Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 83 of 208
Found at i:24343272 original size:19 final size:20
Alignment explanation
Indices: 24343231--24343272 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
24343221 ATTTCTATGC
* *
24343231 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
24343251 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
24343270 CAT
1 CAT
24343273 CACATCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:24346991 original size:24 final size:24
Alignment explanation
Indices: 24346963--24347008 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24346953 AGAACAGTCC
* *
24346963 CAAAAGTAAATGCAGGAGCAGCTT
1 CAAAAGAAAATGAAGGAGCAGCTT
*
24346987 CAAAAGAAAATGAATGAGCAGC
1 CAAAAGAAAATGAAGGAGCAGC
24347009 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (24 bp):
CAAAAGAAAATGAAGGAGCAGCTT
Found at i:24355448 original size:217 final size:217
Alignment explanation
Indices: 24355058--24355829 Score: 1181
Period size: 217 Copynumber: 3.6 Consensus size: 217
24355048 GAACAGATCG
* * * *
24355058 AAAGCCAATGATCCTATCTCCCTGAAGTTGCACTGGAGCGGATTAAAATCACAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
* ** *
24355123 CTGAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCTTTGAAGTTGCAGTGGAGTAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * * * *
24355188 GTAAGCAAATCCTATCTTCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGCAAACCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
24355253 TGAAGTTGCAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGGTT
* * ***
24355275 AAAGCTGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
24355340 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
*
24355405 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAATGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
*
24355470 TAAAGTTGCAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGGTT
* **
24355492 AAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAAT-ATTGGATCTTATCTC
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCA-CAGATCTTATCTC
* *
24355556 TCTGAAGTTGTAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
65 TCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
* * **
24355621 AGTAAGTAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAAAATATTATCTCC
130 AGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCC
*
24355686 CTGAAGTTGCAGTGGAGCAGATT
195 CTGAAGTTGCAGTGGAGCAGGTT
* * ** *
24355709 AAGGCCAATAATATTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
*
24355774 CTGAAGTTACAGAG-GCAGATCGCATCTAGTCTTATCTCCCTGACA-TTGCAGTGGAG
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGA-AGTTGCAGTGGAG
24355830 TACACAGCAG
Statistics
Matches: 510, Mismatches: 42, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
216 39 0.08
217 470 0.92
218 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
TGAAGTTGCAGTGGAGCAGGTT
Found at i:24355644 original size:44 final size:43
Alignment explanation
Indices: 24355072--24355781 Score: 309
Period size: 44 Copynumber: 16.3 Consensus size: 43
24355062 CCAATGATCC
* * *
24355072 TATCTCCCTGAAGTTGCACTGGAGCGGATTAA-AA-TCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGT-A-AG-TCT
* * * * **
24355116 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACATCT-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGTAAGTCT
** * * * *
24355156 TATCTCTTTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGTAAGTCT
* * * * **
24355200 TATCTTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGCAAACCT
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGTAAGTCT
** ** *
24355245 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCTGATAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-TAAGTCT
* * * * * **
24355289 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAA-AATCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAA-GTAAG-TCT
* * * * *
24355333 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCA-TCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGT-AAGTCT
*
24355373 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGTAAGTCT
* * * * **
24355417 TATC-CTCCTGAAGTTGCAATGGGGCAGACTGAAGATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGTAAGTCT
* ** ** *
24355462 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGCCGATAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-TAAGTCT
* * * * *
24355506 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAA-AA-TATTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGTA--AG-TCT
* * * * **
24355550 TATCTCTCTGAAGTTGTAG-AGAGCAGA-T-CGCATCTAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGTAAGTCT
24355590 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGTAAGTCT
* * * * *
24355634 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAAAATAT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGTAAGTCT
* *
24355679 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGGCCAA-TAA-TAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-G--AAGTAAGTCT
* *
24355723 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AA-TCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGT-A-AG-TCT
*
24355767 TATCTCTCTGAAGTT
1 TATCTCCCTGAAGTT
24355782 ACAGAGGCAG
Statistics
Matches: 513, Mismatches: 105, Indels: 96
0.72 0.15 0.13
Matches are distributed among these distances:
40 68 0.13
41 25 0.05
42 11 0.02
43 35 0.07
44 258 0.50
45 111 0.22
46 4 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGTAAGTCT
Found at i:24362723 original size:31 final size:32
Alignment explanation
Indices: 24362688--24362748 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
24362678 ATAAATTGCT
*
24362688 CTCCCTTA-ATAAAATTCATTTTCAATTTAAG
1 CTCCCCTATATAAAATTCATTTTCAATTTAAG
24362719 CTCCCCTATATAAAATTCATTTTCAATTTA
1 CTCCCCTATATAAAATTCATTTTCAATTTA
24362749 GGGCTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (32 bp):
CTCCCCTATATAAAATTCATTTTCAATTTAAG
Found at i:24365189 original size:41 final size:41
Alignment explanation
Indices: 24365143--24365267 Score: 162
Period size: 41 Copynumber: 3.0 Consensus size: 41
24365133 AGAATAATGA
* *
24365143 TGAATTGCACATACGTGTCCCTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
*
24365184 TGAATTGCACATACGTGCCCCTATTTGTACTTCAGTAACCC-
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGT-ACCCT
* * * * *
24365225 TGTATTGCATAGACGTGCCCCTCTTTGTACTTTGGTACCCT
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
24365266 TG
1 TG
24365268 GATGTACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.05
41 65 0.89
42 4 0.05
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
Found at i:24367073 original size:51 final size:50
Alignment explanation
Indices: 24366913--24367099 Score: 166
Period size: 51 Copynumber: 3.7 Consensus size: 50
24366903 AGTGAAAGTG
* * * * *
24366913 ATGGTCACATGTTTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGACTACTACGTATATCGG-ATGGT
** * * *
24366964 A-GGTTGCATGTGTAGTACTATGTACAGGCTACTATGCGTAT-T-GGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGACTACTA--CGTATATCGGATGGT
* ** *
24367013 TTCAATCACATGTGTAGTACTATGTGCAGACTACTACGTATATCTGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGACTACTACGTATATCGGATGGT
24367064 AATGGTCACATGTGTAGTACTATGTGCA-AGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGA-CTACTA
24367100 TTTGAACTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
49 8 0.07
50 33 0.31
51 62 0.57
52 5 0.05
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGACTACTACGTATATCGGATGGT
Found at i:24372631 original size:51 final size:51
Alignment explanation
Indices: 24372568--24372699 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
24372558 TGATAGGTCG
* *
24372568 CATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-TTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATAGTAAT-GATCA
* * * * * * *
24372619 CGTGTGTAGTACTATGTACAGGCTTCTACGTGTATCGAATGGTAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATAGTAATGATCA
*
24372670 CATGTGTAGTACTATGTGTAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
24372700 TGAACCAAAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATAGTAATGATCA
Found at i:24372659 original size:100 final size:102
Alignment explanation
Indices: 24372516--24372699 Score: 293
Period size: 102 Copynumber: 1.8 Consensus size: 102
24372506 AAAGTGATGG
* *
24372516 TCACGTGTGTAGTACATGTGCAGGCTTCTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACATGTACAGGCTTCTACGTGTACCGGAATGATAATGGTCACATGTGTAGTA
24372579 CTATGTGCAGGCTACTATGCGTATCGGATAGTTTCGA
66 CTATGTGCAGGCTACTATGCGTATCGGATAGTTTCGA
* *
24372616 TCACGTGTGTAGTACTATGTACAGGCTTCTACGTGTATC-GAATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTAC-ATGTACAGGCTTCTACGTGTACCGGAATGATAATGGTCACATGTGTAGT
*
24372680 ACTATGTGTAGGCTACTATG
65 ACTATGTGCAGGCTACTATG
24372700 TGAACCAAAC
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 21 0.28
101 22 0.29
102 33 0.43
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACATGTACAGGCTTCTACGTGTACCGGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTATCGGATAGTTTCGA
Found at i:24372759 original size:45 final size:45
Alignment explanation
Indices: 24372708--24372796 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
24372698 TGTGAACCAA
* * *
