Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 46 of 344
Found at i:15295400 original size:57 final size:57
Alignment explanation
Indices: 15295304--15295411 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
15295294 GTATGAGTAT
* *
15295304 AATATGATTTGGGCCTAATAGGCCATATGAAGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAATAGGCCATATGAAGTAAATTGGGCCTAGTGGGCCATAAG
* *
15295361 AATATGAATTGGGCC-AGATCGGCCATTTGAA-TAAGATTGGGCCTAGTGGGC
1 AATATGAATTGGGCCTA-ATAGGCCATATGAAGTAA-ATTGGGCCTAGTGGGC
15295412 TATATGCATG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
56 3 0.07
57 42 0.93
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (57 bp):
AATATGAATTGGGCCTAATAGGCCATATGAAGTAAATTGGGCCTAGTGGGCCATAAG
Found at i:15299252 original size:28 final size:28
Alignment explanation
Indices: 15299189--15299339 Score: 232
Period size: 28 Copynumber: 5.4 Consensus size: 28
15299179 ATATTAAGTC
*
15299189 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15299216 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
15299244 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
15299272 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
15299300 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15299329 CGCACACTTAG
1 CGCACACTTAG
15299340 CGCCAATCTC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
27 22 0.19
28 78 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15307417 original size:28 final size:28
Alignment explanation
Indices: 15307354--15307479 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
15307344 ATATTAAGTC
* *
15307354 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
15307381 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15307409 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15307437 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15307465 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15307480 TGTGACAGCC
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.22
28 73 0.78
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:15309077 original size:40 final size:40
Alignment explanation
Indices: 15309046--15309257 Score: 234
Period size: 40 Copynumber: 5.3 Consensus size: 40
15309036 GGACTAAGAT
15309046 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
15309086 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* * *
15309126 CCGAAGGCCTTTGTGCGAGATACTAAA-ACCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * ** * *
15309166 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCC
* * * * * *
15309206 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
15309245 CCGAAGGCATTTG
1 CCGAAGGCATTTG
15309258 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 32 0.21
40 117 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:15309130 original size:80 final size:80
Alignment explanation
Indices: 15308994--15309257 Score: 270
Period size: 80 Copynumber: 3.3 Consensus size: 80
15308984 TGAATGCTGT
* * ** **
15308994 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGA-ATATATCCGGACTAAGATCCGAAGGCAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TGACA-A-ATCCGGGTTAAGCCCCGAAGGCAT
*
15309056 TTGTGCGAGATAC-AAATT
63 TTGTGCGAGATACTAAA-A
* *
15309074 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGGCATTT
15309138 GTGCGAGATACTAAAA
65 GTGCGAGATACTAAAA
* * ** * *
15309154 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TTG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTTG
* *
15309218 TGTGAGTTACTAAAA
66 TGCGAGATACTAAAA
* *
15309233 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTG
15309258 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
79 39 0.25
80 100 0.64
81 16 0.10
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTTG
TGCGAGATACTAAAA
Found at i:15309275 original size:79 final size:80
Alignment explanation
Indices: 15309046--15309290 Score: 214
Period size: 80 Copynumber: 3.1 Consensus size: 80
15309036 GGACTAAGAT
* * * * ** *
15309046 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
15309108 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * ** ** *
15309126 CCGAAGGCCTTTGTGCGAGATACTAAAACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
15309191 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
15309206 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
