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 12
29888736 AAAAATATAA
29888746 AAACAAAAAAATG
1 AAACAAAAAAA-G
29888759 AAACGAAAAAAAG
1 AAAC-AAAAAAAG
*
29888772 TAACAAAAAAAG
1 AAACAAAAAAAG
* *
29888784 AGA-AAAAATAG
1 AAACAAAAAAAG
29888795 AAA
1 AAA
29888798 GTAGGGTGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
11 9 0.27
12 9 0.27
13 8 0.24
14 7 0.21
ACGTcount: A:0.77, C:0.06, G:0.12, T:0.06
Consensus pattern (12 bp):
AAACAAAAAAAG
Found at i:29891299 original size:26 final size:25
Alignment explanation
Indices: 29891270--29891320 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
29891260 CAATTGTTGG
29891270 ATTTAATTGATTTTATTTTATATTTA
1 ATTTAATTGATTTTATTTTAT-TTTA
* **
29891296 ATTTTATTTCTTTTATTTTATTTTA
1 ATTTAATTGATTTTATTTTATTTTA
29891321 TGAAAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTAATTGATTTTATTTTATTTTA
Found at i:29891301 original size:6 final size:5
Alignment explanation
Indices: 29891279--29891321 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
29891269 GATTTAATTG
*
29891279 ATTTT ATTTT ATATTT AATTTT A-TTT CTTTT ATTTT ATTTT AT
1 ATTTT ATTTT AT-TTT -ATTTT ATTTT ATTTT ATTTT ATTTT AT
29891322 GAAAACATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.09
5 22 0.67
6 6 0.18
7 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:29897493 original size:22 final size:21
Alignment explanation
Indices: 29897458--29897571 Score: 97
Period size: 21 Copynumber: 5.2 Consensus size: 21
29897448 TATCCCAATC
29897458 AATTCTGTAAGACCTCCGAGCAT
1 AATT-TGTAAGACCTCCGAG-AT
* *
29897481 GATTTTTAAGACCTCCGA-AT
1 AATTTGTAAGACCTCCGAGAT
*
29897501 AATTCGGTAAGACCTCCGA-AT
1 AATT-TGTAAGACCTCCGAGAT
*
29897522 AATTCGGTAAGACCTCCGAGTAT
1 AATT-TGTAAGACCTCCGAG-AT
* * *
29897545 GATTTCTAAGACCTCCGGGCAT
1 AATTTGTAAGACCTCCGAG-AT
29897567 AATTT
1 AATTT
29897572 CGATTCATGA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
20 5 0.06
21 33 0.43
22 31 0.40
23 8 0.10
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
AATTTGTAAGACCTCCGAGAT
Found at i:29897513 original size:21 final size:21
Alignment explanation
Indices: 29897487--29897540 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
29897477 GCATGATTTT
29897487 TAAGACCTCCGAATAATTCGG
1 TAAGACCTCCGAATAATTCGG
29897508 TAAGACCTCCGAATAATTCGG
1 TAAGACCTCCGAATAATTCGG
29897529 TAAGACCTCCGA
1 TAAGACCTCCGA
29897541 GTATGATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (21 bp):
TAAGACCTCCGAATAATTCGG
Found at i:29897810 original size:153 final size:153
Alignment explanation
Indices: 29897543--29897826 Score: 387
Period size: 153 Copynumber: 1.9 Consensus size: 153
29897533 ACCTCCGAGT
*
29897543 ATGATTTCTAAGACCTCCGGGCATAATTTCGATTCATGATGTTATCTCAATCGATTCTTTATCTT
1 ATGATTTCTAAGACCTCCAGGCATAATTTCGATTCATGATGTTATCTCAATCGATTCTTTATCTT
* *
29897608 TCGACTTATGGTGTTATCTCAGTCAATTCTGTAAGACTTTCGGGCATGATTTCTAAAACCTTCGA
66 TCGACTTACGGTGTTATCTCAGTCAATTCTGTAAGACTTTCGAGCATGATTTCTAAAACCTTCGA
29897673 GTAATTCTATAAAACCTTCGGGC
131 GTAATTCTATAAAACCTTCGGGC
* * **
29897696 ATGATTTTTAAGACTTCCAGGCATAAATTT-GATTCAT-AGTGTTATCTTGATCGATTCTTTATC
1 ATGATTTCTAAGACCTCCAGGCAT-AATTTCGATTCATGA-TGTTATCTCAATCGATTCTTTATC
* * * * * *
29897759 TTTTGACTTACGGTGTTAT-TCCAGTCAATTCTGTAGGAAC-TTCGAGTATGATTTTTAAGATCT
64 TTTCGACTTACGGTGTTATCT-CAGTCAATTCTGTAAG-ACTTTCGAGCATGATTTCTAAAACCT
29897822 TCGAG
127 TCGAG
29897827 CATAATTTTG
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
152 2 0.02
153 105 0.92
154 7 0.06
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (153 bp):
ATGATTTCTAAGACCTCCAGGCATAATTTCGATTCATGATGTTATCTCAATCGATTCTTTATCTT
TCGACTTACGGTGTTATCTCAGTCAATTCTGTAAGACTTTCGAGCATGATTTCTAAAACCTTCGA
GTAATTCTATAAAACCTTCGGGC
Found at i:29897831 original size:110 final size:109
Alignment explanation
Indices: 29897688--29898044 Score: 400
Period size: 110 Copynumber: 3.2 Consensus size: 109
29897678 TCTATAAAAC
* * * *
29897688 CTTCGGGCATGATTTTTAAGA-CTTCCAGGCATAAATTTGATTCA-TAGTGTTATCTTGATCGAT
1 CTTCGGGTATGATTTTTAAGACCTTCGA-GCATAAATTTGATTCACGA-TGTTATCTCGATCGAT
*
29897751 TCTTTATCTTTTGACTTACGGTGTTATTCCAGTCAATTCTGTAGGAA
64 TCTTTATCTTTTGACTTGCGGTGTTATTCCAGTCAATTCTGTA-GAA
* * *
29897798 CTTCGAGTATGATTTTTAAGATCTTCGAGCATAATTTTGATTCACGATGTTATCTCGATCGATTC
1 CTTCGGGTATGATTTTTAAGACCTTCGAGCATAAATTTGATTCACGATGTTATCTCGATCGATTC
* * *
29897863 TTTATCTTTCGACTTGTGGTGTTA-TCCGAGTCAATTCTGTAAAA
66 TTTATCTTTTGACTTGCGGTGTTATTCC-AGTCAATTCTGTAGAA
* * * * *
29897907 CCTTCGGGTATGATTTCTAAGACCTTCGGGCAT-AATTTCGATTCGCGATATCATCTCGATCGAT
1 -CTTCGGGTATGATTTTTAAGACCTTCGAGCATAAATTT-GATTCACGATGTTATCTCGATCGAT
* * * * *
29897971 TTTTTATGTTTTGACTTGGGGTGTTATCCCAGTCAATTTTGTA-AGA
64 TCTTTATCTTTTGACTTGCGGTGTTATTCCAGTCAATTCTGTAGA-A
* *
29898017 CTTTTGGGTATAATTTTTAAGACCTTCG
1 C-TTCGGGTATGATTTTTAAGACCTTCG
29898045 GATAATTTTG
Statistics
Matches: 212, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
109 11 0.05
110 193 0.91
111 8 0.04
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (109 bp):
CTTCGGGTATGATTTTTAAGACCTTCGAGCATAAATTTGATTCACGATGTTATCTCGATCGATTC
TTTATCTTTTGACTTGCGGTGTTATTCCAGTCAATTCTGTAGAA
Found at i:29898053 original size:43 final size:45
Alignment explanation
Indices: 29898005--29898099 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 45
29897995 TATCCCAGTC
* **
29898005 AATTTTGTAAGACTTTTGGGTATAATTTTTAAGACCTT-CG-G-AT
1 AATTTTGTAAGACCTCCGGGTATAATTTTTAAGA-CTTCCGAGCAT
*
29898048 AATTTTGTAAGACCTCCGGGTATGATTTTTAAGACTTCCGAGCAT
1 AATTTTGTAAGACCTCCGGGTATAATTTTTAAGACTTCCGAGCAT
29898093 AATTTTG
1 AATTTTG
29898100 ATTCGTGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
42 3 0.07
43 32 0.71
44 1 0.02
45 9 0.20
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (45 bp):
AATTTTGTAAGACCTCCGGGTATAATTTTTAAGACTTCCGAGCAT
Found at i:29898087 original size:22 final size:23
Alignment explanation
Indices: 29898005--29898099 Score: 92
Period size: 22 Copynumber: 4.3 Consensus size: 23
29897995 TATCCCAGTC
**
29898005 AATTTTGTAAGACTTTTGGGTAT
1 AATTTTGTAAGACTTCCGGGTAT
29898028 AATTTT-TAAGACCTT-C-GG-AT
1 AATTTTGTAAGA-CTTCCGGGTAT
*
29898048 AATTTTGTAAGACCTCCGGGTAT
1 AATTTTGTAAGACTTCCGGGTAT
* * *
29898071 GATTTT-TAAGACTTCCGAGCAT
1 AATTTTGTAAGACTTCCGGGTAT
29898093 AATTTTG
1 AATTTTG
29898100 ATTCGTGATA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 10 0.17
21 8 0.14
22 25 0.42
23 16 0.27
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (23 bp):
AATTTTGTAAGACTTCCGGGTAT
Found at i:29898209 original size:152 final size:153
