Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 74 of 333
Found at i:22765736 original size:91 final size:90
Alignment explanation
Indices: 22765574--22765738 Score: 215
Period size: 91 Copynumber: 1.8 Consensus size: 90
22765564 ACACTCCAGT
* * * * *
22765574 TTGTGGATAAACCACCAGAATTGGAGGTTAATACGCTGCCAGCAGTTGTGAATACACAACGGATT
1 TTGTGGATAAACCACAAGAATTGCAAGTTAATACGCTGCCAGCAATTGTGAATACACAACGAATT
22765639 TACAGATAATAGCTGCCAGTATAAG
66 TACAGATAATAGCTGCCAGTATAAG
** * *
22765664 TTGTGGATAAACCACAAGTGTTTGCAAGTTAATATGCTGCCAGTAATTGTGAATACACAAC-AAC
1 TTGTGGATAAACCACAAG-AATTGCAAGTTAATACGCTGCCAGCAATTGTGAATACACAACGAA-
*
22765728 TTTGCAGATAA
64 TTTACAGATAA
22765739 AATGTAACAG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
90 18 0.29
91 45 0.71
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (90 bp):
TTGTGGATAAACCACAAGAATTGCAAGTTAATACGCTGCCAGCAATTGTGAATACACAACGAATT
TACAGATAATAGCTGCCAGTATAAG
Found at i:22766240 original size:30 final size:30
Alignment explanation
Indices: 22766205--22766271 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
22766195 GATATAGGGG
*
22766205 ACACACGACTGTGTCACCTGGCCGTATGTC
1 ACACACGACTGTGTCACCTAGCCGTATGTC
* * * *
22766235 ACACACAACTGTGTCACTTAGCCGTGTGTG
1 ACACACGACTGTGTCACCTAGCCGTATGTC
22766265 ACACACG
1 ACACACG
22766272 GCTGAGATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (30 bp):
ACACACGACTGTGTCACCTAGCCGTATGTC
Found at i:22767461 original size:25 final size:25
Alignment explanation
Indices: 22767433--22767496 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
22767423 ATGAGCTATA
* *
22767433 AACGGTAAGCTCCTCCAAGTTAAAT
1 AACGGTAAGCTCATCCAAGCTAAAT
**
22767458 AACGGTAAGCTCATCTGAGCTAAAT
1 AACGGTAAGCTCATCCAAGCTAAAT
*
22767483 AACGGAAAGCTCAT
1 AACGGTAAGCTCAT
22767497 AAGAGCTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATCCAAGCTAAAT
Found at i:22767502 original size:25 final size:25
Alignment explanation
Indices: 22767453--22767508 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
22767443 TCCTCCAAGT
* **
22767453 TAAATAACGGTAAGCTCATCTGAGC
1 TAAATAACGGAAAGCTCATAAGAGC
22767478 TAAATAACGGAAAGCTCATAAGAGC
1 TAAATAACGGAAAGCTCATAAGAGC
22767503 TGAAAT
1 T-AAAT
22767509 CGATATCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (25 bp):
TAAATAACGGAAAGCTCATAAGAGC
Found at i:22775343 original size:14 final size:14
Alignment explanation
Indices: 22775324--22775373 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
22775314 TATACGTGGC
22775324 ATTATTTATAATAT
1 ATTATTTATAATAT
* *
22775338 ATTATTTTTAA-AC
1 ATTATTTATAATAT
*
22775351 ATATATTTATATTAT
1 AT-TATTTATAATAT
22775366 A-TATTTAT
1 ATTATTTAT
22775374 GATTTCCACA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 10 0.34
14 17 0.59
15 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATTTATAATAT
Found at i:22776165 original size:34 final size:34
Alignment explanation
Indices: 22776122--22776201 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
22776112 GCCCCTGGGT
*
22776122 TTTAGGGTTTTTAAGTAAATTAATTAAATTAAGG
1 TTTAGGGTTTTTAAGAAAATTAATTAAATTAAGG
* *
22776156 TTTATGGTTTTTAAGAAAATTAATTAAATTAGGG
1 TTTAGGGTTTTTAAGAAAATTAATTAAATTAAGG
* *
22776190 CTTAGAGTTTTT
1 TTTAGGGTTTTT
22776202 TAAATATGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (34 bp):
TTTAGGGTTTTTAAGAAAATTAATTAAATTAAGG
Found at i:22776620 original size:126 final size:127
Alignment explanation
Indices: 22776297--22776690 Score: 516
Period size: 126 Copynumber: 3.1 Consensus size: 127
22776287 TTTTGTTTGT
* * * * *
22776297 TTTTTTTATAGTAGTTTCTGAAAAAATAATTTTGAGAAA-ACGGTTCTAAAAAAATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAACATGGTTCTGAAAAAATAATGTCAAA
* * * *
22776361 AACGCTTCAAGCAGTATGCACTGTCAGC-AAA-TACTGAAAAAAGCTCTCATGTAGACGCTC
66 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* * * *
22776421 TTTTTCTACTGTAATTCTTG-AAAAA-AATTTTGAGAAGAC-T-GTTCTGAAAAAATAATGTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAA-ACATGGTTCTGAAAAAATAATGTCAA
* *
22776482 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCCC
65 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* *
22776545 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGA-AAACATGGTTTTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAACATGGTTCTGAAAAAATAATGTCAAA
* * * *
22776609 AACGCTTCAAGCAGGGTGCACTATTAGTAAAATTACTGAAAAAAAGCTCTCACGTGGACGCTC
66 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCTCACGTGGACGCTC
*
22776672 TTTTTCTATAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
22776691 ACTTGGCCTT
Statistics
Matches: 233, Mismatches: 28, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
122 58 0.25
123 9 0.04
124 57 0.24
125 8 0.03
126 60 0.26
127 41 0.18
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (127 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAACATGGTTCTGAAAAAATAATGTCAAA
AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
Found at i:22783211 original size:11 final size:10
Alignment explanation
Indices: 22783180--22783227 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
22783170 CACAAATTGG
22783180 TTTTTTTCTT
1 TTTTTTTCTT
*
22783190 TTTTTAGTCTT
1 TTTTT-TTCTT
22783201 TTTTGTTTCTT
1 TTTT-TTTCTT
* *
22783212 TTTTTCTGTT
1 TTTTTTTCTT
22783222 TTTTTT
1 TTTTTT
22783228 CTATCAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 14 0.45
11 16 0.52
12 1 0.03
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:22784103 original size:11 final size:11
Alignment explanation
Indices: 22784087--22784111 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22784077 ATATCTAGAA
22784087 TTCTCTTCATT
1 TTCTCTTCATT
22784098 TTCTCTTCATT
1 TTCTCTTCATT
22784109 TTC
1 TTC
22784112 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:22789422 original size:86 final size:86
Alignment explanation
Indices: 22789277--22789444 Score: 284
Period size: 86 Copynumber: 2.0 Consensus size: 86
22789267 ACGGATACGG
* *
22789277 ATTCAAGCGCGTTGAAATGAATTTATTCTCCTATTTAAATATTTAAAAAGAATTATCAATAATAC
1 ATTCAAGCGCATTGAAATGAATTTATTCTCCTATTTAAAGATTTAAAAAGAATTATCAATAATAC
*
22789342 TAGACATTATATTAAAAACGA
66 TAGACATTATATCAAAAACGA
*
22789363 ATTCAAGCGCATTGAAATTG-ATTTATTTTCCTATTTAAAGATTTAAAAAGAATTATCAATAATA
1 ATTCAAGCGCATTGAAA-TGAATTTATTCTCCTATTTAAAGATTTAAAAAGAATTATCAATAATA
22789427 CTAGACATTATATCAAAA
65 CTAGACATTATATCAAAA
22789445 TAATAATAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 75 0.97
87 2 0.03
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (86 bp):
ATTCAAGCGCATTGAAATGAATTTATTCTCCTATTTAAAGATTTAAAAAGAATTATCAATAATAC
TAGACATTATATCAAAAACGA
Found at i:22790944 original size:20 final size:20
Alignment explanation
Indices: 22790916--22790954 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22790906 AGGCCAAAAT
22790916 AAAAATTGACATACATTTTC
1 AAAAATTGACATACATTTTC
* *
22790936 AAAATTTGACATTCATTTT
1 AAAAATTGACATACATTTT
22790955 TACTTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAATTGACATACATTTTC
Found at i:22797282 original size:35 final size:35
Alignment explanation
Indices: 22797236--22797396 Score: 206
Period size: 35 Copynumber: 4.7 Consensus size: 35
22797226 GATTTTTCTC
* *
22797236 ATGGAAAATACCATACCTATGTTTCATAACACAGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
* *
22797271 ATGGAAAATACCATACCTACGTTTCACAACTCGGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
* *
22797306 ATGGAAAATACCATACCTACGTATCATAGCTCAGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
* * *
22797341 ATGGAAGATACCATACCTA----TCATAGCTGAGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
22797372 ATGG-AAATACCATACCTACGTTTCA
1 ATGGAAAATACCATACCTACGTTTCA
22797397 CATTTTTCCA
Statistics
Matches: 111, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
30 13 0.12
31 15 0.14
34 3 0.03
35 80 0.72
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (35 bp):
ATGGAAAATACCATACCTACGTTTCATAACTCAGT
Found at i:22807388 original size:6 final size:6
Alignment explanation
Indices: 22807379--22807411 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
22807369 CATCATTTCG
22807379 TCAGTA TCAGTA TCAGTA TCAGTA TCAGTA TCA
1 TCAGTA TCAGTA TCAGTA TCAGTA TCAGTA TCA
22807412 AATTAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (6 bp):
TCAGTA
Found at i:22817240 original size:9 final size:8
Alignment explanation
Indices: 22817212--22817242 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
22817202 GACTTGGTAC
22817212 CAAATGTT
1 CAAATGTT
22817220 CAAATGTT
1 CAAATGTT
22817228 CAAATGCTT
1 CAAATG-TT
22817237 CAAATG
1 CAAATG
22817243 GGTAGAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (8 bp):
CAAATGTT
Found at i:22818404 original size:264 final size:264
Alignment explanation
Indices: 22817697--22818484 Score: 1151
Period size: 264 Copynumber: 3.0 Consensus size: 264
22817687 GTTGGTCGAC
* * * *
22817697 TGTCTCCTAGGATAAAACAACGAGACAAGCA-TGATAATAGCACAGCTATAGTGATCAACGAACT
1 TGTCTCCTAGGATACAACAACGAGACGAGCACAG-TAGTAGCACAGCTATAGTGATCAACGAACT
* * * *
22817761 ATAGCCTAGCTTTCTTCTATCACCGAAAATAGGTTCGAAATATGTAAGGAAAAGATCT-AGAAAT
65 GTAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAAGATCTCA-AAAT
* * * ** *
22817825 TTTTACAGGAAAAATAGAGAAAAATCCAGTGTGTA--TTCTCCTGCAAATTATTTC-GATTTAAA
129 ATTTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAG-TTTAAA
*
22817887 TAAAATATTCAAAATGAAGGAACTTTTGGAAAATTTGACTAATAGAGCCATTAACGTCTGTGAAT
193 TAAAATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAAT
*
22817952 TAAGGAG
258 TAAGGAA
* * * *
22817959 TGTCTCCCAGGATACAACAATGAGACGAGCACAGTAGTAGCA-TGCTGA-AGTGATCAACAAACT
1 TGTCTCCTAGGATACAACAACGAGACGAGCACAGTAGTAGCACAGCT-ATAGTGATCAACGAACT
* * *
22818022 GTAGCCCAGCTTTTTTCTATCACCGAAAACAGGTTTGAAATATGCAGGGAAAAGATCTCAAAATA
65 GTAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAAGATCTCAAAATA
* * *
22818087 TTTGCAGGAAAAATAGAG-AAAGATCCTCTGTGTATTTTCACATGTAGATTATTTCAGTTTAAAT
130 TTTGCAGGAAAAATAGAGAAAAG-TCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAAT
* * **
22818151 AAAATATTCAAAATGAAAGAACTTTTGGAAATTTTGACTAATGGAGCCATTAATTTCTGTGAATT
194 AAAATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAATT
22818216 AAGGAA
259 AAGGAA
* *
22818222 TGTCTCCTAGGATACAACAACGAGACGAGCACAGCAGTAGCACGGCTATAGTGATCAACGAACTG
