Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 49 of 130
Found at i:11247937 original size:14 final size:13
Alignment explanation
Indices: 11247849--11247938 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 13
11247839 ATTATAAGCT
11247849 TTAATAATAATT-
1 TTAATAATAATTA
*
11247861 TATAATCA-AATTA
1 T-TAATAATAATTA
11247874 TGT-ATAATTAA-TA
1 T-TAATAA-TAATTA
11247887 TTAA-AA-AATTAA
1 TTAATAATAATT-A
*
11247899 TTAATAATTATTA
1 TTAATAATAATTA
*
11247912 ATATATAATAATTA
1 TTA-ATAATAATTA
11247926 TTAATAAGTAATT
1 TTAATAA-TAATT
11247939 TAAATTATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
10 2 0.03
11 1 0.02
12 16 0.27
13 20 0.33
14 21 0.35
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (13 bp):
TTAATAATAATTA
Found at i:11248623 original size:180 final size:181
Alignment explanation
Indices: 11248137--11249354 Score: 823
Period size: 180 Copynumber: 6.8 Consensus size: 181
11248127 AATAAGATAT
* * * * * * * *
11248137 TATTTTAAATCGTTATCACCTTTTGTTTGGTCATATAACAATTGTTT-T-TTACCATAC-ATGAT
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGTT--CATACTAAGCT
* **
11248199 TATTCGAAATAAAATAATAATAATTTATTAATCTTTCAAAAA-T--TAATAAGAGATTCAAAAAA
64 TATTCGAAATAAAATAATAATAATTTATTAATATTTCAAAAATTAATAATAAGAGATTTTAAAAA
* * * * * ** * *
11248261 TGAATCTATTTATCGAACTGGTTCAAATAGTTATA-ACTATTTGAACAATTCTA
129 TAAATTTGTTTACCAAACTAATTCAAATAGTTA-AGACTATTTGAACAATTATC
* * * * *
11248314 TAATTCAAATCATTATAACTTTTTGTTATGTCATAAAATAATTATTTCTGTTCATAC-AAGCTTA
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGTTCATACTAAGCTTA
* * * * * * * * *
11248378 TTCAAAATAAAACAATACTAATCTAATAATATTCCAAATATTAATAACTAAGTGATTTAAAAAAT
66 TTCGAAATAAAATAATAATAATTTATTAATATTTCAAAAATTAATAA-TAAGAGATTTTAAAAAT
* * * *
11248443 AAATTTGTTTGCCAAACCAATTCAAATAGTTAAGACTGTATGAACAATTATC
130 AAATTTGTTTACCAAACTAATTCAAATAGTTAAGACTATTTGAACAATTATC
* * ** *
11248495 TATTTCAAAT-GTTATGACCTTTTGTCTTGTCATAAAACAATT-TTCTCAATTCATACT-AGGTT
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTATT-TCTGTTCATACTAAGCTT
*
11248557 ATTCGAAATAAAATAA-AATAAATTTATTAATATTTCAAAAAATAATAAGTAAGAGATTTTAAAA
65 ATTCGAAATAAAATAATAAT-AATTTATTAATATTTCAAAAATTAATAA-TAAGAGATTTTAAAA
* * * * * * * * ** * *
11248621 AT-ATTTCTATTTACCTAACCAGTTCAAA-ATTTTATACTATTCAAATAATTATA
128 ATAAATT-TGTTTACCAAACTAATTCAAATAGTTAAGACTATTTGAACAATTATC
* * * * * * * *
11248674 TATTTCAAATCATTATTACTTTTTATTTTGTCATACAACAAATGTTTTTGTTCATA-TAAGTTTA
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGTTCATACTAAGCTTA
* * * * * *
11248738 TTCGGAATAAAGTAATACTAATCTATTAATATTTCAAAAA-T--TAATAAGTGA-TTTAGACAAT
66 TTCGAAATAAAATAATAATAATTTATTAATATTTCAAAAATTAATAATAAGAGATTTTA-AAAAT
* * * * * * *
11248799 AAATCTATGTATCAAACTAATTCAAATAGTTATGACTATTTGAGCAATTATT
130 AAATTTGTTTACCAAACTAATTCAAATAGTTAAGACTATTTGAACAATTATC
* ** * *
11248851 TATTTCAAATCATTATGACTTTTTGTTTTGTTGTAAAACAATTATTTCTATTCATAC-AAGGTTA
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGTTCATACTAAGCTTA
* * * * ** * * * *
11248915 TTTGCATTAAAAATAATACTAATTTATTAATATTTTGACAATTAGTAAGTAAAAAATTTTAAAAA
66 TTCGAAAT-AAAATAATAATAATTTATTAATATTTCAAAAATTAATAA-TAAGAGATTTTAAAAA
* * * * * *
11248980 T--A--TGTTTACCACACTAGA-TCAAATAATCATGACAATTTGAATAATTATC
129 TAAATTTGTTTACCAAACTA-ATTCAAATAGTTAAGACTATTTGAACAATTATC
* ** * * * * *
11249029 TATTTTAAATTGTTATGGCCTTTTGATTTGAT-ATAAAAGAATTGTTTCAGTTCATA-TAAGCTT
1 TATTTCAAATCATTATGACCTTTTGTTTTG-TCATAAAACAATTATTTCTGTTCATACTAAGCTT
* * * * *
11249092 ATTCAAAATAAAATAATACTAATTTATTAATAATCCAAAAATTAATAATAAAGAGATTTAAAAAA
65 ATTCGAAATAAAATAATAATAATTTATTAATATTTCAAAAATTAATAAT-AAGAGATTTTAAAAA
* * * * * * * * *
11249157 TGACTTTGTTTACTAAACAAATTTAAATAATT-AGAATTGTTTGAATAATTATC
129 TAAATTTGTTTACCAAACTAATTCAAATAGTTAAG-ACTATTTGAACAATTATC
* * * * * *
11249210 TATTTGAAAT-AGCTATAACCTTTTGTTTTGTAATAAAAGAATTTTTTCTGTTCAT-CTAAGCTT
1 TATTTCAAATCA-TTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGTTCATACTAAGCTT
* * *
11249273 ATT-TAGAATAAAATATTACA-AATTTATTAATA-TT-AAGACAATTAATAAGTAAAAGA-TTTA
65 ATTCGA-AATAAAATAATA-ATAATTTATTAATATTTCAA-A-AATTAATAA-TAAGAGATTTTA
* *
11249333 AAAATAAATCTATTTACCAAAC
125 AAAATAAATTTGTTTACCAAAC
11249355 AAGTTCTAAT
Statistics
Matches: 809, Mismatches: 189, Indels: 83
0.75 0.17 0.08
Matches are distributed among these distances:
175 4 0.00
176 27 0.03
177 204 0.25
178 117 0.14
179 42 0.05
180 209 0.26
181 193 0.24
182 9 0.01
183 4 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTATTTCTGTTCATACTAAGCTTA
TTCGAAATAAAATAATAATAATTTATTAATATTTCAAAAATTAATAATAAGAGATTTTAAAAATA
AATTTGTTTACCAAACTAATTCAAATAGTTAAGACTATTTGAACAATTATC
Found at i:11249819 original size:19 final size:19
Alignment explanation
Indices: 11249797--11249876 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 19
11249787 TTATAATAAA
*
11249797 ATATAATATAATAATTATT
1 ATATAATATAATAAATATT
*
11249816 ATATTAT-TCAATAAATATT
1 ATATAATAT-AATAAATATT
*
11249835 ATATTAATAT--T-AATATA
1 ATA-TAATATAATAAATATT
*
11249852 AT-TAATATTA-AAATATT
1 ATATAATATAATAAATATT
*
11249869 AAATAATA
1 ATATAATA
11249877 GAACTGACTT
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
15 6 0.12
17 13 0.27
18 7 0.15
19 18 0.38
20 3 0.06
21 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATAATATAATAAATATT
Found at i:11249829 original size:34 final size:34
Alignment explanation
Indices: 11249780--11249876 Score: 85
Period size: 33 Copynumber: 2.9 Consensus size: 34
11249770 TAGCTAATTT
* *
11249780 TATATATTTATAATAAAATATAATATAATAATTAT
1 TATA-ATTAATAATAAAATATAATATAATAATTAA
* *
11249815 TAT-ATTATTCAAT-AAATATTATATTAAT-ATTAA
1 TATAATTAAT-AATAAAATATAATA-TAATAATTAA
*
11249848 TATAATTAATATTAAAATATTAA-ATAATA
1 TATAATTAATAATAAAATA-TAATATAATA
11249877 GAACTGACTT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
33 26 0.53
34 18 0.37
35 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (34 bp):
TATAATTAATAATAAAATATAATATAATAATTAA
Found at i:11249873 original size:15 final size:14
Alignment explanation
Indices: 11249835--11249870 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
11249825 AATAAATATT
*
11249835 ATATTAATATTAAT
1 ATATTAATATTAAA
11249849 ATAATTAATATTAAA
1 AT-ATTAATATTAAA
11249864 ATATTAA
1 ATATTAA
11249871 ATAATAGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATTAATATTAAA
Found at i:11249992 original size:16 final size:16
Alignment explanation
Indices: 11249971--11250004 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11249961 TCTATTATTA
11249971 TTATATTAATTTAAAT
1 TTATATTAATTTAAAT
*
11249987 TTATATTATTTTAAAT
1 TTATATTAATTTAAAT
11250003 TT
1 TT
11250005 TTTAATATTT
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:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATTAATTTAAAT
Found at i:11250060 original size:20 final size:21
Alignment explanation
Indices: 11250014--11250060 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
11250004 TTTTAATATT
* *
11250014 TTAATTAATTAATATATATTA
1 TTAATTAATTAAAATATATAA
11250035 TT-ATTAATTAAAATA-ATAA
1 TTAATTAATTAAAATATATAA
11250054 TTAATTA
1 TTAATTA
11250061 TAACATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 16 0.70
21 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTAATTAAAATATATAA
Found at i:11250070 original size:16 final size:16
Alignment explanation
Indices: 11250017--11250071 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
11250007 TAATATTTTA
*
11250017 ATTAATTAATATATATT
1 ATTAATTAAT-TATAAT
*
11250034 ATT-ATTAATTAAAAT
1 ATTAATTAATTATAAT
* *
11250049 AATAATTAATTATAAC
1 ATTAATTAATTATAAT
11250065 ATTAATT
1 ATTAATT
11250072 TTTTTAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 6 0.19
16 22 0.71
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTAATTATAAT
Found at i:11250552 original size:172 final size:172
Alignment explanation
Indices: 11250302--11250613 Score: 379
Period size: 172 Copynumber: 1.8 Consensus size: 172
11250292 GCAATTATTT
* * *
11250302 TTTTAAAATCTTTATGACATTTTGTTTTGTTATAAAACAATTGTTTCTATTCATACAAGCTTATT
1 TTTTAAAATCGTTATGACATTTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATT
* * * * *
11250367 TGGATTGAAATAATACTAAT-TTATTAATATTTTGACAATTAATAAGTTAA-AAATTTTAGAAAT
66 TGGAATAAAATAATAC-AATGTTATTAATATTCTGA-AATTAATAA-TTAAGAAATTTAAAAAAT
*
11250430 AAATATGTTTACCTAAATAATCATGACTATTTAAATAGTTATCTA
128 AAATATATTTACCTAAATAATCATGACTATTTAAATAGTTATCTA
*
11250475 TTTT-AAATCGTTATGATC-TTTTGTTTTGTCATAAAA-AACTTATTTC-AGTTCAT-CTAAGGT
1 TTTTAAAATCGTTATGA-CATTTTGTTTTGTCATAAAACAA-TTATTTCTA-TTCATAC-AAGCT
* *
11250535 TA-TTGGAAATAAAATAATACCATGTTATTAATATTCTGAAATTAATAATTAAGAGATTTAAAAA
62 TATTTGG-AATAAAATAATACAATGTTATTAATATTCTGAAATTAATAATTAAGAAATTTAAAAA
*
11250599 ATAAATTTATTTACC
126 ATAAATATATTTACC
11250614 GAATAAGTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
170 4 0.03
171 40 0.34
172 70 0.59
173 5 0.04
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (172 bp):
TTTTAAAATCGTTATGACATTTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATT
TGGAATAAAATAATACAATGTTATTAATATTCTGAAATTAATAATTAAGAAATTTAAAAAATAAA
TATATTTACCTAAATAATCATGACTATTTAAATAGTTATCTA
Found at i:11251230 original size:13 final size:13
Alignment explanation
Indices: 11251213--11251249 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
11251203 TCTAATTTAT
11251213 TAATAATTATAATA
1 TAATAA-TATAATA
11251227 -AATAA-ATAATA
1 TAATAATATAATA
11251238 TAATAATATAAT
1 TAATAATATAAT
11251250 TGTTATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.29
12 5 0.24
13 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:11251582 original size:47 final size:47
Alignment explanation
Indices: 11251505--11251658 Score: 120
Period size: 47 Copynumber: 3.3 Consensus size: 47
11251495 ATTAGAAATA
*
11251505 TTATAATAGTAATTATAAATCATTTATAATAAATATTATAATTAATATTG
1 TTATTATA-TAATTAT-AAT-ATTTATAATAAATATTATAATTAATATTG
* ** * ** *
11251555 TTATTATATAATTA-AGTATTTAATAATACTTATTAAAACAAATA-AG
1 TTATTATATAATTATAATATTT-ATAATAAATATTATAATTAATATTG
* * *
11251601 TTAATTATA-ATTTATAATAATTATAATATAATATTATAATT-ATATTA
1 TT-ATTATATAATTATAATATTTATAATA-AATATTATAATTAATATTG
11251648 TTATT-TATAAT
1 TTATTATATAAT
11251659 AACTTATTTG
Statistics
Matches: 79, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
45 2 0.03
46 25 0.32
47 39 0.49
49 6 0.08
50 7 0.09
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (47 bp):
TTATTATATAATTATAATATTTATAATAAATATTATAATTAATATTG
Found at i:11251623 original size:16 final size:16
Alignment explanation
Indices: 11251602--11251641 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
11251592 ACAAATAAGT
11251602 TAATTATAATTTATAA
1 TAATTATAATTTATAA
11251618 TAATTATAA--TATAA
1 TAATTATAATTTATAA
11251632 T-ATTATAATT
1 TAATTATAATT
11251642 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
16 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATAATTTATAA
Found at i:11252347 original size:22 final size:20
Alignment explanation
Indices: 11252309--11252368 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
11252299 ATAATATACC
* *
11252309 TAATATTGATATTATTATTTG
1 TAATATT-ATTTTATTATTTA
* *
11252330 TAATCCTTATTTTAATTAGTTA
1 TAAT-ATTATTTT-ATTATTTA
11252352 TAATATTATTTTATTAT
1 TAATATTATTTTATTAT
11252369 AATATAGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 4 0.13
21 15 0.48
22 12 0.39
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TAATATTATTTTATTATTTA