Alignment explanation
Indices: 29897895--29898370 Score: 571
Period size: 153 Copynumber: 3.1 Consensus size: 153
29897885 TATCCGAGTC
* * * *
29897895 AATTCTGTAAAACCTTCGGGTATGATTTCTAAGACCTT-CGGGCATAATTTCGATTCGCGATATC
1 AATTCTGTAAGACCTTCGGGTATGATTTCTAAGA-CTTCCGAGCATAATTTCGATTCGTGATATT
* * * * * *
29897959 ATCTCGATCGATTTTTTATGTTTTGACTTGGGGTGTTATCCCAGTCAATTTTGTAAGACTTTTGG
65 ATCTCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGG
*
29898024 GTATAATTTTTAAGACCTTCGGAT
130 GTATAATTTCTAAGACCTTCGGAT
* * * * *
29898048 AATTTTGTAAGACCTCCGGGTATGATTTTTAAGACTTCCGAGCATAATTTTGATTCGTGATATTG
1 AATTCTGTAAGACCTTCGGGTATGATTTCTAAGACTTCCGAGCATAATTTCGATTCGTGATATTA
* * * * * *
29898113 TCTCAATCGATTCTTTAT-TTTTTACTTGTGATGTTATCCCAGTCAATTCTGTAAGACCTCCGAG
66 TCTCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGGG
* *
29898177 TATAATTTCTAAGACCTCCGGGT
131 TATAATTTCTAAGACCTTCGGAT
* * * * *
29898200 AATTCTGTAAGACCTTTGGGTATGATTCTGTAAGACCTCC-AGGTATAATTTCGATTCGTGATGT
1 AATTCTGTAAGACCTTCGGGTATGATT-TCTAAGACTTCCGA-GCATAATTTCGATTCGTGATAT
* * * * *
29898264 TATCTCGATTGATTCTTTATCTTTCGACTTACGGTGTTATCTCAATCAATTCTGTAAGACCTTCG
64 TATCTCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCAATTCTGTAAGACCTTCG
* *
29898329 GGCATGATTTCTAAGACCTTCGGAT
129 GGTATAATTTCTAAGACCTTCGGAT
*
29898354 AATTCTATAAGACCTTC
1 AATTCTGTAAGACCTTC
29898371 AGATATAATT
Statistics
Matches: 271, Mismatches: 48, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
152 86 0.32
153 114 0.42
154 71 0.26
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (153 bp):
AATTCTGTAAGACCTTCGGGTATGATTTCTAAGACTTCCGAGCATAATTTCGATTCGTGATATTA
TCTCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGGG
TATAATTTCTAAGACCTTCGGAT
Found at i:29898231 original size:23 final size:22
Alignment explanation
Indices: 29898158--29898246 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 22
29898148 ATCCCAGTCA
*
29898158 ATTCTGTAAGACCTCCGAGTAT
1 ATTCTGTAAGACCTCCGGGTAT
*
29898180 AATT-TCTAAGACCTCCGGGTA-
1 -ATTCTGTAAGACCTCCGGGTAT
**
29898201 ATTCTGTAAGACCTTTGGGTAT
1 ATTCTGTAAGACCTCCGGGTAT
*
29898223 GATTCTGTAAGACCTCCAGGTAT
1 -ATTCTGTAAGACCTCCGGGTAT
29898246 A
1 A
29898247 ATTTCGATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
20 3 0.05
21 14 0.25
22 16 0.29
23 22 0.40
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (22 bp):
ATTCTGTAAGACCTCCGGGTAT
Found at i:29898366 original size:21 final size:21
Alignment explanation
Indices: 29898311--29898375 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
29898301 TATCTCAATC
*
29898311 AATTCTGTAAGACCTTCGGGCAT
1 AATTCTATAAGACCTTC-GG-AT
* *
29898334 GATT-TCTAAGACCTTCGGAT
1 AATTCTATAAGACCTTCGGAT
*
29898354 AATTCTATAAGACCTTCAGAT
1 AATTCTATAAGACCTTCGGAT
29898375 A
1 A
29898376 TAATTTTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.14
21 17 0.47
22 11 0.31
23 3 0.08
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (21 bp):
AATTCTATAAGACCTTCGGAT
Found at i:29898474 original size:130 final size:133
Alignment explanation
Indices: 29898207--29898502 Score: 377
Period size: 130 Copynumber: 2.2 Consensus size: 133
29898197 GGTAATTCTG
** * * * *
29898207 TAAGACCTTTGGGTATGATTCTGTAAGACCTCCAGGTATAATTTCGATTCGTGATGTTATCTCGA
1 TAAGACCTCCGGGTATAATTCTGTAAGACCTCCAGATATAATTTCGATTCGCGATATTATCTCGA
* * * * *
29898272 TTGATTCTTTATCTTTCGACTTACGGTGTTATCTCAATCAATTCTGTAAGACCTTCGGGCATGAT
66 TCGATTCTTTATCTTTCGACTTACAGTGTTATCCCAATCAATTCTATAAGACCTTCGAGCATGAT
29898337 TTC
131 TTC
* * * *
29898340 TAAGACCTTC-GG-ATAATTCTATAAGACCTTCAGATATAATTTTGATTCGCGATATTATCTCGA
1 TAAGACCTCCGGGTATAATTCTGTAAGACCTCCAGATATAATTTCGATTCGCGATATTATCTCGA
* *
29898403 TCGATT-TTT-TATTTCTGACTTACAGTGTTATCCCAGTCAATTCTATAAGACC-TCTGAGCATG
66 TCGATTCTTTATCTTTC-GACTTACAGTGTTATCCCAATCAATTCTATAAGACCTTC-GAGCATG
*
29898465 ATTTT
129 ATTTC
29898470 TAAGACCTCCGGGTATAATTCTGTAAGACCTCC
1 TAAGACCTCCGGGTATAATTCTGTAAGACCTCC
29898503 GGGATAATTC
Statistics
Matches: 140, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
129 7 0.05
130 54 0.39
131 51 0.36
132 19 0.14
133 9 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (133 bp):
TAAGACCTCCGGGTATAATTCTGTAAGACCTCCAGATATAATTTCGATTCGCGATATTATCTCGA
TCGATTCTTTATCTTTCGACTTACAGTGTTATCCCAATCAATTCTATAAGACCTTCGAGCATGAT
TTC
Found at i:29898500 original size:23 final size:23
Alignment explanation
Indices: 29898441--29898556 Score: 130
Period size: 22 Copynumber: 5.2 Consensus size: 23
29898431 TATCCCAGTC
* * *
29898441 AATTCTATAAGACCTCTGAGCAT
1 AATTCTGTAAGACCTCCGGGCAT
* * *
29898464 GATT-TTTAAGACCTCCGGGTAT
1 AATTCTGTAAGACCTCCGGGCAT
29898486 AATTCTGTAAGACCTCCGGG-AT
1 AATTCTGTAAGACCTCCGGGCAT
29898508 AATTCTGTAAGACCTCCGGGCAT
1 AATTCTGTAAGACCTCCGGGCAT
* * *
29898531 GATT-TTTAAGACCTTCGGGCAT
1 AATTCTGTAAGACCTCCGGGCAT
29898553 AATT
1 AATT
29898557 TTGATTCGCG
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
22 58 0.73
23 22 0.28
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (23 bp):
AATTCTGTAAGACCTCCGGGCAT
Found at i:29898519 original size:45 final size:45
Alignment explanation
Indices: 29898448--29898556 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 45
29898438 GTCAATTCTA
* * * * *
29898448 TAAGACCTCTGAGCATGATT-TTTAAGACCTCCGGGTATAATTCTG
1 TAAGACCTCCGGGCATAATTCTGTAAGACCTCCGGGCATAATT-TG
* *
29898493 TAAGACCTCCGGG-ATAATTCTGTAAGACCTCCGGGCATGATTTT
1 TAAGACCTCCGGGCATAATTCTGTAAGACCTCCGGGCATAATTTG
*
29898537 TAAGACCTTCGGGCATAATT
1 TAAGACCTCCGGGCATAATT
29898557 TTGATTCGCG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 18 0.33
45 36 0.67
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
TAAGACCTCCGGGCATAATTCTGTAAGACCTCCGGGCATAATTTG
Found at i:29898691 original size:176 final size:176
Alignment explanation
Indices: 29898361--29898841 Score: 531
Period size: 176 Copynumber: 2.7 Consensus size: 176
29898351 GATAATTCTA
* *
29898361 TAAGACCTTCAGATATAATTTTGATTCGCGATATTATCTCGATCGATTTTTTATTTCTGACTTAC
1 TAAGACCTTCGGATATAATTTTGATTCGCGATATCATCTCGATCGATTTTTTATTTCTGACTTAC
* * * *
29898426 AGTGTTATCCCAGTCAATTCTATAAGACCTCTGAGCATGATTTTTAAGACCTCCGGGTATAATTC
66 AGTGTTATCCCAGTCAATTCTATAAGACATCCGAACATGATTTCTAAGACCTCCGGGTATAATTC
* *
29898491 TGTAAGACCTCCGGGATAATTCTGTAAGACCTCCGGGCATGATTTT
131 TATAAAACCTCCGGGATAATTCTGTAAGACCTCCGGGCATGATTTT
** * * * *
29898537 TAAGACCTTCGGGCATAATTTTGATTCGCGGTGTCATCTCGATTGATTCTTTATCTT-TCGACTT
1 TAAGACCTTCGGATATAATTTTGATTCGCGATATCATCTCGATCGATTTTTTAT-TTCT-GACTT
* * * * *