1 TGTCTCCTAGGATACAACAACGAGACGAGCACAGTAGTAGCACAGCTATAGTGATCAACGAACTG
* *
22818287 TAGCCTAGCTTTCTTCTATCACCAAAAACAGGTTTGAAATATGTAGGGAAAATATCTCAAAATAT
66 TAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAAGATCTCAAAATAT
22818352 TTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAATAA
131 TTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAATAA
* *
22818417 AATATTCAAAATGGAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCAGTGAATTAA
196 AATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAATTAA
22818482 GGA
261 GGA
22818485 GCCATTAAAA
Statistics
Matches: 467, Mismatches: 49, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
260 3 0.01
261 98 0.21
262 36 0.08
263 128 0.27
264 198 0.42
265 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (264 bp):
TGTCTCCTAGGATACAACAACGAGACGAGCACAGTAGTAGCACAGCTATAGTGATCAACGAACTG
TAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAAGATCTCAAAATAT
TTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAATAA
AATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAATTAA
GGAA
Found at i:22821867 original size:27 final size:27
Alignment explanation
Indices: 22821819--22821920 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
22821809 GCGAGGCTGC
** * *
22821819 CAGATATTGTTACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
22821846 CAGATATTGTGGCAGAGCCACCAG-GA
1 CAGATATTGTGGCAGAGCCACCAGATA
22821872 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
22821899 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
22821921 TAGGACGCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.12
27 55 0.85
28 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:22825046 original size:58 final size:56
Alignment explanation
Indices: 22824984--22825162 Score: 232
Period size: 57 Copynumber: 3.1 Consensus size: 56
22824974 AGAAATGGTG
*
22824984 AAAATGGAGAAATGGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATA
1 AAAATGGAGAAAT--GAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATA
* * * *
22825042 AAAATAGATAAATGAAATCATTTGGAAATGATTATGATTTTCTCCAACATGAAAATG
1 AAAATGGAGAAATGAAA-CATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATA
* * *
22825099 AAAATGGAGAAATTGAATCATTTGGAAATGAATGTGATTTTCCTCCAAAATGAAAATGA
1 AAAATGGAGAAA-TGAAACATTTGGAAATGATTATGATTTT-CTCCAAAATGAAAAT-A
22825158 AAAAT
1 AAAAT
22825163 AAAAATTACC
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
56 4 0.04
57 67 0.64
58 29 0.28
59 5 0.05
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (56 bp):
AAAATGGAGAAATGAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATA
Found at i:22826833 original size:62 final size:62
Alignment explanation
Indices: 22826736--22826859 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
22826726 AAAAACTGGA
22826736 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
1 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
*
22826798 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTGTTAT
1 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
22826860 GTAGAAAAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.45
Consensus pattern (62 bp):
AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
Found at i:22826890 original size:62 final size:61
Alignment explanation
Indices: 22826752--22826890 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 61
22826742 ATGTCTCCAG
* * * * *
22826752 TTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTATAAGTCAATGTCTCCAG
1 TTATTGTAAATAGTTTATAATGTTGATAGTAACAATATTTTATTATAAGTAAAAGTCT-CAA
* * * *
22826814 TTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTGTTATGTAG-AAAAGTCT-AA
1 TTATTGTAAATAGTTTATAATGTTGATAGTAACAATATTTTATTAT-AAGTAAAAGTCTCAA
22826874 TTATTGATCAAATAGTT
1 TTATTG-T-AAATAGTT
22826891 GTGTTGTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 7 0.10
61 1 0.01
62 57 0.85
63 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (61 bp):
TTATTGTAAATAGTTTATAATGTTGATAGTAACAATATTTTATTATAAGTAAAAGTCTCAA
Found at i:22833430 original size:15 final size:16
Alignment explanation
Indices: 22833389--22833433 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
22833379 ATTATCTTAA
22833389 ATTATGAATATGTGTGT
1 ATTATG-ATATGTGTGT
* *
22833406 ATTGTGATATGTGTTT
1 ATTATGATATGTGTGT
22833422 A-TATGATATGTG
1 ATTATGATATGTG
22833434 ACCATTATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
ATTATGATATGTGTGT
Found at i:22833545 original size:39 final size:39
Alignment explanation
Indices: 22833466--22833608 Score: 139
Period size: 39 Copynumber: 3.6 Consensus size: 39
22833456 AAGATGTTTT
* * *
22833466 TGAGTATTGCAATATCCATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGCGATAT--ATGCTTAAACGTTATGTGATTATA
*
22833507 TGAGTATTGCGATATATACTTAAACGTTATG-GAGTTATA
1 TGAGTATTGCGATATATGCTTAAACGTTATGTGA-TTATA
* * * *
22833546 TGAGTATTGTGATATATGCTTAAATGTTGTGTAATTATA
1 TGAGTATTGCGATATATGCTTAAACGTTATGTGATTATA
*
22833585 TGTA-TAATGTC-ATATATGCTTAAA
1 TG-AGTATTG-CGATATATGCTTAAA
22833609 AGTGAATATG
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 69 0.79
40 2 0.02
41 14 0.16
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTAAACGTTATGTGATTATA
Found at i:22837685 original size:6 final size:6
Alignment explanation
Indices: 22837674--22837704 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22837664 ACAAATTCGA
*
22837674 AACAGT AACAGT AACAGT AACGGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
22837705 TTTGACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:22844255 original size:52 final size:51
Alignment explanation
Indices: 22844179--22844286 Score: 128
Period size: 53 Copynumber: 2.1 Consensus size: 51
22844169 ACCAACACAC
* * * * *
22844179 CAGTACGGCACATAGTGCCTCATCGG-CCGAAGCCGGAACAGTAAAAGTAA
1 CAGTACGGCACAGAGTACCTCATCGGAACAAAGCCGAAACAGTAAAAGTAA
* *
22844229 CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAA
1 CAGTACGG--CACAGAGTACCTCATCGGAACAAAGCCGAAACAGTAAAAGTAA
22844282 CAGTA
1 CAGTA
22844287 ATGGTAACAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 8 0.17
52 16 0.33
53 24 0.50
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (51 bp):
CAGTACGGCACAGAGTACCTCATCGGAACAAAGCCGAAACAGTAAAAGTAA
Found at i:22845047 original size:13 final size:13
Alignment explanation
Indices: 22845029--22845053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22845019 TACTAGACTC
22845029 ATAAATATTTTTA
1 ATAAATATTTTTA
22845042 ATAAATATTTTT
1 ATAAATATTTTT
22845054 GAACTTATTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAAATATTTTTA
Found at i:22846356 original size:27 final size:26
Alignment explanation
Indices: 22846318--22846368 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
22846308 ATGAATAACT
22846318 AAGTTCTCCAATTTTGAATAGAAAACC
1 AAGTTCTCCAATTTTGAATA-AAAACC
22846345 AAGTTCTCCAATTTTGAATAAAAA
1 AAGTTCTCCAATTTTGAATAAAAA
22846369 GACAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (26 bp):
AAGTTCTCCAATTTTGAATAAAAACC
Found at i:22854071 original size:17 final size:18
Alignment explanation
Indices: 22854043--22854088 Score: 78
Period size: 16 Copynumber: 2.7 Consensus size: 18
22854033 TTACTCGATT
22854043 CTTTTCTTTTCTTTCTTC
1 CTTTTCTTTTCTTTCTTC
22854061 CTTTT-TTTTC-TTCTTC
1 CTTTTCTTTTCTTTCTTC
22854077 CTTTTCTTTTCT
1 CTTTTCTTTTCT
22854089 GTAAATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.42
17 10 0.38
18 5 0.19
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTTTCTTTTCTTTCTTC
Found at i:22860637 original size:3 final size:3
Alignment explanation
Indices: 22860629--22860653 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22860619 ACTGCAAATG
22860629 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
22860654 GAGAAGCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:22863392 original size:48 final size:48
Alignment explanation
Indices: 22863339--22863430 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
22863329 AAAATAGAAA
22863339 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAAAAAT
1 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAAAAAT
22863387 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAA
1 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAA
22863431 CAATACCAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (48 bp):
GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAAAAAT
Found at i:22868877 original size:16 final size:16
Alignment explanation
Indices: 22868856--22868896 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
22868846 AAAATATGGA
22868856 AAAAGAAATTTTATTG
1 AAAAGAAATTTTATTG
22868872 AAAAGAAATTTTATTG
1 AAAAGAAATTTTATTG
22868888 AAAAGAAAT
1 AAAAGAAAT
22868897 ATGAAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (16 bp):
AAAAGAAATTTTATTG
Found at i:22871665 original size:16 final size:17
Alignment explanation
Indices: 22871644--22871681 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
22871634 TTAGAATAAA
22871644 TTTTTTTGACATA-ATT-
1 TTTTTTTGA-ATATATTG
22871660 TTTTTTTGAATATATTG
1 TTTTTTTGAATATATTG
22871677 TTTTT
1 TTTTT
22871682 CACTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 12 0.60
17 5 0.25
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTTTTGAATATATTG
Found at i:22876151 original size:25 final size:25
Alignment explanation
Indices: 22876121--22876170 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
22876111 ATTCATAAGA
22876121 CATATACCTAGGCATATTAGGAGTT
1 CATATACCTAGGCATATTAGGAGTT
*
22876146 CATATATCTAGGCATATTAGGAGTT
1 CATATACCTAGGCATATTAGGAGTT
22876171 TACTTTGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (25 bp):
CATATACCTAGGCATATTAGGAGTT
Found at i:22878725 original size:33 final size:33
Alignment explanation
Indices: 22878683--22878757 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
22878673 GAGTCGGGAG
* *
22878683 GAGTGGAGTAGGGC-TATGGATACGGACC-GAGAT
1 GAGTGGAGTACGGCGT-TGGATACGGACCTG-GAA
*
22878716 GAGTGGAGTACGGCGTTGGATACGGGCCTGGAA
1 GAGTGGAGTACGGCGTTGGATACGGACCTGGAA
22878749 GAGTGGAGT
1 GAGTGGAGT
22878758 CATTACAGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 35 0.95
34 2 0.05
ACGTcount: A:0.24, C:0.12, G:0.45, T:0.19
Consensus pattern (33 bp):
