Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 126 of 129
Found at i:22126034 original size:23 final size:24
Alignment explanation
Indices: 22125990--22126039 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 24
22125980 ATATTTTTAA
22125990 TAAAATATATTAATTTTAATTAATT
1 TAAAATATATTAATTTTAATT-ATT
22126015 TAAAATA-A-TAA-TTTATATTATT
1 TAAAATATATTAATTTTA-ATTATT
22126037 TAA
1 TAA
22126040 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 1 0.04
25 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAAAATATATTAATTTTAATTATT
Found at i:22126071 original size:10 final size:10
Alignment explanation
Indices: 22126049--22126085 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
22126039 ATAAAAATTT
22126049 TATATATTAAA
1 TATATA-TAAA
22126060 TATATATAAA
1 TATATATAAA
22126070 TATATATAAA
1 TATATATAAA
22126080 TATATA
1 TATATA
22126086 ATACGGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TATATATAAA
Found at i:22126459 original size:12 final size:12
Alignment explanation
Indices: 22126437--22126461 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22126427 GCCACCGCTG
22126437 CAAAACCCGCCT
1 CAAAACCCGCCT
22126449 CAAAACCCGCCT
1 CAAAACCCGCCT
22126461 C
1 C
22126462 TTTCTCTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAAACCCGCCT
Found at i:22128272 original size:120 final size:121
Alignment explanation
Indices: 22128112--22128333 Score: 342
Period size: 120 Copynumber: 1.8 Consensus size: 121
22128102 ATAGCTCTCT
* *
22128112 TTGTCATATCAGACACTATCATTTCAAGCTTAACCCTGGATCATTAAACTTCAAA-ATCAAG-AA
1 TTGTCATATCAGACACTATCATTTCAAGCTTAACCCTGGATCAGTAAACTT-AAAGAGCAAGAAA
22128175 AATATCAAT-GGAATTAATACATCTATTCATTGGAAAACAAAAATGAAGACTTTGCCC
65 AATATC-ATCGGAATTAATACATCTATTCATTGGAAAACAAAAATGAAGACTTTGCCC
* ** *
22128232 TTGTCATATCAGACACTATCATTTCAAGCTTTACTGTGGATCAGTAAGCTTAAAGAGCAAGAAAA
1 TTGTCATATCAGACACTATCATTTCAAGCTTAACCCTGGATCAGTAAACTTAAAGAGCAAGAAAA
*
22128297 ATATCATCGGAATTAATACATCTTTTCATTGGAAAAC
66 ATATCATCGGAATTAATACATCTATTCATTGGAAAAC
22128334 GAGGAAAAAC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
119 3 0.03
120 53 0.58
121 36 0.39
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (121 bp):
TTGTCATATCAGACACTATCATTTCAAGCTTAACCCTGGATCAGTAAACTTAAAGAGCAAGAAAA
ATATCATCGGAATTAATACATCTATTCATTGGAAAACAAAAATGAAGACTTTGCCC
Found at i:22131134 original size:2 final size:2
Alignment explanation
Indices: 22131127--22131158 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22131117 AATAGTATTA
22131127 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22131159 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22132015 original size:32 final size:32
Alignment explanation
Indices: 22131979--22132042 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
22131969 ATTCCCATGG
*
22131979 CTATGCAGAATATAAATAATGATGGAAATATT
1 CTATGCAGAATATAAATAATGATAGAAATATT
*
22132011 CTATGCAGAATATAAATGATGATAGAAATATT
1 CTATGCAGAATATAAATAATGATAGAAATATT
22132043 ATAACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (32 bp):
CTATGCAGAATATAAATAATGATAGAAATATT
Found at i:22137948 original size:11 final size:11
Alignment explanation
Indices: 22137917--22137961 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
22137907 TAATCAAATA
22137917 AATTTAAA--T
1 AATTTAAATTT
22137926 AATTTAATATTT
1 AATTTAA-ATTT
*
22137938 ATTTTAAATTT
1 AATTTAAATTT
22137949 AATTTAAATTT
1 AATTTAAATTT
22137960 AA
1 AA
22137962 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 16 0.52
12 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:22152888 original size:15 final size:16
Alignment explanation
Indices: 22152860--22152899 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
22152850 CTTTAAAAAA
* *
22152860 TTTTCTTTTCCATTTT
1 TTTTCCTTTCCATTTC
22152876 TTTTCCTTT-CATTTC
1 TTTTCCTTTCCATTTC
22152891 TTTTCCTTT
1 TTTTCCTTT
22152900 ATTAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTCCTTTCCATTTC
Found at i:22154073 original size:145 final size:146
Alignment explanation
Indices: 22153794--22154057 Score: 349
Period size: 145 Copynumber: 1.8 Consensus size: 146
22153784 CTGAACTTAG
* * * * *
22153794 ATTTTCATGAAACTTTTCGGATCTCAATTTTATAACATTTCATGATTTTTTGTGCATTTAGAATC
1 ATTTTCATGAAAATTTTCAGATCTCAATTTTATAACATTTCATGATTTTTAGTGCATCTAAAATC
* * *
22153859 ACATCAGTATCTCGAAAAATGTGAAATTATCAAAAAACTCTTATAAGAGTATTTTCATAATTTAG
66 ACATCAGTATCACCAAAAATGTGAAATTACCAAAAAACTCTTATAAGAGTATTTTCATAATTTAG
22153924 CTTTTTTGAGCTCAAA
131 CTTTTTTGAGCTCAAA
* * * *
22153940 ATTTT-ATGAAAATTTTTAGATCTTAATTTTATAATATTTTATGATTTTTAGTGCATCTAAAATC
1 ATTTTCATGAAAATTTTCAGATCTCAATTTTATAACATTTCATGATTTTTAGTGCATCTAAAATC
*
22154004 ACAGT-AGTA-CACCAAAAAGTGTG-AATTACCAAAATAAC-CTTATAAGGGTATTTT
66 ACA-TCAGTATCACCAAAAA-TGTGAAATTACCAAAA-AACTCTTATAAGAGTATTTT
22154058 GTTAATTTGG
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
144 32 0.31
145 64 0.63
146 6 0.06
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (146 bp):
ATTTTCATGAAAATTTTCAGATCTCAATTTTATAACATTTCATGATTTTTAGTGCATCTAAAATC
ACATCAGTATCACCAAAAATGTGAAATTACCAAAAAACTCTTATAAGAGTATTTTCATAATTTAG
CTTTTTTGAGCTCAAA
Found at i:22155362 original size:63 final size:63
Alignment explanation
Indices: 22155282--22155481 Score: 166
Period size: 63 Copynumber: 3.2 Consensus size: 63
22155272 TCATTTATAG
* * * *
22155282 ATGTAGGGAAAAAATCACACGCAATGCACAATCCTACCATGGTCTTACTAGCCTAGTTTCTAT
1 ATGTAGTGAAAAAATCACACGCAATGCACAATCCCACCATGGTCTTACTAGCCTAGATTCCAT
* * *** * *
22155345 ATGTAGTGAAAATATCACATGCAATGCATGGTCCCACCATGGTTTTACTTGCCTAGATTCCAT
1 ATGTAGTGAAAAAATCACACGCAATGCACAATCCCACCATGGTCTTACTAGCCTAGATTCCAT
** * * * * *** * ** * * *
22155408 ATAAAGTGAAAGAGTCAAATGCAATGCATGGTCCCACCATGGTTTTGTTTGCCTAGCTTTCAT
1 ATGTAGTGAAAAAATCACACGCAATGCACAATCCCACCATGGTCTTACTAGCCTAGATTCCAT
22155471 ATGTAGTGAAA
1 ATGTAGTGAAA
22155482 GGATCAAATG
Statistics
Matches: 114, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 114 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (63 bp):
ATGTAGTGAAAAAATCACACGCAATGCACAATCCCACCATGGTCTTACTAGCCTAGATTCCAT
Found at i:22155482 original size:63 final size:62
Alignment explanation
Indices: 22155332--22155522 Score: 215
Period size: 63 Copynumber: 3.0 Consensus size: 62
22155322 GGTCTTACTA
* * **
22155332 GCCTAGTTTCTATATGTAGTGAAA-ATATCACATGCAATGCATGGTCCCACCATGGTTTTACTT
1 GCCTAGTTTC-ATATGTAGTGAAAGA-GTCAAATGCAATGCATGGTCCCACCATGGTTTTGTTT
* **
22155395 GCCTAGATTCCATATAAAGTGAAAGAGTCAAATGCAATGCATGGTCCCACCATGGTTTTGTTT
1 GCCTAG-TTTCATATGTAGTGAAAGAGTCAAATGCAATGCATGGTCCCACCATGGTTTTGTTT
* * ** *
22155458 GCCTAGCTTTCATATGTAGTGAAAG-GATCAAATGCAAGGCACGGTCCCACTTTTGTTTTGTTT
1 GCCTAG-TTTCATATGTAGTGAAAGAG-TCAAATGCAATGCATGGTCCCACCATGGTTTTGTTT
22155521 GC
1 GC
22155523 TTAATTTTTT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
62 1 0.01
63 104 0.95
64 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (62 bp):
GCCTAGTTTCATATGTAGTGAAAGAGTCAAATGCAATGCATGGTCCCACCATGGTTTTGTTT
Found at i:22157869 original size:34 final size:34
Alignment explanation
Indices: 22157810--22157876 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
22157800 TTATCATAAA
* *
22157810 ATGTCGCTAAATTTAGAGGCATTTATAATAGAAT
1 ATGTCACTAAATTTAGAGACATTTATAATAGAAT
* * *
22157844 ATGTCACTAAATTTAGTGACGTTTATAGTAGAA
1 ATGTCACTAAATTTAGAGACATTTATAATAGAA
22157877 AGTGCCGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (34 bp):
ATGTCACTAAATTTAGAGACATTTATAATAGAAT
Found at i:22158860 original size:11 final size:11
Alignment explanation
Indices: 22158844--22158879 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
22158834 ACTTAAGTAG
22158844 AAAATGAGAAA
1 AAAATGAGAAA
*
22158855 AAAATGATAAA
1 AAAATGAGAAA
22158866 AAAATGAGCAAA
1 AAAATGAG-AAA
22158878 AA
1 AA
22158880 TTGAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.72, C:0.03, G:0.14, T:0.11
Consensus pattern (11 bp):
AAAATGAGAAA
Found at i:22158869 original size:22 final size:21
Alignment explanation
Indices: 22158844--22158887 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
22158834 ACTTAAGTAG
22158844 AAAATGAGAAAAAAATGATAAA
1 AAAATGAGAAAAAAATGA-AAA
* *
22158866 AAAATGAGCAAAAATTGAAAA
1 AAAATGAGAAAAAAATGAAAA
22158887 A
1 A
22158888 TTATGTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAATGAGAAAAAAATGAAAA
Found at i:22159130 original size:60 final size:59
Alignment explanation
Indices: 22158964--22159130 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 59
22158954 AAAAAAGTGT
* * * * *
22158964 GATTATTGAAGGCGTTTTTTACCAAAAAT-ACCTTCAATAATCTCCTCTAATTTTTTTGAA
1 GATTATTCAAGGTG-TTTTTACCAAAAATCACATTAAATAATC-CCTTTAATTTTTTTGAA
* * * * *
22159024 AATTATTCAAGGTGTTTCTAGCCAAAAA-CGCATTGAATAATCCCCTTTTATTTTTTTGAA
1 GATTATTCAAGGTGTTTTTA-CCAAAAATCACATTAAATAAT-CCCTTTAATTTTTTTGAA
* *
22159084 GATTATTCAAGGTGTTTTTGATCAAAAATCACGTTAAATAATCCCTT
1 GATTATTCAAGGTGTTTTT-ACCAAAAATCACATTAAATAATCCCTT