15309270 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
15309284 CCGAAGG
1 CCGAAGG
15309291 TACGTGATTT
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.10
79 50 0.36
80 66 0.48
81 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:15317045 original size:39 final size:38
Alignment explanation
Indices: 15316998--15317200 Score: 211
Period size: 39 Copynumber: 5.3 Consensus size: 38
15316988 GGACTAAGAT
15316998 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCA-TTGTGCGAGATACAAA-TCCGGGTTAAGTC
15317037 CCGAAGGCATTGTGCGAGAT--AAATCCGGGTTAAG-C
1 CCGAAGGCATTGTGCGAGATACAAATCCGGGTTAAGTC
15317072 CCGAAGGC-TTGTGCGAGAGATACTAAA-CCGGGTTAAGTC
1 CCGAAGGCATTGTGC--GAGATAC-AAATCCGGGTTAAGTC
* ** *
15317111 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
15317151 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATAC-AAATCCGGGTTAAGTC
15317190 CCGAAGGCATT
1 CCGAAGGCATT
15317201 TGAACGAGGA
Statistics
Matches: 144, Mismatches: 9, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
34 6 0.04
35 20 0.14
36 8 0.06
38 21 0.15
39 61 0.42
40 24 0.17
41 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (38 bp):
CCGAAGGCATTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:15317094 original size:74 final size:76
Alignment explanation
Indices: 15316946--15317200 Score: 238
Period size: 79 Copynumber: 3.3 Consensus size: 76
15316936 TGAATGCTGT
* * * * **
15316946 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GA-TG-ATAAATCCGGGTTAAG-TCCCGAAGGCA-T
15317009 TGTGCGAGATAC-AAA
61 TGTGCGAGATACTAAA
15317024 TTCCGGGTTAAG-CCCGAAGGCATT-GTGCGA-GATAAATCCGGGTTAAG-CCCGAAGGC-TTGT
1 --CCGGGTTAAGTCCCGAAGGCATTCGTGCGATGATAAATCCGGGTTAAGTCCCGAAGGCATTGT
15317084 GCGAGAGATACTAAA
64 GC--GAGATACTAAA
* *
15317099 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCGA--TGATAAATCCGGGTTAAGTCCCGAAGGCATTGT
* *
15317164 GTGAGTTACTAAAA
64 GCGAGATACT-AAA
* *
15317178 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGTTAAGTCCCGAAGGCATT
15317201 TGAACGAGGA
Statistics
Matches: 151, Mismatches: 11, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
72 6 0.04
73 10 0.07
74 27 0.18
75 22 0.15
76 1 0.01
78 23 0.15
79 46 0.30
80 16 0.11
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (76 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTGCGATGATAAATCCGGGTTAAGTCCCGAAGGCATTGTGC
GAGATACTAAA
Found at i:15327505 original size:35 final size:35
Alignment explanation
Indices: 15327454--15327523 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15327444 TAAATCAAGT
*
15327454 ATGTTATTACAACCATCTCGTGATTGATTTTTGGG
1 ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
15327489 ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
1 ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
15327524 CATACTCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (35 bp):
ATGTAATTACAACCATCTCGTGATTGATTTTTGGG
Found at i:15330163 original size:79 final size:79
Alignment explanation
Indices: 15330019--15330275 Score: 274
Period size: 79 Copynumber: 3.3 Consensus size: 79
15330009 AAATCACGTA
* * * * * *
15330019 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCG-ATCAAATGCCTTCGGGACATAGCCCGGTTAT
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCA-CAAATGCCTTCGAG-CTTAGCCCGGATAT
15330081 AGTAACTCGCACAAATG
63 AGTAACTCGCACAAATG
15330098 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGAGCTTAGCCCGGA-ATTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGAGCTTAGCCCGGATA-TAG
*
15330162 TATCTCGCACAAATG
65 TAACTCGCACAAATG
* * * * * *
15330177 CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GAGCTTAGCCCGGATATAG
* *
15330241 TCACTTAGCACAAA-G
65 TAAC-TCGCACAAATG
*
15330256 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
15330276 CATCATTCTA
Statistics
Matches: 154, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
78 34 0.22
79 72 0.47
80 47 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGAGCTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:15330169 original size:39 final size:39
Alignment explanation
Indices: 15330052--15330275 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 39
15330042 GCTACTCGAT
* *
15330052 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* *
15330092 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
* *
15330132 CAAATGCCTTCGAGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
15330171 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
15330210 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
15330251 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
15330276 CATCATTCTA
Statistics
Matches: 163, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 75 0.46
40 78 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:15338143 original size:79 final size:78
Alignment explanation
Indices: 15338040--15338256 Score: 258
Period size: 79 Copynumber: 2.7 Consensus size: 78
15338030 GCTACTCGTT
*
15338040 CAAATGCCTTCGGGACATAGCCCGATTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGG-CTTAGCCCGA-TATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCAG
*
15338105 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * * * *
15338120 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGATA-TAGTAACTTGCACAAATGCCTTCGGGACTTAACCCAGA
*
15338184 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * *
15338198 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAG-CCCGATATAGTAACTT-GCACAAATGCCTTCGGGACTTA
15338257 GCCCGGACAT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 35 0.30
79 52 0.44
80 30 0.26
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGATATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCAGAA
TTAGTAACTCGCA
Found at i:15338161 original size:39 final size:40
Alignment explanation
Indices: 15338040--15338261 Score: 233
Period size: 40 Copynumber: 5.6 Consensus size: 40
15338030 GCTACTCGTT
* * *
15338040 CAAATGCCTTCGGGACATAGCCCG-ATTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAAT-TAGTAACTCGCA
* *
15338080 CAAATGCCTTCGGGACTTAACCC-AGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGA-AATTAGTAACTCGCA
*
15338120 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
* *
15338159 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
* * * * *
15338198 CAAATGCCTTC-GGATCTTAGTCCG-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGAAAT-TAGTAAC-TCGCA
15338239 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
15338262 GACATCATTC
Statistics
Matches: 160, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
38 2 0.01
39 71 0.44
40 73 0.46
41 14 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
Found at i:15348383 original size:44 final size:44
Alignment explanation
Indices: 15348315--15348685 Score: 374
Period size: 44 Copynumber: 8.4 Consensus size: 44
15348305 TCTACTACTG
* * *
15348315 CAACATC-AGTACATAATACCTGCTGGATATAAATGGCACATAGC
1 CAACATCGA-TACATAGTACTTGCTGCATATAAATGGCACATAGC
* *
15348359 CAACATCGATACATAGTACTTGCTGTATATAAATGGCACATAAC
1 CAACATCGATACATAGTACTTGCTGCATATAAATGGCACATAGC
* * * * * * * * *
15348403 TAACA-CTGGTACATAATACCTACTGTATATAACTGACATATAGC
1 CAACATC-GATACATAGTACTTGCTGCATATAAATGGCACATAGC
* * *
15348447 CAACATCAATACATAGTACCTGCTGCATATAAATAGCACATAGC
1 CAACATCGATACATAGTACTTGCTGCATATAAATGGCACATAGC
* * * *
15348491 CAACATCGATACATAATACTTGTTGCATATAAATGGCATATAAC
1 CAACATCGATACATAGTACTTGCTGCATATAAATGGCACATAGC
* * * *
15348535 TAACAAT-GGTACATAGTACTTGCTGTATATAAATGACACATAGC
1 CAAC-ATCGATACATAGTACTTGCTGCATATAAATGGCACATAGC
* *
15348579 CAACATCAATACATAGTA-TCTACTGCATATAAATGGCACATAGC
1 CAACATCGATACATAGTACT-TGCTGCATATAAATGGCACATAGC
* * * *
15348623 CTACA-CTGGTACATAGTACTTGTTGCATATAAATGACACATAGC
1 CAACATC-GATACATAGTACTTGCTGCATATAAATGGCACATAGC
*
15348667 CAACATCGGTACATAGTAC
1 CAACATCGATACATAGTAC
15348686 CTGTTAAATA
Statistics
Matches: 267, Mismatches: 51, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
43 5 0.02
44 256 0.96
45 6 0.02
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (44 bp):
CAACATCGATACATAGTACTTGCTGCATATAAATGGCACATAGC
Found at i:15348561 original size:132 final size:132
Alignment explanation
Indices: 15348315--15348687 Score: 525
Period size: 132 Copynumber: 2.8 Consensus size: 132
15348305 TCTACTACTG
* * *
15348315 CAACATCAGTACATAATACCTGCTGGATATAAATGGCACATAGCCAACATCGATACATAGTACTT
1 CAACATCAATACATAGTACCTGCTGCATATAAATGGCACATAGCCAACATCGATACATAGTACTT
* * * * * *
15348380 GCTGTATATAAATGGCACATAACTAACACTGGTACATAATACCTACTGTATATAACTGACATATA
66 GTTGCATATAAATGGCACATAACTAACAATGGTACATAGTACCTACTGTATATAAATGACACATA
15348445 GC
131 GC
* *
15348447 CAACATCAATACATAGTACCTGCTGCATATAAATAGCACATAGCCAACATCGATACATAATACTT