Found at i:11252952 original size:20 final size:18
Alignment explanation
Indices: 11252919--11252963 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
11252909 ATAGAATTTG
11252919 AAATAAATTATAATATAAA
1 AAATAAATTATAAT-TAAA
11252938 ATAATAATATT-TAATTAAA
1 A-AATAA-ATTATAATTAAA
11252957 AAATAAA
1 AAATAAA
11252964 ACTTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
18 5 0.21
19 6 0.25
20 9 0.38
21 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATTATAATTAAA
Found at i:11253110 original size:6 final size:6
Alignment explanation
Indices: 11253099--11253135 Score: 53
Period size: 5 Copynumber: 6.7 Consensus size: 6
11253089 TATAACAAAT
11253099 ATTATA ATTATA ATTATA A-TATA A-TATA A-TATA ATTA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTA
11253136 ATTAATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.50
6 15 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTATA
Found at i:11253160 original size:25 final size:25
Alignment explanation
Indices: 11253132--11253186 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11253122 ATATAATATA
11253132 ATTAATTAATTAATTATA-ATATCTT
1 ATTAATTAATTAATTATATATAT-TT
* * *
11253157 ATTAATTATTTATTTTTATATATTT
1 ATTAATTAATTAATTATATATATTT
11253182 ATTAA
1 ATTAA
11253187 ATCTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTAATTAATTAATTATATATATTT
Found at i:11254256 original size:180 final size:181
Alignment explanation
Indices: 11253478--11254298 Score: 734
Period size: 181 Copynumber: 4.6 Consensus size: 181
11253468 AATACTTATT
* * * * ** * *
11253478 ATTTGAAATAGATAATTATTCTAATAGTCTTAATTATTTGAACTAGTTTGGCAAACACATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATTTATT
* * * * * * *
11253543 TTTTAAA--ATCT-CTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTGAATT-GAATAA
66 TTTTAAATCTTCTACTTATTAATTTTTGGAATATTAATAAATTAGTATAATTTTATTTCAAATAA
**** * * * * *
11253604 GCCAGTATGAAAAGAAACACTTGTTTTATGACAAAATAAAGA-TCATAAAG
131 AATTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTCATAATG
* * ** * *
11253654 ATTTGAGATAGATAATTATTCAAATAGTCATAAATATTTGAACTAT-TTTGGTAAATAGATTT-T
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACT-TGTTCAGTAAACAAATTTAT
* *** * *
11253717 GTTTTTAAA---TCT-CTTATTAATTATCAAAATATTAATAGATT-G-AT-ATTATTATATTCTG
65 -TTTTTAAATCTTCTACTTATTAATTTTTGGAATATTAATAAATTAGTATAATT-TTAT-TTC-A
* * * * * *
11253775 AAT--AATTGTACATGAACAGAAATAATTGTTTTACGATAAAACAAAATGTCATTATG
126 AATAAAATTGT--ATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTCATAATG
** *
11253831 ATTTGAAATAGATAA-TAGTTCAAATAAACATGACTATTTGAACTTGTTCAGTAAACAAATTTAT
1 ATTTGAAATAGATAATTA-TTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATTTAT
* * * *
11253895 TTTTTAAATC-TCAAACTTATTAATTTTTAGAATACTAATAAATTAGTGTAATTTTATTTCAAAT
65 TTTTTAAATCTTC-TACTTATTAATTTTTGGAATATTAATAAATTAGTATAATTTTATTTCAAAT
* *
11253959 AAAATTGTATGAATAGAAATAATTGTTTTATGACAAAAC-AAAAGATTATAATG
129 AAAATTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAAG-TCATAATG
* * * *
11254012 ATTTGAAATAAATAATTATTCCAATAGTCATAACTATTTGAACTTGCTCAGTAAACAGATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATTTATT
* * *
11254077 TTTTAAATCTTCTACTTATTAATTTTTGGAATTTTAATAAATTAGTATTATTTTTTTTCAAA-AA
66 TTTTAAATCTTCTACTTATTAATTTTTGGAATATTAATAAATTAGTATAATTTTATTTCAAATAA
** * * *
11254141 GCTTTTATGAATAGAAACAGTTAG-TTTATGACAAAACAAAAAGTCATAACG
131 AATTGTATGAATAGAAACAATT-GTTTTATGACAAAACAAAAAGTCATAATG
* * * ** * *
11254192 ATTTGAAATGGATAATTCTTCAAATAGTCATAACTATTTGAAATTGTTCAAAAAATATATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATTTATT
*
11254257 TTTTAAAGT-TT-TATTTATTAATTTTTGGAATATTAATAAATT
66 TTTTAAA-TCTTCTACTTATTAATTTTTGGAATATTAATAAATT
11254299 CAAATTACTT
Statistics
Matches: 531, Mismatches: 87, Indels: 51
0.79 0.13 0.08
Matches are distributed among these distances:
172 3 0.01
173 4 0.01
174 5 0.01
175 26 0.05
176 96 0.18
177 62 0.12
178 1 0.00
179 31 0.06
180 106 0.20
181 175 0.33
182 8 0.02
183 11 0.02
184 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (181 bp):
ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAAATTTATT
TTTTAAATCTTCTACTTATTAATTTTTGGAATATTAATAAATTAGTATAATTTTATTTCAAATAA
AATTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTCATAATG
Found at i:11254943 original size:10 final size:10
Alignment explanation
Indices: 11254930--11254964 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
11254920 GCTCTTGCTC
11254930 TCTTGATTCA
1 TCTTGATTCA
11254940 TCTTGATTCA
1 TCTTGATTCA
*
11254950 TCTTGATTCC
1 TCTTGATTCA
11254960 TCTTG
1 TCTTG
11254965 CTTCTTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.11, T:0.51
Consensus pattern (10 bp):
TCTTGATTCA
Found at i:11256845 original size:16 final size:16
Alignment explanation
Indices: 11256811--11256845 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11256801 ATACAAGCTC
**
11256811 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
11256827 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
11256843 ATA
1 ATA
11256846 TGTCATCGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:11260976 original size:21 final size:21
Alignment explanation
Indices: 11260951--11260990 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11260941 CATAATGATT
11260951 TATAA-TAATTAAATCTAATTA
1 TATAATTAATT-AATCTAATTA
11260972 TATAATTAATTAATCTAAT
1 TATAATTAATTAATCTAAT
11260991 ATTTGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAATTAATTAATCTAATTA
Found at i:11261684 original size:14 final size:14
Alignment explanation
Indices: 11261667--11261697 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11261657 ATTATAATTA
11261667 AATAATTAAATATT
1 AATAATTAAATATT
*
11261681 AATAATTAATTATT
1 AATAATTAAATATT
11261695 AAT
1 AAT
11261698 TAATACTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATAATTAAATATT
Found at i:11262419 original size:20 final size:18
Alignment explanation
Indices: 11262384--11262424 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
11262374 TATATATAAA
11262384 ATAATTTAAATTATTATT
1 ATAATTTAAATTATTATT
11262402 ATAATTTATAACTTATTATT
1 ATAATTTA-AA-TTATTATT
11262422 ATA
1 ATA
11262425 TTAAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.38
19 2 0.10
20 11 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAATTTAAATTATTATT
Found at i:11262456 original size:20 final size:19
Alignment explanation
Indices: 11262392--11262477 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 19
11262382 AAATAATTTA
*
11262392 AATTATTAT-TATAATTTAT
1 AATTATTATATATAATAT-T
*
11262411 AACTTATTATTATATTAAGATTTT
1 AA-TTATTA-TATA-T-A-ATATT
11262435 AATTATTATATATTAATATT
1 AATTATTATATA-TAATATT
*
11262455 AATTA-TAAATATAATA-T
1 AATTATTATATATAATATT
11262472 AATTAT
1 AATTAT
11262478 GTTATAACCT
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.10
18 5 0.09
19 7 0.12
20 15 0.26
21 2 0.03
22 8 0.14
23 7 0.12
24 4 0.07
25 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
AATTATTATATATAATATT
Found at i:11262459 original size:17 final size:17
Alignment explanation
Indices: 11262439--11262477 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11262429 GATTTTAATT
*
11262439 ATTATATAT-TAATATTA
1 ATTATAAATATAATA-TA
11262456 ATTATAAATATAATATA
1 ATTATAAATATAATATA
11262473 ATTAT
1 ATTAT
11262478 GTTATAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATAAATATAATATA
Found at i:11262649 original size:18 final size:19
Alignment explanation
Indices: 11262626--11262666 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
11262616 AATTACAATA
*
11262626 ATATCATTATAATAATT-T
1 ATATCAATATAATAATTAT
*
11262644 ATATCAATATATTAATTAT
1 ATATCAATATAATAATTAT
11262663 ATAT
1 ATAT
11262667 TTATAAGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATCAATATAATAATTAT
Found at i:11262704 original size:10 final size:11
Alignment explanation
Indices: 11262679--11262713 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
11262669 ATAAGGATGT
11262679 TTATTATCATAA
1 TTATTAT-ATAA
11262691 TTATTATA-AA
1 TTATTATATAA
11262701 TTATTATATAA
1 TTATTATATAA
11262712 TT
1 TT
11262714 TAATATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 5 0.23
12 7 0.32
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
TTATTATATAA
Found at i:11262728 original size:23 final size:21
Alignment explanation
Indices: 11262680--11262733 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
11262670 TAAGGATGTT
* *
11262680 TATTATCATAATTATTATAAAT
1 TATTAT-ATAATTAATATAAAA
11262702 TATTATATAATTTAATATTAAAA
1 TATTATATAA-TTAATA-TAAAA
11262725 TATTATATA
1 TATTATATA
11262734 TTTTTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 11 0.39
23 13 0.46
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTATATAATTAATATAAAA
Found at i:11262734 original size:25 final size:25
Alignment explanation
Indices: 11262692--11262744 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
11262682 TTATCATAAT
*
11262692 TATTATAAATTATTATATAATTTAA
1 TATTAAAAATTATTATATAATTTAA
**
11262717 TATTAAAATATTA-TATATTTTTTAA
1 TATTAAAA-ATTATTATATAATTTAA
11262742 TAT
1 TAT
11262745 ATCTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTAAAAATTATTATATAATTTAA
Found at i:11263468 original size:16 final size:16
Alignment explanation
Indices: 11263449--11263479 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11263439 TATATAATTA
*
11263449 TAATATTACTATAATG
1 TAATATAACTATAATG
11263465 TAATATAACTATAAT
1 TAATATAACTATAAT
11263480 ATATTATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
TAATATAACTATAATG
Found at i:11264007 original size:20 final size:19
Alignment explanation
Indices: 11263961--11264007 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
11263951 TTAAATAGTT
*
11263961 TATTATTTGTTTAAAATAA
1 TATTATTTGATTAAAATAA
11263980 TATATATTT-ATTAATAATAA
1 TAT-TATTTGATTAA-AATAA
11264000 GTATTATT
1 -TATTATT
11264008 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 7 0.29
20 14 0.58
21 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TATTATTTGATTAAAATAA
Found at i:11264509 original size:17 final size:17
Alignment explanation
Indices: 11264470--11264535 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 17
11264460 ATTTTATTTA
*
11264470 AATTAATAAATAATTAAT
1 AATT-ATAAATAATAAAT
11264488 AATTATAAATAAATAAAT
1 AATTATAAAT-AATAAAT
11264506 ATTATTGATTAAATAATATGAAT
1 A--ATT-A-TAAATAATA--AAT
11264529 AATTATA
1 AATTATA
11264536 TGAAATTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
17 6 0.15
18 11 0.28
19 2 0.05
20 4 0.10
21 8 0.20
22 5 0.12
23 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AATTATAAATAATAAAT
Found at i:11264516 original size:24 final size:24
Alignment explanation
Indices: 11264452--11264516 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
11264442 TTATTTATTT
* *
11264452 TAAATATTATTTTATT-TAAATTAA
1 TAAATATTA-TTAATTATAAATAAA
*
11264476 TAAATAATTAATAATTATAAATAAA
1 TAAAT-ATTATTAATTATAAATAAA
*
11264501 TAAATATTATTGATTA
1 TAAATATTATTAATTA
11264517 AATAATATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TAAATATTATTAATTATAAATAAA
Found at i:11264557 original size:14 final size:14
Alignment explanation
Indices: 11264538--11264584 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
11264528 TAATTATATG
11264538 AAATTATAATAATT
1 AAATTATAATAATT
11264552 AAATTA-AATAATTT
