Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 81 of 117
Found at i:14625792 original size:30 final size:31
Alignment explanation
Indices: 14625722--14625800 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
14625712 ACTTTTTTGC
** * *
14625722 CTAACAAGTGGTATCAGAGTTATTGTGATCT
1 CTAACAAGTAATATTAGAGTTATCGTGATCT
* *
14625753 CTAACAAGTACTATTAGAGTTGTCGTGATCT
1 CTAACAAGTAATATTAGAGTTATCGTGATCT
14625784 CT-ACAAGTAATATTAGA
1 CTAACAAGTAATATTAGA
14625801 ACTGAAAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 14 0.33
31 28 0.67
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (31 bp):
CTAACAAGTAATATTAGAGTTATCGTGATCT
Found at i:14626601 original size:31 final size:31
Alignment explanation
Indices: 14626563--14626640 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
14626553 GGTTTTTATG
* *
14626563 CCTAACAAGTAATATCAAAG-CTGTTGTGATC
1 CCTAACAAGTGATATCAAAGTC-ATTGTGATC
* *
14626594 CCTAACAAGTGTTATCAGAGTCATTGTGATC
1 CCTAACAAGTGATATCAAAGTCATTGTGATC
14626625 CCT-ACAAGTGATATCA
1 CCTAACAAGTGATATCA
14626641 GAATTGAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 12 0.29
31 28 0.68
32 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (31 bp):
CCTAACAAGTGATATCAAAGTCATTGTGATC
Found at i:14627893 original size:12 final size:12
Alignment explanation
Indices: 14627878--14627906 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14627868 AATAAAAATT
14627878 TAATTAAATAAA
1 TAATTAAATAAA
14627890 TAATTAAATAAA
1 TAATTAAATAAA
14627902 -AATTA
1 TAATTA
14627907 TGTACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATTAAATAAA
Found at i:14632680 original size:21 final size:21
Alignment explanation
Indices: 14632654--14632695 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14632644 CCTCGAGAAG
14632654 TCAAACAAGAAAGATGTCAAT
1 TCAAACAAGAAAGATGTCAAT
*
14632675 TCAAACAAGAAGGATGTCAAT
1 TCAAACAAGAAAGATGTCAAT
14632696 CTTTGGTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (21 bp):
TCAAACAAGAAAGATGTCAAT
Found at i:14634836 original size:28 final size:28
Alignment explanation
Indices: 14634796--14634851 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
14634786 AGGCTTTTCT
*
14634796 TACTGGGTTAGGTGAGAACCAAGATGCA
1 TACTAGGTTAGGTGAGAACCAAGATGCA
* *
14634824 TACTAGGTTAGGTGAGAGCCGAGATGCA
1 TACTAGGTTAGGTGAGAACCAAGATGCA
14634852 CATTTATGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.21
Consensus pattern (28 bp):
TACTAGGTTAGGTGAGAACCAAGATGCA
Found at i:14635097 original size:26 final size:27
Alignment explanation
Indices: 14635043--14635097 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
14635033 AAAATACCAA
* *
14635043 AAAAAATGTCAAGATAAAAAATATTTT
1 AAAAAATGTCAAGATAAAAAAAATGTT
14635070 AAAAAAT-TCTAA-ATAAAAAAAATGTT
1 AAAAAATGTC-AAGATAAAAAAAATGTT
14635096 AA
1 AA
14635098 TGTAAACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (27 bp):
AAAAAATGTCAAGATAAAAAAAATGTT
Found at i:14637816 original size:12 final size:12
Alignment explanation
Indices: 14637751--14637820 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
14637741 AGAGGTTTCA
**
14637751 TTTAGGGTTTAC
1 TTTAGGGTTTGG
*
14637763 TTTAAGGTTTGG
1 TTTAGGGTTTGG
** *
14637775 CGTAGGGTTAGG
1 TTTAGGGTTTGG
* **
14637787 TATAGGGTTTCA
1 TTTAGGGTTTGG
*
14637799 TCTAGGGTTTGG
1 TTTAGGGTTTGG
14637811 TTTAGGGTTT
1 TTTAGGGTTT
14637821 AAGGTTTTAT
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.16, C:0.06, G:0.34, T:0.44
Consensus pattern (12 bp):
TTTAGGGTTTGG
Found at i:14637827 original size:31 final size:31
Alignment explanation
Indices: 14637792--14637851 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
14637782 TTAGGTATAG
*
14637792 GGTTTCATCTAGGGTTTGGTTTAGGGTTTAA
1 GGTTTCATCTAGGGTTTGGTTTAAGGTTTAA
* *
14637823 GGTTTTATCTATGGTTTGGTTTAAGGTTT
1 GGTTTCATCTAGGGTTTGGTTTAAGGTTT
14637852 CACCTACGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.15, C:0.05, G:0.30, T:0.50
Consensus pattern (31 bp):
GGTTTCATCTAGGGTTTGGTTTAAGGTTTAA
Found at i:14637862 original size:24 final size:24
Alignment explanation
Indices: 14637816--14637863 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14637806 TTTGGTTTAG
* * *
14637816 GGTTTAAGGTTTTATCTATGGTTT
1 GGTTTAAGGTTTCACCTACGGTTT
14637840 GGTTTAAGGTTTCACCTACGGTTT
1 GGTTTAAGGTTTCACCTACGGTTT
14637864 CATTTAGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.25, T:0.48
Consensus pattern (24 bp):
GGTTTAAGGTTTCACCTACGGTTT
Found at i:14637869 original size:24 final size:24
Alignment explanation
Indices: 14637818--14637875 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
14637808 TGGTTTAGGG
* * * **
14637818 TTTAAGGTTTTATCTATGGTTTGG
1 TTTAAGGTTTCACCTACGGTTTCA
14637842 TTTAAGGTTTCACCTACGGTTTCA
1 TTTAAGGTTTCACCTACGGTTTCA
*
14637866 TTTAGGGTTT
1 TTTAAGGTTT
14637876 GGATTTACTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.17, C:0.10, G:0.22, T:0.50
Consensus pattern (24 bp):
TTTAAGGTTTCACCTACGGTTTCA
Found at i:14637935 original size:24 final size:24
Alignment explanation
Indices: 14637889--14637935 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
14637879 TTTACTACTT
* *
14637889 GGTTTAAGGTTTGGCCTATGATTA
1 GGTTTAAGGTTTGACCTAAGATTA
* *
14637913 GGTTTAATGTTTGACTTAAGATT
1 GGTTTAAGGTTTGACCTAAGATT
14637936 TCATTTAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (24 bp):
GGTTTAAGGTTTGACCTAAGATTA
Found at i:14643146 original size:42 final size:42
Alignment explanation
Indices: 14643098--14643177 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
14643088 AAGTTAGAAC
*
14643098 AATTACTTAGGTAAATTTAATTTCAAGTTCATCACTTAGGAT
1 AATTACTTAGGTAAATTTAACTTCAAGTTCATCACTTAGGAT
14643140 AATTACTTAGGTAAATTTAACTTCAAGTTCATCACTTA
1 AATTACTTAGGTAAATTTAACTTCAAGTTCATCACTTA
14643178 ACTTAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (42 bp):
AATTACTTAGGTAAATTTAACTTCAAGTTCATCACTTAGGAT
Found at i:14650586 original size:161 final size:159
Alignment explanation
Indices: 14650367--14650675 Score: 377
Period size: 161 Copynumber: 1.9 Consensus size: 159
14650357 TTATGACAAC
* * * *
14650367 TGAACTTGGCTACCACGCTTCATATGTGTGAAAATATTATGATTTATGTGTATTTAGGACTTTTA
1 TGAACTTGGCTACCACGCTTAATATGTATCAAAATATAATGATTTATGTGTATTTAGGACTTTTA
* * * * *
14650432 TGTCATAAAAAGGCAAAAATATACAT-TTTCTACTATATTTATATTTTAACAACTTAGATATTTC
66 TGCCATAAAAAGGCAAAAATATAAATCTGT-TACTATATTTATATTTTAACAACTTAGATAGTTA
*
14650496 GAATACATGATATTAAACTTATTTGAATGAT
130 GAATAAATG-TATTAAACTTATTTGAATGAT
* * * * *
14650527 TGAACTTGGTTACCATGCTTAATATGTTATCAATATATAATGGTTTATGTGTTTTTAGGACTTTT
1 TGAACTTGGCTACCACGCTTAATATG-TATCAAAATATAATGATTTATGTGTATTTAGGACTTTT
* * * * * * *
14650592 ATGCCGTAAAATGGCAAAATTTTAAATCTGTTGCTATATTTCTATTTTAGCAACTTAGATAGTTA
65 ATGCCATAAAAAGGCAAAAATATAAATCTGTTACTATATTTATATTTTAACAACTTAGATAGTTA
*
14650657 TAATAAATGTATTAAACTT
130 GAATAAATGTATTAAACTT
14650676 GTCCAAATGA
Statistics
Matches: 124, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
160 33 0.27
161 89 0.72
162 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (159 bp):
TGAACTTGGCTACCACGCTTAATATGTATCAAAATATAATGATTTATGTGTATTTAGGACTTTTA
TGCCATAAAAAGGCAAAAATATAAATCTGTTACTATATTTATATTTTAACAACTTAGATAGTTAG
AATAAATGTATTAAACTTATTTGAATGAT
Found at i:14663377 original size:40 final size:40
Alignment explanation
Indices: 14663314--14663395 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
14663304 CCCATCAATG
* *
14663314 CATGGCAAAACTCCCCCTTAATTTGTGCATCCTAATCCAA
1 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCAA
* *
14663354 CATGGCAAAACTCTCCCTCAATTTATGCATTCTAATCCAA
1 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCAA
14663394 CA
1 CA
14663396 CAACTCAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.28
Consensus pattern (40 bp):
CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCAA
Found at i:14666764 original size:21 final size:20
Alignment explanation
Indices: 14666740--14666781 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
14666730 TTTTCATTCA
14666740 TCAAATCATCAAA-TTTCTTTT
1 TCAAATCA--AAATTTTCTTTT
