Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 84 of 109
Found at i:16912698 original size:19 final size:19
Alignment explanation
Indices: 16912676--16912783 Score: 77
Period size: 19 Copynumber: 5.9 Consensus size: 19
16912666 TTATATTATT
16912676 TATTAATATAATATTATAA
1 TATTAATATAATATTATAA
*
16912695 TATTCAAT-TAAT-TAATAA
1 TATT-AATATAATATTATAA
* * *
16912713 TATTTATTATTATATTAT-T
1 TA-TTAATATAATATTATAA
16912732 TATTAATAT-ATGATT-T--
1 TATTAATATAAT-ATTATAA
* *
16912748 TATTAATATAATATAATAT
1 TATTAATATAATATTATAA
*
16912767 TATTTATATAATATTAT
1 TATTAATATAATATTAT
16912784 TTATAAGTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
16 11 0.15
17 6 0.08
18 18 0.25
19 30 0.42
20 6 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
TATTAATATAATATTATAA
Found at i:16912710 original size:28 final size:27
Alignment explanation
Indices: 16912668--16912784 Score: 82
Period size: 28 Copynumber: 4.3 Consensus size: 27
16912658 ATTATTCTTT
*
16912668 ATATTATTTATTAATATA-ATATTATA
1 ATATTATTAATTAATATATATATTATA
* *
16912694 ATATTCAATTAATTAATAATATTTATTATT
1 ATATT--ATTAATTAAT-ATATATATTATA
*
16912724 ATATTATTTATTAATATATGAT-TT-TA
1 ATATTATTAATTAATATAT-ATATTATA
* * *
16912750 TTAATA-TAATATAATAT-TATTTATATA
1 ATATTATTAAT-TAATATATATAT-TATA
16912777 ATATTATT
1 ATATTATT
16912785 TATAAGTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
24 2 0.03
25 5 0.07
26 17 0.24
27 12 0.17
28 20 0.29
29 3 0.04
30 11 0.16
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
ATATTATTAATTAATATATATATTATA
Found at i:16912733 original size:56 final size:53
Alignment explanation
Indices: 16912666--16912787 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 53
16912656 TTATTATTCT
16912666 TTATATTATTTATTAATATAAT-ATTATAATATTCAAT-TAAT-TAATAATATTTATTA
1 TTATATTATTTATTAATAT-ATGATT-T--TATT-AATATAATATAATAATATTTA-TA
*
16912722 TTATATTATTTATTAATATATGATTTTATTAATATAATATAATATTATTTATA
1 TTATATTATTTATTAATATATGATTTTATTAATATAATATAATAATATTTATA
*
16912775 TAATATTATTTAT
1 TTATATTATTTAT
16912788 AAGTAAATTA
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
52 3 0.05
53 22 0.36
54 11 0.18
55 3 0.05
56 22 0.36
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (53 bp):
TTATATTATTTATTAATATATGATTTTATTAATATAATATAATAATATTTATA
Found at i:16912751 original size:16 final size:15
Alignment explanation
Indices: 16912667--16912757 Score: 68
Period size: 15 Copynumber: 6.3 Consensus size: 15
16912657 TATTATTCTT
*
16912667 TATATTATTTATTAA
1 TATATGATTTATTAA
16912682 TATA--ATATTA-TAA
1 TATATGAT-TTATTAA
* *
16912695 TAT-TCAATTAATTAA
1 TATAT-GATTTATTAA
*
16912710 TA-AT-ATTTATTAT
1 TATATGATTTATTAA
*
16912723 TATATTATTTATTAA
1 TATATGATTTATTAA
16912738 TATATGATTTTATTAA
1 TATATGA-TTTATTAA
16912754 TATA
1 TATA
16912758 ATATAATATT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
13 17 0.27
14 7 0.11
15 26 0.42
16 12 0.19
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
TATATGATTTATTAA
Found at i:16913451 original size:16 final size:16
Alignment explanation
Indices: 16913430--16913463 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16913420 ATTATATGTG
16913430 AATTATCATAATTTTT
1 AATTATCATAATTTTT
*
16913446 AATTATCGTAATTTTT
1 AATTATCATAATTTTT
16913462 AA
1 AA
16913464 AATAATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTATCATAATTTTT
Found at i:16917430 original size:37 final size:37
Alignment explanation
Indices: 16917358--16917433 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
16917348 AAATAAAACG
*
16917358 TAAAATATTTTTACTAAATATTATTACATATAAAATT
1 TAAAATATATTTACTAAATATTATTACATATAAAATT
* *
16917395 TAAAATATATTTACTTAATATTATTACTTATAAAATT
1 TAAAATATATTTACTAAATATTATTACATATAAAATT
16917432 TA
1 TA
16917434 TTTTGAGGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (37 bp):
TAAAATATATTTACTAAATATTATTACATATAAAATT
Found at i:16923506 original size:331 final size:331
Alignment explanation
Indices: 16922641--16923919 Score: 1701
Period size: 333 Copynumber: 3.9 Consensus size: 331
16922631 ACAAATTATT
* * *
16922641 GAAGGTGAC-TTATAATAAAATATGCTTTTAATAATCCAAAAAAATTTT-TT-TGACAAATTATT
1 GAAGGTG-CTTTATAATAAAAGATGCCTTTAATAATCCAAAAAAATTTTATTAGGA-AAATTATT
*
16922703 GAAGGCAATGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGAAATTATTAAAG
64 GAAGGC--TGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAG
* *
16922768 GTATCTATCTTAAATATACACCTTCAATAACAATATTACAATTTGTGTGACGGTATATAGAAGGT
127 GCATCTATCTTAAATATACACCTTCAATAACAATGTTACAATTTGTGTGACGGTATATAGAAGGT
* * * * * * * **
16922833 ATTTTACATTAGAAGACACCTTTAATAATTTTTAAAATATTTAGTGGAAAAATTTTGAAGATGTC
192 ATTTTACAGTAAAAAACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTC
* *
16922898 TGTTATTAACAAACGCCTTCAGTAATTGAAGGTACCTTTTTTAATAAACACATTTCATTACCATC
257 TGTTACTAACAAACGCCTTCAGTAATTGAAGGTACCTTTTTTAATAAACACCTTTCATTACCATC
*
16922963 GTGATATATC
322 GTGGTATATC
* * *
16922973 AAAGGTG-TATTATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTATTAGGAAAATTATTG
1 GAAGGTGCT-TTATAATAAAAGATGCCTTTAATAATCCAAAAAAATTTTATTAGGAAAATTATTG
* * *
16923037 AAGACGTTGTTATCT-AAAACTGCCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAG
65 AAG--GCTGTTATCTGAAATC-ACCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAG
** * * * * * *
16923101 GTGTCTATCTTAAATATACGCCTTAAATAATAGTGTTACAATTTATGTGACGGTTTATAGAAGGT
127 GCATCTATCTTAAATATACACCTTCAATAACAATGTTACAATTTGTGTGACGGTATATAGAAGGT
* *
16923166 ATTTTACAGTAAAAAATACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGTGTC
192 ATTTTACAGTAAAAAACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTC
* ** * *
16923231 TGTTATTAACAAACGCCTTCAGTAATTGAAGGTATTTTTTTTTAATAAACGCCTTCCATTACCAT
257 TGTTACTAACAAACGCCTTCAGTAATTGAAGGTA-CCTTTTTTAATAAACACCTTTCATTACCAT
*
16923296 CGCGGTATATC
321 CGTGGTATATC
* * * *
16923307 GAAGGTGCTTTACAATAAAAGATGCTTTTGATAATCCAAAAAAATTTTATTAAGAAAATTATTGA
1 GAAGGTGCTTTATAATAAAAGATGCCTTTAATAATCCAAAAAAATTTTATTAGGAAAATTATTGA
16923372 AGGC-GTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAGGCAT
66 AGGCTGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAGGCAT
* * * * *
16923436 CTATCTTAAATATACACCTTCAATAACAGTGTTACAATTTGTGTGGCAGTATATATAATGTATTT
131 CTATCTTAAATATACACCTTCAATAACAATGTTACAATTTGTGTGACGGTATATAGAAGGTATTT
* * * * *
16923501 TACAGTAAAAGACGCCTTTAATAATTTTCAAAATATTTAGTGAGAAAATTTTGAAGGCGTCTGTT
196 TACAGTAAAAAACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTGTT
** * * *
16923566 ACTAACAAACGCCTTCAGTAATTGAAGGCGCCTTTTCTAATAAACACCTTTCATTATCATTGTGG
261 ACTAACAAACGCCTTCAGTAATTGAAGGTACCTTTTTTAATAAACACCTTTCATTACCATCGTGG
*
16923631 TATATT
326 TATATC
* * *
16923637 GAAGAG-GTTTTATAATAAAAGATGCCTTTAATAATCTAAAAAAAATTTATTAGGAAAATTATTG
1 GAAG-GTGCTTTATAATAAAAGATGCCTTTAATAATCCAAAAAAATTTTATTAGGAAAATTATTG
* * * *
16923701 AAGGCGTTGTTTTCTAAAACCACCTTCAGTAAATATATACAAACTGTGATAAAAATTATTAAAGG
65 AAGGC--TGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAGG
* * * *
16923766 CGTTTATCTTAAATATACGCCTTCAATAACAATGTTACAATTTGTGTGACGGTATATAAAAGGTA
128 CATCTATCTTAAATATACACCTTCAATAACAATGTTACAATTTGTGTGACGGTATATAGAAGGTA
* * * *
16923831 TTTTACAGTAAAAAAC-GCATTAATAATTCTCAAAATATTTAGTAAAAAAATTTTAAAGGCGTTT
193 TTTTACAGTAAAAAACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTCT
* *
16923895 GTTACTAACAAACACCTTCAATAAT
258 GTTACTAACAAACGCCTTCAGTAAT
16923920 GGATTACTAA
Statistics
Matches: 830, Mismatches: 103, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
330 92 0.11
331 193 0.23
332 114 0.14
333 335 0.40
334 94 0.11
335 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (331 bp):
GAAGGTGCTTTATAATAAAAGATGCCTTTAATAATCCAAAAAAATTTTATTAGGAAAATTATTGA
AGGCTGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAGGCAT
CTATCTTAAATATACACCTTCAATAACAATGTTACAATTTGTGTGACGGTATATAGAAGGTATTT
TACAGTAAAAAACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTGTT
ACTAACAAACGCCTTCAGTAATTGAAGGTACCTTTTTTAATAAACACCTTTCATTACCATCGTGG
TATATC
Found at i:16928608 original size:14 final size:12
Alignment explanation
Indices: 16928579--16928613 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
16928569 AGTGTTTAAG
16928579 AAATAATGTAGT
1 AAATAATGTAGT
16928591 AAATAATAGTATGT
1 AAATAAT-GTA-GT
16928605 AAATAATGT
1 AAATAATGT
16928614 CACATTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.33
13 5 0.24
14 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (12 bp):
AAATAATGTAGT
Found at i:16933750 original size:16 final size:15
Alignment explanation
Indices: 16933725--16933796 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
16933715 TTTAATTTTT
16933725 TATTTATATATATATA
1 TATTT-TATATATATA
16933741 TATATTTATATA-ATGA
1 TAT-TTTATATATAT-A
* *
16933757 TATTTTTAAATATTTA
1 TA-TTTTATATATATA
* *
16933773 TATTTTAAAAATA-A
1 TATTTTATATATATA
16933787 TATTTTATAT
1 TATTTTATAT
16933797 TTTAAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
14 9 0.20
15 11 0.24
16 22 0.48
17 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (15 bp):
TATTTTATATATATA
Found at i:16933795 original size:21 final size:21
Alignment explanation
Indices: 16933765--16933815 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
16933755 GATATTTTTA
16933765 AATA-TTTATATTTTAAAAAT
1 AATATTTTATATTTTAAAAAT
16933785 AATATTTTATATTTTAAAAAT
1 AATATTTTATATTTTAAAAAT
16933806 AATATTTTAT
1 AATATTTTAT
16933816 TAATTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTTTATATTTTAAAAAT
Found at i:16933826 original size:21 final size:21
Alignment explanation
Indices: 16933765--16933821 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
16933755 GATATTTTTA
*
16933765 AATA-TTTATATTTTAAAAAT
1 AATATTTTATAATTTAAAAAT
*
16933785 AATATTTTATATTTTAAAAAT
1 AATATTTTATAATTTAAAAAT
16933806 AATATTTTATTAATTT
1 AATATTTTA-TAATTT
16933822 CAAATCTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 4 0.12
21 25 0.74
22 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTTTATAATTTAAAAAT
Found at i:16937225 original size:20 final size:20