29898601 AC-GATGTTATTCCAGTCAATTCTGTAAGATATCCGAACATGATTTCTAAGACTTTC-GG-ATAA
64 ACAG-TGTTATCCCAGTCAATTCTATAAGACATCCGAACATGATTTCTAAGACCTCCGGGTATAA
* * * *
29898663 TTTTATAAAACCTCTGGGTATGATTCTGTAAGACCTCCGGGTATGATTTT
128 TTCTATAAAACCTCCGGG-ATAATTCTGTAAGACCTCCGGGCATGATTTT
* * ** * * * *
29898713 TAAGACCTCCGGATATAATTTCGATTCGTCG-TATTGTCCCAATCGATTCTTTATTTCTGACTTG
1 TAAGACCTTCGGATATAATTTTGATTCG-CGATATCATCTCGATCGATTTTTTATTTCTGACTTA
* * * * * ** *
29898777 CGGTGTTATCCCAATCAATTTTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGTATAATT
65 CAGTGTTATCCCAGTCAATTCTATAAGACATCCGAACATGATTTCTAAGACCTCCGGGTATAATT
29898842 TTGATTTACG
Statistics
Matches: 252, Mismatches: 44, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
175 68 0.27
176 124 0.49
177 60 0.24
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (176 bp):
TAAGACCTTCGGATATAATTTTGATTCGCGATATCATCTCGATCGATTTTTTATTTCTGACTTAC
AGTGTTATCCCAGTCAATTCTATAAGACATCCGAACATGATTTCTAAGACCTCCGGGTATAATTC
TATAAAACCTCCGGGATAATTCTGTAAGACCTCCGGGCATGATTTT
Found at i:29898704 original size:23 final size:22
Alignment explanation
Indices: 29898672--29898733 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
29898662 ATTTTATAAA
*
29898672 ACCTCTGGGTATGATTCTGTAAG
1 ACCTCCGGGTATGATT-TGTAAG
*
29898695 ACCTCCGGGTATGATTTTTAAG
1 ACCTCCGGGTATGATTTGTAAG
* *
29898717 ACCTCCGGATATAATTT
1 ACCTCCGGGTATGATTT
29898734 CGATTCGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (22 bp):
ACCTCCGGGTATGATTTGTAAG
Found at i:29898719 original size:22 final size:22
Alignment explanation
Indices: 29898662--29898733 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
29898652 CTTTCGGATA
* *
29898662 ATTTTATAAAACCTCTGGGTATG
1 ATTTT-TAAGACCTCCGGGTATG
*
29898685 ATTCTGTAAGACCTCCGGGTATG
1 ATT-TTTAAGACCTCCGGGTATG
* *
29898708 ATTTTTAAGACCTCCGGATATA
1 ATTTTTAAGACCTCCGGGTATG
29898730 ATTT
1 ATTT
29898734 CGATTCGTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.48
23 21 0.50
24 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (22 bp):
ATTTTTAAGACCTCCGGGTATG
Found at i:29898826 original size:22 final size:23
Alignment explanation
Indices: 29898793--29898844 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
29898783 TATCCCAATC
29898793 AATTTTGTAAGACCTCCGGGCAT
1 AATTTTGTAAGACCTCCGGGCAT
* *
29898816 GATTTT-TAAGACCTCCGGGTAT
1 AATTTTGTAAGACCTCCGGGCAT
29898838 AATTTTG
1 AATTTTG
29898845 ATTTACGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (23 bp):
AATTTTGTAAGACCTCCGGGCAT
Found at i:29898883 original size:109 final size:110
Alignment explanation
Indices: 29898689--29899125 Score: 493
Period size: 109 Copynumber: 4.0 Consensus size: 110
29898679 GGTATGATTC
* ** * * *
29898689 TGTAAGACCTCCGGGTATGATTTTTAAGACCTCCGGATATAATTTCGATTCGTCG-TATTGTCCC
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAATTTCGATTC-ACGATGTTATCCC
*
29898753 AATCGATTCTTTAT-TTCTGACTTGCGGTGTTATCCCAATCAATTT
65 AATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAATCAATTT
* * * *
29898798 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGTATAATTTTGATTTACG-TGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAATTTCGATTCACGATGTTATCCCA
* * * * *
29898862 ATCGATTCTTTATCTTTTGACTTGTGGTATTATTCCAATCGATTC
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAATCAATTT
* * * *
29898907 TGTAAGACCTTCGGGCATGATTTTTAAAGACCTTCGGGCATAGTTTCGATTCGCGATGTTATCCC
1 TGTAAGACCTCCGGGCATGATTTTT-AAGACCTCCGGGCATAATTTCGATTCACGATGTTATCCC
* * *
29898972 AATCGATTTTTTTTTATCTTTTGACTTGTGGTGTTATCCCAGTCAATTT
65 AATCGA---TTCTTTATCTTTTGACTTGCGGTGTTATCCCAATCAATTT
* * * * * * * *
29899021 TGTAAGACCTTCGGGCATGAATTATAAGACCTTCGAGCATAAATTCGATTCATGATGTTATCTCA
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAATTTCGATTCACGATGTTATCCCA
* * * *
29899086 ATCGATTCATTATTTTTTGACTTGCGATGTCATCCCAATC
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAATC
29899126 GTTTTGTGTT
Statistics
Matches: 279, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
108 22 0.08
109 96 0.34
110 51 0.18
111 14 0.05
113 39 0.14
114 57 0.20
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.40
Consensus pattern (110 bp):
TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAATTTCGATTCACGATGTTATCCCA
ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAATCAATTT
Found at i:29899048 original size:22 final size:22
Alignment explanation
Indices: 29899023--29899065 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29899013 GTCAATTTTG
* *
29899023 TAAGACCTTCGGGCATGAATTA
1 TAAGACCTTCGAGCATAAATTA
29899045 TAAGACCTTCGAGCATAAATT
1 TAAGACCTTCGAGCATAAATT
29899066 CGATTCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (22 bp):
TAAGACCTTCGAGCATAAATTA
Found at i:29899214 original size:22 final size:22
Alignment explanation
Indices: 29899186--29899252 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
29899176 CAGTCGATTC
29899186 TGTAAGACCTTCGAGCATGAAT
1 TGTAAGACCTTCGAGCATGAAT
29899208 TGTAAGACCTTCGAGCATGAAT
1 TGTAAGACCTTCGAGCATGAAT
*
29899230 TGTAAGACCTTCGAGCATAAAT
1 TGTAAGACCTTCGAGCATGAAT
29899252 T
1 T
29899253 CGATTCGCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (22 bp):
TGTAAGACCTTCGAGCATGAAT
Found at i:29899508 original size:23 final size:21
Alignment explanation
Indices: 29899482--29899520 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29899472 TTATTATTAA
*
29899482 TAATAA-TATTTAAAAATAAT
1 TAATAATTATATAAAAATAAT
*
29899502 TATTAATTATATAAAAATA
1 TAATAATTATATAAAAATA
29899521 TAAAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATAATTATATAAAAATAAT
Found at i:29899524 original size:29 final size:29
Alignment explanation
Indices: 29899471--29899529 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
29899461 TAATGATAAT
*
29899471 ATTATTATTAATAATAATATTTAAAAATA
1 ATTATTATTAATAATAATATATAAAAATA
* *
29899500 ATTATTAATTATATAAAAATATAAAAAAAT
1 ATTATT-ATTA-ATAATAATATATAAAAAT
29899530 GAAACGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 4 0.16
31 15 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
ATTATTATTAATAATAATATATAAAAATA
Found at i:29899542 original size:15 final size:15
Alignment explanation
Indices: 29899522--29899563 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
29899512 ATAAAAATAT
*
29899522 AAAAAAATGAAACGA
1 AAAAAAATGAAACAA
*
29899537 AAAAAAA-GTAACAA
1 AAAAAAATGAAACAA
29899551 AAAAAAATAGAAA
1 AAAAAAAT-GAAA
29899564 GTAGGGTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 7 0.32
16 3 0.14
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAAAAATGAAACAA
