Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 65 of 318
Found at i:18894368 original size:40 final size:40
Alignment explanation
Indices: 18894324--18894549 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
18894314 GCTACTCGTT
* * *
18894324 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
18894364 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
18894404 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
18894444 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * *
18894484 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* * *
18894525 TAAA-GCCTTCGGGACTCAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18894550 CATCATTCGA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18894428 original size:80 final size:80
Alignment explanation
Indices: 18894291--18894496 Score: 251
Period size: 80 Copynumber: 2.6 Consensus size: 80
18894281 GAATCACGTA
* ** *
18894291 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGGATT-
*
18894352 TAGTAACTCTCACAAATG
63 TAGTAACTCGCACAAATG
* * *
18894370 CCTTCGGGA-CTTAACCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTG
1 CCTTC-GGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATTTA
18894434 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
**
18894450 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
18894497 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
79 14 0.13
80 94 0.85
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAG
TAACTCGCACAAATG
Found at i:18894533 original size:120 final size:120
Alignment explanation
Indices: 18894324--18894549 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 120
18894314 GCTACTCGTT
*
18894324 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCTCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * * *
18894389 ATTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTCAACCCGGATTTGGTAACTCGCA
* * **
18894444 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* * *
18894506 CGGATATAGTCACTTAGCATAAA-GCCTTCGGGACTCAGCCCGGA
63 CGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTCAACCCGGA
18894550 CATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
119 6 0.07
120 75 0.83
121 9 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTCAACCCGGATTTGGTAACTCGCA
Found at i:18906648 original size:42 final size:42
Alignment explanation
Indices: 18906579--18906831 Score: 176
Period size: 42 Copynumber: 6.0 Consensus size: 42
18906569 CATAGATTAG
* * * *
18906579 AGATTACGTATAAGACCATGGT-TGGGACATTGGAATCGTATTT
1 AGATTTCGTGTAAGACCA-CGTCTGGGACATTGGCATCG-ATTT
* * *
18906622 A-ATTTCGTGTAAGACCACGTCTGGGACGTTGGAATCGACTTG
1 AGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTT
* * *
18906664 AGATTTATGTGTAAGACCACGTCTGAGACGTTGGCATCGATTT
1 AGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATTT
* * *
18906707 GAGATATCGTGTAAGA-TAGTGTCTGGGACATTGGCATCGA-TT
1 -AGATTTCGTGTAAGACCA-CGTCTGGGACATTGGCATCGATTT
* * * * * * *
18906749 AGAGATACATATAAGACTATGTCTGGGACATTGGCATCG-TAT
1 AGA-TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTT
* * *
18906791 ATGATTTCGTGTAAGACTC-TGTCTAGGACAGTGGCATCGAT
1 A-GATTTCGTGTAAGAC-CACGTCTGGGACATTGGCATCGAT
18906832 AATTCATTAC
Statistics
Matches: 170, Mismatches: 28, Indels: 24
0.77 0.13 0.11
Matches are distributed among these distances:
41 6 0.04
42 91 0.54
43 38 0.22
44 35 0.21
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (42 bp):
AGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTT
Found at i:18906686 original size:44 final size:44
Alignment explanation
Indices: 18906628--18906711 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
18906618 ATTTAATTTC
*
18906628 GTGTAAGACCACGTCTGGGACGTTGGAATCGACTTGAGATTTAT
1 GTGTAAGACCACGTCTGAGACGTTGGAATCGACTTGAGATTTAT
* *
18906672 GTGTAAGACCACGTCTGAGACGTTGGCATCGATTTGAGAT
1 GTGTAAGACCACGTCTGAGACGTTGGAATCGACTTGAGAT
18906712 ATCGTGTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (44 bp):
GTGTAAGACCACGTCTGAGACGTTGGAATCGACTTGAGATTTAT
Found at i:18909229 original size:40 final size:40
Alignment explanation
Indices: 18909162--18909447 Score: 429
Period size: 40 Copynumber: 7.2 Consensus size: 40
18909152 CCTTCGGAGT
* *
18909162 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
18909201 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
18909241 TTAGCCCGGTTATAGTAACTCGCACAAATACCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
18909281 TTAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
18909321 TTAGCCTGGATGTAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
18909360 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
18909399 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
18909439 TTAGCCCGG
1 TTAGCCCGG
18909448 TTATCAATCC
Statistics
Matches: 231, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.00
39 77 0.33
40 153 0.66
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:18917333 original size:40 final size:40
Alignment explanation
Indices: 18917266--18917551 Score: 402
Period size: 40 Copynumber: 7.2 Consensus size: 40
18917256 CCTTCGGAGT
* *
18917266 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
18917305 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
18917345 TTAGCCCGGTTATAGTAACTCGGACAAATACTTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
18917385 TTAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
18917425 TTAGCCCGGATGTAGTAACTCGAACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
18917464 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
18917503 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
*
18917543 TTAGACCGG
1 TTAGCCCGG
18917552 TTATCAATCC
Statistics
Matches: 226, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.00
39 77 0.34
40 148 0.65
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:18925169 original size:79 final size:80
Alignment explanation
Indices: 18925005--18925189 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
18924995 AATTGAATGA
** * *
18925005 TATCCGGGCTAAGTCCCGAAGATGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAAGACATTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
18925070 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
* * *
18925086 -ATCCGGGCTAAGT-CCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAAGACATTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
18925148 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
* *
18925164 TATCCGGGCTAAGACCCGAAGGCATT
1 TATCCGGGCTAAGTCCCGAAGACATT
18925190 TGTGCAAATC
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 5 0.06
79 60 0.68
80 22 0.25
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAAGACATTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:18925209 original size:40 final size:40
Alignment explanation
Indices: 18925041--18925194 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
18925031 AATGCTGGAA
* * *
18925041 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
** * * * *
18925081 GCTACATCCGGGCTAAG-TCCG-AGGACATTTATGCTAGTA
1 ATTATATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTC
* *
18925120 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
*
18925160 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
18925195 AAATCGTGAT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
38 3 0.03
39 28 0.30
40 59 0.63
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
Found at i:18933253 original size:39 final size:40
Alignment explanation
Indices: 18933210--18933295 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
18933200 ATCCGGGCTG
*
18933210 AGGCATT-ATGCTAGTAATTATATCCGGGCTAAGACCCGA
1 AGGCATTCATGCGAGTAATTATATCCGGGCTAAGACCCGA
* * *
18933249 AGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGA
1 AGGCATTCATGCGAGTAATTATATCCGGGCTAAGACCCGA
18933289 AGGCATT
1 AGGCATT
18933296 TGTGCAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 7 0.17
40 35 0.83
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
AGGCATTCATGCGAGTAATTATATCCGGGCTAAGACCCGA
Found at i:18933314 original size:40 final size:40
Alignment explanation
Indices: 18933229--18933316 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
18933219 GCTAGTAATT
* * *
18933229 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
* * *
18933269 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
18933309 ATATCCGG
1 ATATCCGG
18933317 TTAAGTCCCG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
Found at i:18936493 original size:78 final size:79
Alignment explanation
Indices: 18936331--18936507 Score: 204
Period size: 78 Copynumber: 2.3 Consensus size: 79
18936321 AATTGAATGA
* * *
18936331 TATCCGGGCTAAGTCCCGAAGATTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 TATCCGGGCTAAGTCCCGAACATTTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
*
18936396 TGTGCTAGTGGCTAC
66 TGTGCGAGT-GCTAC
*
18936411 -ATCCGGGCTAAGT-CCGAGGACATTT-ATGCTAG-TATTATATCCGGGCTAAGACCCGAAGGC-
1 TATCCGGGCTAAGTCCCGA--ACATTTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
18936471 ATTCGTGCGAGT-CATTC
64 ATT-GTGCGAGTGC-TAC
*
18936488 TATCCGGGCTAAGACCCGAA
1 TATCCGGGCTAAGTCCCGAA
18936508 GGCATTTGTG
Statistics
Matches: 84, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
76 1 0.01
77 6 0.07
78 49 0.58
79 23 0.27
80 5 0.06
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
TATCCGGGCTAAGTCCCGAACATTTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCGAGTGCTAC
Found at i:18936533 original size:40 final size:40