*
14666761 TCAATTCAAAATTTTCTTTT
1 TCAAATCAAAATTTTCTTTT
14666781 T
1 T
14666782 GTAAAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 9 0.47
21 7 0.37
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (20 bp):
TCAAATCAAAATTTTCTTTT
Found at i:14679514 original size:18 final size:18
Alignment explanation
Indices: 14679467--14679506 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14679457 TATGAAAAAC
14679467 AAAAATTAAAAATAATCT
1 AAAAATTAAAAATAATCT
14679485 AAAAA-TAAAAA-AATACT
1 AAAAATTAAAAATAAT-CT
14679502 AAAAA
1 AAAAA
14679507 ATGTAAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 13 0.62
18 5 0.24
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATTAAAAATAATCT
Found at i:14679790 original size:18 final size:19
Alignment explanation
Indices: 14679752--14679808 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
14679742 TAATTTGTTG
14679752 TATAAATTGCAAAGAT-A-TA
1 TATAAA-TGCAAA-ATAATTA
14679771 TATAAATGCAAAA-AATTA
1 TATAAATGCAAAATAATTA
* *
14679789 TATATATGTAAAATAATTA
1 TATAAATGCAAAATAATTA
14679808 T
1 T
14679809 TAGACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 2 0.06
18 19 0.58
19 12 0.36
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (19 bp):
TATAAATGCAAAATAATTA
Found at i:14681395 original size:13 final size:13
Alignment explanation
Indices: 14681375--14681408 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14681365 TTAAATTGCT
*
14681375 ACAATATTCTCTC
1 ACAATATTCTATC
*
14681388 ATAATATTCTATC
1 ACAATATTCTATC
14681401 ACAATATT
1 ACAATATT
14681409 AAAAAATCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (13 bp):
ACAATATTCTATC
Found at i:14682173 original size:16 final size:14
Alignment explanation
Indices: 14682138--14682215 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
14682128 AGCTTTGATA
14682138 TATTAAT-TTAAAT
1 TATTAATATTAAAT
14682151 TATTAATATTATAAT
1 TATTAATATTA-AAT
*
14682166 TGATTAATA-TATAT
1 T-ATTAATATTAAAT
* * *
14682180 GA-CAATAATAATAT
1 TATTAATATTAA-AT
* *
14682194 TATTAATATGATAT
1 TATTAATATTAAAT
14682208 TATTAATA
1 TATTAATA
14682216 AATTAATTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
12 4 0.08
13 10 0.20
14 18 0.36
15 11 0.22
16 7 0.14
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:14686947 original size:17 final size:17
Alignment explanation
Indices: 14686908--14686949 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14686898 TAAATTTTTC
* *
14686908 AAAAAAAA-AATCAATT
1 AAAAAAAATAATAAAAT
*
14686924 AATAAAAATAATAAAAT
1 AAAAAAAATAATAAAAT
14686941 AAAAAAAAT
1 AAAAAAAAT
14686950 TTGACTCGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAAAATAATAAAAT
Found at i:14686983 original size:2 final size:2
Alignment explanation
Indices: 14686976--14687001 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14686966 AACTCAGCTA
14686976 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14687002 GAACATAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14687869 original size:16 final size:17
Alignment explanation
Indices: 14687845--14687878 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14687835 AAATTAAAGT
14687845 ATTAAAAAAAA-TAAAA
1 ATTAAAAAAAAGTAAAA
*
14687861 ATTACAAAAAAGTAAAA
1 ATTAAAAAAAAGTAAAA
14687878 A
1 A
14687879 ATTATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
ATTAAAAAAAAGTAAAA
Found at i:14687882 original size:18 final size:16
Alignment explanation
Indices: 14687845--14687878 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14687835 AAATTAAAGT
14687845 ATTAAAAAAAATAAAA
1 ATTAAAAAAAATAAAA
*
14687861 ATTACAAAAAAGTAAAA
1 ATTA-AAAAAAATAAAA
14687878 A
1 A
14687879 ATTATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
ATTAAAAAAAATAAAA
Found at i:14689065 original size:3 final size:3
Alignment explanation
Indices: 14689057--14689110 Score: 99
Period size: 3 Copynumber: 17.7 Consensus size: 3
14689047 ACACACATCT
14689057 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14689105 TGTA TT
1 T-TA TT
14689111 CATAACTAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14690981 original size:18 final size:18
Alignment explanation
Indices: 14690954--14690989 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14690944 AAATAAAGGT
*
14690954 TGTCACTGAAAATTTTAA
1 TGTCAATGAAAATTTTAA
14690972 TGTCAATGAAAATTTTAA
1 TGTCAATGAAAATTTTAA
14690990 AATCTACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
TGTCAATGAAAATTTTAA
Found at i:14705032 original size:25 final size:24
Alignment explanation
Indices: 14704988--14705037 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14704978 CCTTTTTAAA
* *
14704988 TATTTTTTCCTTTTATAATTCTTT
1 TATTTTTTCCTTTTAAAATTATTT
*
14705012 TATTTTTTCTTTTCTAAAATTATTT
1 TATTTTTTCCTTT-TAAAATTATTT
14705037 T
1 T
14705038 TGGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTTTTCCTTTTAAAATTATTT
Found at i:14705485 original size:10 final size:10
Alignment explanation
Indices: 14705435--14705476 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
14705425 GATTTTTTTC
14705435 ATTTTTTAAT
1 ATTTTTTAAT
14705445 ATTTTTTAAT
1 ATTTTTTAAT
*
14705455 A--TTTTAAG
1 ATTTTTTAAT
14705463 ATTTTTTAAT
1 ATTTTTTAAT
14705473 -TTTT
1 ATTTT
14705477 CATATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 4 0.14
10 17 0.61
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:14705501 original size:16 final size:16
Alignment explanation
Indices: 14705445--14705501 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
14705435 ATTTTTTAAT
*
14705445 ATTTTTTAATATTTTAA
1 ATTTTTTAA-ATTTTCA
*
14705462 GATTTTTTAATTTTTC-
1 -ATTTTTTAAATTTTCA
14705478 ATATTTTTAAATTTTCA
1 AT-TTTTTAAATTTTCA
14705495 ATTTTTT
1 ATTTTTT
14705502 CCAATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.06
16 17 0.50
17 6 0.18
18 9 0.26
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (16 bp):
ATTTTTTAAATTTTCA
Found at i:14705501 original size:25 final size:27
Alignment explanation
Indices: 14705445--14705510 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 27
14705435 ATTTTTTAAT
* *
14705445 ATTTTTTAATA-TTTTAAGATTTTTTA
1 ATTTTTTCATATTTTTAAGATTTTTCA
14705471 A-TTTTTCATATTTTTAA-A-TTTTCA
1 ATTTTTTCATATTTTTAAGATTTTTCA
14705495 ATTTTTTCCA-ATTTTT
1 ATTTTTT-CATATTTTT
14705511 TTTTAGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 6 0.17
25 20 0.57
26 9 0.26
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (27 bp):
ATTTTTTCATATTTTTAAGATTTTTCA
Found at i:14705521 original size:9 final size:8
Alignment explanation
Indices: 14705428--14705556 Score: 62
Period size: 9 Copynumber: 14.4 Consensus size: 8
14705418 TGTTTCAGAT
*
14705428 TTTTTTCA
1 TTTTTTAA
14705436 TTTTTTAATA
1 TTTTTT-A-A
14705446 TTTTTTAA
1 TTTTTTAA
*
14705454 TATTTTAAGA
1 T-TTTTTA-A
14705464 TTTTTTAA
1 TTTTTTAA
*
14705472 -TTTTTCA
1 TTTTTTAA
14705479 TATTTTTAA
1 T-TTTTTAA
* *
14705488 ATTTTCAA
1 TTTTTTAA
14705496 TTTTTTCCAA
1 TTTTTT--AA
14705506 TTTTTTTTTAGA
1 ---TTTTTTA-A
*
14705518 TTTTATATAT
1 TTTT-T-TAA
14705528 TTTTATTAA
1 TTTT-TTAA
14705537 TTTTTTGAA
1 TTTTTT-AA
14705546 TTTTTTAA
1 TTTTTTAA
14705554 TTT
1 TTT
14705557 CTTATAAATT
Statistics
Matches: 95, Mismatches: 11, Indels: 30
0.70 0.08 0.22
Matches are distributed among these distances:
7 6 0.06
8 26 0.27
9 35 0.37
10 18 0.19
11 3 0.03
12 1 0.01
13 6 0.06
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTTTTAA
Found at i:14705521 original size:10 final size:9
Alignment explanation
Indices: 14705426--14705556 Score: 51
Period size: 8 Copynumber: 14.4 Consensus size: 9
14705416 ATTGTTTCAG
*
14705426 ATTTTTTTC
1 ATTTTTTTA
14705435 A-TTTTTTA
1 ATTTTTTTA
14705443 ATATTTTTTA
1 AT-TTTTTTA
*
14705453 A-TATTTTA
1 ATTTTTTTA
*
14705461 AGATTTTTTA
1 A-TTTTTTTA
*
14705471 A--TTTTTC
1 ATTTTTTTA
*
14705478 ATATTTTTA
1 ATTTTTTTA
* *
14705487 A-ATTTTCA
1 ATTTTTTTA
*
14705495 ATTTTTTCCA
1 ATTTTTT-TA
14705505 ATTTTTTTTTA
1 A--TTTTTTTA
*
14705516 GA-TTTTATA
1 -ATTTTTTTA
14705525 TATTTTTATTA
1 -ATTTTT-TTA
*
14705536 ATTTTTTGA