Alignment explanation
Indices: 16937187--16937233 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
16937177 GTTTATATGC
*
16937187 ATTT-AATAAATATATTTTT
1 ATTTAAATAAATAAATTTTT
16937206 A-TTAAATAATATAAATTTTT
1 ATTTAAATAA-ATAAATTTTT
16937226 ATTTAAAT
1 ATTTAAAT
16937234 GAATTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
20 10 0.42
21 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTAAATAAATAAATTTTT
Found at i:16937785 original size:17 final size:18
Alignment explanation
Indices: 16937760--16937793 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16937750 TATATTAAAA
16937760 TATTAAAAATATTTATAC
1 TATTAAAAATATTTATAC
16937778 TATT-AAAATATTTATA
1 TATTAAAAATATTTATA
16937794 TTTTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAAAATATTTATAC
Found at i:16937818 original size:23 final size:23
Alignment explanation
Indices: 16937768--16937814 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
16937758 AATATTAAAA
16937768 ATATTTATACTATTAAAATATTT
1 ATATTTATACTATTAAAATATTT
*
16937791 ATATTT-TA-TATTGAAAGTATTT
1 ATATTTATACTATT-AAAATATTT
16937813 AT
1 AT
16937815 TATTAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 12 0.55
23 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATTTATACTATTAAAATATTT
Found at i:16937897 original size:26 final size:25
Alignment explanation
Indices: 16937868--16937931 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
16937858 TAATAATATA
*
16937868 AATATATTAATAAATAAAATAAAAAT
1 AATATATTATTAAATAAAA-AAAAAT
* *
16937894 AATATATT-TTAAATTAAAAACAAT
1 AATATATTATTAAATAAAAAAAAAT
*
16937918 AATAAATTATTAAA
1 AATATATTATTAAA
16937932 ATATTCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.36
25 13 0.39
26 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
AATATATTATTAAATAAAAAAAAAT
Found at i:16938269 original size:35 final size:33
Alignment explanation
Indices: 16938220--16938292 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
16938210 TTTGTGAAAC
* *
16938220 AAATAGATTCTAAATAATTGTGAAAATAAAAATAA
1 AAATAAATTCTAAAT-ATCGT-AAAATAAAAATAA
* * *
16938255 AAATAAATTTTAAATATCGTTAAATATAAATAA
1 AAATAAATTCTAAATATCGTAAAATAAAAATAA
16938288 AAATA
1 AAATA
16938293 TATAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 16 0.48
34 4 0.12
35 13 0.39
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (33 bp):
AAATAAATTCTAAATATCGTAAAATAAAAATAA
Found at i:16938297 original size:14 final size:15
Alignment explanation
Indices: 16938278--16938306 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16938268 ATATCGTTAA
16938278 ATATAA-ATAAAAAT
1 ATATAATATAAAAAT
16938292 ATATAATATAAAAAT
1 ATATAATATAAAAAT
16938307 GAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAATATAAAAAT
Found at i:16942768 original size:29 final size:29
Alignment explanation
Indices: 16942735--16942802 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
16942725 GTTCTTTTTG
16942735 AATACTGAACCTACCAAATCTTATATATA
1 AATACTGAACCTACCAAATCTTATATATA
16942764 AATACTGAACCTACCAAATCTTATATATA
1 AATACTGAACCTACCAAATCTTATATATA
16942793 AATACTGAAC
1 AATACTGAAC
16942803 GTCACGTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (29 bp):
AATACTGAACCTACCAAATCTTATATATA
Found at i:16943213 original size:21 final size:19
Alignment explanation
Indices: 16943180--16943218 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
16943170 TTTAATTTTA
16943180 ATTTAAATAAAATAAATAC
1 ATTTAAATAAAATAAATAC
16943199 ATTTAATATTAAAATAAATA
1 ATTTAA-A-TAAAATAAATA
16943219 ATGCTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTAAATAAAATAAATAC
Found at i:16943969 original size:34 final size:34
Alignment explanation
Indices: 16943931--16944000 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
16943921 ATGGATATTC
*
16943931 AAGAATCCTTAAAACTTATCGAATATCCATTTTT
1 AAGAAACCTTAAAACTTATCGAATATCCATTTTT
* *
16943965 AAGAAACCTTAAAGCTTATCGAATATTCATTTTT
1 AAGAAACCTTAAAACTTATCGAATATCCATTTTT
16943999 AA
1 AA
16944001 AAAATTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (34 bp):
AAGAAACCTTAAAACTTATCGAATATCCATTTTT
Found at i:16945319 original size:83 final size:84
Alignment explanation
Indices: 16945194--16945413 Score: 191
Period size: 83 Copynumber: 2.6 Consensus size: 84
16945184 ATCCCCCTTT
* * ** *
16945194 TATTATAATTG-CCAATATTACTCTAATGGCCCTACATCCATAATTACATAAATG-CATTCCTAC
1 TATTATAATTGACCAAAATTACTATAATATCTCTA-A-CCATAATTACA-AAATGCCATT-CTAC
* *
16945257 CATAATTACAAAAATACCTCTCA
62 CATAATTACAAAAATAACACTCA
* * * **
16945280 TA-TA-ATTTG-CCAAAATTACTATAATATCATCTAACCATAAGTATA-AAAATGCCCTTTTATT
1 TATTATAATTGACCAAAATTACTATAATATC-TCTAACCATAA-T-TACAAAATGCCATTCTACC
*
16945341 ATAATTACAAAAATAACACTTA
63 ATAATTACAAAAATAACACTCA
* * *
16945363 TATTATAATTGACTAAAATTACTATAATATCTTTTACCATAATTACAAAAT
1 TATTATAATTGACCAAAATTACTATAATATCTCTAACCATAATTACAAAAT
16945414 ACCCTTTTGA
Statistics
Matches: 109, Mismatches: 17, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
83 36 0.33
84 33 0.30
85 20 0.18
86 20 0.18
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (84 bp):
TATTATAATTGACCAAAATTACTATAATATCTCTAACCATAATTACAAAATGCCATTCTACCATA
ATTACAAAAATAACACTCA
Found at i:16949596 original size:62 final size:61
Alignment explanation
Indices: 16949471--16949706 Score: 203
Period size: 62 Copynumber: 3.8 Consensus size: 61
16949461 AATGGGGTTA
* * * * *
16949471 TTAAATGTATTTTTAGCCAAAAACCCCTTGAATAATCATC-TTCAATTTTTATAAGAGGATTAT
1 TTAAA-GTGTTTTTAGCAAAAAACGCATTGAATAATC-TCATTCAATTTTTATGAGA-GATTAT
* * *
16949534 TT-AAGATGTTTTTAGCCAAAAACGCATTGAATAATCTCATTTAATTTTTTATTGCGAG-TTAT
1 TTAAAG-TGTTTTTAGCAAAAAACGCATTGAATAATCTCATTCAA-TTTTTA-TGAGAGATTAT
* * * * * * * *
16949596 TCAAAGCGTTTCTAGCAAAAAATGCCTTTAATAATTTCCTTCAATTTTTATGAGAAGATTAT
1 TTAAAGTGTTTTTAGCAAAAAACGCATTGAATAATCTCATTCAATTTTTATGAG-AGATTAT
*
16949658 TTAAAGTGTTTTT-GACAAAAAATGCATTGAATAATCTCA-TCAAATTTTT
1 TTAAAGTGTTTTTAG-CAAAAAACGCATTGAATAATCTCATTC-AATTTTT
16949707 TAGAAGGGAT
Statistics
Matches: 140, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
60 3 0.02
61 14 0.10
62 108 0.77
63 12 0.09
64 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (61 bp):
TTAAAGTGTTTTTAGCAAAAAACGCATTGAATAATCTCATTCAATTTTTATGAGAGATTAT
Found at i:16958325 original size:21 final size:21
Alignment explanation
Indices: 16958294--16958349 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 21
16958284 TCTTATATAT
16958294 TTATGTAATTTTTT-ATAAATAA
1 TTAT-TAATTTTTTAATAAA-AA
16958316 TTATTAATTTTTTTAATAAAAA
1 TTATTAA-TTTTTTAATAAAAA
16958338 TATATTAATTTT
1 T-TATTAATTTT
16958350 AATTATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.10
22 17 0.55
23 11 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATTAATTTTTTAATAAAAA
Found at i:16958327 original size:22 final size:22
Alignment explanation
Indices: 16958294--16958349 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
16958284 TCTTATATAT
16958294 TTATGTAA-TTTTTT-ATAAATAA
1 TTAT-TAATTTTTTTAATAAA-AA
16958316 TTATTAATTTTTTTAATAAAAA
1 TTATTAATTTTTTTAATAAAAA
16958338 TATATTAATTTT
1 T-TATTAATTTT
16958350 AATTATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.10
22 13 0.42
23 15 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTAATTTTTTTAATAAAAA
Found at i:16958358 original size:29 final size:30
Alignment explanation
Indices: 16958313--16958377 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
16958303 TTTTTATAAA
*
16958313 TAATTATTAATTTTTTTAATAAAAATATAT
1 TAATTATTAATTATTTTAATAAAAATATAT
*
16958343 TAATT-TTAATTATTTTAATAAAAATTTAT
1 TAATTATTAATTATTTTAATAAAAATATAT
*
16958372 TTATTA
1 TAATTA
16958378 AATATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TAATTATTAATTATTTTAATAAAAATATAT
Found at i:16960149 original size:15 final size:15
Alignment explanation
Indices: 16960118--16960166 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
16960108 GATGTGGTGG
16960118 AGGAG-GAGAGGAG-
1 AGGAGAGAGAGGAGA
16960131 -GGAGAGAGAGGAGA
1 AGGAGAGAGAGGAGA
* * *
16960145 AGGAGAGAAAAGATA
1 AGGAGAGAGAGGAGA
16960160 AGGAGAG
1 AGGAGAG
16960167 GGAGTTTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 4 0.13
13 8 0.27
15 18 0.60
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (15 bp):
AGGAGAGAGAGGAGA
Found at i:16966545 original size:6 final size:6
Alignment explanation
Indices: 16966535--16966571 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
16966525 TAAATCCATA
* *
16966535 TGATGA TGATGG TGTTGG TGATGG TGATGG TGATGG T
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG T
16966572 ATAAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TGATGG
Found at i:16966961 original size:18 final size:18
Alignment explanation
Indices: 16966914--16966987 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 18
16966904 TATGGTTATT
16966914 ATCCACCACAAATGTATC
1 ATCCACCACAAATGTATC
** *
16966932 CCCCACCTCAAATGTATC
1 ATCCACCACAAATGTATC
** *
16966950 ATTTACCACAAATTTATC
1 ATCCACCACAAATGTATC
*
16966968 -CCCACCACAAATGTATC
1 ATCCACCACAAATGTATC
16966985 ATC
1 ATC
16966988 TTCATATATA
Statistics
Matches: 41, Mismatches: 14, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
17 13 0.32
18 28 0.68
ACGTcount: A:0.35, C:0.35, G:0.04, T:0.26
Consensus pattern (18 bp):
ATCCACCACAAATGTATC
Found at i:16966979 original size:35 final size:36
Alignment explanation
Indices: 16966918--16966986 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
16966908 GTTATTATCC
*
16966918 ACCACAAATGTATCCCCCACCTCAAATGTATCATTT
1 ACCACAAATGTATCCCCCACCACAAATGTATCATTT
*
16966954 ACCACAAATTTAT-CCCCACCACAAATGTATCAT
1 ACCACAAATGTATCCCCCACCACAAATGTATCAT
16966987 CTTCATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.36, C:0.33, G:0.04, T:0.26
Consensus pattern (36 bp):
ACCACAAATGTATCCCCCACCACAAATGTATCATTT
Found at i:16967467 original size:22 final size:22
Alignment explanation
Indices: 16967441--16967484 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
16967431 TGTATATTTA