Alignment explanation
Indices: 18936330--18936518 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 40
18936320 AAATTGAATG
* * * **
18936330 ATATCCGGGCTAAGTCCCGAA-G-ATTTAATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTT-GTGCTAGTCATT
* * ***
18936369 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCATT
* * *
18936409 ACATCCGGGCTAAG-TCCG-AGGACATTTATGCTAGT-ATT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTCATT
* *
18936447 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCATT
*
18936487 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
18936519 AAATCGTGAT
Statistics
Matches: 121, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
38 17 0.14
39 46 0.38
40 55 0.45
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCATT
Found at i:18944599 original size:80 final size:81
Alignment explanation
Indices: 18944435--18944620 Score: 224
Period size: 80 Copynumber: 2.3 Consensus size: 81
18944425 AATTGAATGA
* * *
18944435 TATCCGGGCTAAGTCCCGA--AGATTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGTCCCGAGGACATTTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
18944498 ATTGTGCTAGTGGCTAC
66 ATTGTGCGAGT-GCTAC
*
18944515 -ATCCGGGCTAAGTCCCGAGGACATTT-ATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-
1 TATCCGGGCTAAGTCCCGAGGACATTTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
18944577 ATTCGTGCGAGT-CATTC
66 ATT-GTGCGAGTGC-TAC
*
18944594 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
18944621 GTGCAAATCG
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
78 1 0.01
79 23 0.25
80 61 0.66
81 8 0.09
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TATCCGGGCTAAGTCCCGAGGACATTTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGCTAC
Found at i:18944639 original size:40 final size:40
Alignment explanation
Indices: 18944434--18944624 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
18944424 AAATTGAATG
* * * **
18944434 ATATCCGGGCTAAGTCCCGAA-G-ATTTAATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTT-GTGCTAGTCATT
* * ***
18944473 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCATT
* * * *
18944513 ACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTCATT
* *
18944553 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCATT
*
18944593 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
18944625 AAATCGTGAT
Statistics
Matches: 123, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
39 22 0.18
40 95 0.77
41 6 0.05
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCATT
Found at i:18947137 original size:10 final size:10
Alignment explanation
Indices: 18947122--18947152 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
18947112 TTATGTGTTT
18947122 TTGAATGAAA
1 TTGAATGAAA
18947132 TTGAATGAAA
1 TTGAATGAAA
18947142 TTGAATGAAA
1 TTGAATGAAA
18947152 T
1 T
18947153 GTTATTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (10 bp):
TTGAATGAAA
Found at i:18947503 original size:43 final size:43
Alignment explanation
Indices: 18947455--18947745 Score: 184
Period size: 43 Copynumber: 6.7 Consensus size: 43
18947445 TACAGAATAC
* * *
18947455 TGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACAT
1 TGGCATCGATTAGAGATTACGTGTAAGACCATGTCTGGGACAT
** *
18947498 TGGCATCGTATTTA-ATTTTA--TGTAAGACCACGTCTGGGA-AGT
1 TGGCATCG-A-TTAGAGATTACGTGTAAGACCATGTCTGGGACA-T
* * * **
18947540 TGGCATCGACTT-GAGATTTATGTGTAAGATCACGTCTGGGATGT
1 TGGCATCGA-TTAGAGA-TTACGTGTAAGACCATGTCTGGGACAT
* *
18947584 TGGCATCGATTTGAGA-TATCGTGTAAGA-CAGTGTCTGGGACAC
1 TGGCATCGATTAGAGATTA-CGTGTAAGACCA-TGTCTGGGACAT
* * * * *
18947627 TGGCATCAACTAGAGATTACGTATAAGACCATGTATAGGACAT
1 TGGCATCGATTAGAGATTACGTGTAAGACCATGTCTGGGACAT
* * * * *
18947670 TGGCATC-ATCGTATATGATTTCGTGTAAGACCCTATCTGGGACAA
1 TGGCATCGAT--TAGA-GATTACGTGTAAGACCATGTCTGGGACAT
* * ** *
18947715 TGACATCGATAATTGATTACATGTAAGACCA
1 TGGCATCGATTAGAGATTACGTGTAAGACCA
18947746 CATCTGGGTC
Statistics
Matches: 193, Mismatches: 38, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
41 5 0.03
42 32 0.17
43 77 0.40
44 46 0.24
45 31 0.16
46 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
TGGCATCGATTAGAGATTACGTGTAAGACCATGTCTGGGACAT
Found at i:18947543 original size:42 final size:43
Alignment explanation
Indices: 18947497--18947600 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 43
18947487 GCCTGAGACA
18947497 TTGGCATCGTATTTA-ATTT-TATGTAAGACCACGTCTGGGAAG
1 TTGGCATCG-ATTTAGATTTATATGTAAGACCACGTCTGGGAAG
* * * *
18947539 TTGGCATCGACTTGAGATTTATGTGTAAGATCACGTCTGGGATG
1 TTGGCATCGA-TTTAGATTTATATGTAAGACCACGTCTGGGAAG
18947583 TTGGCATCGATTTGAGAT
1 TTGGCATCGATTT-AGAT
18947601 ATCGTGTAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.02
42 12 0.23
43 6 0.11
44 34 0.64
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (43 bp):
TTGGCATCGATTTAGATTTATATGTAAGACCACGTCTGGGAAG
Found at i:18949572 original size:42 final size:43
Alignment explanation
Indices: 18949505--18949606 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
18949495 GATTTGAGAT
* * * * *
18949505 TTACGTGTAAGACCATGTCTGGGACATAGGCATCG-TATTTG-A
1 TTACATGTAAGACCATGACTAGGACAGAGGCATCGATA-CTGAA
* *
18949547 TTTCATGTAAGACCCTGACTAGGACAGAGGCATCGATACTGAA
1 TTACATGTAAGACCATGACTAGGACAGAGGCATCGATACTGAA
18949590 TTACATGTAAGACCATG
1 TTACATGTAAGACCATG
18949607 TCCAGGGGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 31 0.63
43 18 0.37
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
TTACATGTAAGACCATGACTAGGACAGAGGCATCGATACTGAA
Found at i:18953937 original size:27 final size:28
Alignment explanation
Indices: 18953907--18953976 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
18953897 ATAGTGAATC
*
18953907 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
18953934 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
18953962 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18953977 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:18954048 original size:42 final size:42
Alignment explanation
Indices: 18953984--18954090 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
18953974 GCTGTACAAT
* * *
18953984 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACTGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
18954026 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
18954068 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
18954091 GAGACCAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:18957617 original size:22 final size:22
Alignment explanation
Indices: 18957592--18957667 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
18957582 AGATATATAT
18957592 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
18957614 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
18957638 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
18957661 ATGTGAT
1 ATGTGAT
18957668 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:18957639 original size:47 final size:47
Alignment explanation
Indices: 18957587--18957883 Score: 450
Period size: 47 Copynumber: 6.3 Consensus size: 47
18957577 GTACAAGATA
*
18957587 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* *
18957634 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTA
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* * *
18957681 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTA
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* *
18957728 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* * * *
18957775 TATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* * *
18957822 TATATATGTGATACGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
*
18957869 TATAAATGTGATAAG
1 TATATATGTGATAAG
18957884 TCCAGAAGGG
Statistics
Matches: 235, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 235 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
Found at i:18961970 original size:29 final size:29
Alignment explanation
Indices: 18961936--18961996 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
18961926 AGTGTGATTC
18961936 TGAATTTCGAGTTGATGTTGATGATTGTT
1 TGAATTTCGAGTTGATGTTGATGATTGTT
*
18961965 TGAATTTTGAGTTGATGTTGATGATTGTT
1 TGAATTTCGAGTTGATGTTGATGATTGTT
18961994 TGA
1 TGA
18961997 GATTCAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (29 bp):
TGAATTTCGAGTTGATGTTGATGATTGTT
Found at i:18964609 original size:44 final size:43
Alignment explanation
Indices: 18964543--18964699 Score: 167
Period size: 42 Copynumber: 3.7 Consensus size: 43
18964533 CGTTGACATT
* * * * *
18964543 GATCTGAGATATCGTGTGAGACCGTGTCTGGGACACAGGCCTC
1 GATCTGAGATTTCGTGTAAGACCATGTCTGGGACATAGGCATC
*
18964586 GATTTGAGATTTACGTGTAAGACCATGTCTGGGACATAGGCATC
1 GATCTGAGATTT-CGTGTAAGACCATGTCTGGGACATAGGCATC
* * *
18964630 GTATCT--GATTTTGTGTAAGACCCTGTCTAGGACATAGGCATC
1 G-ATCTGAGATTTCGTGTAAGACCATGTCTGGGACATAGGCATC
* *
18964672 GATACTGA-ATTACATGTAAGACCATGTC
1 GAT-CTGAGATTTCGTGTAAGACCATGTC
18964700 CGGGGCGTCG
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.33
43 31 0.33
44 28 0.29
45 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
GATCTGAGATTTCGTGTAAGACCATGTCTGGGACATAGGCATC
Found at i:18969058 original size:31 final size:31
Alignment explanation
Indices: 18969020--18969083 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
18969010 CCTTTTCATA
18969020 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
18969051 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
18969082 TT
1 TT