GAGTGGAGTACGGCGTTGGATACGGACCTGGAA
Found at i:22878940 original size:41 final size:41
Alignment explanation
Indices: 22878848--22879079 Score: 261
Period size: 41 Copynumber: 5.6 Consensus size: 41
22878838 GCTAATAGGT
* * * *
22878848 AAACGCTGCAAAAGGTTAAAGC-TATAGTGGCATTTATGATAA
1 AAACGCCGCAAAAGG-TCAAGCAT-TAGCGGCGTTTATGATAA
* * *
22878890 AAACACCGCAAAAGGTCAAGAATTAGCGGCGTTTACGATAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
* *
22878931 AAATGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGAAAAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATG-ATAA
** * * *
22878973 AAACGATGC-AAAGGTCAAGCATTAGCGGCATTTATTAGAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
* *
22879013 AAACGCGGCAAAAGATCAAGCATTAGCGGCGTTTATGATAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
* *
22879054 AAGCGCCGCAAAAGATCAAGCATTAG
1 AAACGCCGCAAAAGGTCAAGCATTAG
22879080 TGACCTCAAA
Statistics
Matches: 161, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
40 10 0.06
41 128 0.80
42 23 0.14
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.20
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
Found at i:22879463 original size:21 final size:21
Alignment explanation
Indices: 22879439--22879513 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 21
22879429 GAAGTAGGGG
* *
22879439 TTTAGGGTTTAAGGTTGAGGA
1 TTTAGGGTTTAAAGTTCAGGA
* * * * *
22879460 TTTATGATTTAAAATTTAGGG
1 TTTAGGGTTTAAAGTTCAGGA
** *
22879481 TTTAAAGTTTAAAGTTCAGGC
1 TTTAGGGTTTAAAGTTCAGGA
22879502 TTTAGGGTTTAA
1 TTTAGGGTTTAA
22879514 GGATAAAATT
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.43
Consensus pattern (21 bp):
TTTAGGGTTTAAAGTTCAGGA
Found at i:22880074 original size:117 final size:116
Alignment explanation
Indices: 22879756--22880390 Score: 518
Period size: 117 Copynumber: 5.4 Consensus size: 116
22879746 TATCAAAGGT
* * *
22879756 ATTAGCGGCG-TTTTCAACTAAAACGCCACAACAAAATTTCAATTGAATGGAAACGACGTCGTTT
1 ATTAGCGGCGCTTTTTAA--AAAACGCCACAA-AAAATTTTAATTGAATGGAAACGACGTTGTTT
* * * * *
22879820 TAAGTGCGGGTTTAGTGGAATTAGCGGCGCTAGATTATAAAC-ATCGAAATAGATTAGC
63 TAA-TGC---TTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCT-GCAATAGATAAGC
* * * * * * *
22879878 ATTAGCGGCACTTTTTGTAAAAA-GTCGCAAAAAAATTTAATTGAATGAAAACGACGCTGTTTTA
1 ATTAGCGGCGCTTTTT-AAAAAACGCCACAAAAAATTTTAATTGAATGGAAACGACGTTGTTTTA
* *
22879942 ATGCTTT-GTGGAATTAGCAGCGCTAGCTAATAAACGCTGCAATAGATAAGA
65 ATGCTTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
* * * **
22879993 ATTAGCGGCTCTATTTAAAAAATGCCACAAAAATATTTTTAATTGAATGGAAACGTTGTTGTTTT
1 ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAA-A-TTTTAATTGAATGGAAACGACGTTGTTTT
* * *
22880058 AATGCTTT-GTGGAATTAGCGGCGCTAGCTAATAAAAGCCGCAATAGATAAGA
64 AATGCTTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
* * * * **** *
22880110 ATTAGCGGCGCTTTTTGAAAAATGTTGCAGAATTTTTTTTAATTGAATGG-AA--ATGTTGTTTT
1 ATTAGCGGCGCTTTTTAAAAAACG--CCACAAAAAATTTTAATTGAATGGAAACGACGTTGTTTT
* * * * * *
22880172 AGTTGTGGGTTTAGTGGAATTAGTGGCGCTATG-TTATAAACACTGCAATAGA-ACATC
64 A---AT-GCTTTAGTGGAATTAGCGGCGCTA-GCTAATAAACGCTGCAATAGATA-AGC
* * * * * * *
22880229 ATTAGCGGCTCTTTTGAAAAAACGCCACAAAAAA-ATTAATTGAATGAAAATGGCATTGTTTTAA
1 ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAAATTTTAATTGAATGGAAACGACGTTGTTTTAA
* * * *
22880293 TGCTTTAAGTGGAGTTAGCGACGCTAGCAAATAAACGCTGCAATAGATTAGC
66 TGCTTT-AGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
* * * *
22880345 TTTAGCGGCGCTTTTTAAAAAACACCAGAAAAAAATTTAATTGAAT
1 ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAAATTTTAATTGAAT
22880391 TTAAATGTTG
Statistics
Matches: 411, Mismatches: 80, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
114 15 0.04
115 62 0.15
116 82 0.20
117 125 0.30
118 5 0.01
119 68 0.17
120 31 0.08
121 5 0.01
122 13 0.03
123 4 0.01
124 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (116 bp):
ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAAATTTTAATTGAATGGAAACGACGTTGTTTTAA
TGCTTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
Found at i:22880482 original size:237 final size:235
Alignment explanation
Indices: 22879971--22880483 Score: 572
Period size: 237 Copynumber: 2.2 Consensus size: 235
22879961 GCGCTAGCTA
** * *
22879971 ATAAACGCTGCAATAGATA-AGAATTAGCGGCTCTATTT-AAAAAATGCCACAAAAATATTTTTA
1 ATAAACGCTGCAATAGA-ACATCATTAGCGGCTCT-TTTGAAAAAACGCCACAAAAATA-TATTA
* *** * *
22880034 ATTGAATGGAAACGTTGTTGTTTTAATGCTTTGTGGAATTAGCGGCGCTAGCTAATAAAAGCCGC
63 ATTGAATGAAAACGGCATTGTTTTAATGCTTTGTGGAATTAGCGACGCTAGCAAATAAAAGCCGC
**** *****
22880099 AATAGATAAGAATTAGCGGCGCTTTTTGAAAAATGTTGCAGAATTTTTTTTAATTGAATGGAAAT
128 AATAGATAAGAATTAGCGGCGCTTTTTGAAAAATACACCAGAAAAAAATTTAATTGAATGGAAAT
* * *
22880164 GTTGTTTTAGTTGTGGGTTTAGTGGAATTAGTGGCGCTATGTT
193 GTTGTTTTAGGTGTGGGTTTAGTGCAATTAGTGGCACTATGTT
*
22880207 ATAAACACTGCAATAGAACATCATTAGCGGCTCTTTTGAAAAAACGCCACAAAAA-A-ATTAATT
1 ATAAACGCTGCAATAGAACATCATTAGCGGCTCTTTTGAAAAAACGCCACAAAAATATATTAATT
* * * *
22880270 GAATGAAAATGGCATTGTTTTAATGCTTTAAGTGGAGTTAGCGACGCTAGCAAATAAACGCTGCA
66 GAATGAAAACGGCATTGTTTTAATGCTTT--GTGGAATTAGCGACGCTAGCAAATAAAAGCCGCA
* ** **
22880335 ATAGATTAGCTTTAGCGGCGCTTTTT-AAAAA-ACACCAGAAAAAAATTTAATTGAATTTAAATG
129 ATAGATAAGAATTAGCGGCGCTTTTTGAAAAATACACCAGAAAAAAATTTAATTGAATGGAAATG
*
22880398 TTGTCGTTTCAAGGTGTGGGTTTAGTGCAATTAG-GGACACTTTGTT
194 TTGT--TTT--AGGTGTGGGTTTAGTGCAATTAGTGG-CACTATGTT
* *
22880444 ATAAACGCCGCAATAGAACATCATTAGCGGCACTTTTGAA
1 ATAAACGCTGCAATAGAACATCATTAGCGGCTCTTTTGAA
22880484 GAATCGCCTC
Statistics
Matches: 232, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
233 55 0.24
234 5 0.02
235 60 0.26
236 47 0.20
237 65 0.28
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (235 bp):
ATAAACGCTGCAATAGAACATCATTAGCGGCTCTTTTGAAAAAACGCCACAAAAATATATTAATT
GAATGAAAACGGCATTGTTTTAATGCTTTGTGGAATTAGCGACGCTAGCAAATAAAAGCCGCAAT
AGATAAGAATTAGCGGCGCTTTTTGAAAAATACACCAGAAAAAAATTTAATTGAATGGAAATGTT
GTTTTAGGTGTGGGTTTAGTGCAATTAGTGGCACTATGTT
Found at i:22882376 original size:47 final size:45
Alignment explanation
Indices: 22882269--22882533 Score: 207
Period size: 47 Copynumber: 5.7 Consensus size: 45
22882259 TACGCGTGCT
* * * *
22882269 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGCC
* * *
22882313 GATGCGTGTCCTAGACACGTCTTACACTGGCTATCTCTGTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCC
*
22882360 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATTTCTGT--GCC
1 GATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGGCC
* * *
22882406 GATGCTATGTCTCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA-GGCC
* * * ** * *
22882454 GATGCATATCCGAGACATGTCTTACACTAGCCCTCGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTAGGCC
*
22882500 GATGCCATGTCACAGACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT
22882534 CCCATAATAT
Statistics
Matches: 174, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 5 0.03
44 28 0.16
45 4 0.02
46 33 0.19
47 64 0.37
48 31 0.18
49 2 0.01
50 7 0.04
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCC
Found at i:22882438 original size:48 final size:45
Alignment explanation
Indices: 22882218--22882578 Score: 193
Period size: 47 Copynumber: 7.7 Consensus size: 45
22882208 GATATATTAT
* ** * *
22882218 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATATACGCGTGC
1 CGATG-CATGT-CCAGACAT-GTCTTACACTGGCACTCATGT-C-TGTGC
* * ** *
22882268 TGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGT
1 CGATGCATGT-CCAGACATGTCTTACACTGGCACTCATGTCTGT-GC
* * *
22882312 CGATGCGTGTCCTAGACACGTCTTACACTGGCTATCTC-TGTCAAG-GC
1 CGATGCATGTCC-AGACATGTCTTACACTGGC-A-CTCATGTC-TGTGC
*
22882359 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTTCTGTGC
1 CGATGCATGT-CCAGACATGTCTTACACTGGCACTCATGTCTGTGC
*
22882405 CGATGCTATGTCTCAGACATGGTCTTACACTGGCTA-TCATAGTATG-GC
1 CGATGC-ATGTC-CAGACAT-GTCTTACACTGGC-ACTCAT-GTCTGTGC
* * * *
22882453 TGATGCATATCCGAGACATGTCTTACACTAGCCCTC--GTCTGGATGC
1 CGATGCATGTCC-AGACATGTCTTACACTGGCACTCATGTCT-G-TGC
* * * *
22882499 CGATGCCATGTCACAGACATGGTCTTACACTGGCTCCCATAATATG-GC
1 CGATG-CATGTC-CAGACAT-GTCTTACACTGGCACTCAT-GTCTGTGC
* * *
22882547 TGAAGCATGTCGTAGACATGTCTTACACTGGC
1 CGATGCATGTC-CAGACATGTCTTACACTGGC
22882579 GCACAAATCA
Statistics
Matches: 246, Mismatches: 38, Indels: 58
0.72 0.11 0.17
Matches are distributed among these distances:
43 6 0.02
44 27 0.11
45 6 0.02
46 50 0.20
47 74 0.30
48 59 0.24
49 17 0.07
50 5 0.02
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCAGACATGTCTTACACTGGCACTCATGTCTGTGC
Found at i:22882500 original size:94 final size:91
Alignment explanation
Indices: 22882218--22882575 Score: 332
Period size: 94 Copynumber: 3.8 Consensus size: 91
22882208 GATATATTAT
* * *
22882218 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATA-TACGCGTGCTGATGCATGTCCCA
1 CGATGCCATGT-CCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTCCCA
** * *
22882282 GACATGTCTTACACTAGCACAACTCTTA-GT
62 GACATGTCTTACACTAGC-CCTCTCTGATGC
* * * * *
22882312 CGATG-CGTGTCCTAGACA-CGTCTTACACTGGCTATC-TCTGTCAAGGCCGATGCATGTCCCAG
1 CGATGCCATGTCC-AGACATGGTCTTACACTGGCTATCAT-AGT-ATGGCTGATGCATGTCCCAG
* *
22882374 ACATGTCTTACACTGGCACTCATTTCTG-TGC
63 ACATGTCTTACACTAGC-C-C-TCTCTGATGC
* * *
22882405 CGATGCTATGTCTCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCGAGAC
1 CGATGCCATGTC-CAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
22882470 ATGTCTTACACTAGCCCTCGTCTGGATGC
65 ATGTCTTACACTAGCCCTC-TCT-GATGC
** * * **
22882499 CGATGCCATGTCACAGACATGGTCTTACACTGGCTCCCATAATATGGCTGAAGCATGTCGTAGAC
1 CGATGCCATGTC-CAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
22882564 ATGTCTTACACT
65 ATGTCTTACACT
22882576 GGCGCACAAA
Statistics
Matches: 218, Mismatches: 32, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
91 36 0.17
92 23 0.11
93 20 0.09
94 118 0.54
95 20 0.09
96 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (91 bp):
CGATGCCATGTCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCCCTCTCTGATGC
Found at i:22887245 original size:23 final size:24
Alignment explanation
Indices: 22887218--22887264 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
22887208 TTCCCCCTCT
*
22887218 TCTTCCATA-ATACTCTTT-CTTTC
1 TCTT-CATATATAATCTTTACTTTC