1 ATTTTTTTA
14705545 A-TTTTTTA
1 ATTTTTTTA
14705553 ATTT
1 ATTT
14705557 CTTATAAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 28
0.70 0.10 0.21
Matches are distributed among these distances:
7 6 0.06
8 28 0.29
9 23 0.24
10 28 0.29
11 3 0.03
12 7 0.07
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:14705540 original size:28 final size:29
Alignment explanation
Indices: 14705509--14705572 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
14705499 TTTCCAATTT
*
14705509 TTTTTTAG-ATTTTATATATTT-TTATTAA
1 TTTTTTAGAATTTTATA-ATTTCTTATAAA
*
14705537 TTTTTT-GAATTTTTTAATTTCTTATAAA
1 TTTTTTAGAATTTTATAATTTCTTATAAA
14705565 TTCTTTTA
1 TT-TTTTA
14705573 ATGCTAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 5 0.17
28 21 0.70
29 4 0.13
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTTTAGAATTTTATAATTTCTTATAAA
Found at i:14706299 original size:20 final size:20
Alignment explanation
Indices: 14706276--14706317 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14706266 TCTTTTCTTT
*
14706276 ATCAAAATTGGATTTTTAAC
1 ATCAAAATAGGATTTTTAAC
**
14706296 ATCAAAATAGTTTTTTTAAC
1 ATCAAAATAGGATTTTTAAC
14706316 AT
1 AT
14706318 AATATCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (20 bp):
ATCAAAATAGGATTTTTAAC
Found at i:14712919 original size:19 final size:16
Alignment explanation
Indices: 14712890--14712949 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 16
14712880 TATTAAATAA
14712890 AAATT-TTAAATTATTT
1 AAATTATTAAATTA-TT
14712906 AATATTTATTAAATTATT
1 AA-A-TTATTAAATTATT
*
14712924 AAATTATTAAAAATTATC
1 AAATTATT--AAATTATT
14712942 AAATTATT
1 AAATTATT
14712950 TTATGTGTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 7 0.18
17 2 0.05
18 21 0.55
19 8 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTATTAAATTATT
Found at i:14712924 original size:8 final size:8
Alignment explanation
Indices: 14712890--14712949 Score: 59
Period size: 8 Copynumber: 7.0 Consensus size: 8
14712880 TATTAAATAA
14712890 AAATT-TT
1 AAATTATT
14712897 AAATTATTT
1 AAATTA-TT
14712906 AATATTTATT
1 AA-A-TTATT
14712916 AAATTATT
1 AAATTATT
14712924 AAATTATT
1 AAATTATT
*
14712932 AAAAATTATC
1 --AAATTATT
14712942 AAATTATT
1 AAATTATT
14712950 TTATGTGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
7 5 0.11
8 20 0.44
9 5 0.11
10 12 0.27
11 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (8 bp):
AAATTATT
Found at i:14712933 original size:26 final size:27
Alignment explanation
Indices: 14712890--14712949 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
14712880 TATTAAATAA
* * *
14712890 AAATT-TTAAATTATTTAATATTTATT
1 AAATTATTAAATTATTTAAAAATTATC
14712916 AAATTATTAAATTA-TTAAAAATTATC
1 AAATTATTAAATTATTTAAAAATTATC
14712942 AAATTATT
1 AAATTATT
14712950 TTATGTGTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATTATTAAATTATTTAAAAATTATC
Found at i:14713032 original size:23 final size:24
Alignment explanation
Indices: 14713001--14713054 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
14712991 ATAATATCTC
14713001 AAAAA-TATTTTT-A-TATTAAATT
1 AAAAATTATTTTTAATTATTAAA-T
14713023 AAAAATTATTTTTAATTATTAAAT
1 AAAAATTATTTTTAATTATTAAAT
14713047 AAAAATTA
1 AAAAATTA
14713055 AAATATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.17
23 7 0.24
24 10 0.34
25 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAAATTATTTTTAATTATTAAAT
Found at i:14713051 original size:25 final size:22
Alignment explanation
Indices: 14713001--14713051 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
14712991 ATAATATCTC
14713001 AAAAATATTTTTATATTAAATTA
1 AAAAATATTTTTATATTAAA-TA
*
14713024 AAAATTATTTTTAATTATTAAATA
1 AAAAATATTTTT-A-TATTAAATA
14713048 AAAA
1 AAAA
14713052 TTAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 11 0.44
24 7 0.28
25 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAATATTTTTATATTAAATA
Found at i:14714074 original size:41 final size:44
Alignment explanation
Indices: 14714028--14714111 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 44
14714018 TGTCACATAT
*
14714028 AACACGTATAATAA-TCATGTCATGTTAATA-TTTAA-AATTTA
1 AACACGTATAATAATTCATATCATGTTAATATTTTAATAATTTA
* * *
14714069 AACACGTGTTATAATTCATATCATGTTCATATTTTAATAATTT
1 AACACGTATAATAATTCATATCATGTTAATATTTTAATAATTT
14714112 GTATTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 12 0.33
42 14 0.39
43 5 0.14
44 5 0.14
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (44 bp):
AACACGTATAATAATTCATATCATGTTAATATTTTAATAATTTA
Found at i:14715023 original size:5 final size:5
Alignment explanation
Indices: 14715015--14715081 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 5
14715005 GCTTTGGTAC
*
14715015 TTTTA TTTTCA TTTTCA TTTTA GTTTT- TTTGT- TTTTGA TTTTG TTTTA
1 TTTTA TTTT-A TTTT-A TTTTA -TTTTA TTT-TA TTTT-A TTTTA TTTTA
14715063 GTTTTA TTTTA -TTTA TTTT
1 -TTTTA TTTTA TTTTA TTTT
14715082 TTGTTTTAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
4 8 0.15
5 21 0.40
6 24 0.45
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:14715044 original size:26 final size:27
Alignment explanation
Indices: 14715015--14715076 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
14715005 GCTTTGGTAC
14715015 TTTTATTTTCATTTTCATTTTAGTTTT-
1 TTTTATTTTCATTTT-ATTTTAGTTTTA
* *
14715042 TTTGT-TTTTGATTTTGTTTTAGTTTTA
1 TTT-TATTTTCATTTTATTTTAGTTTTA
14715069 TTTTATTT
1 TTTTATTT
14715077 ATTTTTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 11 0.37
27 18 0.60
28 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (27 bp):
TTTTATTTTCATTTTATTTTAGTTTTA
Found at i:14715076 original size:21 final size:21
Alignment explanation
Indices: 14715015--14715076 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
14715005 GCTTTGGTAC
14715015 TTTTATTTTCATTTTCATTTTAG
1 TTTTATTTT-ATTTTCATTTT-G
*
14715038 TTTT-TTTGT-TTTTGATTTTG
1 TTTTATTT-TATTTTCATTTTG
14715058 TTTTAGTTTTATTTT-ATTT
1 TTTTA-TTTTATTTTCATTT
14715077 ATTTTTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 5 0.15
21 14 0.41
22 10 0.29
23 5 0.15
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTTTCATTTTG
Found at i:14715676 original size:28 final size:28
Alignment explanation
Indices: 14715645--14715733 Score: 97
Period size: 28 Copynumber: 3.0 Consensus size: 28
14715635 AAAATAACTG
14715645 AAAAATAAAATTTTTTAAAATTTAAAAA
1 AAAAATAAAATTTTTTAAAATTTAAAAA
** **
14715673 AAAAATAAAAACTTAAAAAATTTAAAATA
1 AAAAATAAAATTTTTTAAAATTTAAAA-A
14715702 AAAAATGTAAAATTTTTTAAAAAATTTAAAAA
1 AAAAA--TAAAATTTTTT--AAAATTTAAAAA
14715734 TTTCCTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 23 0.48
29 6 0.12
31 7 0.15
32 1 0.02
33 11 0.23
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAAATAAAATTTTTTAAAATTTAAAAA
Found at i:14715692 original size:61 final size:60
Alignment explanation
Indices: 14715608--14715733 Score: 139
Period size: 61 Copynumber: 2.1 Consensus size: 60
14715598 TTAAAAACCT
* ** *
14715608 AAAAAAAACTAAAATTTTCAAAAAATGAAAATAACTGAAAA-ATAAAATTTTTT-AAAATTTA
1 AAAAAAAAATAAAAACTTAAAAAAATGAAAATAA---AAAATATAAAATTTTTTAAAAATTTA
* * *
14715669 AAAAAAAAATAAAAACTTAAAAAATTTAAAATAAAAAATGTAAAATTTTTTAAAAAATTTA
1 AAAAAAAAATAAAAACTTAAAAAAATGAAAATAAAAAATATAAAATTTTTT-AAAAATTTA
14715730 AAAA
1 AAAA
14715734 TTTCCTAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
58 4 0.07
59 11 0.20
61 40 0.73
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (60 bp):
AAAAAAAAATAAAAACTTAAAAAAATGAAAATAAAAAATATAAAATTTTTTAAAAATTTA
Found at i:14715733 original size:20 final size:20
Alignment explanation
Indices: 14715700--14715751 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14715690 AAATTTAAAA
* **
14715700 TAAAAAATGT-AAAATTTTT
1 TAAAAAATTTAAAAATTTCC
14715719 TAAAAAATTTAAAAATTTCC
1 TAAAAAATTTAAAAATTTCC
*
14715739 TAAAAATTTTAAA
1 TAAAAAATTTAAA
14715752 TTTTAGGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAAATTTAAAAATTTCC
Found at i:14717435 original size:19 final size:19
Alignment explanation
Indices: 14717411--14717448 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14717401 AGAGTTAAAG