Found at i:29902137 original size:64 final size:63
Alignment explanation
Indices: 29902003--29902152 Score: 164
Period size: 63 Copynumber: 2.4 Consensus size: 63
29901993 CAAAAACGTA
* * * * * *
29902003 TTCAATAA-TCCCTCTATAACTTTTTATGAGGGATTATTAAAAGGTTTTAGACCAAAAATATC
1 TTCAATAATTCCCTCAATAAATTTTAAAGAGGGATTATTAAAAGGTTTTAGACCAAAAACACC
*
29902065 TTCAATAATTCCCTCAATAAATTTTAAAGAGGGATTATT-GAAGGCAATTTTAG-CCAAAAACAC
1 TTCAATAATTCCCTCAATAAATTTTAAAGAGGGATTATTAAAAGG---TTTTAGACCAAAAACAC
29902128 C
63 C
* *
29902129 TTCAATAATCCCCTCCA-AAATTTT
1 TTCAATAATTCCCTCAATAAATTTT
29902153 TTGTATAGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
62 12 0.16
63 33 0.44
64 24 0.32
65 6 0.08
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (63 bp):
TTCAATAATTCCCTCAATAAATTTTAAAGAGGGATTATTAAAAGGTTTTAGACCAAAAACACC
Found at i:29902164 original size:63 final size:64
Alignment explanation
Indices: 29902097--29902234 Score: 181
Period size: 65 Copynumber: 2.2 Consensus size: 64
29902087 TTTAAAGAGG
* * *
29902097 GATTATTGAAGGCA-ATTTTAGCCAAAAACACCTTCAATAATCCC-CTCCAAAATTTTTTGTATA
1 GATTATTAAAGGCATATTTTA-CCAAAAACACATTCAATAATCCCTCTCCAAAATTTTTTGAATA
* **
29902160 GATTATTAAAGGCATTTTTTTACTGAAAACACATTCAATAATCCCTCTCCAAAATTTTTTGAATA
1 GATTATTAAAGGCA-TATTTTACCAAAAACACATTCAATAATCCCTCTCCAAAATTTTTTGAATA
*
29902225 AATTATTAAA
1 GATTATTAAA
29902235 TGAGTTTTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
63 13 0.20
64 20 0.31
65 32 0.49
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (64 bp):
GATTATTAAAGGCATATTTTACCAAAAACACATTCAATAATCCCTCTCCAAAATTTTTTGAATA
Found at i:29902243 original size:64 final size:64
Alignment explanation
Indices: 29902121--29902243 Score: 185
Period size: 65 Copynumber: 1.9 Consensus size: 64
29902111 ATTTTAGCCA
* * * *
29902121 AAAACACCTTCAATAATCCCCTCCAAAATTTTTTGTATAGATTATTAAAGGCATTTTTTTACTG
1 AAAACACATTCAATAATCCCCTCCAAAATTTTTTGAATAAATTATTAAAGGCAGTTTTTTACTG
*
29902185 AAAACACATTCAATAATCCCTCTCCAAAATTTTTTGAATAAATTATTAAATG-AGTTTTT
1 AAAACACATTCAATAATCCC-CTCCAAAATTTTTTGAATAAATTATTAAAGGCAGTTTTT
29902244 GGCAAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
64 25 0.47
65 28 0.53
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (64 bp):
AAAACACATTCAATAATCCCCTCCAAAATTTTTTGAATAAATTATTAAAGGCAGTTTTTTACTG
Found at i:29910074 original size:26 final size:25
Alignment explanation
Indices: 29909996--29910070 Score: 132
Period size: 26 Copynumber: 3.0 Consensus size: 25
29909986 ATGTTTTGCA
29909996 TGCAAATTATGGGAATTCAAATCCG
1 TGCAAATTATGGGAATTCAAATCCG
*
29910021 TGCAACTTATGGGAATTCAAATACCG
1 TGCAAATTATGGGAATTCAAAT-CCG
29910047 TGCAAATTATGGGAATTCAAATCC
1 TGCAAATTATGGGAATTCAAATCC
29910071 CGTGTAATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 23 0.49
26 24 0.51
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (25 bp):
TGCAAATTATGGGAATTCAAATCCG
Found at i:29912645 original size:26 final size:26
Alignment explanation
Indices: 29912612--29912673 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
29912602 TTAGTACACA
29912612 ACCTACTTCCCAATTCTCATCCCTAC
1 ACCTACTTCCCAATTCTCATCCCTAC
29912638 ACCTACTTCCCAATTCTCATCCCTAC
1 ACCTACTTCCCAATTCTCATCCCTAC
29912664 ACCTACTTCC
1 ACCTACTTCC
29912674 TAAGCACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.31
Consensus pattern (26 bp):
ACCTACTTCCCAATTCTCATCCCTAC
Found at i:29917980 original size:22 final size:22
Alignment explanation
Indices: 29917947--29917994 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
29917937 ATGCATTAAT
29917947 TTTA-ATTAATTTAA-AATAATAA
1 TTTATATTAATTTAATAA-AA-AA
29917969 TTTATATT-ATTTAATAAAAAA
1 TTTATATTAATTTAATAAAAAA
29917990 TTTAT
1 TTTAT
29917995 TTACTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATATTAATTTAATAAAAAA
Found at i:29922411 original size:2 final size:2
Alignment explanation
Indices: 29922404--29922432 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29922394 ATCGAACCAT
29922404 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 T
29922433 TCCCACTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29926997 original size:17 final size:18
Alignment explanation
Indices: 29926959--29926994 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
29926949 TTAATGATTT
29926959 TAAATTAAAT-ATTAAAA
1 TAAATTAAATAATTAAAA
29926976 TAAATTAAATTAATTAAAA
1 TAAATTAAA-TAATTAAAA
29926995 AATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAATTAAATAATTAAAA
Found at i:29927827 original size:3 final size:3
Alignment explanation
Indices: 29927821--29927866 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
29927811 GTTCTTTTGT
*
29927821 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
29927867 TTAAAGTAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29930573 original size:46 final size:46
Alignment explanation
Indices: 29930477--29930570 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 46
29930467 ATTTTATAAG
*
29930477 TTTTATTTCT-AAATTTTCAACAATTTGGGTTAATTTAGAAATTTT
1 TTTTATTTTTAAAATTTTCAACAATTTGGGTTAATTTAGAAATTTT
* *
29930522 TTTTATTTTTAAAATTTT-TACCATTTGGGTCT-ATTTAGAAATTTT
1 TTTTATTTTTAAAATTTTCAACAATTTGGGT-TAATTTAGAAATTTT
29930567 TTTT
1 TTTT
29930571 TATCTTTGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 36 0.82
46 8 0.18
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (46 bp):
TTTTATTTTTAAAATTTTCAACAATTTGGGTTAATTTAGAAATTTT
Found at i:29932070 original size:44 final size:44
Alignment explanation
Indices: 29931982--29932257 Score: 270
Period size: 44 Copynumber: 6.3 Consensus size: 44
29931972 AGTTTAATAC
* * * * *
29931982 TTTGAAAAATAGAAAAA-CTCCTCTCAATAGAGGCTTAATGACT
1 TTTGAAAAATAAAAAAAGCTCCCCTAAATAGAGGCTCAACGACT
* **
29932025 TTTGAAAAGTAAAAAAAGCTCCCCTAAATAGAGGCTCAATAACT
1 TTTGAAAAATAAAAAAAGCTCCCCTAAATAGAGGCTCAACGACT
* * *
29932069 TTTGAAAAAT-AAATAAGACTCCCTTAAACAGAGGCTCAACGACT
1 TTTGAAAAATAAAAAAAG-CTCCCCTAAATAGAGGCTCAACGACT
* * * * *
29932113 TTTGAAAAATAAATAAGGCTTCCCTAAATAGAGACTTAACGACT
1 TTTGAAAAATAAAAAAAGCTCCCCTAAATAGAGGCTCAACGACT
* * * * *
29932157 TTAGAAAAGTAAATAAAGCTTCTCTAAATAGAGGCTCAACGACT
1 TTTGAAAAATAAAAAAAGCTCCCCTAAATAGAGGCTCAACGACT
* * ** *
29932201 TTTAAAAAAT-AAATAAGACTCATCTAAATAGAGGCTCAACGATT
1 TTTGAAAAATAAAAAAAG-CTCCCCTAAATAGAGGCTCAACGACT
*
29932245 TTTAAAAAATAAA
1 TTTGAAAAATAAA
29932258 TAAGGCTCAA
Statistics
Matches: 194, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
43 26 0.13
44 162 0.84
45 6 0.03
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (44 bp):