1 CAACATCAATACATAGTACCTGCTGCATATAAATGGCACATAGCCAACATCGATACATAGTACTT
* * *
15348512 GTTGCATATAAATGGCATATAACTAACAATGGTACATAGTACTTGCTGTATATAAATGACACATA
66 GTTGCATATAAATGGCACATAACTAACAATGGTACATAGTACCTACTGTATATAAATGACACATA
15348577 GC
131 GC
* * * *
15348579 CAACATCAATACATAGTATCTACTGCATATAAATGGCACATAGCCTACA-CTGGTACATAGTACT
1 CAACATCAATACATAGTACCTGCTGCATATAAATGGCACATAGCCAACATC-GATACATAGTACT
* * *
15348643 TGTTGCATATAAATGACACATAGCCAAC-ATCGGTACATAGTACCT
65 TGTTGCATATAAATGGCACATAACTAACAAT-GGTACATAGTACCT
15348688 GTTAAATATA
Statistics
Matches: 214, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.01
132 211 0.99
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (132 bp):
CAACATCAATACATAGTACCTGCTGCATATAAATGGCACATAGCCAACATCGATACATAGTACTT
GTTGCATATAAATGGCACATAACTAACAATGGTACATAGTACCTACTGTATATAAATGACACATA
GC
Found at i:15348700 original size:88 final size:88
Alignment explanation
Indices: 15348315--15348688 Score: 414
Period size: 88 Copynumber: 4.2 Consensus size: 88
15348305 TCTACTACTG
* *
15348315 CAACATCAGTACATAATACCTGCTGGATATAAATGGCACATAGCCAACATCGATACATAGTACTT
1 CAACATCGGTACATAATACCTGCTGCATATAAATGGCACATAGCCAACATCGATACATAGTACTT
* * *
15348380 GCTGTATATAAATGGCACATAAC
66 GCTGCATATAAATGACACATAGC
* * * * * * * *
15348403 TAACA-CTGGTACATAATACCTACTGTATATAACTGACATATAGCCAACATCAATACATAGTACC
1 CAACATC-GGTACATAATACCTGCTGCATATAAATGGCACATAGCCAACATCGATACATAGTACT
15348467 TGCTGCATATAAAT-AGCACATAGC
65 TGCTGCATATAAATGA-CACATAGC
* * * * * * *
15348491 CAACATCGATACATAATACTTGTTGCATATAAATGGCATATAACTAACAAT-GGTACATAGTACT
1 CAACATCGGTACATAATACCTGCTGCATATAAATGGCACATAGCCAAC-ATCGATACATAGTACT
*
15348555 TGCTGTATATAAATGACACATAGC
65 TGCTGCATATAAATGACACATAGC
** * * * * *
15348579 CAACATCAATACATAGTATCTACTGCATATAAATGGCACATAGCCTACA-CTGGTACATAGTACT
1 CAACATCGGTACATAATACCTGCTGCATATAAATGGCACATAGCCAACATC-GATACATAGTACT
*
15348643 TGTTGCATATAAATGACACATAGC
65 TGCTGCATATAAATGACACATAGC
*
15348667 CAACATCGGTACATAGTACCTG
1 CAACATCGGTACATAATACCTG
15348689 TTAAATATAA
Statistics
Matches: 237, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
87 2 0.01
88 231 0.97
89 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.27
Consensus pattern (88 bp):
CAACATCGGTACATAATACCTGCTGCATATAAATGGCACATAGCCAACATCGATACATAGTACTT
GCTGCATATAAATGACACATAGC
Found at i:15348777 original size:14 final size:14
Alignment explanation
Indices: 15348760--15348786 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15348750 CTTTAACTTG
15348760 TATTCTATAACCTA
1 TATTCTATAACCTA
15348774 TATTCTATAACCT
1 TATTCTATAACCT
15348787 TTTCATCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTCTATAACCTA
Found at i:15349995 original size:24 final size:24
Alignment explanation
Indices: 15349959--15350037 Score: 117
Period size: 24 Copynumber: 3.3 Consensus size: 24
15349949 ATATAATTAC
*
15349959 ATTTATTTTCTTTAAATTAAAAGTT
1 ATTT-TTTTCTTTAAATTAAAAATT
15349984 ATTTTTTTCTTTAAATTAAAAATT
1 ATTTTTTTCTTTAAATTAAAAATT
*
15350008 A--TTTTTCTTTAAATTAAAATTT
1 ATTTTTTTCTTTAAATTAAAAATT
15350030 ATTTTTTT
1 ATTTTTTT
15350038 AACTTCATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
22 21 0.42
24 25 0.50
25 4 0.08
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (24 bp):
ATTTTTTTCTTTAAATTAAAAATT
Found at i:15350015 original size:22 final size:22
Alignment explanation
Indices: 15349964--15350035 Score: 108
Period size: 22 Copynumber: 3.2 Consensus size: 22
15349954 ATTACATTTA
*
15349964 TTTTCTTTAAATTAAAAGTTATTT
1 TTTTCTTTAAATTAAAAATTA--T
15349988 TTTTCTTTAAATTAAAAATTAT
1 TTTTCTTTAAATTAAAAATTAT
*
15350010 TTTTCTTTAAATTAAAATTTAT
1 TTTTCTTTAAATTAAAAATTAT
15350032 TTTT
1 TTTT
15350036 TTAACTTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 26 0.57
24 20 0.43
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTTCTTTAAATTAAAAATTAT
Found at i:15351080 original size:123 final size:123
Alignment explanation
Indices: 15350938--15351183 Score: 492
Period size: 123 Copynumber: 2.0 Consensus size: 123
15350928 TAATTATTTA
15350938 TTATTTTAATTAATAAATTAATTAGACATTTTATAGAATATTATAGAAAGATGATGAAAAACCAT
1 TTATTTTAATTAATAAATTAATTAGACATTTTATAGAATATTATAGAAAGATGATGAAAAACCAT
15351003 CCATATCATTTTCATCTTCACGCCACCACCATTTTCAACTTTTTCTTTACTTACAAAT
66 CCATATCATTTTCATCTTCACGCCACCACCATTTTCAACTTTTTCTTTACTTACAAAT
15351061 TTATTTTAATTAATAAATTAATTAGACATTTTATAGAATATTATAGAAAGATGATGAAAAACCAT
