Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 81 of 208
Found at i:28621016 original size:13 final size:13
Alignment explanation
Indices: 28620998--28621093 Score: 102
Period size: 13 Copynumber: 7.2 Consensus size: 13
28620988 AATTTAAAAG
*
28620998 TTAAAACATTATA
1 TTAAAACAGTATA
*
28621011 TTAAAACAATATAA
1 TTAAAACAGTAT-A
*
28621025 TTATAACAGTATA
1 TTAAAACAGTATA
*
28621038 TTAAAACAATATA
1 TTAAAACAGTATA
*
28621051 TTAAAAAAGTATA
1 TTAAAACAGTATA
* *
28621064 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
28621078 TTAAAATAGTATA
1 TTAAAACAGTATA
28621091 TTA
1 TTA
28621094 TAAATTTTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
13 49 0.69
14 22 0.31
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:28621043 original size:40 final size:40
Alignment explanation
Indices: 28620998--28621093 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
28620988 AATTTAAAAG
*
28620998 TTAAAACATTATATTAAAACAA-TATAATTATAACAGTATA
1 TTAAAACAATATATTAAAA-AAGTATAATTATAACAGTATA
* *
28621038 TTAAAACAATATATTAAAAAAGTATATTTATAATAGTATA
1 TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
* *
28621078 TTAAAATAGTATATTA
1 TTAAAACAATATATTA
28621094 TAAATTTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
Found at i:28621130 original size:13 final size:13
Alignment explanation
Indices: 28620998--28621131 Score: 89
Period size: 13 Copynumber: 10.2 Consensus size: 13
28620988 AATTTAAAAG
*
28620998 TTAAAACATTATA
1 TTAAAACAATATA
28621011 TTAAAACAATATAA
1 TTAAAACAATAT-A
* *
28621025 TTATAACAGTATA
1 TTAAAACAATATA
28621038 TTAAAACAATATA
1 TTAAAACAATATA
28621051 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
* * *
28621064 TTTATAATAGTATA
1 -TTAAAACAATATA
* *
28621078 TTAAAATAGTATA
1 TTAAAACAATATA
*
28621091 TT-ATA-AAT-T-
1 TTAAAACAATATA
*
28621100 TTATAACAATATATTA
1 TTAAAAC-A-ATA-TA
28621116 TTAAAACAATATA
1 TTAAAACAATATA
28621129 TTA
1 TTA
28621132 CATTTAAAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
9 2 0.02
10 2 0.02
11 2 0.02
12 5 0.05
13 54 0.56
14 23 0.24
15 3 0.03
16 6 0.06
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:28621140 original size:19 final size:17
Alignment explanation
Indices: 28621099--28621131 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
28621089 TATTATAAAT
*
28621099 TTTATAACAATATATTA
1 TTTAAAACAATATATTA
28621116 -TTAAAACAATATATTA
1 TTTAAAACAATATATTA
28621132 CATTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAACAATATATTA
Found at i:28621375 original size:8 final size:7
Alignment explanation
Indices: 28621344--28621377 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
28621334 TATAAAAATA
28621344 AATACAT
1 AATACAT
*
28621351 ATTACAT
1 AATACAT
28621358 AATACAT
1 AATACAT
28621365 AATAGCAT
1 AATA-CAT
28621373 AATAC
1 AATAC
28621378 CGAACTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (7 bp):
AATACAT
Found at i:28624267 original size:35 final size:35
Alignment explanation
Indices: 28624228--28624299 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
28624218 AATTTGAGAG
*
28624228 ATAATCTCCCAGTTAAACTCTGTTTATTTGTTTCA
1 ATAATCTCCCAGTTAAACTCTGTTTATTTATTTCA
28624263 ATAATCTCCCAGTTAAACTCTGTTTATTTATTTCA
1 ATAATCTCCCAGTTAAACTCTGTTTATTTATTTCA
28624298 AT
1 AT
28624300 CGAACTCTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (35 bp):
ATAATCTCCCAGTTAAACTCTGTTTATTTATTTCA
Found at i:28625452 original size:34 final size:35
Alignment explanation
Indices: 28625408--28625474 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
28625398 CAGTAAAATA
*
28625408 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
28625442 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
28625475 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:28626372 original size:3 final size:3
Alignment explanation
Indices: 28626357--28626410 Score: 74
Period size: 3 Copynumber: 17.7 Consensus size: 3
28626347 AATTAAAAAG
*
28626357 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
28626402 ATAA ATA AT
1 AT-A ATA AT
28626411 CTAGAGTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:28626450 original size:17 final size:18
Alignment explanation
Indices: 28626422--28626458 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
28626412 TAGAGTTTGA
28626422 AAATATATAAAAAGATAT
1 AAATATATAAAAAGATAT
*
28626440 AAATA-ATAAAACGATAT
1 AAATATATAAAAAGATAT
28626457 AA
1 AA
28626459 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATATATAAAAAGATAT
Found at i:28627965 original size:44 final size:44
Alignment explanation
Indices: 28627902--28629279 Score: 254
Period size: 44 Copynumber: 30.5 Consensus size: 44
28627892 GAAATTGGGG
* *
28627902 CACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
* ** * *
28627946 CACTGTAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
* * * ** * * *
28627990 TACTACAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
* ** * ** ** * *
28628034 CGCCACAACTTTAGGGAGATAAGATTGGTTTATTTTTAACCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATT--AATAGCTTCAACCTGCTC
* * ** * * * *
28628080 CACTGCAACTTCAAGGAGATAAGGTTTGTGGCTTTAATCTTCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
* * ** * **
28628124 CACTGCAACTTCAGGGAGATAAAATTGATTTATTTTTAACCTATTC
1 CACTGCAACTTCAGGGAGATAAGATT-A-ATAGCTTCAACCTGCTC
* * * * * *
28628170 CACTGCAGCTTTAGGGAGATAAGGTT--T-GATAT-GATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCT-TCAACCTGCTC
* * * * *
28628211 GACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGGCTTTAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGA--T-TAA--TA--GCTTCAACCTGCTC
* * * ** * ** *
28628262 CACTGCAACTTCAAGGAAATGAGATTCGTTATCTTCAGTCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATT-AATAGCTTCAACCTGCTC
* * * * *
28628307 CATTACAGCTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGA-TTAATAGCTTCAACCTGCTC
* * * * *
28628351 CACTACAACTTCAGGGAGATAAGGTT--T-GCTACGATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
* * * ** *
28628392 TACAGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATTTGTTC
1 CACTGCAACTTCAGGGAGATAAGAT-T---A---ATAGCTTCAACCTGCTC
* * ** ** ** *
28628443 CACTGCAACTTCAAGGAAATAAGATTCCCTATATTCAGTCAGCTC
1 CACTGCAACTTCAGGGAGATAAGATT-AATAGCTTCAACCTGCTC
* * * ** ** * ** *
28628488 AACTGCAACTTCCGGGAGATAAGGTTGGTTTATTTTTAACCTATTG
1 CACTGCAACTTCAGGGAGATAAGATT--AATAGCTTCAACCTGCTC
* * * * * * *
28628534 CACTACAGCTTCAGTGAGATAAGGTTTGATATG-ATCTA-CT-CT-
1 CACTGCAACTTCAGGGAGATAA-GATTAATA-GCTTCAACCTGCTC
* * * * * *
28628576 -ACTGCAACTTTAGAGAGATAAAATCTGTAATTTATAGCTTTAATCTGTTC
1 CACTGCAACTTCAGGGAGAT--AA---G--ATTAATAGCTTCAACCTGCTC
* * ** * ** *
28628626 CACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATT-AATAGCTTCAACCTGCTC
* * * *
28628671 CATTGCAGCTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGA-TTAATAGCTTCAACCTGCTC
* * * * * *
28628715 CACTGTAACTTCTGGGAGATAAGGTT--T-TCTAT-GATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCT-TCAACCTGCTC
* * * * *
28628756 TACTGCAACTTTAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGAT-T---A---ATAGCTTCAACCTGCTC
* * * ** * *** *
28628807 CATTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTTTACTC
1 CACTGCAACTTCAGGGAGATAAGATT-AATAGCTTCAACCTGCTC
* * * * * * * * *
28628852 CACTGTAACCTCATGGAGATAAGACTAGTGGTTTCAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
* * * * *
28628896 TACTACAACTTCAGGGAGATAAGGTT--T-GC-TCTGATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTC-AACCTGCTC
* * * *
28628937 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGA--T-T-A---ATAGCTTCAACCTGCTC
* * * ** * **
28628988 CATTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATT-AATAGCTTCAACCTGCTC
* * * * *
28629033 CACTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAACATACTC
1 CACTGCAACTTCAGGGAGATAAGA-TTAATAGCTTCAACCTGCTC
* * * *
28629077 CACTACAACTTCAGGGAGATAAGATT--T-GCTAT-GATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCT-TCAACCTGCTC
* * *
28629118 TACTGCAACTTCAGGGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGAT-T---A---ATAGCTTCAACCTGCTC
* * ** * *
28629169 CATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATT-AATAGCTTCAACCTGCTC
** * * * * *
28629214 CACTATAACTTCAGGAAGATAAGACTAGTGGCTTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
*
28629258 CATTGCAACTTCAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAA
28629280 AATTCTCCAT
Statistics
Matches: 962, Mismatches: 291, Indels: 162
0.68 0.21 0.11
Matches are distributed among these distances:
40 2 0.00
41 158 0.16
42 11 0.01
43 11 0.01
44 292 0.30
45 195 0.20
46 97 0.10
47 12 0.01
48 5 0.01
49 5 0.01
50 10 0.01
51 163 0.17
52 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTC
Found at i:28628108 original size:90 final size:90
Alignment explanation
Indices: 28627902--28629237 Score: 450
Period size: 92 Copynumber: 14.8 Consensus size: 90
28627892 GAAATTGGGG
** * * *
28627902 CACTGCAACTTCAGGGAGAT-AGGATTAATAGCTTCAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAGATAAGG-TTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* *
28627966 AAGATTGG--TATCTTCAACCTGTTC
65 AAGATTGGTTTATTTTTAACCTGTTC
* * * ** *
28627990 TACTACAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCGCCACAACTTTAGGGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
28628055 AGATTGGTTTATTTTTAACCTGTTC
66 AGATTGGTTTATTTTTAACCTGTTC
* *
28628080 CACTGCAACTTCAAGGAGATAAGGTTTGTGGCTTTAATCTTCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
28628145 AAATTGATTTATTTTTAACCTATTC
66 AGATTGGTTTATTTTTAACCTGTTC
* * * * * * *
28628170 CACTGCAGCTTTAGGGAGATAAGG-TT-T-GATATGATCTGCTCGACTGCAACTTCAGAGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
28628232 AGATCTGTAATTTATGGCTTTAATCTGTTC
66 AGAT-TG--GTTTAT--TTTTAACCTGTTC
* * * * * ** * * * * * *
28628262 CACTGCAACTTCAAGGAAATGAGATTCGTTATCTTCAGTCTGTTCCATTACAGCTTCAGGGAGAT
1 CACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
** * *
28628327 AAGACTT-G--TAACTTCAACCTGCTC
65 AAGA-TTGGTTTATTTTTAACCTGTTC
* *** * * *
28628351 CACTACAACTTCAGGGAGATAAGG-TT-T-GCTACGATCTGCTCTACAGCAACTTCAGAGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
** * * **
28628413 AGATCTACAATTTATAGCTTCAATTTGTTC
66 AGAT-T--GGTTTAT--TTTTAACCTGTTC
* * * ** *** * * * * *
28628443 CACTGCAACTTCAAGGAAATAAGATTCCCTATATTCAGTCAGCTCAACTGCAACTTCCGGGAGAT
1 CACTGCAACTTCAGGGAGATAAGGTT-TGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* * *
28628508 AAGGTTGGTTTATTTTTAACCTATTG
65 AAGATTGGTTTATTTTTAACCTGTTC
* * * * * * * * * *
28628534 CACTACAGCTTCAGTGAGATAAGG-TT-T-GATATGATCTACTCTACTGCAACTTTAGAGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
28628596 AAATCTGTAATTTATAGCTTTAATCTGTTC
66 AGAT-TG--GTTTAT--TTTTAACCTGTTC
* * * * ** * * * * *
28628626 CACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAGCTTCAGGGAGAT
1 CACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
** * *
28628691 AAGACTT-G--TAACTTCAACCTGCTC
65 AAGA-TTGGTTTATTTTTAACCTGTTC
* * * * * * *
28628715 CACTGTAACTTCTGGGAGATAAGGTTT-T--CTATGATCTGCTCTACTGCAACTTTAGAGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
28628777 AGATCTGCAATTTATAGCTTCAATCTGTTC
66 AGAT-TG--GTTTAT--TTTTAACCTGTTC
* * * * * ** * * * * * * *
28628807 CATTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTTTACTCCACTGTAACCTCATGGAGAT
1 CACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* * ** * * **
28628872 AAGACTAG--TGGTTTCAATCTACTC
65 AAGATTGGTTTATTTTTAACCTGTTC
* * * * * *
28628896 TACTACAACTTCAGGGAGATAAGG-TT-T-GCTCTGATCTGCTCTACTGCAACTTCAGAGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
28628958 AGATCTGTAATTTATAGCTTTAATCTGCTC
66 AGAT-TG--GTTTAT--TTTTAACCTGTTC
* * * * * ** * * *
28628988 CATTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGAT
1 CACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
** * * **
28629053 AAGACTT-G--TAACTTCAACATACTC
65 AAGA-TTGGTTTATTTTTAACCTGTTC