TTTGAAAAATAAAAAAAGCTCCCCTAAATAGAGGCTCAACGACT
Found at i:29932184 original size:132 final size:132
Alignment explanation
Indices: 29932007--29932264 Score: 383
Period size: 132 Copynumber: 2.0 Consensus size: 132
29931997 AACTCCTCTC
* * * *
29932007 AATAGAGGCTTAATGACTTTTGAAAAGTAAAAAAAGCTCCCCTAAATAGAGGCTCAATAACTTTT
1 AATAGAGACTTAACGACTTTAGAAAAGTAAAAAAAGCTCCCCTAAATAGAGGCTCAACAACTTTT
* * *
29932072 GAAAAATAAATAAGACTC-CCTTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAAGGCTTCC
66 AAAAAATAAATAAGACTCATC-TAAACAGAGGCTCAACGACTTTTAAAAAATAAATAAGGCTTCC
29932136 CTA
130 CTA
* * * *
29932139 AATAGAGACTTAACGACTTTAGAAAAGTAAATAAAGCTTCTCTAAATAGAGGCTCAACGACTTTT
1 AATAGAGACTTAACGACTTTAGAAAAGTAAAAAAAGCTCCCCTAAATAGAGGCTCAACAACTTTT
* *
29932204 AAAAAATAAATAAGACTCATCTAAATAGAGGCTCAACGATTTTTAAAAAATAAATAAGGCT
66 AAAAAATAAATAAGACTCATCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATAAGGCT
29932265 CAACGACTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
132 111 0.99
133 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (132 bp):
AATAGAGACTTAACGACTTTAGAAAAGTAAAAAAAGCTCCCCTAAATAGAGGCTCAACAACTTTT
AAAAAATAAATAAGACTCATCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATAAGGCTTCCC
TA
Found at i:29932265 original size:28 final size:28
Alignment explanation
Indices: 29932225--29932292 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
29932215 AAGACTCATC
*
29932225 TAAATAGAGGCTCAACGATTTTTAAAAAA
1 TAAATA-AGGCTCAACGACTTTTAAAAAA
* **
29932254 TAAATAAGGCTCAACGACTTTTGAAATT
1 TAAATAAGGCTCAACGACTTTTAAAAAA
29932282 TAAATAAGGCT
1 TAAATAAGGCT
29932293 TTTTTAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (28 bp):
TAAATAAGGCTCAACGACTTTTAAAAAA
Found at i:29932266 original size:72 final size:73
Alignment explanation
Indices: 29932181--29932330 Score: 194
Period size: 72 Copynumber: 2.1 Consensus size: 73
29932171 AAAGCTTCTC
** *
29932181 TAAATAGAGGCTCAACGACTTTTAAAAAATAAATAAGACTCATCTAAATAGAGGCTCAACGATTT
1 TAAATAGAGGCTCAACGACTTTTAAAAAATAAATAAGACTCATCTAAATAGAGGCTCAAAAACTT
29932246 TTAAAAAA
66 TTAAAAAA
* ** * ** *
29932254 TAAATA-AGGCTCAACGACTTTTGAAATTTAAATAAGGCTTTTTTAAATAGAGGCTCAAAAACTT
1 TAAATAGAGGCTCAACGACTTTTAAAAAATAAATAAGACTCATCTAAATAGAGGCTCAAAAACTT
*
29932318 TTGAAAAA
66 TTAAAAAA
29932326 TAAAT
1 TAAAT
29932331 CAAACTCAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
72 60 0.91
73 6 0.09
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (73 bp):
TAAATAGAGGCTCAACGACTTTTAAAAAATAAATAAGACTCATCTAAATAGAGGCTCAAAAACTT
TTAAAAAA
Found at i:29932330 original size:44 final size:42
Alignment explanation
Indices: 29932254--29932415 Score: 136
Period size: 44 Copynumber: 3.9 Consensus size: 42
29932244 TTTTAAAAAA
* **
29932254 TAAATA-AGGCTCAACGACTTTTGAAATTTAAATAAGGCTTTTT
1 TAAATAGAGGCTCAACAACTTTTGAAAAATAAATAAGGC--TTT
* *
29932297 TAAATAGAGGCTCAAAAACTTTTGAAAAATAAATCAA-AC--T
1 TAAATAGAGGCTCAACAACTTTTGAAAAATAAAT-AAGGCTTT
* * * * *
29932337 CAAATAGAGACTTAATAACTTTAGAAAAATAAATAAGGCTCATT
1 TAAATAGAGGCTCAACAACTTTTGAAAAATAAATAAGGCT--TT
**
29932381 TAAGCAGAGGCTCAACAAC-TTTGAAAAATAAATAA
1 TAAATAGAGGCTCAACAACTTTTGAAAAATAAATAA
29932416 AGCTCATCGA
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
39 2 0.02
40 31 0.33
43 21 0.22
44 38 0.40
45 2 0.02
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (42 bp):
TAAATAGAGGCTCAACAACTTTTGAAAAATAAATAAGGCTTT
Found at i:29932342 original size:40 final size:39
Alignment explanation
Indices: 29932298--29932421 Score: 115
Period size: 40 Copynumber: 3.0 Consensus size: 39
29932288 AGGCTTTTTT
29932298 AAATAGAGGCTCAAAAACTTTTGAAAAATAAATCAAACTC
1 AAATAGAGGCTCAAAAACTTTTGAAAAATAAAT-AAACTC
* * * * *
29932338 AAATAGAGACTTAATAACTTTAGAAAAATAAATAAGGCTC
1 AAATAGAGGCTCAAAAACTTTTGAAAAATAAATAA-ACTC
* *
29932378 ATTTAAGCAGAGGCTCAACAAC-TTTGAAAAATAAATAAAGCTC
1 A---AA-TAGAGGCTCAAAAACTTTTGAAAAATAAATAAA-CTC
29932421 A
1 A
29932422 TCGACAATCA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
39 2 0.03
40 33 0.49
43 21 0.31
44 11 0.16
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (39 bp):
AAATAGAGGCTCAAAAACTTTTGAAAAATAAATAAACTC
Found at i:29932686 original size:32 final size:33
Alignment explanation
Indices: 29932650--29932719 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
29932640 TCATAGATTC
* * *
29932650 ATGCACTAAACATTCTTAAAT-CTATGCATGTT
1 ATGCACTAAACATTCATAAATGCAATGCATGCT
29932682 ATGCACTAAACATTCATAAATGCAATGCATGCT
1 ATGCACTAAACATTCATAAATGCAATGCATGCT
29932715 ATGCA
1 ATGCA
29932720 AATGTTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (33 bp):
ATGCACTAAACATTCATAAATGCAATGCATGCT
Found at i:29937355 original size:58 final size:58
Alignment explanation
Indices: 29937260--29937372 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
29937250 TGAAGGTCTC
* **
29937260 ATACAAGTGTGGGATGTTCATAGGCATAGTCTCTGGTTCATGCGTTTTTAGCCCTGCT
1 ATACAAGTGTGGGATGTTCATAGGCATAGTCTCTGGTTCATACCCTTTTAGCCCTGCT
*
29937318 ATACAAGTGTGGGATGTTCATAGGCATAGTCTTTGGTTCATACCCTTTTAGCCCT
1 ATACAAGTGTGGGATGTTCATAGGCATAGTCTCTGGTTCATACCCTTTTAGCCCT
29937373 ACCATCATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (58 bp):
ATACAAGTGTGGGATGTTCATAGGCATAGTCTCTGGTTCATACCCTTTTAGCCCTGCT
Found at i:29945510 original size:29 final size:29
Alignment explanation
Indices: 29945470--29945533 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
29945460 TTGGTTTAAG
*
29945470 TTTTAAGGGTTTGGATTTTAAGTTTTTGAAA
1 TTTT-AGGTTTTGG-TTTTAAGTTTTTGAAA
* *
29945501 TTTTAGGTTTTGGTTTTAATTTTTTGAAT
1 TTTTAGGTTTTGGTTTTAAGTTTTTGAAA
29945530 TTTT
1 TTTT
29945534 TTAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 18 0.60
30 8 0.27
31 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.19, T:0.61
Consensus pattern (29 bp):
TTTTAGGTTTTGGTTTTAAGTTTTTGAAA
Found at i:29946003 original size:8 final size:8
Alignment explanation
Indices: 29945987--29946034 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
29945977 AATAAAGCTC
*
29945987 AAAATAAT
1 AAAAAAAT
29945995 AAAAAAAT
1 AAAAAAAT
*
29946003 AAAAAATTT
1 AAAAAA-AT
**
29946012 AAAAATTT
1 AAAAAAAT
29946020 AAAAAAAT
1 AAAAAAAT
29946028 AAAAAAA
1 AAAAAAA
29946035 ACCTAAACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAAAT
Found at i:29950096 original size:4 final size:4
Alignment explanation
Indices: 29950087--29950150 Score: 50
Period size: 4 Copynumber: 16.8 Consensus size: 4
29950077 AAAATATTTA
*