16967441 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
*
16967463 TATTTGTATCCTTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
16967485 GACAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:16973332 original size:151 final size:152
Alignment explanation
Indices: 16973074--16973377 Score: 520
Period size: 151 Copynumber: 2.0 Consensus size: 152
16973064 AATGTTTTTC
*
16973074 TGACAAAGGCAAAGCTCGAAAAGGTATACACAAATTTTTGGAGCGGATGTTCTTCTAAGAAAATT
1 TGACAAAGGCAAAGCTCGAAAAGGCATACACAAATTTTTGGAGCGGATGTTCTTCTAAGAAAATT
*
16973139 TTTCTGATGGACAATCGAAGTCGCAGAGAAATCTGTACTAGTTTCTGCTGCTAATGCACTGCTGG
66 TTTCTGACGGACAATCGAAGTCGCAGAGAAATCTGTACTAGTTTCTGCTGCTAATGCACTGCTGG
*
16973204 TCGTTGTATATAGAGACCTAGT
131 TCCTTGTATATAGAGACCTAGT
* * * *
16973226 TGACAAAGGCAAAGCTTGAAACGGCATACACCAATTTTTGGAGCGGCTGTTCTTCTAAG-AAATT
1 TGACAAAGGCAAAGCTCGAAAAGGCATACACAAATTTTTGGAGCGGATGTTCTTCTAAGAAAATT
* *
16973290 TTTCTGACGGACAATTGAAGTCGCAGAGAAATCTGTACTAGTTTCTGTTGCTAATGCACTGCTGG
66 TTTCTGACGGACAATCGAAGTCGCAGAGAAATCTGTACTAGTTTCTGCTGCTAATGCACTGCTGG
16973355 TCCTTGTATATAGAGACCTAGT
131 TCCTTGTATATAGAGACCTAGT
16973377 T
1 T
16973378 TTATGATTAT
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
151 89 0.62
152 54 0.38
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (152 bp):
TGACAAAGGCAAAGCTCGAAAAGGCATACACAAATTTTTGGAGCGGATGTTCTTCTAAGAAAATT
TTTCTGACGGACAATCGAAGTCGCAGAGAAATCTGTACTAGTTTCTGCTGCTAATGCACTGCTGG
TCCTTGTATATAGAGACCTAGT
Found at i:16974793 original size:55 final size:56
Alignment explanation
Indices: 16974728--16974833 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 56
16974718 TTTACACACT
** * * *
16974728 TTTTATCTTATGAGATTTTTTTTGTGAGATAAAATTATGAAGTCAGAGAGACATTC
1 TTTTATCTTATGAGATGCTTTTTATGAGACAAAATTATGAAATCAGAGAGACATTC
16974784 TTTT-TCTTATGAGATGCTTTTTATGAGACAAAATTATGAAATCAGAGAGA
1 TTTTATCTTATGAGATGCTTTTTATGAGACAAAATTATGAAATCAGAGAGA
16974834 TCAGAGCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 41 0.91
56 4 0.09
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.41
Consensus pattern (56 bp):
TTTTATCTTATGAGATGCTTTTTATGAGACAAAATTATGAAATCAGAGAGACATTC
Found at i:16985515 original size:2 final size:2
Alignment explanation
Indices: 16985510--16985556 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
16985500 TGAGAGACTT
*
16985510 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16985552 TC TC T
1 TC TC T
16985557 TTTTATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:16985922 original size:21 final size:21
Alignment explanation
Indices: 16985898--16985940 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
16985888 ATTAAAATTA
*
16985898 ACTATGAAAGTGATTTAAACT
1 ACTATGAAAGAGATTTAAACT
16985919 ACTATGAAAGAGATTTAAACT
1 ACTATGAAAGAGATTTAAACT
16985940 A
1 A
16985941 ACTTATATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
ACTATGAAAGAGATTTAAACT
Found at i:16991168 original size:24 final size:24
Alignment explanation
Indices: 16991136--16991185 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
16991126 AAATGGTAAC
*
16991136 GTTCACAGCTACTTCAGCAGGAAA
1 GTTCACAGCTACTTCAACAGGAAA
16991160 GTTCACAGCTACTTCAACAGGAAA
1 GTTCACAGCTACTTCAACAGGAAA
16991184 GT
1 GT
16991186 CCCTCATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (24 bp):
GTTCACAGCTACTTCAACAGGAAA
Found at i:16996144 original size:14 final size:15
Alignment explanation
Indices: 16996122--16996159 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
16996112 TGGTTTAAGG
*
16996122 ATATGTAATTATA-T
1 ATATTTAATTATATT
16996136 ATATTTAATTATATT
1 ATATTTAATTATATT
*
16996151 ATAATTAAT
1 ATATTTAAT
16996160 AAATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTAATTATATT
Found at i:17007933 original size:56 final size:56
Alignment explanation
Indices: 17007847--17007995 Score: 264
Period size: 56 Copynumber: 2.7 Consensus size: 56
17007837 GCGTAAGTGT
*
17007847 GTCCTTACATTTGCAGGGATCTAGTTTTATGATTATCTGCTGCTAGTGCACTGCTG
1 GTCCTTACATTTACAGGGATCTAGTTTTATGATTATCTGCTGCTAGTGCACTGCTG
*
17007903 GTCCTTACATTTACAGGGATCTAGTTTTATGATTTTCTGCTGCTAGTGCACTGCTG
1 GTCCTTACATTTACAGGGATCTAGTTTTATGATTATCTGCTGCTAGTGCACTGCTG
17007959 GTCCTTACATTTAC-GGGCATCTAGTTTTATGATTATC
1 GTCCTTACATTTACAGGG-ATCTAGTTTTATGATTATC
17007996 GATGTTTCTG
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
55 3 0.03
56 86 0.97
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (56 bp):
GTCCTTACATTTACAGGGATCTAGTTTTATGATTATCTGCTGCTAGTGCACTGCTG
Found at i:17009604 original size:22 final size:19
Alignment explanation
Indices: 17009578--17009637 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
17009568 CTTGAAATTT
*
17009578 AAAATGAATATGAAAATATATA
1 AAAATGAAT-T-AAAAAATA-A
*
17009600 AAAATTAATTAAAAAATAA
1 AAAATGAATTAAAAAATAA
*
17009619 AAAATGATTTAAATAAATA
1 AAAATGAATTAAA-AAATA
17009638 TTAATCATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.36
20 12 0.36
21 1 0.03
22 8 0.24
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAATGAATTAAAAAATAA
Found at i:17010093 original size:18 final size:19
Alignment explanation
Indices: 17010072--17010112 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
17010062 AATTAAATTA
*
17010072 TATATATTTTT-TAATTTT
1 TATATATTTTTAAAATTTT
17010090 TATATATTTTTAAAATTTT
1 TATATATTTTTAAAATTTT
17010109 TATA
1 TATA
17010113 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATATATTTTTAAAATTTT
Found at i:17010192 original size:33 final size:33
Alignment explanation
Indices: 17010128--17010192 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
17010118 AAAATAATAC
* * *
17010128 TTTTATATCAAAATCTACTTAAATATATTAAAT
1 TTTTATATCAAAATATACATAAAAATATTAAAT
*
17010161 TTTTATATTAAAATAATACATAAAAAT-TTAAA
1 TTTTATATCAAAAT-ATACATAAAAATATTAAA
17010193 AAAAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (33 bp):
TTTTATATCAAAATATACATAAAAATATTAAAT
Found at i:17012139 original size:26 final size:27
Alignment explanation
Indices: 17012110--17012161 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
17012100 TGATATTTTT
17012110 ATAA-AAATTT-TGAAAAAAAAAATCAA
1 ATAAGAAATTTGT-AAAAAAAAAATCAA
* *
17012136 ATAAGACATTTGTATAAAAAAAATCA
1 ATAAGAAATTTGTAAAAAAAAAATCA
17012162 CTTTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
27 17 0.77
28 1 0.05
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (27 bp):
ATAAGAAATTTGTAAAAAAAAAATCAA
Found at i:17021276 original size:51 final size:52
Alignment explanation
Indices: 17021195--17021334 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 52
17021185 TTGATTTCTG
* **
17021195 TTTTAATGAGAATTGATTTTGAAATCAAATCCCAAAAATCTCTCCTTATCA-
1 TTTTAATGAGAATTGATTTTGAAATTAAATCCCAAAAATCTCTCCACATCAC
* * * ** *
17021246 TTTTAATGTGAATTGATTATGGAATTAAATCCTGACAATCTCTCCACATCAC
1 TTTTAATGAGAATTGATTTTGAAATTAAATCCCAAAAATCTCTCCACATCAC
* *
17021298 GTTTAAT-ACCAATTGATTTTGAAATTAAATCCCAAAA
1 TTTTAATGA-GAATTGATTTTGAAATTAAATCCCAAAA
17021335 TTTTCTCAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
51 42 0.60
52 28 0.40
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (52 bp):
TTTTAATGAGAATTGATTTTGAAATTAAATCCCAAAAATCTCTCCACATCAC
Found at i:17023780 original size:23 final size:23
Alignment explanation
Indices: 17023754--17023798 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17023744 AGAGAAGTCT
*
17023754 GAAA-CAAATAAGATGACAAGAAA
1 GAAAGCAAAGAAGATG-CAAGAAA
*
17023777 GAAAGCATAGAAGATGCAAGAA
1 GAAAGCAAAGAAGATGCAAGAA
17023799 TTAGCTAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.60, C:0.09, G:0.22, T:0.09
Consensus pattern (23 bp):
GAAAGCAAAGAAGATGCAAGAAA
Found at i:17025511 original size:31 final size:30
Alignment explanation
Indices: 17025471--17025528 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
17025461 AAATTTATTT
* *
17025471 TATATTTTTCATGTCAATATAAAATATGACA
1 TATAATTTTCATGT-AAAATAAAATATGACA
* *
17025502 TATAATTTTCGTGTAAAATACAATATG
1 TATAATTTTCATGTAAAATAAAATATG
17025529 GATATACGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 11 0.48
31 12 0.52
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (30 bp):
TATAATTTTCATGTAAAATAAAATATGACA
Found at i:17025735 original size:23 final size:24
Alignment explanation
Indices: 17025705--17025756 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
17025695 AGAAAAAAGA
* *
17025705 TTAAAATATATTTTTATATT-ATT
1 TTAAAATATATTTTAAAATTAATT
17025728 TTAAAATATATTTTAAAATTAATT
1 TTAAAATATATTTTAAAATTAATT
17025752 TTAAA
1 TTAAA
17025757 TAAGGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTAAAATATATTTTAAAATTAATT
Found at i:17025741 original size:12 final size:11
Alignment explanation
Indices: 17025705--17025756 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
17025695 AGAAAAAAGA
17025705 TTAAAATATATT
1 TTAAAAT-TATT
* *
17025717 TTTATATTATT
1 TTAAAATTATT
17025728 TTAAAATATATT
1 TTAAAAT-TATT
17025740 TTAAAATTAATT
1 TTAAAATT-ATT
17025752 TTAAA
1 TTAAA
17025757 TAAGGATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 10 0.29
12 24 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAAAATTATT
Found at i:17029248 original size:30 final size:30
Alignment explanation
Indices: 17029209--17029302 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
17029199 CATTTTTGTA
* * *
17029209 AAGCCTTTAATTTTTAATTTGAATCCAAAT
1 AAGCTTTTAATTTTTAATTTGTATCTAAAT
* *
17029239 AAGCTTTTAACTTTTAATTTGTATATAAAT
1 AAGCTTTTAATTTTTAATTTGTATCTAAAT
* *
17029269 AAACCTTTTAATTTTTTTATTTGTATCTAAAT
1 -AAGCTTTTAA-TTTTTAATTTGTATCTAAAT
17029301 AA
1 AA
17029303 ACTCTTACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
30 25 0.47
31 11 0.21
32 17 0.32
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (30 bp):
AAGCTTTTAATTTTTAATTTGTATCTAAAT
Found at i:17033559 original size:3 final size:3
Alignment explanation
Indices: 17033551--17033601 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
17033541 TAAAACATCA
17033551 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17033599 AAT
1 AAT
