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 189 of 195
Found at i:33639011 original size:11 final size:11
Alignment explanation
Indices: 33638997--33639028 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
33638987 AAATTTAAAA
*
33638997 ATTTTTATTTT
1 ATTTTTATTAT
33639008 ATTTTTATTAT
1 ATTTTTATTAT
33639019 ATTTTTATTA
1 ATTTTTATTA
33639029 AATTAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTTTATTAT
Found at i:33639950 original size:2 final size:2
Alignment explanation
Indices: 33639945--33639969 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33639935 TTATTTTTAT
33639945 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 T
33639970 GGCCAGTTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33641685 original size:21 final size:21
Alignment explanation
Indices: 33641661--33641700 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33641651 ATTAACAATT
33641661 ATTATAATA-TAATTAATTATA
1 ATTA-AATAGTAATTAATTATA
*
33641682 ATTAAATAGTAATTCATTA
1 ATTAAATAGTAATTAATTA
33641701 AACACTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTAAATAGTAATTAATTATA
Found at i:33647921 original size:32 final size:31
Alignment explanation
Indices: 33647876--33647945 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 31
33647866 AATATTCTTT
*
33647876 TTTTTATATATCATACGTGATAGAAAGAATA
1 TTTTAATATATCATACGTGATAGAAAGAATA
*
33647907 TTTTAATATGATCATACGTGATAGTAAGAATA
1 TTTTAATAT-ATCATACGTGATAGAAAGAATA
*
33647939 TTGTAAT
1 TTTTAAT
33647946 GTGACATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTTAATATATCATACGTGATAGAAAGAATA
Found at i:33654207 original size:6 final size:6
Alignment explanation
Indices: 33654196--33654227 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
33654186 ATTAATTTTG
*
33654196 ATAAAA ATAAAA ATAAAA ATAAAA TTAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
33654228 TATTATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
ATAAAA
Found at i:33655032 original size:15 final size:14
Alignment explanation
Indices: 33655012--33655049 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
33655002 GGTTGAAATG
33655012 TTGTTTTTTTCTATA
1 TTGTTTTTTTCT-TA
*
33655027 TTGTTTTCTTCTTA
1 TTGTTTTTTTCTTA
33655041 -TGTTTTTTT
1 TTGTTTTTTT
33655050 ATAAAGGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 11 0.52
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (14 bp):
TTGTTTTTTTCTTA
Found at i:33655478 original size:19 final size:19
Alignment explanation
Indices: 33655454--33655492 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33655444 ATTATCCCAG
33655454 AAATCTAGT-CAAAATTAAA
1 AAATCTA-TCCAAAATTAAA
*
33655473 AAATCTATCCAGAATTAAA
1 AAATCTATCCAAAATTAAA
33655492 A
1 A
33655493 CATAAATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATCTATCCAAAATTAAA
Found at i:33666016 original size:3 final size:3
Alignment explanation
Indices: 33666010--33666057 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
33666000 GAGTGCAATC
*
33666010 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TAA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
33666058 GCCCTGCTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:33677543 original size:40 final size:39
Alignment explanation
Indices: 33677482--33677557 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
33677472 TTGCTACCAC
*
33677482 ATCAAAGTAAGAACAAGTGTAAGATTCAATTCATCCTAT
1 ATCAAAGTAAGAACAAATGTAAGATTCAATTCATCCTAT
* *
33677521 ATCAAAGGTAAGAATAAATGTAAGATTCGATTCATCC
1 ATCAAA-GTAAGAACAAATGTAAGATTCAATTCATCC
33677558 ATTTTACAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 6 0.18
40 27 0.82
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (39 bp):
ATCAAAGTAAGAACAAATGTAAGATTCAATTCATCCTAT
Found at i:33692865 original size:22 final size:23
Alignment explanation
Indices: 33692836--33692901 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 23
33692826 TTCTATATAT
33692836 ATAA-ATAAAATT-TT-TTATTAA
1 ATAATATAAAATTATTATT-TTAA
33692857 ATAATAT-AAATTATTATTTTAA
1 ATAATATAAAATTATTATTTTAA
33692879 ATTAAT-TAAAATTAATATATTTT
1 A-TAATATAAAATT-AT-TATTTT
33692902 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
21 9 0.24
22 10 0.26
23 11 0.29
24 2 0.05
25 6 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAATATAAAATTATTATTTTAA
Found at i:33692948 original size:24 final size:25
Alignment explanation
Indices: 33692895--33692949 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
33692885 TAAAATTAAT
* *
33692895 ATATTTTTATTTAAAATATATATTA
1 ATATATTTATTTAAAATATATATAA
*
33692920 CTATATTTA-TTAATAAT-TATATAA
1 ATATATTTATTTAA-AATATATATAA
33692944 ATATAT
1 ATATAT
33692950 AAGATAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATATTTATTTAAAATATATATAA
Found at i:33705860 original size:2 final size:2
Alignment explanation
Indices: 33705853--33705879 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33705843 ATGGACAATT
33705853 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
33705880 GATGAGTGAC
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:33715681 original size:2 final size:2
Alignment explanation
Indices: 33715676--33715705 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33715666 TATATATATA
33715676 TG TG TG TG TG TG TG TG TG TG TG -G TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
33715706 TCATCGCCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:33717029 original size:3 final size:3
Alignment explanation
Indices: 33717021--33717056 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
33717011 TAAAAGAGAC
33717021 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
33717057 GACATTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33718585 original size:14 final size:14
Alignment explanation
Indices: 33718576--33718613 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
33718566 ATTTTAGATC
33718576 AAATTATTTAAAATT
1 AAATTATTT-AAATT
*
33718591 AAATTAATTAAATT
1 AAATTATTTAAATT
33718605 AAATTATTT
1 AAATTATTT
33718614 TTATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTATTTAAATT
Found at i:33719021 original size:27 final size:27
Alignment explanation
Indices: 33718986--33719038 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
33718976 AATTCGATAA
33718986 TTAATGATTAA-TCAAATT-AAATCAAT
1 TTAATGATTAATTC-AATTAAAATCAAT
33719012 TTAATTGATTAATTCAATTAAAATCAA
1 TTAA-TGATTAATTCAATTAAAATCAA
33719039 ATTATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.17
27 11 0.46
28 9 0.38
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (27 bp):
TTAATGATTAATTCAATTAAAATCAAT
Found at i:33723363 original size:15 final size:15
Alignment explanation
Indices: 33723343--33723378 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
33723333 AATATCAGAC
33723343 TGTCATTGCGGCGGT
1 TGTCATTGCGGCGGT
33723358 TGTCATTGCGGCGGT
1 TGTCATTGCGGCGGT
33723373 TGTCAT
1 TGTCAT
33723379 GGGGCAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.19, G:0.36, T:0.36
Consensus pattern (15 bp):
TGTCATTGCGGCGGT
Found at i:33728369 original size:14 final size:14
Alignment explanation
Indices: 33728347--33728378 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33728337 AAGGAAATAG
33728347 AAAAAAAAAAAAGT
1 AAAAAAAAAAAAGT
*
33728361 AAAAGAAAAAAAGT
1 AAAAAAAAAAAAGT
33728375 AAAA
1 AAAA
33728379 TATTGAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAAAGT
Found at i:33728472 original size:15 final size:15
Alignment explanation
Indices: 33728454--33728483 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33728444 GAAAGTTTTA
33728454 AAAGTCGTAAACTTT
1 AAAGTCGTAAACTTT
33728469 AAAGTCGTAAACTTT
1 AAAGTCGTAAACTTT
33728484 GTTCACGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
AAAGTCGTAAACTTT
Found at i:33729890 original size:27 final size:27
Alignment explanation
Indices: 33729847--33729916 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
33729837 CATAAAAGTA
* *
33729847 ATATATAAAATA-T-ATAAAAATAA-T
1 ATATTTAAAATATTAATAAAAAAAATT
*
33729871 ATAATTTAAAATTTTAATAAAAAAAATT
1 AT-ATTTAAAATATTAATAAAAAAAATT
*