24372708 ACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCGG
24372753 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCG
24372797 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCGG
Found at i:24391363 original size:39 final size:39
Alignment explanation
Indices: 24391307--24391561 Score: 308
Period size: 39 Copynumber: 6.5 Consensus size: 39
24391297 AGATGTTTTG
* *
24391307 AGTATTGTGATATATGCTTAAGTATTATGAGATTATATGT
1 AGTATTGTGATATATGCTTAA-TGTTATGTGATTATATGT
* *
24391347 A-TATTGTGATATATGCTTGAATATTATGTGATTATACG-
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
*
24391385 AGTATTGTGATATATGCTTACATGTTATGAGATTATATGT
1 AGTATTGTGATATATGCTTA-ATGTTATGTGATTATATGT
* *
24391425 A-TATTATGATATATGCTTGAATGTTATGTGATTATA-CT
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
24391463 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG-
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
* *
24391502 AGTATTGTGATATATGCTTGGATGTTAGGTGATTATATGT
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
*
24391542 -GTAATAG-GATATATGCTTAA
1 AGT-ATTGTGATATATGCTTAA
24391562 AAGTGAATAT
Statistics
Matches: 190, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
38 5 0.03
39 177 0.93
40 8 0.04
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAATGTTATGTGATTATATGT
Found at i:24391520 original size:117 final size:117
Alignment explanation
Indices: 24391309--24391561 Score: 348
Period size: 117 Copynumber: 2.2 Consensus size: 117
24391299 ATGTTTTGAG
* * *
24391309 TATTGTGATATATGCTTAAGTATTATGAGATTATATGTATATTGTGATATATGCTTGAATATTAT
1 TATTATGATATATGCTTAAGTATTATGAGATTATATCTATATTGTGATATATGCTTAAATATTAT
*
24391374 GTGATTATACGAGTATTGTGATATATGCTTACATGTTATGAGATTATATGTA
66 GTGATTATACGAGTATTGTGATATATGCTTACATGTTAGGAGATTATATGTA
* * *
24391426 TATTATGATATATGCTTGAA-TGTTATGTGATTATA-CTAGTATTGTGATATATGCTTAAATGTT
1 TATTATGATATATGCTT-AAGTATTATGAGATTATATCTA-TATTGTGATATATGCTTAAATATT
* ** * *
24391489 ATGTGATTATATGAGTATTGTGATATATGCTTGGATGTTAGGTGATTATATGTG
64 ATGTGATTATACGAGTATTGTGATATATGCTTACATGTTAGGAGATTATATGTA
* *
24391543 TAATAGGATATATGCTTAA
1 TATTATGATATATGCTTAA
24391562 AAGTGAATAT
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
116 4 0.03
117 114 0.95
118 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (117 bp):
TATTATGATATATGCTTAAGTATTATGAGATTATATCTATATTGTGATATATGCTTAAATATTAT
GTGATTATACGAGTATTGTGATATATGCTTACATGTTAGGAGATTATATGTA
Found at i:24391562 original size:78 final size:78
Alignment explanation
Indices: 24391305--24391562 Score: 369
Period size: 78 Copynumber: 3.3 Consensus size: 78
24391295 AAAGATGTTT
* * *
24391305 TGAGTATTGTGATATATGCTTAAGTATTATGAGATTATATGTATATTGTGATATATGCTTGAATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGATATATGCTTGAATG
24391370 TTATGTGATTATA
66 TTATGTGATTATA
* * *
24391383 CGAGTATTGTGATATATGCTTACATGTTATGAGATTATATGTATATTATGATATATGCTTGAATG
1 TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGATATATGCTTGAATG
24391448 TTATGTGATTATA
66 TTATGTGATTATA
* *
24391461 CT-AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG-AGTATTGTGATATATGCTTGGA
1 -TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTA-TATTGTGATATATGCTTGAA
*
24391524 TGTTAGGTGATTATA
64 TGTTATGTGATTATA
* *
24391539 TGTGTAATAG-GATATATGCTTAAA
1 TGAGT-ATTGTGATATATGCTTAAA
24391563 AGTGAATATA
Statistics
Matches: 162, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 2 0.01
78 157 0.97
79 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (78 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGATATATGCTTGAATG
TTATGTGATTATA
Found at i:24398308 original size:19 final size:20
Alignment explanation
Indices: 24398284--24398323 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
24398274 AAATACATGA
*
24398284 TTTTTTATTTTATC-TGAGT
1 TTTTTTATGTTATCTTGAGT
24398303 TTTTTTATGTTATCTTGAGT
1 TTTTTTATGTTATCTTGAGT
24398323 T
1 T
24398324 ATGGAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTTTATGTTATCTTGAGT
Found at i:24410467 original size:116 final size:116
Alignment explanation
Indices: 24410263--24410536 Score: 406
Period size: 116 Copynumber: 2.4 Consensus size: 116
24410253 TCATCGATCA
* ***
24410263 ATGAAAAATGATGGTTTTGACCATCGATTATGAAAAGGGATAGTTTCGACTATCGACTATGAAAA
1 ATGAAAAAGGATGGTGACGACCATCGATTATGAAAAGGGATAGTTTCGACTATCGACTATGAAAA
* *
24410328 GGGATGGTCACGACCATCAACTATGAAAAGGGATGGTGACGACTATAAACT
66 GGGATGGTCACGACCATCAACTATGAAAAGGGATGGTAACGACCATAAACT
* *
24410379 ATGAAAAGGGATGGTGACGACCATCG-TATATGAAAAGGGATAGTTTTGACTATCGACTATGAAA
1 ATGAAAAAGGATGGTGACGACCATCGAT-TATGAAAAGGGATAGTTTCGACTATCGACTATGAAA
* **
24410443 AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTAACGACCATCTACT
65 AGGGATGGTCACGACCATCAACTATGAAAAGGGATGGTAACGACCATAAACT
* *
24410495 ATGAAAAAGGATGGTGACAACCATCGATTAATGAAAAAGGAT
1 ATGAAAAAGGATGGTGACGACCATCGATT-ATGAAAAGGGAT
24410537 GGTGACGACC
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
115 1 0.01
116 128 0.91
117 12 0.09
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (116 bp):
ATGAAAAAGGATGGTGACGACCATCGATTATGAAAAGGGATAGTTTCGACTATCGACTATGAAAA
GGGATGGTCACGACCATCAACTATGAAAAGGGATGGTAACGACCATAAACT
Found at i:24410557 original size:29 final size:29
Alignment explanation
Indices: 24410281--24410565 Score: 302
Period size: 29 Copynumber: 9.8 Consensus size: 29
24410271 TGATGGTTTT
* * * **
24410281 GACCATCGATTATGAAAAGGGATAGTTTC
1 GACCATCAACTATGAAAAGGGATGGTGAC
* * *
24410310 GACTATCGACTATGAAAAGGGATGGTCAC
1 GACCATCAACTATGAAAAGGGATGGTGAC
24410339 GACCATCAACTATGAAAAGGGATGGTGAC
1 GACCATCAACTATGAAAAGGGATGGTGAC
* *
24410368 GACTATAAACTATGAAAAGGGATGGTGAC
1 GACCATCAACTATGAAAAGGGATGGTGAC
* * ***
24410397 GACCATCGTA-TATGAAAAGGGATAGTTTT
1 GACCATC-AACTATGAAAAGGGATGGTGAC
* *
24410426 GACTATCGACTATGAAAAGGGATGGTGAC
1 GACCATCAACTATGAAAAGGGATGGTGAC
*
24410455 GACCATCAACTATGAAAAGGGATGGTAAC
1 GACCATCAACTATGAAAAGGGATGGTGAC
* *
24410484 GACCATCTACTATGAAAAAGGATGGTGAC
1 GACCATCAACTATGAAAAGGGATGGTGAC
* * * *
24410513 AACCATCGATTAATGAAAAAGGATGGTGAC
1 GACCATCAACT-ATGAAAAGGGATGGTGAC
** *
24410543 GACCATCAAAAATGAAAGGGGAT
1 GACCATCAACTATGAAAAGGGAT
24410566 AGTTATGATC
Statistics
Matches: 215, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
28 1 0.00
29 188 0.87
30 26 0.12
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (29 bp):
GACCATCAACTATGAAAAGGGATGGTGAC
Found at i:24420139 original size:16 final size:15
Alignment explanation
Indices: 24420114--24420147 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24420104 AAGTTTGATA
*
24420114 ATAATTAATATATATT
1 ATAATCAATATA-ATT
24420130 ATAATCAATATAATT
1 ATAATCAATATAATT
24420145 ATA
1 ATA
24420148 CACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATCAATATAATT
Found at i:24436316 original size:43 final size:43
Alignment explanation
Indices: 24436280--24436379 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
24436270 TCCCGGGCAG
*
24436280 GGTCTTACACGAAAACACAAGTCAATTCCAACGTCCCAAACGT
1 GGTCTTACACGAAAACACAAGTCAATGCCAACGTCCCAAACGT
* * * * *
24436323 GGTCTTACATGAAAACATAAGTCAATGCCAACATTCCAGACGT
1 GGTCTTACACGAAAACACAAGTCAATGCCAACGTCCCAAACGT
24436366 GGTCTTACACGAAA
1 GGTCTTACACGAAA
24436380 TCACTTATCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (43 bp):
GGTCTTACACGAAAACACAAGTCAATGCCAACGTCCCAAACGT
Found at i:24444609 original size:43 final size:43
Alignment explanation
Indices: 24444562--24444661 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
24444552 TCCTGGACAG
*
24444562 GGTCTTACACGAAAACACAAGTCAATGCCAACGACTCAGACGT
1 GGTCTTACACGAAAACACAAGTCAATGCCAACGACCCAGACGT
* ***
24444605 GGTCTTACACGAAAACACAAGTCGATGCCAATTTCCCAGACGT
1 GGTCTTACACGAAAACACAAGTCAATGCCAACGACCCAGACGT
24444648 GGTCTTACACGAAA
1 GGTCTTACACGAAA
24444662 TCACTTATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (43 bp):
GGTCTTACACGAAAACACAAGTCAATGCCAACGACCCAGACGT
Found at i:24449564 original size:30 final size:30
Alignment explanation
Indices: 24449508--24449564 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
24449498 CATAGTCTGG
* *
24449508 CACATGGCCATGTGTCCACCAGGTGTGGCT
1 CACACGGCCATGTGTCCACCACGTGTGGCT
*
24449538 CACACGGCCGTGTGTCCAGCC-CGTGTG
1 CACACGGCCATGTGTCCA-CCACGTGTG
24449565 ACTCTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.14, C:0.33, G:0.32, T:0.21
Consensus pattern (30 bp):
CACACGGCCATGTGTCCACCACGTGTGGCT
Found at i:24456828 original size:12 final size:13
Alignment explanation
Indices: 24456795--24456825 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24456785 ATATGGTTCA
24456795 TAAAAACATAGCT
1 TAAAAACATAGCT
*
24456808 TAAAAACATATCT
1 TAAAAACATAGCT
24456821 TAAAA
1 TAAAA
24456826 CATTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAAACATAGCT
Found at i:24459824 original size:4 final size:4
Alignment explanation
Indices: 24459812--24459878 Score: 125
Period size: 4 Copynumber: 16.8 Consensus size: 4
24459802 TTTATGCATG
*
24459812 CATA TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
24459860 CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CAT
24459879 GGCTTTTCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
CATA
Found at i:24467979 original size:24 final size:24
Alignment explanation
Indices: 24467951--24467996 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
24467941 AGTTGTAAAT
24467951 CATCCATTGTTCCATTGTATTTTG
1 CATCCATTGTTCCATTGTATTTTG