22887241 TCTTCATATATAATCTTTACTTTC
1 TCTTCATATATAATCTTTACTTTC
22887265 AAACACCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (24 bp):
TCTTCATATATAATCTTTACTTTC
Found at i:22888921 original size:9 final size:9
Alignment explanation
Indices: 22888863--22889075 Score: 188
Period size: 9 Copynumber: 23.9 Consensus size: 9
22888853 TTCTTTAAAA
22888863 TTACATAAC
1 TTACATAAC
22888872 TTACA-AACC
1 TTACATAA-C
22888881 TTACATAA-
1 TTACATAAC
* *
22888889 ATACATATC
1 TTACATAAC
* *
22888898 GTATTATAAC
1 TTA-CATAAC
*
22888908 TTACATACC
1 TTACATAAC
22888917 TTACATAAC
1 TTACATAAC
*
22888926 ATACATAAC
1 TTACATAAC
22888935 TTACATAAC
1 TTACATAAC
22888944 TTACATAA-
1 TTACATAAC
22888952 -TACATAA-
1 TTACATAAC
* * *
22888959 ATATATATC
1 TTACATAAC
22888968 ATGT-CATAAC
1 -T-TACATAAC
22888978 TTACATAAC
1 TTACATAAC
*
22888987 TTACATAAT
1 TTACATAAC
22888996 TTACATAAC
1 TTACATAAC
*
22889005 TTACATAAT
1 TTACATAAC
*
22889014 TTACATAAT
1 TTACATAAC
22889023 TTACATAAC
1 TTACATAAC
*
22889032 TTACATAAT
1 TTACATAAC
*
22889041 TTTCATAAC
1 TTACATAAC
*
22889050 TTACATTA-
1 TTACATAAC
22889058 TTAACATAAC
1 TT-ACATAAC
*
22889068 TGACATAA
1 TTACATAA
22889076 ATAAATATCA
Statistics
Matches: 166, Mismatches: 27, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
7 7 0.04
8 16 0.10
9 129 0.78
10 13 0.08
11 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
TTACATAAC
Found at i:22888967 original size:70 final size:70
Alignment explanation
Indices: 22888863--22889022 Score: 214
Period size: 70 Copynumber: 2.3 Consensus size: 70
22888853 TTCTTTAAAA
* * *
22888863 TTACATAACTTACA-AACCTTACATAAATACATATCGTATTATAACTTACATACCTTACATAACA
1 TTACATAACTTACATAA---TACATAAATACATATCATATCATAACTTACATAACTTACATAACA
22888927 TACATAAC
63 TACATAAC
* * **
22888935 TTACATAACTTACATAATACATAAATATATATCATGTCATAACTTACATAACTTACATAATTTAC
1 TTACATAACTTACATAATACATAAATACATATCATATCATAACTTACATAACTTACATAACATAC
22889000 ATAAC
66 ATAAC
*
22889005 TTACATAATTTACATAAT
1 TTACATAACTTACATAAT
22889023 TTACATAACT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 63 0.80
72 14 0.18
73 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (70 bp):
TTACATAACTTACATAATACATAAATACATATCATATCATAACTTACATAACTTACATAACATAC
ATAAC
Found at i:22894713 original size:26 final size:26
Alignment explanation
Indices: 22894684--22894734 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
22894674 GATCGGTGAA
22894684 CTCCTCCTGAGCTGATAAACGGTAAT
1 CTCCTCCTGAGCTGATAAACGGTAAT
**
22894710 CTCCTCCTGAGCTGATGGACGGTAA
1 CTCCTCCTGAGCTGATAAACGGTAA
22894735 GCTTTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (26 bp):
CTCCTCCTGAGCTGATAAACGGTAAT
Found at i:22894770 original size:23 final size:23
Alignment explanation
Indices: 22894744--22894803 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
22894734 AGCTTTATTA
* *
22894744 AGCTGGAACGGTAAACTCTGACG
1 AGCTGAAACGGTAAAATCTGACG
*
22894767 AGCTGAAATGGTAAAATCTGACG
1 AGCTGAAACGGTAAAATCTGACG
* *
22894790 AGCTAAAACAGTAA
1 AGCTGAAACGGTAA
22894804 GCTCATATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (23 bp):
AGCTGAAACGGTAAAATCTGACG
Found at i:22895970 original size:31 final size:31
Alignment explanation
Indices: 22895935--22895997 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
22895925 ACAGTAAAAT
22895935 TTCTTTACGAAACTTTCACATAATAATTCTA
1 TTCTTTACGAAACTTTCACATAATAATTCTA
22895966 TTCTTTACGAAACTTTCACATAATAATTCTA
1 TTCTTTACGAAACTTTCACATAATAATTCTA
22895997 T
1 T
22895998 CATGCTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.43
Consensus pattern (31 bp):
TTCTTTACGAAACTTTCACATAATAATTCTA
Found at i:22897475 original size:21 final size:21
Alignment explanation
Indices: 22897449--22897494 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
22897439 AACTTAAAGT
*
22897449 AGAGGCAGTAGCGAGGGAAGC
1 AGAGGCAGCAGCGAGGGAAGC
22897470 AGAGGCAGCAGCGAGGGAAGC
1 AGAGGCAGCAGCGAGGGAAGC
22897491 AGAG
1 AGAG
22897495 CAAAGCAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.48, T:0.02
Consensus pattern (21 bp):
AGAGGCAGCAGCGAGGGAAGC
Found at i:22897847 original size:43 final size:43
Alignment explanation
Indices: 22897786--22898001 Score: 227
Period size: 43 Copynumber: 5.0 Consensus size: 43
22897776 TCTGCCAAAG
* *
22897786 TTAGCGGCGTTTGTGATAAAACCGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
* *
22897829 TTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
** * *
22897872 TTAGCGGCATTTGCAATAAAAAGCGCCGCTAAAGATAATGTTCT
1 TTAGCGGCATTTGTGAT-AAAAGCGCCGCTAAAGGTCATGTTCT
* * ** * * *
22897916 CTT-GCAGCATTTGCGACGAAATCGCCGTTAAAAGTCATGTTCT
1 -TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
* * * * *
22897959 TTAGCAGCATTTTTTATAAAAGCGCCACTAAATGTCATGTTCT
1 TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
22898002 ATAGAGGCGT
Statistics
Matches: 144, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
42 2 0.01
43 106 0.74
44 34 0.24
45 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
Found at i:22899943 original size:26 final size:26
Alignment explanation
Indices: 22899886--22899943 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
22899876 ATCTCGATAT
22899886 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCCCGATTA
* * **
22899912 AAGGCTCTTTGTGAGCTTCTTGATTA
1 ATGGCTCTTCGTGAGCTTCCCGATTA
22899938 ATGGCT
1 ATGGCT
22899944 TTCCGAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCCCGATTA
Found at i:22900126 original size:25 final size:25
Alignment explanation
Indices: 22900068--22900127 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
22900058 TATGGCTCTT
* * **
22900068 ATGAGCTTCCCGTTATATAGCTCGG
1 ATGAGCTTCCCGTTATACAACTCAC
* *
22900093 ATAAACTTCCCGTTATACAACTCAC
1 ATGAGCTTCCCGTTATACAACTCAC
22900118 ATGAGCTTCC
1 ATGAGCTTCC
22900128 TATTATATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAACTCAC
Found at i:22902862 original size:102 final size:100
Alignment explanation
Indices: 22902698--22903130 Score: 428
Period size: 106 Copynumber: 4.3 Consensus size: 100
22902688 TTACATTATA
*
22902698 TAAAAATTACATTA--AAAAAATCACAAAACACTAAAC-AAACACTAACAATTTATATAAGCTAA
1 TAAAAATTACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAA
*
22902760 TCATAAATTACTGACAAAATAAATATAAATTATTTTTT
64 TCATAAATTACTAACAAAATAAATATAAA-TATTTTTT
*
22902798 TAAAAA-TACATTACCAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATATAACCTAA
1 TAAAAATTACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAA
* *
22902862 TCATAAATTACAAACAAAATAACTATAAA-ATTATTTT
64 TCATAAATTACTAACAAAATAAATATAAATATT-TTTT
* * *
22902899 TAAAAAAAATTACATTACTGAAAAATTCACAAAACCCTAAACTAAACACTAACAATTTATAACCT
1 T---AAAAATTACATTAC-CAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCT
* *
22902964 AATCACATAAATTACTAAAAAAATAAATAACTATAACATTTTTT
62 AAT--CATAAATTACTAACAAAATAAAT-A-TA-AATATTTTTT
* * ** * * *
22903008 TAAAAA-GAAATTA-C-ATTACT-A-AAAA-A-T-AACAAAACACTAACAATTTATAATCTAATC
1 TAAAAATTACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
* *
22903065 ATAAACTACTAACAAAATAACTAT-AAT-TTTTTT
66 ATAAATTACTAACAAAATAAATATAAATATTTTTT
* * *
22903098 TAAAAATTACATTACTAAAAACTTACAAAACAC
1 TAAAAATTACATTACCAAAAAATCACAAAACAC
22903131 AACAATTTAA
Statistics
Matches: 281, Mismatches: 30, Indels: 47
0.78 0.08 0.13
Matches are distributed among these distances:
90 12 0.04
91 7 0.02
93 5 0.02
94 2 0.01
95 24 0.09
96 1 0.00
97 27 0.10
98 1 0.00
99 7 0.02
100 13 0.05
101 28 0.10
102 53 0.19
104 16 0.06
105 15 0.05
106 57 0.20
107 1 0.00
108 2 0.01
109 7 0.02
110 3 0.01
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (100 bp):
TAAAAATTACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
ATAAATTACTAACAAAATAAATATAAATATTTTTT
Found at i:22902973 original size:106 final size:104
Alignment explanation
Indices: 22902699--22903047 Score: 435
Period size: 102 Copynumber: 3.3 Consensus size: 104
22902689 TACATTATAT
*
22902699 AAAAATTACATTA-AAAAAATCACAAAACACTAAAC-AAACACTAACAATTTATATAAGCTAATC
1 AAAAATTACATTACAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATC
** * **
22902762 ATAAATTACTGACAAAATAAATAT-AAATTATTTTT-TT
66 ATAAATTACAAACAAAATAACTATAAAATTATTTTTAAA
*
22902799 AAAAA-TACATTACCAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATATAACCTAAT
1 AAAAATTACATTA-CAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT
22902863 CATAAATTACAAACAAAATAACTATAAAATTATTTTTAAA
65 CATAAATTACAAACAAAATAACTATAAAATTATTTTTAAA
* *
22902903 AAAAATTACATTACTGAAAAATTCACAAAACCCTAAACTAAACACTAACAA-TT-TATAACCTAA
1 AAAAATTACATTAC--AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
* *
22902966 TCACATAAATTACTAAAAAAATAAATAACTATAACATT-TTTTTAAA
64 T--CATAAATTAC---AAACA-AAATAACTATAAAATTATTTTTAAA
*
22903012 AAGAAATTACATTACTAAAAAATAACAAAACACTAA
1 AA-AAATTACATTAC-AAAAAATCACAAAACACTAA
22903048 CAATTTATAA
Statistics
Matches: 218, Mismatches: 16, Indels: 21
0.85 0.06 0.08
Matches are distributed among these distances:
99 7 0.03
100 5 0.02
101 22 0.10
102 47 0.22
103 11 0.05
104 17 0.08
105 9 0.04
106 42 0.19
109 31 0.14
110 27 0.12
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (104 bp):
AAAAATTACATTACAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATC
ATAAATTACAAACAAAATAACTATAAAATTATTTTTAAA
Found at i:22903111 original size:86 final size:93
Alignment explanation
Indices: 22902942--22903139 Score: 250
Period size: 86 Copynumber: 2.2 Consensus size: 93
22902932 ACCCTAAACT
*
22902942 AAACACTAACAATTTATAACCTAATCACATAAATTACTAAAAAAATAAATAACTATAACATTTTT
1 AAACACTAACAATTTATAACCTAAT-ACATAAACTACT--AAAAATAAATAACTATAACATTTTT
22903007 TTAAAAAGAAATTACATTACTAAAAAATAACA
63 TT-AAAAGAAATTACATTACTAAAAAATAACA
* *
22903039 AAACACTAACAATTTATAATCTAAT-CATAAACTACT-AACA-AAATAACTAT-A-ATTTTTTT-
1 AAACACTAACAATTTATAACCTAATACATAAACTACTAAAAATAAATAACTATAACATTTTTTTA
* * *
22903098 TAA-AAATTACATTACTAAAAACTTACA
66 AAAGAAATTACATTACTAAAAAATAACA
22903125 AAACAC-AACAATTTA
1 AAACACTAACAATTTA
22903140 AAATAAATTG
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
85 9 0.09
86 28 0.29
87 2 0.02
89 8 0.08
90 1 0.01
91 10 0.11
92 3 0.03
95 10 0.11
97 24 0.25
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.30
Consensus pattern (93 bp):
AAACACTAACAATTTATAACCTAATACATAAACTACTAAAAATAAATAACTATAACATTTTTTTA