18969084 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:18969350 original size:46 final size:47
Alignment explanation
Indices: 18969274--18969392 Score: 170
Period size: 46 Copynumber: 2.5 Consensus size: 47
18969264 TGCTTTATCA
*
18969274 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTT
* *
18969321 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTT
18969368 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
18969393 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
46 27 0.41
47 16 0.24
48 23 0.35
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTT
Found at i:18969354 original size:24 final size:24
Alignment explanation
Indices: 18969275--18969392 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
18969265 GCTTTATCAT
* *
18969275 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
18969300 ATAACTGGGGCAAAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTG
18969322 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
18969346 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
18969370 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18969393 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
22 18 0.21
23 6 0.07
24 51 0.59
25 12 0.14
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:18969468 original size:20 final size:20
Alignment explanation
Indices: 18969443--18969502 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
18969433 TATGATTACC
18969443 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
18969463 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
18969483 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
18969503 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:18969473 original size:11 final size:11
Alignment explanation
Indices: 18969443--18969497 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
18969433 TATGATTACC
18969443 TCATGTGCATA
1 TCATGTGCATA
*
18969454 TCA--TACATA
1 TCATGTGCATA
18969463 TCATGTGCATA
1 TCATGTGCATA
* *
18969474 TCA--TACATT
1 TCATGTGCATA
18969483 TCATGTGCATA
1 TCATGTGCATA
18969494 TCAT
1 TCAT
18969498 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:18969577 original size:25 final size:25
Alignment explanation
Indices: 18969545--18969592 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18969535 ATACATAAAC
* * *
18969545 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18969570 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18969593 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18977153 original size:30 final size:30
Alignment explanation
Indices: 18977102--18977194 Score: 168
Period size: 30 Copynumber: 3.1 Consensus size: 30
18977092 CCTTTTCATA
*
18977102 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCAT-TTACTGGGCCGAAGCCT
18977133 TTTCATATTTCATTTACTGGGCCGAAGCCT
1 TTTCATATTTCATTTACTGGGCCGAAGCCT
18977163 TTTCATATTTCATTTACTGGGCCGAAGCCT
1 TTTCATATTTCATTTACTGGGCCGAAGCCT
18977193 TT
1 TT
18977195 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 48 0.79
31 13 0.21
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (30 bp):
TTTCATATTTCATTTACTGGGCCGAAGCCT
Found at i:18977437 original size:23 final size:23
Alignment explanation
Indices: 18977407--18977526 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
18977397 CCTAGCCTCT
*
18977407 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18977430 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18977453 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18977476 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
18977500 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
18977524 TTT
1 TTT
18977527 TTCACTTCCT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 47 0.51
24 46 0.49
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:18977489 original size:24 final size:24
Alignment explanation
Indices: 18977386--18977527 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
18977376 GCTTTATCAT
*
18977386 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
18977411 ATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18977434 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
18977457 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
18977481 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
18977505 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18977528 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 45 0.41
24 54 0.49
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18977519 original size:71 final size:71
Alignment explanation
Indices: 18977385--18977527 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
18977375 TGCTTTATCA
*
18977385 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
18977450 CCCTTT
66 CCCTTT
* * *
18977456 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCATA
18977519 AGCCCTTT
64 AGCCCTTT
18977527 T
1 T
18977528 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 27 0.41
71 39 0.59
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
CCCTTT
Found at i:18977527 original size:48 final size:47
Alignment explanation
Indices: 18977386--18977527 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
18977376 GCTTTATCAT
* *
18977386 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
18977434 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
18977481 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
18977528 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 18 0.20
47 35 0.40
48 35 0.40
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:18977603 original size:20 final size:20
Alignment explanation
Indices: 18977578--18977637 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
18977568 TATGATTACC
18977578 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
18977598 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
18977618 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
18977638 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:18977608 original size:11 final size:11
Alignment explanation
Indices: 18977578--18977632 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
18977568 TATGATTACC
18977578 TCATGTGCATA
1 TCATGTGCATA
*
18977589 TCA--TACATA
1 TCATGTGCATA
18977598 TCATGTGCATA
1 TCATGTGCATA
* *
18977609 TCA--TACATT
1 TCATGTGCATA
18977618 TCATGTGCATA
1 TCATGTGCATA
18977629 TCAT
1 TCAT
18977633 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:18977712 original size:25 final size:25
Alignment explanation
Indices: 18977680--18977727 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18977670 ATACATAAAC
* * *
18977680 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18977705 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18977728 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18980441 original size:21 final size:21
Alignment explanation
Indices: 18980416--18980468 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
18980406 GTTAGATATA
18980416 AATAATTAAATATGTATGTTT
1 AATAATTAAATATGTATGTTT
18980437 AATAATTAAATATGTATGTTT
1 AATAATTAAATATGTATGTTT
18980458 AATAATTAAAT
1 AATAATTAAAT
18980469 TTTTCCATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (21 bp):
AATAATTAAATATGTATGTTT
Found at i:18982731 original size:48 final size:47
Alignment explanation
Indices: 18982628--18982839 Score: 182
Period size: 46 Copynumber: 4.5 Consensus size: 47
18982618 TATGTTTGCT
* * * * *
18982628 AGTGTAAGACTTGTATAGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATAT-AGAGCC
* * *
18982674 AGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATATA-GAGCC
* * ** *
18982722 AGTGTAAGACATGTCTGGGACATGCATC-AACATTGAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCA-CGAGATATAGAGCC
* * *
18982768 GGTGTAAGACATGTCTGGGACATGCATC-AGCCACGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CCACGAGATATA-GAGCC
* *
18982816 AGTGTAAAACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
18982840 GCGTCAGCTT
Statistics
Matches: 136, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
46 65 0.48
47 8 0.06
48 63 0.46
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATATAGAGCC
Found at i:18982962 original size:49 final size:49
Alignment explanation
Indices: 18982857--18982986 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
18982847 CTTGTTGTGT
* * * *
18982857 GTCAGTGTAGGACTTGTCTGGGACATGGCATCGACACCATTAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCAGTAGATGAAA
* * * *
18982906 G-CTAGTGTAAGACCTGTATGGGACATGGCATCGGC-CTCGGTATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAGTAGATGAAA
* *
18982955 GTCAGTGTAAGACCTATCTGGGACATAGCATC
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATC
18982987 AACTTTGATG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 64 0.96
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCAGTAGATGAAA
Found at i:18982962 original size:142 final size:138
Alignment explanation
Indices: 18982721--18982980 Score: 330
Period size: 142 Copynumber: 1.9 Consensus size: 138
18982711 ATATACCAGC
* *
18982721 CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTGGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTATGG
*
18982786 GACATGCATCAGCCACGAGATATACAAGCTAGTGTAAAACCTGTCTGGGACATGGCGTCAGCTTG
66 GACATGCATCAGCCACGAGATATACAAGCTAGTGTAAAACCTATCTGGGACATGGCGTCAGCTTG
18982851 TTGTGTGT
131 TTGTGTGT
* * * *
18982859 CAGTGTAGGACTTGTCTGGGACATGGCATCGACACCATT-AGATGAGAGCTAGTGTAAGACCTGT
1 CAGTGTAAGACATGTCTGGGACAT-GCATC-A-A-CATTGAGACGAGAGCTAGTGTAAGACATGT
* * *