24467975 CATCCATTGTTCCATTGTATTT
1 CATCCATTGTTCCATTGTATTT
24467997 AAAAGAGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (24 bp):
CATCCATTGTTCCATTGTATTTTG
Found at i:24468110 original size:50 final size:50
Alignment explanation
Indices: 24468051--24468146 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
24468041 CGATTTGCAC
*
24468051 GAGGCACTGCTAAGAAGTGTGTTAGAGAGTTTAAAGAACTTATGCTTCAA
1 GAGGCACTGCTAAGAAGTATGTTAGAGAGTTTAAAGAACTTATGCTTCAA
** * *
24468101 GAGGCACTGCTGGGGAGTATGTTCGAGAGTTTAAAGAACTTATGCT
1 GAGGCACTGCTAAGAAGTATGTTAGAGAGTTTAAAGAACTTATGCT
24468147 CCAAATTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.28
Consensus pattern (50 bp):
GAGGCACTGCTAAGAAGTATGTTAGAGAGTTTAAAGAACTTATGCTTCAA
Found at i:24476228 original size:22 final size:22
Alignment explanation
Indices: 24476203--24476252 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
24476193 TTTTTTTCCT
*
24476203 TATTTTCATTGATTTTCTAATC
1 TATTTTCATTGATTTACTAATC
**
24476225 TATTTTTGTTGATTTACTAATC
1 TATTTTCATTGATTTACTAATC
*
24476247 TGTTTT
1 TATTTT
24476253 GGTCTCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.62
Consensus pattern (22 bp):
TATTTTCATTGATTTACTAATC
Found at i:24480120 original size:8 final size:8
Alignment explanation
Indices: 24480107--24480134 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
24480097 AATAATTTAA
24480107 AAAATTCT
1 AAAATTCT
24480115 AAAATTCT
1 AAAATTCT
24480123 AAAATTCT
1 AAAATTCT
24480131 AAAA
1 AAAA
24480135 AATATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATTCT
Found at i:24480177 original size:21 final size:20
Alignment explanation
Indices: 24480153--24480195 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
24480143 TATAAACTTT
*
24480153 AAAAATTCAAAATAATATATA
1 AAAAATTAAAAAT-ATATATA
* *
24480174 AAAATTTAAAAATATATTTA
1 AAAAATTAAAAATATATATA
24480194 AA
1 AA
24480196 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTAAAAATATATATA
Found at i:24480189 original size:18 final size:18
Alignment explanation
Indices: 24480152--24480211 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
24480142 ATATAAACTT
*
24480152 TAAAAATTCAAAATAATATA
1 TAAAAATT-TAAA-AATATA
24480172 TAAAAATTTAAAAATATA
1 TAAAAATTTAAAAATATA
**
24480190 TTTAAATTTAAAAA-AT-
1 TAAAAATTTAAAAATATA
24480206 TAAAAA
1 TAAAAA
24480212 ACATAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.11
17 2 0.06
18 18 0.51
19 3 0.09
20 8 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATTTAAAAATATA
Found at i:24481187 original size:14 final size:14
Alignment explanation
Indices: 24481168--24481196 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24481158 GATATGTTCT
24481168 CACACTTATCTTAA
1 CACACTTATCTTAA
24481182 CACACTTATCTTAA
1 CACACTTATCTTAA
24481196 C
1 C
24481197 TTTTCTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (14 bp):
CACACTTATCTTAA
Found at i:24481835 original size:42 final size:42
Alignment explanation
Indices: 24481729--24481891 Score: 272
Period size: 42 Copynumber: 3.9 Consensus size: 42
24481719 TTATAAGAAA
* *
24481729 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTGCCCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTG-CCAC
* * *
24481772 AAACGCCGCTAAAAAATATGACCTTTAGTGGCGCTTTGCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCAC
24481814 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCAC
24481856 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT
24481892 ATGAAAAAAC
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
42 78 0.70
43 34 0.30
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCAC
Found at i:24481902 original size:42 final size:42
Alignment explanation
Indices: 24481727--24481909 Score: 269
Period size: 42 Copynumber: 4.3 Consensus size: 42
24481717 ATTTATAAGA
*
24481727 AAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTGCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTG-CC
* * *
24481770 AAAAACGCCGCTAAAAAATATGACCTTTAGTGGCGCTTTGCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCC
*
24481812 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCC
* *
24481854 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTATG-A
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT-TGCC
*
24481896 AAAAACGCGGCTAA
1 AAAAACGCCGCTAA
24481910 TTTTGACAAA
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
42 90 0.70
43 38 0.30
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.19
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCC
Found at i:24483108 original size:86 final size:85
Alignment explanation
Indices: 24482959--24483291 Score: 402
Period size: 86 Copynumber: 3.9 Consensus size: 85
24482949 GTTTATGTGA
* ** *** * *
24482959 AACAAATTAGCAAAAATCAACTATTCATAGTTCATATATTTACCGGTAA-TAGGGCTAAATTTTC
1 AACAAATTAGCAAAAATCAACTGTTCA-AGTTCATGCATTTACCAACAACCA-GACTAAATTTTC
* *
24483023 AATTTCTATAACGATTTATATGC
64 AATTT-TATAACAACTTATATGC
* * * *
24483046 AACAAATTAGCAAAAATCAA-TGGTTCAAGTTCATGTATTTACCAAAAATCAGACTAATTTTTCA
1 AACAAATTAGCAAAAATCAACT-GTTCAAGTTCATGCATTTACCAACAACCAGACTAAATTTTCA
24483110 ATATTTATAACAACTTATATGC
65 AT-TTTATAACAACTTATATGC
*
24483132 AACAAATTAGCAAAAAT-AAATGGTTCAAGTTCATGCATTTACCAACAACCAGACTAAATTTTCA
1 AACAAATTAGCAAAAATCAACT-GTTCAAGTTCATGCATTTACCAACAACCAGACTAAATTTTCA
*
24483196 ATTTTTATAACAACTTATGTGC
65 A-TTTTATAACAACTTATATGC
* * *
24483218 AACAAATTAGAAAAAATCAACTGTTCAAGTTCATGCATTCACCAACAACCAGACCAAATTTTCAA
1 AACAAATTAGCAAAAATCAACTGTTCAAGTTCATGCATTTACCAACAACCAGACTAAATTTTCAA
24483283 CTTTTATAA
66 -TTTTATAA
24483292 AGTAGAAGGA
Statistics
Matches: 220, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
85 2 0.01
86 187 0.85
87 31 0.14
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (85 bp):
AACAAATTAGCAAAAATCAACTGTTCAAGTTCATGCATTTACCAACAACCAGACTAAATTTTCAA
TTTTATAACAACTTATATGC
Found at i:24487127 original size:10 final size:10
Alignment explanation
Indices: 24487080--24487139 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
24487070 AAAATAAAAG
24487080 TTTAAAATCTT
1 TTTAAAATC-T
24487091 TTTAAAAT-T
1 TTTAAAATCT
* **
24487100 TTAAAAAAAT
1 TTTAAAATCT
24487110 TTTAAAATCT
1 TTTAAAATCT
24487120 TTTAAAATTCAT
1 TTTAAAA-TC-T
24487132 TTTAAAAT
1 TTTAAAAT
24487140 TTTAAATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 7 0.17
10 15 0.37
11 11 0.27
12 8 0.20
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTAAAATCT
Found at i:24487136 original size:12 final size:12
Alignment explanation
Indices: 24487108--24487140 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24487098 TTTTAAAAAA
24487108 ATTTTAAAA-TC
1 ATTTTAAAATTC
24487119 -TTTTAAAATTC
1 ATTTTAAAATTC
24487130 ATTTTAAAATT
1 ATTTTAAAATT
24487141 TTAAATCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 2 0.10
12 10 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTTAAAATTC
Found at i:24487139 original size:30 final size:30
Alignment explanation
Indices: 24487072--24487145 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
24487062 ATATTATAAA
*
24487072 AATAAAAGTTTAAAATCTTTTTAAAATTTT
1 AATAAAATTTTAAAATCTTTTTAAAATTTT
*
24487102 AAAAAAATTTTAAAATC-TTTTAAAATTCATT
1 AATAAAATTTTAAAATCTTTTTAAAATT--TT
*
24487133 -TTAAAATTTTAAA
1 AATAAAATTTTAAA
24487146 TCATGAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.26
30 26 0.68
31 2 0.05
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
AATAAAATTTTAAAATCTTTTTAAAATTTT
Found at i:24487677 original size:14 final size:14
Alignment explanation
Indices: 24487658--24487855 Score: 84
Period size: 14 Copynumber: 13.9 Consensus size: 14
24487648 CTAGTTAATC
24487658 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
24487672 TAAA-CCTAAGCCCCA
1 TAAACCCTAA--ACCA
24487687 -AAACCCTAAAACCA
1 TAAACCCT-AAACCA
*
24487701 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
24487716 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
24487730 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
* *
24487744 TAAACCATAAATCA
1 TAAACCCTAAACCA
* * *
24487758 TAAACCATAACCCC
1 TAAACCCTAAACCA
*
24487772 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
24487787 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
24487799 TGGTAACACCTAAACCT
1 T--AAAC-CCTAAACCA
*
24487816 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
24487830 TATACCATAAACCA
1 TAAACCCTAAACCA
* *
24487844 AAAACCTTAAAC
1 TAAACCCTAAAC
24487856 TATAGTGATA
Statistics
Matches: 136, Mismatches: 32, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
12 2 0.01
13 8 0.06
14 77 0.57
15 46 0.34
16 2 0.01
17 1 0.01
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:24487705 original size:15 final size:15
Alignment explanation
Indices: 24487658--24487708 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
24487648 CTAGTTAATC
24487658 TAAACCCT-AAACCA
1 TAAACCCTAAAACCA
**
24487672 TAAA-CCTAAGCCCCA
1 TAAACCCTAA-AACCA
24487687 -AAACCCTAAAACCA
1 TAAACCCTAAAACCA
24487701 TAAACCCT
1 TAAACCCT
24487709 TAACACATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 3 0.10
14 11 0.38
15 15 0.52
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.14
Consensus pattern (15 bp):
TAAACCCTAAAACCA
Found at i:24487754 original size:7 final size:7
Alignment explanation
Indices: 24487744--24487855 Score: 66
Period size: 7 Copynumber: 15.7 Consensus size: 7
24487734 CCCCAGCCTT
24487744 TAAACCA