22159131 ACAAAAACTT
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
59 5 0.06
60 70 0.80
61 12 0.14
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (59 bp):
GATTATTCAAGGTGTTTTTACCAAAAATCACATTAAATAATCCCTTTAATTTTTTTGAA
Found at i:22159287 original size:56 final size:58
Alignment explanation
Indices: 22159170--22159307 Score: 165
Period size: 57 Copynumber: 2.4 Consensus size: 58
22159160 GTTTCTAACT
* *
22159170 AAAAATGCCTTCAATAATCCTCTTCATTTTTTGAAAAATTATTCAAGGTGTTTTCTGC-
1 AAAAATGCCTTCAATAAT-CTCTTCATTTTTTGAAAAATTATTCAAGGTATTTTATGCA
* ** **
22159228 AAAAATGCCTTCAATAATCTTTTC-TTTTTTTTAGGATTATTCAAGGTATTTTGAT-CA
1 AAAAATGCCTTCAATAATCTCTTCATTTTTTGAAAAATTATTCAAGGTATTTT-ATGCA
*
22159285 AAAAATGCCTTGAATAATCTCTT
1 AAAAATGCCTTCAATAATCTCTT
22159308 ACAAAAAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
56 24 0.35
57 27 0.39
58 18 0.26
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (58 bp):
AAAAATGCCTTCAATAATCTCTTCATTTTTTGAAAAATTATTCAAGGTATTTTATGCA
Found at i:22159311 original size:177 final size:179
Alignment explanation
Indices: 22158966--22159379 Score: 464
Period size: 177 Copynumber: 2.3 Consensus size: 179
22158956 AAAAGTGTGA
* * * *
22158966 TTATTGAAGGCGTTTTTTACCAAAAATACCTTCAATAAT-CTCCTCTAATTTTTTTGAAAATTAT
1 TTATTCAAGGCGTTTCTAACTAAAAATACCTTCAATAATCCT-CT-TAA-TTTTTTGAAAATTAT
*
22159030 TCAAGGTGTTTCTAGCCAAAAACGCATTGAATAATCCCCTTTTATTTTTTTGAAGATTATTCAAG
63 TCAAGGTGTTTCTAGCCAAAAACGCATTCAATAAT--CCTTTTATTTTTTTGAAGATTATTCAAG
* *
22159095 GTGTTTTTGATCAAAAATCACGTTAAATAATCCCTTACAAAAACTTAAATAAGG
126 GTGATTTTGATCAAAAATCACGTTAAATAATCCCTTACAAAAAATTAAATAAGG
* * *
22159149 TTGTTCAAGGCGTTTCTAACTAAAAATGCCTTCAATAATCCTCTTCATTTTTTGAAAAATTATTC
1 TTATTCAAGGCGTTTCTAACTAAAAATACCTTCAATAATCCTCTTAATTTTTTG-AAAATTATTC
* * * * *
22159214 AAGGTGTTTTCT-G-CAAAAATGCCTTCAATAAT-CTTTTCTTTTTTTTAGGATTATTCAAGGT-
65 AAGGTG-TTTCTAGCCAAAAACGCATTCAATAATCCTTTTATTTTTTTGAAGATTATTCAAGGTG
* * * **
22159275 ATTTTGATCAAAAAATGC-C-TTGAATAATCTCTTACAAAAAATTGAATGTGG
129 ATTTTGATC-AAAAAT-CACGTTAAATAATCCCTTACAAAAAATTAAATAAGG
* * * * *
22159326 TTATTTAAGGCATTTCTAGCTAAAAATACCTTGAATAATCCTCTTTGATTTTTT
1 TTATTCAAGGCGTTTCTAACTAAAAATACCTTCAATAATCCTC-TTAATTTTTT
22159380 TATGGGATTA
Statistics
Matches: 198, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
177 71 0.36
178 42 0.21
179 1 0.01
181 23 0.12
182 19 0.10
183 40 0.20
184 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.40
Consensus pattern (179 bp):
TTATTCAAGGCGTTTCTAACTAAAAATACCTTCAATAATCCTCTTAATTTTTTGAAAATTATTCA
AGGTGTTTCTAGCCAAAAACGCATTCAATAATCCTTTTATTTTTTTGAAGATTATTCAAGGTGAT
TTTGATCAAAAATCACGTTAAATAATCCCTTACAAAAAATTAAATAAGG
Found at i:22159474 original size:123 final size:119
Alignment explanation
Indices: 22159228--22159489 Score: 282
Period size: 123 Copynumber: 2.2 Consensus size: 119
22159218 TGTTTTCTGC
* * *
22159228 AAAAATGCCTTCAATAAT-CTTTTCTTTTTTTTAGGATTATTCAAGGTATTTTGATCAAAAAATG
1 AAAAATGCCTTAAATAATCCTTTTATTTTTTTTAGGATTATTCAAGGTATTTTGATCAAAAAATA
* * * * * * *
22159292 CCTTGAATAATCTCTTACAAAAAATTGAATGTGGTTATTTAAGGCATTTCTAGCT
66 CCTTGAATAA-CTCTTAAAAAAAAATAAATGTGATTATTCAAGGCATTTCTACCA
* * *
22159347 AAAAATACCTTGAATAATCCTCTTTGATTTTTTTATGGGATTATTCAAGGTATTTTGA-CAAAAA
1 AAAAATGCCTTAAATAATCCT-TTT-ATTTTTTT-TAGGATTATTCAAGGTATTTTGATCAAAAA
*
22159411 A-ACATCTTGAATAA-TCTTAAAAAAAAATAAATGTTGATTATTCAAGGCGTGTT-TGACCA
63 ATAC--CTTGAATAACTCTTAAAAAAAAATAAATG-TGATTATTCAAGGCAT-TTCT-ACCA
22159470 AAAAATGCCTTAAATAATCC
1 AAAAATGCCTTAAATAATCC
22159490 CTTAAAAAAG
Statistics
Matches: 119, Mismatches: 15, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
119 16 0.13
120 2 0.02
121 20 0.17
122 28 0.24
123 53 0.45
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (119 bp):
AAAAATGCCTTAAATAATCCTTTTATTTTTTTTAGGATTATTCAAGGTATTTTGATCAAAAAATA
CCTTGAATAACTCTTAAAAAAAAATAAATGTGATTATTCAAGGCATTTCTACCA
Found at i:22159608 original size:182 final size:183
Alignment explanation
Indices: 22159262--22159608 Score: 448
Period size: 182 Copynumber: 1.9 Consensus size: 183
22159252 TTTTTTTTAG
* * * * * *
22159262 GATTATTCAAGGTATTTTGATCAAAAAATGCCTTGAATAATCTCTTACAAAAAATTGAATGTGGT
1 GATTATTCAAGGCATTTTGACCAAAAAATGCCTTAAATAATCCCTTA-AAAAAAGTGAATGGGGT
* * *
22159327 TATTTAAGGCATTTCTAGCTAAAAATACCTTGAATAATCCTCTTTGATTTTTTTATGGGATTATT
65 TATTTAAGGCATTTCTAGCTAAAAACACCTTGAATAATCCTCTTTCATTTTTTTATAGGATTATT
* * *
22159392 CAAGGTATTTTGACAAAAAAACATCTTGAATAATCTTAAAAAAAAATAAATGTT
130 CAAGGAATTTTGACAAAAAAACACCTTAAATAATCTTAAAAAAAAATAAATGTT
*
22159446 GATTATTCAAGGCGTGTTTGACCAAAAAATGCCTTAAATAATCCCTT-AAAAAAGTGAATGGGGT
1 GATTATTCAAGGCAT-TTTGACCAAAAAATGCCTTAAATAATCCCTTAAAAAAAGTGAATGGGGT
* * * * * *
22159510 TA-TTAAGTCGTTTCTGGTTAAAAACGCTTTGAATAATCCTCTTTCATTTTTTT-TAGGATTATT
65 TATTTAAGGCATTTCTAGCTAAAAACACCTTGAATAATCCTCTTTCATTTTTTTATAGGATTATT
* * *
22159573 CAAGGAATTTTTGGCCAAAAAATACCTTAAATAATC
130 CAAGGAA-TTTTGACAAAAAAACACCTTAAATAATC
22159609 CTTTACTTTT
Statistics
Matches: 139, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
181 15 0.11
182 66 0.47
183 17 0.12
184 13 0.09
185 28 0.20
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (183 bp):
GATTATTCAAGGCATTTTGACCAAAAAATGCCTTAAATAATCCCTTAAAAAAAGTGAATGGGGTT
ATTTAAGGCATTTCTAGCTAAAAACACCTTGAATAATCCTCTTTCATTTTTTTATAGGATTATTC
AAGGAATTTTGACAAAAAAACACCTTAAATAATCTTAAAAAAAAATAAATGTT
Found at i:22159653 original size:59 final size:61
Alignment explanation
Indices: 22159541--22159675 Score: 147
Period size: 59 Copynumber: 2.2 Consensus size: 61
22159531 AAACGCTTTG
*
22159541 AATAATCCTCTTTCATTTTTTTTAGGATTATTCAAGGAATTTTTGGCCAAAAAATAC-CTTA
1 AATAATCCTCTTACATTTTTTTTAGGATTATTCAAGGAATTTTTGGCCAAAAAAT-CGCTTA
* * * *
22159602 AATAATCCT-TTAC-TTTTTTTTTGGATTATTCAA-GACGTTTTTTTGTC-AAAAATCGTCTTA
1 AATAATCCTCTTACATTTTTTTTAGGATTATTCAAGGA--ATTTTTGGCCAAAAAATCG-CTTA
22159662 AATAAT-CTCTTACA
1 AATAATCCTCTTACA
22159676 AAAAATTGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
58 3 0.05
59 27 0.43
60 24 0.38
61 9 0.14
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (61 bp):
AATAATCCTCTTACATTTTTTTTAGGATTATTCAAGGAATTTTTGGCCAAAAAATCGCTTA
Found at i:22159823 original size:61 final size:60
Alignment explanation
Indices: 22159687--22159837 Score: 173
Period size: 60 Copynumber: 2.5 Consensus size: 60
22159677 AAAATTGAAA
* * * * * *
22159687 TGGGG-TTATTCAAGACGTTTATAGCTAAAAATGCTTTGAATAATCCCTTCATTTTTTAT
1 TGGGGATTATTCAAGGCGTTTTTAGCTAAAAACGCTTTAAATAATCCCCTCAATTTTTAT
* * *
22159746 TAGGGATTATTTAAGGCGTTTTTGGC-AGAAAACGCTTTAAATAATCCCCTCTAATTTTTAT
1 TGGGGATTATTCAAGGCGTTTTTAGCTA-AAAACGCTTTAAATAATCCCCTC-AATTTTTAT
*
22159807 TGGGGATTATTCAAGGCGTTTTTTG-TAAAAA
1 TGGGGATTATTCAAGGCGTTTTTAGCTAAAAA
22159838 ATATCTTAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
59 5 0.07
60 40 0.53
61 31 0.41
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (60 bp):
TGGGGATTATTCAAGGCGTTTTTAGCTAAAAACGCTTTAAATAATCCCCTCAATTTTTAT
Found at i:22159847 original size:61 final size:60
Alignment explanation
Indices: 22159692--22159851 Score: 160
Period size: 61 Copynumber: 2.6 Consensus size: 60
22159682 TGAAATGGGG
* * * * * * * *
22159692 TTATTCAAGACGTTTATAGCTAAAAATGCTTTGAATAATCCCTTCATTTTTTATTAGGGA
1 TTATTCAAGGCGTTTTTGGCAAAAAAAGCTTTAAATAATCCCCTCAATTTTTATTAGGGA
* * * *
22159752 TTATTTAAGGCGTTTTTGGCAGAAAACGCTTTAAATAATCCCCTCTAATTTTTATTGGGGA
1 TTATTCAAGGCGTTTTTGGCAAAAAAAGCTTTAAATAATCCCCTC-AATTTTTATTAGGGA
* * *
22159813 TTATTCAAGGCGTTTTTTGTAAAAAATATC-TTAAATAAT
1 TTATTCAAGGCGTTTTTGGCAAAAAA-AGCTTTAAATAAT
22159852 TTCTTTGTTA
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
60 36 0.44
61 44 0.54
62 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (60 bp):
TTATTCAAGGCGTTTTTGGCAAAAAAAGCTTTAAATAATCCCCTCAATTTTTATTAGGGA
Found at i:22161211 original size:3 final size:3
Alignment explanation
Indices: 22161203--22161235 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22161193 CATTGGAATC
22161203 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22161236 TGGAATTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22162819 original size:30 final size:31
Alignment explanation
Indices: 22162779--22162885 Score: 107
Period size: 30 Copynumber: 3.6 Consensus size: 31
22162769 ATTTATATTA
*
22162779 AAAG-TTTATTTAG-ATATAAATTAAAAAAT
1 AAAGATTTATTTAGAATATAAATTAAAAATT
* * **
22162808 AAAGATTTATTTTGAATACAAATTAAAGTTT
1 AAAGATTTATTTAGAATATAAATTAAAAATT
* *
22162839 AAAAATTTATTT-GAATGTAAATTAAAAATT
1 AAAGATTTATTTAGAATATAAATTAAAAATT
22162869 AAA-AGTTTATTTA-AATA
1 AAAGA-TTTATTTAGAATA
22162886 CAGTAAAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
29 5 0.08
30 35 0.56
31 23 0.37
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (31 bp):
AAAGATTTATTTAGAATATAAATTAAAAATT
Found at i:22162864 original size:61 final size:58
Alignment explanation
Indices: 22162776--22162910 Score: 148