17033602 GATGATGATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17035089 original size:21 final size:21
Alignment explanation
Indices: 17035060--17035099 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17035050 AACTTTTTTT
*
17035060 AAAACTAAAAAAATAATAATA
1 AAAAATAAAAAAATAATAATA
*
17035081 AAAAATAAAAGAATAATAA
1 AAAAATAAAAAAATAATAA
17035100 AGACATAAGA
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:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAAAATAATAATA
Found at i:17038596 original size:22 final size:22
Alignment explanation
Indices: 17038564--17038650 Score: 59
Period size: 22 Copynumber: 3.9 Consensus size: 22
17038554 TATGATTTTT
*
17038564 AATATTAAAAATAAAAAAATTTAA
1 AATA-TAAAAA-ACAAAAATTTAA
* * *
17038588 AATAT-AAAAATAAGAATTTTA
1 AATATAAAAAACAAAAATTTAA
* * * *
17038609 GATATAAAAAACATAATTTTGA
1 AATATAAAAAACAAAAATTTAA
*
17038631 AATATAAAAAAATAAAAATT
1 AATAT-AAAAAACAAAAATT
17038651 GGGCGGAGGG
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
21 13 0.27
22 19 0.40
23 12 0.25
24 4 0.08
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (22 bp):
AATATAAAAAACAAAAATTTAA
Found at i:17038645 original size:21 final size:20
Alignment explanation
Indices: 17038576--17038645 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
17038566 TATTAAAAAT
*
17038576 AAAAA-AATTTAAAATATAA
1 AAAAATAATTTTAAATATAA
* *
17038595 AAATAAGAATTTTAGATATAA
1 AAA-AATAATTTTAAATATAA
17038616 AAAACATAATTTTGAAATATAA
1 AAAA-ATAATTTT-AAATATAA
17038638 AAAAATAA
1 AAAAATAA
17038646 AAATTGGGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 26 0.60
22 11 0.26
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATAATTTTAAATATAA
Found at i:17039029 original size:28 final size:29
Alignment explanation
Indices: 17038981--17039059 Score: 103
Period size: 27 Copynumber: 2.9 Consensus size: 29
17038971 TTTAAATGAA
**
17038981 TATAAATTTTTATATTA-ATTAATAAATT
1 TATAAATTTAAATATTATATTAATAAATT
17039009 TAT-AATTTAAATATTATATTAA-AAATT
1 TATAAATTTAAATATTATATTAATAAATT
*
17039036 TTTAAATTTAAATA-TATATTAATA
1 TATAAATTTAAATATTATATTAATA
17039060 TTTTATTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 26 0.58
28 19 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TATAAATTTAAATATTATATTAATAAATT
Found at i:17046522 original size:18 final size:19
Alignment explanation
Indices: 17046488--17046528 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
17046478 ATTTTTATTT
*
17046488 TATAAAAATTTACAAAATA
1 TATAAAAATTTAAAAAATA
17046507 TATAAAAA-TTAAAAAATA
1 TATAAAAATTTAAAAAATA
17046525 TATA
1 TATA
17046529 TAATTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATTTAAAAAATA
Found at i:17050747 original size:24 final size:24
Alignment explanation
Indices: 17050711--17050762 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
17050701 ACGCACCGCC
*
17050711 GGAGCCAATGAAAAAAGAACCAAT
1 GGAGCCAACGAAAAAAGAACCAAT
* * * *
17050735 GGAGCCAGCGAAACAAGAATCATT
1 GGAGCCAACGAAAAAAGAACCAAT
17050759 GGAG
1 GGAG
17050763 ACAGTTAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.27, T:0.10
Consensus pattern (24 bp):
GGAGCCAACGAAAAAAGAACCAAT
Found at i:17050772 original size:24 final size:24
Alignment explanation
Indices: 17050719--17050819 Score: 103
Period size: 24 Copynumber: 4.2 Consensus size: 24
17050709 CCGGAGCCAA
* * * *
17050719 TGAAAAAAGAACCAATGGAGCCAG
1 TGAAACAAGAATCATTGGAGACAG
*
17050743 CGAAACAAGAATCATTGGAGACAG
1 TGAAACAAGAATCATTGGAGACAG
* * *
17050767 TTAAACAAGACTCATTGGAGCCAG
1 TGAAACAAGAATCATTGGAGACAG
** *
17050791 TGAAACAAGAATCACCGGAGTCAG
1 TGAAACAAGAATCATTGGAGACAG
17050815 TGAAA
1 TGAAA
17050820 AAGGAGCTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (24 bp):
TGAAACAAGAATCATTGGAGACAG
Found at i:17058348 original size:10 final size:10
Alignment explanation
Indices: 17058333--17058384 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
17058323 ATTTTTTAAA
17058333 TTTAATTTAT
1 TTTAATTTAT
17058343 TTTAATTTA-
1 TTTAATTTAT
17058352 TTT-ATATTAT
1 TTTAAT-TTAT
*
17058362 TTTAATATGAT
1 TTTAAT-TTAT
*
17058373 TTTAATATAT
1 TTTAATTTAT
17058383 TT
1 TT
17058385 AAATAGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 2 0.06
9 6 0.17
10 16 0.44
11 12 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTAATTTAT
Found at i:17065003 original size:30 final size:30
Alignment explanation
Indices: 17064948--17065005 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17064938 CTGGATCGGA
* *
17064948 ACTGAATCGCCCAGACCAAATCGAACCGGT
1 ACTGAACCGCCCAGACCAAACCGAACCGGT
* *
17064978 ACTGAACCGCCCAGATCAAGCCGAACCG
1 ACTGAACCGCCCAGACCAAACCGAACCG
17065006 TCAGACGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.36, G:0.21, T:0.10
Consensus pattern (30 bp):
ACTGAACCGCCCAGACCAAACCGAACCGGT
Found at i:17065818 original size:194 final size:194
Alignment explanation
Indices: 17065486--17066014 Score: 920
Period size: 193 Copynumber: 2.7 Consensus size: 194
17065476 AATTATGGAT
* *
17065486 TTCTAAAAATATTTCGAGTAAAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTAAATG
1 TTCTAAAAGTATTTCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTAAATG
*
17065551 TTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAAGTTTTAATTTATTTTTCTCGA
66 TTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGA
*
17065616 GGATAAATTTTTTTTAACATGACATTTTCTTACGAAAAATAAATTCGAG-CTCCCAAAGATGAGA
131 GAATAAATTTTTTTTAACATGACATTTTCTTACGAAAAATAAATTCGAGCCT-CCAAAGATGAGA
*
17065680 TTCTAAAAGTATTTCGAGTAGAGATGCTTTAAGAAATCTTTAGGTGAGAAAGAGTTCTTTAAATG
1 TTCTAAAAGTATTTCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTAAATG
17065745 TTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGA
66 TTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGA
17065810 GAATAAA-TTTTTTTAACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGA
131 GAATAAATTTTTTTTAACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGA
* * *
17065873 TTCTAAAAGTATTCCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAGAGAGTTCTTTTAATG
1 TTCTAAAAGTATTTCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTAAATG
* * * *
17065938 TTACCAACGTACTGGAACATTTTAAGAATCATTTTAATAAAAAGGTTTTGATTTATTTTTCTCAA
66 TTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGA
17066003 GAAT-AATTTTTT
131 GAATAAATTTTTT
17066015 AAAAAAAAAA
Statistics
Matches: 320, Mismatches: 13, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
192 2 0.01
193 184 0.57
194 134 0.42
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (194 bp):
TTCTAAAAGTATTTCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTAAATG
TTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGA
GAATAAATTTTTTTTAACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGA
Found at i:17066948 original size:10 final size:10
Alignment explanation
Indices: 17066933--17066989 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
17066923 TGTGTATAAT
*
17066933 ACAAAACAAA
1 ACAAAAAAAA
*
17066943 AC-AAAACAA
1 ACAAAAAAAA
17066952 ACAAAAAAATA
1 ACAAAAAAA-A
*
17066963 A-AAAAAATA
1 ACAAAAAAAA
*
17066972 ATAAAAAAAA
1 ACAAAAAAAA
17066982 ACAAAAAA
1 ACAAAAAA
17066990 TGTTTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 9 0.24
10 27 0.71
11 2 0.05
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:17066969 original size:12 final size:12
Alignment explanation
Indices: 17066940--17066982 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
17066930 AATACAAAAC
* *
17066940 AAAACAAAACAA
1 AAAAAAAAATAA
*
17066952 ACAAAAAAATAA
1 AAAAAAAAATAA
*
17066964 AAAAAATAATAA
1 AAAAAAAAATAA
17066976 AAAAAAA
1 AAAAAAA
17066983 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:17066987 original size:9 final size:9
Alignment explanation
Indices: 17066933--17066989 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17066923 TGTGTATAAT
17066933 ACAAAACAAA
1 ACAAAA-AAA
*
17066943 ACAAAACAA
1 ACAAAAAAA
17066952 ACAAAAAAA
1 ACAAAAAAA
*
17066961 TAAAAAAAATA
1 -ACAAAAAA-A
*
17066972 ATAAAAAAAA
1 A-CAAAAAAA
17066982 ACAAAAAA
1 ACAAAAAA
17066990 TGTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 16 0.40
10 16 0.40
11 8 0.20
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:17069697 original size:37 final size:37
Alignment explanation
Indices: 17069638--17069708 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
17069628 TAGTCTGGAA
** *
17069638 ATGCAATTGCCTGATGACCAGAATTGAAGAGAAACGG
1 ATGCAATTGCCTGACCACCAGAATTGAAAAGAAACGG
* *
17069675 ATGCCATTGCCTGACCAGCAGAATTGAAAAGAAA
1 ATGCAATTGCCTGACCACCAGAATTGAAAAGAAA
17069709 TCTCAGTGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (37 bp):
ATGCAATTGCCTGACCACCAGAATTGAAAAGAAACGG
Found at i:17071447 original size:16 final size:16
Alignment explanation
Indices: 17071426--17071458 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17071416 ATTGAGTTTG
17071426 ATCCTTTGAACTTTAA
1 ATCCTTTGAACTTTAA
17071442 ATCCTTTGAACTTTAA
1 ATCCTTTGAACTTTAA
17071458 A
1 A
17071459 GTTCGCCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (16 bp):
ATCCTTTGAACTTTAA
Found at i:17073556 original size:68 final size:68
Alignment explanation
Indices: 17073434--17073563 Score: 197
Period size: 68 Copynumber: 1.9 Consensus size: 68
17073424 TACAAATGTT
* * * *
17073434 GTTTAAAATTATTTATTAAATTTAATAAATAAATATAAATGAACAGAAATTAAACATGTTTATTA
1 GTTTAAAATTATTTATTAAACTTAATAAATAAACATAAATGAACAAAAACTAAACATGTTTATTA
17073499 ACG
66 ACG
* * *
17073502 GTTTGAAATTATTTATTATACTTAATAAATGAACATAAATGAACAAAAACTAAACATGTTTA
1 GTTTAAAATTATTTATTAAACTTAATAAATAAACATAAATGAACAAAAACTAAACATGTTTA
17073564 CCGAAAGCTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (68 bp):
GTTTAAAATTATTTATTAAACTTAATAAATAAACATAAATGAACAAAAACTAAACATGTTTATTA
ACG
Found at i:17075440 original size:68 final size:68
Alignment explanation
Indices: 17075360--17075489 Score: 224
Period size: 68 Copynumber: 1.9 Consensus size: 68
17075350 TACAAATGTT
* *
17075360 GTTTAAAATTATTTATTAAACTTAATAAATAAACATAAATGAATAGAAATTAAACATGTTTACTA