18982923 ATGGGACATGGCATCGGCCTCG-GTATATGA-AAG-TCAGTGTAAGACCTATCTGGGACAT
62 ATGGGACAT-GCATCAGCCACGAG-ATAT-ACAAGCT-AGTGTAAAACCTATCTGGGACAT
18982981 AGCATCAACT
Statistics
Matches: 104, Mismatches: 10, Indels: 12
0.83 0.08 0.10
Matches are distributed among these distances:
138 22 0.21
139 5 0.05
140 1 0.01
141 33 0.32
142 42 0.40
143 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTATGG
GACATGCATCAGCCACGAGATATACAAGCTAGTGTAAAACCTATCTGGGACATGGCGTCAGCTTG
TTGTGTGT
Found at i:19001001 original size:40 final size:39
Alignment explanation
Indices: 19000957--19001098 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 39
19000947 GGATATAGCT
* * * *
19000957 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
19000997 ACTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * * *
19001037 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGG-TTTAGTA
* *
19001077 ACTCACACAAATGCCTTCGGGA
1 ACTCGCACAATTGCCTTCGGGA
19001099 ATTGACCTGG
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 86 0.97
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:19001069 original size:80 final size:81
Alignment explanation
Indices: 19000971--19001149 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 81
19000961 GCTCGATTGT
* * * *
19000971 CTTCGGGACATAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
*
19001035 TAAC-TCGCAC-AAATGC
65 TAACTTAGCACAAAAT-C
* * * *
19001051 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGAATTGACCTGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
19001116 CACTTAGCACAAAATC
66 AACTTAGCACAAAATC
19001132 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
19001150 ATACCATTCG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 57 0.67
81 24 0.28
82 4 0.05
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAATC
Found at i:19001139 original size:41 final size:40
Alignment explanation
Indices: 19001001--19001151 Score: 155
Period size: 40 Copynumber: 3.7 Consensus size: 40
19000991 ATAGTGACTC
* *
19001001 GCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC-TC
1 GCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAACTTA
* * * *
19001041 GCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCA
1 GCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAACTTA
* *
19001082 -CACAAATGCCTTCGGGAATTGACCTGGATTTAGTCACTTA
1 GCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAACTTA
*
19001122 GCACAAAAT-CCTTCGGGACTTAGCCCGGAT
1 GCAC-AAATGCCTTCGGGAATTA-CCCGGAT
19001152 ACCATTCGAA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 66 0.73
41 21 0.23
42 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGAATTACCCGGATTTAGTAACTTA
Found at i:19008845 original size:47 final size:47
Alignment explanation
Indices: 19008788--19009087 Score: 433
Period size: 47 Copynumber: 6.3 Consensus size: 47
19008778 GTATGAGATA
*
19008788 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
19008835 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
*
19008884 TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
19008930 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 --TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
19008979 TATATATGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
19009026 TATATATGTGATAGGGCC-AAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAA-TGGCCAATGTGATGAATGTGAAAGTG
*
19009073 TATAAATGTGATAAG
1 TATATATGTGATAAG
19009088 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
46 5 0.02
47 137 0.59
48 43 0.18
49 48 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:19008955 original size:144 final size:143
Alignment explanation
Indices: 19008786--19009087 Score: 450
Period size: 144 Copynumber: 2.1 Consensus size: 143
19008776 ATGTATGAGA
*
19008786 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGCGATAAGG
* * * *
19008851 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAA-T-GCCGATGT
66 CCGAATGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCC-AAGTGGCCAACGT
19008914 GATGAATGTGAAAGTG
128 GATGAATGTGAAAGTG
* * *
19008930 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGCGATAAGG
1 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGCGATAAGG
*
19008995 CCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCAAGTGGCCAACGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAGTGGCCAACGTGAT
* *
19009060 GGATGTGGAAGTG
131 GAATGTGAAAGTG
19009073 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
19009088 TCCCGAAGGG
Statistics
Matches: 145, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
141 12 0.08
142 22 0.15
143 24 0.17
144 87 0.60
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGCGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAGTGGCCAACGTGAT
GAATGTGAAAGTG
Found at i:19014213 original size:12 final size:13
Alignment explanation
Indices: 19014177--19014214 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
19014167 AAATATTTGA
19014177 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
19014190 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
19014204 CTTG-TCTTAAT
1 CTTGTTCTTAAT
19014215 ATTCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:19016623 original size:40 final size:40
Alignment explanation
Indices: 19016578--19016744 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19016568 CGGAATATAA
19016578 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
19016618 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
19016658 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19016698 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19016737 CCGGATAT
1 CCGGATAT
19016745 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19021387 original size:29 final size:30
Alignment explanation
Indices: 19021293--19021423 Score: 162
Period size: 30 Copynumber: 4.5 Consensus size: 30
19021283 GACAAGATTG
* * * * *
19021293 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
19021323 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
19021351 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
19021380 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
19021410 CCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19021424 TGTAACACCC
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 29 0.32
30 35 0.39
31 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:19022886 original size:28 final size:29
Alignment explanation
Indices: 19022819--19022919 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
19022809 ATAGTGAATC
*
19022819 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
19022848 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
19022876 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
19022906 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19022920 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:19038978 original size:20 final size:20
Alignment explanation
Indices: 19038953--19038993 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
19038943 ATTGCTGCTA
19038953 ATCAGAATCCTGATCCACGT
1 ATCAGAATCCTGATCCACGT
*
19038973 ATCAGAATCCTGATCTACGT
1 ATCAGAATCCTGATCCACGT
19038993 A
1 A
19038994 CTATGTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (20 bp):
ATCAGAATCCTGATCCACGT
Found at i:19046280 original size:12 final size:13
Alignment explanation
Indices: 19046244--19046281 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
19046234 AAACATTTGA
19046244 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
19046257 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
19046271 CTTG-TCTTAAT
1 CTTGTTCTTAAT
19046282 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:19065263 original size:66 final size:68
Alignment explanation
Indices: 19065187--19065373 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
19065177 TAGTACCACT
*
19065187 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
19065249 CACG
65 CACG
19065253 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
19065318 ATCACG
63 ATCACG
19065324 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
19065374 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:19065298 original size:71 final size:71
Alignment explanation
Indices: 19065210--19065373 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19065200 CGATTTGTCT
19065210 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19065275 CTTTCA
66 CTTTCA
19065281 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19065346 CTTTCA
66 CTTTCA
19065352 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19065374 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19065411 original size:71 final size:70
Alignment explanation
Indices: 19065210--19065407 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
19065200 CGATTTGTCT
* * *
19065210 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19065275 CTTTCA
65 CTTTCA
* * *
19065281 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19065346 CTTTCA
65 CTTTCA
* *
19065352 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
19065408 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:19072831 original size:66 final size:68
Alignment explanation
Indices: 19072755--19072941 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
19072745 TAGTACCACT
*
19072755 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
19072817 CACG
65 CACG
19072821 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
19072886 ATCACG
63 ATCACG