AAAGAAATTACATTACTAAAAAATAACA
Found at i:22903198 original size:72 final size:72
Alignment explanation
Indices: 22903104--22903272 Score: 275
Period size: 72 Copynumber: 2.3 Consensus size: 72
22903094 TTTTTAAAAA
* *
22903104 TTACATTACTAAAAACTTACAAAACACAACAATTTAAAATAAATTGCTAACAAAATATTTAACAA
1 TTACATTACTAAAAACTCACAAAACACAACAATTTAAAATAAATTACTAACAAAATATTTAACAA
22903169 AATAATT
66 AATAATT
*
22903176 TTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACAA
1 TTACATTACTAAAAACTCACAAAACACAACAATTTAAAATAAATTACTAACAAAATATTTAACAA
22903241 AATAATT
66 AATAATT
* * *
22903248 TTATATTATTAAAAAATCACCAAAA
1 TTACATTACTAAAAACTCA-CAAAA
22903273 TACTAAACTA
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 85 0.94
73 5 0.06
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.30
Consensus pattern (72 bp):
TTACATTACTAAAAACTCACAAAACACAACAATTTAAAATAAATTACTAACAAAATATTTAACAA
AATAATT
Found at i:22903248 original size:38 final size:38
Alignment explanation
Indices: 22903134--22903248 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
22903124 AAAACACAAC
* *
22903134 AATTTAAAATAAATTGCTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
* * *** * *
22903172 AA-TT-T--TACATTACTAA-AAACTCACAAAACACAAC
1 AATTTATAATAAATTACTAACAAAAT-ATTTAACAAAAT
22903206 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
22903244 AATTT
1 AATTT
22903249 TATATTATTA
Statistics
Matches: 55, Mismatches: 16, Indels: 12
0.66 0.19 0.14
Matches are distributed among these distances:
33 4 0.07
34 18 0.33
35 2 0.04
36 1 0.02
37 2 0.04
38 24 0.44
39 4 0.07
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (38 bp):
AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
Found at i:22906554 original size:53 final size:53
Alignment explanation
Indices: 22906473--22906623 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
22906463 CTTACACGGT
* *
22906473 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
22906528 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
22906581 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
22906624 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:22908724 original size:20 final size:20
Alignment explanation
Indices: 22908696--22908738 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
22908686 TTTAAAATAA
* *
22908696 TTTTTAAGATTATATTTGTG
1 TTTTGAAGATTAGATTTGTG
22908716 TTTTGAAGATTAGATTTGTG
1 TTTTGAAGATTAGATTTGTG
22908736 TTT
1 TTT
22908739 AAGTTGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (20 bp):
TTTTGAAGATTAGATTTGTG
Found at i:22916968 original size:144 final size:144
Alignment explanation
Indices: 22916693--22917125 Score: 724
Period size: 144 Copynumber: 3.0 Consensus size: 144
22916683 CTATTCTGTA
* * *
22916693 TTCTTTGCATGTCTGTGGAATTTGTTGGAATATAATTTGTCTATTAACCAGTGATTGAATATAAA
1 TTCTTTGCATGTC--TGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATAAA
* *
22916758 AACAATACAATTTCTATTAGACATTAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAA
64 AACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAA
22916823 GAAACGGGAAATTGTT
129 GAAACGGGAAATTGTT
22916839 TTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATAAAAA
1 TTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATAAAAA
* * *
22916904 CAATGCAATATCTTTTATG-CATGAAATTTTGAACATAACCACGAGTATTAAGCTGACCAACAAG
66 CAATGCAATTTCTATTA-GACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
22916968 AAACGGGAAATTGTT
130 AAACGGGAAATTGTT
*
22916983 TTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAA
1 TTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATAAAAA
* *
22917048 CAATGCAATTTCTATTAGACATGGAATTTTGTACATAACCATGAGTATTAAGCTGACCAACAAGA
66 CAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGA
*
22917113 AACGGTAAATTGT
131 AACGGGAAATTGT
22917126 GTTTTTGAGC
Statistics
Matches: 270, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
143 1 0.00
144 255 0.94
145 1 0.00
146 13 0.05
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (144 bp):
TTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATAAAAA
CAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGA
AACGGGAAATTGTT
Found at i:22919379 original size:20 final size:19
Alignment explanation
Indices: 22919354--22919400 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
22919344 TGAGCAATTG
22919354 AATCAATTGGATTAAAATCA
1 AATCAATT-GATTAAAATCA
*
22919374 AATCAAATTGATTAGAATCA
1 AATC-AATTGATTAAAATCA
22919394 AAT-AATT
1 AATCAATT
22919401 CACGATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (19 bp):
AATCAATTGATTAAAATCA
Found at i:22919741 original size:63 final size:63
Alignment explanation
Indices: 22919670--22919797 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
22919660 TCAATGTGGG
* *
22919670 ATCTAAGCTTTTCTTTTCCTTAACAAATATTTCCAAGTAACTTACTTTGAGAATCAATTTCTC
1 ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAAGTTCTC
22919733 ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAAGTTCTC
1 ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAAGTTCTC
22919796 AT
1 AT
22919798 TCATCACTCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (63 bp):
ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAAGTTCTC
Found at i:22922971 original size:88 final size:88
Alignment explanation
Indices: 22922818--22922987 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 88
22922808 AAATTATATC
* * *
22922818 AAAATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAACAAAATTATTTGATTACGTCTTTA-T
1 AAAATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAACAAAATTATTTAATTACATCTCTATT
22922882 TTGGAAACAAAATAAAACAAAAT
66 TTGGAAACAAAATAAAACAAAAT
* * **
22922905 AAAATAAAATCTTGTTAAACGGCG-GAAATAAATCCTAGAACATATTTTATTTAATTTA-AT-TC
1 AAAATAAAATC-TGTTAAACGGCGAG-AATAAATCCCAAAACA-AAATTATTTAA-TTACATCTC
22922967 TATTTTGGAAACAAAATAAAA
62 TATTTTGGAAACAAAATAAAA
22922988 TGAGATAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
87 12 0.17
88 29 0.41
89 27 0.38
90 3 0.04
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (88 bp):
AAAATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAACAAAATTATTTAATTACATCTCTATT
TTGGAAACAAAATAAAACAAAAT
Found at i:22922996 original size:89 final size:86
Alignment explanation
Indices: 22922818--22923076 Score: 233
Period size: 89 Copynumber: 3.0 Consensus size: 86
22922808 AAATTATATC
* ** * **
22922818 AAAATAAAATC-TGTTAAACGGC-GAGAATAAATCCCAAAACAAAATTATTTGA-TTACGTCTTT
1 AAAATAAAATCTTGTTAAACGGCGGA-AATAAATCCTAAAACAATTTTATTTAATTTAATTCTTT
22922880 ATTTGGAAACAAAATAAAACAAAA
65 -TTTGGAAACAAAATAAAAC-AAA
* *
22922904 TAAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAGAACATATTTTATTTAATTTAATTCTA
1 -AAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAAAACA-ATTTTATTTAATTTAATTCTT
*
22922969 TTTTGGAAACAAAAT--AA-AAT
64 TTTTGGAAACAAAATAAAACAAA
* * * * * * *
22922989 GAGATAAAATCTTATTAAATGGTGGGAATAAATCCTAAAATAAATTTTTATTTAATTTAAATTTC
1 AAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAAAA-CAA-TTTTATTTAATTT-AA--T-
22923054 TCTTTTTTGGAAACAAAATAAAA
60 TCTTTTTTGGAAACAAAATAAAA
22923077 ATTTGGAATA
Statistics
Matches: 142, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
84 34 0.24
85 16 0.11
86 2 0.01
87 13 0.09
88 26 0.18
89 42 0.30
90 7 0.05
91 2 0.01
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (86 bp):
AAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAAAACAATTTTATTTAATTTAATTCTTTT
TTGGAAACAAAATAAAACAAA
Found at i:22923020 original size:84 final size:88
Alignment explanation
Indices: 22922908--22923076 Score: 229
Period size: 84 Copynumber: 2.0 Consensus size: 88
22922898 ACAAAATAAA
* * *
22922908 ATAAAATCTTGTTAAACGGCGGAAATAAATCCTAGAACATA-TTTTATTTAATTT-AA-T-TCTA
1 ATAAAATCTTATTAAACGGCGGAAATAAATCCTAAAACAAATTTTTATTTAATTTAAATTCTCTA
22922969 TTTTGGAAACAAAATAAAATGAG
66 TTTTGGAAACAAAATAAAATGAG
* * * *
22922992 ATAAAATCTTATTAAATGGTGGGAATAAATCCTAAAATAAATTTTTATTTAATTTAAATTTCTCT
1 ATAAAATCTTATTAAACGGCGGAAATAAATCCTAAAACAAATTTTTATTTAATTTAAA-TTCTCT
*
22923057 TTTTTGGAAACAAAATAAAA
65 ATTTTGGAAACAAAATAAAA
22923077 ATTTGGAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 34 0.47
85 13 0.18
86 2 0.03
88 1 0.01
89 22 0.31
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (88 bp):
ATAAAATCTTATTAAACGGCGGAAATAAATCCTAAAACAAATTTTTATTTAATTTAAATTCTCTA
TTTTGGAAACAAAATAAAATGAG
Found at i:22925520 original size:4 final size:4
Alignment explanation
Indices: 22925511--22925539 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
22925501 AAAGTATACA
22925511 TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
22925540 TTTAAGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:22928231 original size:122 final size:120
Alignment explanation
Indices: 22928016--22928236 Score: 390
Period size: 122 Copynumber: 1.8 Consensus size: 120
22928006 AATAACTATG
22928016 AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTCGATTTAACACAGAATGTATG
1 AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTCGATTTAACACAGAATGTATG
22928081 ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATA
66 ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATA
*
22928136 AGAATGAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAATGACTCGATTTAACAC-GAAATGT
1 AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAAT--CTCGATTTAACACAG-AATGT
*
22928200 ATGATAAGTAACCTAAGAATGCAAATTAAATGATAGA
63 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
22928237 ATAATGAGAA
Statistics
Matches: 96, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
120 41 0.43
121 1 0.01
122 54 0.56
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (120 bp):
AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTCGATTTAACACAGAATGTATG
ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATA
Found at i:22933737 original size:27 final size:28
Alignment explanation
Indices: 22933695--22933780 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 28
22933685 GTGACGAAGT
22933695 CACCAGATACA-A-ATATTGTGGCAGA-C
1 CACCAGA-ACAGATATATTGTGGCAGAGC
22933721 CACCAGAACAGATATA-TGTGGCAGAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* * * *
22933748 CTCTAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
22933775 CACCAG
1 CACCAG