Period size: 61 Copynumber: 2.3 Consensus size: 58
22162766 TTAATTTATA
* * * *
22162776 TTAAAAGTTTATTTAGATATAAATTAAAAAAT-AAAGATTTATTTTGAATACAAATTAAAGT
1 TTAAAAATTTATTTAGATATAAATTAAAAAATAAAAG-TTTA-TTTAAATAC--AGTAAAAT
* *
22162837 TTAAAAATTTATTT-GAATGTAAATTAAAAATTAAAAGTTTATTTAAATACAGTAAAAT
1 TTAAAAATTTATTTAG-ATATAAATTAAAAAATAAAAGTTTATTTAAATACAGTAAAAT
22162895 TATAAAAATTTATTTA
1 T-TAAAAATTTATTTA
22162911 CGTAAAATGA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
58 7 0.11
59 13 0.20
60 9 0.14
61 31 0.48
62 4 0.06
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (58 bp):
TTAAAAATTTATTTAGATATAAATTAAAAAATAAAAGTTTATTTAAATACAGTAAAAT
Found at i:22164108 original size:31 final size:32
Alignment explanation
Indices: 22164047--22164111 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
22164037 TATGAAATAC
*
22164047 TTTTTATATAATAAAATCAGATTAGATATAAA
1 TTTTTATATAATAAAATCAGAATAGATATAAA
* *
22164079 TTTTTATA-AATAATATTAGAATA-ATTATAAA
1 TTTTTATATAATAAAATCAGAATAGA-TATAAA
22164110 TT
1 TT
22164112 AATAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 1 0.03
31 20 0.69
32 8 0.28
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (32 bp):
TTTTTATATAATAAAATCAGAATAGATATAAA
Found at i:22165604 original size:18 final size:20
Alignment explanation
Indices: 22165573--22165610 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22165563 AAAAAATGAA
22165573 TTATGTGTGAATAT-ATATTT
1 TTATGTGT-AATATAATATTT
22165593 TTATGTGT-ATATAATATT
1 TTATGTGTAATATAATATT
22165611 GAGATAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTATGTGTAATATAATATTT
Found at i:22170533 original size:21 final size:20
Alignment explanation
Indices: 22170496--22170534 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
22170486 AAATTAAAAT
**
22170496 TTTAATAAAAATTATATAAA
1 TTTAATAAAAAAAATATAAA
22170516 TTTAATAAAAAAAAATATA
1 TTTAAT-AAAAAAAATATA
22170535 TTTTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAATAAAAAAAATATAAA
Found at i:22170539 original size:20 final size:20
Alignment explanation
Indices: 22170493--22170539 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
22170483 TATAAATTAA
**
22170493 AATTTTAATAAAAATTATAT
1 AATTTTAATAAAAAAAATAT
*
22170513 AAATTTAATAAAAAAAA-AT
1 AATTTTAATAAAAAAAATAT
22170532 ATATTTTA
1 A-ATTTTA
22170540 TATTTTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTTAATAAAAAAAATAT
Found at i:22171161 original size:23 final size:23
Alignment explanation
Indices: 22171131--22171188 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
22171121 TGTACTCTTG
22171131 AAAATTTGTTTTCGAGAATACAT
1 AAAATTTGTTTTCGAGAATACAT
22171154 AAAATTTGTTTTCGAGAATACAT
1 AAAATTTGTTTTCGAGAATACAT
22171177 AAAATTTGTTTT
1 AAAATTTGTTTT
22171189 AAAATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (23 bp):
AAAATTTGTTTTCGAGAATACAT
Found at i:22171815 original size:34 final size:34
Alignment explanation
Indices: 22171702--22171815 Score: 101
Period size: 34 Copynumber: 3.4 Consensus size: 34
22171692 CAAAGAAGCC
* *
22171702 TTAAGGCTTTTTGAAAATGGATATCCGAGAAGA-T
1 TTAAAGCTTTTTGAAAATGGATATCTGAGAA-ATT
* * *
22171736 AT-AAGACTTTTT-AGAAATGAATAT-TCAGAAAGTT
1 TTAAAG-CTTTTTGA-AAATGGATATCTGAGAAA-TT
* *
22171770 TTGAAGTTTTTTGAAAATGGATATCTGAGAAATT
1 TTAAAGCTTTTTGAAAATGGATATCTGAGAAATT
22171804 TTAAAGCTTTTT
1 TTAAAGCTTTTT
22171816 AGATATCAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
32 1 0.02
33 7 0.11
34 44 0.71
35 10 0.16
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (34 bp):
TTAAAGCTTTTTGAAAATGGATATCTGAGAAATT
Found at i:22174839 original size:12 final size:12
Alignment explanation
Indices: 22174822--22174851 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22174812 TTATAATTTT
22174822 GTATTATATTAG
1 GTATTATATTAG
22174834 GTATTATATTAG
1 GTATTATATTAG
*
22174846 GGATTA
1 GTATTA
22174852 CTTGAATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (12 bp):
GTATTATATTAG
Found at i:22185568 original size:16 final size:16
Alignment explanation
Indices: 22185549--22185583 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22185539 TATTATTTTT
22185549 TTATAAAATATAAAAA
1 TTATAAAATATAAAAA
* *
22185565 TTATAAATTATAAATA
1 TTATAAAATATAAAAA
22185581 TTA
1 TTA
22185584 AAATTTAAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTATAAAATATAAAAA
Found at i:22185597 original size:23 final size:23
Alignment explanation
Indices: 22185549--22185593 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
22185539 TATTATTTTT
22185549 TTATAAAATATAAAAATTATAAA
1 TTATAAAATATAAAAATTATAAA
*
22185572 TTAT-AAATATTAAAATT-TAAA
1 TTATAAAATATAAAAATTATAAA
22185593 T
1 T
22185594 ATTAAGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TTATAAAATATAAAAATTATAAA
Found at i:22198350 original size:244 final size:237
Alignment explanation
Indices: 22197844--22198544 Score: 967
Period size: 244 Copynumber: 3.0 Consensus size: 237
22197834 GCCAAACTGA
** * *
22197844 ACTCACAGTTGATATGAAAATTCAGGGCGGCCTGACACGTCAGCAGCCTACATGCTAAAGCCCCA
1 ACTCACAGTTGACCTGGAAATTCAGGGCGGCCTGACATGTCAGCAGCCTACATGCTAAAGCCCCA
** *
22197909 GGATGCAAGTTTGTCCCGCCCTGAATGGACGGTCAACTGCGAGTTCAGCTTAGGCCTACGAGGTC
66 GGATGCTGGTTTGTCCCGCCCTGAATGGACGGTCAACTGCGAGTTCAGCTTAGGCCTACAAGGTC
*
22197974 AGCTCTAGTTCTTTAGGGCTGATGAACT--AG-A-GCTGACCTGAACAGCCTAAACCCAAAACCC
131 AGCTCTAGTTC--TAGGGCTGATGAACTAGAGCATGCTGACCTGAGCAGCCTAAACCCAAAACCC
22198035 CATCTCATAGGTATAAATAACACCATCCAAGTGTCTCTCAACCT
194 CATCTCATAGGTATAAATAACACCATCCAAGTGTCTCTCAACCT
*
22198079 ACTCACGGTTGACCTGGAAATTCAGGGCGGCCTGACATGTCAGCAGCCTACATGCTAAAGCCCCA
1 ACTCACAGTTGACCTGGAAATTCAGGGCGGCCTGACATGTCAGCAGCCTACATGCTAAAGCCCCA
* * * * *
22198144 GGATGCTGGTTTGTCCTGCCCCGAATGGATGGTCAACTGCGAGTTTAGCTTGGGCCTACAAGGTC
66 GGATGCTGGTTTGTCCCGCCCTGAATGGACGGTCAACTGCGAGTTCAGCTTAGGCCTACAAGGTC
*
22198209 AGCTCTAGTTCTAGGGCTGATGAACTAGCACTGAACTAGTGCTGACCTGAGTAGCCTAAACCCAA
131 AGCTCTAGTTCTAGGGCTGATGAACTAG-A--G--C-A-TGCTGACCTGAGCAGCCTAAACCCAA
22198274 AACCCCATCTCATAGGTATAAATAACACCATCCAAGTGTCTCTCAACCT
189 AACCCCATCTCATAGGTATAAATAACACCATCCAAGTGTCTCTCAACCT
* ***
22198323 ACTCGCAGTTGACCTGGAAATTCAGGGCAATCTGACATGTCAGCAGCCTACATGCTAAAGCCCCA
1 ACTCACAGTTGACCTGGAAATTCAGGGCGGCCTGACATGTCAGCAGCCTACATGCTAAAGCCCCA
** * **** *
22198388 GGATGCTGGTTTGTCCCATCCTGAATGGACGGTCAACTGCGAGTTCAGCTTAAGCCTACTTCTTT
66 GGATGCTGGTTTGTCCCGCCCTGAATGGACGGTCAACTGCGAGTTCAGCTTAGGCCTACAAGGTC
*
22198453 A-CT-T-CTT-TAGGGCTGATGAACTAGAGC-T--T-ACCTGAGCAGCCTAAACCCAAAACCCCA
131 AGCTCTAGTTCTAGGGCTGATGAACTAGAGCATGCTGACCTGAGCAGCCTAAACCCAAAACCCCA
**
22198510 TCTCATAGACATAAATAACACCATCCAAGTGTCTC
196 TCTCATAGGTATAAATAACACCATCCAAGTGTCTC
22198545 AACCCATCTT
Statistics
Matches: 418, Mismatches: 37, Indels: 28
0.87 0.08 0.06
Matches are distributed among these distances:
229 60 0.14
230 1 0.00
232 1 0.00
233 15 0.04
235 129 0.31
236 1 0.00
237 1 0.00
238 1 0.00
239 1 0.00
240 17 0.04
241 2 0.00
242 2 0.00
243 2 0.00
244 185 0.44
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (237 bp):
ACTCACAGTTGACCTGGAAATTCAGGGCGGCCTGACATGTCAGCAGCCTACATGCTAAAGCCCCA
GGATGCTGGTTTGTCCCGCCCTGAATGGACGGTCAACTGCGAGTTCAGCTTAGGCCTACAAGGTC
AGCTCTAGTTCTAGGGCTGATGAACTAGAGCATGCTGACCTGAGCAGCCTAAACCCAAAACCCCA
TCTCATAGGTATAAATAACACCATCCAAGTGTCTCTCAACCT
Found at i:22200028 original size:15 final size:15
Alignment explanation
Indices: 22199990--22200028 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
22199980 ACTCTAAACT
*
22199990 TTCCTCCATTGAAGC
1 TTCCTCCATTAAAGC
22200005 TTCCTTCCATTAAAGC
1 TTCC-TCCATTAAAGC
22200021 TTCCTCCA
1 TTCCTCCA
22200029 CATCTCTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.21, C:0.36, G:0.08, T:0.36
Consensus pattern (15 bp):
TTCCTCCATTAAAGC
Found at i:22200737 original size:10 final size:9
Alignment explanation
Indices: 22200715--22200747 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
22200705 TAAAAATATT
22200715 TTTTTATAA
1 TTTTTATAA
22200724 TTTTTATAA
1 TTTTTATAA
22200733 TTTTTATTAA
1 TTTTTA-TAA
22200743 TTTTT
1 TTTTT
22200748 TATATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTATAA
Found at i:22200873 original size:27 final size:26
Alignment explanation
Indices: 22200842--22200916 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
22200832 ATTCAAATAA
22200842 TTTAAAATAAAAAATATAATTTAAAAT
1 TTTAAAATAAAAAATATAATTT-AAAT
* *
22200869 TTT--AATAAAAATTAT-ATATAAAT
1 TTTAAAATAAAAAATATAATTTAAAT
*
22200892 TTAATAAAATTAAAAATATATATTT
1 TT--TAAAATAAAAAATATA-ATTT
22200917 CGTAATTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
23 6 0.16
24 3 0.08
25 12 0.32
27 13 0.35
29 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TTTAAAATAAAAAATATAATTTAAAT
Found at i:22200876 original size:25 final size:22
Alignment explanation
Indices: 22200847--22200900 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
22200837 AATAATTTAA