33729899 ATATTTAACATATTAATA
1 ATATTTAAAATATTAATA
33729917 TTAATTGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 2 0.05
25 8 0.22
26 1 0.03
27 23 0.62
28 3 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATTTAAAATATTAATAAAAAAAATT
Found at i:33734087 original size:20 final size:20
Alignment explanation
Indices: 33734049--33734097 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
33734039 TTAATAAAAT
* **
33734049 ATTAAATTTTTAATTTAATA
1 ATTACATTTTTAAAATAATA
*
33734069 ATTACATTTTTAAAATAATT
1 ATTACATTTTTAAAATAATA
*
33734089 ATTTCATTT
1 ATTACATTT
33734098 ATTATTAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTACATTTTTAAAATAATA
Found at i:33735299 original size:13 final size:14
Alignment explanation
Indices: 33735273--33735302 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
33735263 AATGATGATG
33735273 AATATATTAAAAAAT
1 AATATATT-AAAAAT
33735288 AATATATTAAAAAT
1 AATATATTAAAAAT
33735302 A
1 A
33735303 CTATGATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATATTAAAAAT
Found at i:33736165 original size:13 final size:13
Alignment explanation
Indices: 33736135--33736172 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
33736125 ATTAATTTTT
33736135 AAATTTT-ATATA
1 AAATTTTAATATA
**
33736147 TTATTTTAATATA
1 AAATTTTAATATA
33736160 AAATTTTAATATA
1 AAATTTTAATATA
33736173 TTTAAATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AAATTTTAATATA
Found at i:33736165 original size:33 final size:34
Alignment explanation
Indices: 33736128--33736197 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
33736118 TTGATTTATT
* *
33736128 AATTTTTAA-AT-TTTATATATTATTTTAATATAA
1 AATTTTTAATATATTTAAATA-TAATTTAATATAA
*
33736161 AA-TTTTAATATATTTAAATATAATTTGATATAA
1 AATTTTTAATATATTTAAATATAATTTAATATAA
33736194 AATT
1 AATT
33736198 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
32 6 0.19
33 17 0.55
34 8 0.26
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
AATTTTTAATATATTTAAATATAATTTAATATAA
Found at i:33736180 original size:23 final size:25
Alignment explanation
Indices: 33736135--33736183 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
33736125 ATTAATTTTT
*
33736135 AAATTTTATATATTATTTTAATATA
1 AAATTTTATATATTATTTAAATATA
33736160 AAATTTTA-ATA-TATTTAAATATA
1 AAATTTTATATATTATTTAAATATA
33736183 A
1 A
33736184 TTTGATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.52
24 3 0.13
25 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AAATTTTATATATTATTTAAATATA
Found at i:33736549 original size:36 final size:36
Alignment explanation
Indices: 33736509--33736580 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
33736499 ATTTTACTTC
*
33736509 CATAATTAGAAGTTTTGCATAACATCATTCTATTGT
1 CATAATTAGAAGTTTTGCACAACATCATTCTATTGT
33736545 CATAATTAGAAGTTTTGCACAACATCATTCTATTGT
1 CATAATTAGAAGTTTTGCACAACATCATTCTATTGT
33736581 ACTTAAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.40
Consensus pattern (36 bp):
CATAATTAGAAGTTTTGCACAACATCATTCTATTGT
Found at i:33736703 original size:21 final size:20
Alignment explanation
Indices: 33736660--33736703 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
33736650 AATCTTAATT
*
33736660 AAATACAATTTTATTTTTAA
1 AAATACAATTTTATTTATAA
33736680 AAATA-AACTTTTATGTTATAA
1 AAATACAA-TTTTAT-TTATAA
33736701 AAA
1 AAA
33736704 AAAAAGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 11 0.52
21 8 0.38
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATACAATTTTATTTATAA
Found at i:33739029 original size:17 final size:18
Alignment explanation
Indices: 33739007--33739044 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
33738997 TATTTAATTT
33739007 TATATTTATAT-ATTTTA
1 TATATTTATATAATTTTA
*
33739024 TATATTTATTTAATTTTA
1 TATATTTATATAATTTTA
33739042 TAT
1 TAT
33739045 TTACTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATTTATATAATTTTA
Found at i:33745344 original size:2 final size:2
Alignment explanation
Indices: 33745337--33745367 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33745327 AAAAGGCATC
33745337 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33745368 TCTAAGCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33755055 original size:4 final size:4
Alignment explanation
Indices: 33755046--33755070 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
33755036 TGATAATACA
33755046 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
33755071 TCAGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:33755355 original size:10 final size:10
Alignment explanation
Indices: 33755342--33755374 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
33755332 TTTTGTCAGC
33755342 TTTTTTTATT
1 TTTTTTTATT
33755352 TTTTTTTATT
1 TTTTTTTATT
33755362 TTTTTTTATT
1 TTTTTTTATT
33755372 TTT
1 TTT
33755375 CATAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:33756236 original size:14 final size:14
Alignment explanation
Indices: 33756214--33756257 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
33756204 TATATATAAA
*
33756214 TTATTTATTTAATT
1 TTATATATTTAATT
33756228 TTATATATTT-A--
1 TTATATATTTAATT
33756239 -TATATATTTAATT
1 TTATATATTTAATT
33756252 TTATAT
1 TTATAT
33756258 TTATATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
10 9 0.36
11 1 0.04
13 1 0.04
14 14 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:33757908 original size:31 final size:32
Alignment explanation
Indices: 33757867--33757938 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
33757857 AAACTGGGTC
*
33757867 TGTCGCCGGAAACTTC-AAAGTTCG-CCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCCGGAAT
*
33757898 TGTCGTCGGAAAATTCAAAAGTCGCCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCCGGAAT
*
33757930 TTTCGCCGG
1 TGTCGCCGG
33757939 GAATCTGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 17 0.49
32 18 0.51
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (32 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCCGGAAT
Found at i:33758545 original size:15 final size:16
Alignment explanation
Indices: 33758518--33758553 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
33758508 TAAATAAATG
33758518 AATAA-AGATATACAT
1 AATAATAGATATACAT
33758533 AATAATAGA-ATACAT
1 AATAATAGATATACAT
33758548 AA-AATA
1 AATAATA
33758554 CAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (16 bp):
AATAATAGATATACAT
Found at i:33763233 original size:25 final size:24
Alignment explanation
Indices: 33763183--33763236 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
33763173 AAATAATAAT
*
33763183 AAAATTTATTATAATTGCAATTAA
1 AAAAATTATTATAATTGCAATTAA
* **
33763207 AAAAATTATTGTAATTGTGATTAA
1 AAAAATTATTATAATTGCAATTAA
33763231 AAAAAT
1 AAAAAT
33763237 AATAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (24 bp):
AAAAATTATTATAATTGCAATTAA
Found at i:33764499 original size:18 final size:18
Alignment explanation
Indices: 33764478--33764512 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33764468 TTATATTTTG
*
33764478 TTCATTAGAATTAATGAA
1 TTCATTAAAATTAATGAA
33764496 TTCATTAAAATTAATGA
1 TTCATTAAAATTAATGA
33764513 TTTGATGGCG
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:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (18 bp):
TTCATTAAAATTAATGAA
Found at i:33765607 original size:16 final size:17
Alignment explanation
Indices: 33765588--33765625 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
33765578 AAGTCTCTAT
*
33765588 ATAATTATATATTT-AA
1 ATAAATATATATTTCAA
*
33765604 ATAAATATTTATTTCAA
1 ATAAATATATATTTCAA
33765621 ATAAA
1 ATAAA
33765626 AAATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAAATATATATTTCAA
Found at i:33771105 original size:27 final size:27
Alignment explanation
Indices: 33771065--33771138 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
33771055 ATCTGCACAC
33771065 TATGATA-TAATTCACTACCTAGTGAA
1 TATGATACTAATTCACTACCTAGTGAA
33771091 TATGATACTAATTCACTACCTAGTGAA
1 TATGATACTAATTCACTACCTAGTGAA
*
33771118 TATGATACTAATTTACTACCT
1 TATGATACTAATTCACTACCT
33771139 TACAAATGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 7 0.15
27 39 0.85