1 TAAACCA
*
24487751 TAAATCA
1 TAAACCA
24487758 TAAACCA
1 TAAACCA
* *
24487765 TAACCCC
1 TAAACCA
24487772 TAAACCCA
1 TAAA-CCA
*
24487780 TAATCCA
1 TAAACCA
*
24487787 TAAACCT
1 TAAACCA
***
24487794 TAAAATGG
1 T-AAACCA
24487802 TAACACC-
1 TAA-ACCA
*
24487809 TAAACCT
1 TAAACCA
24487816 TAAACTC-
1 TAAAC-CA
24487823 TAAACCA
1 TAAACCA
*
24487830 TATACCA
1 TAAACCA
24487837 TAAACCA
1 TAAACCA
* *
24487844 AAAACCT
1 TAAACCA
24487851 TAAAC
1 TAAAC
24487856 TATAGTGATA
Statistics
Matches: 80, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
6 4 0.05
7 65 0.81
8 11 0.14
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:24487812 original size:86 final size:86
Alignment explanation
Indices: 24487658--24487820 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
24487648 CTAGTTAATC
* *
24487658 TAAACCCTAAACCATAAACCTAAGCCCCAAAACCCTAAAACCATAAACCCTTAACACATAACCTC
1 TAAACCATAAACCATAAACCTAAGCCCCAAAACCCTAAAACCATAAACCCTTAAAACATAACCTC
24487723 TAAACCTTAAACCCCAGCCTT
66 TAAACCTTAAACCCCAGCCTT
* * * **
24487744 TAAACCATAAATCATAAACCATAA-CCCCTAAACCC-ATAATCCATAAA-CCTTAAAATGGTAAC
1 TAAACCATAAACCATAAACC-TAAGCCCCAAAACCCTA-AAACCATAAACCCTTAAAA-CATAAC
24487806 AC-CTAAACCTTAAAC
63 -CTCTAAACCTTAAAC
24487821 TCTAAACCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
85 8 0.12
86 54 0.82
87 4 0.06
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.19
Consensus pattern (86 bp):
TAAACCATAAACCATAAACCTAAGCCCCAAAACCCTAAAACCATAAACCCTTAAAACATAACCTC
TAAACCTTAAACCCCAGCCTT
Found at i:24488135 original size:42 final size:41
Alignment explanation
Indices: 24488037--24488197 Score: 227
Period size: 41 Copynumber: 3.9 Consensus size: 41
24488027 TTTTAAATCC
* * *
24488037 CTGAGCATTAGCGGCACTTTTTAGAAAACGCCGCT-AAA-A
1 CTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAACA
*
24488076 GTAGAGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAACA
1 CT-GAGCATTAGCGGCGCTTTCT-AAAAAACGCCGCTAAAACA
*
24488119 CTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAACC
1 CTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAACA
* *
24488160 CTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAA
1 CTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAA
24488198 GCCCCAAAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 18 0.16
41 66 0.60
42 23 0.21
43 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAACA
Found at i:24488304 original size:39 final size:40
Alignment explanation
Indices: 24488277--24488371 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
24488267 AATGCTTATT
* * *
24488277 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATTCTCGATC
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTCGATA
* * *
24488317 TTTAGTGGCATTTTCCAAAAAGCGCCGCTAATTCTCGATA
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTCGATA
*
24488357 TTTAGCGACGTTTTT
1 TTTAGCGGCGTTTTT
24488372 TATCCAAACG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTCGATA
Found at i:24497654 original size:22 final size:21
Alignment explanation
Indices: 24497622--24497663 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24497612 AATTAATTTC
24497622 ATAAAGAAGAAATTAAAGAAA
1 ATAAAGAAGAAATTAAAGAAA
* *
24497643 ATAAATGAAGAACTTTAAGAA
1 ATAAA-GAAGAAATTAAAGAA
24497664 GCTTTTGCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.19
Consensus pattern (21 bp):
ATAAAGAAGAAATTAAAGAAA
Found at i:24498717 original size:22 final size:22
Alignment explanation
Indices: 24498692--24498735 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24498682 AGTTTGAAGG
* *
24498692 TTAAGAGGGTTTTAGGTTTTAA
1 TTAAAAGGGTTTTAGGATTTAA
* *
24498714 TTAAAAGTGTTTTGGGATTTAA
1 TTAAAAGGGTTTTAGGATTTAA
24498736 ATAGGGTAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (22 bp):
TTAAAAGGGTTTTAGGATTTAA
Found at i:24498765 original size:23 final size:23
Alignment explanation
Indices: 24498734--24498780 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24498724 TTTGGGATTT
24498734 AAATAGGGT-AAGTTAAGGGTTTA
1 AAATAGGGTGAAGTTAA-GGTTTA
* *
24498757 AAATTGGGTGAATTTAAGGTTTA
1 AAATAGGGTGAAGTTAAGGTTTA
24498780 A
1 A
24498781 TTAACTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (23 bp):
AAATAGGGTGAAGTTAAGGTTTA
Found at i:24500537 original size:30 final size:31
Alignment explanation
Indices: 24500498--24500557 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
24500488 GGAGGTGGGA
*
24500498 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
24500529 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
24500558 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:24500785 original size:9 final size:9
Alignment explanation
Indices: 24500771--24500807 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24500761 TATAGTTTGA
24500771 TATTCGAAT
1 TATTCGAAT
24500780 TATTCGAAT
1 TATTCGAAT
*
24500789 TATTCGAGT
1 TATTCGAAT
*
24500798 TATTCAAAT
1 TATTCGAAT
24500807 T
1 T
24500808 TGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24502413 original size:18 final size:18
Alignment explanation
Indices: 24502370--24502405 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24502360 TGAATTTAAT
24502370 AAATAAAACACGAAAGAA
1 AAATAAAACACGAAAGAA
*
24502388 AAATAAAACATGAAAGAA
1 AAATAAAACACGAAAGAA
24502406 TTATAAAAAA
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:0.72, C:0.08, G:0.11, T:0.08
Consensus pattern (18 bp):
AAATAAAACACGAAAGAA
Found at i:24507766 original size:21 final size:22
Alignment explanation
Indices: 24507727--24507767 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24507717 CTTTATTTAA
* *
24507727 TTATTAAATTACCTTAATAACC
1 TTATTAAATTAACTAAATAACC
24507749 TTATT-AATTAACTAAATAA
1 TTATTAAATTAACTAAATAA
24507768 AACATCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATTAAATTAACTAAATAACC
Found at i:24510797 original size:21 final size:21
Alignment explanation
Indices: 24510750--24510797 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
24510740 CATGTGACCC
* *
24510750 TTGTTTCCCAATTTTTGTAAT
1 TTGTTTCCCAAATTTTCTAAT
* *
24510771 TT-TTTCCTAAATTTTCTGAT
1 TTGTTTCCCAAATTTTCTAAT
24510791 TTGTTTC
1 TTGTTTC
24510798 AAATTGGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.17, C:0.15, G:0.08, T:0.60
Consensus pattern (21 bp):
TTGTTTCCCAAATTTTCTAAT
Found at i:24512775 original size:13 final size:13
Alignment explanation
Indices: 24512757--24512782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24512747 TAATGAGAAG
24512757 ATATCATTTACCC
1 ATATCATTTACCC
24512770 ATATCATTTACCC
1 ATATCATTTACCC
24512783 TTTTCTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATCATTTACCC
Found at i:24525821 original size:22 final size:22
Alignment explanation
Indices: 24525795--24525840 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
24525785 ATTTTTTTAA
24525795 TTTC-AAATTTTTTTCGAATTTT
1 TTTCAAAATTTTTTT-GAATTTT
24525817 TTTCAAAATTTTTTTGAATTTT
1 TTTCAAAATTTTTTTGAATTTT
24525839 TT
1 TT
24525841 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTCAAAATTTTTTTGAATTTT
Found at i:24525850 original size:10 final size:11
Alignment explanation
Indices: 24525795--24525851 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
24525785 ATTTTTTTAA
*
24525795 TTTCAAATTTT
1 TTTCGAATTTT
24525806 TTTCGAATTTT
1 TTTCGAATTTT
*
24525817 TTTCAAAATTTT
1 TTTC-GAATTTT
24525829 TTT-GAA-TTT
1 TTTCGAATTTT
24525838 TTT-GAATTTT
1 TTTCGAATTTT
24525848 TTTC
1 TTTC
24525852 ACGTACCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.22
10 8 0.20
11 14 0.35
12 9 0.22
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (11 bp):
TTTCGAATTTT
Found at i:24526078 original size:22 final size:22
Alignment explanation
Indices: 24526053--24526170 Score: 94
Period size: 23 Copynumber: 5.2 Consensus size: 22
24526043 TTAGCTAGGG
24526053 AATGGTATTGGTTTTGGTACGA
1 AATGGTATTGGTTTTGGTACGA
* *
24526075 AATGGGGT-TTGGTATAGGTACGA
1 AAT--GGTATTGGTTTTGGTACGA
* *
24526098 AATGGTATAGGTTTTGGTATGA
1 AATGGTATTGGTTTTGGTACGA
* * * **
24526120 AATGAATTTTGGTGTAAGTACGA
1 AATG-GTATTGGTTTTGGTACGA
* *
24526143 AAGGGTATAGGTTTTGGTACGGA
1 AATGGTATTGGTTTTGGTAC-GA
24526166 AATGG
1 AATGG
24526171 ATCAAAAAGG
Statistics
Matches: 70, Mismatches: 21, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
21 3 0.04
22 28 0.40
23 36 0.51
24 3 0.04
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.35
Consensus pattern (22 bp):
AATGGTATTGGTTTTGGTACGA
Found at i:24526103 original size:45 final size:45
Alignment explanation
Indices: 24526053--24526171 Score: 157
Period size: 45 Copynumber: 2.6 Consensus size: 45
24526043 TTAGCTAGGG
* * *
24526053 AATGGTATTGGTTTTGGTACGAAATGGGGTTTGGTATAGGTACGA
1 AATGGTATAGGTTTTGGTACGAAATGGAGTTTGGTATAAGTACGA
* * * *
24526098 AATGGTATAGGTTTTGGTATGAAATGAATTTTGGTGTAAGTACGA
1 AATGGTATAGGTTTTGGTACGAAATGGAGTTTGGTATAAGTACGA
*
24526143 AAGGGTATAGGTTTTGGTACGGAAATGGA
1 AATGGTATAGGTTTTGGTAC-GAAATGGA
24526172 TCAAAAAGGT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 56 0.89
46 7 0.11
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (45 bp):
AATGGTATAGGTTTTGGTACGAAATGGAGTTTGGTATAAGTACGA
Found at i:24527068 original size:20 final size:20
Alignment explanation
Indices: 24527043--24527087 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24527033 TAAATTCACA
24527043 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