*
14717411 GTTACCTCTAGTTCTTCAA
1 GTTACCTATAGTTCTTCAA
*
14717430 GTTACCTATGGTTCTTCAA
1 GTTACCTATAGTTCTTCAA
14717449 TAGCCATGAG
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:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (19 bp):
GTTACCTATAGTTCTTCAA
Found at i:14724260 original size:2 final size:2
Alignment explanation
Indices: 14724253--14724287 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14724243 ATATAAAGCT
14724253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14724288 TAGTTTCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14724317 original size:109 final size:109
Alignment explanation
Indices: 14724178--14724382 Score: 347
Period size: 109 Copynumber: 1.9 Consensus size: 109
14724168 AATTGATTTT
* **
14724178 TTAGTTTCGAACCGATTTCAAGTAGTTTAATTTTTTGATAAAGGTATCACCAAATCCTGCAAGCC
1 TTAGTTTCGAACCAATTTCAAGTAACTTAATTTTTTGATAAAGGTATCACCAAATCCTGCAAGCC
*
14724243 ATATAAAGCTTATATATATATATATATATATATATATATATATA
66 ATATAAAGCATATATATATATATATATATATATATATATATATA
* * *
14724287 TTAGTTTCGAATCAATTTCAAGTAACTTAATTTTTTGATAAAGGTATCATCAAATCCTGCAAGTC
1 TTAGTTTCGAACCAATTTCAAGTAACTTAATTTTTTGATAAAGGTATCACCAAATCCTGCAAGCC
14724352 ATATAAAGCATATATATATATATATATATAT
66 ATATAAAGCATATATATATATATATATATAT
14724383 GTGTGTGTGT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 89 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.40
Consensus pattern (109 bp):
TTAGTTTCGAACCAATTTCAAGTAACTTAATTTTTTGATAAAGGTATCACCAAATCCTGCAAGCC
ATATAAAGCATATATATATATATATATATATATATATATATATA
Found at i:14729349 original size:19 final size:19
Alignment explanation
Indices: 14729327--14729388 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
14729317 TTCCTTTCAC
14729327 ATCCAAAACATCCAACCAA
1 ATCCAAAACATCCAACCAA
** ***
14729346 ATCCTCCAAC-TCCCTTTCAA
1 ATCC-AAAACAT-CCAACCAA
14729366 ATCCAAAACATCCAACCAA
1 ATCCAAAACATCCAACCAA
14729385 ATCC
1 ATCC
14729389 TTTAACTCCC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (19 bp):
ATCCAAAACATCCAACCAA
Found at i:14729363 original size:39 final size:38
Alignment explanation
Indices: 14729314--14729426 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 38
14729304 ACACTTCTCA
*
14729314 AACTTCCTTTCACATCCAAAACATCCAACCAAATCCTCC
1 AACTCCCTTTCA-ATCCAAAACATCCAACCAAATCCTCC
**
14729353 AACTCCCTTTCAAATCCAAAACATCCAACCAAATCCTTT
1 AACTCCCTTTC-AATCCAAAACATCCAACCAAATCCTCC
14729392 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATC
1 AACTCCCTTTCAA-TCCAAAACATCCAACCAAATC
14729427 TTTCAAACCC
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 2 0.03
39 66 0.96
40 1 0.01
ACGTcount: A:0.38, C:0.38, G:0.01, T:0.23
Consensus pattern (38 bp):
AACTCCCTTTCAATCCAAAACATCCAACCAAATCCTCC
Found at i:14738957 original size:15 final size:14
Alignment explanation
Indices: 14738937--14738990 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
14738927 TATATTCATA
14738937 TAAATAACTAATTAT
1 TAAATAA-TAATTAT
*
14738952 TAAATAATCAATTAA
1 TAAATAAT-AATTAT
*
14738967 TAAATTATAACTTAAT
1 TAAATAATAA-TT-AT
14738983 TAAATAAT
1 TAAATAAT
14738991 CAAACTCACA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 3 0.09
15 21 0.66
16 8 0.25
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAATAATAATTAT
Found at i:14739097 original size:2 final size:2
Alignment explanation
Indices: 14739090--14739126 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14739080 ATGCCTTCTC
14739090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14739127 AACATCTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14739161 original size:20 final size:19
Alignment explanation
Indices: 14739133--14739170 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14739123 TATAAACATC
14739133 TTTAATTATAAATATAATT
1 TTTAATTATAAATATAATT
*
14739152 TTTAATTTATTAATATAAT
1 TTTAA-TTATAAATATAAT
14739171 AGTACTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAATTATAAATATAATT
Found at i:14756577 original size:79 final size:79
Alignment explanation
Indices: 14756440--14756586 Score: 249
Period size: 79 Copynumber: 1.9 Consensus size: 79
14756430 TGTAGTATGG
* * *
14756440 CTATTACTTACATGAAGCGAGATGGTGAATTTTGACTACTTTTACTTGGCAAAAGACTTTTATTC
1 CTATTACTTACAAGAAGCGAGATGGGGAATTTTGACTACTTTTACTTGCCAAAAGACTTTTATTC
14756505 TTGCCAGGGCATGA
66 TTGCCAGGGCATGA
* *
14756519 CTATTACTTACAAGAAGCGAGATGGGGAATTTTGACTGCTTTTACTTGCCAAATGACTTTTATTC
1 CTATTACTTACAAGAAGCGAGATGGGGAATTTTGACTACTTTTACTTGCCAAAAGACTTTTATTC
14756584 TTG
66 TTG
14756587 TCAGCGTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (79 bp):
CTATTACTTACAAGAAGCGAGATGGGGAATTTTGACTACTTTTACTTGCCAAAAGACTTTTATTC
TTGCCAGGGCATGA
Found at i:14765287 original size:2 final size:2
Alignment explanation
Indices: 14765280--14765305 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14765270 CTCATCTCAT
14765280 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14765306 ACCATTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14772664 original size:267 final size:267
Alignment explanation
Indices: 14772189--14772721 Score: 922
Period size: 267 Copynumber: 2.0 Consensus size: 267
14772179 ATAAAACCAC
* ** *
14772189 TACACAAAAACACTTTATCAATATGTATAAGAAAATATAAGCAAAATATATGAAAACAAAACATG
1 TACACAAAAAAACTCCATCAATATGTATAAGAAAATATAAGCAAAATATATGAAAACAAAACATA
14772254 AAATATAAAGCTTGGGTAGCCTCCCAAAAAGTACTTTATGTAAAGTCAAAAGCTAGACTATCATT
66 AAATATAAAGCTTGGGTAGCCTCCCAAAAAGTACTTTATGTAAAGTCAAAAGCTAGACTATCATT
* *
14772319 GGTGCTAAAAATCACTATACATTTCCTTTTTGAATCTACTCATTTCATTTTCTTCTTTTGCACCA
131 GGTGCTAAAAATCACTATACATTTCCTTTCTGAATCTACTCATTTCACTTTCTTCTTTTGCACCA
* *
14772384 AATGTGTAATGGTAAGCTTTGAGTGACTTTAGTACTTAAAGAAATATCTGTATCCCACCTTTAGG
196 AATGTGTAATGGTAAGCTTTGAGTAACTTTAGTACTTAAAGAAATATCTATATCCCACCTTTAGG
14772449 AATAATT
261 AATAATT
* *
14772456 TACACAAAAAAACTCCATCAATATGTATAAGAAAATATAAGCAAAATGTATGAAAATAAAACATA
1 TACACAAAAAAACTCCATCAATATGTATAAGAAAATATAAGCAAAATATATGAAAACAAAACATA
*
14772521 AAATATAAAGCTTGGGTAGCCTCCCAAGAAGTACTTTATGTAAAGTCAAAAGCTAGACTATCATT
66 AAATATAAAGCTTGGGTAGCCTCCCAAAAAGTACTTTATGTAAAGTCAAAAGCTAGACTATCATT
* * *
14772586 GGTGCTAAAAATCACTCTACATTTTCTTTCTGAATCTATTCATTTCACTTTCTTCTTTTGCACCA
131 GGTGCTAAAAATCACTATACATTTCCTTTCTGAATCTACTCATTTCACTTTCTTCTTTTGCACCA
* *
14772651 AATGTGTAATGGTAAGCTTTGAGTAACTTTAGTGCTTGAAGAAATATCTATATCCCACCTTTAGG
196 AATGTGTAATGGTAAGCTTTGAGTAACTTTAGTACTTAAAGAAATATCTATATCCCACCTTTAGG
14772716 AATAAT
261 AATAAT
14772722 CTAAGTATAT
Statistics
Matches: 250, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
267 250 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (267 bp):
TACACAAAAAAACTCCATCAATATGTATAAGAAAATATAAGCAAAATATATGAAAACAAAACATA
AAATATAAAGCTTGGGTAGCCTCCCAAAAAGTACTTTATGTAAAGTCAAAAGCTAGACTATCATT
GGTGCTAAAAATCACTATACATTTCCTTTCTGAATCTACTCATTTCACTTTCTTCTTTTGCACCA
AATGTGTAATGGTAAGCTTTGAGTAACTTTAGTACTTAAAGAAATATCTATATCCCACCTTTAGG
AATAATT
Found at i:14792429 original size:14 final size:14
Alignment explanation
Indices: 14792379--14792429 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 14
14792369 ATTTACAAAG
14792379 AAAGATAAA-TTAA
1 AAAGATAAAGTTAA
*
14792392 AAAGATAAAAGTAAGA
1 AAAGAT-AAAGTTA-A
14792408 AAATGATAAAGTTAA
1 AAA-GATAAAGTTAA
14792423 AAAGATA
1 AAAGATA
14792430 GATAAGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 6 0.19
14 7 0.22
15 6 0.19
16 10 0.31
17 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.20
Consensus pattern (14 bp):
AAAGATAAAGTTAA
Found at i:14803753 original size:53 final size:53
Alignment explanation
Indices: 14803688--14803793 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
14803678 GTCTAATTAG
* * *
14803688 TTGGAAACATATTTTCATATTTCTTTCTATATAATTATTAATTACAGTTGGTA
1 TTGGAAAAATATTTTCATATTTCTTTCTATATAAATATTAATTACAATTGGTA
14803741 TTGGAAAAATATTTTCATATTTCTTTCTATATAAATATTAATTACAATTGGTA
1 TTGGAAAAATATTTTCATATTTCTTTCTATATAAATATTAATTACAATTGGTA
14803794 AATTTATTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (53 bp):
TTGGAAAAATATTTTCATATTTCTTTCTATATAAATATTAATTACAATTGGTA