*
22200847 AATAAAAAATATAATTTAAAATTTT
1 AATAAAAAATAT-ATAT-AAA-TTT
*
22200872 AATAAAAATTATATATAAATTT
1 AATAAAAAATATATATAAATTT
22200894 AATAAAA
1 AATAAAA
22200901 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.37
23 3 0.11
24 3 0.11
25 11 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAAAAAATATATATAAATTT
Found at i:22209542 original size:20 final size:21
Alignment explanation
Indices: 22209517--22209556 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
22209507 TTTAACAAAA
22209517 ATATTAAATAAA-TAATTTAC
1 ATATTAAATAAATTAATTTAC
22209537 ATATTAAATAAATTAATTTA
1 ATATTAAATAAATTAATTTA
22209557 TTTATTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATTAAATAAATTAATTTAC
Found at i:22211051 original size:19 final size:20
Alignment explanation
Indices: 22211015--22211068 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
22211005 GAATTTGAAT
22211015 TAATTTTT-ATATATAAA-TAA
1 TAATTTTTAAT-TA-AAATTAA
22211035 TAATTTTTAATTAAAATTTAA
1 TAATTTTTAATTAAAA-TTAA
22211056 -AA-TTTTAATTAAA
1 TAATTTTTAATTAAA
22211069 TTCATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 14 0.45
20 12 0.39
21 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTTTTAATTAAAATTAA
Found at i:22211077 original size:19 final size:20
Alignment explanation
Indices: 22211034--22211078 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
22211024 TATATAAATA
* *
22211034 ATAATTTTTAATTAAAATTT
1 ATAAATTTTAATTAAAATTC
22211054 A-AAATTTTAATT-AAATTC
1 ATAAATTTTAATTAAAATTC
22211072 ATAAATT
1 ATAAATT
22211079 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAAATTTTAATTAAAATTC
Found at i:22221473 original size:17 final size:16
Alignment explanation
Indices: 22221448--22221490 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
22221438 ATCGATTTGA
*
22221448 TTTTGTAATTAAATTAG
1 TTTTATAATTAAA-TAG
*
22221465 TTTTATAATTAAATCG
1 TTTTATAATTAAATAG
22221481 TTTTA-AATTA
1 TTTTATAATTA
22221491 TTATGAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 12 0.50
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTATAATTAAATAG
Found at i:22221867 original size:16 final size:17
Alignment explanation
Indices: 22221848--22221881 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22221838 ATAATTATAT
22221848 ATAAAA-TTAATAAAAA
1 ATAAAAGTTAATAAAAA
22221864 ATAAAATGTTAATAAAAA
1 ATAAAA-GTTAATAAAAA
22221882 TGATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAAAGTTAATAAAAA
Found at i:22222105 original size:21 final size:20
Alignment explanation
Indices: 22222085--22222124 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
22222075 AAAGATTAAT
22222085 TATTATGTA-TTAATAAATAA
1 TATT-TGTATTTAATAAATAA
22222105 TATTTGTATTTTAATAAATA
1 TATTTGTA-TTTAATAAATA
22222125 TAAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTGTATTTAATAAATAA
Found at i:22222198 original size:23 final size:23
Alignment explanation
Indices: 22222172--22222239 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 23
22222162 TTATTATTTT
22222172 TTATATTTATTAAAATAT-AAATA
1 TTAT-TTTATTAAAATATAAAATA
22222195 TTATTTCTAACTATTAAAATATAAAATA
1 TTA-TT-T---TATTAAAATATAAAATA
* *
22222223 TGATTTTAATAAAATAT
1 TTATTTTATTAAAATAT
22222240 TAAGTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
23 14 0.38
24 2 0.05
26 1 0.03
27 13 0.35
28 7 0.19
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (23 bp):
TTATTTTATTAAAATATAAAATA
Found at i:22223483 original size:14 final size:15
Alignment explanation
Indices: 22223464--22223492 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22223454 ATAATTATTT
22223464 TTATTT-AAATATAA
1 TTATTTAAAATATAA
22223478 TTATTTAAAATATAA
1 TTATTTAAAATATAA
22223493 ATAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATTTAAAATATAA
Found at i:22227438 original size:12 final size:12
Alignment explanation
Indices: 22227421--22227445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22227411 GTCGTTAAGC
22227421 GCCTCGAAGGAG
1 GCCTCGAAGGAG
22227433 GCCTCGAAGGAG
1 GCCTCGAAGGAG
22227445 G
1 G
22227446 TATGCAGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.44, T:0.08
Consensus pattern (12 bp):
GCCTCGAAGGAG
Found at i:22230088 original size:33 final size:33
Alignment explanation
Indices: 22230051--22230125 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
22230041 CTAAGAGGCT
*
22230051 TGAAGAAGAGGAGCAAGAAGGAA-CAAGAAAACG
1 TGAAGAAGAGGAGCAAGAA-GAAGCAAGAAAACA
* *
22230084 TGAAGAAGAGGAGCAAGGAGAAGCAAGTAAACA
1 TGAAGAAGAGGAGCAAGAAGAAGCAAGAAAACA
22230117 TGAAGAAGA
1 TGAAGAAGA
22230126 AGTGCAGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 3 0.08
33 35 0.92
ACGTcount: A:0.53, C:0.08, G:0.33, T:0.05
Consensus pattern (33 bp):
TGAAGAAGAGGAGCAAGAAGAAGCAAGAAAACA
Found at i:22231736 original size:31 final size:31
Alignment explanation
Indices: 22231701--22231764 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
22231691 GGAACATCAG
22231701 TAAGTTCCTGGAAAACCTATTGCCAGCAGAA
1 TAAGTTCCTGGAAAACCTATTGCCAGCAGAA
22231732 TAAGTTCCTGGAAAACCTATTGCCAGCAGAA
1 TAAGTTCCTGGAAAACCTATTGCCAGCAGAA
22231763 TA
1 TA
22231765 CTCCTTGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (31 bp):
TAAGTTCCTGGAAAACCTATTGCCAGCAGAA
Found at i:22233327 original size:13 final size:13
Alignment explanation
Indices: 22233309--22233333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22233299 GAAAATAAAA
22233309 ATTTTAAAGAAAT
1 ATTTTAAAGAAAT
22233322 ATTTTAAAGAAA
1 ATTTTAAAGAAA
22233334 AGTTAAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATTTTAAAGAAAT
Found at i:22233347 original size:57 final size:57
Alignment explanation
Indices: 22233265--22233418 Score: 206
Period size: 57 Copynumber: 2.7 Consensus size: 57
22233255 AAAAATATTT
* * *
22233265 TTTTGAAGAAAAGTTGAAAGTATCAATTTTACTTGAAAATAAAAATTTTAAAGAAATA
1 TTTTAAAGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAAAAATTTAAAAAAATA
22233323 TTTTAAAGAAAAGTT-AAAGTATCAATTTTTCTTGAAAATAAAAAATTTAAAAAAATA
1 TTTTAAAGAAAAGTTGAAAGTATCAA-TTTTCTTGAAAATAAAAAATTTAAAAAAATA
* *
22233380 TTTTGAGAA-AAAA-TTGAAAGTCTCAATTTTTTTGAAAAT
1 TTTT-A-AAGAAAAGTTGAAAGTATCAATTTTCTTGAAAAT
22233419 TTTTAGTGTA
Statistics
Matches: 87, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
57 53 0.61
58 32 0.37
59 2 0.02
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.36
Consensus pattern (57 bp):
TTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAAAAATTTAAAAAAATA
Found at i:22237235 original size:14 final size:14
Alignment explanation
Indices: 22237212--22237246 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
22237202 TATCAATAAT
*
22237212 AGAAAGAAAAAAAA
1 AGAAAAAAAAAAAA
22237226 AGAAAAAAAAAAAA
1 AGAAAAAAAAAAAA
22237240 ATGAAAA
1 A-GAAAA
22237247 TGGAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:22238607 original size:24 final size:24
Alignment explanation
Indices: 22238580--22238625 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
22238570 TGCGAATTAC
* *
22238580 GAAAATTTTATGAATCTTCAATCT
1 GAAAATCTTACGAATCTTCAATCT
* *
22238604 GAAAGTCTTGCGAATCTTCAAT
1 GAAAATCTTACGAATCTTCAAT
22238626 TCTTGTGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (24 bp):
GAAAATCTTACGAATCTTCAATCT
Found at i:22238617 original size:59 final size:58
Alignment explanation
Indices: 22238540--22238655 Score: 162
Period size: 59 Copynumber: 2.0 Consensus size: 58
22238530 AATTCTTGCA
* *
22238540 AATCAGAAAGCCTTGCGAATCTTCGATTCTTGCGAAT-TACGAAAATTTTATGAATCTTC
1 AATCAGAAAGCCTTGCGAATCTTCAATTCTTGCGAATCT--GAAAACTTTATGAATCTTC
* * *
22238599 AATCTGAAAGTCTTGCGAATCTTCAATTCTTGTGAATCTGAAAACTTTATGAATCTT
1 AATCAGAAAGCCTTGCGAATCTTCAATTCTTGCGAATCTGAAAACTTTATGAATCTT
22238656 TAATTTTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
58 17 0.33
59 33 0.65
60 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (58 bp):
AATCAGAAAGCCTTGCGAATCTTCAATTCTTGCGAATCTGAAAACTTTATGAATCTTC
Found at i:22238653 original size:34 final size:34
Alignment explanation
Indices: 22238614--22238697 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 34
22238604 GAAAGTCTTG
22238614 CGAATCTTCAATTCTTGTGAATCTGAAAACTTTA
1 CGAATCTTCAATTCTTGTGAATCTGAAAACTTTA
* * * *
22238648 TGAATCTTTAATTTTTGTGAATCTGAAAACTTTG
1 CGAATCTTCAATTCTTGTGAATCTGAAAACTTTA
*
22238682 CGAATCTCCAATTCTT
1 CGAATCTTCAATTCTT
22238698 TACGAATTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (34 bp):
CGAATCTTCAATTCTTGTGAATCTGAAAACTTTA
Found at i:22238653 original size:93 final size:93
Alignment explanation
Indices: 22238486--22238655 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
22238476 AATGTGAATC
* *
22238486 CGAAAATTTTGTGAATCTCTAATCTGAAAGTCTTGCGAATATCCAATTCTTGCAAATCAGAAAGC
1 CGAAAATTTTATGAATCTCTAATCTGAAAGTCTTGCGAATATCCAATTCTTGCAAATCAGAAAAC
*
22238551 CTTGCGAATCTTCGATTCTTGCGAATTA
66 CTTACGAATCTTCGATTCTTGCGAATTA
* * ** *