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (27 bp):
TATGATACTAATTCACTACCTAGTGAA
Found at i:33776914 original size:11 final size:12
Alignment explanation
Indices: 33776881--33776921 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
33776871 AAAATTTAAA
33776881 TTATATCAT-TTT
1 TTATAT-ATATTT
33776893 TTATATATATTT
1 TTATATATATTT
33776905 TTATAT-TATTT
1 TTATATATATTT
33776916 TTATAT
1 TTATAT
33776922 CAAATCATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATATATTT
Found at i:33777764 original size:22 final size:21
Alignment explanation
Indices: 33777712--33777765 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
33777702 ATTTATGGAT
* * *
33777712 TAAATTAAATTTAAATATTTT
1 TAAATTTAATTCAAATATTTA
* *
33777733 TATATATAATTCAAATAATTTA
1 TAAATTTAATTCAAAT-ATTTA
33777755 TAAATTTAATT
1 TAAATTTAATT
33777766 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATTTAATTCAAATATTTA
Found at i:33778019 original size:12 final size:12
Alignment explanation
Indices: 33778002--33778027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33777992 ATTTCAAGTG
33778002 AAACTCAAATTT
1 AAACTCAAATTT
33778014 AAACTCAAATTT
1 AAACTCAAATTT
33778026 AA
1 AA
33778028 TATTATATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (12 bp):
AAACTCAAATTT
Found at i:33778724 original size:21 final size:21
Alignment explanation
Indices: 33778700--33778742 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33778690 ATCTCATATT
*
33778700 TAATAAATATTTAAT-TTTTTA
1 TAATAAA-ATTAAATATTTTTA
*
33778721 TAATCAAATTAAATATTTTTA
1 TAATAAAATTAAATATTTTTA
33778742 T
1 T
33778743 TTATTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAAAATTAAATATTTTTA
Found at i:33782279 original size:12 final size:11
Alignment explanation
Indices: 33782204--33782280 Score: 56
Period size: 11 Copynumber: 7.2 Consensus size: 11
33782194 TGGAAATAAT
33782204 ATAATTTTAGTA
1 ATAATTTTA-TA
*
33782216 AT-TTTTTAT-
1 ATAATTTTATA
*
33782225 ATAACTTTATA
1 ATAATTTTATA
* *
33782236 A-CATTTAAT-
1 ATAATTTTATA
33782245 ATAATTTT-TA
1 ATAATTTTATA
33782255 ATAAATTTTATA
1 AT-AATTTTATA
33782267 ATAATTTTGATA
1 ATAATTTT-ATA
33782279 AT
1 AT
33782281 TTTTTTATAC
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
9 4 0.08
10 17 0.34
11 18 0.36
12 11 0.22
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
ATAATTTTATA
Found at i:33782285 original size:22 final size:20
Alignment explanation
Indices: 33782202--33782356 Score: 82
Period size: 20 Copynumber: 7.5 Consensus size: 20
33782192 TGTGGAAATA
*
33782202 ATATAATTTTAGTAATTTTTT
1 ATATAATTTTA-TAATATTTT
* * *
33782223 ATATAACTTTATAACATTTA
1 ATATAATTTTATAATATTTT
33782243 ATATAATTTT-TAATAAATTTT
1 ATATAATTTTATAAT--ATTTT
*
33782264 ATAATAATTTTGATAATTTTTTT
1 AT-ATAATTTT-ATAA-TATTTT
* ** * *
33782287 ATACAAATTTGGTGA-CTTTT
1 ATA-TAATTTTATAATATTTT
* *
33782307 ATATAATTTGATAACT-TTTG
1 ATATAATTTTATAA-TATTTT
* *
33782327 ATATAATTTAATAACATTTT
1 ATATAATTTTATAATATTTT
*
33782347 ATATCATTTT
1 ATATAATTTT
33782357 GAAAACCTTT
Statistics
Matches: 102, Mismatches: 22, Indels: 21
0.70 0.15 0.14
Matches are distributed among these distances:
19 11 0.11
20 49 0.48
21 16 0.16
22 11 0.11
23 11 0.11
24 3 0.03
25 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
ATATAATTTTATAATATTTT
Found at i:33782332 original size:20 final size:19
Alignment explanation
Indices: 33782219--33782375 Score: 91
Period size: 20 Copynumber: 7.6 Consensus size: 19
33782209 TTTAGTAATT
33782219 TTTTATATAACTTT-ATAAC
1 TTTTATATAA-TTTGATAAC
* * *
33782238 ATTTAATATAATTTTTAATAAA
1 -TTTTATATAA--TTTGATAAC
*
33782260 TTTTATAATAATTTTGATAATTT
1 TTTTAT-ATAA-TTTGATAA--C
* * *
33782283 TTTTATACAAATTTGGTGAC
1 TTTTATA-TAATTTGATAAC
33782303 TTTTATATAATTTGATAAC
1 TTTTATATAATTTGATAAC
*
33782322 TTTTGATATAATTTAATAAC
1 TTTT-ATATAATTTGATAAC
* *
33782342 ATTTTATATCATTTTGAAAACC
1 -TTTTATAT-AATTTGATAA-C
*
33782364 TTTGATATAATT
1 TTTTATATAATT
33782376 ATGTTAATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
19 13 0.12
20 37 0.34
21 34 0.31
22 16 0.15
23 8 0.07
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (19 bp):
TTTTATATAATTTGATAAC
Found at i:33782358 original size:41 final size:41
Alignment explanation
Indices: 33782219--33782375 Score: 133
Period size: 41 Copynumber: 3.8 Consensus size: 41
33782209 TTTAGTAATT
* * *
33782219 TTTTATATAACTTT-ATAACATTTAATATAATTTTTAATAA-A
1 TTTTATATAATTTTGATAACTTTTGATATAA--TTTAATAACA
* * * ** *
33782260 TTTTATAATAATTTTGATAATTTTTTTATACAAATTTGGTGAC-
1 TTTTAT-ATAATTTTGATAA-CTTTTGATA-TAATTTAATAACA
33782303 TTTTATATAA-TTTGATAACTTTTGATATAATTTAATAACA
1 TTTTATATAATTTTGATAACTTTTGATATAATTTAATAACA
* * *
33782343 TTTTATATCATTTTGAAAACCTTTGATATAATT
1 TTTTATATAATTTTGATAACTTTTGATATAATT
33782376 ATGTTAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
39 8 0.09
40 16 0.17
41 34 0.37
42 11 0.12
43 15 0.16
44 6 0.07
45 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (41 bp):
TTTTATATAATTTTGATAACTTTTGATATAATTTAATAACA
Found at i:33782477 original size:21 final size:20
Alignment explanation
Indices: 33782219--33782523 Score: 140
Period size: 21 Copynumber: 14.7 Consensus size: 20
33782209 TTTAGTAATT
*
33782219 TTTTATATAACTTT-ATAAC
1 TTTTATATAATTTTGATAAC
* * *
33782238 ATTTAATATAATTTTTAATAAA
1 -TTTTATATAA-TTTTGATAAC
*
33782260 TTTTATAATAATTTTGATAATTT
1 TTTTAT-ATAATTTTGATAA--C
* * * *
33782283 TTTTATACAAATTTGGTGAC
1 TTTTATATAATTTTGATAAC
33782303 TTTTATATAA-TTTGATAAC
1 TTTTATATAATTTTGATAAC
*
33782322 TTTTGATATAA-TTTAATAAC
1 TTTT-ATATAATTTTGATAAC
* *
33782342 ATTTTATATCATTTTGAAAACC
1 -TTTTATATAATTTTGATAA-C
* * * *
33782364 TTTGATATAATTATGTTAAT
1 TTTTATATAATTTTGATAAC
*
33782384 TTTTAGCATAATTTTTG-TAACC
1 TTTTA-TATAA-TTTTGATAA-C
* *
33782406 TTTAATATAGTTTTG-TAACC
1 TTTTATATAATTTTGATAA-C
* *
33782426 TATGTA-ATAATTTTAATAACC
1 T-TTTATATAATTTTGATAA-C
*
33782447 TTCCTA-ATAATTTTGATAAC
1 TT-TTATATAATTTTGATAAC
* *
33782467 TTTTAATATAA-ATTGAGTAAT
1 TTTT-ATATAATTTTGA-TAAC
** *
33782488 TTTTATATGGTTTTGATAATT
1 TTTTATATAATTTTGATAA-C
33782509 TTTTATATATATTTT
1 TTTTATATA-ATTTT
33782524 TATCTCTTTA
Statistics
Matches: 219, Mismatches: 45, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
19 12 0.05
20 75 0.34
21 96 0.44
22 30 0.14
23 6 0.03
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (20 bp):
TTTTATATAATTTTGATAAC
Found at i:33785487 original size:14 final size:14
Alignment explanation
Indices: 33785464--33785498 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33785454 TTTACTAGCT
*
33785464 GATGAGCACATTTA
1 GATGACCACATTTA
33785478 GATGACCACATTTA
1 GATGACCACATTTA
33785492 GATGACC
1 GATGACC
33785499 TCTGGGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (14 bp):
GATGACCACATTTA
Found at i:33787641 original size:16 final size:16
Alignment explanation
Indices: 33787615--33787652 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
33787605 AGGCCAATGA
*
33787615 TGAATCGAAGTGAGAG
1 TGAAACGAAGTGAGAG
*
33787631 TTAAACGAAGTGAGAG
1 TGAAACGAAGTGAGAG
33787647 TGAAAC
1 TGAAAC
33787653 AAACATGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.32, T:0.18
Consensus pattern (16 bp):
TGAAACGAAGTGAGAG
Found at i:33798019 original size:26 final size:26
Alignment explanation
Indices: 33797983--33798034 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
33797973 TGTGGTGGGT
*
33797983 CATCGACCACGATACGCTACTTTCTC
1 CATCGACCACGATACACTACTTTCTC
33798009 CATCGACCACGATACACTACTTTCTC
1 CATCGACCACGATACACTACTTTCTC
33798035 TAATCGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.27
Consensus pattern (26 bp):
CATCGACCACGATACACTACTTTCTC
Found at i:33801118 original size:21 final size:21
Alignment explanation
Indices: 33801089--33801132 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
33801079 TTATTCTCTC
33801089 TTTCCCTCTCTC--TTTCTTTT
1 TTTCCC-CTCTCAATTTCTTTT
33801109 TTTCCCCTCTCAATTTCTTTT
1 TTTCCCCTCTCAATTTCTTTT
33801130 TTT
1 TTT
33801133 TTTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 6 0.27
21 11 0.50
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCCCCTCTCAATTTCTTTT
Found at i:33801375 original size:27 final size:28
Alignment explanation
Indices: 33801340--33801397 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
33801330 AAAAATTAAA
33801340 ATTTAATTTAGATTAA-TTTTTTATTAG
1 ATTTAATTTAGATTAATTTTTTTATTAG
* *
33801367 ATTTGATTTAGATTAATTTTTTTATTCG
1 ATTTAATTTAGATTAATTTTTTTATTAG
33801395 ATT
1 ATT
33801398 CGAATCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (28 bp):
ATTTAATTTAGATTAATTTTTTTATTAG
Found at i:33801520 original size:17 final size:17
Alignment explanation
Indices: 33801498--33801535 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
33801488 AAATCAATTA
33801498 TATATATTCTT-AATTTT
1 TATATATT-TTAAATTTT
33801515 TATATATTTTAAATTTT
1 TATATATTTTAAATTTT
33801532 TATA
1 TATA
33801536 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATATATTTTAAATTTT
Found at i:33801535 original size:15 final size:17
Alignment explanation
Indices: 33801493--33801535 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
33801483 GAATCAAATC
*
33801493 AATTATATATATTCTTA
1 AATTTTATATATTCTTA
*
33801510 ATTTTTATATATT-TTA
1 AATTTTATATATTCTTA
33801526 AATTTT-TATA
1 AATTTTATATA
33801536 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 11 0.48
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTTATATATTCTTA
Found at i:33801592 original size:13 final size:13
Alignment explanation
Indices: 33801572--33801604 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
33801562 AATATACTTA
33801572 AATATATTAAAAT
1 AATATATTAAAAT
*
33801585 ACTATATTAAAAT
1 AATATATTAAAAT
33801598 AATATAT
1 AATATAT
33801605 AAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:33801596 original size:33 final size:33
Alignment explanation
Indices: 33801554--33801617 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
33801544 ATAATAATTT
33801554 TATATTAAAAT-ATACT-TAAATATATTAAAATAC
1 TATATTAAAATAATA-TATAAATAT-TTAAAATAC
33801587 TATATTAAAATAATATATAAATATTTAAAAT
1 TATATTAAAATAATATATAAATATTTAAAAT
33801618 TAAAAACCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (33 bp):
TATATTAAAATAATATATAAATATTTAAAATAC
Found at i:33803617 original size:18 final size:18
Alignment explanation
Indices: 33803586--33803620 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33803576 TCTTGCCTTA
* *
33803586 ATATTGGTTTTAGTAATT
1 ATATTAGTTATAGTAATT
33803604 ATATTAGTTATAGTAAT
1 ATATTAGTTATAGTAAT
33803621 AGCTAACATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (18 bp):
ATATTAGTTATAGTAATT
Found at i:33805596 original size:33 final size:33
Alignment explanation
Indices: 33805557--33805657 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
33805547 TAGGAGATTG
33805557 TTTGAAGTACAATAATTGATCATATCAAACAGA
1 TTTGAAGTACAATAATTGATCATATCAAACAGA
33805590 TTTGAAGTACAATAATTGATCATATCAAACAGA
1 TTTGAAGTACAATAATTGATCATATCAAACAGA
* * *
33805623 TTTGAAGCACAATTATTGACCATATCAAACAGA
1 TTTGAAGTACAATAATTGATCATATCAAACAGA
33805656 TT
1 TT
33805658 AGGTTATTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (33 bp):
TTTGAAGTACAATAATTGATCATATCAAACAGA
Found at i:33807019 original size:21 final size:21
Alignment explanation
Indices: 33806993--33807034 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
33806983 GTTCATAAGC
33806993 CAAAGTGGACCAGCCCATTAG
1 CAAAGTGGACCAGCCCATTAG
33807014 CAAAGTGGACCAGCCCATTAG
1 CAAAGTGGACCAGCCCATTAG
33807035 GAGTTCAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.24, T:0.14
Consensus pattern (21 bp):
CAAAGTGGACCAGCCCATTAG
Found at i:33825967 original size:18 final size:18
Alignment explanation
Indices: 33825936--33825973 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
33825926 AACCATACTT
*
33825936 TTCCCATTCTCATTCCCA
1 TTCCCATTCTCATTCACA
33825954 TTCCCATTAC-CATTCACA
1 TTCCCATT-CTCATTCACA
33825972 TT
1 TT
33825974 AACATTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (18 bp):
TTCCCATTCTCATTCACA
Found at i:33829308 original size:11 final size:11
Alignment explanation
Indices: 33829292--33829325 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33829282 AATATATTAT
33829292 ATATTTATATA
1 ATATTTATATA
33829303 ATATTTTATATA
1 ATA-TTTATATA
*
33829315 AAATTTATATA
1 ATATTTATATA
33829326 TTATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATTTATATA
Found at i:33829457 original size:20 final size:20
Alignment explanation
Indices: 33829420--33829456 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
33829410 TTAGTCGTAC
33829420 TATTTTTTACATCATTTTTA
1 TATTTTTTACATCATTTTTA
33829440 TATTTTTT--ATCATTTTT
1 TATTTTTTACATCATTTTT
33829457 TAATCGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTTTTTACATCATTTTTA
Found at i:33853781 original size:46 final size:45
Alignment explanation
Indices: 33853706--33853829 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 45
33853696 AAGTCAACAG
* ***
33853706 ATGTTGGTTGAATTGGTAAGGATTGATATTTAGTTTATAAGATTT
1 ATGTTGGTTGAATTGGTAAGGATTAATATTTACCGTATAAGATTT
33853751 ATGTTGGTTGAATTTGGTAAGGATTAATATTTACCGTATAAGATTT
1 ATGTTGGTTGAA-TTGGTAAGGATTAATATTTACCGTATAAGATTT
*
33853797 ATAAATTGGTTGAATTGGTAAGGATTAATATTT
1 AT--GTTGGTTGAATTGGTAAGGATTAATATTT
33853830 TGAATTGTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
45 12 0.17
46 31 0.44
47 19 0.27
48 9 0.13
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (45 bp):
ATGTTGGTTGAATTGGTAAGGATTAATATTTACCGTATAAGATTT
Found at i:33874515 original size:13 final size:13
Alignment explanation
Indices: 33874490--33874524 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
33874480 AATAATTATG
33874490 ATTTTTAAA-TTT
1 ATTTTTAAATTTT
33874502 ATTTTTAAATTTT
1 ATTTTTAAATTTT
*
33874515 ATATTTAAAT
1 ATTTTTAAAT
33874525 AAAAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTTAAATTTT
Found at i:33874819 original size:16 final size:18
Alignment explanation
Indices: 33874792--33874831 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
33874782 TTTTTATTAT
*
33874792 TTTAATGAACTATC-AAA
1 TTTAATGAACTAACAAAA
33874809 TTTAA-GAACTAACAAAA
1 TTTAATGAACTAACAAAA
33874826 TTTAAT
1 TTTAAT
33874832 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (18 bp):
TTTAATGAACTAACAAAA
Found at i:33875026 original size:244 final size:243
Alignment explanation
Indices: 33874596--33875039 Score: 588
Period size: 244 Copynumber: 1.8 Consensus size: 243
33874586 AAACAAAATA
* * * * * * * *
33874596 AATAATATTTTTAAATTTCTATAGATAAATGATAGGATCAAAATATTAGTTGTGATAGACATGTT
1 AATAATATTTTTAAATTTCCATAAATAAAAGATAAGATCAAAATATCAATTATGATAGACATGTC
* * * * *
33874661 TATCTCTTAGGATAAAAACGAAATTACATTCATTTATTTTTTTTAAAGCGTAAATCAACAATTCG
66 TACCTCTTAGGATAAAAACGAAATTACATCCACTTATTTTTTTTAAAGCATAAATCAACAATTCA
* *
33874726 TAACCTTCTGTCTCTCTCTTTCGTTCCTTCTTGAATTATTGTTTGTGAGCGTTTTTTTTTTATTA
131 TAACCTTCTGTCTCTCTCTTTCGTTCCTTCTTGAATTATTGTTTGGGAGAGTTTTTTTTTT-TTA
33874791 TTTTAATGAACTATCAAATTTAAGAACTAACAAAATTTAATAATTTTTT
195 TTTTAATGAACTATCAAATTTAAGAACTAACAAAATTTAATAATTTTTT
* * *
33874840 AATAATATTTTTAAGTTTCCATAAATAAAAGATAATATCAAAATATCAATTATTATAGACATGTC
1 AATAATATTTTTAAATTTCCATAAATAAAAGATAAGATCAAAATATCAATTATGATAGACATGTC
* * * *
33874905 TACCTCTTAGGATAAGAACGAAATTACATCCACTTATTTTTTTTAATGCAT-AATCCATCTATTC
66 TACCTCTTAGGATAAAAACGAAATTACATCCACTTATTTTTTTTAAAGCATAAAT-CAACAATTC
* * * *
33874969 ATAGCCTTTTGTCTCGT-TCTTTCGTTCC-TCGTTGAGTTGTTGTTTGGGAGAGTTTTTTTTTTT
130 ATAACCTTCTGTCTC-TCTCTTTCGTTCCTTC-TTGAATTATTGTTTGGGAGAGTTTTTTTTTTT
*
33875032 TTTTTTAA
193 TATTTTAA
33875040 GTTTGAGGCA
Statistics
Matches: 170, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
243 13 0.08
244 156 0.92
245 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (243 bp):
AATAATATTTTTAAATTTCCATAAATAAAAGATAAGATCAAAATATCAATTATGATAGACATGTC
TACCTCTTAGGATAAAAACGAAATTACATCCACTTATTTTTTTTAAAGCATAAATCAACAATTCA
TAACCTTCTGTCTCTCTCTTTCGTTCCTTCTTGAATTATTGTTTGGGAGAGTTTTTTTTTTTTAT
TTTAATGAACTATCAAATTTAAGAACTAACAAAATTTAATAATTTTTT
Found at i:33875692 original size:28 final size:28
Alignment explanation
Indices: 33875660--33875713 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
33875650 TTTAGTGATA
