Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 31 of 204
Found at i:11310319 original size:87 final size:87
Alignment explanation
Indices: 11310209--11310552 Score: 510
Period size: 87 Copynumber: 4.0 Consensus size: 87
11310199 GTCAAAGAGA
* * *
11310209 CCAGCC-TATCTCCCTGAGTAGCAGTTGAGTAGGTTGGAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
*
11310273 GTAGTGGAGGAGATCGAAGTCC
66 GTAGTGGAGCAGATCGAAGTCC
11310295 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
* * *
11310360 GGAGTGGAACAGATTGAAGTCC
66 GTAGTGGAGCAGATCGAAGTCC
** *
11310382 CCAGCCTTATCTCATTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
* *
11310447 GTAGTGGAGCAGATTGAAGACC
66 GTAGTGGAGCAGATCGAAGTCC
* * * * * **
11310469 CCAGACTTGTCTCCCTAAGTAGCAGTGGAGTAGGTTGAAAATTACAGATCTTACCTCCCTAAATA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
11310534 GTAGTGGAGCAGATCGAAG
66 GTAGTGGAGCAGATCGAAG
11310553 ATAGCAAATC
Statistics
Matches: 233, Mismatches: 24, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
86 6 0.03
87 227 0.97
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGTCC
Found at i:11310360 original size:44 final size:44
Alignment explanation
Indices: 11310215--11310530 Score: 264
Period size: 44 Copynumber: 7.2 Consensus size: 44
11310205 GAGACCAGCC
* * * *
11310215 TATCTCCCTGAGTAGCAGTTGAGTAGGTTGGAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* * * * * ** *
11310259 TATCTCCCTAAGCAGTAGTGGAGGAGATCG-AAGTCCCCAG-CCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGATCT
*
11310302 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* ** * * ** *
11310346 TATCTCCCTAAGCAGGAGTGGAACAGATTG-AAGTCCCCAG-CCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGATCT
** * *
11310389 TATCTCATTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* * * * ***
11310433 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAGA-CT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* *
11310476 TGTCTCCCTAAGTAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
*
11310520 TACCTCCCTAA
1 TATCTCCCTAA
11310531 ATAGTAGTGG
Statistics
Matches: 202, Mismatches: 63, Indels: 14
0.72 0.23 0.05
Matches are distributed among these distances:
43 97 0.48
44 105 0.52
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
Found at i:11318460 original size:35 final size:37
Alignment explanation
Indices: 11318414--11318486 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 37
11318404 TTCATGGTGT
11318414 TCTAAG-A-AACAAGTGGTATCTCGGTCGACAGCAGA
1 TCTAAGAACAACAAGTGGTATCTCGGTCGACAGCAGA
11318449 TCTAAGAAACAACAAGTGGTATCTCGGTCGACAGCAGA
1 TCTAAG-AACAACAAGTGGTATCTCGGTCGACAGCAGA
11318487 GGCTGAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 6 0.17
37 1 0.03
38 28 0.80
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (37 bp):
TCTAAGAACAACAAGTGGTATCTCGGTCGACAGCAGA
Found at i:11321206 original size:2 final size:2
Alignment explanation
Indices: 11321199--11321227 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11321189 GTAAACAAAT
11321199 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
11321228 GATACTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11322289 original size:19 final size:19
Alignment explanation
Indices: 11322265--11322306 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
11322255 TTATATCTTT
11322265 ATAATTTTTAAAGGATTAA
1 ATAATTTTTAAAGGATTAA
11322284 ATAATTTTTAAAGGATTAA
1 ATAATTTTTAAAGGATTAA
11322303 ATAA
1 ATAA
11322307 AATTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (19 bp):
ATAATTTTTAAAGGATTAA
Found at i:11322540 original size:68 final size:68
Alignment explanation
Indices: 11322431--11322565 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
11322421 CACTGCCAGC
*
11322431 TGCCAGATATGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
1 TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
11322496 TAT
66 TAT
11322499 TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
1 TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
11322564 TA
66 TA
11322566 ATAGAGTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (68 bp):
TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
TAT
Found at i:11337458 original size:19 final size:17
Alignment explanation
Indices: 11337424--11337458 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
11337414 AAAAAATAGT
11337424 AACAAAATTAACAATAA
1 AACAAAATTAACAATAA
11337441 AACAAGAATTATACAATA
1 AACAA-AATTA-ACAATA
11337459 TCCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (17 bp):
AACAAAATTAACAATAA
Found at i:11352541 original size:2 final size:2
Alignment explanation
Indices: 11352534--11352565 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11352524 GCTTTCACTA
11352534 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11352566 GATGTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11363147 original size:2 final size:2
Alignment explanation
Indices: 11363140--11363193 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
11363130 CTCTCCATTT
* * * *
11363140 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA AA CA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11363181 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
11363194 TTGTATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11366661 original size:2 final size:2
Alignment explanation
Indices: 11366656--11366686 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11366646 AGCAGAGAGA
*
11366656 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11366687 GAAAATAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11383994 original size:19 final size:19
Alignment explanation
Indices: 11383970--11384063 Score: 125
Period size: 19 Copynumber: 4.8 Consensus size: 19
11383960 AATTTTTGAG
*
11383970 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
11383989 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
11384008 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
11384029 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11384048 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
11384064 ATATATGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 48 0.74
21 17 0.26
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11384016 original size:21 final size:21
Alignment explanation
Indices: 11383983--11384033 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11383973 ATGCAATATT
11383983 AGATATG--ATATGCAATCCA
1 AGATATGATATATGCAATCCA
**
11384002 AGATATGATATATGCAATCTT
1 AGATATGATATATGCAATCCA
11384023 AGATATGATAT
1 AGATATGATAT
11384034 GTAATCTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.25
21 21 0.75
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (21 bp):
AGATATGATATATGCAATCCA
Found at i:11384025 original size:40 final size:40
Alignment explanation
Indices: 11383971--11384070 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
11383961 ATTTTTGAGG
11383971 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
* * **
11384011 ATATGCAATCTTAGATATGATATGTAATCTTAGATATG--
1 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
11384049 ATATGCAATATTAGA-AT-ATATG
1 ATATGCAATATTAGATATGATATG
11384071 ATTTAGTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 5 0.09
37 2 0.04
38 14 0.25
40 34 0.62
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (40 bp):
ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
Found at i:11390723 original size:45 final size:44
Alignment explanation
Indices: 11390629--11391056 Score: 393
Period size: 44 Copynumber: 9.7 Consensus size: 44
11390619 NNNNNNCTCT
*
11390629 CTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAGTCTTATC-CTC
1 CTGAAGTTGCAGTGGAGCAGACTAAGAT-GGCAAGTCTTATCTC-C
* *
11390673 CTGAAGTTGTAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACT-AAGATGGCAAGTCTTATCTCC
* * * * *
11390718 TTGAAGTTGCAGTGGAGCAGATTAA-A-GCCGATAATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACTAAGATGGC-A-AGTCTTATCTCC
* * * *** *
11390762 CTGAAGTTGCAGTGGAGCGGATTAAAACCTC-AGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGACTAAGATGGCAAG-TCTTATCTCC
* * *
11390806 CTGAAGTTGCAG-AGAGCAGA-T-CGCAT--CTAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACTAAG-ATGGCAAGTCTTATCTCC
* *
11390846 CTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAGTTTTATC-CTC
1 CTGAAGTTGCAGTGGAGCAGACTAAGAT-GGCAAGTCTTATCTC-C
*
11390890 CTGAAGTTGCAGTGGGGCAGACTGAA-ATTGGCAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACT-AAGA-TGGCAAGTCTTATCTCC
*
11390935 CTGAAGTTGCAGTGGAGCAGACTAAAATTGGCAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACTAAGA-TGGCAAGTCTTATCTCC
*
11390980 CTGAAGTTGCAGTGGAGCAGACTAA-ATAAGCAAGTCTTATC-CTC
1 CTGAAGTTGCAGTGGAGCAGACTAAGAT-GGCAAGTCTTATCTC-C
11391024 CTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCA
1 CTGAAGTTGCAGTGGA-GCAGACT-AAGATGGCA
11391057 CTAATTCCTA
Statistics
Matches: 324, Mismatches: 33, Indels: 53
0.79 0.08 0.13
Matches are distributed among these distances:
40 22 0.07
41 10 0.03
42 5 0.02
43 15 0.05
44 144 0.44
45 121 0.37
46 7 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGACTAAGATGGCAAGTCTTATCTCC
Found at i:11391056 original size:89 final size:89
Alignment explanation
Indices: 11390629--11391056 Score: 427
Period size: 89 Copynumber: 4.9 Consensus size: 89
11390619 NNNNNNCTCT
* * *
11390629 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGTAGTGGGGCAG
1 CTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAG
*
11390693 ACTGAAGATGGCAAGTCTTATCTCC
65 ACTAAAGATGGCAAGTCTTATCTCC
* * *** * * *
11390718 TTGAAGTTGCAGTGGAGCAGATTAAAGCCG-ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
1 CTGAAGTTGCAGTGGAGCAGACTAAATAAGCA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *** *
11390782 ATTAAA-ACCTC-AGATCTTATCTCT
65 ACTAAAGATGGCAAG-TCTTATCTCC
* ** *
11390806 CTGAAGTTGCAG-AGAGCAGA-TCGCAT---CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CTGAAGTTGCAGTGGAGCAGACT-AAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
11390866 ACT-AAG-TAAGCAAGTTTTATC-CTC
65 ACTAAAGAT-GGCAAGTCTTATCTC-C
* **
11390890 CTGAAGTTGCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CTGAAGTTGCAGTGGAGCAGACT-AAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