24527063 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
24527083 TAATT
1 TAATT
24527088 CGGTTAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:24542970 original size:6 final size:6
Alignment explanation
Indices: 24542959--24542991 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
24542949 ACAAAAATGT
*
24542959 AATGAC AATGAC AATGAA AATG-C AATGAC AATG
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATG
24542992 TATACTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (6 bp):
AATGAC
Found at i:24554956 original size:39 final size:39
Alignment explanation
Indices: 24554913--24555039 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 39
24554903 AACCTATGTT
* * *
24554913 TTATATTACCTGAGAATCC-ACGACAAGGGTTGGATCTCA
1 TTATATTACCTGAGAATCCTACAACAA-GGCTAGATCTCA
* *
24554952 TTATATTGCCTGAGAA-CCTGCAACAAGGCTAGATCTCA
1 TTATATTACCTGAGAATCCTACAACAAGGCTAGATCTCA
*
24554990 TTATATTACCCTTGAGAAT-CTGCAACAAGGCTAGATCTCA
1 TTATATTA-CC-TGAGAATCCTACAACAAGGCTAGATCTCA
*
24555030 TTGTATTACC
1 TTATATTACC
24555040 CCAAGAATCT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 19 0.25
39 24 0.31
40 34 0.44
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (39 bp):
TTATATTACCTGAGAATCCTACAACAAGGCTAGATCTCA
Found at i:24554996 original size:38 final size:40
Alignment explanation
Indices: 24554945--24555040 Score: 151
Period size: 40 Copynumber: 2.5 Consensus size: 40
24554935 ACAAGGGTTG
*
24554945 GATCTCATTATATT-GCC-TGAGAACCTGCAACAAGGCTA
1 GATCTCATTATATTACCCTTGAGAACCTGCAACAAGGCTA
*
24554983 GATCTCATTATATTACCCTTGAGAATCTGCAACAAGGCTA
1 GATCTCATTATATTACCCTTGAGAACCTGCAACAAGGCTA
*
24555023 GATCTCATTGTATTACCC
1 GATCTCATTATATTACCC
24555041 CAAGAATCTG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
38 14 0.26
39 2 0.04
40 37 0.70
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (40 bp):
GATCTCATTATATTACCCTTGAGAACCTGCAACAAGGCTA
Found at i:24555016 original size:40 final size:39
Alignment explanation
Indices: 24554913--24555056 Score: 166
Period size: 39 Copynumber: 3.7 Consensus size: 39
24554903 AACCTATGTT
** * * *
24554913 TTATATTA-CCTGAGAATCCACGACAAGGGTTGGATCTCA
1 TTATATTACCCTGAGAATCTGCAACAA-GGCTAGATCTCA
* *
24554952 TTATATT-GCCTGAGAACCTGCAACAAGGCTAGATCTCA
1 TTATATTACCCTGAGAATCTGCAACAAGGCTAGATCTCA
24554990 TTATATTACCCTTGAGAATCTGCAACAAGGCTAGATCTCA
1 TTATATTACCC-TGAGAATCTGCAACAAGGCTAGATCTCA
* **
24555030 TTGTATTACCCCAAGAATCTGCAACAA
1 TTATATTACCCTGAGAATCTGCAACAA
24555057 AAACTAGATA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 17 0.19
39 37 0.41
40 37 0.41
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (39 bp):
TTATATTACCCTGAGAATCTGCAACAAGGCTAGATCTCA
Found at i:24555064 original size:40 final size:40
Alignment explanation
Indices: 24554945--24555074 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
24554935 ACAAGGGTTG
* * * **
24554945 GATCTCATTATATT-GCCT-GAGAACCTGCAACAAGGCTA
1 GATCTCATTATATTACCCTCAAGAATCTGCAACAAAACTA
** **
24554983 GATCTCATTATATTACCCTTGAGAATCTGCAACAAGGCTA
1 GATCTCATTATATTACCCTCAAGAATCTGCAACAAAACTA
*
24555023 GATCTCATTGTATTACCC-CAAGAATCTGCAACAAAAACTA
1 GATCTCATTATATTACCCTCAAGAATCTGCAAC-AAAACTA
* *
24555063 GATATTATTATA
1 GATCTCATTATA
24555075 ATCTATAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
38 14 0.18
39 15 0.19
40 50 0.63
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (40 bp):
GATCTCATTATATTACCCTCAAGAATCTGCAACAAAACTA
Found at i:24556177 original size:21 final size:22
Alignment explanation
Indices: 24556140--24556180 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24556130 TGTTTAATCA
*
24556140 AATTTTAATATATATTTTTAAT
1 AATTTTAATAAATATTTTTAAT
24556162 AATTTT-ATAAATATTTTTA
1 AATTTTAATAAATATTTTTA
24556181 TTTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATTTTAATAAATATTTTTAAT
Found at i:24556954 original size:21 final size:22
Alignment explanation
Indices: 24556915--24556955 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24556905 ACATTTTAAA
*
24556915 TAAAAAATAATCTAGTTAATTT
1 TAAAAAAAAATCTAGTTAATTT
*
24556937 TAAAAAAAAATTTA-TTAAT
1 TAAAAAAAAATCTAGTTAAT
24556956 GTGAAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAAAAAAATCTAGTTAATTT
Found at i:24558811 original size:43 final size:43
Alignment explanation
Indices: 24558757--24558933 Score: 286
Period size: 43 Copynumber: 4.1 Consensus size: 43
24558747 TTTTCTTTGC
* *
24558757 AACGCCGCTATAAACCATGGTCTTTAGCGGCGCTTAGCCTAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCTAAA
24558800 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAG-CTGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCT-AAA
*
24558843 AACGCCACTATAGATCATGGTCTTTAGCGGCGCTTAGCC-ACAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCTA-AA
*
24558886 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCTAAA
24558929 AACGC
1 AACGC
24558934 NNNNNNNNNN
Statistics
Matches: 126, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
42 3 0.02
43 121 0.96
44 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (43 bp):
AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCTAAA
Found at i:24564524 original size:14 final size:14
Alignment explanation
Indices: 24564501--24564535 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
24564491 GTGTTTAAAA
*
24564501 TTAAACTTTAATGT
1 TTAAAATTTAATGT
*
24564515 TTAAAATTTATTGT
1 TTAAAATTTAATGT
24564529 TTAAAAT
1 TTAAAAT
24564536 ATATTTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (14 bp):
TTAAAATTTAATGT
Found at i:24564982 original size:27 final size:28
Alignment explanation
Indices: 24564924--24564980 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 28
24564914 AAAATAATGT
24564924 AATTTTTAAAAATTGTTAATACAATAAA
1 AATTTTTAAAAATTGTTAATACAATAAA
24564952 AATTTTT-AAAATTGTTAATACAAATAAA
1 AATTTTTAAAAATTGTTAATAC-AATAAA
24564980 A
1 A
24564981 TTATCTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (28 bp):
AATTTTTAAAAATTGTTAATACAATAAA
Found at i:24567792 original size:23 final size:23
Alignment explanation
Indices: 24567749--24567793 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24567739 TGCTTTTGTA
*
24567749 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
24567772 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
24567794 AATTAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:24567895 original size:7 final size:7
Alignment explanation
Indices: 24567883--24567908 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24567873 TCAATAAGGG
24567883 TAAACCA
1 TAAACCA
24567890 TAAACCA
1 TAAACCA
24567897 TAAACCA
1 TAAACCA
24567904 TAAAC
1 TAAAC
24567909 ATCAAGCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCA
Found at i:24568703 original size:41 final size:41
Alignment explanation
Indices: 24568658--24568737 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
24568648 TTTTTACACC
* *
24568658 AACGCCGCTATAGACC-CAAGAGTTACCGGCGCTTCTCCAGG
1 AACGCCGCTATAGACCACAACA-TTACCGGCGATTCTCCAGG
*
24568699 AACGCCGCTATAGACCACAACATTAGCGGCGATTCTCCA
1 AACGCCGCTATAGACCACAACATTACCGGCGATTCTCCA
24568738 TAAACGCTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 31 0.89
42 4 0.11
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (41 bp):
AACGCCGCTATAGACCACAACATTACCGGCGATTCTCCAGG
Found at i:24568744 original size:41 final size:41
Alignment explanation
Indices: 24568658--24568753 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
24568648 TTTTTACACC
* * *
24568658 AACGCCGCTATAGACCCAAGAGTTACCGGCGCTTCTCCAGG
1 AACGCCGCTATAGACCCAACAGTTACCGGCGATTCTCCAGA
* *
24568699 AACGCCGCTATAGACCACAACA-TTAGCGGCGATTCTCCATA
1 AACGCCGCTATAGACC-CAACAGTTACCGGCGATTCTCCAGA
* *
24568740 AACGCTGCTTTAGA
1 AACGCCGCTATAGA
24568754 GCGGAGAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 43 0.91
42 4 0.09
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (41 bp):
AACGCCGCTATAGACCCAACAGTTACCGGCGATTCTCCAGA
Found at i:24569066 original size:114 final size:113
Alignment explanation
Indices: 24568863--24569209 Score: 541
Period size: 113 Copynumber: 3.1 Consensus size: 113
24568853 GCTTAACGCT
* * * *
24568863 AAACGCCGCTAAAGAACGGATTATTAGCGGCGTTTGGGCAAAAACCGCCACTAGTGTTCCCAAAT
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGC-AAAACCGCCACTAATGTTCCCAAAT
* *
24568928 ATATGAAAACGGCGTCGTTATGTGTTACTCTATTTGCGACGCTTTTTGTA
65 ATATGAAAACGGCGTCGTTCTGTGTTACTCTA-TTGCGGCGCTTTTTGTA
*
24568978 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* * *
24569043 TATGAAAACGGTGTCGTTCTGTGTTACTCCATTGCGGCGCTTTTTATA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
* *
24569091 AAACGCCGCTGAAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* * *
24569156 TATGAAAACAGCGTCATTCTGTGTGACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
24569204 AAACGC
1 AAACGC
24569210 TGCTAATGCT
Statistics
Matches: 213, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 125 0.59
114 53 0.25
115 35 0.16
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (113 bp):
AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
Found at i:24569333 original size:41 final size:40
Alignment explanation
Indices: 24569247--24569336 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
24569237 TTTTATGTAG
* *
24569247 CGCCGCTAATGCTCGATATTTTGAGGCGTTTTTCGTAAAA
1 CGCCGCTAATGCTCGATATTTAGAGGCATTTTTCGTAAAA
* * * *
24569287 TGCCGCTAATGCTCGAT-TATTAGTGGCATTTTTTGTCCAAA