29950087 AAAT AAAT AAAT AAAT AAA- ATAAT AACAT GAAA- CAA- AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A-AAT AA-AT -AAAT AAAT AAAT AAAT AAAT
29950135 -AA- AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
29950151 AACAAATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
3 12 0.24
4 32 0.64
5 4 0.08
6 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:29950152 original size:13 final size:14
Alignment explanation
Indices: 29950091--29950158 Score: 75
Period size: 14 Copynumber: 4.6 Consensus size: 14
29950081 TATTTAAAAT
29950091 AAATAAATAAATAAA
1 AAATAAATAAAT-AA
*
29950106 ATAATAACATGAAACAA
1 A-AATAA-AT-AAATAA
29950123 AAATAAATAAATAA
1 AAATAAATAAATAA
29950137 AAATAAA-AAATAA
1 AAATAAATAAATAA
*
29950150 AAACAAATA
1 AAATAAATA
29950159 CCAAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
13 12 0.26
14 13 0.28
15 3 0.07
16 10 0.22
17 5 0.11
18 3 0.07
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.18
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:29950164 original size:40 final size:38
Alignment explanation
Indices: 29950087--29950168 Score: 87
Period size: 40 Copynumber: 2.1 Consensus size: 38
29950077 AAAATATTTA
* *
29950087 AAATAAATAAATAAATAAAATAATAACATGAAACAAAAAT
1 AAATAAATAAATAAAAAAAATAAAAACA-GAAAC-AAAAT
29950127 AAATAAATAAA-AATAAAAAATAAAAACA-AATACCAAAAT
1 AAATAAATAAATAA-AAAAAATAAAAACAGAA-A-CAAAAT
29950166 AAA
1 AAA
29950169 AGAATCGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
38 2 0.05
39 11 0.30
40 24 0.65
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.17
Consensus pattern (38 bp):
AAATAAATAAATAAAAAAAATAAAAACAGAAACAAAAT
Found at i:29952740 original size:2 final size:2
Alignment explanation
Indices: 29952735--29952759 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29952725 TTCAAAAAGA
29952735 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29952760 ATTCTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29958672 original size:3 final size:3
Alignment explanation
Indices: 29958664--29958710 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
29958654 TTTGGATTTT
*
29958664 TAA TAA TAA TAA TAA CAA TAA TAA -AA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
29958710 T
1 T
29958711 TTTTATCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:29958693 original size:20 final size:20
Alignment explanation
Indices: 29958668--29958706 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
29958658 GATTTTTAAT
29958668 AATAATAATAACAATAATAA
1 AATAATAATAACAATAATAA
*
29958688 AATAATAATAATAATAATA
1 AATAATAATAACAATAATA
29958707 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAATAATAACAATAATAA
Found at i:29959451 original size:23 final size:23
Alignment explanation
Indices: 29959425--29959473 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
29959415 TATTCATTTA
29959425 AACTAAAAATTCAATACTCTATC
1 AACTAAAAATTCAATACTCTATC
* *
29959448 AACTAAAAGTTTAATACTCTATC
1 AACTAAAAATTCAATACTCTATC
29959471 AAC
1 AAC
29959474 AGATTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (23 bp):
AACTAAAAATTCAATACTCTATC
Found at i:29959698 original size:19 final size:19
Alignment explanation
Indices: 29959674--29959712 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29959664 TTCAACTTCA
29959674 TTTTTT-AAAAACATTTTTT
1 TTTTTTGAAAAA-ATTTTTT
*
29959693 TTTTTTGTAAAAATTTTTT
1 TTTTTTGAAAAAATTTTTT
29959712 T
1 T
29959713 ACGACCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTTTGAAAAAATTTTTT
Found at i:29961961 original size:17 final size:17
Alignment explanation
Indices: 29961939--29961975 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
29961929 AAAAAATTAA
29961939 TTAATTATAA-TATTTTT
1 TTAATTATAACT-TTTTT
29961956 TTAATTATAACTTTTTT
1 TTAATTATAACTTTTTT
29961973 TTA
1 TTA
29961976 TAAAGTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAATTATAACTTTTTT
Found at i:29963090 original size:20 final size:20
Alignment explanation
Indices: 29963054--29963091 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29963044 ATATATTAAA
*
29963054 AATATTATTAAATATTTTTT
1 AATATTATTAAACATTTTTT
29963074 AATATT-TTACAACATTTT
1 AATATTATTA-AACATTTT
29963092 CTGTGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTATTAAACATTTTTT
Found at i:29965417 original size:51 final size:51
Alignment explanation
Indices: 29965323--29965432 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
29965313 TTTGGCTAAA
* * *
29965323 TTAAAAATATTTTGTTTTTGAATTTCTAAATTTTTCACCATTTGGACCTGT
1 TTAAAAATATTTTGTTTTCGAATTGCTAAATTTTTCACCATTTGGACCTAT
** *
29965374 TTAAAAA-ATTTT-TTTTCGAAATTGCTAAATTTTTTCATTATTTGGGCCTAT
1 TTAAAAATATTTTGTTTTCG-AATTGCTAAA-TTTTTCACCATTTGGACCTAT
*
29965425 TTAGAAAT
1 TTAAAAAT
29965433 TCATTTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
49 5 0.10
50 14 0.29
51 30 0.61
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (51 bp):
TTAAAAATATTTTGTTTTCGAATTGCTAAATTTTTCACCATTTGGACCTAT
Found at i:29966787 original size:3 final size:3
Alignment explanation
Indices: 29966779--29966805 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29966769 TATCTTCTAG
29966779 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
29966806 GGTGATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:29967109 original size:42 final size:42
Alignment explanation
Indices: 29967063--29967145 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
29967053 ACAAAGTCCT
*
29967063 TCTAAATAGAGGCGAA-ACAACTTTAAAAAAAAAAATTGCTCC
1 TCTAAATAGAAGC-AACACAACTTTAAAAAAAAAAATTGCTCC
** *
29967105 TCTAAATAGAAGCAACACAACTTTTGAAAAATAAATTGCTC
1 TCTAAATAGAAGCAACACAACTTTAAAAAAAAAAATTGCTC
29967146 TTCGACAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (42 bp):
TCTAAATAGAAGCAACACAACTTTAAAAAAAAAAATTGCTCC
Found at i:29967547 original size:22 final size:22
Alignment explanation
Indices: 29967496--29967547 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
29967486 TCGAAGATTC
29967496 TCATTTG-AAACTTAAAAATTT
1 TCATTTGAAAACTTAAAAATTT
* *
29967517 TTATCTGAAAACTCT-AAAATTT
1 TCATTTGAAAACT-TAAAAATTT
29967539 TCATTTGAA
1 TCATTTGAA
29967548 GATTTCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 5 0.20
22 19 0.76
23 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (22 bp):
TCATTTGAAAACTTAAAAATTT
Found at i:29967721 original size:20 final size:20
Alignment explanation
Indices: 29967674--29967723 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
29967664 TGTCATGATC
*
29967674 AATGATGCAAGTGCTTTCCT
1 AATGATGTAAGTGCTTTCCT
*