* * * * * *
28629077 CACTACAACTTCAGGGAGATAA-GATT-T-GCTATGATCTACTCTACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
28629139 AGATCTGCAATTTATAGCTTCAATCTGTTC
66 AGAT-TG--GTTTAT--TTTTAACCTGTTC
* * * * ** * ** *
28629169 CATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTATAACTTCAGGAAGAT
1 CACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
28629234 AAGA
65 AAGA
28629238 CTAGTGGCTT
Statistics
Matches: 894, Mismatches: 283, Indels: 134
0.68 0.22 0.10
Matches are distributed among these distances:
84 3 0.00
85 113 0.13
86 4 0.00
87 59 0.07
88 66 0.07
89 122 0.14
90 133 0.15
91 32 0.04
92 176 0.20
93 10 0.01
94 1 0.00
95 7 0.01
96 165 0.18
97 3 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (90 bp):
CACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
AGATTGGTTTATTTTTAACCTGTTC
Found at i:28628389 original size:181 final size:181
Alignment explanation
Indices: 28627902--28629279 Score: 1498
Period size: 181 Copynumber: 7.6 Consensus size: 181
28627892 GAAATTGGGG
* * ** * * *
28627902 CACTGCAACTTCAGGGAGATAGGATT-AATAGCTTCAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** * * *
28627966 AAGA-TTGGTATCTTCAACCTGTTCTACTACAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCT
66 AAGACTT-GTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGG-TT-T-GCTATGATCT
** ** * * * * *
28628030 GCTCCGCCACAACTTTAGGGAGATAAGAT-TG--GTTTAT--TTTTAACCTGTTC
127 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
* * * * ** * * *
28628080 CACTGCAACTTCAAGGAGATAAGGTTTG-TGGCTTTAATCTTCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** * * * * * *
28628144 AA-AATTGATTTATTTTTAACCTATTCCACTGCAGCTTTAGGGAGATAAGGTTTGATATGATCTG
66 AAGACTTG---TAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTG
* * *
28628208 CTCGACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGGCTTTAATCTGTTC
128 CTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
* * * * * * *
28628262 CACTGCAACTTCAAGGAAATGAGATTCGTTATCTTCAGTCTGTTCCATTACAGCTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* *
28628327 AAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTACGATCTGCTC
66 AAGACTTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTC
* * * *
28628392 TACAGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATTTGTTC
131 TACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
* * * * * *
28628443 CACTGCAACTTCAAGGAAATAAGATTCCCTATATTCAGTCAGCTCAACTGCAACTTCCGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** * * * * * * *
28628508 AAG-GTTGGTTTATTTTTAACCTATTGCACTACAGCTTCAGTGAGATAAGGTTTGATATGATCTA
66 AAGACTT-G--TAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTG
* * *
28628572 CTCTACTGCAACTTTAGAGAGATAAAATCTGTAATTTATAGCTTTAATCTGTTC
128 CTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
* * * *
28628626 CACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAGCTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** * *
28628691 AAGACTTGTAACTTCAACCTGCTCCACTGTAACTTCTGGGAGATAAGGTTTTCTATGATCTGCTC
66 AAGACTTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTC
* *
28628756 TACTGCAACTTTAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTC
131 TACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
* * * * * * *
28628807 CATTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTTTACTCCACTGTAACCTCATGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* *** * * *
28628872 AAGACTAGTGGTTTCAATCTACTCTACTACAACTTCAGGGAGATAAGGTTTGCTCTGATCTGCTC
66 AAGACTTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTC
* *
28628937 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGCTC
131 TACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
* * *
28628988 CATTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * *
28629053 AAGACTTGTAACTTCAACATACTCCACTACAACTTCAGGGAGATAAGATTTGCTATGATCTACTC
66 AAGACTTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTC
* *
28629118 TACTGCAACTTCAGGGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTC
131 TACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
* * ** *
28629169 CATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTATAACTTCAGGAAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** * * * *
28629234 AAGACTAGTGGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAA
66 AAGACTTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAA
28629280 AATTCTCCAT
Statistics
Matches: 1005, Mismatches: 179, Indels: 29
0.83 0.15 0.02
Matches are distributed among these distances:
177 32 0.03
178 62 0.06
179 2 0.00
180 40 0.04
181 650 0.65
182 35 0.03
183 178 0.18
184 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (181 bp):
CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGACTTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTC
TACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTTAATCTGTTC
Found at i:28628620 original size:364 final size:363
Alignment explanation
Indices: 28627954--28629205 Score: 1599
Period size: 364 Copynumber: 3.5 Consensus size: 363
28627944 TCCACTGTAA
* * *
28627954 CTTCAGGGAGATAAGA-TTGGTATCTTCAACCTGTTCTACTACAACTTCAGGGAGATAAGGTTTG
1 CTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGG-TT-
* * ** ** * * * * * *
28628018 TGGCTTTAATCTGCTCCGCCACAACTTTAGGGAGATAAGAT-TG--GTTTAT--TTTTAACCTGT
63 T-GCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGT
* * * * * ** * * * *
28628078 TCCACTGCAACTTCAAGGAGATAAGGTTTG-TGGCTTTA-ATCTTCTCCACTGCAACTTCAGGGA
127 TCCATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTC-ACTCAACTGCAACTTCAGGGA
* * * *
28628141 GATAAAATTGATTTATTTTTAACCTATTCCACTGCAGCTTTAGGGAGATAAGGTTTGATATGATC
191 GATAAGATTGGTTTATTTTTAACCTATT-CACTACAGCTTCAGGGAGATAAGGTTTGATATGATC
* * *
28628206 TGCTCGACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGGCTTTAATCTGTTCCACTGCAAC
255 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTACAAC
* * * *
28628271 TTCAAGGAAATGAGATTCGTTATCTTCAGTCTGTTCCATTACAG
320 TTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAG
28628315 CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGC
1 CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGC
* * * *
28628380 TACGATCTGCTCTACAGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATTTGTTCCA
66 TATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCA
* * * * *
28628445 CTGCAACTTCAAGGAAATAAGATTCCCTATATTCAG-TCAGCTCAACTGCAACTTCCGGGAGATA
131 TTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTCA-CTCAACTGCAACTTCAGGGAGATA
* * *
28628509 AGGTTGGTTTATTTTTAACCTATTGCACTACAGCTTCAGTGAGATAAGGTTTGATATGATCTACT
195 AGATTGGTTTATTTTTAACCTATT-CACTACAGCTTCAGGGAGATAAGGTTTGATATGATCTGCT
* *
28628574 CTACTGCAACTTTAGAGAGATAAAATCTGTAATTTATAGCTTTAATCTGTTCCACTACAACTTCA
259 CTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTACAACTTCA
28628639 GGGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAG
324 GGGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAG
** * *
28628679 CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGTAACTTCTGGGAGATAAGGTTTTC
1 CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGC
*
28628744 TATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCA
66 TATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCA
* * * * * *
28628809 TTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTTTACTCCACTGTAACCTCATGGAGATAA
131 TTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTCACTCAACTGCAACTTCAGGGAGATAA
* * ** * * * * * *
28628874 GACTAG--TGGTTTCAATCTACTCTACTACAACTTCAGGGAGATAAGGTTTGCTCTGATCTGCTC
196 GATTGGTTTATTTTTAACCTATTC-ACTACAGCTTCAGGGAGATAAGGTTTGATATGATCTGCTC
* *
28628937 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGCTCCATTACAACTTCAG
260 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTACAACTTCAG
* * *
28629002 GGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAA
325 GGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAG
* * * *
28629041 CTTTAGGGAGATAAGACTTGTAACTTCAACATACTCCACTACAACTTCAGGGAGATAAGATTTGC
1 CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGC
* *
28629106 TATGATCTACTCTACTGCAACTTCAGGGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCA
66 TATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCA
28629171 TTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
131 TTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
28629206 ATCTGCTCCA
Statistics
Matches: 782, Mismatches: 98, Indels: 21
0.87 0.11 0.02
Matches are distributed among these distances:
358 30 0.04
359 2 0.00
360 2 0.00
361 60 0.08
362 297 0.38
363 33 0.04
364 356 0.46
365 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (363 bp):
CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGC
TATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCA
TTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTCACTCAACTGCAACTTCAGGGAGATAA
GATTGGTTTATTTTTAACCTATTCACTACAGCTTCAGGGAGATAAGGTTTGATATGATCTGCTCT
ACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTACAACTTCAGG
GAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAG
Found at i:28628938 original size:41 final size:41
Alignment explanation
Indices: 28628888--28629142 Score: 143
Period size: 41 Copynumber: 5.8 Consensus size: 41
28628878 AGTGGTTTCA
* * *
28628888 ATCTACTCTACTACAACTTCAGGGAGATAAGGTTTGCTCTG
1 ATCTACTCCACTACAACTTCAGGGAGATAAGATTTGCTCTC
* * * * * *
28628929 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTA
1 ATCTACTCCACTACAACTTCAGGGAGAT-A-A---G--A-TT-T-GCTCTC
* * * *
28628980 ATCTGCTCCATTACAACTTCAGGGAAATAAGATTCGCTATCTTC
1 ATCTACTCCACTACAACTTCAGGGAGATAAGATTTGC--TC-TC
* * * *
28629024 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTG-TAACTTC
1 A-TCTACTCCACTACAACTTCAGGGAGATAAGATTTGCT--C-TC
* * *
28629068 AACATACTCCACTACAACTTCAGGGAGATAAGATTTGCTATG
1 ATC-TACTCCACTACAACTTCAGGGAGATAAGATTTGCTCTC
* *
28629110 ATCTACTCTACTGCAACTTCAGGGAGATAAGAT
1 ATCTACTCCACTACAACTTCAGGGAGATAAGAT
28629143 CTGCAATTTA
Statistics
Matches: 166, Mismatches: 30, Indels: 36
0.72 0.13 0.16
Matches are distributed among these distances:
41 55 0.33
42 5 0.03
43 5 0.03
44 37 0.22
45 30 0.18
46 2 0.01
49 3 0.02
50 2 0.01
51 27 0.16
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (41 bp):
ATCTACTCCACTACAACTTCAGGGAGATAAGATTTGCTCTC
Found at i:28629093 original size:89 final size:88
Alignment explanation
Indices: 28628617--28629284 Score: 476
Period size: 89 Copynumber: 7.4 Consensus size: 88
28628607 TTATAGCTTT
* * * *
28628617 AATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCAGCTT
1 AATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCA-TCTGCTCCACTGCAACTT
28628682 CAGGGAGATAAGACTTGTAACTTC
65 CAGGGAGATAAGACTTGTAACTTC
* ** * * * * *
28628706 AACCTGCTCCACTGTAACTTCTGGGAGATAAGGTT---T-TCTATGATCTGCTCTACTGCAACTT
1 AATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCT-TCATCTGCTCCACTGCAACTT
* * *
28628767 TAGAGAGATAAGATCTGCAATTTATAGCTTC
65 CAGGGAGATAAGA-CT----TGTA-A-CTTC
* * * * * * * *
28628798 AATCTGTTCCATTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTTTACTCCACTGTAACCT
1 AATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCA-TCTGCTCCACTGCAACTT
* * ***
28628863 CATGGAGATAAGACTAGTGGTTTC
65 CAGGGAGATAAGACTTGTAACTTC
* * * * * * *
28628887 AATCTACTCTACTACAACTTCAGGGAGATAAGGTTTGC--TC-TGATCTGCTCTACTGCAACTTC
1 AATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCATCTGCTCCACTGCAACTTC
* * *
28628949 AGAGAGATAAGATCTGTAATTTATAGCTTT
66 AGGGAGATAAGA-C--T--TGTA-A-CTTC
*
28628979 AATCTGCTCCATTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTT
1 AATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCA-TCTGCTCCACTGCAACTT
*
28629044 TAGGGAGATAAGACTTGTAACTTC
65 CAGGGAGATAAGACTTGTAACTTC
* * * * * *
28629068 AA-CATACTCCACTACAACTTCAGGGAGATAAGATTTGCTA---TGATCTACTCTACTGCAACTT
1 AATC-TGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCATCTGCTCCACTGCAACTT
*
28629129 CAGGGAGATAAGATCTGCAATTTATAGCTTC