11390955 ACTAAA-ATTGGCAAGTCTTATCTCC
65 ACTAAAGA-TGGCAAGTCTTATCTCC
11390980 CTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCA
1 CTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCA
11391043 GACTAAAGATGGCA
64 GACTAAAGATGGCA
11391057 CTAATTCCTA
Statistics
Matches: 275, Mismatches: 43, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
83 3 0.01
84 50 0.18
85 8 0.03
86 4 0.01
87 10 0.04
88 26 0.09
89 134 0.49
90 38 0.14
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (89 bp):
CTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
CTAAAGATGGCAAGTCTTATCTCC
Found at i:11391246 original size:19 final size:19
Alignment explanation
Indices: 11391222--11391315 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
11391212 AATTTTTGAG
*
11391222 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
11391241 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
11391260 GATATATGTAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
11391281 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11391300 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
11391316 ATATATGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
19 50 0.76
21 16 0.24
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11391277 original size:40 final size:40
Alignment explanation
Indices: 11391223--11391304 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
11391213 ATTTTTGAGG
11391223 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
* * **
11391263 ATATGTAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
11391303 AT
1 AT
11391305 GCAATCTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (40 bp):
ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
Found at i:11392141 original size:25 final size:26
Alignment explanation
Indices: 11392082--11392157 Score: 136
Period size: 26 Copynumber: 3.0 Consensus size: 26
11392072 TATGTACATG
11392082 TATATTTTTTTTAACGAATATTTTCC
1 TATATTTTTTTTAACGAATATTTTCC
11392108 TATATTTTTTTTAACGAATATTTTCC
1 TATATTTTTTTTAACGAATATTTTCC
*
11392134 TATA-TTTTTTTAAAGAATATTTTC
1 TATATTTTTTTTAACGAATATTTTC
11392158 ATATTTATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 19 0.39
26 30 0.61
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATTTTTTTTAACGAATATTTTCC
Found at i:11392962 original size:98 final size:98
Alignment explanation
Indices: 11392838--11393034 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
11392828 TAAAAAATAA
* *
11392838 TAAAAGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAAGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
11392903 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
11392936 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAAGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
11393001 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
11393034 T
1 T
11393035 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAAGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:11419504 original size:115 final size:115
Alignment explanation
Indices: 11419315--11419720 Score: 428
Period size: 115 Copynumber: 3.5 Consensus size: 115
11419305 ATATTTGAAC
* * *
11419315 CAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGCGTTTACGGTAAAACGCCGCTA
1 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCTA
* ****
11419380 AAGCATAGTATTAGCGGCGATT-CTTTGCTAGCGCCGCAAAATATCCTAA-
66 AAGAATAGTATTAGCGGCGATTAC-TAAAAAGCGCCGCAAAATATCCTAAT
* * *
11419429 CTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTACGGGAAACCGCCGCT
1 C-AAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCT
* *
11419494 AAAGAATAGTATTAGCGGCGCTTACTAAAAAGCGCCGCAAAATATCTTAAT
65 AAAGAATAGTATTAGCGGCGATTACTAAAAAGCGCCGCAAAATATCCTAAT
* ** ** * *
11419545 CAAAACGCATAGTTTTAATCTTGATGTATACTAGAATTAGTGGCGCTTACTAGAAAACGCAGTTA
1 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCTA
** * * * *
11419610 AATCATAGTATTAGCGAC-ACTTAGC-AAAAAGCACCGCAACATATCTTAA-
66 AAGAATAGTATTAGCGGCGA-TTA-CTAAAAAGCGCCGCAAAATATCCTAAT
** * ** * **
11419659 CAAAACGCAGAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCACTTATAGGAAAACGCCGC
1 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGC
11419721 AAATTATCTG
Statistics
Matches: 246, Mismatches: 41, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
113 39 0.16
114 12 0.05
115 192 0.78
116 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (115 bp):
CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCTA
AAGAATAGTATTAGCGGCGATTACTAAAAAGCGCCGCAAAATATCCTAAT
Found at i:11421341 original size:16 final size:16
Alignment explanation
Indices: 11421300--11421341 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
11421290 CCCCCAACTT
* *
11421300 CCCCGATTTCATTTCC
1 CCCCAATTTCCTTTCC
*
11421316 CCCCAA-TTCCTTTTC
1 CCCCAATTTCCTTTCC
11421331 CCCCAATTTCC
1 CCCCAATTTCC
11421342 CCGATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.14, C:0.48, G:0.02, T:0.36
Consensus pattern (16 bp):
CCCCAATTTCCTTTCC
Found at i:11422314 original size:22 final size:21
Alignment explanation
Indices: 11422293--11422344 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
11422283 ATTCGGTTTG
11422293 TGGTTTGTAAACTA-TGAA-TT
1 TGGTTTGTAAACTACT-AATTT
* *
11422313 TGGTTTCTAAACTACTCATTT
1 TGGTTTGTAAACTACTAATTT
11422334 ATGGTTTGTAA
1 -TGGTTTGTAA
11422345 TCTGATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.54
21 3 0.12
22 9 0.35
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (21 bp):
TGGTTTGTAAACTACTAATTT
Found at i:11422826 original size:17 final size:17
Alignment explanation
Indices: 11422806--11422874 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 17
11422796 TTAATATCTA
11422806 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
11422823 TATAAGTTTTCT--A--
1 TATAAGTTTTCTAAATT
* *
11422836 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
11422851 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
11422868 TATAAGT
1 TATAAGT
11422875 CATGGCGTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 1 0.02
12 2 0.05
13 6 0.14
15 6 0.14
16 2 0.05
17 25 0.60
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:11423276 original size:22 final size:22
Alignment explanation
Indices: 11423246--11423288 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11423236 ACACCAAAAC
*
11423246 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
11423268 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
11423289 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:11426778 original size:22 final size:22
Alignment explanation
Indices: 11426753--11426798 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
11426743 TAACTAACTT
*
11426753 ATGTAATTTAAGTATAATATTA
1 ATGTAAGTTAAGTATAATATTA
*
11426775 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTAAGTATAATATTA
11426797 AT
1 AT
11426799 TAACAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
ATGTAAGTTAAGTATAATATTA
Found at i:11426791 original size:56 final size:56
Alignment explanation
Indices: 11426720--11427200 Score: 502
Period size: 56 Copynumber: 8.2 Consensus size: 56
11426710 TTATGTAAGT
* * *
11426720 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
**
11426776 TGTAAGTTATGTATAATATTAATTAACAAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
11426832 TGTAATTAGTTATGTAATTTATGTATATTAATTAATTAAGCTATGTAATTTATGTATAATATTAA
1 TGT-A--AGTTATGT-A--TA---ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* * *** * **
11426897 TGTAAGTTATGTA-ATTTATGAA-TAATTATAAAAATGTAAGTTATGTAAGTTGTAAGTT-A
1 TGTAAGTTATGTATA-ATATTAATTAATTA-AGTTATGTAATTTATGT-A-TAAT-A-TTAA
*
11426956 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACTCTTTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA-T-ATTAA
* * ** * *
11427014 TGTAAGCAAAGGTAATTTATGTGTAATAATTAATTAAGTTATGT-ATTTATGTATAATACTAA
1 TGT-----AA-GTTATGTAT-AATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
11427076 TATAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
11427132 TGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
11427188 TGTAACTTATGTA
1 TGTAAGTTATGTA
11427201 ATTTATGTAT
Statistics
Matches: 357, Mismatches: 42, Indels: 52
0.79 0.09 0.12
Matches are distributed among these distances:
55 26 0.07
56 164 0.46
57 7 0.02
58 9 0.03
59 41 0.11
60 10 0.03
61 1 0.00
62 15 0.04
63 3 0.01
64 20 0.06
65 61 0.17
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.46
Consensus pattern (56 bp):
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
Found at i:11426821 original size:9 final size:9
Alignment explanation
Indices: 11426807--11427002 Score: 53
Period size: 9 Copynumber: 19.8 Consensus size: 9
11426797 ATTAACAAAG
11426807 TTATGTAAT
1 TTATGTAAT
11426816 TTATGTATAAT
1 TTATG--TAAT
11426827 ATTAATGTAATT
1 -TT-ATGTAA-T
11426839 AGTTATGTAAT
1 --TTATGTAAT
11426850 TTATGTATAT
1 TTATGTA-AT
*
11426860 TAAT-TAAT
1 TTATGTAAT
11426868 TAAGCTATGTAAT
1 T----TATGTAAT
11426881 TTATGTATAAT
1 TTATG--TAAT
*
11426892 ATTAATGTAAG
1 -TT-ATGTAAT
11426903 TTATGTAAT
1 TTATGTAAT
11426912 TTATGAATAAT
1 TTATG--TAAT
*
11426923 TATAAAAATGTAAG
1 T-T----ATGTAAT
11426937 TTATGTAA-
1 TTATGTAAT
* *
11426945 GT-TGTAAG
1 TTATGTAAT
*
11426953 TTATGTAAG
1 TTATGTAAT
11426962 TTATGT-AT
1 TTATGTAAT
*
11426970 AATAT-TAAT
1 -TTATGTAAT
* *
11426979 TAAT-TAAG
1 TTATGTAAT
11426987 TTATGTAAT
1 TTATGTAAT
11426996 TTATGTA
1 TTATGTA
11427003 TAACTCTTTA
Statistics
Matches: 144, Mismatches: 15, Indels: 56
0.67 0.07 0.26
Matches are distributed among these distances:
7 5 0.03
8 15 0.10
9 62 0.43
10 7 0.05
11 20 0.14
12 14 0.10
13 14 0.10
14 4 0.03
16 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAT
Found at i:11426834 original size:22 final size:23
Alignment explanation
Indices: 11426809--11426909 Score: 67
Period size: 22 Copynumber: 4.6 Consensus size: 23
11426799 TAACAAAGTT
11426809 ATGTAATTTATGTA-TAATATTA
1 ATGTAATTTATGTATTAATATTA
11426831 ATGTAA-TTA-GTTATGTAAT-TT-
1 ATGTAATTTATG-TAT-TAATATTA
* **
11426852 ATGTATATTAAT-TAATTAA-GCT-
1 ATGTA-ATTTATGT-ATTAATATTA
11426874 ATGTAATTTATGTA-TAATATTA
1 ATGTAATTTATGTATTAATATTA