19072892 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
19072942 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:19072866 original size:71 final size:71
Alignment explanation
Indices: 19072778--19072941 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19072768 CGATTTGTCT
19072778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19072843 CTTTCA
66 CTTTCA
19072849 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19072914 CTTTCA
66 CTTTCA
19072920 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19072942 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19072979 original size:71 final size:70
Alignment explanation
Indices: 19072778--19072975 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
19072768 CGATTTGTCT
* * *
19072778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19072843 CTTTCA
65 CTTTCA
* * *
19072849 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19072914 CTTTCA
65 CTTTCA
* *
19072920 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
19072976 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:19075355 original size:43 final size:43
Alignment explanation
Indices: 19075277--19075409 Score: 137
Period size: 43 Copynumber: 3.1 Consensus size: 43
19075267 AAACACATAT
* * * * *
19075277 ATCACATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCAATGTCCCAAACATGGTCTTACATGTA
** *
19075318 ATCACATATCGATGCCTCTGTCCCAAACA-GGTGCTTACACGTA
1 ATCACATATCGATGCCAATGTCCCAAACATGGT-CTTACATGTA
* * *
19075361 ATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
1 ATCACATATCGATGCCAATGTCCCAAACATGGTCTTACATGTA
19075404 ATCACA
1 ATCACA
19075410 CCTCGGAAGT
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 8 0.11
42 9 0.12
43 54 0.73
44 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAAACATGGTCTTACATGTA
Found at i:19081037 original size:40 final size:40
Alignment explanation
Indices: 19080960--19081180 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
19080950 ACCCAAGTAT
* * * *
19080960 CTTCGAGATTTAG-CCGGATATAG-CAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
19080999 CTTCGAGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
19081039 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
19081079 CTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
19081119 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
19081159 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
19081181 CATTCGAATA
Statistics
Matches: 168, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 11 0.07
40 156 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:19086820 original size:12 final size:12
Alignment explanation
Indices: 19086803--19086839 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
19086793 ATTCCAACTG
19086803 TTCAACGGGAAA
1 TTCAACGGGAAA
*
19086815 TTCAACGAGAAA
1 TTCAACGGGAAA
19086827 TTCAACGAGGAAA
1 TTCAACG-GGAAA
19086840 GATAAAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (12 bp):
TTCAACGGGAAA
Found at i:19087496 original size:20 final size:20
Alignment explanation
Indices: 19087448--19087497 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19087438 TGGTTGCTTG
*
19087448 TGGATGATGAGCTTGATGAA
1 TGGATTATGAGCTTGATGAA
* *
19087468 TGG-TATATGTGCTTGATGGA
1 TGGAT-TATGAGCTTGATGAA
19087488 TGGATTATGA
1 TGGATTATGA
19087498 CCAATAGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.34, T:0.36
Consensus pattern (20 bp):
TGGATTATGAGCTTGATGAA
Found at i:19091685 original size:18 final size:19
Alignment explanation
Indices: 19091656--19091691 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
19091646 GGGGCTTGAA
19091656 CTTTTTGATCTTTGAATTC
1 CTTTTTGATCTTTGAATTC
19091675 CTTTTTG-TCTTTGAATT
1 CTTTTTGATCTTTGAATT
19091692 TAAGGTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (19 bp):
CTTTTTGATCTTTGAATTC
Found at i:19092200 original size:17 final size:17
Alignment explanation
Indices: 19092175--19092209 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19092165 TTATTATGCC
*
19092175 AATTTTATAAATAAAAA
1 AATTATATAAATAAAAA
*
19092192 AATTATATAGATAAAAA
1 AATTATATAAATAAAAA
19092209 A
1 A
19092210 TAAAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AATTATATAAATAAAAA
Found at i:19095026 original size:27 final size:27
Alignment explanation
Indices: 19094996--19095107 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
19094986 AAGTACTCCC
19094996 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
19095023 GATTTACAGAATTACTGGTTTACCC-T
1 GATTTACAGAATTACCGTTTTACCCTT
* * * *
19095049 CAGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTT
* *
19095077 GATTTATAGAATTACAGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
19095104 GATT
1 GATT
19095108 GTGAAATTAC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.03
27 66 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTT
Found at i:19095056 original size:54 final size:54
Alignment explanation
Indices: 19094998--19095102 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
19094988 GTACTCCCGA
* * *
19094998 TTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAG
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACAGGTTTACCCTCAG
* * *
19095052 TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACAGTTTTACCCT
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACAGGTTTACCCT
19095103 TGATTGTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (54 bp):
TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACAGGTTTACCCTCAG
Found at i:19095142 original size:27 final size:27
Alignment explanation
Indices: 19095112--19095307 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
19095102 TTGATTGTGA
*
19095112 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19095139 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * * *
19095166 AATTACTAAAATACCCTTATAAGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19095193 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19095220 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19095247 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
19095274 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
19095301 AATTACC
1 AATTACC
19095308 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:19095544 original size:27 final size:26
Alignment explanation
Indices: 19095506--19095588 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
19095496 CGGAGGAAGC
19095506 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
19095533 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * **
19095559 GTATTTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
19095586 GTT
1 GTT
19095589 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:19097400 original size:29 final size:30
Alignment explanation
Indices: 19097299--19097402 Score: 156
Period size: 30 Copynumber: 3.5 Consensus size: 30
19097289 GACAAGATTG
19097299 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAATTGTACA
19097329 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAATTGTACA
* * * * *
19097359 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGGGTTTAAAATTGTACA
19097388 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
19097403 ATTCACTATA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
29 18 0.26
30 50 0.74
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGGGTTTAAAATTGTACA
Found at i:19099008 original size:27 final size:27
Alignment explanation
Indices: 19098986--19099059 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
19098976 TAGGTGGGTT
*
19098986 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
19099013 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
19099040 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
19099060 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:19099186 original size:6 final size:6
Alignment explanation
Indices: 19099177--19099357 Score: 124
Period size: 6 Copynumber: 29.8 Consensus size: 6
19099167 TTGCATTCAC
* *
19099177 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
19099226 -TTACTA ATACTA ATTCTG ATTCTG ATTC-G GTTATTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
19099274 ATTCTG -TCACCTA ATTCTG ATTCTG ATTTTG -TTACTA ATAT-TG ATTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
*
19099323 ATTCTA ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
19099358 CATTTTGGTT
Statistics
Matches: 137, Mismatches: 22, Indels: 32
0.72 0.12 0.17
Matches are distributed among these distances:
5 12 0.09
6 111 0.81
7 11 0.08
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:19099312 original size:79 final size:82
Alignment explanation
Indices: 19099177--19099357 Score: 269
Period size: 79 Copynumber: 2.2 Consensus size: 82
19099167 TTGCATTCAC
19099177 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGA-T-T-ATTCTGTTACTAATACTAATTC
* *
19099242 TGATTCTGATTCGGTTATTG
63 TGATTCTAATTCGGTTACTG
* *
19099262 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGA-T-TT-TGTTACTAATATTGATTCTGA
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTATTCTGTTACTAATACTAATTCTGA
*
19099324 TTCTAATTCTGTTACTG
66 TTCTAATTCGGTTACTG
19099341 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
19099358 CATTTTGGTT
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
79 50 0.55
80 2 0.02
82 1 0.01
85 38 0.42
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (82 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTATTCTGTTACTAATACTAATTCTGA