65 CAGGGAGATAAGA-CT----TGTA-A-CTTC
* * * **
28629160 AATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTATAACTT
1 AATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTC-ATCTGCTCCACTGCAACTT
* * **
28629225 CAGGAAGATAAGACTAGTGGCTTC
65 CAGGGAGATAAGACTTGTAACTTC
* * * *
28629249 AATCTGCTCCATTGCAACTTCAGGGAGATAAAATTC
1 AATCTGCTCCACTACAACTTCAGGGAAATAAGATTC
28629285 TCCATGATGA
Statistics
Matches: 442, Mismatches: 100, Indels: 74
0.72 0.16 0.12
Matches are distributed among these distances:
85 80 0.18
86 12 0.03
87 2 0.00
88 2 0.00
89 134 0.30
90 8 0.02
91 7 0.02
92 101 0.23
93 2 0.00
94 2 0.00
95 11 0.02
96 81 0.18
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (88 bp):
AATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCATCTGCTCCACTGCAACTTC
AGGGAGATAAGACTTGTAACTTC
Found at i:28633154 original size:17 final size:17
Alignment explanation
Indices: 28633132--28633164 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
28633122 ATTTATTTTA
28633132 TAAAAAAATCATAATTG
1 TAAAAAAATCATAATTG
28633149 TAAAAAAATCATAATT
1 TAAAAAAATCATAATT
28633165 AATCATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (17 bp):
TAAAAAAATCATAATTG
Found at i:28642627 original size:43 final size:45
Alignment explanation
Indices: 28642541--28642629 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
28642531 TCTTAGTATT
28642541 ATATATAATATTATTTAAAAATGTAAAAAATCATATAATATATAA
1 ATATATAATATTATTTAAAAATGTAAAAAATCATATAATATATAA
* * * *
28642586 ATATTTAATTATT-TTTAAAAGTTTAAAAAATTC-TAAAATATATA
1 ATATATAA-TATTATTTAAAAATGTAAAAAA-TCATATAATATATA
28642630 TTTATAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 32 0.84
46 6 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (45 bp):
ATATATAATATTATTTAAAAATGTAAAAAATCATATAATATATAA
Found at i:28644312 original size:7 final size:7
Alignment explanation
Indices: 28644300--28644331 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
28644290 CTTGATGTTG
28644300 AAAATTC
1 AAAATTC
*
28644307 AAAATTT
1 AAAATTC
28644314 AAAATTC
1 AAAATTC
28644321 AAAATTC
1 AAAATTC
28644328 AAAA
1 AAAA
28644332 AGAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTC
Found at i:28645477 original size:5 final size:5
Alignment explanation
Indices: 28645461--28645491 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
28645451 CCACTGCACC
28645461 AAAAT GAAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
28645492 GGTAAAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:28664444 original size:23 final size:23
Alignment explanation
Indices: 28664418--28664463 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
28664408 AAAGAAAGAT
*
28664418 ATACTATC-TAATGAAGACACCAA
1 ATACAATCATAATGAAGA-ACCAA
*
28664441 ATACAATCATAATTAAGAACCAA
1 ATACAATCATAATGAAGAACCAA
28664464 TAATTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.22
Consensus pattern (23 bp):
ATACAATCATAATGAAGAACCAA
Found at i:28671347 original size:22 final size:23
Alignment explanation
Indices: 28671313--28671358 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
28671303 TCATTTAATA
* * *
28671313 TTTTTATAGATTT-TAATAATTT
1 TTTTTACAAATTTATAAAAATTT
28671335 TTTTTACAAATTTATAAAAATTT
1 TTTTTACAAATTTATAAAAATTT
28671358 T
1 T
28671359 AAAAAACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTTACAAATTTATAAAAATTT
Found at i:28672971 original size:23 final size:23
Alignment explanation
Indices: 28672945--28673042 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
28672935 ATAAGTGCCA
28672945 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
28672968 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
28672991 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
28673013 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
28673036 CACTGAT
1 CACTGAT
28673043 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:28673010 original size:45 final size:45
Alignment explanation
Indices: 28672952--28673040 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
28672942 CCACACTGAT
* *
28672952 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
28672997 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
28673041 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:28679302 original size:23 final size:23
Alignment explanation
Indices: 28679276--28679373 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
28679266 ATAAGTGCCA
28679276 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
28679299 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
28679322 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
28679344 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
28679367 CACTGAT
1 CACTGAT
28679374 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:28679341 original size:45 final size:45
Alignment explanation
Indices: 28679283--28679371 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
28679273 CCACACTGAT
* *
28679283 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
28679328 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
28679372 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:28683734 original size:21 final size:23
Alignment explanation
Indices: 28683694--28683737 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
28683684 ATGTTTTGCT
28683694 AATAATAAAAAGGAAAATTAAAG
1 AATAATAAAAAGGAAAATTAAAG
*
28683717 AATAAT-ATAAGG-AAATTAAAG
1 AATAATAAAAAGGAAAATTAAAG
28683738 TAATTGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (23 bp):
AATAATAAAAAGGAAAATTAAAG
Found at i:28684891 original size:13 final size:13
Alignment explanation
Indices: 28684873--28684897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28684863 ACAAACTTTT
28684873 TATTTTTAATATA
1 TATTTTTAATATA
28684886 TATTTTTAATAT
1 TATTTTTAATAT
28684898 TTTATCTTAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATATA
Found at i:28687959 original size:27 final size:27
Alignment explanation
Indices: 28687910--28687961 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
28687900 GACGATAGTG
* *
28687910 ACGACGATAATGATGAGGCTGGCGGTA
1 ACGACGACAATGATGAGGATGGCGGTA
* *
28687937 ACGACGACAATGATTATGATGGCGG
1 ACGACGACAATGATGAGGATGGCGG
28687962 CAGTGACAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (27 bp):
ACGACGACAATGATGAGGATGGCGGTA
Found at i:28687969 original size:24 final size:24
Alignment explanation
Indices: 28687942--28687992 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
28687932 CGGTAACGAC
**
28687942 GACAATGATTATGATGGCGGCAGT
1 GACAATGACGATGATGGCGGCAGT
* *
28687966 GACAATGACGATGATGGTGGTAGT
1 GACAATGACGATGATGGCGGCAGT
28687990 GAC
1 GAC
28687993 CATAGCGCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (24 bp):
GACAATGACGATGATGGCGGCAGT
Found at i:28689482 original size:2 final size:2
Alignment explanation
Indices: 28689475--28689533 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
28689465 AAAGAAGAAA
28689475 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
28689517 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
28689534 TGAAATAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28699281 original size:25 final size:25
Alignment explanation
Indices: 28699239--28699286 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28699229 ACTCTCTTTC
*
28699239 GAGCCATGTAATAAGAAGCTCATGT
1 GAGCCATGTAACAAGAAGCTCATGT
**
28699264 GAGCCATGTAACGGGAAGCTCAT
1 GAGCCATGTAACAAGAAGCTCAT
28699287 ACGAGCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
GAGCCATGTAACAAGAAGCTCATGT
Found at i:28699402 original size:73 final size:73
Alignment explanation
Indices: 28699325--28699462 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
28699315 ACCAATATCA
*
28699325 GGAAGCTCCG-GAGAGCCAT-TAATCAGGAAGCT-CATAAGAGCCAGT-TATCGGGAAGCTCATA
1 GGAAGCT-CGTGAGAACCATATAA-CAGGAAGCTCCA-AAGAGCCA-TATATCGGGAAGCTCATA
28699386 AGAGCCATAATG
62 AGAGCCATAATG
* * *
28699398 GGAAGCTCGTGAGAACCATATAACGGGAAGCTCCAGAGAGCCATATATCGGGATGCTCATAAGAG
1 GGAAGCTCGTGAGAACCATATAACAGGAAGCTCCAAAGAGCCATATATCGGGAAGCTCATAAGAG
28699463 TTGTGGTGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
72 3 0.05
73 49 0.86
74 5 0.09
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.17
Consensus pattern (73 bp):
GGAAGCTCGTGAGAACCATATAACAGGAAGCTCCAAAGAGCCATATATCGGGAAGCTCATAAGAG
CCATAATG
Found at i:28699427 original size:98 final size:98
Alignment explanation
Indices: 28699239--28699462 Score: 233
Period size: 98 Copynumber: 2.3 Consensus size: 98
28699229 ACTCTCTTTC
* ** *
28699239 GAGCCATGTAAT-AAGAAGCTCATGTGAGCCATGTAACGGGAAGCTCATACGAGCCAATATCGAG
1 GAGCCAT-TAATCAGGAAGCTCATAAGAGCCATGTAACGGGAAGCTCATAAGAGCCAATATCGAG
* * * *
28699303 AAGTTCAAGCGAACCAATATCAGGAAGCTCCGGA
65 AAGCTCAAGAGAACCAATAACAGGAAGCTCCAGA
* *
28699337 GAGCCATTAATCAGGAAGCTCATAAGAGCCA-GTTATCGGGAAGCTCATAAGAGCC-ATAAT-GG
1 GAGCCATTAATCAGGAAGCTCATAAGAGCCATG-TAACGGGAAGCTCATAAGAGCCAAT-ATCGA
** *
28699399 GAAGCTCGTGAGAACCATATAACGGGAAGCTCCAGA
64 GAAGCTCAAGAGAACCA-ATAACAGGAAGCTCCAGA
* *
28699435 GAGCCA-TATATCGGGATGCTCATAAGAG
1 GAGCCATTA-ATCAGGAAGCTCATAAGAG
28699463 TTGTGGTGTG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
97 23 0.22
98 83 0.78
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (98 bp):
GAGCCATTAATCAGGAAGCTCATAAGAGCCATGTAACGGGAAGCTCATAAGAGCCAATATCGAGA
AGCTCAAGAGAACCAATAACAGGAAGCTCCAGA
Found at i:28699438 original size:48 final size:49
Alignment explanation
Indices: 28699325--28699461 Score: 136
Period size: 48 Copynumber: 2.8 Consensus size: 49
28699315 ACCAATATCA
* * *
28699325 GGAAGCTCCGGAGAGCCATTAATCAGGAAGCTCATAAGAGCCAGTTATCG
1 GGAAGCTCCAGAGAGCCA-TAATCAGGAAGCTCATAAGAACCAGTTAACG
* * * *
28699375 GGAAGCT-CATAAGAGCCATAAT-GGGAAGCTCGTGAGAACCA-TATAACG
1 GGAAGCTCCA-GAGAGCCATAATCAGGAAGCTCATAAGAACCAGT-TAACG
* *
28699423 GGAAGCTCCAGAGAGCCATATATCGGGATGCTCATAAGA
1 GGAAGCTCCAGAGAGCCATA-ATCAGGAAGCTCATAAGA
28699462 GTTGTGGTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
47 1 0.01
48 35 0.49
49 9 0.13
50 26 0.37
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (49 bp):
GGAAGCTCCAGAGAGCCATAATCAGGAAGCTCATAAGAACCAGTTAACG
Found at i:28699462 original size:25 final size:25
Alignment explanation
Indices: 28699253--28699462 Score: 148
Period size: 25 Copynumber: 8.6 Consensus size: 25
28699243 CATGTAATAA
** * *
28699253 GAAGCTCATGTGAGCCATGTAACGG
1 GAAGCTCATAAGAGCCATATATCGG
* *
28699278 GAAGCTCATACGAGCCA-ATATCGA
1 GAAGCTCATAAGAGCCATATATCGG
* * * *
28699302 GAAGTTCA-AGCGAACCA-ATATCAG
1 GAAGCTCATA-AGAGCCATATATCGG
*** *
28699326 GAAGCTCCGGAGAGCCAT-TAATCAG
1 GAAGCTCATAAGAGCCATAT-ATCGG
28699351 GAAGCTCATAAGAGCCAGT-TATCGG
1 GAAGCTCATAAGAGCCA-TATATCGG
28699376 GAAGCTCATAAGAGCCATA-AT-GG
1 GAAGCTCATAAGAGCCATATATCGG
* * * *
28699399 GAAGCTCGTGAGAACCATATAACGG
1 GAAGCTCATAAGAGCCATATATCGG
*
28699424 GAAGCTCCA-GAGAGCCATATATCGG
1 GAAGCT-CATAAGAGCCATATATCGG
*
28699449 GATGCTCATAAGAG
1 GAAGCTCATAAGAG
28699463 TTGTGGTGTG
Statistics
Matches: 148, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
23 19 0.13
24 40 0.27
25 86 0.58
26 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.18
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCATATATCGG
Found at i:28699558 original size:105 final size:105
Alignment explanation
Indices: 28699418--28699611 Score: 253
Period size: 105 Copynumber: 1.8 Consensus size: 105
28699408 GAGAACCATA
* ** * * * * *
28699418 TAACGGGAAGCTCCAGAGAGCCATATATCGGGATGCTCATAAGAGTTGTGGTGTGTCCGCAATAC
1 TAACGGGAAGCTCCAGAGAGCCAAATATCAAGATGCTCATAAGAGCTATAGTGTGTCCACAACAC
*
28699483 ATGCAGGATCACAACCAATCGGGATGCTCCGAAGAGCTAT
66 ATGCAAGATCACAACCAATCGGGATGCTCCGAAGAGCTAT
** * *
28699523 TAACGGGAAGCTCGTGAGAGCCAAATATCAAGATGCTCGTAAGAGCTATAGTGTGTGCACAACAC
1 TAACGGGAAGCTCCAGAGAGCCAAATATCAAGATGCTCATAAGAGCTATAGTGTGTCCACAACAC
* *
28699588 ATGCAAGATCATAGCCAATCGGGA
66 ATGCAAGATCACAACCAATCGGGA
28699612 ACCCTGTATC