29967694 AATGATGTAAGTGCTTTTCT
1 AATGATGTAAGTGCTTTCCT
29967714 AATGATGTAA
1 AATGATGTAA
29967724 ATGCAACAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (20 bp):
AATGATGTAAGTGCTTTCCT
Found at i:29977862 original size:71 final size:71
Alignment explanation
Indices: 29977779--29977916 Score: 249
Period size: 71 Copynumber: 1.9 Consensus size: 71
29977769 ATGTAAATGA
* *
29977779 GAGATCTAATTTATCAATAACTGATATGTGGTAAATATTTTCTATATGAGAATGATGCAAATGAT
1 GAGATCTAATTTATCAATAACTGATATATGGTAAATATTTTCTATATGAGAATAATGCAAATGAT
29977844 AAGTGG
66 AAGTGG
*
29977850 GAGATCTAATTTATCAATAATTGATATATGGTAAATATTTTCTATATGAGAATAATGCAAATGAT
1 GAGATCTAATTTATCAATAACTGATATATGGTAAATATTTTCTATATGAGAATAATGCAAATGAT
29977915 AA
66 AA
29977917 TGTTAAAACA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (71 bp):
GAGATCTAATTTATCAATAACTGATATATGGTAAATATTTTCTATATGAGAATAATGCAAATGAT
AAGTGG
Found at i:29977957 original size:45 final size:46
Alignment explanation
Indices: 29977903--29978016 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 46
29977893 ATATGAGAAT
*
29977903 AATGCAAATGATAATGTTAAAACATGATCATAAAAATGATGCATAG
1 AATGAAAATGATAATGTTAAAACATGATCATAAAAATGATGCATAG
* * **
29977949 AATGAAATGGTATGATAATCTTAAAACATGATGATGGAAATGATGCATAG
1 AATGAAA----ATGATAATGTTAAAACATGATCATAAAAATGATGCATAG
*
29977999 AATG-GAATGATAATGTTA
1 AATGAAAATGATAATGTTA
29978017 TGATGCACAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
45 11 0.19
46 6 0.11
49 1 0.02
50 39 0.68
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.28
Consensus pattern (46 bp):
AATGAAAATGATAATGTTAAAACATGATCATAAAAATGATGCATAG
Found at i:29977973 original size:50 final size:50
Alignment explanation
Indices: 29977910--29978007 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
29977900 AATAATGCAA
*
29977910 ATGATAATGTTAAAACATGATCATAAAAATGATGCATAGAATGAAATGGT
1 ATGATAATCTTAAAACATGATCATAAAAATGATGCATAGAATGAAATGGT
* ** *
29977960 ATGATAATCTTAAAACATGATGATGGAAATGATGCATAGAATGGAATG
1 ATGATAATCTTAAAACATGATCATAAAAATGATGCATAGAATGAAATG
29978008 ATAATGTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGATAATCTTAAAACATGATCATAAAAATGATGCATAGAATGAAATGGT
Found at i:29979174 original size:51 final size:51
Alignment explanation
Indices: 29979078--29979225 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
29979068 TCTCTTTTTG
* * *
29979078 AATTTTTAAATTTTTCACCATTTGGGCCTGTTTAGAAATATTTTTTTTCGA
1 AATTTTTAAATTTTTCACCATTTGAGCCTATTTAGAAATATTTTTTTTCAA
*
29979129 AATTTTTAAATTTTTTCACCATTTGAGCGTATTTAGAAATATTTTTTTTCAA
1 AATTTTTAAA-TTTTTCACCATTTGAGCCTATTTAGAAATATTTTTTTTCAA
* *
29979181 AATATCTAAATTTTTCACCATTTGAGCCTATTTAGAAAT-TTTTTT
1 AATTTTTAAATTTTTCACCATTTGAGCCTATTTAGAAATATTTTTT
29979226 CTTTTTTATT
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
50 6 0.07
51 38 0.43
52 45 0.51
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (51 bp):
AATTTTTAAATTTTTCACCATTTGAGCCTATTTAGAAATATTTTTTTTCAA
Found at i:29979590 original size:9 final size:9
Alignment explanation
Indices: 29979578--29979620 Score: 63
Period size: 8 Copynumber: 4.9 Consensus size: 9
29979568 CCAAAAATTT
29979578 TATTTTTTA
1 TATTTTTTA
29979587 TATTTTTTA
1 TATTTTTTA
29979596 TA-TTTTTA
1 TATTTTTTA
29979604 TA-TTTTTA
1 TATTTTTTA
29979612 TTATTTTTT
1 -TATTTTTT
29979621 GTTTTTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 14 0.44
9 13 0.41
10 5 0.16
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TATTTTTTA
Found at i:29979601 original size:8 final size:8
Alignment explanation
Indices: 29979575--29979619 Score: 65
Period size: 9 Copynumber: 5.5 Consensus size: 8
29979565 ATTCCAAAAA
29979575 TTTTAT-T
1 TTTTATAT
29979582 TTTTATATT
1 TTTTATA-T
29979591 TTTTATAT
1 TTTTATAT
29979599 TTTTATAT
1 TTTTATAT
29979607 TTTTATTAT
1 TTTTA-TAT
29979616 TTTT
1 TTTT
29979620 TGTTTTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 6 0.17
8 14 0.40
9 15 0.43
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTATAT
Found at i:29979626 original size:16 final size:16
Alignment explanation
Indices: 29979575--29979619 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
29979565 ATTCCAAAAA
29979575 TTTTAT-TTTTTATATT
1 TTTTATATTTTTATA-T
29979591 TTTTATATTTTTATAT
1 TTTTATATTTTTATAT
29979607 TTTTATTATTTTT
1 TTTTA-TATTTTT
29979620 TGTTTTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATATTTTTATAT
Found at i:29979626 original size:17 final size:16
Alignment explanation
Indices: 29979575--29979626 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 16
29979565 ATTCCAAAAA
29979575 TTTTATTTTTTATATTT
1 TTTTATTTTTTAT-TTT
29979592 TTTATATTTTTATATTTT
1 TTT-TATTTTT-TATTTT
* *
29979610 TATTATTTTTTGTTTT
1 TTTTATTTTTTATTTT
29979626 T
1 T
29979627 GAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 10 0.32
18 12 0.39
19 3 0.10
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTATTTT
Found at i:29987344 original size:18 final size:18
Alignment explanation
Indices: 29987321--29987381 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
29987311 TGGACGTGGC
29987321 TCAATAAGAGCTCTTCCA
1 TCAATAAGAGCTCTTCCA
29987339 TCAATAAGAGC-CTT-C-
1 TCAATAAGAGCTCTTCCA
* *
29987354 T-AACAAAAGCTCTTCCA
1 TCAATAAGAGCTCTTCCA
29987371 TCAATAAGAGC
1 TCAATAAGAGC
29987382 CTATTTGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 7 0.20
15 4 0.11
16 2 0.06
17 4 0.11
18 18 0.51
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (18 bp):
TCAATAAGAGCTCTTCCA
Found at i:29993671 original size:15 final size:15
Alignment explanation
Indices: 29993651--29993686 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
29993641 AGATTAATGG
*
29993651 ATTTTGGATATCAAT
1 ATTTTGGATAACAAT
*
29993666 ATTTTGGATAAGAAT
1 ATTTTGGATAACAAT
29993681 ATTTTG
1 ATTTTG
29993687 TGTTCCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (15 bp):
ATTTTGGATAACAAT
Found at i:29997016 original size:16 final size:16
Alignment explanation
Indices: 29996992--29997024 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29996982 AAAAATGAAC
29996992 TAATAATTTATGATAA
1 TAATAATTTATGATAA
*
29997008 TAATGATTTATGATAA
1 TAATAATTTATGATAA
29997024 T
1 T
29997025 TTTAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
TAATAATTTATGATAA
Found at i:29997499 original size:22 final size:21
Alignment explanation
Indices: 29997461--29997503 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
29997451 TTAGTTAAAT
29997461 TAAATATATAAATTTTACTTGA
1 TAAATATATAAATTTTA-TTGA
*
29997483 TAAACTATATCAA-TTTATTGA
1 TAAA-TATATAAATTTTATTGA