22238579 CGAAAATTTTATGAATCT-TCAATCTGAAAGTCTTGCGAATCTTCAATTCTTGTGAATCTGAAAA
1 CGAAAATTTTATGAATCTCT-AATCTGAAAGTCTTGCGAATATCCAATTCTTGCAAATCAGAAAA
* *
22238643 CTTTATGAATCTT
65 CCTTACGAATCTT
22238656 TAATTTTTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
92 1 0.02
93 65 0.98
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (93 bp):
CGAAAATTTTATGAATCTCTAATCTGAAAGTCTTGCGAATATCCAATTCTTGCAAATCAGAAAAC
CTTACGAATCTTCGATTCTTGCGAATTA
Found at i:22238681 original size:17 final size:17
Alignment explanation
Indices: 22238628--22238688 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
22238618 TCTTCAATTC
22238628 TTGTGAATCTGAAAACT
1 TTGTGAATCTGAAAACT
* ** **
22238645 TTATGAATCTTTAATTT
1 TTGTGAATCTGAAAACT
22238662 TTGTGAATCTGAAAACT
1 TTGTGAATCTGAAAACT
*
22238679 TTGCGAATCT
1 TTGTGAATCT
22238689 CCAATTCTTT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (17 bp):
TTGTGAATCTGAAAACT
Found at i:22238703 original size:18 final size:18
Alignment explanation
Indices: 22238677--22238715 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
22238667 AATCTGAAAA
*
22238677 CTTTGCGAATCTCCAATT
1 CTTTACGAATCTCCAATT
* *
22238695 CTTTACGAATTTTCAATT
1 CTTTACGAATCTCCAATT
22238713 CTT
1 CTT
22238716 GTGAATATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (18 bp):
CTTTACGAATCTCCAATT
Found at i:22238720 original size:52 final size:52
Alignment explanation
Indices: 22238643--22238744 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
22238633 AATCTGAAAA
* * * *
22238643 CTTTATGAATCTTTAATTTTTGTGAATCTGAAAACT-TTGCGAATCTCCAATT
1 CTTTACGAATCTTTAATTCTTGTGAATATG-AAACTCTTGCGAACCTCCAATT
*
22238695 CTTTACGAAT-TTTCAATTCTTGTGAATATGAATCTCTTGCGAACCTCCAA
1 CTTTACGAATCTTT-AATTCTTGTGAATATGAAACTCTTGCGAACCTCCAA
22238745 AACTTACGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
51 7 0.16
52 36 0.84
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (52 bp):
CTTTACGAATCTTTAATTCTTGTGAATATGAAACTCTTGCGAACCTCCAATT
Found at i:22239053 original size:85 final size:85
Alignment explanation
Indices: 22238948--22239106 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
22238938 TTGTAAAATT
* *
22238948 AGATTTTGATTTCATCCAGGTCATTTTGTTTTGGATTTTGACCTATGCCAGATCCTTCTTCGATT
1 AGATTTTGATATCATCCAGGTCATTTTGTTTTAGATTTTGACCTATGCCAGATCCTTCTTCGATT
22239013 CAATCCAAGTTAACTATTTC
66 CAATCCAAGTTAACTATTTC
* * * * * *
22239033 AGATTTTGA-ATCAGTCCAGGTTATTTTGTTTTAGATTTTGGCTTATGTCAGATCTTTCTTTGAT
1 AGATTTTGATATCA-TCCAGGTCATTTTGTTTTAGATTTTGACCTATGCCAGATCCTTCTTCGAT
22239097 TCAATCCAAG
65 TCAATCCAAG
22239107 CTATTTATCT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
84 3 0.05
85 62 0.95
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.45
Consensus pattern (85 bp):
AGATTTTGATATCATCCAGGTCATTTTGTTTTAGATTTTGACCTATGCCAGATCCTTCTTCGATT
CAATCCAAGTTAACTATTTC
Found at i:22239136 original size:85 final size:83
Alignment explanation
Indices: 22238946--22239142 Score: 223
Period size: 85 Copynumber: 2.3 Consensus size: 83
22238936 TGTTGTAAAA
*
22238946 TTAGATTTTGATTTCATCCAGGTCATTTTGTTTTGGATTTTGACCTATGCCAGATCCTTCTTCGA
1 TTAGATTTTGA-TTCATCCAGGTCATTTTGTTTTAGATTTTGACCTATGCCAGATCCTTCTTCGA
*
22239011 TTCAATCCAAGTTAACTAT
65 TTCAATCCAAGCTAACTAT
* * * * * * *
22239030 TTCAGATTTTGAATCAGTCCAGGTTATTTTGTTTTAGATTTTGGCTTATGTCAGATCTTTCTTTG
1 TT-AGATTTTGATTCA-TCCAGGTCATTTTGTTTTAGATTTTGACCTATGCCAGATCCTTCTTCG
**
22239095 ATTCAATCCAAGCTATTTAT
64 ATTCAATCCAAGCTAACTAT
* * *
22239115 CTTAGACTTTGGTTCCATCCAGCTCATT
1 -TTAGATTTTGATT-CATCCAGGTCATT
22239143 GTTTTGGATT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
84 5 0.05
85 84 0.90
86 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (83 bp):
TTAGATTTTGATTCATCCAGGTCATTTTGTTTTAGATTTTGACCTATGCCAGATCCTTCTTCGAT
TCAATCCAAGCTAACTAT
Found at i:22244916 original size:21 final size:19
Alignment explanation
Indices: 22244887--22244935 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
22244877 TAATTAAATG
22244887 ATAAA-TATTTATTTTAATA
1 ATAAATTATTTATTTT-ATA
*
22244906 TATTAATTATTTATTTTATA
1 -ATAAATTATTTATTTTATA
22244926 ATAAATTATT
1 ATAAATTATT
22244936 AAATTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
20 7 0.27
21 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAAATTATTTATTTTATA
Found at i:22244933 original size:23 final size:21
Alignment explanation
Indices: 22244892--22244933 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
22244882 AAATGATAAA
*
22244892 TATTTATTTTAATATATTAAT
1 TATTTATTTTAATAAATTAAT
22244913 TATTTATTTTATAATAAATTA
1 TATTTA-TTT-TAATAAATTA
22244934 TTAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 3 0.17
23 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTATTTTAATAAATTAAT
Found at i:22244944 original size:22 final size:25
Alignment explanation
Indices: 22244919--22244964 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
22244909 TAATTATTTA
22244919 TTTT-ATAATA-AATTAT-TAAATT
1 TTTTAATAATATAATTATATAAATT
22244941 TTTTCAATAATATAATTATATAAA
1 TTTT-AATAATATAATTATATAAA
22244965 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
24 6 0.30
25 6 0.30
26 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTAATAATATAATTATATAAATT
Found at i:22246109 original size:14 final size:15
Alignment explanation
Indices: 22246078--22246132 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
22246068 TTTTATTAAA
*
22246078 TAAATTTAA-TCAAA
1 TAAATTTAACTCAAT
22246092 TAAATTTAACT-AAT
1 TAAATTTAACTCAAT
*
22246106 TAAAATTTTATCTCAAAT
1 T-AAA-TTTAACTC-AAT
22246124 TAAATTTAA
1 TAAATTTAA
22246133 ATTTAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 12 0.36
15 4 0.12
16 10 0.30
17 3 0.09
18 4 0.12
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATTTAACTCAAT
Found at i:22252679 original size:31 final size:31
Alignment explanation
Indices: 22252596--22252681 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
22252586 AGCAATGTAG
* *
22252596 AATTTAACAAACTAAAACTTCAACATATATT
1 AATTTAACAAACTAAAACTTCCACATACATT
* *
22252627 AGTTTAACAAACTAAAACTTCCATATACATT
1 AATTTAACAAACTAAAACTTCCACATACATT
* *
22252658 AATTTAACAAGCTAAAGCTTCCAC
1 AATTTAACAAACTAAAACTTCCAC
22252682 CAATGGTGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (31 bp):
AATTTAACAAACTAAAACTTCCACATACATT
Found at i:22258112 original size:14 final size:15
Alignment explanation
Indices: 22258083--22258115 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22258073 AAAAATTAAA
22258083 TAATTCAAACTCGTT
1 TAATTCAAACTCGTT
*
22258098 TAATT-AAATTCGTT
1 TAATTCAAACTCGTT
22258112 TAAT
1 TAAT
22258116 AAAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (15 bp):
TAATTCAAACTCGTT
Found at i:22270648 original size:14 final size:15
Alignment explanation
Indices: 22270629--22270659 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22270619 TAAACTTATA
22270629 TAATTATA-ATATTT
1 TAATTATATATATTT
22270643 TAATTATATATATTT
1 TAATTATATATATTT
22270658 TA
1 TA
22270660 TTCAGATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTATATATATTT
Found at i:22274292 original size:71 final size:71
Alignment explanation
Indices: 22274205--22274347 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
22274195 AAAAAAGCTA
22274205 TTGAGATTCTGGAAACTATGGTTAGCTTTCAGATTAGAGTCATGTAGTTTTGGCTTGAAACTGAA
1 TTGAGATTCTGGAAACTATGGTTAGCTTTCAGATTAGAGTCATGTAGTTTTGGCTTGAAACTGAA
22274270 GCAAAG
66 GCAAAG
22274276 TTGAGATTCTGGAAACTATGGTTAGCTTTCAGATTAGAGTCATGTAGTTTTGGCTTGAAACTGAA
1 TTGAGATTCTGGAAACTATGGTTAGCTTTCAGATTAGAGTCATGTAGTTTTGGCTTGAAACTGAA
22274341 GCAAAG
66 GCAAAG
22274347 T
1 T
22274348 AGGGAATTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.34
Consensus pattern (71 bp):
TTGAGATTCTGGAAACTATGGTTAGCTTTCAGATTAGAGTCATGTAGTTTTGGCTTGAAACTGAA
GCAAAG
Found at i:22274379 original size:9 final size:9
Alignment explanation
Indices: 22274365--22274391 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22274355 TATGCTTGAA
22274365 GATGGTGGT
1 GATGGTGGT
22274374 GATGGTGGT
1 GATGGTGGT
22274383 GATGGTGGT
1 GATGGTGGT
22274392 AAGTGATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.56, T:0.33
Consensus pattern (9 bp):
GATGGTGGT
Found at i:22277417 original size:94 final size:94
Alignment explanation
Indices: 22277252--22277433 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 94
22277242 CCGAGAGTCA
* * * * *
22277252 ATACATATATGTTAGATATTACTTGAGTCCAAAAGTTTAAACTATTAGGTTCTTGGATCTTTTAT
1 ATACATACATGTTAGAAATCACTTGAGTCCAAAAGCTTAAACTATTAGGTTATTGGATCTTTTAT
*
22277317 GTATATATAAAACATCTT-ATTCAAAGCTC
66 GCATATATAAAACAT-TTCATTCAAAGCTC
* *
22277346 ATACATACATGTTAGAAATCACTTGAGTCCAAAAGCTTAAGCTATTAGGTTATTGGGT-TCTTTA
1 ATACATACATGTTAGAAATCACTTGAGTCCAAAAGCTTAAACTATTAGGTTATTGGATCT-TTTA
*
22277410 TGCATATATAAGACATTTCATTCA
65 TGCATATATAAAACATTTCATTCA
22277434 GATTTCCTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 3 0.04
94 74 0.96