1 GTTTAAAATTATTTATTAAACTTAATAAATAAACATAAATGAACAAAAATTAAACATGTTTACTA
17075425 ACG
66 ACG
* *
17075428 GTTTAAAATTATTTATTAAACTTAATAAATGAACATAAATGAGCAAAAATTAAACATGTTTA
1 GTTTAAAATTATTTATTAAACTTAATAAATAAACATAAATGAACAAAAATTAAACATGTTTA
17075490 TCGAAAGCTC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (68 bp):
GTTTAAAATTATTTATTAAACTTAATAAATAAACATAAATGAACAAAAATTAAACATGTTTACTA
ACG
Found at i:17084804 original size:60 final size:60
Alignment explanation
Indices: 17084619--17085195 Score: 710
Period size: 61 Copynumber: 9.7 Consensus size: 60
17084609 TTGTGTAGGA
* * *
17084619 AAAATTGATACTTTCAACTTTTCTCCAAAAAT-TATTTTTTT-AAAATTTATTTTTCAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGG
* **
17084677 AAAATTGATACTTTCAACTTTTCCCTAAAAAT-CCTTTTTTTG-AAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGG
*
17084735 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGG
* * * ***
17084795 AAAATTGATACTTTCAATTTTTTCCCAAAAATATTTTTTTTTGAAACTTTGATTCCCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTT-ATTTTTAAGG
* * *
17084856 AAAATTGATACTTTTAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTTTGAAAATTTATTTTTAAGG
* * * *
17084917 AAAATTGATACTTTCAACTTTTCCCTATAAATA-TTTTTTTTGGAAATTTCGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTT--ATTTTTAAGG
* * *
17084978 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-CTTTTTTTTGAAATTTTACTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGG
* * *
17085037 AAAACTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA---ATTTAT-TTTTAAGG
* **
17085099 AAAATTGATACTTTCAACTTTTCCTC--AAATA-TCCTTTTTG-AAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGG
* * *
17085155 AAAATTGATACTTTAAACTTTTTCCTAAAAATATTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
17085196 GGAATTTTTG
Statistics
Matches: 449, Mismatches: 53, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
56 30 0.07
57 5 0.01
58 98 0.22
59 67 0.15
60 69 0.15
61 132 0.29
62 48 0.11
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGG
Found at i:17085238 original size:5 final size:5
Alignment explanation
Indices: 17085230--17085302 Score: 87
Period size: 5 Copynumber: 14.4 Consensus size: 5
17085220 AAAATAGAAT
* *
17085230 AATAA AATAA AATAA AATAA AATAA AATAA AAAAGA AAGAA AAGT-A AA-AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA-A AATAA AA-TAA AATAA
17085280 AATAA AATAA AATAA AGATAA AA
1 AATAA AATAA AATAA A-ATAA AA
17085303 AAGAATATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
4 3 0.05
5 48 0.80
6 9 0.15
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:17085905 original size:26 final size:26
Alignment explanation
Indices: 17085858--17085911 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
17085848 AATCTGGAAA
*
17085858 TTTCCCAGAAATTTCCAGAAAATTTT
1 TTTCCCAAAAATTTCCAGAAAATTTT
*
17085884 TTTCGCCAAAAATTTCTA-AAAATTTT
1 TTTC-CCAAAAATTTCCAGAAAATTTT
17085910 TT
1 TT
17085912 CTCACTCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.43
Consensus pattern (26 bp):
TTTCCCAAAAATTTCCAGAAAATTTT
Found at i:17086389 original size:28 final size:27
Alignment explanation
Indices: 17086350--17086463 Score: 78
Period size: 28 Copynumber: 4.1 Consensus size: 27
17086340 TTACAAAAAA
17086350 ATAA-TAAT-AATATAATAATAAATAT
1 ATAACTAATAAATATAATAATAAATAT
*
17086375 ATAACTATATAAATAAAATACATATAA-AT
1 ATAACTA-ATAAATATAATA-ATA-AATAT
* * *
17086404 CTAATCTAATAAATA-AATAAATATATAC
1 ATAA-CTAATAAATATAAT-AATAAATAT
17086432 ATAA-TAAT-AATAATAAATAATAAAATAT
1 ATAACTAATAAAT-AT-AATAAT-AAATAT
17086460 ATAA
1 ATAA
17086464 AATACAAAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 21
0.71 0.07 0.21
Matches are distributed among these distances:
25 7 0.10
26 7 0.10
27 6 0.09
28 29 0.41
29 16 0.23
30 5 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (27 bp):
ATAACTAATAAATATAATAATAAATAT
Found at i:17086467 original size:45 final size:42
Alignment explanation
Indices: 17086344--17086467 Score: 98
Period size: 45 Copynumber: 2.9 Consensus size: 42
17086334 AATATATTAC
*
17086344 AAAAAAATAATAATAATATAATAATAAATATATAACTATATAAAT
1 AAAATAATAATAATAATATAATAATAAATATATAA--A-ATAAAT
* * *
17086389 AAAATACAT-AT-A-AATCTAATCTAATAAATAAAT-AAATATAT
1 AAAATA-ATAATAATAATATAA--TAATAAATATATAAAATAAAT
*
17086430 -ACATAATAATAATAATA-AATAATAAAATATATAAAATA
1 AAAATAATAATAATAATATAATAAT-AAATATATAAAATA
17086468 CAAAAGAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
39 6 0.09
40 13 0.20
41 13 0.20
42 4 0.06
43 6 0.09
44 2 0.03
45 18 0.28
46 2 0.03
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (42 bp):
AAAATAATAATAATAATATAATAATAAATATATAAAATAAAT
Found at i:17086682 original size:13 final size:12
Alignment explanation
Indices: 17086660--17086690 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
17086650 AACATTGTCA
17086660 TTTTTTGTTTTT
1 TTTTTTGTTTTT
17086672 TTTTGTTGTTTTT
1 TTTT-TTGTTTTT
17086685 TTTTTT
1 TTTTTT
17086691 TGCCAAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:17086771 original size:43 final size:41
Alignment explanation
Indices: 17086698--17086787 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 41
17086688 TTTTGCCAAA
* * *
17086698 GCTCCTCTAAACAGAGGCTCAATGATTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGA-AAA-ATAAATT
* *
17086741 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
17086782 GCTCCT
1 GCTCCT
17086788 TAACAATCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 12 0.29
42 3 0.07
43 27 0.64
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATT
Found at i:17091792 original size:14 final size:14
Alignment explanation
Indices: 17091756--17091796 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
17091746 AATCTGGAAA
17091756 TTTC-CCAAAAATT
1 TTTCGCCAAAAATT
17091769 TTTCAG--AAAAATT
1 TTTC-GCCAAAAATT
17091782 TTTCGCCAAAAATT
1 TTTCGCCAAAAATT
17091796 T
1 T
17091797 CTAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 15 0.62
14 8 0.33
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (14 bp):
TTTCGCCAAAAATT
Found at i:17091803 original size:25 final size:26
Alignment explanation
Indices: 17091756--17091810 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
17091746 AATCTGGAAA
*
17091756 TTTCCCAAAAATTTTTCAGAAAAATT
1 TTTCCCAAAAATTTCTCAGAAAAATT
*
17091782 TTTCGCCAAAAATTTCT-A-AAAATTT
1 TTTC-CCAAAAATTTCTCAGAAAAATT
17091807 TTTC
1 TTTC
17091811 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 10 0.38
26 5 0.19
27 11 0.42
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (26 bp):
TTTCCCAAAAATTTCTCAGAAAAATT
Found at i:17092261 original size:15 final size:14
Alignment explanation
Indices: 17092223--17092265 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
17092213 AAAAAAAGAA
17092223 AATAAT-TATAATAT
1 AATAATATA-AATAT
17092237 AATAATATAAATAT
1 AATAATATAAATAT
17092251 AATACATATAAATAT
1 AATA-ATATAAATAT
17092266 TAACAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAATATAAATAT
Found at i:17092316 original size:65 final size:62
Alignment explanation
Indices: 17092198--17092321 Score: 144
Period size: 64 Copynumber: 1.9 Consensus size: 62
17092188 AACCAAAAAA
* *
17092198 AAATATTACAAGAAAAAAAAAAGAAAATAATTATAATATAATAATATAAATATAATACATAT
1 AAATATTACAAGAAAAAAAAAAGAAAATAAATAAAATATAATAATATAAATATAATACATAT
*
17092260 AAATATTAACAGAGAAAAAAATAAA-TAAATAAATAAAGATATACAT-ATATTAATATATAATA
1 AAATATT-ACA-AGAAAAAAA-AAAGAAAATAAATAAA-ATATA-ATAATA-TAA-ATATAATA
17092322 ATAATAATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
62 7 0.13
63 3 0.06
64 18 0.35
65 11 0.21
66 5 0.10
67 8 0.15
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.27
Consensus pattern (62 bp):
AAATATTACAAGAAAAAAAAAAGAAAATAAATAAAATATAATAATATAAATATAATACATAT
Found at i:17093639 original size:128 final size:129
Alignment explanation
Indices: 17093430--17093662 Score: 292
Period size: 128 Copynumber: 1.8 Consensus size: 129
17093420 TTTTGTAAAA
* *
17093430 GATTATTCAAGGCATTTTTTGGCAAAAAATACCTTGAATAATTTCAAAAAAAAAAATGGAAGGGA
1 GATTATTCAAGGCATTTTTTGACAAAAAATACCTTGAATAATTCCAAAAAAAAAAATGGAAGGGA
* *
17093495 TTATTAAAAGCATTTTGGGC-CAAAAATGCCTTGAATAATCCCTTCTAATTTTTTAATTGGAGGG
66 TTATTAAAAGCATTTT-GGCAAAAAAATGCATTGAATAATCCCTTCTAATTTTTTAATTGGAGGG
* * * * * * * *
17093559 GATTCTTCAAGGCATTTTTT-ACCATAAATGCCTTGAGTAA-TCCCAAAAAAAAATTGGAGGGGA
1 GATTATTCAAGGCATTTTTTGACAAAAAATACCTTGAATAATTCCAAAAAAAAAAATGGAAGGGA
* **
17093622 TTATTGAAAGTGTTTTTGGCAAAAAAATGCATTGAATAATC
66 TTATTAAAAG-CATTTTGGCAAAAAAATGCATTGAATAATC
17093663 ACAATTTCCC
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
127 31 0.36
128 37 0.43
129 19 0.22
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (129 bp):
GATTATTCAAGGCATTTTTTGACAAAAAATACCTTGAATAATTCCAAAAAAAAAAATGGAAGGGA
TTATTAAAAGCATTTTGGCAAAAAAATGCATTGAATAATCCCTTCTAATTTTTTAATTGGAGGG
Found at i:17094452 original size:3 final size:3
Alignment explanation
Indices: 17094444--17094609 Score: 62
Period size: 3 Copynumber: 59.3 Consensus size: 3
17094434 ACTACAATAC
* *
17094444 TAT TAT TA- TAA TAT TA- TAG TAT TA- TAT TA- TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
17094487 TAG TAT GT-T GA- TGT TA- TAT TACT T-T TAT TA- TAT TAG TAT TA-
1 TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * **
17094528 TAT TA- TAT TA- TAT TA- TAA TAGGT TAT CA- TAT TAT GGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT TAT TAT TAT TAT
17094571 TAT TAT TAT TAT TA- TAT TCGA- TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT T
17094610 TTTTTATCAG
Statistics
Matches: 123, Mismatches: 16, Indels: 48
0.66 0.09 0.26
Matches are distributed among these distances:
2 30 0.24
3 86 0.70
4 4 0.03
5 3 0.02
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:17094473 original size:5 final size:5
Alignment explanation
Indices: 17094463--17094608 Score: 75
Period size: 5 Copynumber: 27.2 Consensus size: 5
17094453 AATATTATAG
* * *