1 CGCCGCTAATGCTCGATAT-TTAGAGGCATTTTTCGT-AAAA
24569328 CGCCGCTAA
1 CGCCGCTAA
24569337 AAGTGCCGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.02
40 29 0.71
41 11 0.27
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATATTTAGAGGCATTTTTCGTAAAA
Found at i:24574047 original size:27 final size:27
Alignment explanation
Indices: 24573989--24574076 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
24573979 ATGGTATCAA
* * *
24573989 AGATAGTTCGACGAGATGTTAAACA-A
1 AGATAGTTCGATGGGATGTTAAACACG
24574015 ATGATAGTTCGATGGGATGTTAAACACG
1 A-GATAGTTCGATGGGATGTTAAACACG
*
24574043 GGATAG-TCTGATGGGATGTTAAACACG
1 AGATAGTTC-GATGGGATGTTAAACACG
24574070 AGATAGT
1 AGATAGT
24574077 CCACTAGGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.26
Consensus pattern (27 bp):
AGATAGTTCGATGGGATGTTAAACACG
Found at i:24577179 original size:201 final size:201
Alignment explanation
Indices: 24576834--24577202 Score: 711
Period size: 201 Copynumber: 1.8 Consensus size: 201
24576824 TACTCGAATG
*
24576834 TTGTTGATTAATGATATATATTACATTGTGTTGTATTGAATGGTATCAAAATTAATGATTGTTAC
1 TTGTTGATTAATGATACATATTACATTGTGTTGTATTGAATGGTATCAAAATTAATGATTGTTAC
24576899 TCGAGTGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAGTGGCTATGTAATGA
66 TCGAGTGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAGTGGCTATGTAATGA
24576964 TATGAAATTCTAATGATGGTTTTGTGTTCTTCTGATAATGCTAACATGTTTCAATATATTTGATA
131 TATGAAATTCTAATGATGGTTTTGTGTTCTTCTGATAATGCTAACATGTTTCAATATATTTGATA
24577029 TTTATC
196 TTTATC
*
24577035 TTGTTGATTAATGATACATATTGCATTGTGTTGTATTGAATGGTATCAAAATTAATGATTGTTAC
1 TTGTTGATTAATGATACATATTACATTGTGTTGTATTGAATGGTATCAAAATTAATGATTGTTAC
*
24577100 TCGAGTGAATGATGACCTATGCTCATACACCATTTGGCATCAATTTGATAGTGGCTATGTAATGA
66 TCGAGTGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAGTGGCTATGTAATGA
24577165 TATGAAATTCTAATGATGGTTTTGTGTTCTTCTGATAA
131 TATGAAATTCTAATGATGGTTTTGTGTTCTTCTGATAA
24577203 CTCACACTGA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 165 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (201 bp):
TTGTTGATTAATGATACATATTACATTGTGTTGTATTGAATGGTATCAAAATTAATGATTGTTAC
TCGAGTGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAGTGGCTATGTAATGA
TATGAAATTCTAATGATGGTTTTGTGTTCTTCTGATAATGCTAACATGTTTCAATATATTTGATA
TTTATC
Found at i:24578338 original size:15 final size:15
Alignment explanation
Indices: 24578318--24578349 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24578308 ACATTTCATG
*
24578318 TTATGTCTTTTATAT
1 TTATGTCTTTCATAT
24578333 TTATGTCTTTCATAT
1 TTATGTCTTTCATAT
24578348 TT
1 TT
24578350 TGCATTCATA
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:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTCTTTCATAT
Found at i:24586439 original size:69 final size:69
Alignment explanation
Indices: 24586328--24586480 Score: 288
Period size: 69 Copynumber: 2.2 Consensus size: 69
24586318 CAGGACTAAA
24586328 ACCATAGTTGGACTATGGCATCCTAGTACTCTACCAAAAAAATAAACACGGTGAAACATAAGGTG
1 ACCATAGTTGGACTATGGCATCCTAGTACTCTACCAAAAAAATAAACACGGTGAAACATAAGGTG
24586393 TAAG
66 TAAG
*
24586397 ACCATAGTTGGACTATGGCATCCTAGTACTCTACCAAGAAAATAAACACGGTGAAACATAAGGTG
1 ACCATAGTTGGACTATGGCATCCTAGTACTCTACCAAAAAAATAAACACGGTGAAACATAAGGTG
24586462 TAAG
66 TAAG
*
24586466 ACCATAGCTGGACTA
1 ACCATAGTTGGACTA
24586481 AAGCCACTGC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 82 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (69 bp):
ACCATAGTTGGACTATGGCATCCTAGTACTCTACCAAAAAAATAAACACGGTGAAACATAAGGTG
TAAG
Found at i:24586651 original size:27 final size:27
Alignment explanation
Indices: 24586620--24586672 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24586610 ACGACAACAA
*
24586620 AGATAGTCTGACGGGACATTAAACATG
1 AGATAGTCTGACGGGACATCAAACATG
*
24586647 AGATAGTTTGACGGGACATCAAACAT
1 AGATAGTCTGACGGGACATCAAACAT
24586673 AGGGTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (27 bp):
AGATAGTCTGACGGGACATCAAACATG
Found at i:24589144 original size:42 final size:43
Alignment explanation
Indices: 24589058--24589179 Score: 169
Period size: 42 Copynumber: 2.9 Consensus size: 43
24589048 GGCTCGTACA
* * *
24589058 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACAGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAAATCG
*
24589101 ATGCC-ACTGTCCCAGACAG-GGT-TTACAAGAAAACACAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAAACACAAATCG
24589143 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACAC
24589180 TTTTCGAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 35 0.51
43 32 0.46
44 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAAATCG
Found at i:24593121 original size:27 final size:27
Alignment explanation
Indices: 24593024--24593121 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
24593014 TTGCAACTCA
*
24593024 ACTGGCAAACCCC-GGTTCGCCAAATAG
1 ACTGGCAAACCCCAGCTT-GCCAAATAG
* ** * *
24593051 AATGGTGAACCCCAACTAGCCAAATAG
1 ACTGGCAAACCCCAGCTTGCCAAATAG
* * *
24593078 ACTAGCAAACCCTAGCTTGCCAAACAG
1 ACTGGCAAACCCCAGCTTGCCAAATAG
*
24593105 ACTGGCGAACCCCAGCT
1 ACTGGCAAACCCCAGCT
24593122 CATCAGCACG
Statistics
Matches: 53, Mismatches: 17, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.19, T:0.14
Consensus pattern (27 bp):
ACTGGCAAACCCCAGCTTGCCAAATAG
Found at i:24593553 original size:9 final size:9
Alignment explanation
Indices: 24593539--24593569 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24593529 GTTAAACGAA
24593539 TCGAGTTAT
1 TCGAGTTAT
*
24593548 TCGAGTTAA
1 TCGAGTTAT
24593557 TCGAGTTAT
1 TCGAGTTAT
24593566 TCGA
1 TCGA
24593570 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24593640 original size:9 final size:9
Alignment explanation
Indices: 24593623--24593659 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24593613 TGAGTTTTCG
24593623 AATTCGAAT
1 AATTCGAAT
*
24593632 AACTCGAAT
1 AATTCGAAT
24593641 AATTCGAAT
1 AATTCGAAT
24593650 AATTCGAAT
1 AATTCGAAT
24593659 A
1 A
24593660 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24596177 original size:7 final size:7
Alignment explanation
Indices: 24596165--24596210 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
24596155 TAAATTTGAA
*
24596165 TAAACCT
1 TAAACCC
24596172 TAAACCC
1 TAAACCC
*
24596179 TAAATCC
1 TAAACCC
24596186 TAAACCC
1 TAAACCC
*
24596193 TAAATCC
1 TAAACCC
24596200 TAAACCC
1 TAAACCC
24596207 TAAA
1 TAAA
24596211 AAATTAAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:24596189 original size:14 final size:14
Alignment explanation
Indices: 24596172--24596210 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
24596162 GAATAAACCT
24596172 TAAACCCTAAATCC
1 TAAACCCTAAATCC
24596186 TAAACCCTAAATCC
1 TAAACCCTAAATCC
24596200 TAAACCCTAAA
1 TAAACCCTAAA
24596211 AAATTAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAATCC
Found at i:24604927 original size:30 final size:30
Alignment explanation
Indices: 24604886--24604946 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
24604876 AAACCTCTTT
24604886 ACTTTCCCCCAAAACTTTTACT-CCCTTCC
1 ACTTTCCCCCAAAACTTTTACTCCCCTTCC
*
24604915 ACTTTCCCCCCAAAACTTTTTCTCCCCTTCC
1 ACTTT-CCCCCAAAACTTTTACTCCCCTTCC
24604946 A
1 A
24604947 TCCCACCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.17
30 16 0.55
31 8 0.28
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (30 bp):
ACTTTCCCCCAAAACTTTTACTCCCCTTCC
Found at i:24604956 original size:31 final size:30
Alignment explanation
Indices: 24604891--24604956 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
24604881 TCTTTACTTT
**
24604891 CCCCCAAAACTTTTACTCCCTTCCACTTTC
1 CCCCCAAAACTTTTACTCCCTTCCACTCCC
*
24604921 CCCCCAAAACTTTTTCTCCCCTTCCA-TCCC
1 CCCCCAAAACTTTTACT-CCCTTCCACTCCC
24604951 ACCCCC
1 -CCCCC
24604957 TTCTACCCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 18 0.58
31 13 0.42
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (30 bp):
CCCCCAAAACTTTTACTCCCTTCCACTCCC
Found at i:24605076 original size:18 final size:19
Alignment explanation
Indices: 24605044--24605081 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24605034 AATCCCTCAA
24605044 CCCCCAAAACTTTTTATTT
1 CCCCCAAAACTTTTTATTT
24605063 CCCCCAAAAC-TTTTATTT
1 CCCCCAAAACTTTTTATTT
24605081 C
1 C
24605082 TCACCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.39
Consensus pattern (19 bp):
CCCCCAAAACTTTTTATTT
Found at i:24606415 original size:2 final size:2
Alignment explanation
Indices: 24606410--24606449 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
24606400 AAAAAAAAAA
*
24606410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24606450 TAATAAAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24607211 original size:30 final size:31
Alignment explanation
Indices: 24607147--24607216 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
24607137 ATTCAAAAAA
*
24607147 TTTTATTTAAGCCACTGAACTATTTAAAAGT
1 TTTTATTTAAGCCACTGAACTAGTTAAAAGT
* *
24607178 TTTTATTTAAGTCATTGAACT-GTT-AAA-T
1 TTTTATTTAAGCCACTGAACTAGTTAAAAGT
*
24607206 TTTTTTTTAAG
1 TTTTATTTAAG
24607217 TTTCACCACT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.31
29 3 0.09
30 2 0.06
31 19 0.54
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (31 bp):
TTTTATTTAAGCCACTGAACTAGTTAAAAGT
Found at i:24615044 original size:48 final size:47
Alignment explanation