1 TTATTTTAATTAATAAATTAATTAGACATTTTATAGAATATTATAGAAAGATGATGAAAAACCAT
15351126 CCATATCATTTTCATCTTCACGCCACCACCATTTTCAACTTTTTCTTTACTTACAAAT
66 CCATATCATTTTCATCTTCACGCCACCACCATTTTCAACTTTTTCTTTACTTACAAAT
15351184 AGGCCATTTC
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (123 bp):
TTATTTTAATTAATAAATTAATTAGACATTTTATAGAATATTATAGAAAGATGATGAAAAACCAT
CCATATCATTTTCATCTTCACGCCACCACCATTTTCAACTTTTTCTTTACTTACAAAT
Found at i:15352086 original size:23 final size:23
Alignment explanation
Indices: 15352042--15352130 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 23
15352032 TATGCGCACA
*
15352042 AATGAAATGTGGA-ACTTCGGTGC
1 AATGAAATGT-GACACTTTGGTGC
15352065 GAATGAAA-GTGACACTTTGGTGC
1 -AATGAAATGTGACACTTTGGTGC
*
15352088 AATTGAAATGTGACACTTTGATGC
1 AA-TGAAATGTGACACTTTGGTGC
*
15352112 AATCGAAATGTGGCACTTT
1 AAT-GAAATGTGACACTTT
15352131 TATGCAATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.07
23 17 0.29
24 37 0.64
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (23 bp):
AATGAAATGTGACACTTTGGTGC
Found at i:15352135 original size:24 final size:24
Alignment explanation
Indices: 15352069--15352138 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
15352059 CGGTGCGAAT
* *
15352069 GAAA-GTGACACTTTGGTGCAATT
1 GAAATGTGACACTTTGATGCAATC
15352092 GAAATGTGACACTTTGATGCAATC
1 GAAATGTGACACTTTGATGCAATC
* *
15352116 GAAATGTGGCACTTTTATGCAAT
1 GAAATGTGACACTTTGATGCAAT
15352139 ATTGTGATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 4 0.10
24 38 0.90
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (24 bp):
GAAATGTGACACTTTGATGCAATC
Found at i:15352297 original size:2 final size:2
Alignment explanation
Indices: 15352290--15352314 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15352280 TTTATGAAAT
15352290 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15352315 TCTAGCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15355996 original size:66 final size:67
Alignment explanation
Indices: 15355837--15356059 Score: 270
Period size: 67 Copynumber: 3.3 Consensus size: 67
15355827 CATATGCTGT
** * * ** *
15355837 CATAGCTGAGCTATGGTTTTACACATCATACCTCATTTTTAATATCCTAACGAACTCTCTATGTT
1 CATAGCTGAGCTATGGTTTTACACATTTTACCCCATGTTTAATATCCTGGCGGACTCTCTATGTT
*
15355902 TC
66 GC
* * *
15355904 CATAGTTGAGCTATGGTTTTATACATTTTACCCCATGTTTAATATCCTGGCGGA-TCTTTATGTT
1 CATAGCTGAGCTATGGTTTTACACATTTTACCCCATGTTTAATATCCTGGCGGACTCTCTATGTT
15355968 GC
66 GC
* * * **
15355970 CATAGCTAAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGGTAGACTCTCTATGTT
1 CATAGCTGAGCTATGGTTTTACACATTTTACCCCATGTTTAATATCCTGGCGGACTCTCTATGTT
*
15356035 GT
66 GC
15356037 CATAG-TCGAGCTATGGTTTTACA
1 CATAGCT-GAGCTATGGTTTTACA
15356060 TATTACGCCC
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
66 58 0.44
67 74 0.56
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (67 bp):
CATAGCTGAGCTATGGTTTTACACATTTTACCCCATGTTTAATATCCTGGCGGACTCTCTATGTT
GC
Found at i:15356249 original size:21 final size:22
Alignment explanation
Indices: 15356223--15356268 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
15356213 AGTAGATATA
15356223 TGTTTT-AATATTCATGCATTT
1 TGTTTTCAATATTCATGCATTT
*
15356244 TGTTTTCAATCTTCATGCATTT
1 TGTTTTCAATATTCATGCATTT
15356266 TGT
1 TGT
15356269 CATTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.57
Consensus pattern (22 bp):
TGTTTTCAATATTCATGCATTT
Found at i:15358262 original size:18 final size:17
Alignment explanation
Indices: 15358235--15358309 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 17
15358225 AAATAAATAA
15358235 ATTA-TTTAAATTATTT
1 ATTATTTTAAATTATTT
15358251 ATGTATTTTAAATTTATTT
1 AT-TATTTTAAA-TTATTT
*
15358270 GTATATTTCTAAATT-TTT
1 AT-TATTT-TAAATTATTT
15358288 AATTATTTTATAA--ATTT
1 -ATTATTTTA-AATTATTT
15358305 ATTAT
1 ATTAT
15358310 AATATTTTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
16 7 0.14
17 7 0.14
18 16 0.33
19 15 0.31
20 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTATTTTAAATTATTT
Found at i:15358269 original size:19 final size:19
Alignment explanation
Indices: 15358241--15358307 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
15358231 ATAAATTATT
15358241 TAAA-TTATTTATGTATTT-
1 TAAATTTATTTAT-TATTTA
* *
15358259 TAAATTTATTTGTATATTTC
1 TAAATTTATTTAT-TATTTA
*
15358279 TAAATTT-TTAATTATTTTA
1 TAAATTTATTTATTA-TTTA
15358298 TAAATTTATT