17094463 TATTA TATTA TA-T- TATTA TTATTA TAGTA TGTTGA TGTTA TATTA CT-TT-
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATT-A TATTA TATTA -TATTA
* *
17094512 TATTA TATTA GTATTA TATTA TATTA TATTA TAATA GGTTATCA TATTA
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA ---TATTA TATTA
* *
17094561 TGGTTA TTATTA TTATTA TTATTA TATTCGA TATTA TTATTA TTTTA T
1 T-ATTA -TATTA -TATTA -TATTA TATT--A TATTA -TATTA TATTA T
17094609 TTTTTTATCA
Statistics
Matches: 114, Mismatches: 11, Indels: 32
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.03
4 4 0.04
5 59 0.52
6 39 0.34
7 6 0.05
8 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:17094533 original size:16 final size:16
Alignment explanation
Indices: 17094447--17094544 Score: 75
Period size: 16 Copynumber: 6.4 Consensus size: 16
17094437 ACAATACTAT
*
17094447 TATTATAATAT-TATAG
1 TATTATATTATAT-TAG
*
17094463 TATTATATTATATTAT
1 TATTATATTATATTAG
*
17094479 TA-T-TATTATAGTATG
1 TATTATATTATATTA-G
* * *
17094494 T-TGATGTTATATTAC
1 TATTATATTATATTAG
17094509 T-TT-TATTATATTAG
1 TATTATATTATATTAG
17094523 TATTATATTATATTA-
1 TATTATATTATATTAG
17094538 TATTATA
1 TATTATA
17094545 ATAGGTTATC
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
14 19 0.29
15 13 0.20
16 32 0.49
17 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (16 bp):
TATTATATTATATTAG
Found at i:17095464 original size:20 final size:18
Alignment explanation
Indices: 17095420--17095471 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
17095410 TTTTCATTTT
*
17095420 ATTTTATTTATTTTCTTA
1 ATTTTATTTATTTTCGTA
17095438 AGTTTTTATTTTATTTTCAGTA
1 A--TTTTA-TTTATTTTC-GTA
17095460 ATTTT-TTTATTT
1 ATTTTATTTATTT
17095472 AATTTTACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 8 0.28
20 9 0.31
21 9 0.31
22 3 0.10
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (18 bp):
ATTTTATTTATTTTCGTA
Found at i:17095464 original size:21 final size:20
Alignment explanation
Indices: 17095421--17095477 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 20
17095411 TTTCATTTTA
*
17095421 TTTTATTTATTTTCTTAAGT
1 TTTTATTTATTTTCGTAAGT
*
17095441 TTTTATTTTATTTTCAGTAATTT
1 TTTTA-TTTATTTTC-GTAA-GT
17095464 TTTTATTTAATTTT
1 TTTTATTT-ATTTT
17095478 ACTAGTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 9 0.29
22 6 0.19
23 11 0.35
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTTATTTATTTTCGTAAGT
Found at i:17095486 original size:22 final size:23
Alignment explanation
Indices: 17095440--17095486 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
17095430 TTTTCTTAAG
* *
17095440 TTTTTATTTTATTTTCAGTAATT
1 TTTTTATTTAATTTTCACTAATT
*
17095463 TTTTTATTTAATTTT-ACTAGTT
1 TTTTTATTTAATTTTCACTAATT
17095485 TT
1 TT
17095487 CAAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTATTTAATTTTCACTAATT
Found at i:17095602 original size:39 final size:38
Alignment explanation
Indices: 17095519--17095615 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 38
17095509 TTTTGGAAAA
* *
17095519 TTAAAGAAGCAAAGAATAAAAAAATCTTTTCGAAAAGG
1 TTAAAAAAGCAAAGAATAAAAAAATCTTTTCAAAAAGG
** * *
17095557 AAAAAAAAGCTAAATAA-AAAAAAATCTTTTCAAATAAGT
1 TTAAAAAAGC-AAAGAATAAAAAAATCTTTTCAAA-AAGG
17095596 TTAAAAAA-CAAAGAAATAAA
1 TTAAAAAAGCAAAG-AATAAA
17095616 TCTAAAAATG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
37 3 0.07
38 26 0.57
39 17 0.37
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (38 bp):
TTAAAAAAGCAAAGAATAAAAAAATCTTTTCAAAAAGG
Found at i:17096457 original size:43 final size:39
Alignment explanation
Indices: 17096379--17096458 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
17096369 TTATCTTTCC
*
17096379 TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTATT
1 TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTAAT
* *
17096418 TATTTATTTCTTTTCATTGCTTATGCTTGCTTAGTTAAT
1 TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTAAT
17096457 TA
1 TA
17096459 ATTACTTATT
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:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (39 bp):
TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTAAT
Found at i:17103063 original size:2 final size:2
Alignment explanation
Indices: 17103058--17103092 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17103048 TGTGTGTGTG
17103058 TA TA 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 TA TA T
17103093 TTGAGCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17109388 original size:13 final size:13
Alignment explanation
Indices: 17109366--17109401 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
17109356 TAACTTTCCA
*
17109366 AAGCCATCAAACC
1 AAGCCTTCAAACC
17109379 AAGCCTTCAAACC
1 AAGCCTTCAAACC
17109392 AAGCCTTCAA
1 AAGCCTTCAA
17109402 TGATTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.36, G:0.08, T:0.14
Consensus pattern (13 bp):
AAGCCTTCAAACC
Found at i:17111868 original size:3 final size:3
Alignment explanation
Indices: 17111855--17111888 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
17111845 TGGGTTTATC
17111855 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17111889 TTTAATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:17112371 original size:31 final size:31
Alignment explanation
Indices: 17112300--17112372 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
17112290 AATTTCCAGA
* * *
17112300 TTCCGGCGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGACGACTTTTGAAGT
17112331 TTCCGGCGACAATTCCGACGAAC-TTTGAAGT
1 TTCCGGCGACAATTCCGACG-ACTTTTGAAGT
17112362 TTCCGGCGACA
1 TTCCGGCGACA
17112373 GACCCAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGACGACTTTTGAAGT
Found at i:17112458 original size:19 final size:19
Alignment explanation
Indices: 17112434--17112478 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
17112424 TTCGGCCAAT
17112434 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
17112453 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
17112472 ATCCGGC
1 TTCCGGC
17112479 ACCGACGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:17112801 original size:10 final size:10
Alignment explanation
Indices: 17112769--17112795 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
17112759 GTTTTTTTTT
17112769 TTTTTTTGAA
1 TTTTTTTGAA
17112779 TTTTTTTGAA
1 TTTTTTTGAA
17112789 TTTTTTT
1 TTTTTTT
17112796 TTATTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:17113273 original size:154 final size:156
Alignment explanation
Indices: 17112836--17113434 Score: 981
Period size: 154 Copynumber: 3.8 Consensus size: 156
17112826 TTTTTCTTTA
* * *
17112836 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTACATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
* *
17112901 AAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
* * *
17112966 AATTAATTACTTGGCTGATTTTGATTTTTTT
130 AATTAATTAATTGGTTGATCTTGA----TTT
17112997 TTCTTTAATTAATCCGATTCGACGGAGCCTC-GCAAGTGAAACAGTAGTTTTTTCTTGCATACTC
1 TTCTTTAATTAATCCGA--CGACGGAGCCTCTGCAAGTGAAACAGTAG-TTTTTCTTGCATACTC
17113061 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCT-AAAGTATTAGAGTCAATTGAGAAATAATTTTC
63 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAG-AATAATTTTC
17113125 GATAATTAATTAATTGGTTGATCTTGATTT
127 GATAATTAATTAATTGGTTGATCTTGATTT
17113155 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTC-TGCATACT-CTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
17113218 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTAGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
17113283 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
* * *
17113309 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGTATACTCTTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
17113374 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
17113435 AACAACTAAC
Statistics
Matches: 417, Mismatches: 13, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
154 122 0.29
155 36 0.09
156 80 0.19
157 16 0.04
158 20 0.05
161 47 0.11
162 84 0.20
163 12 0.03
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:17117145 original size:17 final size:16
Alignment explanation
Indices: 17117125--17117165 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17117115 AAAAAAAGAA
17117125 AGAAAGAAGAAAAAATG
1 AGAAA-AAGAAAAAATG
*
17117142 AGAAAATGAAAAAATG
1 AGAAAAAGAAAAAATG
17117158 A-AAAAAGA
1 AGAAAAAGA
17117166 GATCCGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 11 0.50
17 5 0.23
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (16 bp):
AGAAAAAGAAAAAATG
Found at i:17117145 original size:21 final size:20
Alignment explanation
Indices: 17117092--17117146 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
17117082 TGAAGAATGA
17117092 AAAAAAAGATGATGAAA-AAA-
1 AAAAAAA-ATGA-GAAAGAAAG
*
17117112 AAAAAAAA-AAGAAAGAAAG
1 AAAAAAAATGAGAAAGAAAG
17117131 AAGAAAAAATGAGAAA
1 AA-AAAAAATGAGAAA
17117147 ATGAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 3 0.10
20 13 0.45
21 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAAAAAATGAGAAAGAAAG
Found at i:17118428 original size:42 final size:42
Alignment explanation
Indices: 17118355--17119554 Score: 1536
Period size: 42 Copynumber: 29.0 Consensus size: 42
17118345 GTCTAGGAGT
*
17118355 ATTTAC-TTTTCAAAGTTCGT--TACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
17118395 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17118437 ATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGTA
1 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
17118477 ATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17118517 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17118559 ATTTACTTTTTCAAAGTCGCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17118601 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
17118643 ATTTA-TTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17118684 ATTTA-TTTTTCCAAAGTCGTGGTACCTCTGTTGAAAGGAGCA