Indices: 24614919--24615053 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 47
24614909 CTATTTACCT
* * * * **
24614919 TGTAGATTTAACCCTAACGGGTAACTAGACACTATTACTCATTATTTG
1 TGTAGGTTTAACCCTAAC-GGTAACCAGGCACTATTATTCATTATTCA
* * *
24614967 TGTAGGTTTAACCTTGACGAGTAATCAGGCACTATTATTCATTATTCA
1 TGTAGGTTTAACCCTAACG-GTAACCAGGCACTATTATTCATTATTCA
**
24615015 TGTAGGTTTAACCGAAACAGGTAACCAGGCACTATTATT
1 TGTAGGTTTAACCCTAAC-GGTAACCAGGCACTATTATT
24615054 TTCACCTGTG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 70 0.97
49 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (47 bp):
TGTAGGTTTAACCCTAACGGTAACCAGGCACTATTATTCATTATTCA
Found at i:24618728 original size:28 final size:28
Alignment explanation
Indices: 24618688--24618744 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
24618678 AGTAAGTCTA
*
24618688 TTGGGACAGTAAACACGAGCTAGGTTTG
1 TTGGGACAGTAAACACGAGCTAAGTTTG
*
24618716 TTGGGACAGTAAACACGAGGTAAGTTTG
1 TTGGGACAGTAAACACGAGCTAAGTTTG
24618744 T
1 T
24618745 CGGGGTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (28 bp):
TTGGGACAGTAAACACGAGCTAAGTTTG
Found at i:24622661 original size:43 final size:42
Alignment explanation
Indices: 24622614--24622715 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 42
24622604 TCTAGAACAT
* * * *
24622614 TGGCATTGATATGAGATTACGTGTAAGACCCTGTTTGGGACA
1 TGGCATTGATATGAGATAACATGTAAGACCATATTTGGGACA
* * *
24622656 GTGGCATCGATATGTGATAACATGTAAGACCATATTTGGGATA
1 -TGGCATTGATATGAGATAACATGTAAGACCATATTTGGGACA
*
24622699 TGGCATTG-TATGTGATA
1 TGGCATTGATATGAGATA
24622716 TATGTGTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 9 0.18
42 7 0.14
43 35 0.69
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (42 bp):
TGGCATTGATATGAGATAACATGTAAGACCATATTTGGGACA
Found at i:24623499 original size:35 final size:34
Alignment explanation
Indices: 24623432--24623499 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
24623422 TATTAAAGTG
*
24623432 TGGTTGTTTTACATATTACAATGATATCCAAATA
1 TGGTTGTTTTACATATTACAATGATATACAAATA
* * * *
24623466 TGGTTGTTTTTACATGTTATAATGTTGTACAAAT
1 TGGTTG-TTTTACATATTACAATGATATACAAAT
24623500 TAGTGCTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 6 0.21
35 22 0.79
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.46
Consensus pattern (34 bp):
TGGTTGTTTTACATATTACAATGATATACAAATA
Found at i:24627598 original size:54 final size:52
Alignment explanation
Indices: 24627532--24627686 Score: 161
Period size: 54 Copynumber: 2.9 Consensus size: 52
24627522 TGGCCATGGG
*
24627532 AAGAAGACCATATAGTGTAAGACCTAATCTGGGACTATGGCATCATAT-AGGA
1 AAGAAGA-CATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATAAGGA
* *
24627584 AACTGAAGATCATATAGTGTAAGACCTAGTCATTATGG-CCATGGCATCATATAAGGA
1 AA--GAAGA-CATATAGTGTAAGACCTAGTC--T-GGGACTATGGCATCATATAAGGA
* * * *
24627641 AAGAAGACTACATAGTGTAAGACCTAGTTTGAGACTATGGTATCAT
1 AAGAAGAC-ATATAGTGTAAGACCTAGTCTGGGACTATGGCATCAT
24627687 GTGGGAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
52 3 0.04
53 11 0.13
54 26 0.31
55 23 0.27
56 14 0.16
57 8 0.09
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (52 bp):
AAGAAGACATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATAAGGA
Found at i:24629761 original size:43 final size:43
Alignment explanation
Indices: 24629714--24629824 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
24629704 AAATAGAAGA
*
24629714 AAATATACTGGCACACACAGTGCATCATTGGACAAACCAAAGC
1 AAATATACTGGAACACACAGTGCATCATTGGACAAACCAAAGC
* * * * * * *
24629757 AAATATACTAGTATAGACATTGTATCATTGGACGAACCAAAGC
1 AAATATACTGGAACACACAGTGCATCATTGGACAAACCAAAGC
24629800 AAATATACTGGAACACGA-AGTGCAT
1 AAATATACTGGAACAC-ACAGTGCAT
24629825 AAACCCGTAC
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 53 0.98
44 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (43 bp):
AAATATACTGGAACACACAGTGCATCATTGGACAAACCAAAGC
Found at i:24638247 original size:5 final size:5
Alignment explanation
Indices: 24638237--24638261 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24638227 AGCTTGCACC
24638237 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
24638262 TTATTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:24646594 original size:36 final size:36
Alignment explanation
Indices: 24646554--24646626 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
24646544 AGATGATTAA
24646554 GAGTAAAATAGTAATAGTTAAATAAGATATTTATGG
1 GAGTAAAATAGTAATAGTTAAATAAGATATTTATGG
*
24646590 GAGTAAAATAGTAATAGTTAAATAAGATATTTCTGG
1 GAGTAAAATAGTAATAGTTAAATAAGATATTTATGG
24646626 G
1 G
24646627 TGTAGTCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.33
Consensus pattern (36 bp):
GAGTAAAATAGTAATAGTTAAATAAGATATTTATGG
Found at i:24646982 original size:25 final size:25
Alignment explanation
Indices: 24646933--24646987 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
24646923 GAGAAAAGAG
24646933 AAAGTTAGGGATTTAGTGGTGATAT
1 AAAGTTAGGGATTTAGTGGTGATAT
24646958 CAAAGTTAGGGATTT-GTGGTGATAT
1 -AAAGTTAGGGATTTAGTGGTGATAT
24646983 AAAGT
1 AAAGT
24646988 AATAAGGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.17
25 10 0.34
26 14 0.48
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.35
Consensus pattern (25 bp):
AAAGTTAGGGATTTAGTGGTGATAT
Found at i:24658597 original size:36 final size:36
Alignment explanation
Indices: 24658547--24658619 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
24658537 TTATGTATGC
24658547 ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
1 ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
* *
24658583 ATGCATTCAGACTTACTTAAAAATATTTAAGAACTT
1 ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
24658619 A
1 A
24658620 GTCCAAGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (36 bp):
ATGCATTCAAACTTACTTAAAAAGATTTAAGAACTT
Found at i:24664203 original size:10 final size:10
Alignment explanation
Indices: 24664188--24664216 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
24664178 TTAAATTCTA
24664188 AAAGATAAAT
1 AAAGATAAAT
24664198 AAAGATAAAT
1 AAAGATAAAT
24664208 AAAGATAAA
1 AAAGATAAA
24664217 AACTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:24668972 original size:17 final size:17
Alignment explanation
Indices: 24668952--24668984 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24668942 TTTAACCATC
24668952 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
24668969 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
24668985 TGTGACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:24671718 original size:27 final size:27
Alignment explanation
Indices: 24671677--24671739 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
24671667 ATAGGTTAAT
*
24671677 TTTAAAAT-AAGTAATATGTAAAATAA
1 TTTAAAATAAAATAATATGTAAAATAA
*
24671703 TTTAAAATAAAATAATATGTAAAGTAA
1 TTTAAAATAAAATAATATGTAAAATAA
*
24671730 CTTAAAATAA
1 TTTAAAATAA
24671740 TTAGACTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (27 bp):
TTTAAAATAAAATAATATGTAAAATAA
Found at i:24671787 original size:21 final size:21
Alignment explanation
Indices: 24671758--24671797 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24671748 ATAAGTTAGG
24671758 TTAAGATAATAAATAAAAGGT
1 TTAAGATAATAAATAAAAGGT
* **
24671779 TTAATATAATCTATAAAAG
1 TTAAGATAATAAATAAAAG
24671798 AGAAAATTGG
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:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAGATAATAAATAAAAGGT
Found at i:24696818 original size:18 final size:18
Alignment explanation
Indices: 24696785--24696819 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24696775 AAAATCGGGA
*
24696785 AAAAATATTCTCGAAAAT
1 AAAAATATTCTAGAAAAT
*
24696803 AAAAATATTGTAGAAAA
1 AAAAATATTCTAGAAAA
24696820 ATTAAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAAAATATTCTAGAAAAT
Found at i:24705133 original size:3 final size:3
Alignment explanation
Indices: 24705125--24705155 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
24705115 ATAAAGAAGG
24705125 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24705156 GGATTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24705199 original size:5 final size:6
Alignment explanation
Indices: 24705180--24705237 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
24705170 TTTGGAATTC
* * *
24705180 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAA AAAGGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAA-TAA AAATAA
*
24705231 AGATAA A
1 AAATAA A
24705238 CTAAATTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 32 0.74
7 7 0.16
8 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:24708038 original size:47 final size:47
Alignment explanation
Indices: 24707965--24708063 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
24707955 CTTCTAAGAT
* * *
24707965 ACTCTCATATGGTTATTCCAGTAACTTTTACCAATGGGAAGTTTTAG
1 ACTCTCATATGGTTATTCCAGCAACTTTTACAAATGGGAAGTTTCAG
*
24708012 ACTCTCATATGGTTATTCCCGCAACTTTTACAAATGGGAAGTTTCAG
1 ACTCTCATATGGTTATTCCAGCAACTTTTACAAATGGGAAGTTTCAG
24708059 ACTCT
1 ACTCT
24708064 GGGACCCTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (47 bp):
ACTCTCATATGGTTATTCCAGCAACTTTTACAAATGGGAAGTTTCAG
Found at i:24709010 original size:21 final size:20
Alignment explanation
Indices: 24708981--24709020 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24708971 CTTTTTCAAT
*
24708981 CTCAATCTCTCTTTTCTTTTC
1 CTCAATCTC-ATTTTCTTTTC
*
24709002 CTCACTCTCATTTTCTTTT