1 TAAATTTATT
15358308 ATAATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.15
19 25 0.62
20 9 0.22
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TAAATTTATTTATTATTTA
Found at i:15360812 original size:24 final size:24
Alignment explanation
Indices: 15360781--15360828 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
15360771 CTATGGATGG
15360781 TTTTGACATAAAGATATCAAGGCT
1 TTTTGACATAAAGATATCAAGGCT
* *
15360805 TTTTGACATATAGATATCCAGGCT
1 TTTTGACATAAAGATATCAAGGCT
15360829 GCAAACCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (24 bp):
TTTTGACATAAAGATATCAAGGCT
Found at i:15361334 original size:12 final size:12
Alignment explanation
Indices: 15361317--15361341 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15361307 TCTGACTTAA
15361317 TAAAATGACAAC
1 TAAAATGACAAC
15361329 TAAAATGACAAC
1 TAAAATGACAAC
15361341 T
1 T
15361342 CCATGATGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TAAAATGACAAC
Found at i:15363317 original size:3 final size:3
Alignment explanation
Indices: 15363309--15363343 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
15363299 AACGCGTTTC
*
15363309 TAT TAT TAT TAT TAT TATT TAT CAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
15363344 CTTCTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:15363335 original size:16 final size:16
Alignment explanation
Indices: 15363311--15363343 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15363301 CGCGTTTCTA
*
15363311 TTATTATTATTATTAT
1 TTATCATTATTATTAT
15363327 TTATCATTATTATTAT
1 TTATCATTATTATTAT
15363343 T
1 T
15363344 CTTCTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATCATTATTATTAT
Found at i:15366373 original size:15 final size:15
Alignment explanation
Indices: 15366370--15366405 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
15366360 TAGAACAGAG
15366370 CAGAGCAGAATGGAA
1 CAGAGCAGAATGGAA
*
15366385 CAGAGCAGAATTGAA
1 CAGAGCAGAATGGAA
15366400 CAGAGC
1 CAGAGC
15366406 TACACAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.31, T:0.08
Consensus pattern (15 bp):
CAGAGCAGAATGGAA
Found at i:15366380 original size:20 final size:20
Alignment explanation
Indices: 15366355--15366393 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15366345 TAGAACATGA
15366355 CAGAATAGAACAGAGCAGAG
1 CAGAATAGAACAGAGCAGAG
*
15366375 CAGAATGGAACAGAGCAGA
1 CAGAATAGAACAGAGCAGA
15366394 ATTGAACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.15, G:0.31, T:0.05
Consensus pattern (20 bp):
CAGAATAGAACAGAGCAGAG
Found at i:15368352 original size:85 final size:85
Alignment explanation
Indices: 15368209--15368381 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
15368199 ATGTTTACTT
15368209 TATTAATTGGTGTTATATGATTTTTATTCAACATTTTATGTTCTTCTAAATTTATTTGGATTGAG
1 TATTAATTGGTGTTATATGATTTTTATTCAACATTTTATGTTCTTCTAAATTTATTTGGATTGAG
15368274 TTTAGATAAATAAATAAACA
66 TTTAGATAAATAAATAAACA
*
15368294 TATTAATTGGTGTTATATGATTTTTATTCAACATTTTATGTTCTTTTAAATTTATTTGGATTGAG
1 TATTAATTGGTGTTATATGATTTTTATTCAACATTTTATGTTCTTCTAAATTTATTTGGATTGAG
15368359 TTTAGATAAATAAATAAACA
66 TTTAGATAAATAAATAAACA
15368379 TAT
1 TAT
15368382 ATTTTAGGTC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (85 bp):
TATTAATTGGTGTTATATGATTTTTATTCAACATTTTATGTTCTTCTAAATTTATTTGGATTGAG
TTTAGATAAATAAATAAACA
Found at i:15371080 original size:21 final size:22
Alignment explanation
Indices: 15371038--15371082 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
15371028 TCTCTCACAT
*
15371038 TCTCAAATCTCTCTTAAATTTC
1 TCTCAAATCCCTCTTAAATTTC
*
15371060 TCTCAATTCCCTCTT-AATTTC
1 TCTCAAATCCCTCTTAAATTTC
15371081 TC
1 TC
15371083 ACTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTCAAATCCCTCTTAAATTTC
Found at i:15372338 original size:15 final size:15
Alignment explanation
Indices: 15372314--15372353 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
15372304 TAAAAAATAT
15372314 AAAA-AAAACCTTAA
1 AAAACAAAACCTTAA
15372328 AAAACAAAACCTTAA
1 AAAACAAAACCTTAA
15372343 AAAACAAAACC
1 AAAACAAAACC
15372354 CTAACCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.70, C:0.20, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACAAAACCTTAA
Found at i:15372351 original size:21 final size:21
Alignment explanation
Indices: 15372327--15372367 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15372317 AAAAACCTTA