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 74 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (105 bp):
TAACGGGAAGCTCCAGAGAGCCAAATATCAAGATGCTCATAAGAGCTATAGTGTGTCCACAACAC
ATGCAAGATCACAACCAATCGGGATGCTCCGAAGAGCTAT
Found at i:28699918 original size:21 final size:21
Alignment explanation
Indices: 28699892--28699937 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
28699882 TATATGAATG
28699892 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTTAATAC
*
28699913 AATTTACATTCAATTTAATCC
1 AATTTACATTCAATTTAATAC
28699934 AATT
1 AATT
28699938 CGCATCTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTACATTCAATTTAATAC
Found at i:28702881 original size:23 final size:24
Alignment explanation
Indices: 28702828--28702881 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
28702818 AGTGAAATGA
**
28702828 TAGTAAAATAGTAAAAAAAACAAC
1 TAGTAAAATAACAAAAAAAACAAC
28702852 TAG-AAAATAACAAAAGAAAA-AAC
1 TAGTAAAATAACAAAA-AAAACAAC
28702875 -AGTAAAA
1 TAGTAAAA
28702882 CCAAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 17 0.65
24 7 0.27
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.13
Consensus pattern (24 bp):
TAGTAAAATAACAAAAAAAACAAC
Found at i:28703065 original size:26 final size:27
Alignment explanation
Indices: 28703007--28703077 Score: 101
Period size: 26 Copynumber: 2.6 Consensus size: 27
28702997 AAAAATAAAA
*
28703007 ATTTACCAAAATGT-TATAACTTTTTTTT
1 ATTTACCAAAATATATATAA--TTTTTTT
28703035 ATTTACCAAAATATATATAA-TTTTTT
1 ATTTACCAAAATATATATAATTTTTTT
28703061 ATTTACCAAAATATATA
1 ATTTACCAAAATATATA
28703078 AAAAACAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 23 0.56
28 13 0.32
29 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (27 bp):
ATTTACCAAAATATATATAATTTTTTT
Found at i:28703173 original size:27 final size:27
Alignment explanation
Indices: 28703143--28703209 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
28703133 CGCCAATGGT
*
28703143 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTACCAAAACC
* *
28703170 ATTGGCGGCACCAATGGTACCAATACC
1 ATTGGCGGCACCAAAGGTACCAAAACC
28703197 ATTGGCGGCACCA
1 ATTGGCGGCACCA
28703210 GTTAATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTACCAAAACC
Found at i:28703260 original size:4 final size:4
Alignment explanation
Indices: 28703251--28703388 Score: 92
Period size: 4 Copynumber: 34.0 Consensus size: 4
28703241 GAAGGAGAGG
* *
28703251 GAAA GAAA GAAA GAAA GAAA GAAA TGAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
* *
28703299 GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA G-AA
1 GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA
* *
28703346 GAAAA GGAAAA GAGAA GAAA -AAA TAAA GAAA GAAG GAAA GAAA
1 G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
28703389 AGGAAAGGAG
Statistics
Matches: 110, Mismatches: 11, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
3 18 0.16
4 64 0.58
5 21 0.19
6 7 0.06
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:28703286 original size:18 final size:17
Alignment explanation
Indices: 28703251--28703334 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 17
28703241 GAAGGAGAGG
*
28703251 GAAAGAAAGA-AAGAAA
1 GAAAGAAAGAGAGGAAA
28703267 GAAAGAAATGAGAGGAAA
1 GAAAGAAA-GAGAGGAAA
*
28703285 GAAAGAAAAAGAAGGAAA
1 GAAAGAAAGAG-AGGAAA
28703303 GAAAAGGAAAGGAGAAGAGAAA
1 G-AAA-GAAA-GAG-AG-GAAA
*
28703325 AAAAGAAAGA
1 GAAAGAAAGA
28703335 AAGAAGAAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.14
17 4 0.07
18 20 0.35
19 5 0.09
20 8 0.14
21 8 0.14
22 4 0.07
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (17 bp):
GAAAGAAAGAGAGGAAA
Found at i:28703312 original size:24 final size:23
Alignment explanation
Indices: 28703253--28703355 Score: 78
Period size: 22 Copynumber: 4.7 Consensus size: 23
28703243 AGGAGAGGGA
28703253 AAGAAAG-AAA-GAAAGAAAGAA-
1 AAGAAAGAAAAGGAAAGAAA-AAG
* * *
28703274 ATGAGAGGAAA-GAAAGAAAAAG
1 AAGAAAGAAAAGGAAAGAAAAAG
* *
28703296 AAGGAAAGAAAAGGAAAGGAGAAG
1 AA-GAAAGAAAAGGAAAGAAAAAG
28703320 -AGAAA-AAAA-GAAAGAAAGAAG
1 AAGAAAGAAAAGGAAAGAAA-AAG
28703341 AAG-AAGAAAAGGAAA
1 AAGAAAGAAAAGGAAA
28703356 AGAGAAGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
20 6 0.09
21 16 0.25
22 22 0.34
23 12 0.18
24 9 0.14
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (23 bp):
AAGAAAGAAAAGGAAAGAAAAAG
Found at i:28703330 original size:44 final size:44
Alignment explanation
Indices: 28703282--28703423 Score: 192
Period size: 43 Copynumber: 3.4 Consensus size: 44
28703272 AAATGAGAGG
28703282 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
*
28703326 AAAGAAAGAAAGAAGAA-G-AAGAAAAGGAAAAGAG-A-AG-AAA
1 AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
*
28703366 AAATAAAG--AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
*
28703408 AAAG-AAGAAGAAGAAG
1 AAAGAAAGAAAAAGAAG
28703424 AGGGATGGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
37 5 0.06
38 2 0.02
39 15 0.18
40 11 0.13
41 7 0.08
42 7 0.08
43 21 0.25
44 12 0.14
45 5 0.06
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (44 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
Found at i:28703333 original size:48 final size:46
Alignment explanation
Indices: 28703282--28703413 Score: 162
Period size: 44 Copynumber: 3.1 Consensus size: 46
28703272 AAATGAGAGG
28703282 AAAGAAAG-AA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
*
28703326 AAAGAAAGAAAG-AAGAA-G-AAGAAAAGG--A--A-AAGAG-AAG
1 AAAGAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
*
28703363 AAA-AAATAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
28703408 AAAGAA
1 AAAGAA
28703414 GAAGAAGAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 22
0.74 0.03 0.22
Matches are distributed among these distances:
36 7 0.10
37 10 0.14
38 6 0.08
39 10 0.14
41 2 0.03
43 10 0.14
44 14 0.19
45 12 0.16
46 2 0.03
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (46 bp):
AAAGAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
Found at i:28703338 original size:18 final size:19
Alignment explanation
Indices: 28703258--28703413 Score: 101
Period size: 21 Copynumber: 7.9 Consensus size: 19
28703248 AGGGAAAGAA
*
28703258 AGAA-AGAAAGAAAGAAATG
1 AGAAGAGAAAAAAAGAAA-G
* *
28703277 AG-AG-GAAAGAAAGAAAA
1 AGAAGAGAAAAAAAGAAAG
28703294 AGAAG-GAAAGAAAAGGAAAGG
1 AGAAGAGAAA-AAAA-GAAA-G
28703315 AGAAGAGAAAAAAAGAAAG
1 AGAAGAGAAAAAAAGAAAG
*
28703334 AAAGAAGAAGAAGAAAAGGAAAAG
1 --AGAAG-AGAA-AAAAAG-AAAG
*
28703358 AGAAGAAAAAATAAAG-AA-
1 AGAAGAGAAAA-AAAGAAAG
28703376 AGAAG-GAAAGAAAAGGAAAGG
1 AGAAGAGAAA-AAAA-GAAA-G
28703397 AGAAGAGAAAAAAAGAA
1 AGAAGAGAAAAAAAGAA
28703414 GAAGAAGAAG
Statistics
Matches: 112, Mismatches: 7, Indels: 35
0.73 0.05 0.23
Matches are distributed among these distances:
17 8 0.07
18 26 0.23
19 10 0.09
20 13 0.12
21 29 0.26
22 17 0.15
23 5 0.04
24 4 0.04
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (19 bp):
AGAAGAGAAAAAAAGAAAG
Found at i:28703368 original size:74 final size:72
Alignment explanation
Indices: 28703242--28703424 Score: 189
Period size: 82 Copynumber: 2.5 Consensus size: 72
28703232 TGGGGGGCAG
* * * *
28703242 AAGGAG-AGGGAAAGAAAGAAAGAAAGAAAGAA-ATGAGAGGAAAGAAAG-AA-AAAGAAGGAAA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAG-AAGAAGAAGAAAGGAAAGAAAGAAAGAAAGAAGGAAA
28703303 GAAAAGGA
65 GAAAAGGA
28703311 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAATAAAGAA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAG-AAAGG-AAAGA-AAG-------AAAGAA
28703376 AGAAGGAAAGAAAAGGA
56 AGAAGGAAAGAAAAGGA
28703393 AAGGAGAAGAGAAAAAAAG-AAG-AAGAAGAAGA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGA
28703425 GGGATGGAAG
Statistics
Matches: 96, Mismatches: 4, Indels: 17
0.82 0.03 0.15
Matches are distributed among these distances:
69 11 0.11
70 20 0.21
71 4 0.04
72 5 0.05
73 3 0.03
80 10 0.10
81 5 0.05
82 38 0.40
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (72 bp):
AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAGAAAGGAAAGAAAGAAAGAAAGAAGGAAAG
AAAAGGA
Found at i:28703438 original size:44 final size:41
Alignment explanation
Indices: 28703302--28703425 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 41
28703292 AAAGAAGGAA
28703302 AGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAG
1 AGAAAAGGAAAGGAGAAGAGAAAAAAAG-AAGAAAGAAGAAG
* *
28703344 AAGAAAAGGAAAAGAGAAGA-AAAAATA-AAGAAAGAAGGAA-
1 -AGAAAAGGAAAGGAGAAGAGAAAAAAAGAAGAAAGAA-GAAG
28703384 AGAAAAGGAAAGGAGAAGAGAAAAAAAGAAG-AAGAAGAAG
1 AGAAAAGGAAAGGAGAAGAGAAAAAAAGAAGAAAGAAGAAG
28703424 AG
1 AG
28703426 GGATGGAAGG
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
39 21 0.29
40 22 0.30
41 6 0.08
42 6 0.08
43 18 0.25
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (41 bp):
AGAAAAGGAAAGGAGAAGAGAAAAAAAGAAGAAAGAAGAAG
Found at i:28704610 original size:162 final size:154
Alignment explanation
Indices: 28704326--28704833 Score: 460
Period size: 160 Copynumber: 3.2 Consensus size: 154
28704316 TATAATATTT
* *
28704326 TTTAAAGTAAT-AAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTA
1 TTTAAAGTAATAAAAAT-C-GAGAAAATAATACGAACAAAGGGCAGAAGTAAGAGTG------TA
* * * * * * *
28704390 ACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGTACTGAAATAATATA
58 ACTTTTACAAAATTTAGAAATAATCAATACAAAAAATTTCAAACAAAAGGCACTGAAATAATATA
28704455 AAACAATAAAATACGAGAATAATATATTTTTA
123 AAACAATAAAATACGAGAATAATATATTTTTA
* * * **
28704487 TTTAAAGTAATAAAAATCGAGAAAATAATACGAGCAAAGGGCATG-GGTAAGGGT-TATTTTTTT
1 TTTAAAGTAATAAAAATCGAGAAAATAATACGAACAAAGGGCA-GAAGTAAGAGTGTA-ACTTTT
** * **
28704550 ACACCAAATTAATTTAAATAA-CACACTAGAGTAATAAATTTCAAACATTAGGCACTGAAATAAT
64 ACA--AAATT--TAGAAATAATCA-A-TACA--AA-AAATTTCAAACAAAAGGCACTGAAATAAT
* ** *
28704614 GTAAAATTATAAAATTA-GA-AAT--TATGATATTT-
120 ATAAAACAATAAAA-TACGAGAATAATAT-ATTTTTA
* *
28704646 TTTAAAGTAAT-AAAATGCGAAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTAACTTTT
1 TTTAAAGTAATAAAAAT-CG-AGAAAATAATACGAACAAAGGGCAGAAGTAAGAGTGTAACTTTT
* * * * * *
28704710 ATAAAATTTAGAAATAATTAATACAAAATATTTCAAAGAAAATGTACTGAAATAATATAAAACAA
64 ACAAAATTTAGAAATAATCAATACAAAAAATTTCAAACAAAAGGCACTGAAATAATATAAAACAA
28704775 TAAAATACGAGAATAATATATTTTTA
129 TAAAATACGAGAATAATATATTTTTA
28704801 TTTAAAGTAATAAAAATCGAGAAAATAATACGA
1 TTTAAAGTAATAAAAATCGAGAAAATAATACGA
28704834 CCCGTCCAGG
Statistics
Matches: 276, Mismatches: 46, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
151 2 0.01
152 36 0.13
153 7 0.03
154 24 0.09
155 19 0.07
156 18 0.07
157 2 0.01
158 17 0.06
159 20 0.07
160 68 0.25
161 20 0.07
162 41 0.15
163 2 0.01
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (154 bp):
TTTAAAGTAATAAAAATCGAGAAAATAATACGAACAAAGGGCAGAAGTAAGAGTGTAACTTTTAC
AAAATTTAGAAATAATCAATACAAAAAATTTCAAACAAAAGGCACTGAAATAATATAAAACAATA
AAATACGAGAATAATATATTTTTA
Found at i:28704795 original size:314 final size:316
Alignment explanation
Indices: 28704247--28704833 Score: 991
Period size: 314 Copynumber: 1.8 Consensus size: 316
28704237 TATTCCCCCT
* * * *
28704247 TAACACACTAAATTAATAAATTTTAAATATGATGCACTGAAATAATGTAAAATTATAAAAGACTA
1 TAACACACTAAAGTAATAAATTTCAAACATGAGGCACTGAAATAATGTAAAATTATAAAAGACTA
** *
28704312 AGTTTATAATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAA
66 AAATTATAATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAGAAGTAA
28704377 GAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGTA
131 GAGTG---T--TAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGTA
28704442 CTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGA
191 CTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGA
28704507 GAAAATAATACGAGCAAAGGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
256 GAAAATAATACGAGCAAAGGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
* * *
28704568 TAACACACTAGAGTAATAAATTTCAAACATTAGGCACTGAAATAATGTAAAATTAT-AAA-ATTA
1 TAACACACTAAAGTAATAAATTTCAAACATGAGGCACTGAAATAATGTAAAATTATAAAAGACTA
*
28704631 GAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAGAAGTA
66 -AAATTATAATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAGAAGTA
*
28704696 AGAGTG-TAACTTTTATAAAATTTAGAAATAATTAATACAAAATATTTCAAAGAAAATGTACTGA
130 AGAGTGTTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGTACTGA
28704760 AATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGAAA
195 AATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGAAA
28704825 ATAATACGA
260 ATAATACGA
28704834 CCCGTCCAGG
Statistics
Matches: 253, Mismatches: 12, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
314 131 0.52
319 3 0.01
320 69 0.27
321 50 0.20
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (316 bp):
TAACACACTAAAGTAATAAATTTCAAACATGAGGCACTGAAATAATGTAAAATTATAAAAGACTA
AAATTATAATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAGAAGTAA
GAGTGTTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGTACTGAA
ATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGAAAA
TAATACGAGCAAAGGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
Found at i:28708722 original size:19 final size:21
Alignment explanation
Indices: 28708693--28708737 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
28708683 TCTCTCTCAA
28708693 CAAAAATTACAAA-TAATTTT
1 CAAAAATTACAAAGTAATTTT
28708713 CAAAAA-TACAAAGTAATTTT
1 CAAAAATTACAAAGTAATTTT
*
28708733 TAAAA
1 CAAAA
28708738 TTCCAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (21 bp):
CAAAAATTACAAAGTAATTTT
Found at i:28708744 original size:20 final size:19
Alignment explanation
Indices: 28708695--28708745 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
28708685 TCTCTCAACA
28708695 AAAATTACAAATAATTTTC
1 AAAATTACAAATAATTTTC
* *
28708714 AAAAATACAAAGTAATTTTT
1 AAAATTACAAA-TAATTTTC
*
28708734 AAAATTCCAAAT
1 AAAATTACAAAT
28708746 TTTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTACAAATAATTTTC
Found at i:28709704 original size:11 final size:12
Alignment explanation
Indices: 28709680--28709712 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
28709670 TAAAAATTCA
28709680 AAAATAACAATTT
1 AAAATAA-AATTT
28709693 AAAA-AAAATTT
1 AAAATAAAATTT
28709704 AAAATAAAA
1 AAAATAAAA
28709713 AAATTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 6 0.32
13 4 0.21
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAAAATTT
Found at i:28714699 original size:43 final size:43
Alignment explanation
Indices: 28714637--28714807 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
28714627 CATAGGATTT
* *
28714637 TCGATGTGTGTTT-TCGTGTAAGACCACGTCTGGGACGTTGGCG
1 TCGATTTGTGTTTAT-GTGTAAGACCACGTCTGGGACGTTGGCA
* * *
28714680 TCGATTTGTGTTTATGTGTAAGACCATGTCTTGGACATTGGCA
1 TCGATTTGTGTTTATGTGTAAGACCACGTCTGGGACGTTGGCA
** *
28714723 TCGTATTT-AATTCATG-G-AAGACC-CTGTCTGGGACAG-TGGCA
1 TCG-ATTTGTGTTTATGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * ** *
28714764 TCGATATGTGATTACATGTAAAACCACGTCTGGGACGTTGGCA
1 TCGATTTGTGTTTATGTGTAAGACCACGTCTGGGACGTTGGCA
28714807 T
1 T
28714808 TGTACGAGCC
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
40 3 0.03
41 24 0.24
42 3 0.03
43 64 0.64
44 6 0.06
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (43 bp):
TCGATTTGTGTTTATGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:28717589 original size:17 final size:17
Alignment explanation
Indices: 28717567--28717600 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
28717557 GCATAAATGA
28717567 GATGGAAACTATAAAAC
1 GATGGAAACTATAAAAC
28717584 GATGGAAACTATAAAAC
1 GATGGAAACTATAAAAC
28717601 TCATACCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
GATGGAAACTATAAAAC
Found at i:28718616 original size:30 final size:30
Alignment explanation
Indices: 28718580--28718681 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
28718570 CGGCCAGGCG
*
28718580 CACGGGCTTGTGACCAGGTCGTGTAAGTCA
1 CACGGGCTTGTGACCAGGCCGTGTAAGTCA
28718610 CACGGGCATT-TGACCAGGCCGTGTAAGTCA
1 CACGGGC-TTGTGACCAGGCCGTGTAAGTCA
*
28718640 CACGGGCATGTGACCAGGCCGTGTAAGTCA
1 CACGGGCTTGTGACCAGGCCGTGTAAGTCA
*
28718670 CACGGGCGTGTG
1 CACGGGCTTGTG
28718682 GTAGACCGTG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
29 1 0.01
30 64 0.96
31 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (30 bp):
CACGGGCTTGTGACCAGGCCGTGTAAGTCA
Found at i:28722596 original size:41 final size:41
Alignment explanation
Indices: 28722551--28722683 Score: 187
Period size: 41 Copynumber: 3.2 Consensus size: 41
28722541 GGCTCGGTGC
** * **
28722551 CTAGCAGGCTTGATGCCAATGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
28722592 CTAGCAGGCTTG-TCGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGAT-GCCGGTGAAACATTTCAGACTTTAAGT
* *
28722633 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
28722674 CTAGCAGGCT
1 CTAGCAGGCT
28722684 AAGTGCCAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 82 0.99
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:28729525 original size:41 final size:41
Alignment explanation
Indices: 28729480--28729608 Score: 179
Period size: 41 Copynumber: 3.1 Consensus size: 41
28729470 GGCTCGGTGC
* * **
28729480 CTAGCAGGCTTGATGCCAGTGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
*
28729521 CTAGCAGGCTTG-TCGCCGGTAAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGAT-GCCGGTGAAACATTTCAGACTTTAAGT
* *
28729562 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
28729603 CTAGCA
1 CTAGCA
28729609 AGCTAAGTGC
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 77 0.99
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:28733596 original size:28 final size:28
Alignment explanation
Indices: 28733556--28733615 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
28733546 GGTAAATAGC
*
28733556 TTTTTAGCCCTCAATATTTACATTTTTT
1 TTTTTAGCCCTCAATATTTACATATTTT
* *
28733584 TTTTTAGCTCTCAATATTTATATATTTT
1 TTTTTAGCCCTCAATATTTACATATTTT
28733612 TTTT
1 TTTT
28733616 GTTAATCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.13, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTTAGCCCTCAATATTTACATATTTT
Found at i:28736160 original size:20 final size:21
Alignment explanation
Indices: 28736132--28736170 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
28736122 GTGCATGGGT
*
28736132 GCAATTTC-AGCTTTACAACA
1 GCAAGTTCAAGCTTTACAACA
*
28736152 GCAAGTTCAATCTTTACAA
1 GCAAGTTCAAGCTTTACAA
28736171 GCTGAACTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (21 bp):
GCAAGTTCAAGCTTTACAACA
Found at i:28736325 original size:12 final size:12
Alignment explanation
Indices: 28736286--28736328 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
28736276 TCGGTGGCTG
28736286 CACCACCTCCAGC
1 CACCACCTCCA-C
*
28736299 CACCA-CTCAAC
1 CACCACCTCCAC
28736310 CACCACCTCCAC
1 CACCACCTCCAC
28736322 CACCACC
1 CACCACC
28736329 ACCTCCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 6 0.22
12 16 0.59
13 5 0.19
ACGTcount: A:0.28, C:0.63, G:0.02, T:0.07
Consensus pattern (12 bp):
CACCACCTCCAC
Found at i:28741433 original size:50 final size:50
Alignment explanation
Indices: 28741345--28741548 Score: 230
Period size: 50 Copynumber: 4.1 Consensus size: 50
28741335 GCCAAAAATC
* * * * *
28741345 CTTTATAGAGAGTTCGCCACAAAAGGCTTTACAAAATATTTGCCACAAAGA
1 CTTTACAGAGAGTCCGCCAC-AAAGGCTTTACAGAATATTCGCCACAAAGG
* * *
28741396 CTTAACAGAGAGTCCACCACAAAGGCTTTACAGAATATTCGTCACAAAGG
1 CTTTACAGAGAGTCCGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
* * *
28741446 TTTTACAGAGAG-CTCGCCACAAAGGCTTTATAGAATATTCGCCATAAAGG
1 CTTTACAGAGAGTC-CGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
* * * * * *
28741496 CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCACCATAAAGG
1 CTTTACAGAGAGTCCGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
28741546 CTT
1 CTT
28741549 GGTTTGGTTT
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 113 0.87
51 16 0.12
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (50 bp):
CTTTACAGAGAGTCCGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
Found at i:28741441 original size:25 final size:25
Alignment explanation
Indices: 28741357--28741548 Score: 174
Period size: 25 Copynumber: 7.6 Consensus size: 25
28741347 TTATAGAGAG
*
28741357 TTCGCCACAAAAGGCTTTACAAAATA
1 TTCGCCAC-AAAGGCTTTACAGAATA
* * * *
28741383 TTTGCCACAAAGACTTAACAGAGA-G
1 TTCGCCACAAAGGCTTTACAGA-ATA
* *
28741408 TCCACCACAAAGGCTTTACAGAATA
1 TTCGCCACAAAGGCTTTACAGAATA
* * *
28741433 TTCGTCACAAAGGTTTTACAGAGA-G
1 TTCGCCACAAAGGCTTTACAGA-ATA
* *
28741458 CTCGCCACAAAGGCTTTATAGAATA
1 TTCGCCACAAAGGCTTTACAGAATA
* *
28741483 TTCGCCATAAAGGCTTTATAGAGA-A
1 TTCGCCACAAAGGCTTTACAGA-ATA
*
28741508 TTCGCCACAAAGGTTTTACAGAATA
1 TTCGCCACAAAGGCTTTACAGAATA
* *
28741533 TTCACCATAAAGGCTT
1 TTCGCCACAAAGGCTT
28741549 GGTTTGGTTT
Statistics
Matches: 131, Mismatches: 29, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
24 3 0.02
25 118 0.90
26 10 0.08
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (25 bp):
TTCGCCACAAAGGCTTTACAGAATA
Found at i:28741545 original size:75 final size:75
Alignment explanation
Indices: 28741345--28741548 Score: 198
Period size: 75 Copynumber: 2.7 Consensus size: 75
28741335 GCCAAAAATC
* * * * * *
28741345 CTTTATAGAGAGTTCGCCACAAAAGGCTTTACAAAATATTTGCCACAAAGACTTAACAGAGAGTC
1 CTTTATAGAGAATTCGCCAC-AAAGGTTTTACAGAATATTCGCCACAAAGGCTTAACAGAGAATC
28741410 CACCACAAAGG
65 CACCACAAAGG
* * ** * *
28741421 CTTTACAGA-ATATTCGTCACAAAGGTTTTACAGAGA-GCTCGCCACAAAGGCTTTATAGA-ATA
1 CTTTATAGAGA-ATTCGCCACAAAGGTTTTACAGA-ATATTCGCCACAAAGGCTTAACAGAGA-A
* * *
28741483 TTCGCCATAAAGG
63 TCCACCACAAAGG
* *
28741496 CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCACCATAAAGGCTT
1 CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCGCCACAAAGGCTT
28741549 GGTTTGGTTT
Statistics
Matches: 102, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
74 2 0.02
75 83 0.81
76 17 0.17
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (75 bp):
CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCGCCACAAAGGCTTAACAGAGAATCC
ACCACAAAGG
Found at i:28754402 original size:37 final size:39
Alignment explanation
Indices: 28754292--28754385 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 39
28754282 AGAAAATCAT
*
28754292 AAAAAAAT-TAAAAAT-TAT-AAAA-TATT-GAAGTG-C
1 AAAAAAATATAAAAATATATAAAAACTATTAGAAATGAC
28754325 --AAAAATATAAAAATATATAAAAACTATTAGAAATGAC
1 AAAAAAATATAAAAATATATAAAAACTATTAGAAATGAC
*
28754362 AAAAAAATAT-ATAATATATAAAAA
1 AAAAAAATATAAAAATATATAAAAA
28754386 TAGTTCAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
31 6 0.12
32 7 0.14
33 3 0.06
34 4 0.08
35 4 0.08
36 5 0.10
37 1 0.02
38 13 0.25
39 8 0.16
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (39 bp):
AAAAAAATATAAAAATATATAAAAACTATTAGAAATGAC
Found at i:28754470 original size:16 final size:15
Alignment explanation
Indices: 28754436--28754481 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
28754426 ATAAACTAAA
28754436 AAAATATAAATTATG
1 AAAATATAAATTATG
28754451 AAAATATGAAATT-TG
1 AAAATAT-AAATTATG
28754466 TAAAA-A-AAATTATG
1 -AAAATATAAATTATG
28754480 AA
1 AA
28754482 TTTTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.25
14 2 0.07
15 10 0.36
16 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (15 bp):
AAAATATAAATTATG
Found at i:28755041 original size:19 final size:18
Alignment explanation
Indices: 28755019--28755058 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
28755009 TCAATTTTAA
28755019 ATAATTATTAATATTTTTT
1 ATAATTATTAA-ATTTTTT
*
28755038 ATAATTTTTAAATTTTTT
1 ATAATTATTAAATTTTTT
28755056 ATA
1 ATA
28755059 GTTTGAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATAATTATTAAATTTTTT
Found at i:28755161 original size:10 final size:10
Alignment explanation
Indices: 28755146--28755182 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
28755136 ATTCAAGATG
28755146 TAATTTTTAT
1 TAATTTTTAT
28755156 TAATTTTT-T
1 TAATTTTTAT
28755165 TAATTATTTAT
1 TAATT-TTTAT
28755176 T-ATTTTT
1 TAATTTTT