Found at i:14803971 original size:9 final size:9
Alignment explanation
Indices: 14803957--14803981 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14803947 ATCCTACATG
14803957 CTAAGAGTA
1 CTAAGAGTA
14803966 CTAAGAGTA
1 CTAAGAGTA
14803975 CTAAGAG
1 CTAAGAG
14803982 ATTACTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (9 bp):
CTAAGAGTA
Found at i:14804750 original size:20 final size:19
Alignment explanation
Indices: 14804714--14804752 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14804704 TTTTTTTTCA
*
14804714 TTATTTTACATTGAAATTT
1 TTATTTTACATTAAAATTT
*
14804733 TTATTTTTCATATAAAATTT
1 TTATTTTACAT-TAAAATTT
14804753 ATTAGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATTTTACATTAAAATTT
Found at i:14805700 original size:41 final size:45
Alignment explanation
Indices: 14805653--14805759 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 45
14805643 AATATTTATA
*
14805653 AAATATAATTTTTTAATATAAATT-ATATCTT-AATTATAA-A-T
1 AAATATAATTTTTTAATATAAATTAATATCTTAAATTAAAATATT
* * *
14805694 AAATATAGTATTTT-AT-TAACTTAATATCTTAAATTAAAATATT
1 AAATATAATTTTTTAATATAAATTAATATCTTAAATTAAAATATT
14805737 AAATAATAATTTTATTAATATAA
1 AAAT-ATAATTTT-TTAATATAA
14805760 TACATATATA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.10
40 9 0.17
41 19 0.37
42 1 0.02
43 5 0.10
44 6 0.12
45 2 0.04
46 2 0.04
47 3 0.06
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (45 bp):
AAATATAATTTTTTAATATAAATTAATATCTTAAATTAAAATATT
Found at i:14806307 original size:20 final size:19
Alignment explanation
Indices: 14806273--14806317 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
14806263 CAAGGATATT
*
14806273 GATGAATTAATACAACAAA
1 GATGGATTAATACAACAAA
14806292 GATGGATTAGATACAACAAA
1 GATGGATTA-ATACAACAAA
*
14806312 TATGGA
1 GATGGA
14806318 ATTTTGGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (19 bp):
GATGGATTAATACAACAAA
Found at i:14809498 original size:96 final size:97
Alignment explanation
Indices: 14809312--14809515 Score: 367
Period size: 96 Copynumber: 2.1 Consensus size: 97
14809302 TTTCAGTTGA
14809312 AGCTAATTGATTTAACATTCTAAAAAATTTTAAAGGAAGAATTGAAAGCCCAATATGATAATGGA
1 AGCTAATTGATTTAACATTCTAAAAAATTTTAAAGGAAGAATTGAAAGCCCAATATGATAATGGA
*
14809377 CAGCATTGATACCATTGCAGTTATTAGCACAT
66 CAGCATTGATACCATTGCAGCTATTAGCACAT
*
14809409 AGCTAATTGATTTAACATTCTAAAAAATTTTAAAGGAAGAATTG-AAGCCCAATATGGTAATGGA
1 AGCTAATTGATTTAACATTCTAAAAAATTTTAAAGGAAGAATTGAAAGCCCAATATGATAATGGA
14809473 CAGCATTGATACCATTGCAGCTATTAGCACAT
66 CAGCATTGATACCATTGCAGCTATTAGCACAT
14809505 AG-TAAGTTGAT
1 AGCTAA-TTGAT
14809516 CTGCTGATTT
Statistics
Matches: 104, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
95 3 0.03
96 57 0.55
97 44 0.42
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (97 bp):
AGCTAATTGATTTAACATTCTAAAAAATTTTAAAGGAAGAATTGAAAGCCCAATATGATAATGGA
CAGCATTGATACCATTGCAGCTATTAGCACAT
Found at i:14821521 original size:23 final size:21
Alignment explanation
Indices: 14821483--14821524 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
14821473 TTTTTTTTTT
*
14821483 TATACTTTTTGTTTTGAATGA
1 TATACTTTTTATTTTGAATGA
14821504 TATACTATTTTATGTTTGAAT
1 TATACT-TTTTAT-TTTGAAT
14821525 AATTAAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (21 bp):
TATACTTTTTATTTTGAATGA
Found at i:14822324 original size:21 final size:21
Alignment explanation
Indices: 14822300--14822340 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14822290 ATCTCTCATG
14822300 TAAAAAAAGATTTTTCATCTA
1 TAAAAAAAGATTTTTCATCTA
* *
14822321 TAAAAGAAGATTTTTTATCT
1 TAAAAAAAGATTTTTCATCT
14822341 CTAACGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAAAAAAGATTTTTCATCTA
Found at i:14822389 original size:89 final size:89
Alignment explanation
Indices: 14822229--14822406 Score: 293
Period size: 89 Copynumber: 2.0 Consensus size: 89
14822219 CAAACATCTC
*
14822229 CTATGAAAGAACATTTTTCATCTCCAACGATATCTCCTTTGAGAAAAGATTTTCATCTCCAATCT
1 CTATAAAAGAACATTTTTCATCTCCAACGATATCTCCTTTGAGAAAAGATTTTCATCTCCAATCT
*
14822294 CTCATGTAAAAAAAGATTTTTCAT
66 CGCATGTAAAAAAAGATTTTTCAT
* * * * *
14822318 CTATAAAAGAAGATTTTTTATCTCTAACGATATCTCCTTTGAGAAAAGATTTTCATTTCTAATCT
1 CTATAAAAGAACATTTTTCATCTCCAACGATATCTCCTTTGAGAAAAGATTTTCATCTCCAATCT
14822383 CGCATGTAAAAAAAGATTTTTCAT
66 CGCATGTAAAAAAAGATTTTTCAT
14822407 TTCCATTCTC
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (89 bp):
CTATAAAAGAACATTTTTCATCTCCAACGATATCTCCTTTGAGAAAAGATTTTCATCTCCAATCT
CGCATGTAAAAAAAGATTTTTCAT
Found at i:14828258 original size:26 final size:26
Alignment explanation
Indices: 14828212--14828275 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
14828202 TGACATAACT
*
14828212 ATTAAAATAT-TGAAAATTATTTATA
1 ATTAAAATATATTAAAATTATTTATA
* *
14828237 ATTACAATATATTAAAATTATTTATT
1 ATTAAAATATATTAAAATTATTTATA
14828263 ATTAAAAT-TATTA
1 ATTAAAATATATTA
14828276 GTATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTAAAATATATTAAAATTATTTATA
Found at i:14828265 original size:16 final size:16
Alignment explanation
Indices: 14828246--14828326 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 16
14828236 AATTACAATA
14828246 TATTAAAATTATTTAT
1 TATTAAAATTATTTAT
*
14828262 TATTAAAATTA-TTAG
1 TATTAAAATTATTTAT
*
14828277 TATTAAAAATTATAT-T
1 TATT-AAAATTATTTAT
* * * *
14828293 TAATAATACTATTTAA
1 TATTAAAATTATTTAT
14828309 TATTAAAA-TATTATAT
1 TATTAAAATTATT-TAT
14828325 TA
1 TA
14828327 ATACAAAAGC
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
15 18 0.36
16 31 0.62
17 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:14828324 original size:13 final size:14
Alignment explanation
Indices: 14828244--14828327 Score: 66
Period size: 13 Copynumber: 5.6 Consensus size: 14
14828234 ATAATTACAA
14828244 TATATTAAAATTATT
1 TATATTAAAATTA-T
14828259 TATTATTAAAATTAT
1 TA-TATTAAAATTAT
14828274 TAGTATTAAAA--AT
1 TA-TATTAAAATTAT
14828287 TATATTTAATAATACTATT
1 TATA-TTAA-AAT--TA-T
14828306 TAATATTAAAA-TAT
1 T-ATATTAAAATTAT
14828320 TATATTAA
1 TATATTAA
14828328 TACAAAAGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 20
0.74 0.01 0.25
Matches are distributed among these distances:
12 2 0.03
13 15 0.25
14 4 0.07
15 15 0.25
16 11 0.19
18 3 0.05
19 6 0.10
20 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (14 bp):
TATATTAAAATTAT
Found at i:14828327 original size:19 final size:19
Alignment explanation
Indices: 14828292--14828329 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14828282 AAAATTATAT
14828292 TTAATAATACTATTTAATA
1 TTAATAATACTATTTAATA
*
14828311 TTAA-AATATTATATTAATA
1 TTAATAATACTAT-TTAATA
14828330 CAAAAGCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATAATACTATTTAATA
Found at i:14828484 original size:17 final size:18
Alignment explanation
Indices: 14828459--14828492 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14828449 ATTATTAAAA
*
14828459 TATTAAAAATATTTATAC
1 TATTAAAAATAATTATAC
14828477 TATT-AAAATAATTATA
1 TATTAAAAATAATTATA
14828493 TTTTATATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAAAAATAATTATAC
Found at i:14828689 original size:39 final size:37
Alignment explanation
Indices: 14828612--14828735 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 37
14828602 TTTTAAATTG
* * * *
14828612 AAAAAAATAA-ATTATTAAAATATT--CATT-TTATG
1 AAAATAATAATATTATTAATATATTAATATTATTATT
*
14828645 AAAATAATAGTATTATT-ATACTATTTAATATTAATTATT
1 AAAATAATAATATTATTAATA-TA-TTAATATT-ATTATT
*
14828684 AAAATAATAAAATATTATTAATATATTATTATTATTATT
1 AAAATAAT--AATATTATTAATATATTAATATTATTATT
14828723 AAAATAATAATAT
1 AAAATAATAATAT
14828736 AATATTATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
33 10 0.14
34 8 0.11
35 2 0.03
37 8 0.11
39 26 0.35
40 7 0.09
41 10 0.14
42 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (37 bp):
AAAATAATAATATTATTAATATATTAATATTATTATT
Found at i:14828728 original size:31 final size:31
Alignment explanation
Indices: 14828691--14828760 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 31
14828681 ATTAAAATAA
*
14828691 TAAAATATTATTAATATATTATTA-TTATTAT