22933781 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 3 0.06
26 18 0.36
27 29 0.58
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATATATTGTGGCAGAGC
Found at i:22933929 original size:26 final size:27
Alignment explanation
Indices: 22933884--22933959 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
22933874 CAAAATTAAC
** *
22933884 CCTAGGGGTATAACGGTAATTTT-GTA
1 CCTAGGGGTATAATAGTAATTTTCATA
*
22933910 CCTAGGGGTATAATAATAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTT-CATA
* *
22933938 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
22933960 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCATA
Found at i:22935432 original size:26 final size:26
Alignment explanation
Indices: 22935401--22935508 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
22935391 TGAAATGCCC
*
22935401 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
22935427 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
22935453 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
22935479 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
22935505 ATCA
1 ATCA
22935509 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 3 0.04
26 72 0.96
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:22935458 original size:52 final size:52
Alignment explanation
Indices: 22935401--22935508 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
22935391 TGAAATGCCC
22935401 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
22935453 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
22935505 ATCA
1 ATCA
22935509 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:22940164 original size:33 final size:33
Alignment explanation
Indices: 22940120--22940185 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
22940110 ATCTCGCACC
* *
22940120 TCATTATTGTATGTACCTGAGTAGAACCAAGTA
1 TCATTACTGTATGTACCTGAGTAAAACCAAGTA
22940153 TCATTACTGTATGTACCTGAGTAAAACCAAGTA
1 TCATTACTGTATGTACCTGAGTAAAACCAAGTA
22940186 AACCATCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (33 bp):
TCATTACTGTATGTACCTGAGTAAAACCAAGTA
Found at i:22944500 original size:46 final size:47
Alignment explanation
Indices: 22944433--22944558 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 47
22944423 TGTGTGCTAG
* *
22944433 TGTAAGACATGTTTGAGACATGCATCAGCCAT-AG-CA-TGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCC-TCAGACATTGA-AGCCAA
* * * *
22944479 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTC-AGACATTGAAGCCAA
* *
22944527 TGTAAGACATGTCTAGGACATGCATCGGCCTC
1 TGTAAGACATGTCTGGGACATGCATCAGCCTC
22944559 GCGATATACA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 27 0.39
47 2 0.03
48 37 0.54
49 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCAGACATTGAAGCCAA
Found at i:22944536 original size:48 final size:48
Alignment explanation
Indices: 22944473--22944565 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
22944463 ATAGCATGAG
*
22944473 AGCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTA
1 AGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTA
* *
22944521 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGCGATAT
1 AGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATAT
22944566 ACAAGCTAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (48 bp):
AGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTA
Found at i:22956105 original size:99 final size:94
Alignment explanation
Indices: 22955943--22956122 Score: 254
Period size: 99 Copynumber: 1.9 Consensus size: 94
22955933 TGAGACGAGT
* * *
22955943 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCACTGTAAGACCATGTCTA
1 GCTACTGTAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGCCACTGTAAGACCATGTCTA
*
22956008 GGACATGGCATTGGCATGGTTATGGGAAA
66 GGACATGGCATCGGCATGGTTATGGGAAA
*
22956037 GCTACTGTAAGACCATGTCTGGGACATGGCATCTGCCT-CGAAGATGATAGCCAGTGTAAGACCA
1 GCTACTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTACG-AGATG-T-GCCACTGTAAGACCA
22956101 TGTCTAGGACATGGCATCGGCA
60 TGTCTAGGACATGGCATCGGCA
22956123 CTTTACCCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
94 11 0.15
95 14 0.19
96 7 0.09
97 8 0.11
98 1 0.01
99 34 0.45
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
GCTACTGTAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGCCACTGTAAGACCATGTCTA
GGACATGGCATCGGCATGGTTATGGGAAA
Found at i:22957700 original size:46 final size:45
Alignment explanation
Indices: 22957536--22957703 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
22957526 TGATATGTGT
**
22957536 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCGA-T-AGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-ATTGAG-A-GAGA
* * * *
22957582 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGA--G-A
* **
22957630 GCTACTGTAAGACATGTCCAGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-GAGA
*
22957676 GCTAGTGTAAGACATGTTTGGGACATGC
1 GCTAGTGTAAGACATGTCTGGGACATGC
22957704 TTCAGCCTTG
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 57 0.58
47 4 0.04
48 36 0.36
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGAGA
Found at i:22957835 original size:49 final size:49
Alignment explanation
Indices: 22957539--22957895 Score: 149
Period size: 48 Copynumber: 7.5 Consensus size: 49
22957529 TATGTGTGCT
* * *
22957539 AGTGTAAGACATGTCTGGGACAT-GCAT-TA--GCGATAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAG-ATGAAAGCC
* * * *
22957585 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATTG-AAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGA-TGAAAGCC
* ** * * * * * *
22957633 ACTGTAAGACATGTCCAGGACAT-GCATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * *
22957679 AGTGTAAGACATGTTTGGGACAT-GCTTC-AGCCTTGCA-ATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGA-CCTCG-ATAGATGA-AAGCC
* * * * * * * * *
22957727 AGTGTAGGACCTGTCTGGGAGATGGCGTC-AGCTTG-T-GGTG--TGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * *
22957771 AATGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * *
22957820 AGTGTAAGACATGTCTAGAATATGGCATCGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
22957869 TGTGTAAGACTATGTCTGGGACATGGC
1 AGTGTAAGAC-ATGTCTGGGACATGGC
22957896 GTCAACATTT
Statistics
Matches: 231, Mismatches: 60, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
44 25 0.11
45 3 0.01
46 63 0.27
47 4 0.02
48 64 0.28
49 59 0.26
50 13 0.06
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:22959441 original size:24 final size:23
Alignment explanation
Indices: 22959395--22959444 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
22959385 ACACATTAGC
*
22959395 AAACAAAATATATAAATATAAAT
1 AAACAAAATATATAAATAAAAAT
* *
22959418 AAACAAAGATTTATATATAAAAAT
1 AAACAAA-ATATATAAATAAAAAT
22959442 AAA
1 AAA
22959445 ATATAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (23 bp):
AAACAAAATATATAAATAAAAAT
Found at i:22959932 original size:39 final size:39
Alignment explanation
Indices: 22959853--22959935 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
22959843 ATCGTGTAGG
* *
22959853 TGCACCCCAACCCCAAGAAGTTAGAACTTTCACCCCCTA
1 TGCACCCCAACCCCAAGAAGTTAAAACTGTCACCCCCTA
* *
22959892 TGCATCCCAACCCCAAGAAGTTAAAACCTGT-ACCCTCTA
1 TGCACCCCAACCCCAAGAAGTTAAAA-CTGTCACCCCCTA
22959931 TGCAC
1 TGCAC
22959936 AAGATGATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.19
Consensus pattern (39 bp):
TGCACCCCAACCCCAAGAAGTTAAAACTGTCACCCCCTA
Found at i:22962283 original size:5 final size:5
Alignment explanation
Indices: 22962238--22962305 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
22962228 ATATTTTTAT
* * *
22962238 ATATA ATAAA ATATA A-ATA ATAT- ATACA CCATATA AAATA ATATA ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA
*
22962287 TATATA ATATA ATAAA ATA
1 -ATATA ATATA ATATA ATA
22962306 AATGCATTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
4 8 0.16
5 37 0.74
6 1 0.02
7 4 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (5 bp):
ATATA
Found at i:22962287 original size:8 final size:8
Alignment explanation
Indices: 22962274--22962306 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
22962264 CACCATATAA
22962274 AATAATAT
1 AATAATAT
22962282 AATAATAT
1 AATAATAT
22962290 -ATAATAT
1 AATAATAT
*
22962297 AATAAAAT
1 AATAATAT
22962305 AA
1 AA
22962307 ATGCATTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:22962432 original size:15 final size:15
Alignment explanation
Indices: 22962414--22962446 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22962404 TACAGTAAAT
22962414 AAAT-AATAATATTTA
1 AAATAAATAA-ATTTA
22962429 AAATAAATAAATTTA
1 AAATAAATAAATTTA
22962444 AAA
1 AAA
22962447 GTGTAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAATAAATTTA
Found at i:22971328 original size:3 final size:3
Alignment explanation
Indices: 22971320--22971358 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
22971310 TCAAGCCTAT
22971320 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
22971359 CTCTGAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:22972840 original size:23 final size:23
Alignment explanation
Indices: 22972810--22972856 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22972800 TAGTGGAGGA
22972810 GATAGATTGATATGCTAGAGCTT
1 GATAGATTGATATGCTAGAGCTT
22972833 GATAGATTGATATGCTAGAGCTT
1 GATAGATTGATATGCTAGAGCTT
22972856 G
1 G
22972857 GACACTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.34
Consensus pattern (23 bp):
GATAGATTGATATGCTAGAGCTT
Found at i:22976779 original size:22 final size:22
Alignment explanation
Indices: 22976751--22976795 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22976741 GTTCACAAGG
22976751 CTGTAACCACAAATAAAAGCAA
1 CTGTAACCACAAATAAAAGCAA
22976773 CTGTAACCACAAATAAAAGCAA
1 CTGTAACCACAAATAAAAGCAA
22976795 C
1 C
22976796 AATCACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.24, G:0.09, T:0.13
Consensus pattern (22 bp):
CTGTAACCACAAATAAAAGCAA
Found at i:22979320 original size:33 final size:33
Alignment explanation
Indices: 22979283--22979363 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
22979273 GTTCGTATAC
22979283 GGCATAGCTCGCATAAAAGCTGAGTTCCCATAT
1 GGCATAGCTCGCATAAAAGCTGAGTTCCCATAT
* * * * ***
22979316 GGCATAGCTCTCATACAATCTTAGTTTGTATAT