*
11426896 ATGTAAGTTATGTA
1 ATGTAATTTATGTA
11426910 ATTTATGAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
20 4 0.06
21 17 0.27
22 33 0.53
23 8 0.13
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.49
Consensus pattern (23 bp):
ATGTAATTTATGTATTAATATTA
Found at i:11426863 original size:31 final size:31
Alignment explanation
Indices: 11426791--11426944 Score: 159
Period size: 31 Copynumber: 4.8 Consensus size: 31
11426781 GTTATGTATA
**
11426791 ATATTAATTAACAAAGTTATGTAATTTATGTAT
1 ATATTAATTAATTAAGTTATGTAATTTATG--T
11426824 AATATTAATGTAATT-AGTTATGTAATTTATGT
1 -ATATTAAT-TAATTAAGTTATGTAATTTATGT
*
11426856 ATATTAATTAATTAAGCTATGTAATTTATGT
1 ATATTAATTAATTAAGTTATGTAATTTATGT
* *
11426887 ATAAT-ATTAATGTAAGTTATGTAATTTATGA
1 ATATTAATTAAT-TAAGTTATGTAATTTATGT
**
11426918 ATAATTATAAAAATGTAAGTTATGTAA
1 AT-ATTA-ATTAAT-TAAGTTATGTAA
11426945 GTTGTAAGTT
Statistics
Matches: 105, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.10
31 47 0.45
32 3 0.03
34 41 0.39
35 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.45
Consensus pattern (31 bp):
ATATTAATTAATTAAGTTATGTAATTTATGT
Found at i:11426938 original size:34 final size:31
Alignment explanation
Indices: 11426775--11427211 Score: 345
Period size: 34 Copynumber: 14.5 Consensus size: 31
11426765 TATAATATTA
*
11426775 ATGTAAGTTATGTATAATATTAAT-TAACAAAGTT
1 ATGTAATTTATGTATAATATTAATGT----AAGTT
11426809 ATGTAATTTATGTATAATATTAATGTAATTAGTT
1 ATGTAATTTATGTATAATATTAATGT-A--AGTT
* *
11426843 ATGTAATTTATGTATATTAATTAAT-TAAGCT
1 ATGTAATTTATGTATAAT-ATTAATGTAAGTT
11426874 ATGTAATTTATGTATAATATTAATGTAAGTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
* *
11426905 ATGTAATTTATGAATAATTATAAAAATGTAAGTT
1 ATGTAATTTATGTATAA-TAT--TAATGTAAGTT
* *
11426939 ATGTAA-GT-TG--TAA-GTT-ATGTAAGTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
* *
11426964 ATGT-A--TA-ATATTA-ATTAAT-TAAGTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
* **
11426989 ATGTAATTTATGTATAACTCTTTAATGTAAGCAA
1 ATGTAATTTATGTATAA-T-ATTAATGTAAG-TT
* *
11427023 AGGTAATTTATGTGTAATAATTAAT-TAAGTT
1 ATGTAATTTATGTATAAT-ATTAATGTAAGTT
* *
11427054 ATGT-ATTTATGTATAATACTAATATAAGTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
* *
11427084 ATGT-A--TA-ATATTA-ATTAAT-TAAGTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
*
11427109 ATGTAATTTATGTATAATATTAATGCAAGTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
* *
11427140 ATGT-A--TA-ATATTA-ATTAAT-TAAGTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
*
11427165 ATGTAATTTATGTATAATATTAATGTAACTT
1 ATGTAATTTATGTATAATATTAATGTAAGTT
11427196 ATGTAATTTATGTATA
1 ATGTAATTTATGTATA
11427212 TCAATTAATT
Statistics
Matches: 330, Mismatches: 39, Indels: 71
0.75 0.09 0.16
Matches are distributed among these distances:
23 1 0.00
24 1 0.00
25 46 0.14
26 16 0.05
27 8 0.02
28 11 0.03
29 17 0.05
30 45 0.14
31 74 0.22
32 16 0.05
33 12 0.04
34 76 0.23
35 7 0.02
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (31 bp):
ATGTAATTTATGTATAATATTAATGTAAGTT
Found at i:11426952 original size:16 final size:16
Alignment explanation
Indices: 11426931--11426963 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11426921 ATTATAAAAA
11426931 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
11426947 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
11426963 T
1 T
11426964 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:11426954 original size:50 final size:50
Alignment explanation
Indices: 11426897--11426994 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
11426887 ATAATATTAA
*
11426897 TGTAAGTTATGTAATTTATGAATAAT-TATAA-AAATGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATGAATAATAT-TAATAAAT-TAAGTTATGTAAGT
* *
11426947 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAA
11426995 TTTATGTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 39 0.91
51 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (50 bp):
TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAAGT
Found at i:11427085 original size:22 final size:25
Alignment explanation
Indices: 11427060--11427169 Score: 93
Period size: 25 Copynumber: 4.3 Consensus size: 25
11427050 AGTTATGTAT
11427060 TTATGTATAATACTAA-T-A-TAAG
1 TTATGTATAATACTAATTAATTAAG
*
11427082 TTATGTATAATATTAATTAATTAAG
1 TTATGTATAATACTAATTAATTAAG
* *
11427107 TTATGTAATTTATGTA-TAATATTAATGCAAG
1 TTATGT-A--TA-ATACT-A-ATTAAT-TAAG
*
11427138 TTATGTATAATATTAATTAATTAAG
1 TTATGTATAATACTAATTAATTAAG
11427163 TTATGTA
1 TTATGTA
11427170 ATTTATGTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
22 15 0.21
23 1 0.01
24 1 0.01
25 20 0.28
26 7 0.10
27 3 0.04
28 6 0.08
29 3 0.04
30 7 0.10
31 9 0.12
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (25 bp):
TTATGTATAATACTAATTAATTAAG
Found at i:11427121 original size:9 final size:9
Alignment explanation
Indices: 11427107--11427209 Score: 50
Period size: 9 Copynumber: 10.8 Consensus size: 9
11427097 ATTAATTAAG
11427107 TTATGTAAT
1 TTATGTAAT
11427116 TTATGTATAAT
1 TTATG--TAAT
* *
11427127 ATTAATGCAAG
1 -TT-ATGTAAT
11427138 TTATGT-AT
1 TTATGTAAT
*
11427146 AATAT-TAAT
1 -TTATGTAAT
* *
11427155 TAAT-TAAG
1 TTATGTAAT
11427163 TTATGTAAT
1 TTATGTAAT
11427172 TTATGTATAAT
1 TTATG--TAAT
*
11427183 ATTAATGTAAC
1 -TT-ATGTAAT
11427194 TTATGTAAT
1 TTATGTAAT
11427203 TTATGTA
1 TTATGTA
11427210 TATCAATTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
8 10 0.14
9 34 0.48
10 4 0.06
11 13 0.18
12 4 0.06
13 6 0.08
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.49
Consensus pattern (9 bp):
TTATGTAAT
Found at i:11427176 original size:120 final size:120
Alignment explanation
Indices: 11426958--11427200 Score: 315
Period size: 120 Copynumber: 2.1 Consensus size: 120
11426948 GTAAGTTATG
* *
11426958 TAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACTCTTTAATGTAAGCAA
1 TAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACTCATTAATGCAAGCAA
* *
11427023 AGGTAATTTATGTGTAATAATTAATTAAGTTATGTATTTATGTATAATACTAATA
66 AGATAATTTATATGTAATAATTAATTAAGTTATGTATTTATGTATAATACTAATA
11427078 TAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA-T-ATTAAT----GC-A
1 TAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACTCATTAATGCAAGCAA
* * * * * *
11427136 AG-TTATGTATA-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATG
66 AGATAATTTATATGTAATAATTAATTAAGTTATGT-ATTTATGTATAATACTAATA
*
11427190 TAACTTATGTA
1 TAAGTTATGTA
11427201 ATTTATGTAT
Statistics
Matches: 113, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
111 20 0.18
112 34 0.30
113 3 0.03
114 2 0.02
118 5 0.04
119 1 0.01
120 48 0.42
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.46
Consensus pattern (120 bp):
TAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACTCATTAATGCAAGCAA
AGATAATTTATATGTAATAATTAATTAAGTTATGTATTTATGTATAATACTAATA
Found at i:11434958 original size:114 final size:114
Alignment explanation
Indices: 11434757--11435266 Score: 749
Period size: 114 Copynumber: 4.5 Consensus size: 114
11434747 NNNNGAAGAC
* *
11434757 GTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATACAAAACGCCTCTAATACTCATATTATTAGC
1 GTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATA-GAAACGCCGCTAATACTCATATTATTAGC
* * *
11434822 GGCGCTACTCGGAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAA
65 GGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAA
* * *
11434872 GTCGTTTGGGTTTTAGTTTTTCCGGCGTTTTTGTAGAAACGCCGCTAATACTCATATTATTAGCG
1 GTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATAGAAACGCCGCTAATACTCATATTATTAGCG
* *
11434937 GCGCTATTAGAAAAACGCCACTAAAGTCACCAAAGTGTCTCCAAACGACA
66 GCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGA-A
* * * * *
11434987 -TTGTCTGGGGTTTAGTTTTTGCAGCATTTTTATAAAAACGCCGCTAATACTCATATTATTAGCG
1 GTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATAGAAACGCCGCTAATACTCATATTATTAGCG
*
11435051 GCGCTATTCA-AAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAC
66 GCGCTATT-AGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAA
* * * *
11435100 GTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTACAGAAACACCACTAATACTCATATTATTAGCG
1 GTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATAGAAACGCCGCTAATACTCATATTATTAGCG
* * *
11435165 GCGCTATTCGAAAAACGCCACTAATGTCACCGAAGTTTCTCCAAA-TAA
66 GCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAA
11435213 CGTCGTCTGGG-TTTAGTTTTTGCGGCGTTTTTATAGAAACGCCGCTAATACTCA
1 -GTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATAGAAACGCCGCTAATACTCA
11435267 ATCAGTTGTG
Statistics
Matches: 354, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
113 40 0.11
114 280 0.79
115 34 0.10
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (114 bp):
GTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATAGAAACGCCGCTAATACTCATATTATTAGCG
GCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAA
Found at i:11436188 original size:21 final size:21
Alignment explanation
Indices: 11436163--11436228 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
11436153 CAACTTAAAA
11436163 CAGAGGCAGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
11436184 CAGAGGCTA-CAGCGAGAGAAG
1 CAGAGGC-AGCAGCGAGAGAAG
* *
11436205 CAGAGACCGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
11436226 CAG
1 CAG
11436229 CAAGAGAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.39, T:0.02
Consensus pattern (21 bp):
CAGAGGCAGCAGCGAGAGAAG
Found at i:11436755 original size:42 final size:42
Alignment explanation
Indices: 11436677--11436887 Score: 192
Period size: 43 Copynumber: 5.0 Consensus size: 42
11436667 TTTGTGAAAT
* * * * *
11436677 AAGCACCGCGAAAGAGCACTACTTTTAGCGGTGTTTTTTACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGTGTTTTTTTCC
* * * *
11436719 AAGCGCCACTATAGAACATTACTTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGTGTTTTTTTCC
* * * * *
11436761 AAACGCCGCTAAAGATCATGT-TTCTTTAGCGGTGTTTTCTCCC
1 AAGCGCCGCTAAAGAACAT-TACT-TTTAGCGGTGTTTTTTTCC
* * *
11436804 AAGCGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCC
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCGGTGTTTTTTTCC
* * *
11436846 TAGGCGCCGCTAAAGAACATGACCTTTAGCGGTGTTTTTTTC
1 -AAGCGCCGCTAAAGAACATTACTTTTAGCGGTGTTTTTTTC