1 AAATTATAATAA-TT
*
11264566 TAATT-TAAT-ATT
1 AAATTATAATAATT
11264578 AAATTAT
1 AAATTAT
11264585 TAAAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 6 0.21
13 7 0.25
14 15 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTATAATAATT
Found at i:11264560 original size:19 final size:19
Alignment explanation
Indices: 11264526--11264584 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
11264516 AAATAATATG
* *
11264526 AATAATTATATGAAATTAT
1 AATAATTAAATTAAATTAT
*
11264545 AATAATTAAATTAAATAAT
1 AATAATTAAATTAAATTAT
**
11264564 TTTAATTTAATATTAAATTAT
1 AATAA-TTAA-ATTAAATTAT
11264585 TAAAATGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 19 0.59
20 4 0.12
21 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AATAATTAAATTAAATTAT
Found at i:11264659 original size:24 final size:26
Alignment explanation
Indices: 11264606--11264660 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
11264596 ATCTATTTAT
11264606 TAATATAATTATATATTATAACATTA
1 TAATATAATTATATATTATAACATTA
11264632 -AATATAA-TATAT-TTATAA-ATTA
1 TAATATAATTATATATTATAACATTA
11264654 TGAATAT
1 T-AATAT
11264661 GTATAATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 4 0.15
23 6 0.22
24 10 0.37
25 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATATAATTATATATTATAACATTA
Found at i:11265753 original size:9 final size:10
Alignment explanation
Indices: 11265733--11265787 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
11265723 TTAATCCATA
11265733 AATTATTAAT
1 AATTATTAAT
11265743 AATTA-TAAT
1 AATTATTAAT
11265752 AATTAATTAAT
1 AATT-ATTAAT
*
11265763 AACATT-TTATT
1 -A-ATTATTAAT
*
11265774 AAATATTAAT
1 AATTATTAAT
11265784 AATT
1 AATT
11265788 TAATTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
9 10 0.28
10 14 0.39
11 8 0.22
12 1 0.03
13 3 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTATTAAT
Found at i:11266153 original size:23 final size:23
Alignment explanation
Indices: 11266114--11266177 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
11266104 TTTTATATTA
* *
11266114 ATAA-ATTTTATTGTTAATA-AT
1 ATAATATTTAATTATTAATACAT
*
11266135 AGTTATATTTAATTATTAA-ACAT
1 A-TAATATTTAATTATTAATACAT
11266158 ATAATATTTAATTATATAAT
1 ATAATATTTAATTAT-TAAT
11266178 TAATTTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 1 0.03
22 16 0.47
23 17 0.50
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
ATAATATTTAATTATTAATACAT
Found at i:11266200 original size:34 final size:34
Alignment explanation
Indices: 11266156--11266243 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 34
11266146 ATTATTAAAC
* * **
11266156 ATATAATATTTAATTATATAATTAATTTA-ATATT
1 ATATATTATTTAATTA-ATAATAAATAAATATATT
* *
11266190 ATTTATTATTTATTTAATAATAAATAAATATATT
1 ATATATTATTTAATTAATAATAAATAAATATATT
*
11266224 ATATATTATATTAATAAATA
1 ATATATTAT-TTAATTAATA
11266244 TATTATTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
33 9 0.21
34 26 0.60
35 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
ATATATTATTTAATTAATAATAAATAAATATATT
Found at i:11266250 original size:20 final size:19
Alignment explanation
Indices: 11266223--11266260 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11266213 ATAAATATAT
11266223 TATATA-TTATATTAATAAA
1 TATATATTTAT-TTAATAAA
11266242 TATATTATTTATTTAATAA
1 TATA-TATTTATTTAATAA
11266261 TAAATAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATATTTATTTAATAAA
Found at i:11266405 original size:24 final size:25
Alignment explanation
Indices: 11266378--11266431 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
11266368 ATTAATTACT
*
11266378 TATTAT-TTAACATTATTTTTAT-AA
1 TATTATGTT-ACATTATTATTATCAA
*
11266402 TATT-TGTTACTTTATTATTATCAA
1 TATTATGTTACATTATTATTATCAA
11266426 TATTAT
1 TATTAT
11266432 AATATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 12 0.48
24 12 0.48
25 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (25 bp):
TATTATGTTACATTATTATTATCAA
Found at i:11266475 original size:12 final size:11
Alignment explanation
Indices: 11266445--11266498 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 11
11266435 ATTTTAAATA
*
11266445 TATTAATTTA-
1 TATTAATTAAT
*
11266455 TATTTATTAAT
1 TATTAATTAAT
11266466 TATTAGATTAAT
1 TATTA-ATTAAT
*
11266478 TATAAAATTAAT
1 TAT-TAATTAAT
11266490 TATTAATTA
1 TATTAATTA
11266499 TATAATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.25
12 18 0.50
13 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
TATTAATTAAT
Found at i:11267961 original size:25 final size:26
Alignment explanation
Indices: 11267933--11268025 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 26
11267923 AATGTCAATG
11267933 ATAAAATATTAAATTAATAA-AATTA
1 ATAAAATATTAAATTAATAATAATTA
*
11267958 ATAAAATATTAAATAGAAATAATTATATTA
1 ATAAAATATTAAAT--TAATAA-TA-ATTA
11267988 ATAAAATTATT-AA-TAATTAATAATTA
1 ATAAAA-TATTAAATTAA-TAATAATTA
*
11268014 TTAAAATATTAA
1 ATAAAATATTAA
11268026 TAATATTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
25 18 0.32
26 10 0.18
27 9 0.16
28 3 0.05
29 1 0.02
30 12 0.21
31 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (26 bp):
ATAAAATATTAAATTAATAATAATTA
Found at i:11267970 original size:17 final size:17
Alignment explanation
Indices: 11267933--11268020 Score: 56
Period size: 17 Copynumber: 4.9 Consensus size: 17
11267923 AATGTCAATG
11267933 ATAAAATATT-AAATTA
1 ATAAAATATTAAAATTA
*
11267949 ATAAAATTAATAAAATATTAA
1 ATAAAA-T-ATTAAA-ATT-A
*
11267970 ATAGAAATAATT-ATATTA
1 ATA-AAAT-ATTAAAATTA
11267988 ATAAAATTATTAATAATTA
1 ATAAAA-TATTAA-AATTA
*
11268007 AT-AATTATTAAAAT
1 ATAAAATATTAAAAT
11268021 ATTAATAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
16 9 0.16
17 13 0.22
18 10 0.17
19 11 0.19
20 4 0.07
21 8 0.14
22 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (17 bp):
ATAAAATATTAAAATTA
Found at i:11268032 original size:9 final size:9
Alignment explanation
Indices: 11267945--11268032 Score: 63
Period size: 9 Copynumber: 9.3 Consensus size: 9
11267935 AAAATATTAA
*
11267945 ATTAATAAA
1 ATTAATAAT
11267954 ATTAATAAAAT
1 ATTAAT--AAT
11267965 ATTAAATAGA-
1 ATT-AATA-AT
* *
11267975 AATAATTAT
1 ATTAATAAT
*
11267984 ATTAATAAA
1 ATTAATAAT
*
11267993 ATTATTAAT
1 ATTAATAAT
11268002 AATTAATAATT
1 -ATTAATAA-T
11268013 ATTAA-AAT
1 ATTAATAAT
11268021 ATTAATAAT
1 ATTAATAAT
11268030 ATT
1 ATT
11268033 TTAATTAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
8 7 0.11
9 30 0.48
10 15 0.24
11 7 0.11
12 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (9 bp):
ATTAATAAT
Found at i:11268546 original size:179 final size:179
Alignment explanation
Indices: 11268063--11268920 Score: 793
Period size: 179 Copynumber: 4.8 Consensus size: 179
11268053 AAATTAAACA
* *
11268063 TTCAAATAGTT-TGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCA
1 TTCAAATAGTTATG-TTATTTGAACAATTATCTATTTCAAATCGTTATG-CATTTTGTTTTGTCA
* * ** *
11268127 -AAAGCTAATTGTTTCTATTTATACAAGCTTATTT-GAAATAAAATAATACTAATTTATTAAAAT
64 TAAA-ATAATTGTTTCTATTCATACAATATTATTTAG-AATAAAATAATACTAATTTATTAATAT
* * * *
11268190 TCCAAAAATTAATAAGTAAAAGATTTATAAAATAAAATCTATTTAC-CTAGCAAG
127 TCTAAAAATTAATAAGTAAGAGATTTA-AAAAT-AAATCTATTTACTCAAACAAG
* * * * * * *
11268244 TTCCAATAGTAATGAGTATTTGAACAATTATTTATTTCATATTGTTATG-ATTTTTTATTTTGTC
1 TTCAAATAGTTATG-TTATTTGAACAATTATCTATTTCAAATCGTTATGCA--TTTTGTTTTGTC
* ** * * *
11268308 ATAAAACAATTGTTTCTATTTGTACAAGT-TTATTCAAAATAAAACAATACTAATTTATTAATAT
63 ATAAAATAATTGTTTCTATTCATACAA-TATTATTTAGAATAAAATAATACTAATTTATTAATAT
** * *
11268372 TCTAAAAATTAATAAGTTGGAGACTTAAAAATAAATCTATTTACT-AAACAAT
127 TCTAAAAATTAATAAGTAAGAGATTTAAAAATAAATCTATTTACTCAAACAAG
* * * * *
11268424 TTCAAATAGTCATGTTCATTTGAACTATTATCTATTTCAAATCATTACAGCATTTT-TTTGGTCA
1 TTCAAATAGTTATGTT-ATTTGAACAATTATCTATTTCAAATCGTTA-TGCATTTTGTTTTGTCA
* * *
11268488 TAAAATAATTATTTCTATTCATACAATATTATTTAGAATAAAATAGTACTAATTTATTAATATTT
64 TAAAATAATTGTTTCTATTCATACAATATTATTTAGAATAAAATAATACTAATTTATTAATATTC
*
11268553 TAAAAA-T--TAA-TAAGAGATTTAAAAACTAAATCTATTTA-TCAAACTAG
129 TAAAAATTAATAAGTAAGAGATTTAAAAA-TAAATCTATTTACTCAAACAAG
* * * * *
11268600 TTTAAATAGTTATAATTATTTGAACAATCATCTATCTCAAATCGTTATG-ATCTTTGTTTTGCCA
1 TTCAAATAGTTAT-GTTATTTGAACAATTATCTATTTCAAATCGTTATGCAT-TTTGTTTTGTCA
* * * * * * *
11268664 TAAAATAATTGTTTATGTTCATACAA-ATGTATTT-GAAAAAAATATTGCTAAATTAATAATATT
64 TAAAATAATTGTTTCTATTCATACAATAT-TATTTAGAATAAAATAATACTAATTTATTAATATT
* * * * *
11268727 CTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTT-GTGAAACCAG
128 CTAAAAATTAATAAGTAAGAGATTT-AAAAATAAATCTATTTACTCAAACAAG
* * * * * * * *
11268779 TTCAAATAGTTAAGACTATTAGAACAATTATCTAGTTCAAATCGTTCTAACACTTTGTTTAGTCA
1 TTCAAATAGTTATG-TTATTTGAACAATTATCTATTTCAAATCGTTAT-GCATTTTGTTTTGTCA
* * *
11268844 TAAAATAATTTTTTC-AGTT-ATAC-ATGCTTATTTAAAATAAAATAATACTAATTTATTAATAT
64 TAAAATAATTGTTTCTA-TTCATACAAT-ATTATTTAGAATAAAATAATACTAATTTATTAATAT
*
11268906 TCAAAAAATTAATAA
127 TCTAAAAATTAATAA
11268921 ATAAATTACA
Statistics
Matches: 552, Mismatches: 95, Indels: 61
0.78 0.13 0.09
Matches are distributed among these distances:
174 2 0.00
175 49 0.09
176 92 0.17
177 2 0.00
178 6 0.01
179 141 0.26
180 124 0.22
181 16 0.03
182 117 0.21
183 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
TTCAAATAGTTATGTTATTTGAACAATTATCTATTTCAAATCGTTATGCATTTTGTTTTGTCATA
AAATAATTGTTTCTATTCATACAATATTATTTAGAATAAAATAATACTAATTTATTAATATTCTA
AAAATTAATAAGTAAGAGATTTAAAAATAAATCTATTTACTCAAACAAG
Found at i:11268820 original size:355 final size:357
Alignment explanation
Indices: 11268063--11268920 Score: 898
Period size: 355 Copynumber: 2.4 Consensus size: 357
11268053 AAATTAAACA
* * *
11268063 TTCAAATAGTT-TGACTATTTGAACAATTATCTATTTCAAATCGTTA-TGACCTTTTGTTTTGTC
1 TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTACAG-CATTTT-TTTAGTC
* * * *
11268126 A-AAAGCTAATTGTTTCTATTTATACAAGCTTATTT-GAAATAAAATAATACTAATTTATTAAAA
64 ATAAA-ATAATTATTTCTA-TTATACAATCTTATTTAG-AATAAAATAATACTAATTTATTAATA
* * * *
11268189 TTCCAAAAATTAATAAGTAAAAGATTTATAAAATAAAATCTATTTACCTAGCAAGTTCCAATAGT
126 TTCAAAAAATTAATAAG---AAGATTTATAAAATAAAATCTATTTACCAAACAAGTTCAAATAGT
* * * * * * * *
11268254 AATGAGTATTTGAACAATTATTTATTTCATATTGTTATGATTTTTTATTTTGTCATAAAACAATT
188 AATAAGTATTTGAACAATCATCTATCTCAAATCGTTATGATTCTTTATTTTGCCATAAAACAATT
* ** * * * *
11268319 GTTTCTATTTGTACAAGTTTATTCAAAATAAAACAATACTAATTTATTAATATTCTAAAAATTAA
253 GTTTATATTCATACAAATGTATTCAAAATAAAACAATACTAAATTAATAATATTCTAAAAATTAA
** *
11268384 TAAGTTGGAGACTTAAAAATAAATCTATTTACTAAACAAT
318 TAAGTAAGAGACTTAAAAATAAATCTATTTACTAAACAAG
* * * * *
11268424 TTCAAATAGTCATG-TTCATTTGAACTATTATCTATTTCAAATCATTACAGCATTTTTTTGGTCA
1 TTCAAATAGTTATGACT-ATTTGAACAATTATCTATTTCAAATCGTTACAGCATTTTTTTAGTCA
* * *
11268488 TAAAATAATTATTTCTATTCATACAATATTATTTAGAATAAAATAGTACTAATTTATTAATATTT
65 TAAAATAATTATTTCTATT-ATACAATCTTATTTAGAATAAAATAATACTAATTTATTAATATTC
* * * * *
11268553 TAAAAATTAATAAG-AGATTTA-AAAACT-AAATCTATTTATCAAACTAGTTTAAATAGTTATAA
129 AAAAAATTAATAAGAAGATTTATAAAA-TAAAATCTATTTACCAAACAAGTTCAAATAGTAATAA
* * *
11268615 TTATTTGAACAATCATCTATCTCAAATCGTTATGA-TCTTTGTTTTGCCATAAAATAATTGTTTA
193 GTATTTGAACAATCATCTATCTCAAATCGTTATGATTCTTTATTTTGCCATAAAACAATTGTTTA
* ** * * *
11268679 TGTTCATACAAATGTATTTGAAA-AAAATATTGCTAAATTAATAATATTCTAAAAATTAATAAGT
258 TATTCATACAAATGTATTCAAAATAAAACAATACTAAATTAATAATATTCTAAAAATTAATAAGT
* * * * *
11268743 AAGAGATTTAAAAAATAAATGTGTTT-GTGAAACCAG