* *
33875660 ATCTTTAGTTTAAACCATTTCAATTTTT
1 ATCTTTAATTCAAACCATTTCAATTTTT
*
33875688 ATCTTTAATTCAGACCATTTCAATTT
1 ATCTTTAATTCAAACCATTTCAATTT
33875714 CTAGGTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.50
Consensus pattern (28 bp):
ATCTTTAATTCAAACCATTTCAATTTTT
Found at i:33879703 original size:17 final size:18
Alignment explanation
Indices: 33879670--33879709 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
33879660 CAATAATCTT
33879670 TTTTATATTGATTTAAAA
1 TTTTATATTGATTTAAAA
*
33879688 TTTTATATT-TTTTAAAA
1 TTTTATATTGATTTAAAA
*
33879705 ATTTA
1 TTTTA
33879710 CGTAAGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTATATTGATTTAAAA
Found at i:33880155 original size:21 final size:21
Alignment explanation
Indices: 33880112--33880156 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33880102 CAATTTATTT
*
33880112 TTTTCATATATTTTCTAACAA
1 TTTTCATATATTTGCTAACAA
*
33880133 TTTTCATAT-TTTGCATAATAA
1 TTTTCATATATTTGC-TAACAA
33880154 TTT
1 TTT
33880157 AATCAAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTCATATATTTGCTAACAA
Found at i:33880449 original size:17 final size:17
Alignment explanation
Indices: 33880427--33880481 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
33880417 TATTGGAATA
33880427 TAATTTTGAAAATAAAT
1 TAATTTTGAAAATAAAT
* *
33880444 TAA-TTTG--TATAGAT
1 TAATTTTGAAAATAAAT
33880458 ATAATTTTGAAAATAAAT
1 -TAATTTTGAAAATAAAT
33880476 TAATTT
1 TAATTT
33880482 GTATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 8 0.27
17 9 0.30
18 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (17 bp):
TAATTTTGAAAATAAAT
Found at i:33880465 original size:32 final size:32
Alignment explanation
Indices: 33880424--33880491 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
33880414 AAATATTGGA
33880424 ATATAATTTTGAAAATAAATTAATTTGTATAG
1 ATATAATTTTGAAAATAAATTAATTTGTATAG
*
33880456 ATATAATTTTGAAAATAAATTAATTTGTATAT
1 ATATAATTTTGAAAATAAATTAATTTGTATAG
33880488 ATAT
1 ATAT
33880492 GCACATTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (32 bp):
ATATAATTTTGAAAATAAATTAATTTGTATAG
Found at i:33880482 original size:16 final size:16
Alignment explanation
Indices: 33880431--33880482 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
33880421 GGAATATAAT
33880431 TTTGAAAATAAATTAA
1 TTTGAAAATAAATTAA
* *
33880447 TTTG--TATAGATATAA
1 TTTGAAAATAAAT-TAA
33880462 TTTTGAAAATAAATTAA
1 -TTTGAAAATAAATTAA
33880479 TTTG
1 TTTG
33880483 TATATATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 5 0.18
15 3 0.11
16 12 0.43
17 3 0.11
18 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (16 bp):
TTTGAAAATAAATTAA
Found at i:33892537 original size:2 final size:2
Alignment explanation
Indices: 33892530--33892556 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33892520 AGATTTCCTT
33892530 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
33892557 TTAGGGGCTA
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:33907473 original size:27 final size:27
Alignment explanation
Indices: 33907443--33907500 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
33907433 TCGTATCATT
*
33907443 AAATAAATTAAAATATTAA-TTTTAATA
1 AAATAAATT-AAATATAAATTTTTAATA
* * *
33907470 AAATTAATTTAATATAAATTTTTATTA
1 AAATAAATTAAATATAAATTTTTAATA
33907497 AAAT
1 AAAT
33907501 TTTTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATAAATTAAATATAAATTTTTAATA
Found at i:33907477 original size:15 final size:15
Alignment explanation
Indices: 33907457--33907489 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
33907447 AAATTAAAAT
33907457 ATTAATTTTAATA-AA
1 ATTAA-TTTAATATAA
33907472 ATTAATTTAATATAA
1 ATTAATTTAATATAA
33907487 ATT
1 ATT
33907490 TTTATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATTTAATATAA
Found at i:33916644 original size:80 final size:80
Alignment explanation
Indices: 33916512--33916662 Score: 261
Period size: 80 Copynumber: 1.9 Consensus size: 80
33916502 CCGCGAGCTA
*
33916512 AATTACAAAAATGTTACGTTTAAACGACCGCGTCTGAGATTGGACTCATCG-AAATTCT-TTAAA
1 AATTACAAAAATGTTACGTCTAAACGACCGCGTCTGAGATTGGACTCATCGAAAATTCTCTT-AA
33916575 GCCCAAAGCCAATGTG
65 GCCCAAAGCCAATGTG
33916591 AATTACAAAAATGTTACGGTCTAAACGACCGCGTCTGAGATTGGACTCATCGAAAATTCTCTTAA
1 AATTACAAAAATGTTAC-GTCTAAACGACCGCGTCTGAGATTGGACTCATCGAAAATTCTCTTAA
33916656 GCCCAAA
65 GCCCAAA
33916663 ACGCATAAAG
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
79 17 0.25
80 33 0.49
81 16 0.24
82 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (80 bp):
AATTACAAAAATGTTACGTCTAAACGACCGCGTCTGAGATTGGACTCATCGAAAATTCTCTTAAG
CCCAAAGCCAATGTG
Found at i:33917699 original size:41 final size:41
Alignment explanation
Indices: 33917642--33917726 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
33917632 AATAACTAAG
* *
33917642 AACTACCATCCGTTGTACCTATGTATATATATTTCTAATTA
1 AACTACCATCCATTGTACCTATCTATATATATTTCTAATTA
33917683 AACTACCATCCATTGTACCTATCTATATATATTTCTAATTA
1 AACTACCATCCATTGTACCTATCTATATATATTTCTAATTA
33917724 AAC
1 AAC
33917727 GGATATCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (41 bp):
AACTACCATCCATTGTACCTATCTATATATATTTCTAATTA
Found at i:33919683 original size:20 final size:20
Alignment explanation
Indices: 33919645--33919683 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33919635 TCTCTGTTTC
* *
33919645 TCTCTTTTTCTCTGACTCTG
1 TCTCTGTTTCTCTCACTCTG
*
33919665 TCTCTGTTTCTCTCTCTCT
1 TCTCTGTTTCTCTCACTCT
33919684 TCCCTCGAGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.33, G:0.08, T:0.56
Consensus pattern (20 bp):
TCTCTGTTTCTCTCACTCTG
Found at i:33929370 original size:52 final size:52
Alignment explanation
Indices: 33929305--33929433 Score: 165
Period size: 52 Copynumber: 2.5 Consensus size: 52
33929295 AATCCATTTC
*
33929305 CTCTTAGAATTCTTCTTC-TGCAAGTCAAACTTGCCTATTAAAAATCTCTTTCTT
1 CTCTTAGAATTCTT-TTCTTGCAAGTCAAACTTACCTATTAAAAATCT-TTT-TT
* *
33929359 -T-TTAGAATTCTTTTCTTGTAAGTCAAACTTACCTATTAAGAATCTTTTTT
1 CTCTTAGAATTCTTTTCTTGCAAGTCAAACTTACCTATTAAAAATCTTTTTT
* *
33929409 CTCTTAGAATTCTTTTTTTGTAAGT
1 CTCTTAGAATTCTTTTCTTGCAAGT
33929434 TTTTTTATCC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
50 2 0.03
51 7 0.10
52 58 0.85
53 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.48
Consensus pattern (52 bp):
CTCTTAGAATTCTTTTCTTGCAAGTCAAACTTACCTATTAAAAATCTTTTTT
Found at i:33930250 original size:21 final size:21
Alignment explanation
Indices: 33930199--33930243 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
33930189 TGTCTATCTC
* *
33930199 ATAAAATCTTACAACTCTTTT
1 ATAAAATTTTACAACTCTCTT
33930220 ATAAAATTTTACAACTCTCTT
1 ATAAAATTTTACAACTCTCTT
33930241 ATA
1 ATA
33930244 TCTTTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAAATTTTACAACTCTCTT
Found at i:33945979 original size:173 final size:172
Alignment explanation
Indices: 33945752--33946070 Score: 509
Period size: 173 Copynumber: 1.8 Consensus size: 172
33945742 TTTATATAAG
* * * *
33945752 AAAATTGATATTTTCAACTTTTTCTTAAAGCATTTTTTAAAAAATTTGATTTTCAAGAAAAATTG
1 AAAATTAATACTTTCAACTTTTCCTTAAAACATTTTTT-AAAAATTTGATTTTCAAGAAAAATTG
*
33945817 ATACTTTCAACTTTTTTTTC-AAAATATTTTTTAAAAAT-TTGATTTTCAAGAAAAATTGATACT
65 ATACTTTCAAC-TTTTTCTCAAAAATATTTTTTAAAAATATT-ATTTTCAAGAAAAATTGATACT
33945880 TTCAACTTTTCATCAAAAAAATAATTTTTAGAAATTTTTTTAAAAA
128 TTCAACTTTTC-TCAAAAAAATAATTTTTAGAAATTTTTTTAAAAA
* *
33945926 AAAATTAATACTTTCAACTTTTCCTTTAAAATATTTTTT-AAAATTTTATTTTCAAGAAAAATTG
1 AAAATTAATACTTTCAACTTTTCC-TTAAAACATTTTTTAAAAATTTGATTTTCAAGAAAAATTG
33945990 ATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATATTATTTTCAAGAAAAATTGATACTTT
65 ATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATATTATTTTCAAGAAAAATTGATACTTT
33946055 CAACTTTTCTCAAAAA
130 CAACTTTTCTCAAAAA
33946071 TATTTTTTTT
Statistics
Matches: 135, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
172 14 0.10
173 86 0.64
174 23 0.17
175 12 0.09
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (172 bp):
AAAATTAATACTTTCAACTTTTCCTTAAAACATTTTTTAAAAATTTGATTTTCAAGAAAAATTGA
TACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATATTATTTTCAAGAAAAATTGATACTTTC