1 CTCAATCTCATTTTCTTTT
24709021 TCGATTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (20 bp):
CTCAATCTCATTTTCTTTTC
Found at i:24711616 original size:10 final size:10
Alignment explanation
Indices: 24711601--24711651 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
24711591 TTGGGTTAAG
24711601 ATTGAGCTGA
1 ATTGAGCTGA
24711611 ATTGAGCTCGA
1 ATTGAGCT-GA
24711622 A-TGAGCTGA
1 ATTGAGCTGA
* *
24711631 CTTGAGCTCA
1 ATTGAGCTGA
*
24711641 AGTGAGCTGA
1 ATTGAGCTGA
24711651 A
1 A
24711652 CTAAGTTGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 2 0.06
10 29 0.85
11 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:24711626 original size:20 final size:20
Alignment explanation
Indices: 24711603--24711651 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
24711593 GGGTTAAGAT
24711603 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
24711623 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
24711643 TGAGCTGAA
1 TGAGCTGAA
24711652 CTAAGTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:24714077 original size:24 final size:25
Alignment explanation
Indices: 24714050--24714096 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24714040 CTGTGGTTAA
* *
24714050 ATGACTGGTTTGTTTGTG-TTTGGT
1 ATGACTGATTTGTCTGTGATTTGGT
24714074 ATGACTGATTTGTCTGTGATTTG
1 ATGACTGATTTGTCTGTGATTTG
24714097 AGTGACTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.13, C:0.06, G:0.30, T:0.51
Consensus pattern (25 bp):
ATGACTGATTTGTCTGTGATTTGGT
Found at i:24714327 original size:32 final size:32
Alignment explanation
Indices: 24714282--24714468 Score: 232
Period size: 32 Copynumber: 5.8 Consensus size: 32
24714272 ACGATGCTAT
*
24714282 TGATGGCTTTGTACCGATCATATTACCATTAC
1 TGATGGCTTTGTACCGATCATATTACTATTAC
* * *
24714314 TAATGGCTATGTACCGATCATATTACCATTAC
1 TGATGGCTTTGTACCGATCATATTACTATTAC
* * *
24714346 TGATGG-TTGTGTGCCGATCATATTACTACTAT
1 TGATGGCTT-TGTACCGATCATATTACTATTAC
*
24714378 TGATGGCTTTGTACCGATCATACTACTATTAC
1 TGATGGCTTTGTACCGATCATATTACTATTAC
* * *
24714410 TGATGGCTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTACCGATCATATTACTATTAC
** *
24714442 TGATGGCTTTGTGTCAATCATATTACT
1 TGATGGCTTTGTACCGATCATATTACT
24714469 GTACTTGTGG
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
31 1 0.01
32 131 0.98
33 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (32 bp):
TGATGGCTTTGTACCGATCATATTACTATTAC
Found at i:24714386 original size:96 final size:96
Alignment explanation
Indices: 24714278--24714468 Score: 285
Period size: 96 Copynumber: 2.0 Consensus size: 96
24714268 TACTACGATG
* *
24714278 CTATTGATGGCTTTGTACCGATCATATTACCATTACTAATGGCTATGTACCGATCATATTACCAT
1 CTATTGATGGCTTTGTACCGATCATACTACCATTACTAATGGCTATGTACCGATCATATTACCAC
*
24714343 TACTGATGG-TTGTGTGCCGATCATATTACTA
66 TACTGATGGCTT-TGTGCCAATCATATTACTA
* * * * *
24714374 CTATTGATGGCTTTGTACCGATCATACTACTATTACTGATGGCTGTGTGCCGATCATATTACTAC
1 CTATTGATGGCTTTGTACCGATCATACTACCATTACTAATGGCTATGTACCGATCATATTACCAC
*
24714439 TACTGATGGCTTTGTGTCAATCATATTACT
66 TACTGATGGCTTTGTGCCAATCATATTACT
24714469 GTACTTGTGG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 83 0.98
97 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (96 bp):
CTATTGATGGCTTTGTACCGATCATACTACCATTACTAATGGCTATGTACCGATCATATTACCAC
TACTGATGGCTTTGTGCCAATCATATTACTA
Found at i:24722984 original size:17 final size:18
Alignment explanation
Indices: 24722951--24722984 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24722941 ATGATATGCC
*
24722951 AAACTATTTTTATGCTTG
1 AAACTATTTTGATGCTTG
24722969 AAACTA-TTTGATGCTT
1 AAACTATTTTGATGCTT
24722985 ACTATTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (18 bp):
AAACTATTTTGATGCTTG
Found at i:24730018 original size:25 final size:25
Alignment explanation
Indices: 24729984--24730040 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
24729974 GGGTCAGACG
24729984 GCCGTGTCACACGCCCATGTGCCAA
1 GCCGTGTCACACGCCCATGTGCCAA
* *
24730009 GCCGTGTCACACGCCCGTGTGCCAG
1 GCCGTGTCACACGCCCATGTGCCAA
24730034 GCCGTGT
1 GCCGTGT
24730041 AACTCTCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.14, C:0.39, G:0.30, T:0.18
Consensus pattern (25 bp):
GCCGTGTCACACGCCCATGTGCCAA
Found at i:24734553 original size:51 final size:50
Alignment explanation
Indices: 24734421--24734613 Score: 230
Period size: 51 Copynumber: 3.8 Consensus size: 50
24734411 ACTATTATCA
*
24734421 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAAGTT
* * * *
24734470 TTATGGTTCACATAGTAGCCTTCACATGGTACTACACACGTGA-CAAAAGCTT
1 TT-CGATACACATAGTAGCCTTCACATAGTACTACACACGTGATC-AAAG-TT
* * * *
24734522 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATTA-TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCA-AAGTT
*
24734572 TATCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTG
24734614 TTCATCGATA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 3 0.02
50 38 0.31
51 75 0.61
52 6 0.05
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAAGTT
Found at i:24734559 original size:26 final size:26
Alignment explanation
Indices: 24734527--24734609 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
24734517 AGCTTTTCGG
24734527 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* * *
24734553 TACACAT-GTGATCATT-ATTTA-T-C
1 TACACATAGT-AGCCTTCACTTAGTAC
* *
24734576 GATACACGTAGTAGCCTTCACATAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
24734604 TACACA
1 TACACA
24734610 CGTGTTCATC
Statistics
Matches: 41, Mismatches: 9, Indels: 14
0.64 0.14 0.22
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 16 0.39
26 21 0.51
27 1 0.02
28 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:24734564 original size:101 final size:102
Alignment explanation
Indices: 24734421--24734613 Score: 282
Period size: 101 Copynumber: 1.9 Consensus size: 102
24734411 ACTATTATCA
* * *
24734421 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTAT-GGTTCACATA
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATC-AGTATTTATCGATACACATA
*
24734484 GTAGCCTTCACATGGTACTACACACGTGACAAAAGCTT
65 GTAGCCTTCACATAGTACTACACACGTGACAAAAGCTT
* * * * *
24734522 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATTATTTATCGATACACGTAG
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAGTATTTATCGATACACATAG
24734587 TAGCCTTCACATAGTACTACACACGTG
66 TAGCCTTCACATAGTACTACACACGTG
24734614 TTCATCGATA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 2 0.02
101 45 0.56
102 34 0.42
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (102 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAGTATTTATCGATACACATAG
TAGCCTTCACATAGTACTACACACGTGACAAAAGCTT
Found at i:24736084 original size:27 final size:27
Alignment explanation
Indices: 24736046--24736216 Score: 252
Period size: 27 Copynumber: 6.3 Consensus size: 27
24736036 TAGATTAGGT
24736046 ATTCCTTTCATATATTGCCACAAAGGC
1 ATTCCTTTCATATATTGCCACAAAGGC
* *
24736073 ATTCCTTTCATATATTACCACAAAGGA
1 ATTCCTTTCATATATTGCCACAAAGGC
**
24736100 ATTCCTTTCATATATTGTGACAAAGGC
1 ATTCCTTTCATATATTGCCACAAAGGC
*
24736127 ATACCTTTCATATATTGCCACAAAGGC
1 ATTCCTTTCATATATTGCCACAAAGGC
* *
24736154 GTTCCTTTCATATATTGCCACAAAGCC
1 ATTCCTTTCATATATTGCCACAAAGGC
* * *
24736181 AATCCTTTCATATATTGCCAAAAAGCC
1 ATTCCTTTCATATATTGCCACAAAGGC
24736208 ATTCCTTTC
1 ATTCCTTTC
24736217 CTAGCGTGTT
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (27 bp):
ATTCCTTTCATATATTGCCACAAAGGC
Found at i:24744158 original size:13 final size:13
Alignment explanation
Indices: 24744140--24744167 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24744130 AGGTACACTG
24744140 TTGCATTTTAGTA
1 TTGCATTTTAGTA
24744153 TTGCATTTTAGTA
1 TTGCATTTTAGTA
24744166 TT
1 TT
24744168 ACAGGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTGCATTTTAGTA
Found at i:24746316 original size:29 final size:30
Alignment explanation
Indices: 24746281--24746351 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 30
24746271 CTATCAAATT
24746281 ATGAAAAGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCAAACA
* *
24746310 ATGAAAAGGGATGGTGACGACTATCAAATA
1 ATGAAAAGGGATGGTGACGACCATCAAACA
24746340 ATGAAAAGGGAT
1 ATGAAAAGGGAT
24746352 AGCTTCGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 24 0.62
30 15 0.38
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCAAACA
Found at i:24746345 original size:30 final size:30
Alignment explanation
Indices: 24746156--24746351 Score: 150
Period size: 30 Copynumber: 6.6 Consensus size: 30
24746146 GGAGGTTATT
* * *
24746156 AAATTATGAAAAGGGATGGTAACGACCATT
1 AAATAATGAAAAGGGATGGTGACGACCATC
*
24746186 AAATAATGAAAAGGGATGGTGATGACCATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
* * * * *
24746216 GAACAATGAAAAGGGATGGCT-TCGGCTATCC
1 AAATAATGAAAAGGGATGG-TGACGACCAT-C
* * * * * * *
24746247 AACT-GTAAAAATGGAGA-GCT-TCGGCTATC
1 AAATAATGAAAA-GG-GATGGTGACGACCATC
*
24746276 AAATTATGAAAAGGGATGGTGACGACCATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
* *
24746306 -AACAATGAAAAGGGATGGTGACGACTATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
24746335 AAATAATGAAAAGGGAT
1 AAATAATGAAAAGGGAT
24746352 AGCTTCGGTT
Statistics
Matches: 131, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
28 2 0.02
29 34 0.26
30 87 0.66
31 6 0.05
32 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (30 bp):
AAATAATGAAAAGGGATGGTGACGACCATC
Done.