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (94 bp):
ATACATACATGTTAGAAATCACTTGAGTCCAAAAGCTTAAACTATTAGGTTATTGGATCTTTTAT
GCATATATAAAACATTTCATTCAAAGCTC
Found at i:22278058 original size:84 final size:84
Alignment explanation
Indices: 22277914--22278078 Score: 213
Period size: 84 Copynumber: 2.0 Consensus size: 84
22277904 TTGCTATATC
* ** * *
22277914 CAAGTCAAACATTTTAAATATCGACATTCGAGTACATGAAGTTGATTAACGTGACCAACCTCTGA
1 CAAGTCAAACATTTTAAATACCGACATTCGAACACATGAAGTTGATGAACGCGACCAACCTCTGA
*
22277979 TCTGTCAATAATCTCTTTT
66 TCTGTCAACAATCTCTTTT
* * * * * * *
22277998 CAAGTCAAACCTTTTAAATACCGACGTTTGAACACATGGAGTTGATGGATGCGACTAACCTCTGA
1 CAAGTCAAACATTTTAAATACCGACATTCGAACACATGAAGTTGATGAACGCGACCAACCTCTGA
22278063 TCTGTCAACAATCTCT
66 TCTGTCAACAATCTCT
22278079 CTCCAATTAG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (84 bp):
CAAGTCAAACATTTTAAATACCGACATTCGAACACATGAAGTTGATGAACGCGACCAACCTCTGA
TCTGTCAACAATCTCTTTT
Found at i:22278131 original size:41 final size:41
Alignment explanation
Indices: 22278086--22278163 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
22278076 TCTCTCCAAT
* **
22278086 TAGTGTATCTCCTCTTAAGTCAAACTTTTTAAATACCCCAG
1 TAGTGTATCTCCCCCCAAGTCAAACTTTTTAAATACCCCAG
*
22278127 TAGTGTATCTCCCCCCACGTCAAACTTTTTAAATACC
1 TAGTGTATCTCCCCCCAAGTCAAACTTTTTAAATACC
22278164 GAAGTTCGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (41 bp):
TAGTGTATCTCCCCCCAAGTCAAACTTTTTAAATACCCCAG
Found at i:22282589 original size:2 final size:2
Alignment explanation
Indices: 22282538--22282571 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
22282528 AACCTCTCCC
22282538 CT CT CT CT CT CT CT CT CT CT C- CT -T CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22282572 TTCGGACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22284602 original size:8 final size:8
Alignment explanation
Indices: 22284591--22284654 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 8
22284581 AAAATTTTAA
22284591 ATTATATT
1 ATTATATT
22284599 ATTATTATT
1 ATTA-TATT
22284608 ATTATTATT
1 ATTA-TATT
22284617 A-TATATT
1 ATTATATT
*
22284624 TTTATCATT
1 ATTAT-ATT
22284633 -TTA-A-T
1 ATTATATT
22284638 ATTATATT
1 ATTATATT
*
22284646 ATTGTATT
1 ATTATATT
22284654 A
1 A
22284655 CTTTCTAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
5 1 0.02
6 4 0.08
7 5 0.10
8 21 0.44
9 17 0.35
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
ATTATATT
Found at i:22284603 original size:3 final size:3
Alignment explanation
Indices: 22284591--22284648 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
22284581 AAAATTTTAA
* *
22284591 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATAT ATT TTT ATC ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
*
22284635 AAT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT
22284649 GTATTACTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22287803 original size:15 final size:15
Alignment explanation
Indices: 22287783--22287814 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22287773 GATTAATTTT
*
22287783 AAATTAAATTATCTA
1 AAATTAAATTAACTA
22287798 AAATTAAATTAACTA
1 AAATTAAATTAACTA
22287813 AA
1 AA
22287815 TTATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTAAATTAACTA
Found at i:22296508 original size:60 final size:60
Alignment explanation
Indices: 22296361--22296559 Score: 258
Period size: 60 Copynumber: 3.2 Consensus size: 60
22296351 TTAATGTATT
* * * *
22296361 TTTTTTATCTAAAAACACTTTAAATAGTCTCTAATATTTTTTTAAAGTA-GATTATTTAAAACG
1 TTTTTGATC-AAAAA-ACCTTAAATAATCTCTAATA-TTTTTTAAAG-AGGATTATTTAAAGCG
*
22296424 TTTTTGATCAAAAAAGCCTTAAATAATCTTTAATATTTTTTAAAGAGGATTATTTAAAGCG
1 TTTTTGATCAAAAAA-CCTTAAATAATCTCTAATATTTTTTAAAGAGGATTATTTAAAGCG
*
22296485 TTTTTGATCAAAAAACCTTAAATAATCTCTAATATTTTTTAAA-AGAGATTATTTAAAGCA
1 TTTTTGATCAAAAAACCTTAAATAATCTCTAATATTTTTTAAAGAG-GATTATTTAAAGCG
* *
22296545 TTTTTGGTAAAAAAA
1 TTTTTGATCAAAAAA
22296560 AAAAAAGACA
Statistics
Matches: 124, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
59 2 0.02
60 54 0.44
61 39 0.31
62 21 0.17
63 8 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (60 bp):
TTTTTGATCAAAAAACCTTAAATAATCTCTAATATTTTTTAAAGAGGATTATTTAAAGCG
Found at i:22296757 original size:14 final size:14
Alignment explanation
Indices: 22296738--22296764 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22296728 TCCCTTTAAT
22296738 ATTTATTTTTGGAG
1 ATTTATTTTTGGAG
22296752 ATTTATTTTTGGA
1 ATTTATTTTTGGA
22296765 TTATCTAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (14 bp):
ATTTATTTTTGGAG
Found at i:22302030 original size:31 final size:32
Alignment explanation
Indices: 22301969--22302036 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
22301959 GATTCAATTT
** *
22301969 AATTTTTTTTAATTTTTTATATTTTGATTTAA
1 AATTTTTTTTAATTTAATATATTATGATTTAA
22302001 AATTTTTTTTGAATTTAATATA-TAT-ATTTAA
1 AATTTTTTTT-AATTTAATATATTATGATTTAA
*
22302032 TATTT
1 AATTT
22302037 GATCATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 10 0.32
32 12 0.39
33 9 0.29
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (32 bp):
AATTTTTTTTAATTTAATATATTATGATTTAA
Found at i:22304153 original size:20 final size:19
Alignment explanation
Indices: 22304105--22304194 Score: 70
Period size: 19 Copynumber: 5.0 Consensus size: 19
22304095 TTTTTCGAAA
* *
22304105 ATAAAT-TTTTAAAAAATC
1 ATAAATCTTTTCAAAAATT
22304123 ATATAAT-TTTTCAAAAAGTT
1 ATA-AATCTTTTCAAAAA-TT
22304143 ATAAATCTTTTCAAAAATT
1 ATAAATCTTTTCAAAAATT
*
22304162 -T-AA-CTTTTTAAAAATT
1 ATAAATCTTTTCAAAAATT
22304178 -TATAATC--TTCAAAAATT
1 ATA-AATCTTTTCAAAAATT
22304195 TTATTTTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
16 13 0.21
17 11 0.18
18 6 0.10
19 18 0.29
20 14 0.23
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (19 bp):
ATAAATCTTTTCAAAAATT
Found at i:22304174 original size:16 final size:16
Alignment explanation
Indices: 22304130--22304207 Score: 61
Period size: 16 Copynumber: 4.7 Consensus size: 16
22304120 ATCATATAAT
22304130 TTTTCAAAAAGTTATAAATC
1 TTTTCAAAAA-TT-T-AA-C
22304150 TTTTCAAAAATTTAAC
1 TTTTCAAAAATTTAAC
* *
22304166 TTTTTAAAAATTTATAA
1 TTTTCAAAAATTTA-AC
* *
22304183 TCTTCAAAAATTTTA-
1 TTTTCAAAAATTTAAC
22304198 TTTT-AAAAAT
1 TTTTCAAAAAT
22304208 GTTATATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 15 0.29
17 14 0.27
18 1 0.02
19 2 0.04
20 10 0.20
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (16 bp):
TTTTCAAAAATTTAAC
Found at i:22304222 original size:68 final size:68
Alignment explanation
Indices: 22304130--22304269 Score: 175
Period size: 68 Copynumber: 2.1 Consensus size: 68
22304120 ATCATATAAT
*
22304130 TTTTCAAAAAGTTATAAATCTTTTCAAAAATTTAACTTTT-TAAAA-ATTTAT-AATCTT-CAAA
1 TTTTCAAAAAGTTATAAATCTTTTCAAAAATTT-A-TTTTCCAAAAGATTTATGAAT-TTGCAAA
22304191 AATTTTA
63 AA-TTTA
22304198 TTTT-AAAAATGTTATATAAT-TTTTCAAAAATTTATTTTCCAAAAGATTTATGAATTTGCAAAA
1 TTTTCAAAAA-GTTATA-AATCTTTTCAAAAATTTATTTTCCAAAAGATTTATGAATTTGCAAAA
22304261 ATTTA
64 ATTTA
22304266 TTTT
1 TTTT
22304270 TGAAAAATTT
Statistics
Matches: 65, Mismatches: 1, Indels: 12
0.83 0.01 0.15
Matches are distributed among these distances:
66 4 0.06
67 10 0.15
68 39 0.60
69 12 0.18
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (68 bp):
TTTTCAAAAAGTTATAAATCTTTTCAAAAATTTATTTTCCAAAAGATTTATGAATTTGCAAAAAT
TTA
Found at i:22304232 original size:34 final size:32
Alignment explanation
Indices: 22304130--22304278 Score: 117
Period size: 34 Copynumber: 4.4 Consensus size: 32
22304120 ATCATATAAT
22304130 TTTTCAAAAAGTTATA-AATCTTTTCAAAAATTTAA
1 TTTTCAAAAA-TTATATAA--TTTTCAAAAATTT-A
* *
22304165 CTTTTTAAAAATT-TATAATCTTCAAAAATTTTA
1 -TTTTCAAAAATTATATAATTTTCAAAAA-TTTA
22304198 TTTT-AAAAATGTTATATAATTTTTCAAAAATTTA
1 TTTTCAAAAA--TTATATAA-TTTTCAAAAATTTA
*
22304232 TTTTCCAAAAGATT-TATGAATTTGCAAAAATTTA
1 TTTT-CAAAA-ATTATAT-AATTTTCAAAAATTTA
*
22304266 TTTTTGAAAAATT
1 -TTTTCAAAAATT
22304279 TATGTGAAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 25
0.76 0.04 0.20
Matches are distributed among these distances:
31 5 0.05
32 4 0.04
33 15 0.15
34 38 0.39
35 21 0.22
36 13 0.13
37 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (32 bp):
TTTTCAAAAATTATATAATTTTCAAAAATTTA
Found at i:22304240 original size:15 final size:15
Alignment explanation
Indices: 22304150--22304281 Score: 72
Period size: 15 Copynumber: 8.0 Consensus size: 15
22304140 GTTATAAATC
22304150 TTTTCAAAAATTTAACT
1 TTTTCAAAAATTT-A-T
22304167 TTTT-AAAAATTTAT
1 TTTTCAAAAATTTAT
*
22304181 AATCTTCAAAAATTT-T
1 --TTTTCAAAAATTTAT
22304197 ATTTT-AAAAATGTTATATAAT
1 -TTTTCAAAAA---T-T-T-AT
22304218 TTTTCAAAAATTTAT
1 TTTTCAAAAATTTAT
*
22304233 TTTCCAAAAGATTTAT
1 TTTTCAAAA-ATTTAT
*
22304249 GAATTTGCAAAAATTTAT
1 ---TTTTCAAAAATTTAT
*
22304267 TTTTGAAAAATTTAT
1 TTTTCAAAAATTTAT
22304282 GTGAAAAAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
14 6 0.06
15 28 0.30