28755183 GAAAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.36
10 14 0.56
11 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TAATTTTTAT
Found at i:28755180 original size:19 final size:19
Alignment explanation
Indices: 28755146--28755182 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
28755136 ATTCAAGATG
28755146 TAATTTTTATTAATTTTTT
1 TAATTTTTATTAATTTTTT
28755165 TAATTATTTATT-ATTTTT
1 TAATT-TTTATTAATTTTT
28755183 GAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TAATTTTTATTAATTTTTT
Found at i:28755963 original size:15 final size:15
Alignment explanation
Indices: 28755943--28755972 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
28755933 ATTTAGTATG
28755943 GGATAATCTTGTTGT
1 GGATAATCTTGTTGT
28755958 GGATAATCTTGTTGT
1 GGATAATCTTGTTGT
28755973 TTAATGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
GGATAATCTTGTTGT
Found at i:28756059 original size:19 final size:20
Alignment explanation
Indices: 28756018--28756059 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
28756008 TATAAAATTT
28756018 ATTGATGAATATTTTATATA
1 ATTGATGAATATTTTATATA
*
28756038 ATTGGTGAATATTTTA-ATA
1 ATTGATGAATATTTTATATA
28756057 ATT
1 ATT
28756060 TTATTTAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTGATGAATATTTTATATA
Found at i:28756923 original size:13 final size:13
Alignment explanation
Indices: 28756897--28756935 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
28756887 ACCTAAGTCC
28756897 ATAACAGAAACAA
1 ATAACAGAAACAA
* *
28756910 ATATCAGAATCAA
1 ATAACAGAAACAA
28756923 ATAACAGATAACA
1 ATAACAGA-AACA
28756936 GATCAGACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (13 bp):
ATAACAGAAACAA
Found at i:28759231 original size:10 final size:10
Alignment explanation
Indices: 28759216--28759273 Score: 59
Period size: 9 Copynumber: 6.1 Consensus size: 10
28759206 GATTCGTTTC
28759216 AATTTTTTAT
1 AATTTTTTAT
**
28759226 AATTTTAAAT
1 AATTTTTTAT
* *
28759236 AATTATTAAT
1 AATTTTTTAT
28759246 -ATTTTTTAT
1 AATTTTTTAT
28759255 AA-TTTTTA-
1 AATTTTTTAT
28759263 AATTTTTTAT
1 AATTTTTTAT
28759273 A
1 A
28759274 GTTTAGAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 2 0.05
9 19 0.49
10 18 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:28762245 original size:20 final size:20
Alignment explanation
Indices: 28762203--28762242 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
28762193 TATAAAATTT
28762203 ATTGATGAATATTTTATATA
1 ATTGATGAATATTTTATATA
*
28762223 ATTGGTGAATATTTTA-ATA
1 ATTGATGAATATTTTATATA
28762242 A
1 A
28762243 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTGATGAATATTTTATATA
Found at i:28763076 original size:11 final size:11
Alignment explanation
Indices: 28763045--28763126 Score: 61
Period size: 11 Copynumber: 7.9 Consensus size: 11
28763035 GGCCCATTTT
28763045 TATTTTAAAAA
1 TATTTTAAAAA
**
28763056 -ATTAAAAAAA
1 TATTTTAAAAA
28763066 GTATTTTAAAAA
1 -TATTTTAAAAA
28763078 TATTTT--AAA
1 TATTTTAAAAA
28763087 -A--TTAAAAA
1 TATTTTAAAAA
* *
28763095 -AATTAAAAAA
1 TATTTTAAAAA
28763105 GTATTTTAAAAA
1 -TATTTTAAAAA
28763117 TATTTTAAAA
1 TATTTTAAAA
28763127 TAAAAAATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
6 2 0.04
8 5 0.09
9 3 0.05
10 14 0.25
11 16 0.29
12 16 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:28763144 original size:37 final size:38
Alignment explanation
Indices: 28763049--28763176 Score: 195
Period size: 37 Copynumber: 3.3 Consensus size: 38
28763039 CATTTTTATT
28763049 TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAA
28763088 TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TT-AAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
* * *
28763127 -TAAAAAATTAAACAAGTATGTAAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
*
28763164 TTAAAAAAATAAA
1 TTAAAAAATTAAA
28763177 TATATTTATT
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
37 33 0.40
38 12 0.14
39 30 0.36
40 8 0.10
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (38 bp):
TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:28763797 original size:43 final size:42
Alignment explanation
Indices: 28763737--28764021 Score: 306
Period size: 43 Copynumber: 6.7 Consensus size: 42
28763727 TGGTCTATAG
* * * *
28763737 CGGCGCTTGTCCAACAAACGCCACTAAAGACAATGATCGTTAA
1 CGGCGCTTTTCCCACAAACGCCGCTAAAGAC-ATGATCTTTAA
* * * * *
28763780 CGGCACTTTTCGCACAAACGCCGCGAAAGACCCTGATCTTTAG
1 CGGCGCTTTTCCCACAAACGCCGCTAAAGA-CATGATCTTTAA
* * *
28763823 CGGCGCTTTTACCACAAACGCCGCTAAAGAGCATGGTCTTTAG
1 CGGCGCTTTTCCCACAAACGCCGCTAAAGA-CATGATCTTTAA
* *
28763866 CGGCGCTTCTCCCACAAACGCCGCTAAAGACCCTCG-TCTTTAA
1 CGGCGCTTTTCCCACAAACGCCGCTAAAGA-CAT-GATCTTTAA
* *
28763909 CGGCGCTTTTCCCACAAACGCCGCTAAAGAGCATGGTCTTTAG
1 CGGCGCTTTTCCCACAAACGCCGCTAAAGA-CATGATCTTTAA
*
28763952 CGGCACTTTTCCCACAAACGCCGCTAAAGA-ACT-AGTCTTTAA
1 CGGCGCTTTTCCCACAAACGCCGCTAAAGACA-TGA-TCTTTAA
* *
28763994 CGGCGCTTTTTCCACAAACGCCACTAAA
1 CGGCGCTTTTCCCACAAACGCCGCTAAA
28764022 TTTGGCAGAT
Statistics
Matches: 206, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
41 1 0.00
42 33 0.16
43 170 0.83
44 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (42 bp):
CGGCGCTTTTCCCACAAACGCCGCTAAAGACATGATCTTTAA
Found at i:28763882 original size:86 final size:85
Alignment explanation
Indices: 28763737--28764021 Score: 371
Period size: 86 Copynumber: 3.3 Consensus size: 85
28763727 TGGTCTATAG
* * * * *
28763737 CGGCGCTTGTCCAACAAACGCCACTAAAGA-CAATGATCGTTAACGGCACTTTTCGCACAAACGC
1 CGGCGCTTTTCC-ACAAACGCCACTAAAGAGC-ATGGTCTTTAGCGGCACTTTTCCCACAAACGC
* *
28763801 CGCGAAAGACCCTGATCTTTAG
64 CGCTAAAGACCCTGATCTTTAA
* * *
28763823 CGGCGCTTTTACCACAAACGCCGCTAAAGAGCATGGTCTTTAGCGGCGCTTCTCCCACAAACGCC
1 CGGCGCTTTT-CCACAAACGCCACTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCC
28763888 GCTAAAGACCCTCG-TCTTTAA
65 GCTAAAGACCCT-GATCTTTAA
*
28763909 CGGCGCTTTTCCCACAAACGCCGCTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCC
1 CGGCGCTTTT-CCACAAACGCCACTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCC
*
28763974 GCTAAAGA-ACT-AGTCTTTAA
65 GCTAAAGACCCTGA-TCTTTAA
28763994 CGGCGCTTTTTCCACAAACGCCACTAAA
1 CGGCGC-TTTTCCACAAACGCCACTAAA
28764022 TTTGGCAGAT
Statistics
Matches: 178, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
85 31 0.17
86 143 0.80
87 4 0.02
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (85 bp):
CGGCGCTTTTCCACAAACGCCACTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCCG
CTAAAGACCCTGATCTTTAA
Found at i:28763949 original size:129 final size:128
Alignment explanation
Indices: 28763712--28764021 Score: 390
Period size: 129 Copynumber: 2.4 Consensus size: 128
28763702 TAGAAATAAG
* * *
28763712 CGCCGCTAAAG-GTCTTGGTCTATAGCGGCGCTTGTCCAACAAACGCCACTAAAGACAATGATCG
1 CGCCGCTAAAGAG-C-TGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACAATGATCG
* * *
28763776 TTAACGGCACTTTTCGCACAAACGCCGCGAAAGACCCTGATCTTTAGCGGCGCTTTTACCACAAA
64 TTAACGGCACTTTTCCCACAAACGCCGCGAAAGACCATGATCTTTAGCGGCACTTTTACCACAAA
* ** *
28763841 CGCCGCTAAAGAGCATGGTCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCCTCG-TCT
1 CGCCGCTAAAGAGC-TGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACAAT-GATCG
* * * * *
28763905 TTAACGGCGCTTTTCCCACAAACGCCGCTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAA
64 TTAACGGCACTTTTCCCACAAACGCCGCGAAAGACCATGATCTTTAGCGGCACTTTTACCACAAA
* * * * *
28763970 CGCCGCTAAAGAACTAGTCTTTAACGGCGCTTTTTCCACAAACGCCACTAAA
1 CGCCGCTAAAGAGCTGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAA
28764022 TTTGGCAGAT
Statistics
Matches: 157, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
128 33 0.21
129 122 0.78
130 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (128 bp):
CGCCGCTAAAGAGCTGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACAATGATCGTT
AACGGCACTTTTCCCACAAACGCCGCGAAAGACCATGATCTTTAGCGGCACTTTTACCACAAA
Found at i:28764366 original size:21 final size:21
Alignment explanation
Indices: 28764340--28764418 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 21
28764330 TTTGACGCTG
28764340 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
28764361 CTCTGCTGCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
* ** *
28764382 CTCTACTTCTTTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
28764403 CTCTGCTTCTCTCGCT
1 CTCTGCTTCCCTCGCT
28764419 ACCGCATCTG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.06, C:0.43, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:28764428 original size:21 final size:21
Alignment explanation
Indices: 28764340--28764431 Score: 94
Period size: 21 Copynumber: 4.4 Consensus size: 21
28764330 TTTGACGCTG
*
28764340 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTACAGC
*
28764361 CTCTGCTGCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTACAGC
* ** * *
28764382 CTCTACTTCTTTTGCTGCAGC
1 CTCTGCTTCCCTCGCTACAGC
* *
28764403 CTCTGCTTCTCTCGCTACCGC
1 CTCTGCTTCCCTCGCTACAGC
*
28764424 ATCTGCTT
1 CTCTGCTT
28764432 TAAGCTGCTG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.08, C:0.42, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACAGC
Found at i:28764492 original size:66 final size:66
Alignment explanation
Indices: 28764422--28764568 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
28764412 TCTCGCTACC
* *
28764422 GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCCCT
1 GCATCTGCTTTAAG-TGATAGCTGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCCAT
28764485 GTT
64 GTT
* * *
28764488 GCATCTGCTTTAAGTTATAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGT
1 GCATCTGCTTTAAGTGATAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCCATGT
28764553 T
66 T
* *
28764554 GCCTCCGCTTTAAGT
1 GCATCTGCTTTAAGT
28764569 TGTGTAATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.03
66 66 0.92
67 4 0.06
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.41
Consensus pattern (66 bp):
GCATCTGCTTTAAGTGATAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCCATGT
T
Found at i:28765664 original size:43 final size:43
Alignment explanation
Indices: 28765596--28765843 Score: 277
Period size: 43 Copynumber: 5.8 Consensus size: 43
28765586 GCGTCGCTAA
* * *
28765596 CTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACAAC
* *
28765639 CTTTAGCGGCGCTTTCTCTC-CAAACGCTGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTT-TCTCACAAACGCCGCTAAAGACCACAAC
28765682 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACAAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACAAC
* * * * *
28765725 CTTTAACGGCGCTTTTATCACAAACGCCACTAAAGACAAAAAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACAAC
* * ** *
28765768 CTTTAGCAGCGCTTTTATCACAATTGCCACTAAAGA--ACGAAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAC-AAC
* * ** *
28765810 CTTTAGCGACGCTTCTAGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAA
28765844 AATAGAATCT
Statistics
Matches: 179, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 33 0.18
43 142 0.79
44 3 0.02
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACAAC
Found at i:28767071 original size:12 final size:12
Alignment explanation
Indices: 28767054--28767078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28767044 ATTTGATCTG
28767054 TATACTAAATGA
1 TATACTAAATGA
28767066 TATACTAAATGA
1 TATACTAAATGA
28767078 T
1 T
28767079 GCCAATATCA
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TATACTAAATGA
Found at i:28767736 original size:15 final size:13
Alignment explanation
Indices: 28767707--28767746 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 13
28767697 ACTAACCTGG
28767707 TTTAAAATAATTA
1 TTTAAAATAATTA
28767720 TTTAAAATACTATTA
1 TTTAAAATA--ATTA
28767735 TTTAAAATAATT
1 TTTAAAATAATT
28767747 TTAAAGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATAATTA
Found at i:28772164 original size:41 final size:41
Alignment explanation
Indices: 28772107--28772216 Score: 202
Period size: 41 Copynumber: 2.7 Consensus size: 41