AACTTTTCTCAAAAAAATAATTTTTAGAAATTTTTTTAAAAA
Found at i:33946079 original size:58 final size:56
Alignment explanation
Indices: 33945752--33946078 Score: 408
Period size: 58 Copynumber: 5.7 Consensus size: 56
33945742 TTTATATAAG
* * * *
33945752 AAAATTGATATTTTCAACTTTTTCTTAAAGCAT-TTTTTAAAAAATTTGATTTTCAAGA
1 AAAATTGATACTTTCAAC-TTTTCTCAAA-AATATTTTTTAAAAATTT-ATTTTCAAGA
*
33945810 AAAATTGATACTTTCAACTTTTTTTTC-AAAATATTTTTTAAAAATTTGATTTTCAAGA
1 AAAATTGATACTTTCAAC--TTTTCTCAAAAATATTTTTTAAAAATTT-ATTTTCAAGA
* * * *
33945868 AAAATTGATACTTTCAACTTTTCATCAAAAAAATAATTTTTAGAAATTT-TTTTAAAAA
1 AAAATTGATACTTTCAACTTTTC-TC--AAAAATATTTTTTAAAAATTTATTTTCAAGA
* ** *
33945926 AAAATTAATACTTTCAACTTTTCCTTTAAAATATTTTTTAAAATTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTT-CTCAAAAATATTTTTTAAAAATTTATTTTCAAGA
33945983 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATATTATTTTCAAGA
1 AAAATTGATACTTTCAAC-TTTTCTCAAAAATATTTTTTAAAAAT-TTATTTTCAAGA
33946041 AAAATTGATACTTTCAACTTTTCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCTCAAAAATATTTTTT
33946079 TTGAATATTT
Statistics
Matches: 237, Mismatches: 22, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
56 21 0.09
57 67 0.28
58 124 0.52
59 7 0.03
60 18 0.08
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCTCAAAAATATTTTTTAAAAATTTATTTTCAAGA
Found at i:33946079 original size:115 final size:114
Alignment explanation
Indices: 33945752--33946094 Score: 410
Period size: 115 Copynumber: 3.0 Consensus size: 114
33945742 TTTATATAAG
* * **
33945752 AAAATTGATATTTTCAACTTTTTCT-TAAAGCATTTTTTAAAAA-ATTTGATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATA-TT-ATTTTCAAGAAAAAT
* * *
33945815 TGATACTTTCAACTTTTTTTTCAAAATATTTTTTAAAAATTTGATTTTCAAGA
64 TGATACTTTCAAC--TTTTCTCAAAATATTTTTTTAAAATTTTATTTTCAAGA
* * * *
33945868 AAAATTGATACTTTCAAC-TTTTCATCAAAAAAATAATTTTTAGAAAT-TT-TTTTAAAAAAAAA
1 AAAATTGATACTTTCAACTTTTTC-TC--AAAAATATTTTTTAAAAATATTATTTTCAAGAAAAA
* *
33945930 TTAATACTTTCAACTTTTCCTTTAAAATA-TTTTTTAAAATTTTATTTTCAAGA
63 TTGATACTTTCAACTTTT-C-TCAAAATATTTTTTTAAAATTTTATTTTCAAGA
33945983 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATATTATTTTCAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATATTATTTTCAAGAAAAATTG
*
33946048 ATACTTTCAACTTTTCTCAAAAATATTTTTTTTGAATATTTTATTTT
66 ATACTTTCAACTTTTCTC-AAAATA-TTTTTTT-AAAATTTTATTTT
33946095 ATTTTAAATT
Statistics
Matches: 193, Mismatches: 20, Indels: 27
0.80 0.08 0.11
Matches are distributed among these distances:
113 18 0.09
114 13 0.07
115 75 0.39
116 60 0.31
117 12 0.06
118 2 0.01
119 13 0.07
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.47
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATATTATTTTCAAGAAAAATTG
ATACTTTCAACTTTTCTCAAAATATTTTTTTAAAATTTTATTTTCAAGA
Found at i:33947179 original size:42 final size:41
Alignment explanation
Indices: 33947022--33947294 Score: 232
Period size: 41 Copynumber: 6.6 Consensus size: 41
33947012 AATTAAGCCC
* * * *
33947022 CTCTAAACAGAGGCTCAATGACTTTTGAAAATAAATTGCTT
1 CTCTAAACAGAGGCACCACGACTTTTGAAAATAAATTGTTT
* ** *
33947063 CTCTAAACAGAGTCATTACGA-TTTTGAAAAATAAATTG-CT
1 CTCTAAACAGAGGCACCACGACTTTTG-AAAATAAATTGTTT
* * * * *
33947103 CTTCTAAATAGACGTACCACGACTTTTAAAAATAAAATGTTT
1 C-TCTAAACAGAGGCACCACGACTTTTGAAAATAAATTGTTT
* *
33947145 CTCTAAACAGAGGCAACCATGACTTTTGAAAATAAATTGTTC
1 CTCTAAACAGAGGC-ACCACGACTTTTGAAAATAAATTGTTT
* *
33947187 CTCTAAACAGAGGCAACCGCAAC-TTTGAAAAATAAATT-TTT
1 CTCTAAACAGAGGC-ACCACGACTTTTG-AAAATAAATTGTTT
* * ** *
33947228 CCTCTAAACATAGGCACCACAACTTTAAAAAATAAATTG-CT
1 -CTCTAAACAGAGGCACCACGACTTTTGAAAATAAATTGTTT
* *
33947269 CTTCTAAACAGAGGCAACACAACTTT
1 C-TCTAAACAGAGGCACCACGACTTT
33947295 AAAAAAATAA
Statistics
Matches: 189, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
40 8 0.04
41 107 0.57
42 74 0.39
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (41 bp):
CTCTAAACAGAGGCACCACGACTTTTGAAAATAAATTGTTT
Found at i:33947261 original size:83 final size:84
Alignment explanation
Indices: 33947049--33947300 Score: 253
Period size: 83 Copynumber: 3.0 Consensus size: 84
33947039 ATGACTTTTG
* * * ** * * * *
33947049 AAAATAAATTGCTTCTCTAAACAGAGTC-ATTACGATTTTGAAAAATAAATTGCTCTTCTAAATA
1 AAAATAAAATGTTTCTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTCTTCTAAACA
* * * *
33947113 GACG-TACCACGACTTTTA
66 GAGGCAACCACAACTTTAA
** ** * *
33947131 AAAATAAAATGTTTCTCTAAACAGAGGCAACCATGACTTTTGAAAATAAATTGTTCCTCTAAACA
1 AAAATAAAATGTTTCTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTCTTCTAAACA
* *
33947196 GAGGCAACCGCAACTTTGA
66 GAGGCAACCACAACTTTAA
* *
33947215 AAAAT-AAATTTTTCCTCTAAACATAGGC-ACCACAACTTTAAAAAATAAATTGCTCTTCTAAAC
1 AAAATAAAATGTTT-CTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTCTTCTAAAC
33947278 AGAGGCAA-CACAACTTTAA
65 AGAGGCAACCACAACTTTAA
33947297 AAAA
1 AAAA
33947301 ATAATTTGAA
Statistics
Matches: 140, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
82 38 0.27
83 74 0.53
84 28 0.20
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (84 bp):
AAAATAAAATGTTTCTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTCTTCTAAACA
GAGGCAACCACAACTTTAA
Found at i:33947364 original size:41 final size:42
Alignment explanation
Indices: 33947305--33947401 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
33947295 AAAAAAATAA
33947305 TTTGAAAAAGTAAATTGCTCATCTAAACAG-AGGCAA-CACAAC
1 TTTGAAAAA-TAAATTGCTCATCTAAACAGTA-GCAACCACAAC
* * *
33947347 TTTGAAAAATAAATTGCTCTTCTAAATAGTAGCAACCATAAC
1 TTTGAAAAATAAATTGCTCATCTAAACAGTAGCAACCACAAC
33947389 TTTGAAAAATAAA
1 TTTGAAAAATAAA
33947402 AAGCTTCTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 22 0.44
42 28 0.56
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.27
Consensus pattern (42 bp):
TTTGAAAAATAAATTGCTCATCTAAACAGTAGCAACCACAAC
Found at i:33947774 original size:21 final size:21
Alignment explanation
Indices: 33947750--33947902 Score: 153
Period size: 21 Copynumber: 7.1 Consensus size: 21
33947740 TTCACATCTT
*
33947750 AAAGATTCTCGTTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
33947771 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
* *
33947792 AAAGATTCGCATTTGAGAACGTC
1 AAAGATTCTCATTTGA-AA-TTC
*** * *
33947815 TTGGATATCCTCATTTAAAACTC
1 AAAGAT-T-CTCATTTGAAATTC
* *
33947838 AAAGATTTTCATTTGAAATCC
1 AAAGATTCTCATTTGAAATTC
* *
33947859 AAATATTCTTATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
*
33947880 AAAGATTCTTATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
33947901 AA
1 AA
33947903 CAATCCTCAT
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
21 84 0.79
22 3 0.03
23 10 0.09
24 3 0.03
25 7 0.07
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:33951625 original size:18 final size:18
Alignment explanation
Indices: 33951598--33951641 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33951588 GATATTTCAG
33951598 GATATATGTACCTTACAA
1 GATATATGTACCTTACAA
* *
33951616 GATATGTGTACCTTATAA
1 GATATATGTACCTTACAA
33951634 GATATATG
1 GATATATG
33951642 AACTGCTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (18 bp):
GATATATGTACCTTACAA
Found at i:33952556 original size:120 final size:120
Alignment explanation
Indices: 33952343--33952583 Score: 428
Period size: 120 Copynumber: 2.0 Consensus size: 120
33952333 GGTTAGATAA
* * *
33952343 TTTTGACCACTAAAAGTTTTTAAATTGTTTCTTACATCATCGTCCATCACAGACTAGTAAGGTAA
1 TTTTGACCACTAAAAGTTTTCAAATTATTTCTTACATCATCGTCCATCACAGACTAGTAAGGCAA
*
33952408 TCTAAACCTCACCCATCATAGGCTACCAACAAAAATGATTCAATTTGAGTAAGAG
66 TCCAAACCTCACCCATCATAGGCTACCAACAAAAATGATTCAATTTGAGTAAGAG
* *
33952463 TTTTGACCACTAAAGGTTTTCAAATTATTTCTTACATCATCGTTCATCACAGACTAGTAAGGCAA
1 TTTTGACCACTAAAAGTTTTCAAATTATTTCTTACATCATCGTCCATCACAGACTAGTAAGGCAA
33952528 TCCAAACCTCACCCATCATAGGCTACCAACAAAAATGATTCAATTTGAGTAAGAG
66 TCCAAACCTCACCCATCATAGGCTACCAACAAAAATGATTCAATTTGAGTAAGAG
33952583 T
1 T
33952584 ATTTCGCTAG
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (120 bp):
TTTTGACCACTAAAAGTTTTCAAATTATTTCTTACATCATCGTCCATCACAGACTAGTAAGGCAA
TCCAAACCTCACCCATCATAGGCTACCAACAAAAATGATTCAATTTGAGTAAGAG