16 19 0.20
17 14 0.15
18 8 0.09
19 9 0.10
20 4 0.04
21 6 0.06
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (15 bp):
TTTTCAAAAATTTAT
Found at i:22305368 original size:19 final size:19
Alignment explanation
Indices: 22305332--22305370 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22305322 ACGTTTTTGG
*
22305332 ACTAAAAACAACTTAAATA
1 ACTAAAAACAACTCAAATA
* *
22305351 ACTAAAAATACCTCAAATA
1 ACTAAAAACAACTCAAATA
22305370 A
1 A
22305371 TCTTCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
ACTAAAAACAACTCAAATA
Found at i:22316305 original size:8 final size:8
Alignment explanation
Indices: 22316291--22316336 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
22316281 ATTGTATCCT
22316291 AGAGGGAG
1 AGAGGGAG
*
22316299 GGA-GG-G
1 AGAGGGAG
22316305 AGAGGGAG
1 AGAGGGAG
*
22316313 AGAGAGAG
1 AGAGGGAG
*
22316321 AGAGAGAG
1 AGAGGGAG
22316329 AGAGGGAG
1 AGAGGGAG
22316337 GGGTGGACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 3 0.09
7 4 0.12
8 25 0.78
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (8 bp):
AGAGGGAG
Found at i:22334251 original size:23 final size:24
Alignment explanation
Indices: 22334204--22334251 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
22334194 CAAAAAATTA
22334204 TATGATTTTTTAAAAATTTATTTT
1 TATGATTTTTTAAAAATTTATTTT
22334228 TATGA-TTTTTAAGAAATTTATTTT
1 TATGATTTTTTAA-AAATTTATTTT
22334252 CAAAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TATGATTTTTTAAAAATTTATTTT
Found at i:22336131 original size:3 final size:3
Alignment explanation
Indices: 22336123--22336148 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22336113 ATTATCAATT
22336123 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
22336149 TACATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22349380 original size:21 final size:21
Alignment explanation
Indices: 22349341--22349380 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22349331 AAAATTTTAA
* *
22349341 TAAATTTATATATAAATTTGG
1 TAAATTTAAAAATAAATTTGG
*
22349362 TAAATTTAAAAATATATTT
1 TAAATTTAAAAATAAATTT
22349381 TTATATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TAAATTTAAAAATAAATTTGG
Found at i:22349436 original size:31 final size:32
Alignment explanation
Indices: 22349401--22349470 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
22349391 TAATATTTTA
*
22349401 ACATAATT-TTTATATAAAATATAATATAAAT
1 ACATAATTATTAATATAAAATATAATATAAAT
*** *
22349432 ACATAAATTATTAATATTTTATATTATATAAAT
1 ACAT-AATTATTAATATAAAATATAATATAAAT
22349465 ACATAA
1 ACATAA
22349471 AATGATCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 4 0.12
32 6 0.19
33 22 0.69
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (32 bp):
ACATAATTATTAATATAAAATATAATATAAAT
Found at i:22352225 original size:2 final size:2
Alignment explanation
Indices: 22352218--22352244 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22352208 GAACATGAAT
22352218 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
22352245 TTGTTTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22358419 original size:30 final size:32
Alignment explanation
Indices: 22358364--22358431 Score: 97
Period size: 30 Copynumber: 2.2 Consensus size: 32
22358354 ATTTATGTAC
22358364 AAATT-AAATTATTCATTTGAATGTAAATTAA
1 AAATTAAAATTATTCATTTGAATGTAAATTAA
*
22358395 AAATTAAAATT-TT-ATTTGAGTGTAAATTAA
1 AAATTAAAATTATTCATTTGAATGTAAATTAA
*
22358425 AGATTAA
1 AAATTAA
22358432 TAACTTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 22 0.65
31 7 0.21
32 5 0.15
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (32 bp):
AAATTAAAATTATTCATTTGAATGTAAATTAA
Found at i:22367745 original size:39 final size:40
Alignment explanation
Indices: 22367660--22367746 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
22367650 ATTTATTTAT
* * *
22367660 TAATAAATTATTATTATTTAATTTACTATTAATATATAAT
1 TAATAAATTATTATCATCTAATTTACTATTAATATATAAA
*
22367700 TAATAAATT-TTATCATCTAATTTATTGA-TAATATATCAAA
1 TAATAAATTATTATCATCTAATTTACT-ATTAATATAT-AAA
22367740 T-ATAAAT
1 TAATAAAT
22367747 CATATACACA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 28 0.68
40 13 0.32
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (40 bp):
TAATAAATTATTATCATCTAATTTACTATTAATATATAAA
Found at i:22373927 original size:37 final size:36
Alignment explanation
Indices: 22373871--22373940 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
22373861 ATTTTATTAA
*
22373871 ATTAATATTTCAAATTAAAATATTAAATA-ATAATTTT
1 ATTAATATATCAAATT-AAA-ATTAAATATATAATTTT
22373908 ATTAATATAT-AAATATAAAATTAAATATATAAT
1 ATTAATATATCAAAT-TAAAATTAAATATATAAT
22373941 AATATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 8 0.27
36 12 0.40
37 10 0.33
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
ATTAATATATCAAATTAAAATTAAATATATAATTTT
Found at i:22373934 original size:42 final size:41
Alignment explanation
Indices: 22373842--22373952 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 41
22373832 ACAACATATT
* * * *
22373842 AATTATATATAAATATAAT-ATTTTATTAAATTAATATTTCA
1 AATTAAATATTAA-ATAATAATTTTATTAAATTAATATATAA
22373883 AATTAAAATATTAAATAATAATTTTATTAATATATAA-ATATAA
1 AATT-AAATATTAAATAATAATTTTATTAA-AT-TAATATATAA
22373926 AATTAAATA-TATAATAATATATTTTAT
1 AATTAAATATTA-AATAATA-ATTTTAT
22373953 AACAAATCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
41 11 0.18
42 29 0.48
43 17 0.28
44 3 0.05
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (41 bp):
AATTAAATATTAAATAATAATTTTATTAAATTAATATATAA
Found at i:22377754 original size:30 final size:31
Alignment explanation
Indices: 22377678--22377768 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 31
22377668 TTGTTCTATG
* **
22377678 GGCCCAATAAGATTGAAAACATTACGAGATC
1 GGCCCAATAAGATTTAAAACATTATTAGATC
* *
22377709 GACCC-A-AA-TTTTAAAACATTATTA-ATC
1 GGCCCAATAAGATTTAAAACATTATTAGATC
22377736 GGCCCAATAAGATTTAAAACATTATTAGATC
1 GGCCCAATAAGATTTAAAACATTATTAGATC
22377767 GG
1 GG
22377769 TCCATACTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 7 0.14
28 13 0.27
29 4 0.08
30 16 0.33
31 9 0.18
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (31 bp):
GGCCCAATAAGATTTAAAACATTATTAGATC
Found at i:22387823 original size:18 final size:18
Alignment explanation
Indices: 22387800--22387835 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22387790 AGCTACAGAA
22387800 AAAGCTATCCAAGTCGCG
1 AAAGCTATCCAAGTCGCG
22387818 AAAGCTATCCAAGTCGCG
1 AAAGCTATCCAAGTCGCG
22387836 CTCATCGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (18 bp):
AAAGCTATCCAAGTCGCG
Found at i:22387870 original size:21 final size:21
Alignment explanation
Indices: 22387844--22387885 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22387834 CGCTCATCGG
22387844 CGATCATTAATGTGGTTGATT
1 CGATCATTAATGTGGTTGATT
22387865 CGATCATTAATGTGGTTGATT
1 CGATCATTAATGTGGTTGATT
22387886 GGGACCGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (21 bp):
CGATCATTAATGTGGTTGATT
Found at i:22389568 original size:52 final size:52
Alignment explanation
Indices: 22389502--22389658 Score: 219
Period size: 52 Copynumber: 3.0 Consensus size: 52
22389492 TGGATAAGAA
* * * *
22389502 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAGGCAAGTTT
22389554 GACTTGCAAGAGAAGAATTCTAAAAGGAAA-AAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAA-GAAAGAAGATTCTTAATAGGCAAGTTT
* * *
22389606 GACTTACAGGAGAAGAATTCTAAAAG-AAGAGAGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAGA-AGATTCTTAATAGGCAAGTTT
22389658 G
1 G
22389659 TATGGTTATA
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
50 2 0.02
51 2 0.02
52 87 0.92
53 4 0.04
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAGGCAAGTTT
Found at i:22391824 original size:2 final size:2
Alignment explanation
Indices: 22391817--22391855 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22391807 CATTGTAAGC
22391817 AT 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 AT A
22391856 AAGAAAAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22393576 original size:2 final size:2
Alignment explanation
Indices: 22393569--22393620 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
22393559 ACCTCTCCCC
* * * * *
22393569 AT AT AT AT AT AC AA AT AT AT AA AT AT AT AA AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22393611 AT AT AT AT AT
1 AT AT AT AT AT
22393621 TTTTGTTTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:22393612 original size:16 final size:16
Alignment explanation
Indices: 22393569--22393620 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
22393559 ACCTCTCCCC
*
22393569 ATATATATATACAAAT
1 ATATATATATATAAAT
*
22393585 ATATAAATATATAAAT
1 ATATATATATATAAAT
* *
22393601 GTATATATATATATAT
1 ATATATATATATAAAT
22393617 ATAT
1 ATAT
22393621 TTTTGTTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
ATATATATATATAAAT
Found at i:22393851 original size:2 final size:2