323 AAGAGACTT-AAAAATAAATCTATTTACT-AAACAAG
* * * * *
11268779 TTCAAATAGTTAAGACTATTAGAACAATTATCTAGTTCAAATCGTT-CTAACACTTTGTTTAGTC
1 TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTAC-AGCA-TTTTTTTAGTC
* *
11268843 ATAAAATAATTTTTTC-AGTTATAC-ATGCTTATTTAAAATAAAATAATACTAATTTATTAATAT
64 ATAAAATAATTATTTCTA-TTATACAAT-CTTATTTAGAATAAAATAATACTAATTTATTAATAT
11268906 TCAAAAAATTAATAA
127 TCAAAAAATTAATAA
11268921 ATAAATTACA
Statistics
Matches: 413, Mismatches: 70, Indels: 34
0.80 0.14 0.07
Matches are distributed among these distances:
354 46 0.11
355 150 0.36
356 87 0.21
357 8 0.02
360 2 0.00
361 80 0.19
362 39 0.09
363 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (357 bp):
TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTACAGCATTTTTTTAGTCAT
AAAATAATTATTTCTATTATACAATCTTATTTAGAATAAAATAATACTAATTTATTAATATTCAA
AAAATTAATAAGAAGATTTATAAAATAAAATCTATTTACCAAACAAGTTCAAATAGTAATAAGTA
TTTGAACAATCATCTATCTCAAATCGTTATGATTCTTTATTTTGCCATAAAACAATTGTTTATAT
TCATACAAATGTATTCAAAATAAAACAATACTAAATTAATAATATTCTAAAAATTAATAAGTAAG
AGACTTAAAAATAAATCTATTTACTAAACAAG
Found at i:11269731 original size:18 final size:17
Alignment explanation
Indices: 11269708--11269756 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
11269698 ACCGAACAAG
11269708 TTTGAATAATTATGGTTA
1 TTTGAATAATTAT-GTTA
*
11269726 TTTGAACAATTAT-TTA
1 TTTGAATAATTATGTTA
*
11269742 TTTAAAATAATTATG
1 TTT-GAATAATTATG
11269757 ACCATTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 12 0.46
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTGAATAATTATGTTA
Found at i:11270121 original size:177 final size:178
Alignment explanation
Indices: 11269857--11270186 Score: 423
Period size: 177 Copynumber: 1.9 Consensus size: 178
11269847 TAAGTAACTA
* *
11269857 ATTTAAAAGAATAAATCAGTTTACCCAATTAGTTCAAATAATTATAGCCATTTAAACAACTATCT
1 ATTTAAAAGAATAAATCAATTTACCCAACTAGTTCAAATAATTATAGCCATTTAAACAACTATCT
** * * * * *
11269922 ATTTCAAATTGTTATTACCTTTTGTTTTGTCATAAACTAATTGTTTTTCA-ACATACAAGCTTAT
66 ATTTCAAATTGTTACAACCTTTTGTTCTATCAAAAAATAATTGTTTCT-ATACATACAAGCTTAT
* *
11269986 TTGAAATAAAATAATAGTAATTTATTAATATTTTACGAATTAATAAGAC
130 TCGAAAAAAAATAATAGTAATTTATTAATATTTTACGAATTAATAAGAC
*** * * * * *
11270035 ATTTAAAA-AATAAATCAATTTATTGAACTAGTTCAAATAGTTAT-GACTATTTGAACAATTTTC
1 ATTTAAAAGAATAAATCAATTTACCCAACTAGTTCAAATAATTATAG-CCATTTAAACAACTATC
* *
11270098 TATTTCAAATTGTTACAACCTTTTGTTCTATCAAAAAATAGTTGTTTCTATTCATACAAGCTTAT
65 TATTTCAAATTGTTACAACCTTTTGTTCTATCAAAAAATAATTGTTTCTATACATACAAGCTTAT
*
11270163 TCGAAAAAAAATAATATTAATTTA
130 TCGAAAAAAAATAATAGTAATTTA
11270187 GCAATATTCT
Statistics
Matches: 128, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
176 2 0.02
177 118 0.92
178 8 0.06
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (178 bp):
ATTTAAAAGAATAAATCAATTTACCCAACTAGTTCAAATAATTATAGCCATTTAAACAACTATCT
ATTTCAAATTGTTACAACCTTTTGTTCTATCAAAAAATAATTGTTTCTATACATACAAGCTTATT
CGAAAAAAAATAATAGTAATTTATTAATATTTTACGAATTAATAAGAC
Found at i:11270626 original size:6 final size:6
Alignment explanation
Indices: 11270615--11270653 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
11270605 AATAAAAAGC
* *
11270615 TTAATA TTAATA TCAATA TTAA-A TTAGTA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
11270654 ACAATATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:11270649 original size:17 final size:17
Alignment explanation
Indices: 11270615--11270654 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11270605 AATAAAAAGC
11270615 TTAATATTAATATCAATA
1 TTAA-ATTAATATCAATA
* *
11270633 TTAAATTAGTATTAATA
1 TTAAATTAATATCAATA
11270650 TTAAA
1 TTAAA
11270655 CAATATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAATTAATATCAATA
Found at i:11270788 original size:22 final size:24
Alignment explanation
Indices: 11270740--11270798 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
11270730 TATTAATCTA
*
11270740 ATTAATTATAATATTAATATTGAT
1 ATTAATTATAATATAAATATTGAT
11270764 ATTAA-TA-AATATAAATATTTG-T
1 ATTAATTATAATATAAATA-TTGAT
*
11270786 ATT-ATTTTAATAT
1 ATTAATTATAATAT
11270799 TATATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 14 0.47
23 10 0.33
24 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
ATTAATTATAATATAAATATTGAT
Found at i:11270885 original size:21 final size:21
Alignment explanation
Indices: 11270860--11270902 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11270850 TCTTAAAGAG
*
11270860 TTAATAATTATATATAA-TATT
1 TTAATAATCA-ATATAATTATT
*
11270881 TTAATTATCAATATAATTATT
1 TTAATAATCAATATAATTATT
11270902 T
1 T
11270903 GATTAACTAT
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):
TTAATAATCAATATAATTATT
Found at i:11270887 original size:18 final size:20
Alignment explanation
Indices: 11270864--11270902 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
11270854 AAAGAGTTAA
11270864 TAATTAT-ATATAA-TATTT
1 TAATTATAATATAATTATTT
11270882 TAATTATCAATATAATTATTT
1 TAATTAT-AATATAATTATTT
11270903 GATTAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATTATAATATAATTATTT
Found at i:11271435 original size:18 final size:17
Alignment explanation
Indices: 11271393--11271443 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
11271383 TTAAAAATTG
11271393 TAGTATGAATAATTAACT
1 TAGTAT-AATAATTAACT
*
11271411 TAATATAATTAATCTAA-T
1 TAGTATAA-TAAT-TAACT
11271429 TAGTATAAATAATTA
1 TAGTAT-AATAATTA
11271444 TACTAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (17 bp):
TAGTATAATAATTAACT
Found at i:11271460 original size:22 final size:21
Alignment explanation
Indices: 11271410--11271460 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
11271400 AATAATTAAC
*
11271410 TTAATATAATTAATCTAATTA
1 TTAAAATAATTAATCTAATTA
*
11271431 GTATAAATAATT-ATACTAATTA
1 TTA-AAATAATTAAT-CTAATTA
11271453 TTTAAAAT
1 -TTAAAAT
11271461 TAAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
23 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAAATAATTAATCTAATTA
Found at i:11271592 original size:13 final size:13
Alignment explanation
Indices: 11271560--11271615 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
11271550 ATACAATTGT
*
11271560 TAAATTATT-TTA
1 TAAATTATTAATA
*
11271572 TAATTTATTAATA
1 TAAATTATTAATA
*
11271585 TAAATTATAAATA
1 TAAATTATTAATA
11271598 TTAAATATATTAATA
1 -TAAAT-TATTAATA
11271613 TAA
1 TAA
11271616 TTTGGTTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 8 0.22
13 13 0.36
14 8 0.22
15 7 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATTATTAATA
Found at i:11272066 original size:21 final size:24
Alignment explanation
Indices: 11272028--11272074 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 24
11272018 ATATTATTAT
11272028 ATAATTATATATATTATA-ATCTTA
1 ATAATTATATATATTATATAT-TTA
11272052 ATAATTAT-TA-A-TATATATTTA
1 ATAATTATATATATTATATATTTA
11272073 AT
1 AT
11272075 GAATATAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 2 0.09
24 8 0.36
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATAATTATATATATTATATATTTA
Found at i:11272363 original size:15 final size:15
Alignment explanation
Indices: 11272343--11272376 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11272333 TCACCTCTTT
11272343 TAATTTGATAATA-AA
1 TAATTT-ATAATATAA
11272358 TAATTTATAATATAA
1 TAATTTATAATATAA
11272373 TAAT
1 TAAT
11272377 AAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAATTTATAATATAA
Found at i:11272381 original size:26 final size:26
Alignment explanation
Indices: 11272352--11272406 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
11272342 TTAATTTGAT
11272352 AATAAATAATT-TATAATATAATAATA
1 AATAAATAATTAT-TAATATAATAATA
**
11272378 AATAAATAATTATTAATATTTTAATA
1 AATAAATAATTATTAATATAATAATA
11272404 AAT
1 AAT
11272407 TAGGTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATAAATAATTATTAATATAATAATA
Found at i:11272975 original size:20 final size:20
Alignment explanation
Indices: 11272952--11273005 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
11272942 ATAATTAAGT
*
11272952 TATAATTATATTTTAAATTA
1 TATAATTATATTTTAAACTA
*
11272972 TATAA-TATAATTTAAACTA
1 TATAATTATATTTTAAACTA
11272991 -ATAATTATTATTTTA
1 TATAATTA-TATTTTA
11273006 CTTAATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.14
19 14 0.48
20 11 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATAATTATATTTTAAACTA
Found at i:11273013 original size:13 final size:13
Alignment explanation
Indices: 11273005--11273052 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
11272995 TTATTATTTT
*
11273005 ACTTAATTATATT
1 ACTTAATTATATA
11273018 A-TATAATTATATA
1 ACT-TAATTATATA
11273031 ACTTAATTAT-TAA
1 ACTTAATTATAT-A
11273044 ACTTAATTA
1 ACTTAATTA
11273053 GAATAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 2 0.06
13 28 0.90
14 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (13 bp):
ACTTAATTATATA
Found at i:11273022 original size:42 final size:40
Alignment explanation
Indices: 11272952--11273042 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 40
11272942 ATAATTAAGT
11272952 TATAATTA-TATTTTAAATTATATAATATAATT-TA-AAC
1 TATAATTATTATTTTAAATTATATAATATAATTATATAAC
*
11272989 TAATAATTATTATTTTACTTAATTATATTATATAATTATATAAC
1 T-ATAATTATTATTTTA---AATTATATAATATAATTATATAAC
11273033 T-TAATTATTA
1 TATAATTATTA
11273043 AACTTAATTA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
37 1 0.02
38 7 0.15
39 7 0.15
42 25 0.54
43 2 0.04
44 4 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (40 bp):
TATAATTATTATTTTAAATTATATAATATAATTATATAAC
Found at i:11273309 original size:12 final size:12
Alignment explanation
Indices: 11273292--11273376 Score: 52
Period size: 12 Copynumber: 7.0 Consensus size: 12
11273282 TGTATAATAT
11273292 TTATATATATTA
1 TTATATATATTA
*
11273304 TTATATATAATAA
1 TTATATAT-ATTA
* *
11273317 TTAATATAAAATAA
1 TT-ATAT-ATATTA
*
11273331 TTAGTA-ATATGCA
1 TTA-TATATAT-TA
*
11273344 AT-TATATATTA
1 TTATATATATTA
11273355 -TATA-ATATTA
1 TTATATATATTA
11273365 TTATATATATTA
1 TTATATATATTA
11273377 ATTAAATTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
10 7 0.12
11 9 0.16
12 21 0.36
13 8 0.14
14 12 0.21
15 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (12 bp):
TTATATATATTA
Found at i:11273322 original size:66 final size:61
Alignment explanation
Indices: 11273252--11273388 Score: 154
Period size: 61 Copynumber: 2.2 Consensus size: 61
11273242 TTATTTTTAA
* *
11273252 TAATATATAATAATTGAAGTATTATATAATTGTATAATATT-TATATATATTATTATATATAATA
1 TAATATATAATAATT--AGTAATATACAA-T-TAT-ATATTATATA-ATATTATTATATATAATA
11273316 AT
60 AT
* * *
11273318 TAATATAAAATAATTAGTAATATGCAATTATATATTATATAATATTATTATATATATTAAT
1 TAATATATAATAATTAGTAATATACAATTATATATTATATAATATTATTATATATAATAAT
11273379 TAA-AT-TAATA
1 TAATATATAATA
11273389 TTTAATTTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
59 4 0.06
60 2 0.03
61 27 0.42
62 7 0.11
63 1 0.02
64 9 0.14
66 14 0.22
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.47
Consensus pattern (61 bp):
TAATATATAATAATTAGTAATATACAATTATATATTATATAATATTATTATATATAATAAT
Found at i:11273616 original size:19 final size:19
Alignment explanation
Indices: 11273589--11273626 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11273579 TAAATATAGT
*
11273589 TAATTTATAATATTAATTA
1 TAATATATAATATTAATTA
*
11273608 TAATATATATTATTAATTA
1 TAATATATAATATTAATTA