1 TAAAATATTA-TAATATAATATTATTTATTAT
14828722 TAAAATA--ATAATATAATATTATTTATTAT
1 TAAAATATTATAATATAATATTATTTATTAT
*
14828751 TGAAATATTA
1 TAAAATATTA
14828761 AAAATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 12 0.35
29 14 0.41
31 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
TAAAATATTATAATATAATATTATTTATTAT
Found at i:14828742 original size:39 final size:39
Alignment explanation
Indices: 14828647--14828751 Score: 131
Period size: 39 Copynumber: 2.6 Consensus size: 39
14828637 ATTTTATGAA
*
14828647 AATAATAGTATTATTATACTATTTAATATTAATTATTAAAAT
1 AATAATA-TATTATTATA-TA-TTATTATTAATTATTAAAAT
*
14828689 AATAAAATATTATTAATATATTATTATT-ATTATTAAAAT
1 AATAATATATTATT-ATATATTATTATTAATTATTAAAAT
* *
14828728 AATAATATAATATTATTTATTATT
1 AATAATATATTATTATATATTATT
14828752 GAAATATTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
38 9 0.16
39 23 0.40
40 7 0.12
41 9 0.16
42 9 0.16
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (39 bp):
AATAATATATTATTATATATTATTATTAATTATTAAAAT
Found at i:14828786 original size:24 final size:24
Alignment explanation
Indices: 14828727--14828788 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
14828717 ATTATTAAAA
* *
14828727 TAATAATATAATATTATTTATTAT
1 TAATAATATAAAAATATTTATTAT
*
14828751 TGA-AATATTAAAAATATTTATGT-T
1 TAATAATA-TAAAAATATTTAT-TAT
14828775 TAATAATATAAAAA
1 TAATAATATAAAAA
14828789 ATATAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 4 0.13
24 22 0.71
25 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
TAATAATATAAAAATATTTATTAT
Found at i:14828801 original size:25 final size:25
Alignment explanation
Indices: 14828754--14828802 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14828744 TTATTATTGA
* ** *
14828754 AATATTAAAAATATTTATGTTTAAT
1 AATATAAAAAATATAAATATTTAAT
14828779 AATATAAAAAATATAAATATTTAA
1 AATATAAAAAATATAAATATTTAA
14828803 AATCAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
AATATAAAAAATATAAATATTTAAT
Found at i:14829046 original size:19 final size:20
Alignment explanation
Indices: 14829024--14829061 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14829014 TTTATGTAAA
14829024 ATTAA-ATAAAAATATTTTT
1 ATTAATATAAAAATATTTTT
*
14829043 ATTAATATAATAATATTTT
1 ATTAATATAAAAATATTTT
14829062 GTATGGGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAATATAAAAATATTTTT
Found at i:14832075 original size:22 final size:22
Alignment explanation
Indices: 14832028--14832080 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
14832018 AAATTTAGGG
* * *
14832028 TACAAATACTTAATTCTAGAGA
1 TACAAATACTTAAATATACAGA
14832050 TACAAATA-TTAAATATACAGA
1 TACAAATACTTAAATATACAGA
*
14832071 TTACAGATAC
1 -TACAAATAC
14832081 AACCAGCTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (22 bp):
TACAAATACTTAAATATACAGA
Found at i:14832104 original size:21 final size:22
Alignment explanation
Indices: 14832078--14832121 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
14832068 AGATTACAGA
14832078 TACAACCAGCTGTAAAT-AGTG
1 TACAACCAGCTGTAAATAAGTG
14832099 TACAACCAGCTGTAAATAAGTG
1 TACAACCAGCTGTAAATAAGTG
14832121 T
1 T
14832122 TTTCCCACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (22 bp):
TACAACCAGCTGTAAATAAGTG
Found at i:14835754 original size:23 final size:23
Alignment explanation
Indices: 14835728--14835787 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
14835718 TTGAAAGGGT
14835728 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
14835751 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
*
14835774 TCAGCAATGAAGGC
1 TCGGCAATGAAGGC
14835788 TGAAAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (23 bp):
TCGGCAATGAAGGCCTAAAAAAG
Found at i:14835963 original size:22 final size:22
Alignment explanation
Indices: 14835935--14835978 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14835925 CTAAATCTTC
*
14835935 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14835957 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14835979 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14837423 original size:34 final size:34
Alignment explanation
Indices: 14837385--14837452 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
14837375 AACACGTGAT
*
14837385 GGTTAAGATAGAGGAGGGGGATTTAGACTTTGGA
1 GGTTAAGATAGAGGAAGGGGATTTAGACTTTGGA
*
14837419 GGTTAAGATAGAGGAAGGGGATTTGGACTTTGGA
1 GGTTAAGATAGAGGAAGGGGATTTAGACTTTGGA
14837453 CATCCACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.41, T:0.26
Consensus pattern (34 bp):
GGTTAAGATAGAGGAAGGGGATTTAGACTTTGGA
Found at i:14839956 original size:2 final size:2
Alignment explanation
Indices: 14839951--14839982 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14839941 TAGTCGCATT
*
14839951 CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14839983 GAGAGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:14840543 original size:16 final size:16
Alignment explanation
Indices: 14840513--14840542 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14840503 CCAGGTCAAT
14840513 TGATATAGAAGTTTTG
1 TGATATAGAAGTTTTG
14840529 TGATAT-GAAGTTTT
1 TGATATAGAAGTTTT
14840543 TCAATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (16 bp):
TGATATAGAAGTTTTG
Found at i:14848072 original size:21 final size:21
Alignment explanation
Indices: 14848027--14848072 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14848017 AAATCAATAG
*
14848027 TAATAATGAGATTAATTATTG
1 TAATAATGAGATTAATTATTA
14848048 TAATAATGAGATTGAA-TATTA
1 TAATAATGAGATT-AATTATTA
14848069 TAAT
1 TAAT
14848073 GATAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAATAATGAGATTAATTATTA
Found at i:14848389 original size:22 final size:23
Alignment explanation
Indices: 14848348--14848391 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14848338 AAATTGATAA
*
14848348 TAATTATTTTTATATTAAAATAT
1 TAATTATTTTTATATCAAAATAT
14848371 TAATTATTTTTAT-TCAAAATA
1 TAATTATTTTTATATCAAAATA
14848392 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTATTTTTATATCAAAATAT
Found at i:14849667 original size:60 final size:61
Alignment explanation
Indices: 14849571--14849700 Score: 176
Period size: 60 Copynumber: 2.1 Consensus size: 61
14849561 AAATGTTTTT
* * *
14849571 AATAATCCATTTCAATTTTTATGAAGTAATTATTCAAGGCGTTTTTGCC-AAAAACACCTTG
1 AATAATCCACTTCAATTTTTATGAAG-AATTATTCAAGGCATTTTTGCCAAAAAACACATTG
14849632 AATAATCC-CTTCAATTTTTTATTGAA-AATTATTCAAGGCATTTTTGCCAAAAAAACACATTG
1 AATAATCCACTTCAA-TTTTTA-TGAAGAATTATTCAAGGCATTTTTGCC-AAAAAACACATTG
14849694 AATAATC
1 AATAATC
14849701 TCTTACAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
60 26 0.42
61 14 0.23
62 22 0.35
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (61 bp):
AATAATCCACTTCAATTTTTATGAAGAATTATTCAAGGCATTTTTGCCAAAAAACACATTG
Found at i:14852223 original size:2 final size:2
Alignment explanation
Indices: 14852216--14852240 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14852206 TAATCTTTCC
14852216 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14852241 AACTTATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14852624 original size:21 final size:20
Alignment explanation
Indices: 14852575--14852625 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
14852565 TTGTTTTATC
14852575 TATATT-TAAATA-ATAATA
1 TATATTGTAAATATATAATA
*
14852593 TATATTG--AATATATAATTG
1 TATATTGTAAATATATAA-TA
14852612 TATATTGTAAATAT
1 TATATTGTAAATAT
14852626 TTATAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 4 0.15
18 10 0.37
19 8 0.30
21 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
TATATTGTAAATATATAATA
Found at i:14852625 original size:19 final size:18
Alignment explanation
Indices: 14852575--14852625 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
14852565 TTGTTTTATC
14852575 TATATT-TAAATAATAATA
1 TATATTGTAAAT-ATAATA
*
14852593 TATATTG-AATATATAATTG
1 TATATTGTAA-ATATAA-TA
14852612 TATATTGTAAATAT
1 TATATTGTAAATAT
14852626 TTATAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 12 0.43
19 14 0.50