28772097 AAATATTTTT
* *
28772107 GCGGCGCATTCTCAAAAACGCCGCTAAAAGTCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
28772148 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
28772189 GCGGCGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
28772217 GCCCCAAATG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:28772346 original size:40 final size:40
Alignment explanation
Indices: 28772269--28772377 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
28772259 TGCAAAAACG
* * * *
28772269 CCGCTAATGCTC-ATTTTTAGCGGCACTTTT-TGAAAAGCA
1 CCGCAAATGCTCAATCTTTAGCGGC-GTTTTGTGTAAAGCA
* * *
28772308 CTGCAAATGCT-AGATCTTTAGTGGCGTTTTGTGTAAAGCG
1 CCGCAAATGCTCA-ATCTTTAGCGGCGTTTTGTGTAAAGCA
* *
28772348 CCGCTAATGCTCAATTTTTAGCGGCGTTTT
1 CCGCAAATGCTCAATCTTTAGCGGCGTTTT
28772378 TCGTCCAAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
39 13 0.24
40 41 0.75
41 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
CCGCAAATGCTCAATCTTTAGCGGCGTTTTGTGTAAAGCA
Found at i:28774910 original size:11 final size:11
Alignment explanation
Indices: 28774888--28774919 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
28774878 ACAACATCCA
28774888 AACAATA-A-T
1 AACAATATAGT
28774897 AACAATATAGT
1 AACAATATAGT
28774908 AACAATATAGT
1 AACAATATAGT
28774919 A
1 A
28774920 GTGAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 7 0.33
10 1 0.05
11 13 0.62
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (11 bp):
AACAATATAGT
Found at i:28774970 original size:20 final size:20
Alignment explanation
Indices: 28774945--28774989 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
28774935 AATAGTGAAA
*
28774945 AAAAACAACAACAAAATAAT
1 AAAAACAACAACAAAACAAT
*
28774965 AAAAACAACAAGAAAACAAT
1 AAAAACAACAACAAAACAAT
28774985 AAAAA
1 AAAAA
28774990 TATAGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.78, C:0.13, G:0.02, T:0.07
Consensus pattern (20 bp):
AAAAACAACAACAAAACAAT
Found at i:28776286 original size:61 final size:58
Alignment explanation
Indices: 28776189--28776312 Score: 133
Period size: 61 Copynumber: 2.1 Consensus size: 58
28776179 TTTATTGGTT
28776189 CAAGTTAAGCCCTGAACTTAACAATTATTCCCACATTGAGG-TGTAAACTATTTTTTTTGTC
1 CAAGTTAAGCCCTGAACTTAACAATTATTCCCACATTGAGGCT-TAAA-T-TTTTTTTT-TC
* * ** * ** *
28776250 CAAGTTAGGCCCTGGACTTGGCAATTGTTCTTACATTGGGGCTTAAATTTTTTTTTTC
1 CAAGTTAAGCCCTGAACTTAACAATTATTCCCACATTGAGGCTTAAATTTTTTTTTTC
28776308 CAAGT
1 CAAGT
28776313 ATTCATTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 7 0.13
59 8 0.15
60 1 0.02
61 37 0.69
62 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (58 bp):
CAAGTTAAGCCCTGAACTTAACAATTATTCCCACATTGAGGCTTAAATTTTTTTTTTC
Found at i:28784305 original size:31 final size:32
Alignment explanation
Indices: 28784265--28784328 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
28784255 TATTTTATTT
* * *
28784265 TTATATATATAATAATTAAATACAAATACGTA
1 TTATATATATAATAAATAAATAAAAATAAGTA
*
28784297 TTAT-TATATTATAAATAAATAAAAATAAGTA
1 TTATATATATAATAAATAAATAAAAATAAGTA
28784328 T
1 T
28784329 AGAAACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (32 bp):
TTATATATATAATAAATAAATAAAAATAAGTA
Found at i:28786365 original size:21 final size:21
Alignment explanation
Indices: 28786339--28786394 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
28786329 TTTGACGCTG
28786339 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
28786360 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
28786381 CTCTGCTTCCCTCG
1 CTCTGCTTCCCTCG
28786395 TTGCAGTCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.04, C:0.45, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTTAGC
Found at i:28786450 original size:21 final size:21
Alignment explanation
Indices: 28786407--28786451 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
28786397 GCAGTCTGTA
*
28786407 CTTCTCTCGCTGCCGCCTATG
1 CTTCTCTCGCTGCCGCATATG
* *
28786428 CTTCTCTTGCTGCCGCATCTG
1 CTTCTCTCGCTGCCGCATATG
28786449 CTT
1 CTT
28786452 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.40, G:0.18, T:0.38
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCATATG
Found at i:28786512 original size:66 final size:66
Alignment explanation
Indices: 28786427--28786587 Score: 200
Period size: 66 Copynumber: 2.4 Consensus size: 66
28786417 TGCCGCCTAT
* * *
28786427 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCAGGAGTTCTTCATATCTTT-GTTGAACC
28786490 TCA
64 TCA
* * *
28786493 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCAGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCAGGAGTTCTTCATATCTTTGTTGAACCTC
28786558 A
66 A
* * * *
28786559 GCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAG
28786588 TTGTGTAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 77 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (66 bp):
GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCAGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:28792046 original size:16 final size:16
Alignment explanation
Indices: 28792025--28792084 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
28792015 ATTAAGCTAC
28792025 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
28792041 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
* *
28792057 GAAAATTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
*
28792075 GTAATTTATG
1 GTAAGTTATG
28792085 AATAATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
16 23 0.64
17 1 0.03
18 12 0.33
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:28792064 original size:25 final size:28
Alignment explanation
Indices: 28792036--28792092 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 28
28792026 TAAGTTATGT
*
28792036 ATTATGTAAGTTAT-TTA-TTATGAA-A
1 ATTATGTAAGTTATGTAATTTATGAATA
28792061 ATTATGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTATGTAATTTATGAATA
28792089 ATTA
1 ATTA
28792093 AAAATATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 14 0.50
26 2 0.07
27 7 0.25
28 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (28 bp):
ATTATGTAAGTTATGTAATTTATGAATA
Found at i:28792077 original size:34 final size:34
Alignment explanation
Indices: 28792030--28792115 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
28792020 GCTACGTAAG
** *
28792030 TTATGT-A-TTATGTAAGTTATTTATTATGAAAA
1 TTATGTAAGTTATGTAAGTTATGAATAATGAAAA
* *
28792062 TTATGTAAGTTATGTAATTTATGAATAATTAAAA
1 TTATGTAAGTTATGTAAGTTATGAATAATGAAAA
*
28792096 ATATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTT
28792116 GTAAGTTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 6 0.13
33 1 0.02
34 38 0.84
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGAATAATGAAAA
Found at i:28792111 original size:9 final size:9
Alignment explanation
Indices: 28792097--28792143 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
28792087 TAATTAAAAA
28792097 TATGTAAGT
1 TATGTAAGT
28792106 TATGTAAG-
1 TATGTAAGT
28792114 T-TGTAAGT
1 TATGTAAGT
28792122 TATGTAAG-
1 TATGTAAGT
28792130 T-TGTAAGT
1 TATGTAAGT
28792138 TATGTA
1 TATGTA
28792144 TAATATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 12 0.35
8 4 0.12
9 18 0.53
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:28792118 original size:16 final size:16
Alignment explanation
Indices: 28792099--28792143 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
28792089 ATTAAAAATA
28792099 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
28792115 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
28792131 TGTAAGTTATGTA
1 TGTAAGTTATGTA
28792144 TAATATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:28792196 original size:22 final size:22
Alignment explanation
Indices: 28792164--28792208 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
28792154 TAACTAAGTT
*
28792164 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792186 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792208 A
1 A
28792209 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:28792196 original size:31 final size:31
Alignment explanation
Indices: 28792123--28792643 Score: 501
Period size: 31 Copynumber: 17.5 Consensus size: 31
28792113 GTTGTAAGTT
*
28792123 ATGTAAG-T-TGTAAGTTATGTATAATATTAA
1 ATGTAAGTTATGTAATTTATGTATAATATT-A
*
28792153 ATAACTAAGTTATGTAATTTATGTATAATATTA
1 AT--GTAAGTTATGTAATTTATGTATAATATTA
* *
28792186 ATGTAAGTTATGT-A-TAATAT-TAA-A-TA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
28792212 A-CTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
28792242 ATGTAAGTTATGT-A--TA-ATATTA-ATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
28792268 A-CTAAGTTATGTAATTTCTGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
28792298 ATGTATGTTATGTAATTTATGTATAATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAA-T-ATTA
* *
28792331 AT-TAAGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
* *
28792362 AT-TAAGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
* *
28792393 AT-TAAGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
28792424 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
28792454 ATGTAAGTTATGT-A-TAATAT-TAA-A-TA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
28792480 A-CTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
28792510 ATGTAAGTTATGT-A--TA-ATATTA-ATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
28792536 A-CTAAGTTATGTAATTTCTGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* * *
28792566 ATGTATGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
28792598 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
28792628 ATGTAAGTTATGTAAT
1 ATGTAAGTTATGTAAT
28792644 ATCTTATATT
Statistics
Matches: 415, Mismatches: 43, Indels: 65
0.79 0.08 0.12
Matches are distributed among these distances:
25 40 0.10
26 20 0.05
27 18 0.04
28 18 0.04
29 18 0.04
30 32 0.08
31 210 0.51
32 31 0.07
33 9 0.02
34 19 0.05
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:28792204 original size:56 final size:56
Alignment explanation
Indices: 28792131--28792436 Score: 364
Period size: 56 Copynumber: 5.2 Consensus size: 56
28792121 TTATGTAAGT
28792131 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
28792187 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
* *
28792243 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTCTGTATAATATTAA
1 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
* * * * *
28792299 TGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAA
1 TGTAAGTTATGT-A--TA---AT-ATTAAATAACTAAGTTATGTAATTTATGTATAAT-ATTAA
* * * *
28792363 T-TAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAA
1 TGTAAGTTATGT-A--TA---ATATTAAATAACTAAGTTATGTAATTTATGTATAAT-ATTAA
28792425 T-TAAGTTATGTA
1 TGTAAGTTATGTA
28792437 ATTTATGTAT
Statistics
Matches: 233, Mismatches: 9, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
56 121 0.52
57 1 0.00
59 2 0.01
61 1 0.00
62 53 0.23
63 50 0.21
64 5 0.02
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.47
Consensus pattern (56 bp):
TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
Found at i:28792252 original size:22 final size:22
Alignment explanation
Indices: 28792220--28792265 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
28792210 TAACTAAGTT
*
28792220 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792242 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792264 AT
1 AT
28792266 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:28792372 original size:22 final size:22
Alignment explanation
Indices: 28792329--28792439 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 22
28792319 TATAATTAAC
* * *
28792329 TAATTAAGTTATGTAATTTATG
1 TAATTAACTAATGTAAGTTATG
28792351 TATATTAACTAAT-TAAGTTATG
1 TA-ATTAACTAATGTAAGTTATG
**
28792373 TAATT---T-ATGTATA-TTAAC
1 TAATTAACTAATGTA-AGTTATG
* * *
28792391 TAATTAAGTTATGTAATTTATG
1 TAATTAACTAATGTAAGTTATG
28792413 TATATTAACTAAT-TAAGTTATG
1 TA-ATTAACTAATGTAAGTTATG