11273627 ATACTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATATATAATATTAATTA
Found at i:11273625 original size:32 final size:31
Alignment explanation
Indices: 11273588--11273688 Score: 89
Period size: 32 Copynumber: 3.2 Consensus size: 31
11273578 CTAAATATAG
11273588 TTAATTTATAATATTAATTATAATATATATTA
1 TTAATTTATAATATTAATTATAA-ATATATTA
* * * * *
11273620 TTAATTAATACTATTATATTTTCACTAT-TTA
1 TTAATTTATAATATTA-ATTATAAATATATTA
* *
11273651 TTAATTTATTAT-TTAATTAAACAATTATATTA
1 TTAATTTATAATATTAATTATA-AA-TATATTA
11273683 TTAATT
1 TTAATT
11273689 ATTTTTAATA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
29 3 0.06
30 4 0.08
31 15 0.28
32 26 0.49
33 5 0.09
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (31 bp):
TTAATTTATAATATTAATTATAAATATATTA
Found at i:11273697 original size:42 final size:42
Alignment explanation
Indices: 11273615--11273697 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
11273605 TTATAATATA
* *
11273615 TATTATTAATTAATACTATTATATTTTCACTATTTATTAATT
1 TATTATTAATTAATACAATTATATTTTAACTATTTATTAATT
*
11273657 TATTATTTAATTAA-ACAATTATATTATTAATTATTT-TTAAT
1 TATTA-TTAATTAATACAATTATATT-TTAACTATTTATTAAT
11273698 AAGTATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 20 0.56
43 16 0.44
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (42 bp):
TATTATTAATTAATACAATTATATTTTAACTATTTATTAATT
Found at i:11273891 original size:22 final size:22
Alignment explanation
Indices: 11273866--11273910 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11273856 TTTATTCAAA
**
11273866 TATAAATATTTATAAACTATAT
1 TATAAATATAGATAAACTATAT
*
11273888 TATAAATATAGATAATCTATAT
1 TATAAATATAGATAAACTATAT
11273910 T
1 T
11273911 TCCACTCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
TATAAATATAGATAAACTATAT
Found at i:11274036 original size:16 final size:17
Alignment explanation
Indices: 11274010--11274041 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11274000 ATGTAAAATA
11274010 TTATATCTAATTATTAT
1 TTATATCTAATTATTAT
11274027 TTATAT-TAATTATTA
1 TTATATCTAATTATTA
11274042 AATTAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATCTAATTATTAT
Found at i:11274074 original size:20 final size:20
Alignment explanation
Indices: 11274022--11274075 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
11274012 ATATCTAATT
*
11274022 ATTATTTATATTAATTATTAA
1 ATTATTTATATT-ATTAATAA
*
11274043 ATTA-GTAGTATTATTAATAA
1 ATTATTTA-TATTATTAATAA
11274063 ATTATTTATATTA
1 ATTATTTATATTA
11274076 AATTCTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTATTTATATTATTAATAA
Found at i:11274213 original size:18 final size:19
Alignment explanation
Indices: 11274178--11274219 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
11274168 TTAATTACTT
*
11274178 TAATTGTTATTATTAATAA
1 TAATTGTTATTATAAATAA
11274197 -AATTGTATATTA-AAATAA
1 TAATTGT-TATTATAAATAA
11274215 TAATT
1 TAATT
11274220 ATAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
TAATTGTTATTATAAATAA
Found at i:11274515 original size:18 final size:18
Alignment explanation
Indices: 11274485--11274521 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11274475 TTGTTTAAAT
11274485 TAATCTATTTATTATTAA
1 TAATCTATTTATTATTAA
11274503 TAAT-TATTATATTATTAA
1 TAATCTATT-TATTATTAA
11274521 T
1 T
11274522 TTTATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATCTATTTATTATTAA
Found at i:11274739 original size:18 final size:18
Alignment explanation
Indices: 11274686--11274746 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
11274676 ATTATTATAA
*
11274686 TTAATTAAT-TAATCAATA
1 TTAATTAATATAAT-AATG
*
11274704 TTAATTAAGTATTA-AATG
1 TTAATTAA-TATAATAATG
11274722 TTAATTAATATAATAATG
1 TTAATTAATATAATAATG
*
11274740 ATAATTA
1 TTAATTA
11274747 GTATTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 4 0.11
18 29 0.81
19 1 0.03
20 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
TTAATTAATATAATAATG
Found at i:11275109 original size:12 final size:11
Alignment explanation
Indices: 11275094--11275178 Score: 54
Period size: 12 Copynumber: 7.6 Consensus size: 11
11275084 ATTTATAAGT
11275094 ATATATAAATTA
1 ATATATAAA-TA
*
11275106 ATATTATTAATA
1 ATA-TATAAATA
*
11275118 ATA-GTAAATA
1 ATATATAAATA
11275128 ATATCATAAATA
1 ATAT-ATAAATA
*
11275140 TTATAT-AATA
1 ATATATAAATA
11275150 ATAATTATTAAATA
1 AT-A-TA-TAAATA
11275164 ATA-AT-AATA
1 ATATATAAATA
11275173 AT-TATA
1 ATATATA
11275179 TTAACTTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
9 8 0.14
10 14 0.24
11 4 0.07
12 19 0.33
13 7 0.12
14 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
ATATATAAATA
Found at i:11275158 original size:17 final size:17
Alignment explanation
Indices: 11275133--11275179 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
11275123 AAATAATATC
*
11275133 ATAAATATTATATAATA
1 ATAATTATTATATAATA
*
11275150 ATAATTATTAAATAATA
1 ATAATTATTATATAATA
*
11275167 ATAATAATTATAT
1 ATAATTATTATAT
11275180 TAACTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATTATTATATAATA
Found at i:11275655 original size:10 final size:10
Alignment explanation
Indices: 11275629--11275717 Score: 55
Period size: 10 Copynumber: 9.0 Consensus size: 10
11275619 AATAAATTAA
*
11275629 ATATTAATTT
1 ATATTAATAT
11275639 A-ATTAATAT
1 ATATTAATAT
11275648 ATATTAATA-
1 ATATTAATAT
11275657 ATATT-ATAT
1 ATATTAATAT
11275666 AATATATAAT-T
1 -ATAT-TAATAT
*
11275677 GGATATTATTA-
1 --ATATTAATAT
11275688 ATTATT-ATAT
1 A-TATTAATAT
*
11275698 ATAATAATAT
1 ATATTAATAT
*
11275708 ATATAAATAT
1 ATATTAATAT
11275718 TATACAATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
8 3 0.05
9 19 0.31
10 29 0.47
11 5 0.08
12 6 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATTAATAT
Found at i:11275660 original size:47 final size:47
Alignment explanation
Indices: 11275623--11275717 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 47
11275613 TTATCTAATA
11275623 AATTAAATATTAATTTAATTAATATATATTAATAATATTATATAATATAT
1 AATTAAATATT-A-TTAATTAATATATA-TAATAATATTATATAATATAT
** *
11275673 AATTGGATATTATTAATTATTATATATAATAATA-TATATAA-ATAT
1 AATTAAATATTATTAATTAATATATATAATAATATTATATAATATAT
11275718 TATACAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 4 0.10
46 7 0.17
47 8 0.19
48 13 0.31
49 1 0.02
50 9 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (47 bp):
AATTAAATATTATTAATTAATATATATAATAATATTATATAATATAT
Found at i:11275672 original size:25 final size:25
Alignment explanation
Indices: 11275644--11275754 Score: 72
Period size: 25 Copynumber: 4.4 Consensus size: 25
11275634 AATTTAATTA
11275644 ATATATATTAATAATATTATATAAT
1 ATATATATTAATAATATTATATAAT
* * *
11275669 ATATA-ATTGGATATTATTA-ATTAT
1 ATATATATT-AATAATATTATATAAT
11275693 -TATATA-TAATAATA-TATATAAAT
1 ATATATATTAATAATATTATAT-AAT
* *
11275716 ATTATACAATTATATAATACTTCATATTAT
1 A-TATA-TATTA-ATAATA-TT-ATATAAT
11275746 -TATATATTA
1 ATATATATTA
11275755 TTAAAAATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
21 2 0.03
22 7 0.11
23 7 0.11
24 8 0.12
25 17 0.26
26 1 0.02
27 6 0.09
28 10 0.15
30 3 0.05
31 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATATATTAATAATATTATATAAT
Found at i:11275743 original size:60 final size:61
Alignment explanation
Indices: 11275624--11275755 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 61
11275614 TATCTAATAA
* * * *
11275624 ATTAAATATTA-ATTTAATTAATATATATTAATAATATTATATAATATATAATTGGATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATACAATATATAATTGCATATT
*
11275684 ATTAATTATTATATATAA-TAATATATA-T-A-AATATTATACAATTATATAATACTTCATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATACAA-TATATAAT--TGCATATT
11275744 ATT-ATATATTAT
1 ATTAAT-TATTAT
11275756 TAAAAATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
57 11 0.18
58 9 0.15
59 3 0.05
60 34 0.55
61 5 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (61 bp):
ATTAATTATTATATATAATTAATATATATTAATAATATTATACAATATATAATTGCATATT
Found at i:11276499 original size:15 final size:14
Alignment explanation
Indices: 11276471--11276516 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
11276461 TTATCTATAT
*
11276471 TTAATTCTTAAATA
1 TTAATTATTAAATA
*
11276485 TTAATTAATTTAATA
1 TTAATT-ATTAAATA
*
11276500 TGAATTATTAAATA
1 TTAATTATTAAATA
11276514 TTA
1 TTA
11276517 TCATTATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TTAATTATTAAATA
Found at i:11276737 original size:8 final size:8
Alignment explanation
Indices: 11276697--11276742 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
11276687 ATTATGTTTA
*
11276697 ATTAAAAT
1 ATTATAAT
11276705 ATTATAAT
1 ATTATAAT
*
11276713 -TTA-ACT
1 ATTATAAT
11276719 ATTATTAAT
1 ATTA-TAAT
11276728 ATTATAAT
1 ATTATAAT
11276736 ATTATAA
1 ATTATAA
11276743 GTATAACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
6 2 0.06
7 6 0.19
8 18 0.56
9 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTATAAT
Found at i:11276864 original size:21 final size:21
Alignment explanation
Indices: 11276826--11276884 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
11276816 ATTTGATTAG
11276826 AAATAAATTAGT-ATAATTATT
1 AAAT-AATTAGTAATAATTATT
* * *
11276847 TAATTATTAGTAATAATTGTT
1 AAATAATTAGTAATAATTATT
*
11276868 AAATAATTATTAATAAT
1 AAATAATTAGTAATAAT
11276885 AATTGAGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
AAATAATTAGTAATAATTATT
Found at i:11276884 original size:10 final size:10
Alignment explanation
Indices: 11276838--11276934 Score: 56
Period size: 10 Copynumber: 9.5 Consensus size: 10
11276828 ATAAATTAGT
11276838 ATAATTATTTA
1 ATAATTA-TTA
* *
11276849 ATTATTAGTA
1 ATAATTATTA
*
11276859 ATAATTGTTAA
1 ATAATTATT-A
11276870 ATAATTATTA
1 ATAATTATTA
*
11276880 ATAATAATTGA
1 ATAATTATT-A
11276891 GAT-ATTATT-
1 -ATAATTATTA
*
11276900 ATACTTTATTA
1 ATA-ATTATTA
*
11276911 ATTATTATTA
1 ATAATTATTA
* *
11276921 TTATTTA-TA
1 ATAATTATTA
11276930 ATAAT
1 ATAAT
11276935 AGTAATTTAT
Statistics
Matches: 64, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
8 2 0.03
9 5 0.08
10 32 0.50
11 23 0.36
12 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (10 bp):
ATAATTATTA
Found at i:11276900 original size:24 final size:24
Alignment explanation
Indices: 11276847--11276901 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
11276837 TATAATTATT
* **
11276847 TAATTATTAGTAATAATTGTTAAA
1 TAATTATTAATAATAATTGAGAAA
*
11276871 TAATTATTAATAATAATTGAGATA
1 TAATTATTAATAATAATTGAGAAA
*
11276895 TTATTAT
1 TAATTAT
11276902 ACTTTATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (24 bp):
TAATTATTAATAATAATTGAGAAA
Found at i:11276927 original size:20 final size:20
Alignment explanation
Indices: 11276893--11276987 Score: 58
Period size: 20 Copynumber: 4.8 Consensus size: 20
11276883 ATAATTGAGA
11276893 TATTATTA-TACTTTATTAAT
1 TATTATTATTA-TTTATTAAT
11276913 TATTATTATTATTTA-TAA-
1 TATTATTATTATTTATTAAT
* * *
11276931 TAATAGTA--ATTTATAAAT
1 TATTATTATTATTTATTAAT
*
11276949 TATCTATTTCATATAATTATTAAT
1 TAT-TA-TT-AT-TATTTATTAAT
*
11276973 TA-TAGTATTATTTAT
1 TATTATTATTATTTAT
11276988 AGATACTACT
Statistics
Matches: 57, Mismatches: 9, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
16 5 0.09
17 2 0.04
18 8 0.14
19 11 0.19
20 15 0.26
21 4 0.07
22 2 0.04
24 10 0.18
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTATTATTATTTATTAAT
Found at i:11277454 original size:26 final size:26