20 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATTGTAAATATAATA
Found at i:14856016 original size:12 final size:12
Alignment explanation
Indices: 14855984--14856022 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
14855974 TATTTTAGGT
14855984 AAATGTGAGTT-
1 AAATGTGAGTTA
*
14855995 AAATAATGAGTTA
1 AAAT-GTGAGTTA
14856008 AAATGTGAGTTA
1 AAATGTGAGTTA
14856020 AAA
1 AAA
14856023 GAGATCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (12 bp):
AAATGTGAGTTA
Found at i:14860142 original size:3 final size:3
Alignment explanation
Indices: 14860134--14860195 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
14860124 CATATCATAA
14860134 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
14860182 ATT ATT ATT GTT AT
1 ATT ATT ATT ATT AT
14860196 GGATGCAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14863780 original size:23 final size:22
Alignment explanation
Indices: 14863711--14863783 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
14863701 ATTAAAAAAT
*
14863711 AAAAAAT-ATTTTAAAATATTAA
1 AAAAAATAATTTT-AGATATTAA
* *
14863733 AAAATAAGAGTTTTAGATATT-A
1 AAAA-AATAATTTTAGATATTAA
*
14863755 AAAAAATAATTTTGAGACATTAA
1 AAAAAATAATTTT-AGATATTAA
14863778 AAAAAA
1 AAAAAA
14863784 AAAAATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 7 0.17
22 15 0.37
23 15 0.37
24 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAAAATAATTTTAGATATTAA
Found at i:14863817 original size:19 final size:21
Alignment explanation
Indices: 14863795--14863833 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14863785 AAAATGAAAT
*
14863795 AAAAAATTTA-ACT-ATATAA
1 AAAAAACTTATACTAATATAA
14863814 AAAAAACTTATACTAATATA
1 AAAAAACTTATACTAATATA
14863834 TTAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAACTTATACTAATATAA
Found at i:14865151 original size:18 final size:18
Alignment explanation
Indices: 14865128--14865163 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14865118 AAATTTTTAT
14865128 TTTTATATTTTAAAATTA
1 TTTTATATTTTAAAATTA
* *
14865146 TTTTATTTTTTAATATTA
1 TTTTATATTTTAAAATTA
14865164 AAAATCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTAAAATTA
Found at i:14865164 original size:24 final size:23
Alignment explanation
Indices: 14865093--14865166 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 23
14865083 TATTTTATTT
14865093 AATTTTTTAATTTTTTAAATATTTAA
1 AATTTTTT-ATTTTTT-AATA-TTAA
*
14865119 AA-TTTTTA-TTTTTATATTTTAA
1 AATTTTTTATTTTTTA-ATATTAA
14865141 AATTATTTTATTTTTTAATATTAA
1 AATT-TTTTATTTTTTAATATTAA
14865165 AA
1 AA
14865167 ATCATAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
22 7 0.17
23 8 0.19
24 14 0.33
25 11 0.26
26 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
AATTTTTTATTTTTTAATATTAA
Found at i:14870625 original size:3 final size:3
Alignment explanation
Indices: 14870617--14870663 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
14870607 AATATCATAA
*
14870617 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14870664 GGATGCAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14870762 original size:3 final size:3
Alignment explanation
Indices: 14870756--14870794 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
14870746 GATGATGATG
* * *
14870756 ATA ATA ATA ATA ATA ATA ATG TTA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14870795 GAAATCTCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:14872125 original size:22 final size:23
Alignment explanation
Indices: 14872090--14872133 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14872080 AAAATTTTTT
14872090 AAAATTAAATTTGATAACAAATC
1 AAAATTAAATTTGATAACAAATC
*
14872113 AAAATT-AATTTGATGACAAAT
1 AAAATTAAATTTGATAACAAAT
14872134 TAATTAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (23 bp):
AAAATTAAATTTGATAACAAATC
Found at i:14874406 original size:33 final size:30
Alignment explanation
Indices: 14874369--14874466 Score: 88
Period size: 33 Copynumber: 3.0 Consensus size: 30
14874359 TGATTGCACG
* *
14874369 AAAATTTTTTTGTTTATTTTTTTGAGATGTTTT
1 AAAATTTTTTT-TTTATTTTTTT-AAAT-ATTT
14874402 AAAATTATATTTTATTTATTTTTTTAAATATTT
1 AAAATT-T-TTTT-TTTATTTTTTTAAATATTT
* *
14874435 AAAATTTTTATTTTTATATTTTAAAATTATTT
1 AAAATTTTT-TTTTTATTTTTTTAAA-TATTT
14874467 TATTTTTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
31 14 0.25
32 8 0.14
33 15 0.27
34 4 0.07
35 15 0.27
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (30 bp):
AAAATTTTTTTTTTATTTTTTTAAATATTT
Found at i:14874426 original size:25 final size:26
Alignment explanation
Indices: 14874398--14874473 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 26
14874388 TTTTGAGATG
14874398 TTTTAAAATTATATTTTATTTATT-T-
1 TTTTAAAATTATATTTTATTT-TTATA
*
14874423 TTTTAAATATTTAAAATTTTTATTTTTATA
1 TTTTAAA-A-TT-ATA-TTTTATTTTTATA
14874453 TTTTAAAA-T-TATTTTATTTTT
1 TTTTAAAATTATATTTTATTTTT
14874474 TAATATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
24 10 0.23
25 8 0.19
26 1 0.02
27 3 0.07
28 4 0.09
29 10 0.23
30 7 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTAAAATTATATTTTATTTTTATA
Found at i:14874448 original size:24 final size:25
Alignment explanation
Indices: 14874416--14874486 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
14874406 TTATATTTTA
14874416 TTTATTTTTTTAAATATTTAAAAT-T
1 TTTA-TTTTTTAAATATTTAAAATAT
*
14874441 TTTA-TTTTTATAT-TTTAAAATTAT
1 TTTATTTTTTAAATATTTAAAA-TAT
*
14874465 TTTATTTTTT-AATATTAAAAAT
1 TTTATTTTTTAAATATTTAAAAT
14874487 CATAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 8 0.21
25 15 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTTTTTAAATATTTAAAATAT
Found at i:14874450 original size:35 final size:36
Alignment explanation
Indices: 14874375--14874451 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
14874365 CACGAAAATT
* * *
14874375 TTTTTGTTTATTTTTTTGAGATGTTTTAAAATTATA
1 TTTTTATTTATTTTTTTGAAATGATTTAAAATTATA
*
14874411 -TTTTATTTATTTTTTT-AAAT-ATTTAAAATTTTTA
1 TTTTTATTTATTTTTTTGAAATGATTTAAAA-TTATA
14874445 TTTTTAT
1 TTTTTAT
14874452 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 7 0.20
34 7 0.20
35 21 0.60
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (36 bp):
TTTTTATTTATTTTTTTGAAATGATTTAAAATTATA
Found at i:14874469 original size:18 final size:18
Alignment explanation
Indices: 14874446--14874481 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14874436 AAATTTTTAT
14874446 TTTTATATTTTAAAATTA
1 TTTTATATTTTAAAATTA
* *
14874464 TTTTATTTTTTAATATTA
1 TTTTATATTTTAAAATTA
14874482 AAAATCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTAAAATTA
Found at i:14874474 original size:25 final size:22
Alignment explanation
Indices: 14874416--14874484 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 22
14874406 TTATATTTTA
14874416 TTTATTTTTTTAAATATTTAAAATT
1 TTTA-TTTTTT-AAT-TTTAAAATT
14874441 TTTA-TTTTTATATTTTAAAATTAT
1 TTTATTTTTTA-ATTTTAAAA-T-T
*
14874465 TTTATTTTTTAATATTAAAA
1 TTTATTTTTTAATTTTAAAA
14874485 ATCATAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 13 0.33
25 10 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATTTTTTAATTTTAAAATT
Found at i:14880874 original size:10 final size:10
Alignment explanation
Indices: 14880845--14880878 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
14880835 TACATAAATA
*
14880845 TATATATATA
1 TATATATATG
14880855 TATATATATG
1 TATATATATG
*
14880865 TATATGTATG
1 TATATATATG
14880875 TATA
1 TATA
14880879 GAGGTGGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:14883727 original size:3 final size:3
Alignment explanation
Indices: 14883719--14883747 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14883709 CATTTCTGAC
14883719 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14883748 GTAGACACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14883867 original size:6 final size:6
Alignment explanation
Indices: 14883856--14883913 Score: 71
Period size: 6 Copynumber: 9.2 Consensus size: 6
14883846 CCCTAATGAG
* *
14883856 TTTTTA TTTTTA TTTTTA TTATTTAA TATATA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TT-TTT-A TTTTTA TTTTTA TTTTTA TTTTTA