11436888 TGTAAGCGCC
Statistics
Matches: 135, Mismatches: 29, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
42 66 0.49
43 69 0.51
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGTGTTTTTTTCC
Found at i:11436789 original size:85 final size:85
Alignment explanation
Indices: 11436700--11436885 Score: 241
Period size: 85 Copynumber: 2.2 Consensus size: 85
11436690 GAGCACTACT
* * *
11436700 TTTAGCGGTGTTTTTTACCAAGCGCCACTATAGAACATTA-CTTTTAGCGGCGTTTTTTT-CTAA
1 TTTAGCGGTGTTTTTTACCAAGCGCCACTAAAGAACATGATC-ATTAGCGGCGTTTTTTTCCTAA
* **
11436763 ACGCCGCTAAAGATCATGTTTC
65 ACGCCGCTAAAGAACATG-ACC
* * * **
11436785 TTTAGCGGTGTTTTCTCCCAAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAGG
1 TTTAGCGGTGTTTTTTACCAAGCGCCACTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAA
11436850 CGCCGCTAAAGAACATGACC
66 CGCCGCTAAAGAACATGACC
11436870 TTTAGCGGTGTTTTTT
1 TTTAGCGGTGTTTTTT
11436886 TCTGTAAGCG
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 67 0.77
86 20 0.23
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (85 bp):
TTTAGCGGTGTTTTTTACCAAGCGCCACTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAA
CGCCGCTAAAGAACATGACC
Found at i:11440163 original size:114 final size:114
Alignment explanation
Indices: 11439988--11440406 Score: 716
Period size: 114 Copynumber: 3.7 Consensus size: 114
11439978 ATAGTGGCAG
* *
11439988 TAGCGGCGTTTGTTTGTAAGCGCCGC-AACAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGT
11440052 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
*
11440101 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGT
* ** *
11440166 ATAGTAGAATTGGTGGCGTTTTTGTAAAAACGCTACTGAAGTGTATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* *
11440215 TAGCGGCGTTT-TTTTTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGTTTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGT
* *
11440279 ATAGCAGAATTGGTGGCGTTTCTGTAAAAACACCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
*
11440328 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAGGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGT
11440393 ATAGTAGAATTGGT
66 ATAGTAGAATTGGT
11440407 NNNNNNNNNN
Statistics
Matches: 286, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
113 130 0.45
114 156 0.55
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (114 bp):
TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGT
ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
Found at i:11440278 original size:227 final size:227
Alignment explanation
Indices: 11439988--11440406 Score: 750
Period size: 227 Copynumber: 1.8 Consensus size: 227
11439978 ATAGTGGCAG
* *
11439988 TAGCGGCGTTTGTTTGTAAGCGCCGCAACAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTA
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGTA
* *
11440053 TAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAGCGGCGTTTGTTTGT
66 TAGCAGAATTGGTGGCGTTTCTGTAAAAACACCGCTGAAGTGGATCATTAGCGGCGTTTGTTTGT
*
11440118 AAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGC
131 AAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGTATAGTAGAATTGGTGGC
11440183 GTTTTTGTAAAAACGCTACTGAAGTGTATCAT
196 GTTTTTGTAAAAACGCTACTGAAGTGTATCAT
* *
11440215 TAGCGGCGTTT-TTTTTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGTTTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGC-AAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGT
11440279 ATAGCAGAATTGGTGGCGTTTCTGTAAAAACACCGCTGAAGTGGATCATTAGCGGCGTTTGTTTG
65 ATAGCAGAATTGGTGGCGTTTCTGTAAAAACACCGCTGAAGTGGATCATTAGCGGCGTTTGTTTG
*
11440344 TAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAGGATTGAGGTATAGTAGAATTGGT
130 TAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGTATAGTAGAATTGGT
11440407 NNNNNNNNNN
Statistics
Matches: 183, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
226 13 0.07
227 170 0.93
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (227 bp):
TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGTA
TAGCAGAATTGGTGGCGTTTCTGTAAAAACACCGCTGAAGTGGATCATTAGCGGCGTTTGTTTGT
AAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAAGATTGAGGTATAGTAGAATTGGTGGC
GTTTTTGTAAAAACGCTACTGAAGTGTATCAT
Found at i:11445157 original size:42 final size:42
Alignment explanation
Indices: 11444851--11445157 Score: 447
Period size: 42 Copynumber: 7.3 Consensus size: 42
11444841 NNNNNNNNNN
* * *
11444851 GCGGCGTTTTTTTCCAAAGCGCCGCTAAAGAAAATGATATTTA
1 GCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGATCTTTA
* * *
11444894 GCGGCGTTTTTTCCTAAGCGCCACTAAATAACATGATCTTTA
1 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
*
11444936 GCGGC-TTTTGTCTCTAAGCGCCGCTAAAGAACATGATCTTTA
1 GCGGCGTTTT-TTTCTAAGCGCCGCTAAAGAACATGATCTTTA
* *
11444978 GCGGCG-TTTTTTATAAGTGCCGCTAAAGAACATGATCTTTA
1 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
* * *
11445019 GCGGCATTTTTTTATAAGCGCCGCTATAGAACATGATCTTTA
1 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
* * *
11445061 GTGGCGTTTTTTTCTAAGCGCTGCTATAGAACATGATCTTTA
1 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
11445103 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
1 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
11445145 GCGGCGTTTTTTT
1 GCGGCGTTTTTTT
11445158 ATGTAAGCAC
Statistics
Matches: 238, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
41 38 0.16
42 188 0.79
43 12 0.05
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
Found at i:11459598 original size:46 final size:46
Alignment explanation
Indices: 11459531--11459688 Score: 255
Period size: 46 Copynumber: 3.4 Consensus size: 46
11459521 CGTGAAACTA
11459531 CAATGGTCACCCAGCTAGTAGTAAATTTACTACATATAGTGGGACC
1 CAATGGTCACCCAGCTAGTAGTAAATTTACTACATATAGTGGGACC
11459577 CAATGGTCACCCAGCTAGTAGTAAATTTACTACATATAGTGGGACC
1 CAATGGTCACCCAGCTAGTAGTAAATTTACTACATATAGTGGGACC
* * * *
11459623 CAATGGTCACCTAGCTAGTAGTAAATTTACTACACATAGT-GAACTA
1 CAATGGTCACCCAGCTAGTAGTAAATTTACTACATATAGTGGGAC-C
*
11459669 CAATGATCACCCAGCTAGTA
1 CAATGGTCACCCAGCTAGTA
11459689 CAAGGGCTAA
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 3 0.03
46 102 0.97
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (46 bp):
CAATGGTCACCCAGCTAGTAGTAAATTTACTACATATAGTGGGACC
Found at i:11468664 original size:13 final size:13
Alignment explanation
Indices: 11468646--11468670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11468636 TATTTTAATA
11468646 TTATTTTGTGTGT
1 TTATTTTGTGTGT
11468659 TTATTTTGTGTG
1 TTATTTTGTGTG
11468671 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:11471436 original size:21 final size:21
Alignment explanation
Indices: 11471410--11471450 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11471400 GAAGATCAAC
11471410 TTTGACGCTGCATATGATGAG
1 TTTGACGCTGCATATGATGAG
11471431 TTTGACGCTGCATATGATGA
1 TTTGACGCTGCATATGATGA
11471451 CAAATAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (21 bp):
TTTGACGCTGCATATGATGAG
Found at i:11472018 original size:57 final size:57
Alignment explanation
Indices: 11471930--11472043 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
11471920 GTAAAAACAT
*
11471930 TTGGGTTTGATTAAAGATATATATGTTGTAATTGTACAGATAAGATCGAATAAGTAG
1 TTGGGTGTGATTAAAGATATATATGTTGTAATTGTACAGATAAGATCGAATAAGTAG
11471987 TTGGGTGTGATTAAAGATATATATGTTGTAATTGTACAGATAAGATCGAATAAGTAG
1 TTGGGTGTGATTAAAGATATATATGTTGTAATTGTACAGATAAGATCGAATAAGTAG
11472044 GTATATGGGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.36
Consensus pattern (57 bp):
TTGGGTGTGATTAAAGATATATATGTTGTAATTGTACAGATAAGATCGAATAAGTAG
Found at i:11472291 original size:41 final size:41
Alignment explanation
Indices: 11472246--11472336 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
11472236 GCTTAGCGCT
*
11472246 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
11472287 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
11472328 TAGCAGGCT
1 TAGCAGGCT
11472337 AAGTGCTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:11479363 original size:2 final size:2
Alignment explanation
Indices: 11479356--11479413 Score: 50
Period size: 2 Copynumber: 30.0 Consensus size: 2
11479346 GGTATAAAGG
* *
11479356 TA TA TA TA TA TA TA TA TA TA TA T- TCA AA TA -A T- TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* *
11479396 TA TC TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
11479414 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11479913 original size:41 final size:41
Alignment explanation
Indices: 11479868--11479966 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
11479858 GCTTAGCGCT
*
11479868 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
11479909 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
11479950 TAGCAGGC-TAAGTGCCG
1 TAGCAGGCTTAA-TGCCG
11479967 ATGTACTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 3 0.06
41 50 0.94
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:11492973 original size:24 final size:25
Alignment explanation
Indices: 11492903--11492974 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 25
11492893 TAAATATTTA
11492903 TATTATTAAAATATTCATATT-TATT
1 TATTATTAAAATATTCA-ATTATATT
* *
11492928 TA-T-TTATAAT-TTGAACTATATATT
1 TATTATTAAAATATTCAA-T-TATATT
11492952 TATTATTAAAATATT-AATTATAT
1 TATTATTAAAATATTCAATTATAT
11492975 AAACAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 7 0.18
24 12 0.32
25 4 0.11
26 8 0.21
27 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (25 bp):
TATTATTAAAATATTCAATTATATT
Found at i:11492973 original size:26 final size:25
Alignment explanation
Indices: 11492903--11492975 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
11492893 TAAATATTTA
* *
11492903 TATTATTAAAATATTCATATTTATT
1 TATTATTAAAATATTAATATATATT
*
11492928 TA-T-TTATAAT-TTGAACTATATATT
1 TATTATTAAAATATT-AA-TATATATT
11492952 TATTATTAAAATATTAATTATATA
1 TATTATTAAAATATTAA-TATATA
11492976 AACAATAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 10 0.26
25 3 0.08
26 14 0.37
27 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (25 bp):
TATTATTAAAATATTAATATATATT
Found at i:11495428 original size:33 final size:32
Alignment explanation
Indices: 11495392--11495455 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