1 GGCATAGCTCGCATAAAAGCTGAGTTCCCATAT
22979349 GGCATAGCTCGCATA
1 GGCATAGCTCGCATA
22979364 TCAAGGCTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (33 bp):
GGCATAGCTCGCATAAAAGCTGAGTTCCCATAT
Found at i:22979420 original size:18 final size:18
Alignment explanation
Indices: 22979397--22979451 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
22979387 ATGTCACGAT
22979397 ACACAGTTTGCATAAATA
1 ACACAGTTTGCATAAATA
*
22979415 ACACAG-TT-CACCAAATTA
1 ACACAGTTTGCA-TAAA-TA
*
22979433 ACACAGTTCGCATAAATA
1 ACACAGTTTGCATAAATA
22979451 A
1 A
22979452 TAGAGCTCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.07
17 5 0.17
18 17 0.57
19 4 0.13
20 2 0.07
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (18 bp):
ACACAGTTTGCATAAATA
Found at i:22983142 original size:25 final size:25
Alignment explanation
Indices: 22983114--22983222 Score: 87
Period size: 25 Copynumber: 4.4 Consensus size: 25
22983104 AATCTTATAG
22983114 AAAGCCTTTGTAGCGTATTATCTGA
1 AAAGCCTTTGTAGCGTATTATCTGA
* * *
22983139 AAAGTCTTTGTGGCGTATTATCTAA
1 AAAGCCTTTGTAGCGTATTATCTGA
* * * *
22983164 AAAGGCTTTATATC-TAATCT-TATGA
1 AAAGCCTTTGTAGCGT-AT-TATCTGA
* * *
22983189 AAAGCCTTTGTGGTGTATTATCTGG
1 AAAGCCTTTGTAGCGTATTATCTGA
*
22983214 AATGCCTTT
1 AAAGCCTTT
22983223 ATGACTAATC
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.03
25 59 0.94
26 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (25 bp):
AAAGCCTTTGTAGCGTATTATCTGA
Found at i:22983261 original size:49 final size:50
Alignment explanation
Indices: 22983136--22983266 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
22983126 GCGTATTATC
* ** *
22983136 TGAAAAGTCTTTGTGGCGTATTATCTAAAAAGGCTTTATATCTAATCTTA
1 TGAAAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTATATCTAATCTTA
* *
22983186 TGAAAAGCCTTTGTGGTGTATTATCTGGAATGCCTTTATGA-CTAATCTTA
1 TGAAAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTAT-ATCTAATCTTA
* *
22983236 TG-AAAGCTTTTGTGGGGTATTATCTGGAAAG
1 TGAAAAGCCTTTGTGGCGTATTATCTGGAAAG
22983267 ACTGCATAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 26 0.37
50 44 0.62
51 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (50 bp):
TGAAAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTATATCTAATCTTA
Found at i:22983594 original size:32 final size:32
Alignment explanation
Indices: 22983551--22983615 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
22983541 TGTTTGCCTA
* *
22983551 GGTTAATTGGAAGATTTGGTGTGAACTGAGTT
1 GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
22983583 GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
1 GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
22983615 G
1 G
22983616 ATGACCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.05, G:0.34, T:0.35
Consensus pattern (32 bp):
GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
Found at i:22988952 original size:15 final size:16
Alignment explanation
Indices: 22988926--22988955 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22988916 TCTCTCTTGC
22988926 TTTTAGATCATATATA
1 TTTTAGATCATATATA
22988942 TTTTA-ATCATATAT
1 TTTTAGATCATATAT
22988956 GAGACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:22993570 original size:8 final size:8
Alignment explanation
Indices: 22993559--22993638 Score: 67
Period size: 8 Copynumber: 9.9 Consensus size: 8
22993549 GACTAAAATA
22993559 TTAAATTT
1 TTAAATTT
*
22993567 TT-AAGTT
1 TTAAATTT
*
22993574 TTAAGTTT
1 TTAAATTT
22993582 TT-AATTT
1 TTAAATTT
*
22993589 TT-TATTT
1 TTAAATTT
22993596 TTAAATTT
1 TTAAATTT
*
22993604 TAAAATTTT
1 TTAAA-TTT
22993613 TTGAAGATTT
1 TT-AA-ATTT
22993623 TTATAATTT
1 TTA-AATTT
22993632 TTAAATT
1 TTAAATT
22993639 AAAATATAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
7 18 0.31
8 19 0.33
9 12 0.21
10 8 0.14
11 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (8 bp):
TTAAATTT
Found at i:22993582 original size:15 final size:14
Alignment explanation
Indices: 22993562--22993606 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
22993552 TAAAATATTA
*
22993562 AATTTTTAAGTTTT
1 AATTTTTAAATTTT
*
22993576 AAGTTTTTAATTTTT
1 AA-TTTTTAAATTTT
*
22993591 TATTTTTAAATTTT
1 AATTTTTAAATTTT
22993605 AA
1 AA
22993607 AATTTTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (14 bp):
AATTTTTAAATTTT
Found at i:22993612 original size:15 final size:15
Alignment explanation
Indices: 22993554--22993638 Score: 64
Period size: 15 Copynumber: 5.3 Consensus size: 15
22993544 ATATGGACTA
*
22993554 AAATATTAAATTTTT
1 AAATTTTAAATTTTT
* *
22993569 AAGTTTTAAGTTTTT
1 AAATTTTAAATTTTT
**
22993584 -AATTTTTTATTTTT
1 AAATTTTAAATTTTT
22993598 AAATTTTAAAATTTTTT
1 AAATTTT-AAA-TTTTT
22993615 GAAGATTTTTATAATTTTT
1 -AA-A-TTTTA-AATTTTT
22993634 AAATT
1 AAATT
22993639 AAAATATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
14 10 0.19
15 18 0.33
16 3 0.06
17 6 0.11
18 4 0.07
19 7 0.13
20 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
AAATTTTAAATTTTT
Found at i:22993613 original size:22 final size:23
Alignment explanation
Indices: 22993561--22993613 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
22993551 CTAAAATATT
*
22993561 AAATTTTTAAGTTTTAAGTTTT-
1 AAATTTTTAAGTTTTAAATTTTA
* * *
22993583 TAATTTTTTATTTTTAAATTTTA
1 AAATTTTTAAGTTTTAAATTTTA
22993606 AAATTTTT
1 AAATTTTT
22993614 TGAAGATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
AAATTTTTAAGTTTTAAATTTTA
Found at i:22994965 original size:18 final size:18
Alignment explanation
Indices: 22994942--22994977 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22994932 TTGAAAAGCA
22994942 CCACTAACGCTCGATCTT
1 CCACTAACGCTCGATCTT
* *
22994960 CCACTAATGCTTGATCTT
1 CCACTAACGCTCGATCTT
22994978 TAGCGACGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (18 bp):
CCACTAACGCTCGATCTT
Found at i:22995015 original size:40 final size:40
Alignment explanation
Indices: 22994960--22995047 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
22994950 GCTCGATCTT
*
22994960 CCACTAATGCTTGATCTTTAGCGACG-TTTTCGGGAAAGCG
1 CCACTAATGCTTGATCTTTAGCGACGTTTTTC-GAAAAGCG
*
22995000 CCACTAATGCTTGATCTTTAGCGGCGTTTTTCGAAAAGCG
1 CCACTAATGCTTGATCTTTAGCGACGTTTTTCGAAAAGCG
*
22995040 CCGCTAAT
1 CCACTAAT
22995048 TCTCAATCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (40 bp):
CCACTAATGCTTGATCTTTAGCGACGTTTTTCGAAAAGCG
Found at i:22997624 original size:12 final size:12
Alignment explanation
Indices: 22997607--22997631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22997597 AAATTTCTAG
22997607 TATTGATCAAGT
1 TATTGATCAAGT
22997619 TATTGATCAAGT
1 TATTGATCAAGT
22997631 T
1 T
22997632 GGTGTCACTA
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:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TATTGATCAAGT
Found at i:22998979 original size:17 final size:18
Alignment explanation
Indices: 22998953--22998991 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22998943 GTTTCTGTGG
22998953 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
22998969 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
22998987 AAAAT
1 AAAAT
22998992 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:22999171 original size:15 final size:15
Alignment explanation
Indices: 22999148--22999178 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22999138 AAAACAATAT
*
22999148 AACTTTTGACCTTTC
1 AACTCTTGACCTTTC
22999163 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
22999178 A
1 A
22999179 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:23002549 original size:15 final size:15
Alignment explanation
Indices: 23002539--23002568 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23002529 TCCCTTCTTG
23002539 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
23002554 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
23002569 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:23003336 original size:17 final size:18
Alignment explanation
Indices: 23003310--23003348 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23003300 CAAATTGTGG
23003310 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
23003326 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
23003344 AAAAT
1 AAAAT
23003349 CAAAAGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:23003525 original size:15 final size:15
Alignment explanation
Indices: 23003505--23003535 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23003495 AAAACAATAT
23003505 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
23003520 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
23003535 A
1 A
23003536 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:23005672 original size:27 final size:27
Alignment explanation
Indices: 23005624--23005782 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
23005614 GCGAGGCTGC
* *
23005624 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
23005651 CAAATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
23005677 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
23005704 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
23005731 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
23005758 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
23005783 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:23005717 original size:54 final size:54
Alignment explanation
Indices: 23005642--23005782 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
23005632 GTGACGAAGT
*
23005642 CACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAAATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
23005696 CACCAGATCAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAAATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
23005750 CACCAGATCAAATAATTGTGGCATAGCCACCAG
1 CACCAGATCAAATAATTGTGGCATAGCCACCAG
23005783 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 76 0.95
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAAATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:23007436 original size:26 final size:26
Alignment explanation
Indices: 23007405--23007564 Score: 239
Period size: 26 Copynumber: 6.2 Consensus size: 26
23007395 TGAAATGTCC
*
23007405 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
*