28792435 TAATT
1 TAATT
28792440 TATGTATAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.03
18 11 0.16
19 1 0.01
21 8 0.11
22 32 0.46
23 16 0.23
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.49
Consensus pattern (22 bp):
TAATTAACTAATGTAAGTTATG
Found at i:28792457 original size:22 final size:22
Alignment explanation
Indices: 28792432--28792476 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
28792422 TAATTAAGTT
*
28792432 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792454 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792476 A
1 A
28792477 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:28792489 original size:56 final size:56
Alignment explanation
Indices: 28792414--28792641 Score: 348
Period size: 56 Copynumber: 4.0 Consensus size: 56
28792404 TAATTTATGT
*
28792414 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
*
28792470 ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* * *
28792526 ATATTAATTAACTAAGTTATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTA
1 ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA
*
28792585 TGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTA
1 ---ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTA
28792642 ATATCTTATA
Statistics
Matches: 157, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
56 104 0.66
57 1 0.01
59 2 0.01
61 1 0.01
62 49 0.31
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (56 bp):
ATATTAACTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
Found at i:28792514 original size:268 final size:267
Alignment explanation
Indices: 28792146--28792643 Score: 935
Period size: 268 Copynumber: 1.9 Consensus size: 267
28792136 GTTATGTATA
28792146 ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAAAT
1 ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAAAT
28792211 AACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAACTAAGTT
66 AACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAACTAAGTT
28792276 ATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTAT
131 ATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTAT
*
28792341 GTAATTTATGTATATTAACTAAT-TAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGT
195 GTAATTTATGTATAAT-ACTAATGTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGT
28792405 AATTTATGT
259 AATTTATGT
* *
28792414 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAAAT
1 ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAAAT
28792479 AACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAACTAAGTT
66 AACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAACTAAGTT
28792544 ATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATG
131 ATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATG
*
28792609 TAATTTATGTATAATATTAATGTAAGTTATGTAAT
196 TAATTTATGTATAATACTAATGTAAGTTATGTAAT
28792644 ATCTTATATT
Statistics
Matches: 225, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
266 5 0.02
267 46 0.20
268 174 0.77
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (267 bp):
ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAAAT
AACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAACTAAGTT
ATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATG
TAATTTATGTATAATACTAATGTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAA
TTTATGT
Found at i:28792520 original size:22 final size:22
Alignment explanation
Indices: 28792488--28792533 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
28792478 TAACTAAGTT
*
28792488 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792510 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
28792532 AT
1 AT
28792534 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:28792579 original size:22 final size:21
Alignment explanation
Indices: 28792554--28792641 Score: 51
Period size: 22 Copynumber: 4.2 Consensus size: 21
28792544 ATGTAATTTC
28792554 TGTATAATATTAATGTATGTTA
1 TGTATAATATT-ATGTATGTTA
*
28792576 TG--TAAT-TTATGTATATTA
1 TGTATAATATTATGTATGTTA
** *
28792594 ACTAATTAA-GTTATGTAAT-TTA
1 TGT-A-TAATATTATGT-ATGTTA
*
28792616 TGTATAATATTAATGTAAGTTA
1 TGTATAATATT-ATGTATGTTA
28792638 TGTA
1 TGTA
28792642 ATATCTTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
18 9 0.18
19 2 0.04
20 7 0.14
21 4 0.08
22 26 0.52
23 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (21 bp):
TGTATAATATTATGTATGTTA
Found at i:28792658 original size:6 final size:6
Alignment explanation
Indices: 28792642--28792672 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
28792632 AAGTTATGTA
28792642 ATATCTT ATATTT ATATTT ATATTT ATATTT
1 ATAT-TT ATATTT ATATTT ATATTT ATATTT
28792673 TAATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:28795530 original size:35 final size:36
Alignment explanation
Indices: 28795482--28795551 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
28795472 CAACTTTTAA
* * * *
28795482 TTTGTAATATTATAATATTTATTTTTTTGTATAAAG
1 TTTGAAATATTATAATATTTAATTTTATGGATAAAG
28795518 TTTGAAAT-TTATAATATTTAATTTTATGGATAAA
1 TTTGAAATATTATAATATTTAATTTTATGGATAAA
28795552 TAAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 23 0.77
36 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (36 bp):
TTTGAAATATTATAATATTTAATTTTATGGATAAAG
Found at i:28795763 original size:37 final size:37
Alignment explanation
Indices: 28795722--28795793 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
28795712 TATAACCCCT
28795722 TAACCCATT-ACCCTTAAAT-CCCCTAACCCCTAAAGCA
1 TAACCC-TTAACCC-TAAATCCCCCTAACCCCTAAAGCA
28795759 TAACCCTTAAACCCTAAATCCCCCTAACCCCTAAA
1 TAACCCTT-AACCCTAAATCCCCCTAACCCCTAAA
28795794 CATCAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 2 0.06
37 11 0.34
38 19 0.59
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (37 bp):
TAACCCTTAACCCTAAATCCCCCTAACCCCTAAAGCA
Found at i:28796147 original size:4 final size:4
Alignment explanation
Indices: 28796138--28796169 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
28796128 AACAAATACA
*
28796138 TTAT TTAT TTGT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
28796170 ACCAAGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:28797682 original size:41 final size:41
Alignment explanation
Indices: 28797596--28797956 Score: 280
Period size: 41 Copynumber: 8.8 Consensus size: 41
28797586 TTTTGTTACT
* ** * ** *
28797596 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGT-AAATA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGA
* * * * *
28797636 CATTAGCGGCACTTAGATACAAACGCCGCTGAAGA-CAAGCGA
1 -ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATC-CGAGA
* * * * *
28797678 ATTAGTGGCGCTCAGTTAGAAACACCGCTAAAGATCCGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGA
*
28797719 ATTAGCGGCGCTT-GTATAAAAACGCCGCTAAAGA-CTCGAGC
1 ATTAGCGGCGCTTAG-ATAAAAACGCCGCTAAAGATC-CGAGA
* *
28797760 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGA
* * *
28797801 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGA
* * * ** * * * *
28797842 ATTAGTGACCCTTAGACGAAATCGCCGCTAAAGATCGGGGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGA
** * * * *
28797883 ATTAGCGGCGCTTTCACAAAAACGCCGCGAAAGATCGGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGA
** * *
28797924 ATTAGCGGTTCTTACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG
28797957 GTTTAAAAAA
Statistics
Matches: 263, Mismatches: 50, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
40 2 0.01
41 256 0.97
42 5 0.02
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGA
Found at i:28797829 original size:123 final size:123
Alignment explanation
Indices: 28797697--28797956 Score: 317
Period size: 123 Copynumber: 2.1 Consensus size: 123
28797687 GCTCAGTTAG
* * * *
28797697 AAACACCGCTAAAGATCCGAGAATTAGCGGCGCTT-GTATAAAAACGCCGCTAAAGACTC-GAGC
1 AAACGCCGCTAAAGATCCGAGAATTAGCGACCCTTAG-ACAAAAACGCCGCTAAAGA-TCGGAGC
* * *
28797760 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGAATTAGCGGCGCATAGACAA
64 ATTAGCGGCGCATACACAAAAACGCCGCGAAAGATCCGAGAATTAGCGGCGCATACACAA
* * * * *
28797820 AAACGCCGCTAAAGATCCGAGCATTAGTGACCCTTAGACGAAATCGCCGCTAAAGATCGGGGCAT
1 AAACGCCGCTAAAGATCCGAGAATTAGCGACCCTTAGACAAAAACGCCGCTAAAGATCGGAGCAT
* * * * ** *
28797885 TAGCGGCGCTTTCACAAAAACGCCGCGAAAGATCGGAGCATTAGCGGTTCTTACACAA
66 TAGCGGCGCATACACAAAAACGCCGCGAAAGATCCGAGAATTAGCGGCGCATACACAA
28797943 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
28797957 GTTTAAAAAA
Statistics
Matches: 116, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
122 2 0.02
123 113 0.97
124 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (123 bp):
AAACGCCGCTAAAGATCCGAGAATTAGCGACCCTTAGACAAAAACGCCGCTAAAGATCGGAGCAT
TAGCGGCGCATACACAAAAACGCCGCGAAAGATCCGAGAATTAGCGGCGCATACACAA
Found at i:28799215 original size:20 final size:21
Alignment explanation
Indices: 28799190--28799231 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
28799180 TAAAATCTTG
28799190 AACCTTAAAC-TTGAACCCTA
1 AACCTTAAACTTTGAACCCTA
*
28799210 AACCTTAAACTTTGAATCCTA
1 AACCTTAAACTTTGAACCCTA
28799231 A
1 A
28799232 GTCTTGAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.29
Consensus pattern (21 bp):
AACCTTAAACTTTGAACCCTA
Found at i:28804358 original size:37 final size:36
Alignment explanation
Indices: 28804315--28804445 Score: 183
Period size: 37 Copynumber: 3.6 Consensus size: 36
28804305 GTCAAGGTTG
*
28804315 ACCTTTAAAAAAAGTTGAGATAGACCCGTCTAAGGCA
1 ACCTTT-AAAAAGGTTGAGATAGACCCGTCTAAGGCA
* *
28804352 ACCTTTAAAAAAGGTTGAGATAGAGCCGTCTATGGCA
1 ACCTTT-AAAAAGGTTGAGATAGACCCGTCTAAGGCA
* *
28804389 ACC-TTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGAGATAGACC-CGTCTAAGGCA
28804425 ACCTTTAAAAAGGTTGAGATA
1 ACCTTTAAAAAGGTTGAGATA
28804446 CAGCCATCTA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
35 17 0.20
36 14 0.17
37 53 0.63
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (36 bp):
ACCTTTAAAAAGGTTGAGATAGACCCGTCTAAGGCA
Found at i:28804396 original size:36 final size:36
Alignment explanation
Indices: 28804319--28804466 Score: 174
Period size: 37 Copynumber: 4.1 Consensus size: 36
28804309 AGGTTGACCT
* *
28804319 TTAAAAAAAGTTGAGATAGACCCGTCTAAGGCAACC
1 TTAAAAAAGGTTGAGATAGAGCCGTCTAAGGCAACC
*
28804355 TTTAAAAAAGGTTGAGATAGAGCCGTCTATGGCAACC
1 -TTAAAAAAGGTTGAGATAGAGCCGTCTAAGGCAACC
*
28804392 TT-AAAAAGGTTGGGATAGA-CCTTGTCTAAGGCAACC
1 TTAAAAAAGGTTGAGATAGAGCC--GTCTAAGGCAACC
* * * **
28804428 TTTAAAAAGGTTGAGATACAGCCATCTAATACAACC
1 TTAAAAAAGGTTGAGATAGAGCCGTCTAAGGCAACC
28804464 TTA
1 TTA
28804467 GTAGAAGATC
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
34 2 0.02
35 16 0.17
36 28 0.29
37 48 0.50
38 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (36 bp):
TTAAAAAAGGTTGAGATAGAGCCGTCTAAGGCAACC
Found at i:28804409 original size:72 final size:72
Alignment explanation
Indices: 28804322--28804455 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
28804312 TTGACCTTTA
* *
28804322 AAAAAAGTTGAGATAGACC-CGTCTAAGGCAACCTTTAAAAAAGGTTGAGATAGAGCCGTCTATG
1 AAAAAAGTTGAGATAGACCTCGTCTAAGGCAACCTTT-AAAAAGGTTGAGATACAGCCATCTATG
28804386 GCAACCTT
65 GCAACCTT
* * *
28804394 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGAGATACAGCCATCTA
1 AAAAAAGTTGAGATAGACCTCGTCTAAGGCAACCTTTAAAAAGGTTGAGATACAGCCATCTA
28804456 ATACAACCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 40 0.71
73 16 0.29
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (72 bp):
AAAAAAGTTGAGATAGACCTCGTCTAAGGCAACCTTTAAAAAGGTTGAGATACAGCCATCTATGG
CAACCTT
Found at i:28805159 original size:21 final size:23
Alignment explanation
Indices: 28805133--28805178 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
28805123 TGTTAATATT
28805133 TCTTATTAT-ATCATTTTTT-TA
1 TCTTATTATAATCATTTTTTATA
* *
28805154 TCTTATTTTAATTATTTTTTATA
1 TCTTATTATAATCATTTTTTATA
28805177 TC
1 TC
28805179 ATACACATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (23 bp):
TCTTATTATAATCATTTTTTATA
Done.