Found at i:33953491 original size:57 final size:58
Alignment explanation
Indices: 33953346--33953549 Score: 297
Period size: 58 Copynumber: 3.5 Consensus size: 58
33953336 TGCTTTTATG
* * *
33953346 CAAGGAAAATTGATACTTTTAACTTTTCCTTAAAGCATTTTTAAAAAATTTTTATTTT
1 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAGCATTTTTTAAAAATTTTTATTTT
*
33953404 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAGCATTTTTTAAAAATTTTTATTTT
1 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAGCATTTTTTAAAAATTTTTATTTT
* **
33953462 TAA-AAAAATTGATACTTTTAACTTTTCCTCAAAAAATATTTTTTAAAAA-TTTTATTTT
1 CAAGAAAAATTGATACTTTTAACTTTTCCTC--AAAGCATTTTTTAAAAATTTTTATTTT
33953520 CAAGAAAAATTGATA-TTTTCAACTTTTCCT
1 CAAGAAAAATTGATACTTTT-AACTTTTCCT
33953550 TAAAAATATT
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
57 26 0.20
58 71 0.53
59 36 0.27
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.46
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAGCATTTTTTAAAAATTTTTATTTT
Found at i:33954127 original size:13 final size:12
Alignment explanation
Indices: 33954099--33954125 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33954089 TCGAAATCTG
33954099 AAATTTTCAAAA
1 AAATTTTCAAAA
33954111 AAATTTTCAAAA
1 AAATTTTCAAAA
33954123 AAA
1 AAA
33954126 ATCCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTTTCAAAA
Found at i:33954399 original size:9 final size:8
Alignment explanation
Indices: 33954378--33954402 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33954368 CAACCTTTGT
33954378 ATTTTTTA
1 ATTTTTTA
33954386 ATTTTTTA
1 ATTTTTTA
33954394 ATTTTTTA
1 ATTTTTTA
33954402 A
1 A
33954403 CAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:33960542 original size:14 final size:14
Alignment explanation
Indices: 33960521--33960559 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
33960511 AAACAATAAT
33960521 ATTTAATTTTAA-A
1 ATTTAATTTTAACA
33960534 ATTTAAATTTTAACA
1 ATTT-AATTTTAACA
33960549 ATTATAATTTT
1 ATT-TAATTTT
33960560 TTCTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 10 0.43
16 1 0.04
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTAATTTTAACA
Found at i:33976336 original size:40 final size:40
Alignment explanation
Indices: 33976255--33976334 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
33976245 ATTCTAATGT
* * *
33976255 ATATATAAAATTAATAATTTATGTTTTTATTTTGTATAAA
1 ATATATAAAATTAATAATTTATGATTATATTTTATATAAA
*
33976295 ATAT-TAAAATTTATATATTTAT-ATTATATTTTATATAAA
1 ATATATAAAATTAATA-ATTTATGATTATATTTTATATAAA
33976334 A
1 A
33976335 ATTATATATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 25 0.71
40 10 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (40 bp):
ATATATAAAATTAATAATTTATGATTATATTTTATATAAA
Found at i:33976340 original size:31 final size:29
Alignment explanation
Indices: 33976299--33976379 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 29
33976289 TATAAAATAT
* *
33976299 TAAAATTTATATATTTATATTATATTTTATA
1 TAAAAATTATATATTTATATT-TATATTA-A
** *
33976330 TAAAAATTATATATCAAAATTTATATTAA
1 TAAAAATTATATATTTATATTTATATTAA
*
33976359 TAAAAAATATATATTT-TATTT
1 TAAAAATTATATATTTATATTT
33976380 TTTAAAAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 4 0.10
29 14 0.34
30 6 0.15
31 17 0.41
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
TAAAAATTATATATTTATATTTATATTAA
Found at i:33993221 original size:29 final size:29
Alignment explanation
Indices: 33993189--33993252 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
33993179 AGATTACTTT
* * * *
33993189 TTAAAAAAAATAATATTTTACAATTTTAA
1 TTAAAAAAAATAAAATTTTAAAAATATAA
33993218 TTAAAAAAAATAAAATTTTAAAAATATAA
1 TTAAAAAAAATAAAATTTTAAAAATATAA
33993247 TTAAAA
1 TTAAAA
33993253 TTTTAATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
TTAAAAAAAATAAAATTTTAAAAATATAA
Found at i:33994874 original size:30 final size:30
Alignment explanation
Indices: 33994838--33994899 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
33994828 CGAAATTAAT
* * * *
33994838 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATATA
*
33994868 AAAATATCATTATATAAATATATATATATA
1 AAAATATCATTATATAAATATAAATATATA
33994898 AA
1 AA
33994900 TAATTAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATATA
Found at i:33995913 original size:10 final size:10
Alignment explanation
Indices: 33995898--33995933 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
33995888 TCATTTGATA
33995898 AGTTGAGAAC
1 AGTTGAGAAC
33995908 AGTTGAGAAC
1 AGTTGAGAAC
33995918 AGTTGAGAAC
1 AGTTGAGAAC
*
33995928 AATTGA
1 AGTTGA
33995934 AAATTTAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.28, T:0.22
Consensus pattern (10 bp):
AGTTGAGAAC
Found at i:34000088 original size:13 final size:13
Alignment explanation
Indices: 34000060--34000096 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
34000050 AATAAAAATC
34000060 TTTTAATTTATCAA
1 TTTTAATTT-TCAA
*
34000074 TTTTTATTTTCAA
1 TTTTAATTTTCAA
34000087 TTTTAATTTT
1 TTTTAATTTT
34000097 ATTTAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTCAA
Found at i:34005325 original size:31 final size:32
Alignment explanation
Indices: 34005290--34005350 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
34005280 CATTGATAGA
34005290 TTAGTAGAACAACCAAAGCATCCAT-TTTAGC
1 TTAGTAGAACAACCAAAGCATCCATATTTAGC
*
34005321 TTAGTAGAACAACCAGAGCATCCATATTTA
1 TTAGTAGAACAACCAAAGCATCCATATTTA
34005351 AAGCACCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (32 bp):
TTAGTAGAACAACCAAAGCATCCATATTTAGC
Found at i:34008051 original size:12 final size:12
Alignment explanation
Indices: 34008034--34008058 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34008024 CGATCGATGA
34008034 CCCTCTTGTAGT
1 CCCTCTTGTAGT
34008046 CCCTCTTGTAGT
1 CCCTCTTGTAGT
34008058 C
1 C
34008059 GTGCTGGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.36, G:0.16, T:0.40
Consensus pattern (12 bp):
CCCTCTTGTAGT
Found at i:34011432 original size:15 final size:15
Alignment explanation
Indices: 34011409--34011455 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
34011399 TTTCATCTCC
* *
34011409 AAAAGTAAAAAAATA
1 AAAAATAAATAAATA
34011424 AAAAATAAATAAATA
1 AAAAATAAATAAATA
*
34011439 AATAATAAATAAATA
1 AAAAATAAATAAATA
34011454 AA
1 AA
34011456 TAAAAGATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAAATAAATAAATA
Found at i:34011435 original size:4 final size:4
Alignment explanation
Indices: 34011414--34011459 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
34011404 TCTCCAAAAG
*
34011414 TAAA AAAA TAAA -AAA TAAA TAAA TAAA T-AA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
34011460 AGATGAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 6 0.16
4 32 0.84
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:34011441 original size:19 final size:19
Alignment explanation
Indices: 34011414--34011459 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
34011404 TCTCCAAAAG
*
34011414 TAAAAAAATAAAAAATAAA
1 TAAATAAATAAAAAATAAA
*
34011433 TAAATAAATAATAAATAAA
1 TAAATAAATAAAAAATAAA
34011452 TAAATAAA
1 TAAATAAA
34011460 AGATGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAATAAATAAAAAATAAA
Found at i:34011456 original size:15 final size:15
Alignment explanation
Indices: 34011414--34011458 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
34011404 TCTCCAAAAG
* *
34011414 TAAAAAAATAAAAAA
1 TAAATAAATAAATAA
34011429 TAAATAAATAAATAA
1 TAAATAAATAAATAA
34011444 TAAATAAATAAATAA
1 TAAATAAATAAATAA
34011459 AAGATGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAATAAATAAATAA
Found at i:34019173 original size:39 final size:39
Alignment explanation
Indices: 34019130--34019209 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
34019120 GTAATTAATT
* *
34019130 AATCATAAATAATTTAATTATGTATAAGTCTAATATTTA
1 AATCACAAATAAATTAATTATGTATAAGTCTAATATTTA
*
34019169 AATCACAAATAAATTAATTATGTATAAGTCTAGTATTTA
1 AATCACAAATAAATTAATTATGTATAAGTCTAATATTTA
34019208 AA
1 AA
34019210 AGGTATGGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (39 bp):
AATCACAAATAAATTAATTATGTATAAGTCTAATATTTA