TTCTAATTCGGTTACTG
Found at i:19099375 original size:30 final size:30
Alignment explanation
Indices: 19099177--19099378 Score: 117
Period size: 30 Copynumber: 7.1 Consensus size: 30
19099167 TTGCATTCAC
* * *
19099177 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTTTGTTA-CTAATTCTG
* * * *
19099208 ATTCTGATTCTGATTCTGTTACTAATACTA
1 ATTCTGATTCTAATTTTGTTACTAATTCTG
* * *
19099238 ATTCTGATTCTGA-TTCGGT--T-A-T-TG
1 ATTCTGATTCTAATTTTGTTACTAATTCTG
* * *
19099262 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTTTGTTA-CTAATTCTG
19099293 ATTCTG------ATTTTGTTACTAATAT-TG
1 ATTCTGATTCTAATTTTGTTACTAAT-TCTG
* *
19099317 ATTCTGATTCTAATTCTGTTACTGATTCTG
1 ATTCTGATTCTAATTTTGTTACTAATTCTG
* *
19099347 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTAATTTT-GTTACTAATTCTG
19099377 AT
1 AT
19099379 AATGTTTCTT
Statistics
Matches: 135, Mismatches: 20, Indels: 33
0.72 0.11 0.18
Matches are distributed among these distances:
24 27 0.20
25 10 0.07
26 1 0.01
27 1 0.01
28 1 0.01
29 5 0.04
30 59 0.44
31 31 0.23
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTAATTTTGTTACTAATTCTG
Found at i:19102531 original size:29 final size:28
Alignment explanation
Indices: 19102489--19102663 Score: 199
Period size: 29 Copynumber: 6.1 Consensus size: 28
19102479 GAATGCATGT
* *
19102489 ATATTAATGTGATTTGTGCTTAATGGGCC
1 ATATGAATGTGATTTG-GCCTAATGGGCC
* *
19102518 ATATGAATGTGATTTGCACCTAATGGACC
1 ATATGAATGTGATTTG-GCCTAATGGGCC
*
19102547 ATACGAATGTGATTTAGGCCTAATGGGCC
1 ATATGAATGTGATTT-GGCCTAATGGGCC
* * *
19102576 TTACGAATTTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTT-GGCCTAATGGGCC
*
19102605 ATATGAATATG-TTTGGGCCTAATGGGCC
1 ATATGAATGTGATTT-GGCCTAATGGGCC
* *
19102633 ATATGAATGAGATTAGGCCTAATGGGCC
1 ATATGAATGTGATTTGGCCTAATGGGCC
19102661 ATA
1 ATA
19102664 AGCATGTATG
Statistics
Matches: 127, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
28 42 0.33
29 84 0.66
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (28 bp):
ATATGAATGTGATTTGGCCTAATGGGCC
Found at i:19107169 original size:62 final size:62
Alignment explanation
Indices: 19107072--19107218 Score: 267
Period size: 62 Copynumber: 2.4 Consensus size: 62
19107062 GGAATTGACG
* * *
19107072 GTAAAAAGGATCTAGCCCAGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
1 GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
19107134 GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
1 GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
19107196 GTAAAATGGATTTAGCCCGGACG
1 GTAAAATGGATTTAGCCCGGACG
19107219 AGTAATTTAG
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:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (62 bp):
GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
Found at i:19107953 original size:23 final size:22
Alignment explanation
Indices: 19107927--19107972 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
19107917 TGTGATGACG
19107927 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
19107950 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
19107972 T
1 T
19107973 GGTTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:19109906 original size:16 final size:16
Alignment explanation
Indices: 19109871--19109908 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19109861 GTAGATTGAC
*
19109871 AAAAGCCAAAATACTA
1 AAAAGCCAAAATACCA
*
19109887 AAAAGCCAAAATACCG
1 AAAAGCCAAAATACCA
19109903 AAAAGC
1 AAAAGC
19109909 TGAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.21, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATACCA
Found at i:19110236 original size:28 final size:29
Alignment explanation
Indices: 19110124--19110248 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
19110114 GAAAGCATGT
*
19110124 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
19110153 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
19110182 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
19110211 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
19110239 ATATGCATGT
1 ATATGAATGT
19110249 ATGTAGACTT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 23 0.26
29 66 0.74
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:19117010 original size:51 final size:50
Alignment explanation
Indices: 19116942--19117076 Score: 159
Period size: 51 Copynumber: 2.7 Consensus size: 50
19116932 TGTGAGGTCG
19116942 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC--AAACTGTTGATCA
** *** * *
19116993 TGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-CCAGACTGTTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTGATCA
*
19117042 CATGTGCAGTACTAAGTGCA-GCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
19117077 AGATAGCTTC
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
48 15 0.22
49 23 0.33
50 2 0.03
51 29 0.42
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTGATCA
Found at i:19120108 original size:14 final size:14
Alignment explanation
Indices: 19120086--19120154 Score: 77
Period size: 14 Copynumber: 4.8 Consensus size: 14
19120076 GTATCGTATC
*
19120086 TTGGGTTTCTTTAT
1 TTGGATTTCTTTAT
19120100 TTGGATTTCTTTAT
1 TTGGATTTCTTTAT
*
19120114 TCTGGGTTT-TTCTAT
1 T-TGGATTTCTT-TAT
19120129 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
*
19120144 TTGGTTTTCTT
1 TTGGATTTCTT
19120155 GTTATCTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
14 26 0.55
15 18 0.38
16 3 0.06
ACGTcount: A:0.09, C:0.10, G:0.17, T:0.64
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:19120136 original size:30 final size:27
Alignment explanation
Indices: 19120086--19120151 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 27
19120076 GTATCGTATC
19120086 TTGGGTTTCTTTATTTGGATTTCTTTAT
1 TTGGGTTT-TTTATTTGGATTTCTTTAT
19120114 TCTGGGTTTTTCTATCTTGGATTTCTTTAT
1 T-TGGGTTTTT-TAT-TTGGATTTCTTTAT
19120144 TT-GGTTTT
1 TTGGGTTTT
19120152 CTTGTTATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 9 0.26
29 11 0.31
30 15 0.43
ACGTcount: A:0.09, C:0.09, G:0.18, T:0.64
Consensus pattern (27 bp):
TTGGGTTTTTTATTTGGATTTCTTTAT
Found at i:19129374 original size:14 final size:14
Alignment explanation
Indices: 19129357--19129385 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19129347 ACGTTGAGCC
19129357 AAGTAAGTTCTTTT
1 AAGTAAGTTCTTTT
19129371 AAGTAAGTTCTTTT
1 AAGTAAGTTCTTTT
19129385 A
1 A
19129386 CTTTATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
AAGTAAGTTCTTTT
Found at i:19132420 original size:29 final size:29
Alignment explanation
Indices: 19132378--19132502 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
19132368 GAAAGCATGT
19132378 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
19132407 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
19132436 ATACGAATGTTATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
19132465 ATATGAATGAGA-TTGGGCCTAGTGGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
19132493 ATATGCATGT
1 ATATGAATGT
19132503 ATATAGACTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 22 0.26
29 63 0.74
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:19138019 original size:14 final size:15
Alignment explanation
Indices: 19138000--19138030 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19137990 TAGTTTTGGA
19138000 TACTAA-TGATACAT
1 TACTAAGTGATACAT
19138014 TACTAAGTGATACAT
1 TACTAAGTGATACAT
19138029 TA
1 TA
19138031 AGTTGGCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (15 bp):
TACTAAGTGATACAT
Found at i:19138122 original size:29 final size:29
Alignment explanation
Indices: 19138085--19138154 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
19138075 ACCAATTTCA
*
19138085 CTTCGGGCCATGCATATCGGATGATTTGG
1 CTTCGGGCCATGCATATCGGATAATTTGG
* **
19138114 CTTTGGGCCATGTGTATCGGATAATTTGG
1 CTTCGGGCCATGCATATCGGATAATTTGG
19138143 CTTCGGGCCATG
1 CTTCGGGCCATG
19138155 ATAATATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (29 bp):
CTTCGGGCCATGCATATCGGATAATTTGG
Found at i:19142775 original size:74 final size:74
Alignment explanation
Indices: 19142645--19142783 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 74
19142635 AGCTCAGATG
* * *
19142645 AAATCTCCACACAAAGTTATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACAAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
19142710 ACCCGGACA
66 ACCCGGACA
** * * * * * *
19142719 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACAAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
19142784 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (74 bp):
AAATCTCCACACAAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
ACCCGGACA
Found at i:19142776 original size:37 final size:37
Alignment explanation
Indices: 19142645--19142755 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
19142635 AGCTCAGATG
** * *
19142645 AAATCTCCACACAAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
19142682 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
19142719 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
19142756 TAGTCACCAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:19142782 original size:37 final size:37
Alignment explanation
Indices: 19142645--19142783 Score: 161
Period size: 37 Copynumber: 3.8 Consensus size: 37
19142635 AGCTCAGATG
* * * *
19142645 AAATCTCCACACAAAGTTATCGGGTCTTACCCGAACA
1 AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
* *
19142682 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
* *
19142719 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