11495382 GATGTTATCT
* *
11495392 AAAAACTACAAATTTTAAAATTAAAAAATATATA
1 AAAAACTA-AAAATTAAAAATT-AAAAATATATA
*
11495426 AAAAATTAAAAATTAAAAATTAAAAATATA
1 AAAAACTAAAAATTAAAAATTAAAAATATA
11495456 GAAGAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 9 0.33
33 11 0.41
34 7 0.26
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAAACTAAAAATTAAAAATTAAAAATATATA
Found at i:11495436 original size:7 final size:7
Alignment explanation
Indices: 11495426--11495452 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11495416 AAAATATATA
11495426 AAAAATT
1 AAAAATT
11495433 AAAAATT
1 AAAAATT
11495440 AAAAATT
1 AAAAATT
11495447 AAAAAT
1 AAAAAT
11495453 ATAGAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:11499915 original size:36 final size:36
Alignment explanation
Indices: 11499875--11499947 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
11499865 AAACCCATAG
* *
11499875 CCTCAAACCTTTGAGCCCTAAACCCCAAACTTGTAA
1 CCTCAAACATTTGAACCCTAAACCCCAAACTTGTAA
* *
11499911 CCTCAAACATTTGAACCCTGAACCCCAAGCTTGTAA
1 CCTCAAACATTTGAACCCTAAACCCCAAACTTGTAA
11499947 C
1 C
11499948 ATGTAACTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.36, G:0.10, T:0.22
Consensus pattern (36 bp):
CCTCAAACATTTGAACCCTAAACCCCAAACTTGTAA
Found at i:11500039 original size:7 final size:7
Alignment explanation
Indices: 11500029--11500060 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11500019 TAAACTTCAA
11500029 GGTTCGG
1 GGTTCGG
*
11500036 GGTTAGG
1 GGTTCGG
11500043 GGTTCGG
1 GGTTCGG
11500050 GGTTCGG
1 GGTTCGG
11500057 GGTT
1 GGTT
11500061 TAGAGTAAAA
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:0.03, C:0.09, G:0.56, T:0.31
Consensus pattern (7 bp):
GGTTCGG
Found at i:11504202 original size:25 final size:25
Alignment explanation
Indices: 11504168--11504218 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11504158 CCCATACTTG
11504168 ACTTGGTCGCCAAATCCGATCTGTA
1 ACTTGGTCGCCAAATCCGATCTGTA
11504193 ACTTGGTCGCCAAATCCGATCTGTA
1 ACTTGGTCGCCAAATCCGATCTGTA
11504218 A
1 A
11504219 GGTGTCATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (25 bp):
ACTTGGTCGCCAAATCCGATCTGTA
Found at i:11504773 original size:15 final size:14
Alignment explanation
Indices: 11504737--11504776 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11504727 TATGCTTAAT
*
11504737 AATTTAATTAATTA
1 AATTTAATTAAATA
*
11504751 ATTTTAATTAAATA
1 AATTTAATTAAATA
11504765 AATTATAATTAA
1 AATT-TAATTAA
11504777 TTATGAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTAATTAAATA
Found at i:11507280 original size:46 final size:46
Alignment explanation
Indices: 11507213--11507308 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
11507203 TCATTTCAAT
* * * *
11507213 TAAT-AATTTAACAATATTTCATTTTTCAATAATATGCTAAATACA
1 TAATAAATTTAACAACACTTCATTTTTCAAAAATATACTAAATACA
* *
11507258 TAATAAATTTAACGACACTTCATTTTTCAAAAATATATTAAATACA
1 TAATAAATTTAACAACACTTCATTTTTCAAAAATATACTAAATACA
11507304 TAATA
1 TAATA
11507309 TCATTCATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.09
46 40 0.91
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (46 bp):
TAATAAATTTAACAACACTTCATTTTTCAAAAATATACTAAATACA
Found at i:11508401 original size:13 final size:13
Alignment explanation
Indices: 11508383--11508422 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
11508373 CTAAACCGCA
11508383 TATATCATACATT
1 TATATCATACATT
* *
11508396 TATATCA-ACCTA
1 TATATCATACATT
11508408 TATATCATACATT
1 TATATCATACATT
11508421 TA
1 TA
11508423 GCCAGACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATCATACATT
Found at i:11508413 original size:12 final size:13
Alignment explanation
Indices: 11508382--11508419 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
11508372 TCTAAACCGC
11508382 ATATATCATACAT
1 ATATATCATACAT
* *
11508395 TTATATCA-ACCT
1 ATATATCATACAT
11508407 ATATATCATACAT
1 ATATATCATACAT
11508420 TTAGCCAGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATATCATACAT
Found at i:11509796 original size:2 final size:2
Alignment explanation
Indices: 11509760--11509812 Score: 55
Period size: 2 Copynumber: 29.0 Consensus size: 2
11509750 AGCGTGTTAT
11509760 TA TA T- TA TA TGA T- TA TA -A TA T- TA TA TA -A TA T- TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11509797 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
11509813 AAACAACAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
1 6 0.14
2 36 0.82
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11510943 original size:22 final size:22
Alignment explanation
Indices: 11510918--11511032 Score: 104
Period size: 22 Copynumber: 5.1 Consensus size: 22
11510908 CTTTCTGATA
*
11510918 TTTAGCACGTCAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
*
11510940 TTTAGCACATCTGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
* * *
11510962 ATTATTAGTACGTCAATGCTCTCTG
1 --T-TTAGCACATCAGTGCTCTCTG
* **
11510987 TTTAACACATTTGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
* * *
11511009 TATAGCACTTTAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
11511031 TT
1 TT
11511033 CATTAGTTCA
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
22 54 0.74
23 1 0.01
24 1 0.01
25 17 0.23
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (22 bp):
TTTAGCACATCAGTGCTCTCTG
Found at i:11510982 original size:47 final size:47
Alignment explanation
Indices: 11510911--11511032 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 47
11510901 TCTAGCGCTT
* *
11510911 TCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGTGCTC
1 TCTGATATTTAGCACGTCAATGCTCTCTGTTTAACACATCTGTGCTC
* *
11510958 TCTGAT-TATTAGTACGTCAATGCTCTCTGTTTAACACATTTGTGCTC
1 TCTGATAT-TTAGCACGTCAATGCTCTCTGTTTAACACATCTGTGCTC
* * *
11511005 TCTG-TA--TAGCACTTTAGTGCTCTCTGTT
1 TCTGATATTTAGCACGTCAATGCTCTCTGTT
11511033 CATTAGTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 18 0.28
46 2 0.03
47 45 0.69
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (47 bp):
TCTGATATTTAGCACGTCAATGCTCTCTGTTTAACACATCTGTGCTC
Found at i:11516544 original size:24 final size:24
Alignment explanation
Indices: 11516497--11516544 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11516487 ATTATGGATT
*
11516497 AAATAAATCTAATTTTTTCTAAAA
1 AAATAAATCTAATTTTTTCGAAAA
11516521 AAATAAATCTAATTTTATT-GAAAA
1 AAATAAATCTAATTTT-TTCGAAAA
11516545 TTGATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
AAATAAATCTAATTTTTTCGAAAA
Found at i:11516775 original size:13 final size:13
Alignment explanation
Indices: 11516757--11516786 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11516747 TTTCAATTTT
11516757 TTTATTACAATTA
1 TTTATTACAATTA
*
11516770 TTTATTATAATTA
1 TTTATTACAATTA
11516783 TTTA
1 TTTA
11516787 AGCGTAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATTACAATTA
Found at i:11523146 original size:71 final size:71
Alignment explanation
Indices: 11523027--11523168 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 71
11523017 TTTGGTAAGG
* * * *
11523027 TTAAAAACAACGATGATGGTGAGATTAATTACTATAGCTGTAAGATAAAAATTTTCGCCATACCA
1 TTAAAAACAACGATGACGGTGAGATTAATTACTATAGCTATAAGATAAAAAATTTCACCATACCA
11523092 TAACCA
66 TAACCA
* * * * *
11523098 TTAAAACCAGCGATGACGGTGATATTAGTTACTATAGCTATAATATAAAAAATTTCACCATACCA
1 TTAAAAACAACGATGACGGTGAGATTAATTACTATAGCTATAAGATAAAAAATTTCACCATACCA
11523163 TAACCA
66 TAACCA
11523169 CCCACCAAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (71 bp):
TTAAAAACAACGATGACGGTGAGATTAATTACTATAGCTATAAGATAAAAAATTTCACCATACCA
TAACCA
Found at i:11525292 original size:17 final size:17
Alignment explanation
Indices: 11525270--11525303 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11525260 NNNNNTAAGA
11525270 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
11525287 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
11525304 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:11525423 original size:16 final size:16
Alignment explanation
Indices: 11525402--11525443 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11525392 TTATTAAATT
*
11525402 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11525418 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11525433 AT-TATGTTTAA
1 ATATAT-TTTAA
11525444 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11525428 original size:15 final size:15
Alignment explanation
Indices: 11525393--11525434 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11525383 TTAAGAATTT
*
11525393 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11525407 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11525421 TATTTAATAATAAT
1 TATTTAATTATAAT
11525435 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11525670 original size:45 final size:44
Alignment explanation
Indices: 11525588--11525678 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 44
11525578 ACCTCTATTC
11525588 CATTCAACCAAACACAAGATTACTATTACGCATCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCATCTATTCCATTA
* *
11525632 CATTCAACCAAACA-ATTGATTTGCTATTACGTC-TCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACG-CATCTATTCCATTA
11525677 CA
1 CA
11525679 CATATATTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 24 0.57
46 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCATCTATTCCATTA
Found at i:11525702 original size:16 final size:16
Alignment explanation
Indices: 11525657--11525705 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
11525647 TTGATTTGCT
*
11525657 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
* * *
11525673 ATTACACATATATTCC
1 ATTACGCCTCTATTCC
11525689 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
11525705 A
1 A
11525706 ATACAGCGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.27, C:0.31, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:11528945 original size:51 final size:51
Alignment explanation
Indices: 11528861--11529178 Score: 460
Period size: 51 Copynumber: 6.3 Consensus size: 51
11528851 ACTTCTGATC
* *
11528861 AGTGACAAGTGATAAGT-AGTAGCTTTAGTTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGA-TAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
11528912 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