15372327 AAAAACAAAACCTTAAAAAAC
1 AAAAACAAAACCTTAAAAAAC
* **
15372348 AAAACCCTAACCTTAAAAAA
1 AAAAACAAAACCTTAAAAAA
15372368 AAGAACACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.22, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAACAAAACCTTAAAAAAC
Found at i:15373073 original size:38 final size:38
Alignment explanation
Indices: 15373018--15373093 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
15373008 GTAACAAAAA
*
15373018 ATATTAATGAGTCACTGATTT-GCAACTTTTCTATAACG
1 ATATTAATGAGTCACTGATTTAGC-ACTTTTCGATAACG
* *
15373056 ATATTAAT-AGGTGACTGATTTATCACTTTTCGATAACG
1 ATATTAATGA-GTCACTGATTTAGCACTTTTCGATAACG
15373094 TTAATGATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.03
38 31 0.94
39 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (38 bp):
ATATTAATGAGTCACTGATTTAGCACTTTTCGATAACG
Found at i:15377773 original size:26 final size:25
Alignment explanation
Indices: 15377734--15377783 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
15377724 GGAGATCAAC
*
15377734 TTGAACTTGGGCATAAACAATTGAGT
1 TTGAACTTGAGCATAAA-AATTGAGT
* *
15377760 TTGAAGTTGAGCATGAAAATTGAG
1 TTGAACTTGAGCATAAAAATTGAG
15377784 CTTATTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (25 bp):
TTGAACTTGAGCATAAAAATTGAGT
Found at i:15378942 original size:13 final size:13
Alignment explanation
Indices: 15378925--15378968 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
15378915 ATTTCAATTT
15378925 TATTTTAATAATAA
1 TATTTTAA-AATAA
15378939 -ATTTTAAAAATAA
1 TATTTT-AAAATAA
*
15378952 TAATTTAAAATAA
1 TATTTTAAAATAA
15378965 TATT
1 TATT
15378969 ATTCACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTTTAAAATAA
Found at i:15381826 original size:13 final size:13
Alignment explanation
Indices: 15381808--15381837 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
15381798 AAGAGTGGCT
15381808 AATTTAAAAAATG
1 AATTTAAAAAATG
15381821 AATTTAAAAAATG
1 AATTTAAAAAATG
15381834 AATT
1 AATT
15381838 GAGTCTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
AATTTAAAAAATG
Found at i:15381986 original size:11 final size:11
Alignment explanation
Indices: 15381961--15382008 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
15381951 TTTTTGAATG
15381961 TTATTTT-TT-
1 TTATTTTGTTA
15381970 TTATTTTGTTA
1 TTATTTTGTTA
*
15381981 TTATTTTATTA
1 TTATTTTGTTA
*
15381992 TTATGTTGTTA
1 TTATTTTGTTA
15382003 TTATTT
1 TTATTT
15382009 AGATATTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 7 0.21
10 2 0.06
11 24 0.73
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (11 bp):
TTATTTTGTTA
Found at i:15382069 original size:30 final size:30
Alignment explanation
Indices: 15382033--15382094 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
15382023 ATTTATTTTC
*
15382033 TTGTTAACTTTGTTATTATTTTATAAGTAT
1 TTGTTAACTTTGTTATTATTTTAGAAGTAT
* * *
15382063 TTGTTAATTTTTTTATTATTTTAGAGGTAT
1 TTGTTAACTTTGTTATTATTTTAGAAGTAT
15382093 TT
1 TT
15382095 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.63
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAGAAGTAT
Found at i:15382127 original size:15 final size:15
Alignment explanation
Indices: 15382078--15382128 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
15382068 AATTTTTTTA
15382078 TTATTTTAGA-GGTAT
1 TTATTTTA-ATGGTAT
*
15382093 TTACTTGTTAAGTTGTAT
1 TTA-TT-TTAA-TGGTAT
15382111 TTATTTTAATGGTAT
1 TTATTTTAATGGTAT
15382126 TTA
1 TTA
15382129 AGTCTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 11 0.37
16 7 0.23
17 5 0.17
18 7 0.23
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (15 bp):
TTATTTTAATGGTAT
Found at i:15383958 original size:23 final size:22
Alignment explanation
Indices: 15383903--15383960 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
15383893 TTAATAACAT
* * *
15383903 TATTTACTTTATGTAATTATTA
1 TATTTAATTTATGTAAATAATA
*
15383925 AATTTATATTTATGTTAAATAATA
1 TATTTA-ATTTATG-TAAATAATA
15383949 TATTTAATTTAT
1 TATTTAATTTAT
15383961 AATCTATCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 5 0.17
23 12 0.41
24 12 0.41
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTTAATTTATGTAAATAATA
Found at i:15386993 original size:19 final size:20
Alignment explanation
Indices: 15386971--15387014 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
15386961 TCAAAATTTG
*
15386971 AAAATTATTT-TTAAAATTC