Alignment explanation
Indices: 11277424--11277483 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
11277414 ATAATTTATT
11277424 ATTAATTATCTGAA-TATTGATTTTA
1 ATTAATTATCTGAATTATTGATTTTA
* * * *
11277449 ATTTAAATATTTTAATTATTGATTTTT
1 A-TTAATTATCTGAATTATTGATTTTA
11277476 ATTAATTA
1 ATTAATTA
11277484 ATAGATATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.04
26 16 0.57
27 11 0.39
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTAATTATCTGAATTATTGATTTTA
Found at i:11278122 original size:15 final size:15
Alignment explanation
Indices: 11278104--11278151 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
11278094 AACTAGTTTA
11278104 AATTTTAATTAATAT
1 AATTTTAATTAATAT
11278119 AATTATTAATTATATAAT
1 AATT-TTAATTA-AT-AT
* *
11278137 AATGTTAATTCATAT
1 AATTTTAATTAATAT
11278152 TATTAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 8 0.29
18 5 0.18
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTTTAATTAATAT
Found at i:11278972 original size:20 final size:20
Alignment explanation
Indices: 11278933--11279020 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
11278923 TCCGTTGATT
*
11278933 AATTATAATTTATTATTATA
1 AATTATAATTAATTATTATA
11278953 AATTATAATTAA-TATATATA
1 AATTATAATTAATTAT-TATA
* *
11278973 ATATTAATATTTAAATTATTTATT
1 A-ATT-ATAATT-AATTA-TTATA
11278997 AATTATAATATAAATTAATTATA
1 AATTATAAT-T-AATT-ATTATA
11279020 A
1 A
11279021 TACATGTCAG
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.05
20 16 0.29
21 3 0.05
22 9 0.16
23 16 0.29
24 7 0.13
25 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATAATTAATTATTATA
Found at i:11279004 original size:31 final size:31
Alignment explanation
Indices: 11278930--11279007 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
11278920 TTATCCGTTG
*
11278930 ATTAATTATAAT-TTATTATTATAAATTATA
1 ATTAATTATAATATTAATATTATAAATTATA
*
11278960 ATTAATATATATAATATTAATATT-TAAATTATTT
1 ATT-A-AT-TATAATATTAATATTATAAATTA-TA
11278994 ATTAATTATAATAT
1 ATTAATTATAATAT
11279008 AAATTAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
30 3 0.07
31 9 0.22
32 4 0.10
33 14 0.34
34 11 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTAATTATAATATTAATATTATAAATTATA
Found at i:11279055 original size:18 final size:20
Alignment explanation
Indices: 11279032--11279078 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
11279022 ACATGTCAGT
*
11279032 TAATTATTATAT-AT-ATAA
1 TAATTATTAAATAATCATAA
11279050 TAATTATTAAATAATCATAA
1 TAATTATTAAATAATCATAA
11279070 TAATATATT
1 TAAT-TATT
11279079 TATTATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 2 0.08
20 8 0.32
21 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATTATTAAATAATCATAA
Found at i:11279543 original size:14 final size:14
Alignment explanation
Indices: 11279519--11279582 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
11279509 AATAGATAAT
11279519 TATTT-TAATATTA
1 TATTTATAATATTA
11279532 TATTTATAATATT-
1 TATTTATAATATTA
*
11279545 TATTAATAA-ATATA
1 TATTTATAATAT-TA
*
11279559 AATTTAT-AT-TTA
1 TATTTATAATATTA
11279571 TATATT-TAATAT
1 TAT-TTATAATAT
11279583 AAAAATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
12 7 0.17
13 20 0.50
14 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTTATAATATTA
Found at i:11280467 original size:176 final size:176
Alignment explanation
Indices: 11279733--11280422 Score: 412
Period size: 180 Copynumber: 3.8 Consensus size: 176
11279723 ACAATTAACA
* * * * * * * * * *
11279733 ATTTCAAAAATTAATAAGTAAGAGTTTAAAAAATGAATCTGTTTACCGAACCAATTTAAATAGTT
1 ATTTCAAAAATTAATAAGT--GA-TTTAAAAAATAAATCTATGTATCAAACTAGTTCAAAAAATT
* * * * * * * * * *
11279798 ATGACTATTTGAACAATTCTATACTTCATATCATTATAACCTTTAGTTTTGTTATAAAACAATTA
63 AT-ACTATTTGAACAATTATATATTTCAAATCATTATAACTTTTTGTTCTATCATAAAACAAATG
* * * * * *
11279863 TTTTTGTTCATAAAAGCTTATTCAAAATAAA-ACAATA-TGAATCTAATAAT
127 TTTCTATTCATACAAGCTTATTTAGAATAAAGA-AATACT-AATCTATTAAT
* * * * * * *
11279913 A-TTCAAAAAATTAATAACTAAGGGATTTAAAAAATTAAT-T-TGTTTGCCGAACCAATTCAAAT
1 ATTTC-AAAAA-T--TAA-TAAGTGATTTAAAAAATAAATCTATGTAT--CAAACTAGTTCAAAA
* * * * * ** * * *
11279975 AGTTAAGACTATATGAACAATTATCTAATTCAAATTGTTATGAC-CTTTG-TCTTGTCATAAAAC
59 AATT-ATACTATTTGAACAATTATATATTTCAAATCATTATAACTTTTTGTTC-TATCATAAAAC
* * * * * *
11280038 -AAT-TTTCTCAATTCATACTAGCTTATTCAAAATAAACTAAA-A-TGAATTTGTTAAT
122 AAATGTTTCT--ATTCATACAAGCTTATTTAGAATAAA-GAAATACT-AATCTATTAAT
* * * * * * * * *
11280093 ATTTCAAAAATTAATAAATAAGATATCTAAAAAATAATTTTGTTTACCTAACCAATTCAAAAAAT
1 ATTTCAAAAATTAATAAGT--GAT-T-TAAAAAATAAATCTATGTATCAAACTAGTTCAAAAAAT
* * *
11280158 TATACTATTTGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATAAAACAAATG
62 TATACTATTTGAACAATTATATATTTCAAATCATTATAACTTTTTGTTCTATCATAAAACAAATG
* * * *
11280223 TTTTTGTTCATATAAGTTTATTTAGAATAAAGAAATACTAATCTATTAAT
127 TTTCTATTCATACAAGCTTATTTAGAATAAAGAAATACTAATCTATTAAT
*
11280273 ATTTCAAAAATTAATAAGTGATTTAAAAAATAAATCTATGTATCAAACTAGTTCAAAAAGTTATG
1 ATTTCAAAAATTAATAAGTGATTTAAAAAATAAATCTATGTATCAAACTAGTTCAAAAAATTAT-
** * * * * * *
11280338 ACTATTTGAGTAATTATTTATTTCAAATCGTTATAATTTTTTGTTCTATTATAAAGCAATTGTTT
65 ACTATTTGAACAATTATATATTTCAAATCATTATAACTTTTTGTTCTATCATAAAACAAATGTTT
*
11280403 CTATTTATACAAGCTTATTT
130 CTATTCATACAAGCTTATTT
11280423 GATTAAAATA
Statistics
Matches: 401, Mismatches: 82, Indels: 57
0.74 0.15 0.11
Matches are distributed among these distances:
176 35 0.09
177 73 0.18
178 10 0.02
179 45 0.11
180 149 0.37
181 72 0.18
182 10 0.02
183 3 0.01
184 4 0.01
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (176 bp):
ATTTCAAAAATTAATAAGTGATTTAAAAAATAAATCTATGTATCAAACTAGTTCAAAAAATTATA
CTATTTGAACAATTATATATTTCAAATCATTATAACTTTTTGTTCTATCATAAAACAAATGTTTC
TATTCATACAAGCTTATTTAGAATAAAGAAATACTAATCTATTAAT
Found at i:11280864 original size:536 final size:531
Alignment explanation
Indices: 11280014--11281078 Score: 1226
Period size: 536 Copynumber: 2.0 Consensus size: 531
11280004 TCAAATTGTT
** * *
11280014 ATGACCTTTGTCTTGTCATAAAACAATTTTCTCAATTCATACTAGCTTATTCAAAATAAACTAAA
1 ATGACCTTTGTCTTGTCATAAAACAATTTTCTCAATTCATAAAAACTTATTCAAAATAAAATAAA
* * * * *
11280079 ATGAATTTGTTAATATTTCAAAAATTAATAAATAAGATATCTAAAAAATAATTTTGTTTACCTAA
66 ATGAATTTATTAATAATCCAAAAATTAATAAATAAGATATCTAAAAAATAACTCTGTTTACCTAA
* * * * * * *
11280144 CCAATTCAAAAAATTATACTATTTGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTG
131 CAAATTCAAAAAATTAGACTATTTAAACAATTATATATTTCAAATAACTATAACCTTTTGTTTTG
*
11280209 TCATAAAACAAATGTTTTTGTTCATATAAGTTTATTTAGAATAAAGAAATACTAATCTATTAATA
196 TCATAAAACAAATGTTTTTGTTCATATAAGCTTATTTAGAATAAAGAAATACTAATCTATTAATA
* *
11280274 TTTCAAAAATTAATAAGTGATTTAAAAAATAAATCTATGTATCAAACTAGTTCAAA-AAGTTATG
261 TTTCAAAAATTAATAAGTGATTTAAAAAATAAATCTATGTACCAAACAAGTTCAAATAA-TTATG
* * * * *
11280338 ACTATTTGAGTAATTATTTATTTCAAATCGTTATAATTTTTTGTTCTATTATAAAGCAATTGTTT
325 ACTATTTGAGTAATTATTTATTGCAAATCGTTATAACTTTTTGTTCTATAATAAAACAATTATTT
* * * * * *
11280403 CTATTTATACAAGCTTATT-TGATTAAAATAATGCTGATTTGTTAATATTTTGACAATTAATAAG
390 CTATTCATACAAGCTTATTCGGATTAAAATAATACTAATTTATAAATATTTTGACAATTAATAAG
* * *
11280467 TAAAAAATTTTAAAAATA-A-ATATGTTTACTACACTAGATCAAATAATCATGACA-ATTTGAAT
455 TAAAAAA-TTTAAAAATATATATATATTTACTAAACAAGATCAAATAATCATGA-ATATTTGAAT
11280529 AATTATCTATTTCG
518 AATTATCTATTTCG
*
11280543 ATGACCTTT-TGCTTTGTCATAAAAGAATTGTT-TCAATTCATAAAAACTTATTCAAAATAAAAT
1 ATGACCTTTGT-C-TTGTCATAAAACAATT-TTCTCAATTCATAAAAACTTATTCAAAATAAAAT
*
11280606 AATACT-AATTTATTAATAATCCAAAAATTTATAATAAAT-AGAT-T-TAAAAAATAACTCTGTT
63 AA-AATGAATTTATTAATAATCCAAAAA--T-TAATAAATAAGATATCTAAAAAATAACTCTGTT
* * * * * *
11280667 T-TCTAAACAAATTTAAATAATTAGGACTATTTAAATAATTATCTATTTGAAATAACTATAACCT
124 TACCT-AACAAATTCAAAAAATTA-GACTATTTAAACAATTATATATTTCAAATAACTATAACCT
* * * * * *
11280731 TTTGTTTTGTCATAAAAGAATTTTTTTCTGTTCATTTGAGCTTATTTCGAATAAA-ATAATAC-A
187 TTTGTTTTGTCATAAAACAAATGTTTT-TGTTCATATAAGCTTATTTAGAATAAAGA-AATACTA
* * * * *
11280794 TATTTGTTAATA-TT-AAGACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTACCAAAC
250 -ATCTATTAATATTTCAA-A-AATTAATAAGT----GATTTAAAAAATAAATCTATGTACCAAAC
* * * * * * *
11280857 AAGTTCAAATCATTATGGCTATTTGAGTAATTATTTATTGCAACTTGTTATGACTTTTTGTTTTG
308 AAGTTCAAATAATTATGACTATTTGAGTAATTATTTATTGCAAATCGTTATAACTTTTTGTTCTA
* * * * *
11280922 TAATAAAATAATTATTTCTGTTCATACAAGTTTATTCGGGTTAAAATAATATTAATTTATAAATA
373 TAATAAAACAATTATTTCTATTCATACAAGCTTATTCGGATTAAAATAATACTAATTTATAAATA
* * *
11280987 TTTTGACAATTAATAAGTAAAAGATTTAAAAATATATATATATTTACTAAACAAGTTCAAATAGT
438 TTTTGACAATTAATAAGTAAAAAATTTAAAAATATATATATATTTACTAAACAAGATCAAATAAT
11281052 CATGAATATTTGAATAATTATCTATTT
503 CATGAATATTTGAATAATTATCTATTT
11281079 TAAATCATTA
Statistics
Matches: 446, Mismatches: 67, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
528 1 0.00
529 12 0.03
530 95 0.21
531 65 0.15
532 53 0.12
533 8 0.02
536 117 0.26
537 47 0.11
538 48 0.11
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (531 bp):
ATGACCTTTGTCTTGTCATAAAACAATTTTCTCAATTCATAAAAACTTATTCAAAATAAAATAAA
ATGAATTTATTAATAATCCAAAAATTAATAAATAAGATATCTAAAAAATAACTCTGTTTACCTAA
CAAATTCAAAAAATTAGACTATTTAAACAATTATATATTTCAAATAACTATAACCTTTTGTTTTG
TCATAAAACAAATGTTTTTGTTCATATAAGCTTATTTAGAATAAAGAAATACTAATCTATTAATA
TTTCAAAAATTAATAAGTGATTTAAAAAATAAATCTATGTACCAAACAAGTTCAAATAATTATGA
CTATTTGAGTAATTATTTATTGCAAATCGTTATAACTTTTTGTTCTATAATAAAACAATTATTTC
TATTCATACAAGCTTATTCGGATTAAAATAATACTAATTTATAAATATTTTGACAATTAATAAGT
AAAAAATTTAAAAATATATATATATTTACTAAACAAGATCAAATAATCATGAATATTTGAATAAT
TATCTATTTCG
Found at i:11281182 original size:363 final size:360
Alignment explanation
Indices: 11279739--11281449 Score: 1353
Period size: 363 Copynumber: 4.8 Consensus size: 360
11279729 AACAATTTCA
* * * * * *
11279739 AAAATTAATAAGTAAGAG-TTTAAAAAATGAATCTGTTTACCGAACCAA-TTTAAATAGTTATGA
1 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACC-AAACAAGTTCAAATAATTATGA
* * * * * * * * * * * *
11279802 CTATTTGAACAATTCTATACTTCATATCATTATAACCTTTAGTTTTGTTATAAAACAATTATTTT
65 CTATTTGAATAATTATCTATTTCAAATCGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTC
* * * * * * *
11279867 TGTTCATAAAAGCTTATTCAAAATAAAACAATA-TGAATCTAATAATATTCAAAAAATTAATAAC
130 TGTTCATACAAGTTTATTCAAAATAAAATAATACT-AATTTATTAATATTCCAAAAATTAATAAG
* * * * * * * * * *
11279931 TAAGGGATTTAAAAAATTAATTTGTTTGCCGAACCAA-TTCAAATAGTTAAGACTATATGAACAA
194 TAA-AGATTTAAAAAATAAATATATTT-ACTAAACAAGTTCAAATAGTTATGACTATTTGAATAA
* ** * * * * *
11279995 TTATCTAATTCAAATTGTTATGACC-TTTGTCTTGTCATAAAACAATT-TTCTCAATTCATACT-
257 TTATCTATTTCAAATCATTATAACCTTTTGTTTTGTAAAAAAACAATTGTT-TCTATTCATA-TA
** * * *
11280057 AGCTTATTCAAAATAAACTAA-AATGAATTTGTTAATATT-TCA
320 AGCTTATT-TGAATAAAATAATACT-AATTTGTTAATATTAT-G
* * * * * * * *
11280099 AAAATTAATAAATAAGATATCTAAAAAATAATTTTGTTTACCTAACCAA-TTCAAAAAATTAT-A
1 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACC-AAACAAGTTCAAATAATTATGA
* * * * * *
11280162 CTATTTGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATAAAACAAATGTTTT
65 CTATTTGAATAATTATCTATTTCAAATCGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTC
* * * * *
11280227 TGTTCATATAAGTTTATTTAGAATAAAGA-AATACTAATCTATTAATATTTCAAAAATTAATAAG
130 TGTTCATACAAGTTTATTCAAAATAAA-ATAATACTAATTTATTAATATTCCAAAAATTAATAAG
* * * * *
11280291 T---GATTTAAAAAATAAATCTATGTA-TCAAACTAGTTCAAAAAGTTATGACTATTTGAGTAAT
194 TAAAGATTTAAAAAATAAATATATTTACT-AAACAAGTTCAAATAGTTATGACTATTTGAATAAT