Found at i:34020411 original size:15 final size:14
Alignment explanation
Indices: 34020389--34020419 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
34020379 TATAGTGGAT
34020389 TTCGTTTGATTTGA
1 TTCGTTTGATTTGA
34020403 TTCGATTTGATTTGA
1 TTCG-TTTGATTTGA
34020418 TT
1 TT
34020420 ATTCACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.58
Consensus pattern (14 bp):
TTCGTTTGATTTGA
Found at i:34022239 original size:4 final size:4
Alignment explanation
Indices: 34022230--34022256 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
34022220 TGATGCAGAA
34022230 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
34022257 ACCACCTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:34023551 original size:1 final size:1
Alignment explanation
Indices: 34023541--34023576 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
34023531 ATTAACTTAA
* *
34023541 CCCCCGCCCCCCCCCCCCCCCCCCCCCCTCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
34023577 AAAAAAAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.94, G:0.03, T:0.03
Consensus pattern (1 bp):
C
Found at i:34026985 original size:14 final size:14
Alignment explanation
Indices: 34026966--34026995 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34026956 GTCCAAAGTC
34026966 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
34026980 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
34026994 TT
1 TT
34026996 AGGATTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTCTTTTTTTTTTT
Found at i:34026988 original size:13 final size:13
Alignment explanation
Indices: 34026970--34026994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34026960 AAAGTCTTCT
34026970 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
34026983 TTTTTTTTTTTT
1 TTTTTTTTTTTT
34026995 TAGGATTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:34028148 original size:23 final size:24
Alignment explanation
Indices: 34028122--34028166 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34028112 AAATTCATGT
* *
34028122 AAAAATTTTTATTATA-ATTTTAA
1 AAAAAATTTAATTATATATTTTAA
34028145 AAAAAATTTAATTATATATTTT
1 AAAAAATTTAATTATATATTTT
34028167 TATATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AAAAAATTTAATTATATATTTTAA
Found at i:34037484 original size:12 final size:13
Alignment explanation
Indices: 34037453--34037486 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
34037443 CGACCTTTGC
34037453 GAAGACAAAACTG
1 GAAGACAAAACTG
*
34037466 AAAGACAAAA-TG
1 GAAGACAAAACTG
34037478 GAAGACAAA
1 GAAGACAAA
34037487 GCTTGTCCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.62, C:0.12, G:0.21, T:0.06
Consensus pattern (13 bp):
GAAGACAAAACTG
Found at i:34053022 original size:41 final size:40
Alignment explanation
Indices: 34052919--34053022 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 40
34052909 CCACTAAGTT
* * * *
34052919 TTCAAGAGGAAAAAAAATTCAATTAAATCAAAGTGAAAAGA
1 TTCAAGAGCAAAAAAATTTC-ATTAAACCAAAGTGAAAAAA
** * *
34052960 TTCAAGAGCAAAAAGTTTTTCATTAAACCATATTGAAGAAAA
1 TTCAAGAGCAAAAA-AATTTCATTAAACCAAAGTGAA-AAAA
34053002 TTCAAGAGCAAAAAAATTTCA
1 TTCAAGAGCAAAAAAATTTCA
34053023 CAAAATCAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
41 31 0.61
42 20 0.39
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.24
Consensus pattern (40 bp):
TTCAAGAGCAAAAAAATTTCATTAAACCAAAGTGAAAAAA
Found at i:34057156 original size:18 final size:17
Alignment explanation
Indices: 34057123--34057157 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
34057113 ATTTTATAAT
*
34057123 TTTTTTAAAGTTATTTC
1 TTTTTTAAAGTAATTTC
34057140 TTTTTTAAAGTAAATTTC
1 TTTTTTAAAGT-AATTTC
34057158 ACATATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTTAAAGTAATTTC
Found at i:34064257 original size:24 final size:24
Alignment explanation
Indices: 34064225--34064277 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
34064215 ATTATTTTAT
* ** *
34064225 ATTTGATACATTATTGGTGTATAG
1 ATTTTATACATTATCAGTGTATAA
34064249 ATTTTATACATTATCAGTGTATAA
1 ATTTTATACATTATCAGTGTATAA
34064273 ATTTT
1 ATTTT
34064278 TTATATCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (24 bp):
ATTTTATACATTATCAGTGTATAA
Found at i:34064288 original size:24 final size:24
Alignment explanation
Indices: 34064241--34064288 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34064231 TACATTATTG
* *
34064241 GTGTATAGATTTTATACATTATCA
1 GTGTATAAATTTTATACATCATCA
* *
34064265 GTGTATAAATTTTTTATATCATCA
1 GTGTATAAATTTTATACATCATCA
34064289 ATAAATTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (24 bp):
GTGTATAAATTTTATACATCATCA
Found at i:34064334 original size:171 final size:171
Alignment explanation
Indices: 34064049--34064395 Score: 658
Period size: 171 Copynumber: 2.0 Consensus size: 171
34064039 AAAAAAAAAA
*
34064049 TTTATATTTGATACATTATTGGTGTATAGATTTTATACATTGTCAGTGTATAAATTTTTTATATC
1 TTTATATTTGATACATTATTGGTGTATAGATTTTATACATTATCAGTGTATAAATTTTTTATATC
34064114 ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
66 ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
* * *
34064179 AAATTAATATTTTTTACAAAATTTACTCAGAGTGATATTAT
131 AAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
34064220 TTTATATTTGATACATTATTGGTGTATAGATTTTATACATTATCAGTGTATAAATTTTTTATATC
1 TTTATATTTGATACATTATTGGTGTATAGATTTTATACATTATCAGTGTATAAATTTTTTATATC
34064285 ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
66 ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
34064350 AAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
131 AAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
34064391 TTTAT
1 TTTAT
34064396 TTATTTTATT
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 172 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (171 bp):
TTTATATTTGATACATTATTGGTGTATAGATTTTATACATTATCAGTGTATAAATTTTTTATATC
ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
AAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
Found at i:34064445 original size:171 final size:171
Alignment explanation
Indices: 34064049--34064447 Score: 592
Period size: 171 Copynumber: 2.3 Consensus size: 171
34064039 AAAAAAAAAA
* * * *
34064049 TTTATATTTGATACATTATTGGTGTATAGATTTTATACATTGTCAGTGTATAAATTTTTTATATC
1 TTTATATTTGATACATTATAGATGCATAGATTTTATACATTGACAGTGTATAAATTTTTTATATC
34064114 ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
66 ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
* * *
34064179 AAATTAATATTTTTTACAAAATTTACTCAGAGTGATATTAT
131 AAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
* * *
34064220 TTTATATTTGATACATTATTGGTGTATAGATTTTATACATT-ATCAGTGTATAAATTTTTTATAT
1 TTTATATTTGATACATTATAGATGCATAGATTTTATACATTGA-CAGTGTATAAATTTTTTATAT
34064284 CATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATA
65 CATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATA
34064349 AAAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
130 AAAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
* * * *
34064391 TTTATTTATTTTATTA-A-TA-AGATGACATA-ATTTTATTCATTGAAAGTATATAAATTT
1 TTTA--TATTTGA-TACATTATAGATG-CATAGATTTTATACATTGACAGTGTATAAATTT
34064448 ACATTGATAA
Statistics
Matches: 211, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
171 196 0.93
172 6 0.03
173 7 0.03
174 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (171 bp):
TTTATATTTGATACATTATAGATGCATAGATTTTATACATTGACAGTGTATAAATTTTTTATATC
ATCAATAAATTAAATTATGTCACTTTATTAATTAATAAATATTAATTTTTAAAATAAATATATAA
AAATTAATATTTTTTACAAAATTTACTCAAAATGATATCAT
Found at i:34064448 original size:23 final size:23
Alignment explanation
Indices: 34064417--34064481 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 23
34064407 ATAAGATGAC
*
34064417 ATAATTTTATTCATTGA-AAGTAT
1 ATAAATTTATTCATTGATAA-TAT
34064440 ATAAATTTA--CATTGATAATAT
1 ATAAATTTATTCATTGATAATAT
* *
34064461 ATAAATTCTATTTATTAATAA
1 ATAAATT-TATTCATTGATAA
34064482 AATGACATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 16 0.46
22 4 0.11
23 8 0.23
24 7 0.20
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (23 bp):
ATAAATTTATTCATTGATAATAT
Done.