Alignment explanation
Indices: 22393844--22393874 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22393834 CAATTAGTGG
22393844 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 A
22393875 ATTAGTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22394084 original size:3 final size:3
Alignment explanation
Indices: 22394076--22394106 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
22394066 AGTAATAGCT
22394076 AGA AGA AGA AGA AGA AGA AGA AGA AGCA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA
22394107 GCTACAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22395127 original size:42 final size:43
Alignment explanation
Indices: 22395080--22395165 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
22395070 GGGGTAGGTG
* * *
22395080 ATTATTCAAGGCATTTTTGAGTAAAAACATCTTGAATAA-CCA
1 ATTATTCAAAGCATTTCTGAGTAAAAACATCTTCAATAATCCA
* * *
22395122 ATTATTCAAAGCGTTTCTGATTAAAAATATCTTCAATAATCCA
1 ATTATTCAAAGCATTTCTGAGTAAAAACATCTTCAATAATCCA
22395165 A
1 A
22395166 AAAAAATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.89
43 4 0.11
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (43 bp):
ATTATTCAAAGCATTTCTGAGTAAAAACATCTTCAATAATCCA
Found at i:22395257 original size:61 final size:61
Alignment explanation
Indices: 22395192--22395308 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 61
22395182 CATTTTTTAC
* *
22395192 AAAA-TAACAAAGGATTATTGAATGCATTTTTGG-CAAAAATGCTTTAAATAATCCCCTCATA
1 AAAATTAA-AAAGGATTATTGAAGGCATTTTTGGTCAAAAACGCTTTAAATAA-CCCCTCATA
* * ** *
22395253 AAAATTGAAAGGGATTATTGAAGGTGTTTTTGGTCAGAAACGCTTTAAATAACCCC
1 AAAATTAAAAAGGATTATTGAAGGCATTTTTGGTCAAAAACGCTTTAAATAACCCC
22395309 ATTATTCAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
61 29 0.62
62 18 0.38
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (61 bp):
AAAATTAAAAAGGATTATTGAAGGCATTTTTGGTCAAAAACGCTTTAAATAACCCCTCATA
Found at i:22395859 original size:33 final size:33
Alignment explanation
Indices: 22395755--22395868 Score: 102
Period size: 33 Copynumber: 3.5 Consensus size: 33
22395745 TACTGCTGAG
* * * *
22395755 TTTAGCGATATTTATGTCTACAAAAGCCACTAA
1 TTTAGTGACATTTGTGTCTACAAACGCCACTAA
* * ** * * **
22395788 ATTAATGGTATTTGTTTCTACAAACGTCGTTAA
1 TTTAGTGACATTTGTGTCTACAAACGCCACTAA
*
22395821 GTTAGTGACATTTGTGTCTACAAACGCCACTAA
1 TTTAGTGACATTTGTGTCTACAAACGCCACTAA
*
22395854 TTTAGTGGCATTTGT
1 TTTAGTGACATTTGT
22395869 ATGTTAAAAT
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (33 bp):
TTTAGTGACATTTGTGTCTACAAACGCCACTAA
Found at i:22399052 original size:26 final size:26
Alignment explanation
Indices: 22399001--22399056 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
22398991 CACCAGTCTT
* *
22399001 TTTTTTGTTTTATTTTAGTTTTTTGTA
1 TTTTTTGTTTAATTTTAG-TTATTGTA
22399028 TTTTTTGTTTAATTTTTA-TTATTGTA
1 TTTTTTGTTTAA-TTTTAGTTATTGTA
22399054 TTT
1 TTT
22399057 AATAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 11 0.42
28 5 0.19
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (26 bp):
TTTTTTGTTTAATTTTAGTTATTGTA
Found at i:22400904 original size:12 final size:13
Alignment explanation
Indices: 22400878--22400906 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22400868 AAAATAGAGA
22400878 TTTAGTGGCTATT
1 TTTAGTGGCTATT
22400891 TTTAGTGG-TATT
1 TTTAGTGGCTATT
22400903 TTTA
1 TTTA
22400907 AATAAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.17, C:0.03, G:0.21, T:0.59
Consensus pattern (13 bp):
TTTAGTGGCTATT
Found at i:22401880 original size:62 final size:61
Alignment explanation
Indices: 22401748--22401883 Score: 150
Period size: 62 Copynumber: 2.2 Consensus size: 61
22401738 AAATTAGAGG
* * *
22401748 GAATTATTCAAGGTATTTTTGGTGAAAAATGCCTTTAATAATCCCCTTTAATTTTTATAAA
1 GAATTATTCAAGGTATTTTTGGTCAAAAATGCCTTTAATAATCCCCTTCAACTTTTATAAA
* * * * *
22401809 GAGACTATTCAATGTATTTTTTGTCAAAAA-GGCTTTGAATAA-CCCCATTCAACTTTTATTAGA
1 GA-ATTATTCAAGGTATTTTTGGTCAAAAATGCCTTT-AATAATCCCC-TTCAACTTTTA-TAAA
22401872 GAATTATTCAAG
1 GAATTATTCAAG
22401884 ACATTTCTGG
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
61 11 0.18
62 45 0.74
63 5 0.08
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (61 bp):
GAATTATTCAAGGTATTTTTGGTCAAAAATGCCTTTAATAATCCCCTTCAACTTTTATAAA
Found at i:22402690 original size:34 final size:34
Alignment explanation
Indices: 22402646--22402715 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
22402636 TTCTTGTATT
*
22402646 TTGGGTCAAAT-TCCTAAACTTTC-TATCTGATTTG
1 TTGGATCAAATCT-CTAAAC-TTCATATCTGATTTG
*
22402680 TTGGATCAAATCTCTAAACTTCATGTCTGATTTG
1 TTGGATCAAATCTCTAAACTTCATATCTGATTTG
22402714 TT
1 TT
22402716 ACATTTCTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 3 0.09
34 28 0.88
35 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (34 bp):
TTGGATCAAATCTCTAAACTTCATATCTGATTTG
Found at i:22410013 original size:29 final size:29
Alignment explanation
Indices: 22409955--22410013 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
22409945 ATAATTGTAT
* * *
22409955 ATTATATTTAATAATTTCAGTAAGTATAA
1 ATTATATTTAATAATTTAAATAAATATAA
22409984 ATTATATTTAATAATTTTAAATAAAT-TAA
1 ATTATATTTAATAA-TTTAAATAAATATAA
22410013 A
1 A
22410014 AGTCAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
ATTATATTTAATAATTTAAATAAATATAA
Found at i:22411238 original size:11 final size:11
Alignment explanation
Indices: 22411222--22411250 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22411212 AAATTTTTAT
22411222 TATTAAATAAA
1 TATTAAATAAA
22411233 TATTAAATAAA
1 TATTAAATAAA
22411244 T-TTAAAT
1 TATTAAAT
22411251 TATAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TATTAAATAAA
Found at i:22411283 original size:20 final size:19
Alignment explanation
Indices: 22411260--22411297 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
22411250 TTATAAATAA
*
22411260 TATTTTTAATATTTTATATT
1 TATTATTAAT-TTTTATATT
22411280 TATTATTAATTTTTATAT
1 TATTATTAATTTTTATAT
22411298 CAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTAATTTTTATATT
Found at i:22415009 original size:16 final size:15
Alignment explanation
Indices: 22414975--22415097 Score: 88
Period size: 16 Copynumber: 7.9 Consensus size: 15
22414965 TTCGAGTTTT
*
22414975 GATTTAAGGG-TTTG
1 GATTTTAGGGATTTG
22414989 GATTTTAGGGATTTCG
1 GATTTTAGGGATTT-G
*
22415005 GATTTT-GGGGTTTG
1 GATTTTAGGGATTTG
*
22415019 GATTTTAGGGGTTTCG
1 GATTTTAGGGATTT-G
* *
22415035 AATTTTAGAGGGTTTG
1 GATTTTAG-GGATTTG
* *
22415051 GATTTAAGGAATTTTG
1 GATTTTAGGGA-TTTG
* *
22415067 AATTTTTAGGGTTTTCG
1 GA-TTTTAGGGATTT-G
*
22415084 GATTTAAGGGATTT
1 GATTTTAGGGATTT
22415098 TGCTGTATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
14 16 0.18
15 17 0.20
16 40 0.46
17 14 0.16
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (15 bp):
GATTTTAGGGATTTG
Found at i:22415031 original size:15 final size:15
Alignment explanation
Indices: 22414977--22415055 Score: 97
Period size: 15 Copynumber: 5.1 Consensus size: 15
22414967 CGAGTTTTGA
*
22414977 TTTAAGGGTTTGGAT
1 TTTAGGGGTTTGGAT
*
22414992 TTTAGGGATTTCGGAT
1 TTTAGGGGTTT-GGAT
22415008 TTT-GGGGTTTGGAT
1 TTTAGGGGTTTGGAT
*
22415022 TTTAGGGGTTTCGAAT
1 TTTAGGGGTTT-GGAT
22415038 TTTAGAGGGTTTGGAT
1 TTTAG-GGGTTTGGAT
22415054 TT
1 TT
22415056 AAGGAATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
14 7 0.13
15 22 0.40
16 20 0.36
17 6 0.11
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.47
Consensus pattern (15 bp):
TTTAGGGGTTTGGAT
Found at i:22415087 original size:33 final size:33
Alignment explanation
Indices: 22414977--22415143 Score: 116
Period size: 30 Copynumber: 5.2 Consensus size: 33
22414967 CGAGTTTTGA
* * * *
22414977 TTTA-AGGGTTTGGATTTTAGGGATTTCGGA-T
1 TTTAGAGGGTTTGGATTTAAGGAATTTTGAATT
* ** *
22415008 TTT-G-GGGTTTGGATTTTAGGGGTTTCGAA-T
1 TTTAGAGGGTTTGGATTTAAGGAATTTTGAATT
22415038 TTTAGAGGGTTTGGATTTAAGGAATTTTGAATT
1 TTTAGAGGGTTTGGATTTAAGGAATTTTGAATT
* * **
22415071 TTTAG-GGTTTTCGGATTTAAGGGATTTTGCTGTAT
1 TTTAGAGGGTTT-GGATTTAAGGAATTTTG-AAT-T
*
22415106 TTTA-AGAGTTTGGATTTTAA-GAGATTTTGAATT
1 TTTAGAGGGTTTGGA-TTTAAGGA-ATTTTGAATT
22415139 TTTAG
1 TTTAG
22415144 GTGGTTTAGA
Statistics
Matches: 110, Mismatches: 15, Indels: 19
0.76 0.10 0.13
Matches are distributed among these distances:
30 27 0.25
31 4 0.04
32 26 0.24
33 27 0.25
34 6 0.05
35 20 0.18
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (33 bp):
TTTAGAGGGTTTGGATTTAAGGAATTTTGAATT
Found at i:22416649 original size:21 final size:21
Alignment explanation
Indices: 22416615--22416658 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
22416605 TGTTTTTATT
*
22416615 TTTTTTATATAATTAATAATTA
1 TTTTTTATAAAATT-ATAATTA
*
22416637 TTTTTTA-AAAATTATTATTA
1 TTTTTTATAAAATTATAATTA
22416657 TT
1 TT
22416659 ATTATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 5 0.25
22 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTATAAAATTATAATTA
Done.