29997504 AGAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAATATATAAATTTTATTGA
Found at i:30008150 original size:35 final size:36
Alignment explanation
Indices: 30008104--30008178 Score: 136
Period size: 35 Copynumber: 2.1 Consensus size: 36
30008094 TTATACTAGG
30008104 GTATGCAACTTCCTCTCAGC-TTATTCTTGATCTGT
1 GTATGCAACTTCCTCTCAGCATTATTCTTGATCTGT
30008139 GTATGCAACTTCCTCTCAGCATTATTCTTGATCTGT
1 GTATGCAACTTCCTCTCAGCATTATTCTTGATCTGT
30008175 -TATG
1 GTATG
30008179 GACCCTTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 24 0.62
36 15 0.38
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (36 bp):
GTATGCAACTTCCTCTCAGCATTATTCTTGATCTGT
Found at i:30015773 original size:18 final size:18
Alignment explanation
Indices: 30015750--30015785 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
30015740 AGACAACAAC
30015750 AAAGAA-ATAAAGAAAGAA
1 AAAGAACAT-AAGAAAGAA
30015768 AAAGAACATAAGAAAGAA
1 AAAGAACATAAGAAAGAA
30015786 TTTTCAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (18 bp):
AAAGAACATAAGAAAGAA
Found at i:30025027 original size:121 final size:122
Alignment explanation
Indices: 30024754--30025028 Score: 263
Period size: 121 Copynumber: 2.2 Consensus size: 122
30024744 TTATAAAAGC
* ** * * * *
30024754 ATTTTCGTAATTATAATAAAAGGAGTATTATAGTAATTTTAACTAATTATGATATAATGAATATT
1 ATTTT-GTAATTATAGTAAAAATA-TATTATAATAATTTTAACTAATTATAATAGAATGAACATT
* * * **
30024819 TTCATAAATATGATATAAAGGTTATTATAATAATTTTGGCCAAATATGATATGAGAGAT
64 TTCATAAATATGATATAAAGGGTATTATAATAATTTTGACCAAATATGAGAAAAGAGAT
* * * * * *
30024878 TTTTTATAATTATGGT-AAAATGACATTATAATAATTTTGATTAATTATAATAGGAA-GAACATT
1 ATTTTGTAATTATAGTAAAAAT-ATATTATAATAATTTTAACTAATTATAATA-GAATGAACATT
* * * *
30024941 TAT-ATAATTATGGTAT-AAGGGTATTATAATAATTTTGACTAATTATGAGAAAAGCA-AT
64 T-TCATAAATATGATATAAAGGGTATTATAATAATTTTGACCAAATATGAGAAAAG-AGAT
30024999 ATTTTGTAATTATAGTAAAAATATATTATA
1 ATTTTGTAATTATAGTAAAAATATATTATA
30025029 GTAAATTCAA
Statistics
Matches: 120, Mismatches: 26, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
121 53 0.44
122 51 0.43
123 12 0.10
124 4 0.03
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (122 bp):
ATTTTGTAATTATAGTAAAAATATATTATAATAATTTTAACTAATTATAATAGAATGAACATTTT
CATAAATATGATATAAAGGGTATTATAATAATTTTGACCAAATATGAGAAAAGAGAT
Found at i:30025648 original size:61 final size:61
Alignment explanation
Indices: 30025521--30025677 Score: 156
Period size: 61 Copynumber: 2.6 Consensus size: 61
30025511 ATGGTAGGGG
* * * ** **
30025521 TATTTTTATAAATT-TGGTAAAAGAGGCATTATAGTAATTTTAACCAATTATATTAAGAGATG
1 TATTTTTAT-AATTATTGTAAAAG-GGTATTATAATAATTTTAACCAATTATAACAAGAGAAA
* *
30025583 TATTTTTATAATTATTGTAAAAGGGTATTATAATAATTTTAACTAATTATAACAAGATAAA
1 TATTTTTATAATTATTGTAAAAGGGTATTATAATAATTTTAACCAATTATAACAAGAGAAA
* * **
30025644 TATTTTCACAATTA-TGATAAAAAAGTATTATAAT
1 TATTTTTATAATTATTG-TAAAAGGGTATTATAAT
30025678 GTATTTCGAC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
60 2 0.03
61 61 0.76
62 17 0.21
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.41
Consensus pattern (61 bp):
TATTTTTATAATTATTGTAAAAGGGTATTATAATAATTTTAACCAATTATAACAAGAGAAA
Found at i:30025976 original size:29 final size:27
Alignment explanation
Indices: 30025913--30025978 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 27
30025903 ATAATTTTTG
30025913 TTAATAATAAAAAAAGATTTTTTGTAA
1 TTAATAATAAAAAAAGATTTTTTGTAA
*
30025940 TTCAATAATAAAATAAGAGATTTTTATTTAA
1 TT-AATAATAAAA-AA-AGATTTTT-TGTAA
30025971 TT-ATAATA
1 TTAATAATA
30025979 TGAGAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 2 0.06
28 10 0.29
29 8 0.24
30 8 0.24
31 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (27 bp):
TTAATAATAAAAAAAGATTTTTTGTAA
Found at i:30026079 original size:51 final size:49
Alignment explanation
Indices: 30026024--30026200 Score: 150
Period size: 51 Copynumber: 3.5 Consensus size: 49
30026014 ACATTTTTGA
30026024 AATTAGGATATGAAG-ACATAATAGTCAATTTAAGAGAATAAATATTTTCAT
1 AATTAGGATATGAAGAACATAATAGT-AATTTAAGA-AA-AAATATTTTCAT
*
30026075 AATTATGG-TAT-AAGAATATAATAGTTAATTTAAGAAAAAAATGTATTTTCAT
1 AATTA-GGATATGAAGAACATAATAG-TAATTTAAG-AAAAAA--TATTTTCAT
* * * *
30026127 AATTATGATATGAATGTATCATAATAAATAA-TTATA-AAAAAATATTTTTAT
1 AATTAGGATATGAA-G-AACATAAT-AGTAATTTA-AGAAAAAATATTTTCAT
*
30026178 AATTATGATATGAA-AACATAATA
1 AATTAGGATATGAAGAACATAATA
30026201 ATTTATCAAT
Statistics
Matches: 107, Mismatches: 7, Indels: 28
0.75 0.05 0.20
Matches are distributed among these distances:
47 1 0.01
48 7 0.07
50 6 0.06
51 49 0.46
52 21 0.20
53 8 0.07
54 4 0.04
55 10 0.09
56 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (49 bp):
AATTAGGATATGAAGAACATAATAGTAATTTAAGAAAAAATATTTTCAT
Found at i:30026294 original size:88 final size:89
Alignment explanation
Indices: 30026196--30026371 Score: 300
Period size: 89 Copynumber: 2.0 Consensus size: 89
30026186 TATGAAAACA
* *
30026196 TAATAATTTATCAATTTCTTATTAAACCGTAAAAA-TAATAATTGGTAATTCCTTAGGAAAATGT
1 TAATAATTTATCAATTTATTATTAAACAGTAAAAATTAATAATTGGTAATTCCTTAGGAAAATGT
*
30026260 TTTCAATATATGTGTAGATTATTT
66 TTTCAATATATGTATAGATTATTT
* *
30026284 TAATCATTTATCAATTTATTATTACACAGTAAAAATTAATAATTGGTAATTCCTTAGGAAAATGT
1 TAATAATTTATCAATTTATTATTAAACAGTAAAAATTAATAATTGGTAATTCCTTAGGAAAATGT
30026349 TTTCAATATATGTATAGATTATT
66 TTTCAATATATGTATAGATTATT
30026372 ACCCTTTCAA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 31 0.38
89 51 0.62
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (89 bp):
TAATAATTTATCAATTTATTATTAAACAGTAAAAATTAATAATTGGTAATTCCTTAGGAAAATGT
TTTCAATATATGTATAGATTATTT
Found at i:30028143 original size:8 final size:8
Alignment explanation
Indices: 30028116--30028164 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
30028106 TATTTGTTAA
30028116 ATATAAAT
1 ATATAAAT
* *
30028124 ATTTAAAA
1 ATATAAAT
*
30028132 ATATAATT
1 ATATAAAT
30028140 ATATAAAT
1 ATATAAAT
*
30028148 ATATATAT
1 ATATAAAT
*
30028156 AAATAAAT
1 ATATAAAT
30028164 A
1 A
30028165 ATTAAAAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:30029931 original size:30 final size:30
Alignment explanation
Indices: 30029895--30029958 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
30029885 TAGACATGAG
30029895 ATAACCCACTTT-AAAAGACCT-TCAACACGT
1 ATAACCCA-TTTGAAAAG-CCTCTCAACACGT
* *
30029925 ATAACCCATTTGAATAGGCTCTCAACACGT
1 ATAACCCATTTGAAAAGCCTCTCAACACGT
30029955 ATAA
1 ATAA
30029959 TTGGAGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (30 bp):
ATAACCCATTTGAAAAGCCTCTCAACACGT
Done.