23007431 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
23007457 ATCATGGAATATTTACCTAATCCATG
1 ATCATGGAACATTTACCTAATCCATT
*
23007483 ATAATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
23007509 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
23007535 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
23007561 ATCA
1 ATCA
23007565 ATTTGTACCA
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 120 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:23011131 original size:47 final size:47
Alignment explanation
Indices: 23011068--23011508 Score: 704
Period size: 47 Copynumber: 9.4 Consensus size: 47
23011058 CCCTTCGGGA
* * *
23011068 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
23011115 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
23011162 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
23011209 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
23011256 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
23011303 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
23011350 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
23011397 CTTATCACATATATACACTTTCACATTCATCACATTGGCCA-TATGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTA-GGC
*
23011444 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
23011491 CTTATCACATATACACAC
1 CTTATCACATATATACAC
23011509 CTTGTACATC
Statistics
Matches: 367, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 364 0.99
48 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:23016218 original size:17 final size:16
Alignment explanation
Indices: 23016186--23016216 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23016176 TTTTCGCAAA
*
23016186 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
23016202 AAAATCTTTGTTTTT
1 AAAATCTTTGTTTTT
23016217 TGTAAACCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:23017233 original size:27 final size:27
Alignment explanation
Indices: 23017185--23017343 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
23017175 GCGAGGCTGC
* * *
23017185 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
23017212 CAGATATTGTGGCAAAGCCACCAGA-A
1 CAGATATTGTGGCAAAGCCACCAGATA
*
23017238 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
* *
23017265 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAAAGCCACCAGATA
* *
23017292 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
*
23017319 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAAAGCCACCAG
23017344 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.09
27 100 0.88
28 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:23017278 original size:54 final size:54
Alignment explanation
Indices: 23017203--23017343 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
23017193 GTGACGAAGT
*
23017203 CACCAGATACAGAT-ATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
23017257 CACCAGATCAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
23017311 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
23017344 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:23018996 original size:26 final size:26
Alignment explanation
Indices: 23018965--23019124 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
23018955 TGAAATGCCC
*
23018965 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
*
23018991 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
23019017 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
23019043 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
23019069 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
23019095 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
23019121 ATCA
1 ATCA
23019125 ATTTGTACCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 122 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:23023352 original size:4 final size:4
Alignment explanation
Indices: 23023336--23023376 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
23023326 ACCCGGGCCC
*
23023336 ATAA ATTA ATAA ATAA ATAA ATAA ATAA A-AA ATAA A-AA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
23023377 GTCCATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:23023534 original size:16 final size:17
Alignment explanation
Indices: 23023513--23023551 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
23023503 TCAATGGCCC
23023513 AAACAAGACCCAA-CCT
1 AAACAAGACCCAAGCCT
*
23023529 AAACAAGGCCCAATGCCT
1 AAACAAGACCCAA-GCCT
23023547 AAACA
1 AAACA
23023552 GAATCTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.49, C:0.33, G:0.10, T:0.08
Consensus pattern (17 bp):
AAACAAGACCCAAGCCT
Found at i:23024611 original size:21 final size:23
Alignment explanation
Indices: 23024576--23024635 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
23024566 AATTCTTTAA
*
23024576 TTTAATTCAATTTT-AAT-CTTTT
1 TTTAATT-TATTTTAAATACTTTT
23024598 TTTAATTTATTTTAAATACTTTT
1 TTTAATTTATTTTAAATACTTTT
*
23024621 TATATTATTTATTTT
1 T-T-TAATTTATTTT
23024636 TATAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 5 0.16
22 10 0.31
23 6 0.19
24 1 0.03
25 10 0.31
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAATTTATTTTAAATACTTTT
Found at i:23024729 original size:17 final size:18
Alignment explanation
Indices: 23024696--23024731 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23024686 TATTTTATTG
23024696 TATATTTTATCTATAAAT
1 TATATTTTATCTATAAAT
23024714 TATATTTTAT-TATAAAT
1 TATATTTTATCTATAAAT
23024731 T
1 T
23024732 TCATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTTTATCTATAAAT
Found at i:23024752 original size:12 final size:12
Alignment explanation
Indices: 23024714--23024757 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
23024704 ATCTATAAAT
*
23024714 TATATTTTATTA
1 TATATTTCATTA
*
23024726 TAAATTTCATTA
1 TATATTTCATTA
*
23024738 TATATTTCCTTA
1 TATATTTCATTA
23024750 TATTATTT
1 TA-TATTT
23024758 TTATGTATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTTCATTA
Found at i:23033436 original size:33 final size:33
Alignment explanation
Indices: 23033394--23033462 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
23033384 GTGACATTTC
*
23033394 AACCTTGCGTTGCAACATTGGGAGTAATGCACT
1 AACCTTGCGTTGCAACATTGGGAGTAATACACT
23033427 AACCTTGCGTTGCAACATTGGGAGTAATACACT
1 AACCTTGCGTTGCAACATTGGGAGTAATACACT
23033460 AAC
1 AAC
23033463 TCATTGGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (33 bp):
AACCTTGCGTTGCAACATTGGGAGTAATACACT
Found at i:23035970 original size:64 final size:65
Alignment explanation
Indices: 23035853--23035973 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 65
23035843 TATCGATATT
* * *
23035853 TTTAAATATTTTTCACATATATATTTATAATCTAATTTTTAGTTTTATGATAAATTATATAAACA
1 TTTAAATATTTTTCACACACATATTTATAATCTAATTTTTAGTTTTATAATAAATTATATAAACA
* *
23035918 TTTAAATATTTTT-ACACACATATTTATAGTCTAATTTTTGGTTTCT-TAATAAATTA
1 TTTAAATATTTTTCACACACATATTTATAATCTAATTTTTAGTTT-TATAATAAATTA
23035974 AATATTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 36 0.72
65 14 0.28
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (65 bp):
TTTAAATATTTTTCACACACATATTTATAATCTAATTTTTAGTTTTATAATAAATTATATAAACA
Found at i:23044527 original size:14 final size:14
Alignment explanation
Indices: 23044508--23044539 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23044498 GAGGTTCTAC
23044508 TGTTATTTTTTGAG
1 TGTTATTTTTTGAG
23044522 TGTTATTTTTTGAG
1 TGTTATTTTTTGAG
23044536 TGTT
1 TGTT
23044540 TCCAATGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.66
Consensus pattern (14 bp):
TGTTATTTTTTGAG
Found at i:23049358 original size:79 final size:78
Alignment explanation
Indices: 23049256--23049478 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
23049246 GCTCCTCGTT
* *
23049256 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
23049321 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
23049336 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
23049399 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
23049414 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
23049477 GA
63 GA
23049479 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:23049373 original size:39 final size:40
Alignment explanation
Indices: 23049256--23049478 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
23049246 GCTCCTCGTT
* *
23049256 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
23049296 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
23049336 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
23049375 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
23049414 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
23049455 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23049479 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:23057339 original size:79 final size:77
Alignment explanation
Indices: 23057239--23057459 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
23057229 GCTCCTCGTT
* *
23057239 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGA
23057304 ATTTAGTAACTCGCA
64 A-TTAGTAACTCGCA
*
23057319 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCC-G
*
23057382 AATTAGTATCTCGCA
63 AATTAGTAACTCGCA
* * * * *
23057397 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
23057460 GACATCATTC
Statistics
Matches: 123, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
78 45 0.37
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGAAT
TAGTAACTCGCA
Found at i:23057360 original size:39 final size:40
Alignment explanation
Indices: 23057239--23057461 Score: 259
Period size: 39 Copynumber: 5.7 Consensus size: 40
23057229 GCTCCTCGTT
* *
23057239 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* *
23057279 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTATCTCGCA
23057319 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
23057358 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
23057397 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
23057438 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23057462 CATCATTCAA
Statistics
Matches: 164, Mismatches: 9, Indels: 21
0.85 0.05 0.11
Matches are distributed among these distances:
38 2 0.01
39 87 0.53
40 65 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Done.