* * ** * * * * * * *
11280352 TATTTATTTCAAATCGTTATAATTTTTTGTTCTATTATAAAGCAATTGTTTCTATTTATACAAGC
258 TATCTATTTCAAATCATTATAACCTTTTGTTTTGTAAAAAAACAATTGTTTCTATTCATATAAGC
* * * *
11280417 TTATTTGATTAAAATAATGCTGATTTGTTAATATTTTG
323 TTATTTGAATAAAATAATACTAATTTGTTAATATTATG
* * * * * * * *
11280455 ACAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTACTACACTAGATCAAATAATCATGAC
1 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAATTATGAC
* * * * *
11280520 AATTTGAATAATTATCTA-TT----TCG--ATGACCTTTTGCTTTGTCATAAAAGAATTGTTTCA
66 TATTTGAATAATTATCTATTTCAAATCGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCT
* * ** * *
11280578 ATTCATAAAAACTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAAAAATTTATAA-TA
131 GTTCATACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGT-
* * * * * * * * *
11280642 AATAGATTTAAAAAATAACTCTGTTTTCTAAACAAATTTAAATAATTAGGACTATTTAAATAATT
195 AA-AGATTTAAAAAATAAATATATTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATAATT
* * * * * * * * * *
11280707 ATCTATTTGAAATAACTATAACCTTTTGTTTTGTCATAAAAGAATTTTTTTCTGTTCATTTGAGC
259 ATCTATTTCAAATCATTATAACCTTTTGTTTTGTAAAAAAACAA-TTGTTTCTATTCATATAAGC
*
11280772 TTATTTCGAATAAAATAATAC-ATATTTGTTAATATTAAG
323 TTATTT-GAATAAAATAATACTA-ATTTGTTAATATTATG
* * * *
11280811 ACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTACCAAACAAGTTCAAATCATTATGGC
1 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAATTATGAC
* * * * * * * *
11280876 TATTTGAGTAATTATTTATTGCAACTTGTTATGACTTTTTGTTTTGTAATAAAATAATTATTTCT
66 TATTTGAATAATTATCTATTTCAAATCGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCT
**** * * *** *
11280941 GTTCATACAAGTTTATTCGGGTTAAAATAATATTAATTTATAAATATTTTGACAATTAATAAGTA
131 GTTCATACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGT-
* * *
11281006 AAAGATTTAAAAATATATATATATTTACTAAACAAGTTCAAATAGTCATGAATATTTGAATAATT
195 AAAGATTTAAAAA-ATAAATATATTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATAATT
* * * * *
11281071 ATCTATTTTAAATCATTATGACCTTTTCTTTTGTAAAAAAACACTTGTTTCAATTCATATAAGCT
259 ATCTATTTCAAATCATTATAACCTTTTGTTTTGTAAAAAAACAATTGTTTCTATTCATATAAGCT
* ** * *
11281136 TATTTGAAGTAAGATAATACTAATTCATTAGTATTCTG
324 TATTTGAA-TAAAATAATACTAATTTGTTAATATTATG
* * * * * *
11281174 AAAATTAATGAGTAAGAGAATTAAAAAA-AGAATATGTTTACCGAATAAGTTCAAATAGTTATGA
1 AAAATTAATAAGTAAAAGATTTAAAAAATA-AATATGTTTACCAAACAAGTTCAAATAATTATGA
* * *
11281238 CTATTTGAATAATTATCTATTTCAAAACGTTATGA-TCTTTTGTTTTGTCATTAAACAATTGGTT
65 CTATTTGAATAATTATCTATTTCAAATCGTTATGACT-TTTTGTTTTGTCATAAAACAATTGTTT
* * * *
11281302 CTGTTAATGCAAGCTTGT-TTC-AAATAAAGTAAT-TTAAATTTATTAATATTCCAAAAATTAAT
129 CTGTTCATACAAG-TT-TATTCAAAATAAAATAATACT-AATTTATTAATATTCCAAAAATTAAT
* ** * * *
11281364 AAGTAAA-CTTTAAAAAATAAATATATTTTTTGAACAATTTCAAATAGTTATGACTATTTGAAGA
191 AAGTAAAGATTTAAAAAATAAATATATTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATA
11281428 ATTATCTATTTCAAATC-TTATA
256 ATTATCTATTTCAAATCATTATA
11281450 TTTATCTATA
Statistics
Matches: 1068, Mismatches: 245, Indels: 77
0.77 0.18 0.06
Matches are distributed among these distances:
349 2 0.00
350 78 0.07
352 2 0.00
354 79 0.07
355 28 0.03
356 221 0.21
357 53 0.05
358 2 0.00
359 4 0.00
360 182 0.17
361 47 0.04
362 10 0.01
363 275 0.26
364 84 0.08
365 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (360 bp):
AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAATTATGAC
TATTTGAATAATTATCTATTTCAAATCGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCT
GTTCATACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTA
AAGATTTAAAAAATAAATATATTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATAATTAT
CTATTTCAAATCATTATAACCTTTTGTTTTGTAAAAAAACAATTGTTTCTATTCATATAAGCTTA
TTTGAATAAAATAATACTAATTTGTTAATATTATG
Found at i:11281361 original size:181 final size:180
Alignment explanation
Indices: 11279737--11281448 Score: 1233
Period size: 181 Copynumber: 9.6 Consensus size: 180
11279727 TTAACAATTT
* * * *
11279737 CAAAAATTAATAAGTAAGAG-TTTAAAAAATGAATCTGTTTACCGAACCAA-TTTAAATAGTTAT
1 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACC-AAACAAGTTCAAATAGTTAT
* * * * * * * * * *
11279800 GACTATTTGAACAATTCTATACTTCATATCATTATAACCTTTAGTTTTGTTATAAAACAATTATT
65 GACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * * * * *
11279865 TTTGTTCATAAAAGCTTATTCAAAATAAAACAATA-TGAATCTAATAATATTC
130 TCTGTTCATACAAGCTTTTTC-AAATAAAATAATACT-AATTTATTAATATTC
* * * * * * * *
11279917 AAAAAATTAATAACTAAGGGATTTAAAAAATTAATTTGTTTGCCGAACCAA-TTCAAATAGTTAA
1 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACC-AAACAAGTTCAAATAGTTAT
* * * * *
11279981 GACTATATGAACAATTATCTAATTCAAATTGTTATGACC-TTTGTCTTGTCATAAAACAATT-TT
65 GACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
** * * * * * *
11280044 CTCAATTCATACTAGCTTATTCAAAATAAACTAA-AATGAATTTGTTAATATTT
130 -TCTGTTCATACAAGCTTTTTC-AAATAAAATAATACT-AATTTATTAATATTC
* * * * * * * *
11280097 CAAAAATTAATAAATAAGATATCTAAAAAATAATTTTGTTTACCTAACCAA-TTCAAAAAATTAT
1 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACC-AAACAAGTTCAAATAGTTAT
* * * * * *
11280161 -ACTATTTGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATAAAACAAATGTT
65 GACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * * * *
11280225 TTTGTTCATATAAG-TTTATTTAGAATAAAGA-AATACTAATCTATTAATATTT
130 TCTGTTCATACAAGCTTT-TTCA-AATAAA-ATAATACTAATTTATTAATATTC
* * * * * *
11280277 CAAAAATTAATAAGT----GATTTAAAAAATAAATCTATGTATCAAACTAGTTCAAAAAGTTATG
1 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATG
* * * ** * * * *
11280338 ACTATTTGAGTAATTATTTATTTCAAATCGTTATAATTTTTTGTTCTATTATAAAGCAATTGTTT
66 ACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* * * * * * * *
11280403 CTATTTATACAAGCTTATTT-GATTAAAATAATGCTGATTTGTTAATATTT
131 CTGTTCATACAAGCTT-TTTCAAATAAAATAATACTAATTTATTAATATTC
** * * * * * * * * * *
11280453 TGACAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTACTACACTAGATCAAATAATCATG
1 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATG
* * *
11280518 ACAATTTGAATAATTATCTA-TT----TCG--ATGACCTTTTGCTTTGTCATAAAAGAATTGTTT
66 ACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
** * * * *
11280576 CAATTCATAAAAACTTATTCAAAATAAAATAATACTAATTTATTAATAATC
131 CTGTTCATACAAGCTTTTTC-AAATAAAATAATACTAATTTATTAATATTC
* * * * * * * * * *
11280627 CAAAAATTTATAA-TAAATAGATTTAAAAAATAACTCTGTTTTCTAAACAAATTTAAATAATTAG
1 CAAAAATTAATAAGT-AAGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTAT
* * *** * * *
11280691 GACTATTTAAATAATTATCTATTTGAAATAACTATAACCTTTTGTTTTGTCATAAAAGAATTTTT
65 GACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAA-TTGT
*** * *
11280756 TTCTGTTCATTTGAGCTTATTTCGAATAAAATAATAC-ATATTTGTTAATATT-
129 TTCTGTTCATACAAGCTT-TTTCAAATAAAATAATACTA-ATTTATTAATATTC
* *
11280808 -AAGACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTACCAAACAAGTTCAAATCA-TT
1 CAA-A-AATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAAT-AGTT
* * * * * * * * * *
11280871 ATGGCTATTTGAGTAATTATTTATTGCAACTTGTTATGACTTTTTGTTTTGTAATAAAATAATTA
63 ATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTG
*** * * *
11280936 TTTCTGTTCATACAAG-TTTATTCGGGTTAAAATAATATTAATTTATAAATATTT
128 TTTCTGTTCATACAAGCTTT-TTC-AAATAAAATAATACTAATTTATTAATATTC
** * * * * * *
11280990 TGACAATTAATAAGTAAAAGATTTAAAAATATATATATATTTACTAAACAAGTTCAAATAGTCAT
1 CAAAAATTAATAAGTAAGAGATTTAAAAA-ATAAATATGTTTACCAAACAAGTTCAAATAGTTAT
* * * * * * *
11281055 GAATATTTGAATAATTATCTATTTTAAATCATTATGACCTTTTCTTTTGTAAAAAAACACTTGTT
65 GACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
** * * * * * *
11281120 TCAATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTCATTAGTATTC
130 TCTGTTCATACAAGCTT-TTTCAAATAAAATAATACTAATTTATTAATATTC
** * * * *
11281172 TGAAAATTAATGAGTAAGAGAATTAAAAAA-AGAATATGTTTACCGAATAAGTTCAAATAGTTAT
1 CAAAAATTAATAAGTAAGAGATTTAAAAAATA-AATATGTTTACCAAACAAGTTCAAATAGTTAT
* * * *
11281236 GACTATTTGAATAATTATCTATTTCAAAACGTTATGATCTTTTGTTTTGTCATTAAACAATTGGT
65 GACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * * *
11281301 TCTGTTAATGCAAGCTTGTTTCAAATAAAGTAAT-TTAAATTTATTAATATTC
130 TCTGTTCATACAAGCTT-TTTCAAATAAAATAATACT-AATTTATTAATATTC
* * **** *
11281353 CAAAAATTAATAAGTAA-A-CTTTAAAAAATAAATATATTTTTTGAACAATTTCAAATAGTTATG
1 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATG
*
11281416 ACTATTTGAAGAATTATCTATTTCAAATC-TTAT
66 ACTATTTGAATAATTATCTATTTCAAATCGTTAT
11281449 ATTTATCTAT
Statistics
Matches: 1204, Mismatches: 281, Indels: 96
0.76 0.18 0.06
Matches are distributed among these distances:
172 2 0.00
173 37 0.03
174 87 0.07
175 10 0.01
176 64 0.05
177 63 0.05
178 8 0.01
179 104 0.09
180 255 0.21
181 295 0.25
182 268 0.22
183 10 0.01
184 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATG
ACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
CTGTTCATACAAGCTTTTTCAAATAAAATAATACTAATTTATTAATATTC
Found at i:11281482 original size:14 final size:14
Alignment explanation
Indices: 11281460--11281507 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
11281450 TTTATCTATA
11281460 ATAATAATTATTAT
1 ATAATAATTATTAT
* *
11281474 ATTATAATTATCAT
1 ATAATAATTATTAT
11281488 ATAATAATATATTAT
1 ATAATAAT-TATTAT
*
11281503 CTAAT
1 ATAAT
11281508 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATAATTATTAT
Found at i:11282316 original size:6 final size:6
Alignment explanation
Indices: 11282300--11282366 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
11282290 ATATAGTATT
* * * *
11282300 TAATTA AAATTA TAATTG T--TTA TATTTA TTATTA T-ATTA -AATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
11282344 TAATTA TAATATA TAA-TA TAATT
1 TAATTA TAAT-TA TAATTA TAATT
11282367 TATATATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
4 3 0.06
5 13 0.27
6 28 0.57
7 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:11282324 original size:33 final size:32
Alignment explanation
Indices: 11282287--11282348 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
11282277 ATGCCAAAAA
11282287 TATATATAGTATT-TAATTAAAATTATAATTGTT
1 TATATATAGTATTAT-ATT-AAATTATAATTGTT
* *
11282320 TATATTTATTATTATATTAAATTATAATT
1 TATATATAGTATTATATTAAATTATAATT
11282349 ATAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 11 0.42
33 14 0.54
34 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (32 bp):
TATATATAGTATTATATTAAATTATAATTGTT
Found at i:11282365 original size:18 final size:18
Alignment explanation
Indices: 11282342--11282376 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11282332 TATATTAAAT
11282342 TATAA-TTATAATATATAA
1 TATAATTTAT-ATATATAA
11282360 TATAATTTATATATATA
1 TATAATTTATATATATA
11282377 GCTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAATTTATATATATAA
Found at i:11282570 original size:17 final size:17
Alignment explanation
Indices: 11282521--11282575 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
11282511 TTTCTATAAT
11282521 TATAATTATA-ATTAGTA
1 TATAATTATATATTA-TA
* *
11282538 TAATAAATAATTTATTATA
1 T-AT-AATTATATATTATA
11282557 TATAATTATATATTATA
1 TATAATTATATATTATA
11282574 TA
1 TA
11282576 ATAAATGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 8 0.26
20 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATAATTATATATTATA
Found at i:11283531 original size:178 final size:178
Alignment explanation
Indices: 11283036--11283629 Score: 721
Period size: 179 Copynumber: 3.3 Consensus size: 178