* * * * *
19142756 TAGTCACCACATATGGTCATCTGGTCTT
1 AAATCACCACACATAGTCATCGGGTCTT
19142784 TAATCCCAGG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:19143007 original size:46 final size:46
Alignment explanation
Indices: 19142940--19143076 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
19142930 TATATATACA
* * *
19142940 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* *
19142986 CATCTCATACACGTTTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
19143032 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
19143077 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:19143111 original size:47 final size:47
Alignment explanation
Indices: 19143050--19143428 Score: 551
Period size: 47 Copynumber: 8.1 Consensus size: 47
19143040 ACACATTTCG
* * * *
19143050 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
* * **
19143097 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
19143144 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
19143191 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
* *
19143238 CATTGGCCATTCGGCCTTATCACACATACGCCTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
* *
19143285 CATTGGCCATTTGGCCTTATCACACATACACGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
19143332 CATTGGCCATTCGGCCTTATCACACATACACGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
** * * * * **
19143379 CATTTTCCATTAGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
19143426 CAT
1 CAT
19143429 AAAATCCTAA
Statistics
Matches: 311, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 311 1.00
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:19149118 original size:43 final size:43
Alignment explanation
Indices: 19149068--19149268 Score: 253
Period size: 43 Copynumber: 4.7 Consensus size: 43
19149058 TGAGATTACA
* * *
19149068 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTGCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTTCG
** *
19149111 CATAAGACCATTTCTGGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
* * *
19149154 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTTCG
* * *
19149197 TGTAAGACCATTTATGGGACATTGACATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
*
19149240 TGTAAGACCATGTCTAGGACATTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
19149269 AATATGTGAT
Statistics
Matches: 133, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
42 2 0.02
43 127 0.95
44 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
Found at i:19149278 original size:86 final size:86
Alignment explanation
Indices: 19149068--19149267 Score: 346
Period size: 86 Copynumber: 2.3 Consensus size: 86
19149058 TGAGATTACA
* *
19149068 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTGCGCATAAGACCATTTCTGGGACAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGCATAAGACCATTTATGGGACAT
*
19149133 TGGCATCGTTATATGATTTCG
66 TGACATCGTTATATGATTTCG
**
19149154 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATTTATGGGACAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGCATAAGACCATTTATGGGACAT
19149219 TGACATCGTTATATGATTTCG
66 TGACATCGTTATATGATTTCG
*
19149240 TGTAAGACCATGTCTAGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
19149268 CAATATGTGA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 108 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (86 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGCATAAGACCATTTATGGGACAT
TGACATCGTTATATGATTTCG
Found at i:19149287 original size:86 final size:86
Alignment explanation
Indices: 19149068--19149293 Score: 274
Period size: 86 Copynumber: 2.6 Consensus size: 86
19149058 TGAGATTACA
* ** ****** *
19149068 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTGCGCATAAGACCATTTCTGGGACAT
1 TGTAAGACCATGTCTAGGACATTGGCATAATATTGTGATAAAATGTAAGACCATTTATGGGACAT
*
19149133 TGGCATCGTTATATGATTTCG
66 TGACATCGTTATATGATTTCG
* ** * **
19149154 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATTTATGGGACAT
1 TGTAAGACCATGTCTAGGACATTGGCATAATATTGTGATAAAATGTAAGACCATTTATGGGACAT
19149219 TGACATCGTTATATGATTTCG
66 TGACATCGTTATATGATTTCG
*
19149240 TGTAAGACCATGTCTAGGACATTGGCATCAATA-TGTGATAAAATGTAAAACCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT-AATATTGTGATAAAATGTAAGACCAT
19149294 ATCTGGGATA
Statistics
Matches: 127, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 125 0.98
87 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (86 bp):
TGTAAGACCATGTCTAGGACATTGGCATAATATTGTGATAAAATGTAAGACCATTTATGGGACAT
TGACATCGTTATATGATTTCG
Found at i:19149293 original size:129 final size:128
Alignment explanation
Indices: 19149061--19149314 Score: 294
Period size: 129 Copynumber: 2.0 Consensus size: 128
19149051 ACTAAGATGA
* * * * *
19149061 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTGCGCATAAGACCATTTCT
1 GATTACATGTAAGACCATGTATGGGACATTGACATCGTATTATGATTGCGCATAAGACCATGTCT
* ** **** * *
19149126 GGGACATTGGCATCGTTATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
66 AGGACATTGGCATCAATATATGATAAAATGTAAAACCATATCTGGGACA-TGGCATTGTATTGT
* * * **
19149190 GATTACGTGTAAGACCATTTATGGGACATTGACATCGT-TATATGATTTCGTGTAAGACCATGTC
1 GATTACATGTAAGACCATGTATGGGACATTGACATCGTAT-TATGATTGCGCATAAGACCATGTC
* *
19149254 TAGGACATTGGCATCAATATGTGATAAAATGTAAAACCATATCTGGGATATGGCATTGTAT
65 TAGGACATTGGCATCAATATATGATAAAATGTAAAACCATATCTGGGACATGGCATTGTAT
19149315 GAGTTATATG
Statistics
Matches: 103, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
128 12 0.12
129 91 0.88
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (128 bp):
GATTACATGTAAGACCATGTATGGGACATTGACATCGTATTATGATTGCGCATAAGACCATGTCT
AGGACATTGGCATCAATATATGATAAAATGTAAAACCATATCTGGGACATGGCATTGTATTGT
Found at i:19150113 original size:21 final size:21
Alignment explanation
Indices: 19150089--19150132 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
19150079 AACGAAATGG
*
19150089 TTGTGAATGAGATAGCATATT
1 TTGTGAATGAAATAGCATATT
* * *
19150110 TTGTGTATTAAATGGCATATT
1 TTGTGAATGAAATAGCATATT
19150131 TT
1 TT
19150133 TGTTGTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (21 bp):
TTGTGAATGAAATAGCATATT
Found at i:19158084 original size:30 final size:31
Alignment explanation
Indices: 19158008--19158090 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
19157998 TCAGTCTCGA
19158008 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
19158038 CATATCACTGGGCCGAAGCCTTTTTATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19158069 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
19158091 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:19158338 original size:25 final size:25
Alignment explanation
Indices: 19158310--19158404 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
19158300 CTCTTTTAAT
*
19158310 AACTGGGGCAAAGCCCTTATT-GATA
1 AACTGGGGCAAAGCCCTT-TTCGGTA
19158335 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
19158360 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
19158385 AACTGGGGCATAGCCATTTT
1 AACTGGGGCAAAGCCCTTTT
19158405 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 2 0.03
25 62 0.97
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:19159276 original size:27 final size:27
Alignment explanation
Indices: 19159217--19159278 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
19159207 CATATTCGTC
19159217 ATTTTACCATACAAGGGTATTACGGTA
1 ATTTTACCATACAAGGGTATTACGGTA
* * * * *
19159244 AGTTTACCCTACAGGGGTTTTACGGTC
1 ATTTTACCATACAAGGGTATTACGGTA
*
19159271 TTTTTACC
1 ATTTTACC
19159279 TATTAGAGGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTTTACCATACAAGGGTATTACGGTA
Found at i:19159437 original size:56 final size:53
Alignment explanation
Indices: 19159308--19159489 Score: 170
Period size: 54 Copynumber: 3.3 Consensus size: 53
19159298 ATCTCATCCT
* * * * * *
19159308 ACAAGGGTGTTTTGGTAAATGTACAAACCAAGGGTATTTCAGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTAAAAATCAAGGGTATTTCTGTAATTTTGTAA
* * *
19159361 ACCAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAA
1 A-CAAGGGTATTT-TGGTAA-TTTTA-AAAATCAAGGGTATTTCTGTAATTTTGTAA
* * *
19159417 ATCAAGGGTATTTTGGTAATTTTAAAAATTAGGGGTATTT-TGGTAATTTTATAA
1 A-CAAGGGTATTTTGGTAATTTTAAAAATCAAGGGTATTTCT-GTAATTTTGTAA
*
19159471 ACTAGGGGTATTTTGGTAA
1 AC-AAGGGTATTTTGGTAA
19159490 CTCTATCCTA
Statistics
Matches: 105, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
53 3 0.03
54 52 0.50
55 10 0.10
56 40 0.38
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (53 bp):
ACAAGGGTATTTTGGTAATTTTAAAAATCAAGGGTATTTCTGTAATTTTGTAA
Found at i:19159445 original size:27 final size:27
Alignment explanation
Indices: 19159309--19159489 Score: 143
Period size: 27 Copynumber: 6.6 Consensus size: 27
19159299 TCTCATCCTA
* * * * *
19159309 CAAGGGTGTTTTGGTAAATGTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * *
19159336 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
19159363 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-T
*
19159392 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
*
19159419 CAAGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
19159446 TAGGGGTATTTTGGTAATTTTATAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
19159472 CTAGGGGTATTTTGGTAA
1 C-AAGGGTATTTTGGTAA
19159490 CTCTATCCTA
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 14 0.11
29 15 0.12
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:19159639 original size:81 final size:81
Alignment explanation
Indices: 19159523--19159720 Score: 297