11528963 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
11529014 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
11529065 AGTGACAAGTGATATGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
** * * * *
11529116 AGTGGTAAGTGATAAGTGGTAGC-TTAACTACACTTACCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
*
11529166 AGTGATAAGTGAT
1 AGTGACAAGTGAT
11529179 CATACGTAAG
Statistics
Matches: 243, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
50 36 0.15
51 206 0.85
52 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:11529023 original size:102 final size:102
Alignment explanation
Indices: 11528861--11529178 Score: 530
Period size: 102 Copynumber: 3.1 Consensus size: 102
11528851 ACTTCTGATC
* * *
11528861 AGTGACAAGTGATAAGTAGTAGCTTTAGTTACACTTATCTGATCAATGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
11528926 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
11528963 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
11529028 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
11529065 AGTGACAAGTGATATGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGTAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
* * * *
11529130 AGTGGTAGCTT-AACTACACTTACCTGATCAGGGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
11529166 AGTGATAAGTGAT
1 AGTGACAAGTGAT
11529179 CATACGTAAG
Statistics
Matches: 204, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
101 34 0.17
102 170 0.83
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (102 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:11533492 original size:3 final size:3
Alignment explanation
Indices: 11533484--11533520 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
11533474 AAGAGATATG
*
11533484 TCA TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
11533521 TGCTTTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:11534289 original size:3 final size:3
Alignment explanation
Indices: 11534281--11534315 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11534271 AACTCTTGAG
11534281 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11534316 GGTGCTGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11534739 original size:28 final size:28
Alignment explanation
Indices: 11534702--11534768 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
11534692 AAAATTAAAT
*
11534702 TATAATTTTTACTATATGATAGTAAAAA
1 TATAATTTTTACTATATAATAGTAAAAA
11534730 TATAATTTTTACTATATAATAGTAAAAA
1 TATAATTTTTACTATATAATAGTAAAAA
11534758 TATAATTTTTA
1 TATAATTTTTA
11534769 AATGATTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (28 bp):
TATAATTTTTACTATATAATAGTAAAAA
Found at i:11541816 original size:28 final size:28
Alignment explanation
Indices: 11541762--11541816 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
11541752 ATCAGACTCG
* * *
11541762 TCTTTCGGGGTTTTCTCTTGTTTTTCTT
1 TCTTTCGGAGTTTTCTCTTCTTCTTCTT
11541790 TCTTT-GGAGTTTTCTTCTTCTTCTTCT
1 TCTTTCGGAGTTTTC-TCTTCTTCTTCT
11541817 CAGGCATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.02, C:0.20, G:0.15, T:0.64
Consensus pattern (28 bp):
TCTTTCGGAGTTTTCTCTTCTTCTTCTT
Found at i:11552878 original size:95 final size:95
Alignment explanation
Indices: 11552715--11552889 Score: 287
Period size: 95 Copynumber: 1.8 Consensus size: 95
11552705 ATATATATAC
* * * *
11552715 ATGTAACAACTTAAATAACAACTAAAGGAGGATTAAAATGAAAGAACGATAACTTATATGGGATG
1 ATGTAACAACTTAAATAACAAATAAAGAAGGACTAAAATGAAAGAACGATAACTTATAGGGGATG
*
11552780 AAATGTGATTGCAACTAATGGAGGGTACAT
66 AAATATGATTGCAACTAATGGAGGGTACAT
* *
11552810 ATGTAATAACTTAAATAACAAATAATGAAGGACTAAAATGAAAGAACGATAACTTATAGGGGATG
1 ATGTAACAACTTAAATAACAAATAAAGAAGGACTAAAATGAAAGAACGATAACTTATAGGGGATG
11552875 AAATATGATTGCAAC
66 AAATATGATTGCAAC
11552890 CAAATATGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.24
Consensus pattern (95 bp):
ATGTAACAACTTAAATAACAAATAAAGAAGGACTAAAATGAAAGAACGATAACTTATAGGGGATG
AAATATGATTGCAACTAATGGAGGGTACAT
Found at i:11561539 original size:19 final size:18
Alignment explanation
Indices: 11561495--11561542 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
11561485 CTGTTTATGT
* * *
11561495 TTTTAATATTTTTATAAT
1 TTTTAATATTTTAACAAA
11561513 TTTCTAATATTTTAACACAA
1 TTT-TAATATTTTAACA-AA
11561533 TTTTAATATT
1 TTTTAATATT
11561543 GTGTATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 18 0.72
20 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTAATATTTTAACAAA
Found at i:11591453 original size:31 final size:29
Alignment explanation
Indices: 11591389--11591457 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
11591379 ACGATAACGT
* *
11591389 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
11591418 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
11591449 AAGTGACTA
1 AAGTGACTA
11591458 TTTTGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:11597804 original size:34 final size:35
Alignment explanation
Indices: 11597744--11597810 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11597734 CAAACACCAG
* *
11597744 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11597779 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11597811 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11598265 original size:18 final size:18
Alignment explanation
Indices: 11598242--11598283 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
11598232 AAAATAGGTT
11598242 TTTAAG-GGTTAAAAGAAA
1 TTTAAGTGGTTAAAA-AAA
11598260 TTTAAGTGGTTAAAAAAA
1 TTTAAGTGGTTAAAAAAA
11598278 TGTTAA
1 T-TTAA
11598284 ATAGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (18 bp):
TTTAAGTGGTTAAAAAAA
Found at i:11599341 original size:19 final size:19
Alignment explanation
Indices: 11599314--11599370 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
11599304 TTATAAAGTC
11599314 GTAAGAAAATTATAAAAAAT
1 GTAA-AAAATTATAAAAAAT
* **
11599334 GTAAAAAAATATAAAATTT
1 GTAAAAAATTATAAAAAAT
11599353 GTAAAAAAATTATAAAAA
1 GT-AAAAAATTATAAAAA
11599371 CTATCATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
GTAAAAAATTATAAAAAAT
Found at i:11599342 original size:20 final size:20
Alignment explanation
Indices: 11599314--11599370 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
11599304 TTATAAAGTC
*
11599314 GTAAGAAAATTATAAAAAAT
1 GTAAAAAAATTATAAAAAAT
**
11599334 GTAAAAAAA-TATAAAATTT
1 GTAAAAAAATTATAAAAAAT
11599353 GTAAAAAAATTATAAAAA
1 GTAAAAAAATTATAAAAA
11599371 CTATCATACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:11599598 original size:10 final size:10
Alignment explanation
Indices: 11599556--11599689 Score: 53
Period size: 10 Copynumber: 13.3 Consensus size: 10
11599546 TTTTGATGTA
11599556 TTTTATAATT
1 TTTTATAATT
* *
11599566 ATTTATGA-T
1 TTTTATAATT
* **
11599575 TTTGATAAAA
1 TTTTATAATT
11599585 TTTTATAATT
1 TTTTATAATT
*
11599595 TTTT-TACAAT
1 TTTTATA-ATT
11599605 TTTTATAAATTTT
1 TTTTAT-AA--TT
*
11599618 TTTTCTAATT
1 TTTTATAATT
*
11599628 TTTCATAAATT
1 TTTTAT-AATT
** *
11599639 TTAAATACTT
1 TTTTATAATT
**
11599649 TTTTATTAAAA
1 TTTTA-TAATT
11599660 TTTTATAA-T
1 TTTTATAATT
11599669 TTTTAT--TT
1 TTTTATAATT
*
11599677 ATTTATAATT
1 TTTTATAATT
11599687 TTT
1 TTT
11599690 GCCACATGTG
Statistics
Matches: 88, Mismatches: 25, Indels: 22
0.65 0.19 0.16
Matches are distributed among these distances:
8 6 0.07
9 14 0.16
10 42 0.48
11 17 0.19
12 3 0.03
13 6 0.07
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:11599614 original size:29 final size:29
Alignment explanation
Indices: 11599555--11599618 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
11599545 TTTTTGATGT
**
11599555 ATTTTATAATTATTTATGATTTTGATAAA
1 ATTTTATAATTATTTACAATTTTGATAAA
* *
11599584 ATTTTATAATTTTTTTACAATTTTTATAAA
1 ATTTTATAA-TTATTTACAATTTTGATAAA
*
11599614 TTTTT
1 ATTTT
11599619 TTTCTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (29 bp):
ATTTTATAATTATTTACAATTTTGATAAA
Found at i:11599618 original size:22 final size:22
Alignment explanation
Indices: 11599585--11599640 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
11599575 TTTGATAAAA
*
11599585 TTTTAT-AATTTTTTTAC-AAT
1 TTTTATAAATTTTTTTTCTAAT
11599605 TTTTATAAATTTTTTTTCTAAT
1 TTTTATAAATTTTTTTTCTAAT
11599627 TTTTCATAAATTTT
1 TTTT-ATAAATTTT
11599641 AAATACTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 6 0.19
21 10 0.31
22 7 0.22
23 9 0.28
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTATAAATTTTTTTTCTAAT
Found at i:11599875 original size:93 final size:92
Alignment explanation
Indices: 11599778--11599964 Score: 236
Period size: 93 Copynumber: 2.0 Consensus size: 92
11599768 TCAAAGAGCC
*
11599778 TTTTTGATG-AATTT-AACAGTTCAAGTATCC-AATTGAATGCAAAAAGAAAAATCAAGGGCTTA
1 TTTTTGATGCAATTTGAA-AGTTCAAGTA-CCAAATTGAATGCAAAAA-AAAAACCAAGGGCTTA
*
11599840 ATTACTTTTTTTGAAAAAGTTTGAAGGTTTT
63 ATTA-TTTTTTTGAAAAAGTTTGAAGGCTTT
* * * * * *
11599871 TTTTTTATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGTAAAAAAAAAACCAGGGGCTTACTT
1 TTTTTGATGCAATTTGAAAGTTCAAGTACCAAATTGAATGCAAAAAAAAAACCAAGGGCTTAATT
*
11599936 ATTTTTTTGAAAAAGTTTGAGGGCTTT
66 ATTTTTTTGAAAAAGTTTGAAGGCTTT
11599963 TT
1 TT
11599965 GCACCCTTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
92 26 0.32
93 27 0.33
94 27 0.33
95 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (92 bp):
TTTTTGATGCAATTTGAAAGTTCAAGTACCAAATTGAATGCAAAAAAAAAACCAAGGGCTTAATT
ATTTTTTTGAAAAAGTTTGAAGGCTTT
Found at i:11599894 original size:94 final size:92
Alignment explanation
Indices: 11599795--11599964 Score: 243
Period size: 92 Copynumber: 1.8 Consensus size: 92
11599785 TGAATTTAAC
*
11599795 AGTTCAAGTATCC-AATTGAATGCAAAAAGAAAAATCAAGGGCTTAATTACTTTTTTTGAAAAAG
1 AGTTCAAGTA-CCAAATTGAATGCAAAAA-AAAAACCAAGGGCTTAATTA-TTTTTTTGAAAAAG
*
11599859 TTTGAAGGTTTTTTTTTTATGCATTTTGAA
63 TTTGAAGGCTTTTTTTTTATGCATTTTGAA
* * * *
11599889 AGTTCAAGTACCAAATTGAGTGTAAAAAAAAAACCAGGGGCTTACTTATTTTTTTGAAAAAGTTT
1 AGTTCAAGTACCAAATTGAATGCAAAAAAAAAACCAAGGGCTTAATTATTTTTTTGAAAAAGTTT
*
11599954 GAGGGCTTTTT
66 GAAGGCTTTTT
11599965 GCACCCTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 26 0.38
93 19 0.28
94 23 0.34
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (92 bp):