14883906 TTATTTA T
1 TT-TTTA T
14883914 CTGCTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
6 33 0.73
7 10 0.22
8 2 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:14883943 original size:36 final size:36
Alignment explanation
Indices: 14883890--14883972 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 36
14883880 AATATATATT
* *
14883890 TTTATTTTTATTTTTATTATTTATC---TGCTTTTA
1 TTTATTATTATTATTATTATTTATCTATTGCTTTTA
*
14883923 TTTATTATTATTATTATTATTTATCTATTTCTTTTA
1 TTTATTATTATTATTATTATTTATCTATTGCTTTTA
14883959 TTTATCTAATTATT
1 TTTAT-T-ATTATT
14883973 TTTTTCTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 23 0.55
36 12 0.29
37 1 0.02
38 6 0.14
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (36 bp):
TTTATTATTATTATTATTATTTATCTATTGCTTTTA
Found at i:14883974 original size:17 final size:17
Alignment explanation
Indices: 14883918--14883974 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
14883908 ATTTATCTGC
14883918 TTTTATTTAT-TATTATTA
1 TTTTATTTATCTA--ATTA
* *
14883936 TTATTATTTATCTATTTC
1 TT-TTATTTATCTAATTA
14883954 TTTTATTTATCTAATTA
1 TTTTATTTATCTAATTA
14883971 TTTT
1 TTTT
14883975 TTTCTTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 17 0.52
18 6 0.18
19 8 0.24
20 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATTTATCTAATTA
Found at i:14884858 original size:14 final size:14
Alignment explanation
Indices: 14884841--14884914 Score: 57
Period size: 14 Copynumber: 5.3 Consensus size: 14
14884831 TGTTTAATAT
14884841 TTTTTATTTATTTA
1 TTTTTATTTATTTA
14884855 TTTTCT-TTTATTTTTA
1 TTTT-TATTTA--TTTA
*
14884871 TTTTCA-TT-TTTA
1 TTTTTATTTATTTA
*
14884883 TTTTTATTTTTTTA
1 TTTTTATTTATTTA
*
14884897 ATTTTA-TTATTTTA
1 TTTTTATTTA-TTTA
14884911 TTTT
1 TTTT
14884915 CTTTAAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
12 9 0.19
13 4 0.08
14 24 0.50
15 3 0.06
16 8 0.17
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:14884881 original size:12 final size:11
Alignment explanation
Indices: 14884838--14884914 Score: 56
Period size: 11 Copynumber: 7.0 Consensus size: 11
14884828 ATTTGTTTAA
14884838 TATTTT-TTATT
1 TATTTTATT-TT
14884849 TA-TTTA-TTT
1 TATTTTATTTT
*
14884858 TCTTTTATTTT
1 TATTTTATTTT
14884869 TATTTTCATTTT
1 TATTTT-ATTTT
14884881 TATTTTTATTTT
1 TA-TTTTATTTT
*
14884893 T-TTAATT-TTAT
1 TATT--TTATTTT
14884904 TATTTTATTTT
1 TATTTTATTTT
14884915 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
9 3 0.06
10 12 0.23
11 17 0.32
12 17 0.32
13 4 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:14884881 original size:18 final size:17
Alignment explanation
Indices: 14884841--14884892 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 17
14884831 TGTTTAATAT
14884841 TTTTTATTTATTTATTTTC
1 TTTTTA-TT-TTTATTTTC
14884860 -TTTTATTTTTATTTTC
1 TTTTTATTTTTATTTTC
14884876 ATTTTTATTTTTATTTT
1 -TTTTTATTTTTATTTT
14884893 TTTAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.29
17 2 0.06
18 20 0.65
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTTATTTTC
Found at i:14884900 original size:9 final size:8
Alignment explanation
Indices: 14884840--14884909 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
14884830 TTGTTTAATA
14884840 TTTTTTAT
1 TTTTTTAT
*
14884848 TTATTTAT
1 TTTTTTAT
14884856 TTTCTTT-T
1 TTT-TTTAT
*
14884864 ATTTTTAT
1 TTTTTTAT
14884872 TTTCATTT-T
1 TTT--TTTAT
14884881 TATTTTTAT
1 T-TTTTTAT
14884890 TTTTTTAAT
1 TTTTTT-AT
*
14884899 TTTATTAT
1 TTTTTTAT
14884907 TTT
1 TTT
14884910 ATTTTCTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
7 3 0.06
8 28 0.56
9 14 0.28
10 5 0.10
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAT
Found at i:14884902 original size:6 final size:6
Alignment explanation
Indices: 14884838--14884893 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
14884828 ATTTGTTTAA
* * *
14884838 TATTTT T-TATT TATTTAT TTTCTTT TATTTT TATTTT CATTTT TATTTT
1 TATTTT TATTTT TATTT-T TAT-TTT TATTTT TATTTT TATTTT TATTTT
14884887 TATTTT T
1 TATTTT T
14884894 TTAATTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
5 4 0.10
6 29 0.71
7 6 0.15
8 2 0.05
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:14884997 original size:61 final size:60
Alignment explanation
Indices: 14884930--14885092 Score: 222
Period size: 61 Copynumber: 2.7 Consensus size: 60
14884920 AATAAAATTC
* *
14884930 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATTTCCA
* * * *
14884991 AAAAAAATATTTTTTTG-GGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATTTTCA
1 AAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCA
*
14885051 AAAAAATGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
14885093 TTCGAAATTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
59 6 0.07
60 35 0.39
61 40 0.45
62 8 0.09
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCA
Found at i:14885000 original size:60 final size:59
Alignment explanation
Indices: 14884919--14885092 Score: 228
Period size: 60 Copynumber: 2.9 Consensus size: 59
14884909 TATTTTCTTT
* *
14884919 AAATAAAATT-CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAATTTCCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
14884977 AAATAAGCTTTCCAAAAAAAATATTTTTTTG-GGAAAAGTTGAAAATATCAATTTTTCTTAA
1 AAATAA-ATTTCCAAAAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
14885038 AAATAAATTTTC-AAAAAAATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AAATAAATTTCCAAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
14885093 TTCGAAATTA
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
58 6 0.06
59 16 0.16
60 38 0.38
61 34 0.34
62 6 0.06
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (59 bp):
AAATAAATTTCCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:14889071 original size:8 final size:8
Alignment explanation
Indices: 14889060--14889127 Score: 61
Period size: 8 Copynumber: 8.6 Consensus size: 8
14889050 TGAGATGATG
14889060 AAAAAAGA
1 AAAAAAGA
**
14889068 AAAATGGA
1 AAAAAAGA
14889076 AAAAAAGA
1 AAAAAAGA
*
14889084 AAGAAAGA
1 AAAAAAGA
14889092 AAAAAA-A
1 AAAAAAGA
14889099 AAAAAA-A
1 AAAAAAGA
*
14889106 AAAATGAGA
1 AAAA-AAGA
14889115 AAATAAA-A
1 AAA-AAAGA
14889123 AAAAA
1 AAAAA
14889128 TTCAAATTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
7 14 0.29
8 29 0.59
9 5 0.10
10 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (8 bp):
AAAAAAGA
Found at i:14889101 original size:23 final size:22
Alignment explanation
Indices: 14889075--14889127 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14889065 AGAAAAATGG
*
14889075 AAAAAAAGAAAGAAAGA-AAAAA
1 AAAAAAA-AAAAAAAGAGAAAAA
* *
14889097 AAAAAAAAAAAAATGAGAAAAT
1 AAAAAAAAAAAAAAGAGAAAAA
14889119 AAAAAAAAA
1 AAAAAAAAA
14889128 TTCAAATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAAAAGAGAAAAA
Found at i:14890984 original size:83 final size:83
Alignment explanation
Indices: 14890822--14891079 Score: 290
Period size: 83 Copynumber: 3.1 Consensus size: 83
14890812 GATTGTCAAT
* * * *
14890822 GAGCCATTTA-CTTTCTAAAAGTTATTGAGCCTTTGATTAGAAGAG-CTTTAGTTATTTTTAAAG
1 GAGCTATTTAGCTTT-TCAAAGTTATTGAGCCTCTGATTAGAAGAGCCTTTA-TT-TTTCTAAAG
* *
14890885 TTGTTGAACCTTTGATTAGAG
63 TTGTTGAGCCTCTGATTAGAG
*
14890906 GAGCTATTT-GCTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCCATTTATTTTTCTAAAGTT
1 GAGCTATTTAGCTTTTCAAAGTTATTGAGCCTCTGATTAGAAGAGCC-TTTATTTTTCTAAAGTT
14890970 GTTGAGCCTCTGATTAGAG
65 GTTGAGCCTCTGATTAGAG
* ** * * *
14890989 GAGCCATTTATTTTTTCAAAATCATTGAGCCTCTGATTAGAAGAGCCTTGTTTATTTTTCAAAAG
1 GAGCTATTTAGCTTTTCAAAGTTATTGAGCCTCTGATTAGAAGAGCC---TTTATTTTTCTAAAG
*
14891054 TCT-TTGAGTCTCTGATTAGAG
63 T-TGTTGAGCCTCTGATTAGAG
14891075 GAGCT
1 GAGCT
14891080 TTGTTTATAT
Statistics
Matches: 150, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
83 62 0.41
84 47 0.31
85 4 0.03
86 36 0.24
87 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (83 bp):
GAGCTATTTAGCTTTTCAAAGTTATTGAGCCTCTGATTAGAAGAGCCTTTATTTTTCTAAAGTTG
TTGAGCCTCTGATTAGAG
Done.