1 ATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17118726 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17118768 ATTTA-TTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17118810 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17118852 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17118893 ATTTATTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17118935 ATTTACTTTTTCAAAGTCGCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17118977 ATTTACTTTTCCAAAGTCGTGGTACCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGT-GCCTCTGTTTAGAGGAGCA
17119020 ATTTA--TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCCA
1 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAG-CA
* * *
17119060 ATTTATTTTTTCAAAGTCGT-GTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17119101 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17119143 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17119184 ATTTATTTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
17119227 ATTTA-TTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
* *
17119268 ATTTATTTTTTTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17119310 ATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTACAGGAGCA
1 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
17119350 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17119391 ATTTA-TTTTTCCAAAGTCCTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17119433 ATTTA-TTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17119475 ATTTAC-TTTCCAAAGTCCGT--TGCCTCTGTTTAGAGGAGC-
1 ATTTACTTTTTCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17119514 ATTTAC--TTTCAAAAGTCGTTGAGTCTCTGTTTTAGAGGAGC
1 ATTTACTTTTTC-AAAGTCGTGGTGCCTCTG-TTTAGAGGAGC
17119555 TTCGGCCAAA
Statistics
Matches: 1051, Mismatches: 68, Indels: 81
0.88 0.06 0.07
Matches are distributed among these distances:
38 6 0.01
39 30 0.03
40 151 0.14
41 256 0.24
42 535 0.51
43 73 0.07
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (42 bp):
ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:17118725 original size:167 final size:165
Alignment explanation
Indices: 17118355--17119532 Score: 1611
Period size: 167 Copynumber: 7.1 Consensus size: 165
17118345 GTCTAGGAGT
*
17118355 ATTTACTTTT-CAAAGTTCGT--TACCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGG
1 ATTTA-TTTTCCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGTGG
* * *
17118417 TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGTAAT
64 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAAT
17118479 TTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
128 TTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
17118517 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGCGTT
1 ATTTA-TTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGTGGT
* *
17118582 GCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTT
65 GCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
*
17118647 ATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCA
130 ACTTTTCAAAG-TTCGTTGCCTCTGTTTAGAGGAGCA
*
17118684 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAAAGGAGCAATTTACTTTTTCAAAGTCGTGGT
1 ATTTA-TTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGTGGT
* * *
17118749 ACCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTT
65 GCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
* *
17118814 ACTTTTTCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCA
130 AC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* * * * *
17118852 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTA
1 ATTTATTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTG
* * * *
17118917 CCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGCGTTGCCTCTGTTTAGAGGAGCAATTTA
66 CCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA
* *
17118982 CTTTTCCAAAG-TCGTGGTACCCTCTGTTGAGAGGAGCA
131 CTTTT-CAAAGTTCGT--T-GCCTCTGTTTAGAGGAGCA
* * *
17119020 ATTTATTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCCAATTTATTTTTTCAAAGTCGT-G
1 ATTTATTTTCCAAAG-TCGTGGTACCTCTGTTGAGAGGAG-CAATTTACTTTTTCAAAGTCGTGG
* *
17119081 TACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATT
64 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
*
17119146 TACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
129 TACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
17119184 ATTTATTTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTA-TTTTTCAAAGTTCCGT
1 ATTTA--TTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAG-T-CGT
* * ** *
17119248 --TGCCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
62 GGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA
*
17119311 TTTACTTTTCAAAGTTCGTTGCCTCTGTTTACAGGAGCA
127 TTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
17119350 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA-TTTTTCCAAAGTCCTGG
1 ATTTA-TTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTT-CAAAGTCGTGG
*
17119413 TGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
64 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
* *
17119478 TACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGC-
129 TACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
17119514 ATTTACTTTCAAAAGTCGT
1 ATTTATTTTCCAAAGTCGT
17119533 TGAGTCTCTG
Statistics
Matches: 929, Mismatches: 61, Indels: 50
0.89 0.06 0.05
Matches are distributed among these distances:
162 14 0.02
163 10 0.01
164 149 0.16
165 120 0.13
166 166 0.18
167 385 0.41
168 85 0.09
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (165 bp):
ATTTATTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTG
CCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA
CTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:17119579 original size:8 final size:8
Alignment explanation
Indices: 17119561--17119652 Score: 77
Period size: 8 Copynumber: 11.8 Consensus size: 8
17119551 GAGCTTCGGC
17119561 CAAAAAAA
1 CAAAAAAA
17119569 -AAAACAAA
1 CAAAA-AAA
17119577 -AAAAAAA
1 CAAAAAAA
17119584 -AACAAAAA
1 CAA-AAAAA
17119592 CAAAAAAA
1 CAAAAAAA
17119600 CAAAAAAA
1 CAAAAAAA
*
17119608 TCAAAAAAT
1 -CAAAAAAA
17119617 CAAAAAAA
1 CAAAAAAA
* *
17119625 TAAAACAA
1 CAAAAAAA
*
17119633 -AAATAAA
1 CAAAAAAA
*
17119640 -AAAAAAT
1 CAAAAAAA
17119647 CAAAAA
1 CAAAAA
17119653 TAAAAATGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
7 19 0.27
8 43 0.61
9 9 0.13
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (8 bp):
CAAAAAAA
Found at i:17119584 original size:17 final size:17
Alignment explanation
Indices: 17119562--17119658 Score: 95
Period size: 18 Copynumber: 5.3 Consensus size: 17
17119552 AGCTTCGGCC
17119562 AAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAC-AAAAA
17119580 AAAAAACAAAAACAAAAA
1 AAAAAA-AAAAACAAAAA
* *
17119598 AACAAAAAAATCAAAAAA
1 AAAAAAAAAAAC-AAAAA
17119616 TCAAAAAAATAAAACAAAAA
1 --AAAAAAA-AAAACAAAAA
* *
17119636 TAAAAAAAAATCAAAAA
1 AAAAAAAAAAACAAAAA
17119653 TAAAAA
1 -AAAAA
17119659 TGTTGAGTTG
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
17 14 0.21
18 31 0.47
19 6 0.09
20 11 0.17
21 4 0.06
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAACAAAAA
Found at i:17119658 original size:1 final size:1
Alignment explanation
Indices: 17119562--17119645 Score: 69
Period size: 1 Copynumber: 84.0 Consensus size: 1
17119552 AGCTTCGGCC
* * * * ** ** *
17119562 AAAAAAAAAAACAAAAAAAAAAAACAAAAACAAAAAAACAAAAAAATCAAAAAATCAAAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
17119627 AAACAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAA
17119646 TCAAAAATAA
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:17119985 original size:3 final size:3
Alignment explanation
Indices: 17119972--17120002 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17119962 TGGGTTTATC
17119972 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17120003 TTTAATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:17120453 original size:32 final size:32
Alignment explanation
Indices: 17120417--17120481 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
17120407 TTCCCAGATT
* *
17120417 CCGGCGAAAATTCCGGCG-ACTTTTGAATTTTC
1 CCGGCGAAAATTCCGACGAAC-TTTGAAGTTTC
*
17120449 CCGGCGACAATTCCGACGAACTTTGAAGTTTC
1 CCGGCGAAAATTCCGACGAACTTTGAAGTTTC
17120481 C
1 C
17120482 GACGACAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (32 bp):
CCGGCGAAAATTCCGACGAACTTTGAAGTTTC
Found at i:17120574 original size:19 final size:19
Alignment explanation
Indices: 17120550--17120594 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
17120540 TTCGGCCAAT
17120550 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
17120569 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
17120588 ATCCGGC
1 TTCCGGC
17120595 ACCGACGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:17120828 original size:5 final size:5
Alignment explanation
Indices: 17120813--17120855 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
17120803 TTCAGCCCCT
* *
17120813 CCGAG CTGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
17120856 CGATCCGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.03
5 30 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.42, G:0.35, T:0.02
Consensus pattern (5 bp):
CCGAG
Found at i:17120924 original size:24 final size:22
Alignment explanation
Indices: 17120875--17120924 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
17120865 CCGCTCCAGG
**
17120875 TTTTTTTTTTTTTTGAATTTTT
1 TTTTTTTTTTTTTTGAATTTGA
*
17120897 TTTTTATTTTTTATTTGACTTTGA
1 TTTTT-TTTTTT-TTTGAATTTGA
17120921 TTTT
1 TTTT
17120925 GATCTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
23 6 0.26
24 12 0.52
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTTTTTTGAATTTGA
Found at i:17121369 original size:156 final size:156
Alignment explanation
Indices: 17120946--17121543 Score: 1013
Period size: 156 Copynumber: 3.8 Consensus size: 156