AGTTCAAGTACCAAATTGAATGCAAAAAAAAAACCAAGGGCTTAATTATTTTTTTGAAAAAGTTT
GAAGGCTTTTTTTTTATGCATTTTGAA
Found at i:11618310 original size:25 final size:25
Alignment explanation
Indices: 11618282--11618411 Score: 115
Period size: 25 Copynumber: 5.2 Consensus size: 25
11618272 GCGGACACCA
11618282 TAGCTCTCATGAGCTTCCCGATATT
1 TAGCTCTCATGAGCTTCCCGATATT
11618307 TAGCT-TGCATGAGCTTCCC-A-ATT
1 TAGCTCT-CATGAGCTTCCCGATATT
* * *
11618330 TCAGCTCTTATGAGCTTCCCAATATA
1 T-AGCTCTCATGAGCTTCCCGATATT
* * * * *
11618356 CAGCTCGCATGAGCTTTCTGTTATT
1 TAGCTCTCATGAGCTTCCCGATATT
* *
11618381 TAGCT-TACATGAGCTTCCCGTTATA
1 TAGCTCT-CATGAGCTTCCCGATATT
11618406 TAGCTC
1 TAGCTC
11618412 GGAAGAACTT
Statistics
Matches: 83, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
23 4 0.05
24 17 0.20
25 60 0.72
26 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (25 bp):
TAGCTCTCATGAGCTTCCCGATATT
Found at i:11619714 original size:88 final size:87
Alignment explanation
Indices: 11619610--11619781 Score: 256
Period size: 88 Copynumber: 2.0 Consensus size: 87
11619600 AAGACCGGTG
* * * * *
11619610 TCTTCGATCTGCTTCGCTGCTAGTACAGGAAGGCAAGATCTGCCATTTTTAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACT-C
11619675 TGCTCAG-GTAGACAAGGCTGGTA
65 TGCTCAGAG-AGACAAGGCTGGTA
*
11619698 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTCT
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTCT
*
11619763 GCTCAGAGAGATAAGGCTG
66 GCTCAGAGAGACAAGGCTG
11619782 AAGTTTCACC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
87 18 0.24
88 58 0.76
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTCT
GCTCAGAGAGACAAGGCTGGTA
Found at i:11620695 original size:29 final size:30
Alignment explanation
Indices: 11620636--11620693 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11620626 TCCGAGCCTT
*
11620636 GGGGCAAAAATATAATTATGTAAAAGTTTA
1 GGGGCAAAAATATAATTATGAAAAAGTTTA
* * *
11620666 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATATAATTATGAAAAAGTT
11620694 AGAGTCGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGAAAAAGTTTA
Found at i:11620923 original size:13 final size:13
Alignment explanation
Indices: 11620905--11620936 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11620895 TTTCCAGCAA
11620905 TTATGAATTTATT
1 TTATGAATTTATT
11620918 TTATGAATTTATT
1 TTATGAATTTATT
*
11620931 TGATGA
1 TTATGA
11620937 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:11621140 original size:50 final size:50
Alignment explanation
Indices: 11621037--11621272 Score: 224
Period size: 50 Copynumber: 4.6 Consensus size: 50
11621027 GTAAAGAGAT
* *
11621037 CCCATGTAAGACCATGTCTGGGCCATGGCATTGGCATCCTTAAGATCATGAGAGGC
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--GAGAGGC
* * *
11621093 CCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAGGC
* * * * *
11621143 CCCATGTAAGACCATGTCTGGGACATGCCGTTGGCACCGAGATGAGAGGTC
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAGG-C
* * * * * *
11621194 CCC-TATAAAACCATGTCTGGGACATGGCATGGGAACCAACATGAGA-AC
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAGGC
*
11621242 ATCCCATGTAAGACCATGTCTTGGACATGGC
1 --CCCATGTAAGACCATGTCTGGGACATGGC
11621273 TTTGGCATGT
Statistics
Matches: 153, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
50 88 0.58
51 25 0.16
52 1 0.01
53 3 0.02
55 2 0.01
56 33 0.22
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAGGC
Found at i:11621218 original size:100 final size:103
Alignment explanation
Indices: 11621031--11621280 Score: 308
Period size: 100 Copynumber: 2.4 Consensus size: 103
11621021 ATTTGGGTAA
*
11621031 AGAGATCCCATGTAAGACCATGTCTGGGCCATGGCATTGGCATCCTTAAGATCATGAGAGGCCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGCCCC
* * * * *
11621096 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAAACCATGTCTGGGACATGGCATGGGAACCAACACG
* * * * *
11621137 AGAGGTCCCATGTAAGACCATGTCTGGGACATGCCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGCCCCCTA
*
11621199 TAAAACCATGTCTGGGACATGGCATGGGAACCAACATG
66 TAAAACCATGTCTGGGACATGGCATGGGAACCAACACG
* * *
11621237 AGAACATCCCATGTAAGACCATGTCTTGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
11621281 GTTATTATCA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
100 48 0.38
101 37 0.30
105 2 0.02
106 38 0.30
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGCCCCCTA
TAAAACCATGTCTGGGACATGGCATGGGAACCAACACG
Found at i:11628341 original size:29 final size:30
Alignment explanation
Indices: 11628282--11628339 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11628272 TCCGAGCCTT
*
11628282 GGGGCAAAAATATAATTATGTAAAAGTTTA
1 GGGGCAAAAATATAATTATGAAAAAGTTTA
* * *
11628312 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATATAATTATGAAAAAGTT
11628340 AGAGTCGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGAAAAAGTTTA
Found at i:11634998 original size:27 final size:27
Alignment explanation
Indices: 11634942--11635004 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
11634932 AATGATGTGG
* *
11634942 AAAAAGAAT-AAAAGAATAATTACTCG
1 AAAAAGAATAAAAAGAATAATGACTCA
* * *
11634968 AAAAAGAATAAAAAGACTACTGGCTCA
1 AAAAAGAATAAAAAGAATAATGACTCA
*
11634995 AAAATGAATA
1 AAAAAGAATA
11635005 CGAAAAGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (27 bp):
AAAAAGAATAAAAAGAATAATGACTCA
Found at i:11638466 original size:24 final size:24
Alignment explanation
Indices: 11638439--11638496 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
11638429 CCCGAGCTGC
*
11638439 TCCTGCATTTGCTGCTGAAGTTGA
1 TCCTGCATTTGCTGCTAAAGTTGA
11638463 TCCTGCATTTGCTGCTAAAGTTGA
1 TCCTGCATTTGCTGCTAAAGTTGA
11638487 TCCTGCATTT
1 TCCTGCATTT
11638497 TTTTTAGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (24 bp):
TCCTGCATTTGCTGCTAAAGTTGA
Found at i:11642367 original size:19 final size:18
Alignment explanation
Indices: 11642331--11642370 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11642321 ATGTATATGC
11642331 ATATATTAAAATACGTAT
1 ATATATTAAAATACGTAT
* *
11642349 ATATATGTATAATATGTAT
1 ATATAT-TAAAATACGTAT
11642368 ATA
1 ATA
11642371 AAAAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (18 bp):
ATATATTAAAATACGTAT
Found at i:11644069 original size:30 final size:31
Alignment explanation
Indices: 11644030--11644089 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11644020 GGAGGTGAGA
11644030 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
* * *
11644061 TGGG-AGGGAGTAAAATTTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAA
11644090 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
Found at i:11644317 original size:9 final size:9
Alignment explanation
Indices: 11644303--11644339 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11644293 TATAGTTTGA
11644303 TATTCGAAT
1 TATTCGAAT
11644312 TATTCGAAT
1 TATTCGAAT
*
11644321 TATTCGAGT
1 TATTCGAAT
11644330 TATTCGAAT
1 TATTCGAAT
11644339 T
1 T
11644340 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11645690 original size:32 final size:32
Alignment explanation
Indices: 11645644--11645707 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
11645634 GACGGGTCGG
*
11645644 AATTTTTAACCTAGAAGCACTAGATGACTACA
1 AATTCTTAACCTAGAAGCACTAGATGACTACA
11645676 AATTCTTAACCTAGAAGCACTAGATGACTACA
1 AATTCTTAACCTAGAAGCACTAGATGACTACA
11645708 TACTCGACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (32 bp):
AATTCTTAACCTAGAAGCACTAGATGACTACA
Found at i:11650894 original size:3 final size:3
Alignment explanation
Indices: 11650886--11650915 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11650876 AATCATTAAA
11650886 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11650916 TAAATCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11651540 original size:16 final size:16
Alignment explanation
Indices: 11651516--11651546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11651506 TTTCGTCTCT
11651516 TTCTCTGTTTCTTTTC
1 TTCTCTGTTTCTTTTC
*
11651532 TTCTTTGTTTCTTTT
1 TTCTCTGTTTCTTTT
11651547 ACTTTATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.74
Consensus pattern (16 bp):
TTCTCTGTTTCTTTTC
Found at i:11651721 original size:5 final size:5
Alignment explanation
Indices: 11651713--11651777 Score: 64
Period size: 5 Copynumber: 13.2 Consensus size: 5
11651703 TATTTAATTT
* * *
11651713 ATATA ATATA AAACA ATATA ATATA ATATA ATATA ATATGTT ATATA ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA--TA ATATA ATATA
11651764 A-ATA ATAT- ATATA A
1 ATATA ATATA ATATA A
11651778 AACATAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
3 1 0.02
4 8 0.16
5 36 0.73
7 4 0.08
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:11652812 original size:62 final size:62
Alignment explanation
Indices: 11652715--11652861 Score: 267
Period size: 62 Copynumber: 2.4 Consensus size: 62
11652705 GAAGGCTGAG
* * *
11652715 CAGAAGCTCATGAGAGCTAAACGGAAACGTATAAGGGTTGAATGGAAACTCATATGAGTTAA
1 CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
11652777 CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
1 CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
11652839 CAGAAGCTCGTGAGAGCTAAACG
1 CAGAAGCTCGTGAGAGCTAAACG
11652862 AAAAGTAAAC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 82 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.19
Consensus pattern (62 bp):
CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
Found at i:11658878 original size:3 final size:3
Alignment explanation
Indices: 11658870--11658906 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11658860 ACAAATTTCC
11658870 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
11658907 TTTAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:11662163 original size:21 final size:21
Alignment explanation
Indices: 11662138--11662179 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11662128 AGTTTTGCTT
11662138 GACGATCCTATTTCATTTAAA
1 GACGATCCTATTTCATTTAAA
11662159 GACGATCCTATTTCATTTAAA
1 GACGATCCTATTTCATTTAAA
11662180 CCAGTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (21 bp):
GACGATCCTATTTCATTTAAA
Found at i:11670767 original size:27 final size:26
Alignment explanation
Indices: 11670719--11670781 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
11670709 TATTATTTCT