Period size: 81 Copynumber: 2.4 Consensus size: 81
19159513 GTAATTTCAC
* * * * *
19159523 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAAGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
*
19159588 AAACGATAATTCTGTA
66 AAACGATAATTCTATA
* *
19159604 AATTGAAGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAAGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
*
19159669 AAACGTTAATTCTATA
66 AAACGATAATTCTATA
* *
19159685 AATCGAGGGTAAAATGGTAATTCTACAAATTGAGGG
1 AATCGAAGGTAAAATGGTAATTCTATAAATTGAGGG
19159721 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 105 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (81 bp):
AATCGAAGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:19159714 original size:27 final size:27
Alignment explanation
Indices: 19159523--19159708 Score: 230
Period size: 27 Copynumber: 6.9 Consensus size: 27
19159513 GTAATTTCAC
*
19159523 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
19159550 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* *
19159577 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
19159604 AATTGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
19159631 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * * *
19159658 AATCGAGGGTGAAACGTTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
19159685 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAATGGTAATTCT
19159709 ACAAATTGAG
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 135 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:19161724 original size:48 final size:48
Alignment explanation
Indices: 19161653--19161746 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
19161643 CACTCGGGAG
** *
19161653 TCTCACACCTTAAGAGCCAATATCCTGGCCTGAAGCCAACTCAATGCA
1 TCTCACACCCGAAGAGCCAATATCATGGCCTGAAGCCAACTCAATGCA
* *
19161701 TCTCACACCCGAAGTGCCAATATCATGGCCTGAATCCAACTCAATG
1 TCTCACACCCGAAGAGCCAATATCATGGCCTGAAGCCAACTCAATG
19161747 TAACCCCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (48 bp):
TCTCACACCCGAAGAGCCAATATCATGGCCTGAAGCCAACTCAATGCA
Found at i:19168846 original size:80 final size:80
Alignment explanation
Indices: 19168762--19168910 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
19168752 TATGGTAACC
* * * *
19168762 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
19168826 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
19168842 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
19168907 CCGG
66 CCGG
19168911 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:19168852 original size:40 final size:38
Alignment explanation
Indices: 19168803--19168910 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
19168793 ATCACGATTT
*
19168803 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
19168843 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
19168883 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
19168911 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:19176962 original size:80 final size:80
Alignment explanation
Indices: 19176878--19177026 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
19176868 TATGGTAACC
* * * *
19176878 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
19176942 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
19176958 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
19177023 CCGG
66 CCGG
19177027 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:19176968 original size:40 final size:38
Alignment explanation
Indices: 19176919--19177026 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
19176909 ATCACGATTT
*
19176919 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
19176959 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
19176999 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
19177027 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:19180308 original size:28 final size:27
Alignment explanation
Indices: 19180264--19180367 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 27
19180254 CTGCGCAATC
*
19180264 GATGTCTT-GCACGCTAAGTGCTATACCG
1 GATGT-TTCGCACACTAAGTGCTAT-CCG
* *
19180292 GATGTTTCGCACACTAAGTGCCATCCTC
1 GATGTTTCGCACACTAAGTGCTATCC-G
** *
19180320 GATACTTCGCACACTAAGTG-TCATTTCG
1 GATGTTTCGCACACTAAGTGCT-A-TCCG
19180348 GATGTTTCGCACACTAAGTG
1 GATGTTTCGCACACTAAGTG
19180368 TCATCATCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
27 4 0.06
28 56 0.90
29 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GATGTTTCGCACACTAAGTGCTATCCG
Found at i:19180368 original size:28 final size:29
Alignment explanation
Indices: 19180290--19180451 Score: 124
Period size: 28 Copynumber: 5.8 Consensus size: 29
19180280 AGTGCTATAC
* *
19180290 CGGATGTTTCGCACACTAAGTGCCATCCT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
**
19180319 C-GATACTTCGCACACTAAGTGTCAT-TT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
*
19180346 CGGATGTTTCGCACACTAAGTGTCATCAT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
* ** **
19180375 C-AATACTTCATACACT-A-TGTCAT-TT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
* *
19180400 CGGATGTCTT-GCACACTAAGTGCCATCCT
1 CGGATGT-TTCGCACACTAAGTGTCATCTT
* **
19180429 C-AATACTTCGCACACTAAGTGTC
1 CGGATGTTTCGCACACTAAGTGTC
19180452 GTTCATTTGG
Statistics
Matches: 101, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
25 2 0.02
26 13 0.13
27 8 0.08
28 73 0.72
29 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (29 bp):
CGGATGTTTCGCACACTAAGTGTCATCTT
Found at i:19180420 original size:54 final size:56
Alignment explanation
Indices: 19180290--19180451 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 56
19180280 AGTGCTATAC
* *
19180290 CGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAAGTGTCATTT
* * *
19180346 CGGATGTTTCGCACACTAAGTGTCATCATCAATACTTCATACACT-A-TGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAAGTGTCATTT
*
19180400 CGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGTC
1 CGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAAGTGTC
19180452 GTTCATTTGG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
54 46 0.49
55 4 0.04
56 44 0.47
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (56 bp):
CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAAGTGTCATTT
Found at i:19180812 original size:33 final size:33
Alignment explanation
Indices: 19180770--19180837 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
19180760 ATGGTGAACA
19180770 CTTAGTACCACCCATGTGACCTAGCCAATTTAT
1 CTTAGTACCACCCATGTGACCTAGCCAATTTAT
*
19180803 CTTAGTACCACCCATGTGACCTAGCCAGTTTAT
1 CTTAGTACCACCCATGTGACCTAGCCAATTTAT
19180836 CT
1 CT
19180838 CGTAGCTCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (33 bp):
CTTAGTACCACCCATGTGACCTAGCCAATTTAT
Found at i:19184593 original size:5 final size:5
Alignment explanation
Indices: 19184583--19184612 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
19184573 GCGACACTAT
19184583 AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA
19184613 GTAAGCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGGA
Found at i:19184903 original size:23 final size:24
Alignment explanation
Indices: 19184858--19184914 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
19184848 CCATTAGGAT
* **
19184858 TTACCCATTGAGCTTCTTTTAG-A
1 TTACCCGTTGAGCTTCTCCTAGAA
*
19184881 TTACCCGTTGTGCTTCTCCTAGAA
1 TTACCCGTTGAGCTTCTCCTAGAA
19184905 TT-CCCGTTGA
1 TTACCCGTTGA
19184915 ACACTCGGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (24 bp):
TTACCCGTTGAGCTTCTCCTAGAA
Found at i:19190800 original size:27 final size:27
Alignment explanation
Indices: 19190762--19190815 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19190752 TGGAATACAA
*
19190762 AATGGCACATTTAATTACTCAAGCATT
1 AATGGAACATTTAATTACTCAAGCATT
19190789 AATGGAACATTTAATTACTCAAGCATT
1 AATGGAACATTTAATTACTCAAGCATT
19190816 CACATTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
AATGGAACATTTAATTACTCAAGCATT
Found at i:19191333 original size:5 final size:5
Alignment explanation
Indices: 19191323--19191347 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19191313 GCGACACTAT
19191323 AAGGA AAGGA AAGGA AAGGA AAGGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA
19191348 GTAAGTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGGA
Found at i:19195992 original size:34 final size:33
Alignment explanation
Indices: 19195939--19196009 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
19195929 ATGCATTTCT
19195939 GATACTATACTGAAATGGGCTAAGGCCCACACC
1 GATACTATACTGAAATGGGCTAAGGCCCACACC
* * * *
19195972 GATACTATTACTGTATTGGGCTAAGTCCCACACT
1 GATACTA-TACTGAAATGGGCTAAGGCCCACACC
19196006 GATA
1 GATA
19196010 TTGCGACTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (33 bp):
GATACTATACTGAAATGGGCTAAGGCCCACACC
Found at i:19196737 original size:22 final size:22
Alignment explanation
Indices: 19196709--19196751 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19196699 AAGAGTTCGC
*
19196709 ACAATGCATAGATGAGGTTTGT
1 ACAATGCATAGAAGAGGTTTGT
19196731 ACAATGCATAGAAGAGGTTTG
1 ACAATGCATAGAAGAGGTTTG
19196752 CACATACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (22 bp):
ACAATGCATAGAAGAGGTTTGT
Found at i:19199707 original size:2 final size:2
Alignment explanation
Indices: 19199700--19199743 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
19199690 CGGCTCTAGC
19199700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19199742 AT
1 AT
19199744 GTTTGCACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.