11283026 TGGTAAAAGT
* * * *
11283036 ATTATTTTATTTTG-AATAAACTTATAT-AGACAGAAACAATTGGTTTATCACAAAACAAAAGGT
1 ATTATTTTA-TTTGAAATAAGCTTGTATGA-ATAGAAACAATTGTTTTATCACAAAACAAAAGGT
* * *
11283099 CATAACTATTTAAAATAGATAATTGTTCAAATAGTCAGATCTATTTGAACATGTTCAAAAAACAA
64 CATAACTATTTGAAATAGATAATTGTTCAAATAGTCAAAT-TATTTGAACATGTTCAAAAAATAA
11283164 ATTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATAAATTTA
128 ATTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATAAATTTA
* * * *
11283215 ATTATTTTATTCGGAATAAGCTTGTATGGATAGAAACAATTAG-TTTATCACAAAATAAAAGGTC
1 ATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATT-GTTTTATCACAAAACAAAAGGTC
* * *
11283279 ATAACTATTTGAAATAAATAATTGTTCAAATAGTCAGAACTATTCGAACATGTTCAAAAAATAAA
65 ATAACTATTTGAAATAGATAATTGTTCAAATAGTCA-AATTATTTGAACATGTTCAAAAAATAAA
*
11283344 TTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATTAATTTA
129 TTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATAAATTTA
* * *
11283394 ATTATTATATTTGAAATAA-TTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCA
1 ATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATTGTTTTATCACAAAACAAAAGGTCA
* * * * * * ** *
11283458 TAACAATTTGAAATAGATAATTATTGAAATAGTCATCATTATTTAAACTTGTTCAGTAAATAGAT
66 TAACTATTTGAAATAGATAATTGTTCAAATAGTCA-AATTATTTGAACATGTTCAAAAAATAAAT
* * * * *
11283523 TCATTTTTTTAAATCTCTTACTCATTAATTTTTAGAATATTAATAAATTAGTA
130 TTA-TTTTTTAAAT-TTTTACTTATTAAATTTTGGAATATTAATAAATT--TA
* * * * * *
11283576 A-TATTTTATTTCAAATAAGCATATATGAATTGATACAATTGTTTTATGACAAAA
1 ATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATTGTTTTATCACAAAA
11283630 TAATTAAATA
Statistics
Matches: 359, Mismatches: 46, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
177 1 0.00
178 96 0.27
179 183 0.51
180 31 0.09
181 15 0.04
182 33 0.09
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (178 bp):
ATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATTGTTTTATCACAAAACAAAAGGTCA
TAACTATTTGAAATAGATAATTGTTCAAATAGTCAAATTATTTGAACATGTTCAAAAAATAAATT
TATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATAAATTTA
Found at i:11283844 original size:21 final size:21
Alignment explanation
Indices: 11283810--11283849 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
11283800 ATCATGTTAC
11283810 AAATTAATTTATAA-ATTAGT
1 AAATTAATTTATAACATTAGT
*
11283830 AAATTATTATTATAACATTA
1 AAATTAAT-TTATAACATTA
11283850 TTAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
AAATTAATTTATAACATTAGT
Found at i:11284131 original size:12 final size:12
Alignment explanation
Indices: 11284114--11284139 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11284104 AAATTTGAGA
11284114 TTATTTTTTTCT
1 TTATTTTTTTCT
11284126 TTATTTTTTTCT
1 TTATTTTTTTCT
11284138 TT
1 TT
11284140 TTATAGCTTA
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:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTATTTTTTTCT
Found at i:11286610 original size:20 final size:20
Alignment explanation
Indices: 11286595--11286632 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
11286585 AGAAAAATGT
11286595 GTGAAAAAAAACAAAAAAAA
1 GTGAAAAAAAACAAAAAAAA
11286615 GTGAAAAAAAACAAAAAA
1 GTGAAAAAAAACAAAAAA
11286633 GAGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (20 bp):
GTGAAAAAAAACAAAAAAAA
Found at i:11286623 original size:18 final size:17
Alignment explanation
Indices: 11286600--11286659 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
11286590 AATGTGTGAA
11286600 AAAAAACAAAAAAAAGTG
1 AAAAAA-AAAAAAAAGTG
*
11286618 AAAAAAAACAAAAAAGAG
1 AAAAAAAA-AAAAAAGTG
11286636 AAAAAAATGAAAAAAA-TG
1 AAAAAAA--AAAAAAAGTG
11286654 AAAAAA
1 AAAAAA
11286660 TGAAAACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 2 0.05
18 28 0.76
19 6 0.16
20 1 0.03
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGTG
Found at i:11286641 original size:20 final size:20
Alignment explanation
Indices: 11286598--11286642 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11286588 AAAATGTGTG
**
11286598 AAAAAAAACAAAAAAAAGTG
1 AAAAAAAACAAAAAAAAGAA
*
11286618 AAAAAAAACAAAAAAGAGAA
1 AAAAAAAACAAAAAAAAGAA
11286638 AAAAA
1 AAAAA
11286643 TGAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.84, C:0.04, G:0.09, T:0.02
Consensus pattern (20 bp):
AAAAAAAACAAAAAAAAGAA
Found at i:11286647 original size:9 final size:9
Alignment explanation
Indices: 11286608--11286665 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
11286598 AAAAAAAACA
11286608 AAAAAAAGTG
1 AAAAAAA-TG
**
11286618 AAAAAAAAC
1 AAAAAAATG
11286627 AAAAAAGA-G
1 AAAAAA-ATG
11286636 AAAAAAATG
1 AAAAAAATG
11286645 AAAAAAATG
1 AAAAAAATG
11286654 -AAAAAATG
1 AAAAAAATG
11286662 AAAA
1 AAAA
11286666 CTTAAACTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 9 0.21
9 25 0.60
10 8 0.19
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (9 bp):
AAAAAAATG
Found at i:11286659 original size:27 final size:27
Alignment explanation
Indices: 11286600--11286651 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11286590 AATGTGTGAA
11286600 AAAAAACAAAAAAAAGTGAAAAAAAAC
1 AAAAAACAAAAAAAAGTGAAAAAAAAC
*
11286627 AAAAAAGAGAAAAAAA-TGAAAAAAA
1 AAAAAACA-AAAAAAAGTGAAAAAAA
11286652 TGAAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.83, C:0.04, G:0.10, T:0.04
Consensus pattern (27 bp):
AAAAAACAAAAAAAAGTGAAAAAAAAC
Found at i:11286723 original size:23 final size:23
Alignment explanation
Indices: 11286697--11286743 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11286687 ATTAAAACAG
*
11286697 ATTTTAAATAATAATAATTTTAT
1 ATTTTAAATAATAATAATGTTAT
* *
11286720 ATTTTACATATTAATAATGTTAT
1 ATTTTAAATAATAATAATGTTAT
11286743 A
1 A
11286744 ATAGTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTTAAATAATAATAATGTTAT
Found at i:11286875 original size:12 final size:12
Alignment explanation
Indices: 11286860--11286894 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
11286850 TTTTTTAGAA
11286860 TATTAATTAAAC
1 TATTAATTAAAC
11286872 TATTTAATTAAAC
1 TA-TTAATTAAAC
*
11286885 TACTAATTAA
1 TATTAATTAA
11286895 TAATAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (12 bp):
TATTAATTAAAC
Found at i:11287654 original size:20 final size:21
Alignment explanation
Indices: 11287620--11287664 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
11287610 AATGATAAAT
*
11287620 ATTTTAATTATTTTAATTTTA
1 ATTTAAATTATTTTAATTTTA
*
11287641 ATTTAAATTA-TTTAATTTTT
1 ATTTAAATTATTTTAATTTTA
11287661 ATTT
1 ATTT
11287665 TAATATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTAAATTATTTTAATTTTA
Found at i:11287666 original size:21 final size:21
Alignment explanation
Indices: 11287619--11287672 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
11287609 AAATGATAAA
11287619 TATTTT-AATTATTTTAATTT
1 TATTTTAAATTATTTTAATTT
*
11287639 TAATTTAAATTA-TTTAATTTT
1 TATTTTAAATTATTTTAA-TTT
11287660 TATTTTAATATTA
1 TATTTTAA-ATTA
11287673 ATAATTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.34
21 15 0.52
22 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTAAATTATTTTAATTT
Found at i:11287677 original size:21 final size:21
Alignment explanation
Indices: 11287619--11287696 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
11287609 AAATGATAAA
*
11287619 TATTTTAATTATT-TTAA-TTT
1 TATTTTAA-TATTAATAATTTT
* *
11287639 TAATTTAA-ATTATTTAATTTT
1 TATTTTAATATTA-ATAATTTT
*
11287660 TATTTTAATATTAATAATTTAG
1 TATTTTAATATTAATAATTT-T
*
11287682 TATTTAAATATTAAT
1 TATTTTAATATTAAT
11287697 TAGATTCAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.06
20 11 0.23
21 16 0.33
22 18 0.38
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTTTAATATTAATAATTTT
Found at i:11287679 original size:26 final size:26
Alignment explanation
Indices: 11287629--11287680 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11287619 TATTTTAATT
*
11287629 ATTTTAATTTTAATTTAAATTATTTA
1 ATTTTAATTTTAATTTAAATAATTTA
*
11287655 ATTTTTATTTTAATATT-AATAATTTA
1 ATTTTAATTTTAAT-TTAAATAATTTA
11287681 GTATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTAATTTTAATTTAAATAATTTA
Found at i:11287687 original size:26 final size:26
Alignment explanation
Indices: 11287615--11287687 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
11287605 TTTAAAATGA
*
11287615 TAAATATTTTAATTATTTTAATTTTAATT
1 TAAATAATTTAA-TA-TTT-ATTTTAATT
* *
11287644 TAAATTATTTAATTTTTATTTTAATAT
1 TAAATAATTTAATATTTATTTTAAT-T
*
11287671 T-AATAATTTAGTATTTA
1 TAAATAATTTAATATTTA
11287688 AATATTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 21 0.57
27 5 0.14
28 1 0.03
29 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
TAAATAATTTAATATTTATTTTAATT
Found at i:11287781 original size:25 final size:25
Alignment explanation
Indices: 11287753--11287800 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11287743 ATAAGCTATG
11287753 AATTA-GAATAATAATTATCAAAAAT
1 AATTATGAA-AATAATTATCAAAAAT
* *
11287778 AATTATTAAAATAATTATTAAAA
1 AATTATGAAAATAATTATCAAAA
11287801 TCAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
AATTATGAAAATAATTATCAAAAAT
Found at i:11287788 original size:12 final size:12
Alignment explanation
Indices: 11287762--11287815 Score: 72
Period size: 13 Copynumber: 4.3 Consensus size: 12
11287752 GAATTAGAAT
*
11287762 AATAATTATCAAA
1 AATAATTAT-TAA
11287775 AATAATTATTAA
1 AATAATTATTAA
11287787 AATAATTATTAA
1 AATAATTATTAA
*
11287799 AATCAATAATTAA
1 AAT-AATTATTAA
11287812 AATA
1 AATA
11287816 TTTTGAGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
12 18 0.47
13 20 0.53
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (12 bp):
AATAATTATTAA
Found at i:11287810 original size:25 final size:25
Alignment explanation
Indices: 11287762--11287815 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
11287752 GAATTAGAAT
*
11287762 AATAATTATCAAAAATAATTATTAA
1 AATAATTATCAAAAATAATAATTAA
*
11287787 AATAATTAT-TAAAATCAATAATTAA
1 AATAATTATCAAAAAT-AATAATTAA
11287812 AATA
1 AATA
11287816 TTTTGAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAATTATCAAAAATAATAATTAA
Found at i:11288655 original size:35 final size:36
Alignment explanation
Indices: 11288611--11288739 Score: 96
Period size: 35 Copynumber: 3.7 Consensus size: 36
11288601 ATAATTATTT
11288611 TATAATTTAATAATTTGAATAATAATATTAT-C-TAA
1 TATAATTTAATAATTT-AATAATAATATTATACTTAA
* *
11288646 TATAATTTAAT--TTTATTAATTATATTATACTTAA
1 TATAATTTAATAATTTAATAATAATATTATACTTAA
* * * *
11288680 -ATATTTTAATAATTATTATTATAA-ATT-TA-ATATA
1 TATAATTTAATAATT-TAATAATAATATTATACTTA-A
11288714 TATAATTATATATAA-TTAATAATAAT
1 TATAATT-TA-ATAATTTAATAATAAT
11288740 TCAAATATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
32 12 0.16
33 15 0.21
34 6 0.08
35 28 0.38
36 8 0.11
37 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (36 bp):
TATAATTTAATAATTTAATAATAATATTATACTTAA
Found at i:11288710 original size:21 final size:23
Alignment explanation
Indices: 11288684--11288737 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
11288674 ACTTAAATAT
11288684 TTTAATAAT-T-ATTAT-TATAAA
1 TTTAATAATATAATTATATAT-AA
11288705 TTTAATATATATAATTATATATAA
1 TTTAATA-ATATAATTATATATAA
11288729 -TTAATAATA
1 TTTAATAATA
11288738 ATTCAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 7 0.24
22 5 0.17
23 7 0.24
24 7 0.24
25 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAATAATATAATTATATATAA
Done.