* *
11670719 ATATGTATACACACATTTTTTATAT-
1 ATATATATATACACATTTTTTATATA
* *
11670744 ATAGTATATATACATATTTCTTTATCTA
1 ATA-TATATATACACATTT-TTTATATA
11670772 ATATATATAT
1 ATATATATAT
11670782 TCTTAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 3 0.10
26 12 0.39
27 13 0.42
28 3 0.10
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATATATATACACATTTTTTATATA
Found at i:11674637 original size:20 final size:20
Alignment explanation
Indices: 11674612--11674651 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11674602 TTCACCTCAT
*
11674612 GCATCGCATCATGTGCATTA
1 GCATCGCATCATATGCATTA
*
11674632 GCATCGCATTATATGCATTA
1 GCATCGCATCATATGCATTA
11674652 AAGATCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:11683735 original size:89 final size:89
Alignment explanation
Indices: 11682723--11683726 Score: 1359
Period size: 89 Copynumber: 11.2 Consensus size: 89
11682713 GCAAGTTGAG
* * * *
11682723 AGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAAAGCAGATCTTGTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC-AA--AGAAAGCAGATCTTGTC
*
11682788 TTCATGTACTGGTGTGAAGTAGATCAA
63 TTCATGTACTGGCGTGAAGTAGATCAA
* * *
11682815 AGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAAAGCAGATCTTGTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC-AA--AGAAAGCAGATCTTGTC
* * *
11682880 TTCATGTATTAGCATGAAGTAGATCAA
63 TTCATGTACTGGCGTGAAGTAGATCAA
* *
11682907 A-AGTAACATATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTT
1 AGA-TAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTT
*
11682971 CATGTACTGGCGTGAAGTAGATCAG
65 CATGTACTGGCGTGAAGTAGATCAA
* * * * *
11682996 AGATACCAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGAT-AAAAAAAGTAGATTTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
* *
11683060 ATGTACTAGCGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAA
* *
11683084 AGATACCAGATCTTGCCTTCTCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
11683149 ATGTACTGGCGTGAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAA
* * * * * **
11683173 AGATAACAGATCTAGTCTTCCCATACTGGTGGCGAAACATATCGAAGAAAATAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
*
11683238 ATGTACTGGAGTGAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAA
* * * * * * *
11683262 AGGTAACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTAAAGAAAAGTAGATATTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAG-AAAGCAGATCTTGTCTT
*
11683327 CATGTACTGGCGTGAAGTAGATCAG
65 CATGTACTGGCGTGAAGTAGATCAA
* *
11683352 AGATAACAGGTCTTGCCTTCCCAT-CTGATGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
11683416 ATGTACTGGCGTGAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAA
* * * * *
11683440 AGGTAATAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
11683505 ATGTACTGGCGTGAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAA
* *
11683529 AGATAACAGATCTTGCCTTCCCATACTGATGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
* *
11683594 ATATACTGGCGTGAAGTAGATTAA
66 ATGTACTGGCGTGAAGTAGATCAA
* ** * * * *
11683618 AGATAGCAGATCTTATCTTCCCATACTGGTAGTGAAGTAGATCGGAA-AAAGCAGATCTTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC-AAAGAAAGCAGATCTTGTCTT
*
11683682 CATGTACTGGCGTAAAGTAGATCAA
65 CATGTACTGGCGTGAAGTAGATCAA
* *
11683707 AGATACCAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTC
11683727 ATGTACTGGC
Statistics
Matches: 815, Mismatches: 91, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
88 142 0.17
89 483 0.59
90 62 0.08
91 3 0.00
92 125 0.15
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (89 bp):
AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
ATGTACTGGCGTGAAGTAGATCAA
Found at i:11685244 original size:7 final size:7
Alignment explanation
Indices: 11685234--11685263 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
11685224 CTTTTAACTT
11685234 TTATATA
1 TTATATA
11685241 TTATATA
1 TTATATA
11685248 TTATATA
1 TTATATA
11685255 TATATATA
1 T-TATATA
11685263 T
1 T
11685264 ACATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTATATA
Found at i:11687225 original size:8 final size:8
Alignment explanation
Indices: 11687212--11687257 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
11687202 TAAAAGTATG
11687212 ATTATTAA
1 ATTATTAA
11687220 ATTATTAA
1 ATTATTAA
11687228 A-TA-T--
1 ATTATTAA
11687232 ATTATTAA
1 ATTATTAA
11687240 ATTATT--
1 ATTATTAA
11687246 ATTATTAA
1 ATTATTAA
11687254 ATTA
1 ATTA
11687258 AGACAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
4 1 0.03
5 2 0.06
6 8 0.25
7 2 0.06
8 19 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATTATTAA
Found at i:11687250 original size:14 final size:13
Alignment explanation
Indices: 11687215--11687257 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
11687205 AAGTATGATT
*
11687215 ATTAAATTATTAA
1 ATTATATTATTAA
11687228 A-TATATTATTAA
1 ATTATATTATTAA
11687240 ATTATTATTATTAA
1 ATTA-TATTATTAA
11687254 ATTA
1 ATTA
11687258 AGACAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.41
13 3 0.11
14 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTATATTATTAA
Found at i:11688475 original size:23 final size:23
Alignment explanation
Indices: 11688448--11688493 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11688438 GCTTTGCCGA
11688448 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGTATC
11688471 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGTATC
11688494 AGACATCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATC
Found at i:11707189 original size:45 final size:44
Alignment explanation
Indices: 11707102--11707220 Score: 152
Period size: 45 Copynumber: 2.7 Consensus size: 44
11707092 ATATAGTACT
* *
11707102 CGGTGTAATCAGCACATAGCAACCACCTTTATACTCAATGGTA-C
1 CGGTGAAATCAGCACATAGCAATCA-CTTTATACTCAATGGTATC
* *
11707146 CGGTTGAATTCAGCACATAGCAATCACTTATATAAC-CATTGGTATC
1 CGG-TGAAATCAGCACATAGCAATCACTT-TAT-ACTCAATGGTATC
11707192 CGGTGAAATCAGCACATAGCAATCACTTT
1 CGGTGAAATCAGCACATAGCAATCACTTT
11707221 TCATAAATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 7 0.11
45 53 0.80
46 6 0.09
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (44 bp):
CGGTGAAATCAGCACATAGCAATCACTTTATACTCAATGGTATC
Found at i:11707802 original size:50 final size:48
Alignment explanation
Indices: 11707688--11707870 Score: 228
Period size: 50 Copynumber: 3.8 Consensus size: 48
11707678 TCACATATCG
* *
11707688 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC-TCGTCC
* *
11707735 GAGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC-TC-GTCC
* *
11707785 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTC-CACGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCTCTC-GTCC
*
11707835 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
11707871 GCACACTCAC
Statistics
Matches: 120, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
47 40 0.33
49 2 0.02
50 72 0.60
51 2 0.02
52 4 0.03
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTCGTCC
Found at i:11707810 original size:97 final size:99
Alignment explanation
Indices: 11707688--11707870 Score: 291
Period size: 97 Copynumber: 1.9 Consensus size: 99
11707678 TCACATATCG
*
11707688 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACT-CA--TCTCGAGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCACGTCT-GAGCCGATGCCATGT
11707750 CCCAAACATGGTCTTACACTGACTCTCTTCTGTCC
65 CCCAAACATGGTCTTACACTGACTCTCTTCTGTCC
* *
11707785 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCACGGTCTGTGCTGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCAC-GTCTGAGCCGATGCCATGT
*
11707850 CCCAGACATGGTCTTACACTG
65 CCCAAACATGGTCTTACACTG
11707871 GCACACTCAC
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
97 40 0.51
98 2 0.03
100 33 0.42
101 3 0.04
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (99 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCACGTCTGAGCCGATGCCATGTC
CCAAACATGGTCTTACACTGACTCTCTTCTGTCC
Found at i:11709920 original size:83 final size:83
Alignment explanation
Indices: 11709821--11709986 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
11709811 AATTATGGAG
11709821 ACTTAATGATTAAGGATTAAAATTGGTGGCAGAACATGATTGAAGGGTCAAAGTGTAAATAATTA
1 ACTTAATGATTAAGGATTAAAATTGGTGGCAGAACATGATTGAAGGGTCAAAGTGTAAATAATTA
11709886 ATTTAAAAGATATTTTGA
66 ATTTAAAAGATATTTTGA
11709904 ACTTAATGATTAAGGATTAAAATTGGTGGCAGAACATGATTGAAGGGTCAAAGTGTAAATAATTA
1 ACTTAATGATTAAGGATTAAAATTGGTGGCAGAACATGATTGAAGGGTCAAAGTGTAAATAATTA
11709969 ATTTAAAAGATATTTTGA
66 ATTTAAAAGATATTTTGA
11709987 TTAGATTTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (83 bp):
ACTTAATGATTAAGGATTAAAATTGGTGGCAGAACATGATTGAAGGGTCAAAGTGTAAATAATTA
ATTTAAAAGATATTTTGA
Found at i:11713245 original size:146 final size:147
Alignment explanation
Indices: 11712922--11713357 Score: 698
Period size: 146 Copynumber: 3.0 Consensus size: 147
11712912 ACTTTAACGG
* * * *
11712922 AAGTCACATTCCAAATGTTTTAAAACTGACATTTTAAGTCTCACCACTCTTTTTTGGAAGTATAG
1 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
* * * *
11712987 TTATAAATTAATGTGTTTACTATAAGAAATTATTTTATGGGCTCTTTTCACCACATCATCTATAG
66 TTATAAATTAATGTGTTTAC-ATGAGAAATTATTTTATAGACTCTTTTCACCACATCATCCATAG
*
11713052 TCCTGCCCAGTTTCATGA
130 TCCTGCCCAATTTCATGA
11713070 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
1 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
* * *
11713135 TTATAAATTAATGTGTTTATCATGAGAAA-T-TTTTATAGACTCTTTTCGCCACATCAACCATGG
66 TTATAAATTAATGTGTTTA-CATGAGAAATTATTTTATAGACTCTTTTCACCACATCATCCATAG
11713198 TCCTGCCCAATTTCATGA
130 TCCTGCCCAATTTCATGA
11713216 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
1 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
*
11713281 TTATAAATTAATGTGTTTACCATGAGAAATTATTTTATTGACTC-TTTCTACCACATCATCCATA
66 TTATAAATTAATGTGTTTA-CATGAGAAATTATTTTATAGACTCTTTTC-ACCACATCATCCATA
11713345 GTCCTGCCCAATT
129 GTCCTGCCCAATT
11713358 AAAAGAAGAC
Statistics
Matches: 267, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
146 137 0.51
147 6 0.02
148 123 0.46
149 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (147 bp):
AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
TTATAAATTAATGTGTTTACATGAGAAATTATTTTATAGACTCTTTTCACCACATCATCCATAGT
CCTGCCCAATTTCATGA
Done.