17120936 TTTTTCTTTA
* * *
17120946 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTACATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
*
17121011 AAGGTGAGGGAATTTTCCTC-ATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA-TTTCTG
65 GAGGTGAGGGAATTTT-CTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC-G
* * *
17121074 ATAATTAATTACTTGGCTGATTTTGATTTTTTT
128 ATAATTAATTAATTGGTTGATCTTGA----TTT
17121107 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAG-TTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
17121171 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
17121236 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
17121262 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
17121327 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTAGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
17121392 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
* * *
17121418 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGTATACTCTTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
17121483 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
17121544 AACAACTAAC
Statistics
Matches: 422, Mismatches: 12, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
155 49 0.12
156 230 0.55
158 3 0.01
159 92 0.22
160 13 0.03
161 35 0.08
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:17125130 original size:34 final size:34
Alignment explanation
Indices: 17125087--17125205 Score: 202
Period size: 34 Copynumber: 3.5 Consensus size: 34
17125077 GCAACAAATG
*
17125087 ATACTTAAATATAAATATATCGTAGACTATTGTC
1 ATACTTAAATACAAATATATCGTAGACTATTGTC
* *
17125121 ATACTTAAATACAAAAATATCGTAGACTATTATC
1 ATACTTAAATACAAATATATCGTAGACTATTGTC
*
17125155 ATACTTAAATATAAATATATCGTAGACTATTGTC
1 ATACTTAAATACAAATATATCGTAGACTATTGTC
17125189 ATACTTAAATACAAATA
1 ATACTTAAATACAAATA
17125206 CACAATCAGC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (34 bp):
ATACTTAAATACAAATATATCGTAGACTATTGTC
Found at i:17125366 original size:2 final size:2
Alignment explanation
Indices: 17125361--17125387 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17125351 TTCAAAGTTT
17125361 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
17125388 CTGAACTATC
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:17125730 original size:12 final size:12
Alignment explanation
Indices: 17125721--17125751 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17125711 ATATAAATTT
17125721 AAAATAAAATAA
1 AAAATAAAATAA
17125733 AAAATAAAATAA
1 AAAATAAAATAA
*
17125745 CAAATAA
1 AAAATAA
17125752 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:17129379 original size:58 final size:58
Alignment explanation
Indices: 17129307--17129417 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
17129297 TACAAATGTT
*
17129307 GTTTAAAATTATTTATTAAACTTAATAAATGAACAGAAATTAAACATATTTACTAACG
1 GTTTAAAATTATTTATTAAACTTAATAAATGAACAAAAATTAAACATATTTACTAACG
*
17129365 GTTTAAAATTATTTATTAAACTTAATAAATGAACAAAAATTAAACATGTTTAC
1 GTTTAAAATTATTTATTAAACTTAATAAATGAACAAAAATTAAACATATTTAC
17129418 CGAAAGCTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (58 bp):
GTTTAAAATTATTTATTAAACTTAATAAATGAACAAAAATTAAACATATTTACTAACG
Found at i:17129653 original size:37 final size:37
Alignment explanation
Indices: 17129594--17129664 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
17129584 TAGTCTGGAA
** * *
17129594 ATGCAATTGCCTGATGATCAGAATTGAAGAGAAACGG
1 ATGCAATTGCCTGACCAGCAGAATTGAAAAGAAACGG
*
17129631 ATGCCATTGCCTGACCAGCAGAATTGAAAAGAAA
1 ATGCAATTGCCTGACCAGCAGAATTGAAAAGAAA
17129665 TCTCAGCGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (37 bp):
ATGCAATTGCCTGACCAGCAGAATTGAAAAGAAACGG
Found at i:17137315 original size:18 final size:18
Alignment explanation
Indices: 17137292--17137347 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
17137282 TAAAATTTTC
17137292 ATTTTTAGTATGACTTTA
1 ATTTTTAGTATGACTTTA
* * *
17137310 ATTTTTA--A-AATTTTT
1 ATTTTTAGTATGACTTTA
*
17137325 ATTTCTAGTATGACTTTA
1 ATTTTTAGTATGACTTTA
17137343 ATTTT
1 ATTTT
17137348 ATATTTAGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
15 10 0.37
16 1 0.04
17 1 0.04
18 15 0.56
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (18 bp):
ATTTTTAGTATGACTTTA
Found at i:17137321 original size:33 final size:33
Alignment explanation
Indices: 17137279--17137347 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
17137269 TGAGTACCAC
*
17137279 TTTTAAAATTTTCATTTTTAGTATGACTTTAAT
1 TTTTAAAATTTTCATTTCTAGTATGACTTTAAT
*
17137312 TTTTAAAATTTTTATTTCTAGTATGACTTTAAT
1 TTTTAAAATTTTCATTTCTAGTATGACTTTAAT
17137345 TTT
1 TTT
17137348 ATATTTAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (33 bp):
TTTTAAAATTTTCATTTCTAGTATGACTTTAAT
Found at i:17137372 original size:25 final size:25
Alignment explanation
Indices: 17137318--17137376 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 25
17137308 TAATTTTTAA
17137318 AATTTTTAT-TTCTAGTATGACTTT
1 AATTTTTATATTCTAGTATGACTTT
17137342 AA-TTTTATATT-TAGTATGA-TCTT
1 AATTTTTATATTCTAGTATGACT-TT
17137365 AATTTTTTATAT
1 AA-TTTTTATAT
17137377 ACTATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 1 0.03
23 18 0.58
24 4 0.13
25 8 0.26
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (25 bp):
AATTTTTATATTCTAGTATGACTTT
Found at i:17141166 original size:17 final size:17
Alignment explanation
Indices: 17141144--17141177 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17141134 ACGCTACAAA
17141144 GATATTATAAATATATC
1 GATATTATAAATATATC
17141161 GATATTATAAATATATC
1 GATATTATAAATATATC
17141178 AGCAGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
GATATTATAAATATATC
Found at i:17141607 original size:4 final size:4
Alignment explanation
Indices: 17141598--17141642 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
17141588 AAAAACTCCC
* * *
17141598 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTGA TTGA TTGA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
17141643 CTATTCTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:17146045 original size:61 final size:59
Alignment explanation
Indices: 17145965--17146131 Score: 176
Period size: 59 Copynumber: 2.8 Consensus size: 59
17145955 AATTTTTTAT
* * *
17145965 AAGGGATTATTCAATGCATTTTCTAGCAAAAAACTCCTTGAATAATCTCCAAAAAAA-AGA
1 AAGGGATTATTAAAGGCATTTT-TAGCTAAAAACTCCTTGAATAATC-CCAAAAAAATAGA
* * * * * *
17146025 AAGGATATTATTGAAGGCATTTTTAGTTAAAAA-TGCCTTCAATAATCCCAAAAAAATTGG
1 AAGG-GATTATTAAAGGCATTTTTAGCTAAAAACT-CCTTGAATAATCCCAAAAAAATAGA
* * *
17146085 AAGGGATTATTAAAGGCACTTTTGGCTAAAAACACCTTGAATAATCC
1 AAGGGATTATTAAAGGCATTTTTAGCTAAAAACTCCTTGAATAATCC
17146132 TCTCCGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
59 45 0.51
60 28 0.32
61 15 0.17
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (59 bp):
AAGGGATTATTAAAGGCATTTTTAGCTAAAAACTCCTTGAATAATCCCAAAAAAATAGA
Found at i:17146786 original size:13 final size:13
Alignment explanation
Indices: 17146752--17146787 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
17146742 GCCACCATTC
*
17146752 AAGCTCCACTGGT
1 AAGCTCCATTGGT
17146765 AAGCTCCATTGGT
1 AAGCTCCATTGGT
17146778 AAGCTCCATT
1 AAGCTCCATT
17146788 TTAATATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (13 bp):
AAGCTCCATTGGT
Found at i:17147206 original size:5 final size:5
Alignment explanation
Indices: 17147196--17147351 Score: 90
Period size: 5 Copynumber: 29.6 Consensus size: 5
17147186 ATTATAGTGC
* *
17147196 TATAT TATAT TATTAT TATAG TATTT TGATAT TATAT TACT-T T-TAT
1 TATAT TATAT TA-TAT TATAT TATAT T-ATAT TATAT TA-TAT TATAT
* *
17147242 TATAT TAGTAT TATAT TATAT TATAA TATA- T-TAT TATAT TATAA TAGGTTAT
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA---TAT
*
17147294 CATAT TATAGT TATTAT TATTAT TA-A- TATTAT TATAT TCGATAT TATTAT
1 TATAT TATA-T TA-TAT TA-TAT TATAT TA-TAT TATAT T--ATAT TA-TAT
*
17147344 TATTT TAT
1 TATAT TAT
17147352 TTTTTTATCA
Statistics
Matches: 122, Mismatches: 10, Indels: 38
0.72 0.06 0.22
Matches are distributed among these distances:
3 5 0.04
4 5 0.04
5 68 0.56
6 34 0.28
7 7 0.06
8 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:17147211 original size:3 final size:3
Alignment explanation
Indices: 17147198--17147352 Score: 72
Period size: 3 Copynumber: 54.3 Consensus size: 3
17147188 TATAGTGCTA
*
17147198 TAT TA- TAT TAT TAT TA- TAG TAT T-T TGA- TAT TA- TAT TACT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TA-T TAT
* *
17147239 TAT TA- TAT TAG TAT TA- TAT TA- TAT TAT AAT ATAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * *
17147281 TA- TAA TAGGT TAT CA- TAT TA- TAGT TAT TAT TAT TAT TAA TAT TAT
1 TAT TAT TA--T TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
17147326 TA- TAT TCGA- TAT TAT TAT TAT T-T TAT T
1 TAT TAT T--AT TAT TAT TAT TAT TAT TAT T
17147353 TTTTTATCAG
Statistics
Matches: 118, Mismatches: 10, Indels: 48
0.67 0.06 0.27
Matches are distributed among these distances:
2 29 0.25
3 79 0.67
4 7 0.06
5 3 0.03
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:17147278 original size:18 final size:18
Alignment explanation
Indices: 17147196--17147331 Score: 92
Period size: 18 Copynumber: 7.8 Consensus size: 18
17147186 ATTATAGTGC
*
17147196 TATATTA-TATTATTATTA
1 TATATTATTA-TATTATAA
*
17147214 TAGTATT-TTGATATTATAT
1 TA-TATTATT-ATATTATAA
*
17147233 TACTTTTATTATATTAGT-A
1 TA-TATTATTATATTA-TAA
17147252 T-TA-TATTATATTATAA
1 TATATTATTATATTATAA
17147268 TATATTATTATATTATAA
1 TATATTATTATATTATAA
** * *
17147286 TAGGTTATCATATTATAG
1 TATATTATTATATTATAA
*
17147304 T-TATTA-T-TATTATTA
1 TATATTATTATATTATAA
17147319 -ATATTATTATATT
1 TATATTATTATATT
17147332 CGATATTATT
Statistics
Matches: 92, Mismatches: 15, Indels: 23
0.71 0.12 0.18
Matches are distributed among these distances:
15 12 0.13
16 13 0.14
17 10 0.11
18 30 0.33
19 23 0.25
20 4 0.04
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (18 bp):
TATATTATTATATTATAA
Done.