1 AAAATTATTTATAAAAATTC
15386990 AAAA-TATTTATAAAAATTC
1 AAAATTATTTATAAAAATTC
*
15387009 TAAATT
1 AAAATT
15387015 TATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTATTTATAAAAATTC
Found at i:15387082 original size:19 final size:18
Alignment explanation
Indices: 15387044--15387095 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 18
15387034 TAATTTTTTT
15387044 AAAAAATCT-AAAAATCTA
1 AAAAAAT-TAAAAAATCTA
15387062 AAAGAATATTAAAAAAT-TA
1 AAA-AA-ATTAAAAAATCTA
*
15387081 AAAAAATTATAAAAT
1 AAAAAATTAAAAAAT
15387096 AATAGTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 9 0.30
18 5 0.17
19 8 0.27
20 8 0.27
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAATTAAAAAATCTA
Found at i:15391278 original size:6 final size:6
Alignment explanation
Indices: 15391267--15391293 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15391257 TCTTTTTTTT
15391267 AATTAC AATTAC AATTAC AATTAC AAT
1 AATTAC AATTAC AATTAC AATTAC AAT
15391294 GTAATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAC
Found at i:15396270 original size:39 final size:39
Alignment explanation
Indices: 15396191--15396270 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
15396181 TACTTTTTGT
* * *
15396191 TTGGTGTGATTCGAGTGGATCAGCTCTTATAAGTTTCTG
1 TTGGTGTGATTCGAGTGGACCAGCTCTTATAAGATACTG
* * *
15396230 TTGGTGTGCTTCGGGTGGACCAGCTCTTATGAGATACTG
1 TTGGTGTGATTCGAGTGGACCAGCTCTTATAAGATACTG
15396269 TT
1 TT
15396271 TGGCGTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.16, C:0.15, G:0.30, T:0.39
Consensus pattern (39 bp):
TTGGTGTGATTCGAGTGGACCAGCTCTTATAAGATACTG
Found at i:15405281 original size:16 final size:17
Alignment explanation
Indices: 15405260--15405295 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
15405250 TATAATGTCT
15405260 AGAAAATTA-TTAATTG
1 AGAAAATTACTTAATTG
15405276 AGAAAATTATCTTAATTG
1 AGAAAATTA-CTTAATTG
15405294 AG
1 AG
15405296 GGGTTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (17 bp):
AGAAAATTACTTAATTG
Found at i:15409966 original size:16 final size:16
Alignment explanation
Indices: 15409943--15409982 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
15409933 CTAGGGTTAC
15409943 GAAACCCATGTATCTA
1 GAAACCCATGTATCTA
*
15409959 GTAACCCATGTATCTA
1 GAAACCCATGTATCTA
15409975 GAAACCCA
1 GAAACCCA
15409983 AGTAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.23
Consensus pattern (16 bp):
GAAACCCATGTATCTA
Found at i:15411301 original size:18 final size:20
Alignment explanation
Indices: 15411273--15411317 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
15411263 ATTTAGGATC
15411273 ATGGATTTAGG-TGAAATT-A
1 ATGG-TTTAGGATGAAATTAA
15411292 ATGGTTTAGGTATGAAATTAA
1 ATGGTTTAGG-ATGAAATTAA
15411313 ATGGT
1 ATGGT
15411318 ATTTAGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 7 0.30
21 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.38
Consensus pattern (20 bp):
ATGGTTTAGGATGAAATTAA
Found at i:15414206 original size:45 final size:45
Alignment explanation
Indices: 15414127--15414285 Score: 183
Period size: 45 Copynumber: 3.5 Consensus size: 45
15414117 TTCCATAGAG
* * * * * *
15414127 TCTTTCAGCTATTGTCTTAGTCCTTTTTACCATGATGTCGTAGCA
1 TCTTTCAGCTATGGTCTTACTCATTTTCATCATGATGTCATAGCA
* * * * ***
15414172 TCTTTCAGTTATGGTTTTACTCATTTTCGTCATGATGCCATATTG
1 TCTTTCAGCTATGGTCTTACTCATTTTCATCATGATGTCATAGCA
* *
15414217 TCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGTCATAGCA
1 TCTTTCAGCTATGGTCTTACTCATTTTCATCATGATGTCATAGCA
15414262 TCTTTCAGCTATGGTCTTACTCAT
1 TCTTTCAGCTATGGTCTTACTCAT
15414286 CTTGGCGTAT
Statistics
Matches: 92, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 92 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTTCATCATGATGTCATAGCA
Found at i:15417731 original size:44 final size:45
Alignment explanation
Indices: 15417683--15417782 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 45
15417673 TTTTAATCCG
* *
15417683 CTCCACTGTAACT-TCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAACTCTCAGAGAGATAAGATCT-CTAGCTTCAATATA
* * *
15417727 CTCCACTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATATG
1 CTCCACTGTAACTCTCAGAGAGATAAGATCTCTAGCTTCAATATA
*
15417771 TTCCACTGTAAC
1 CTCCACTGTAAC
15417783 CGAGAGAGGC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
43 1 0.02
44 45 0.96
45 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
CTCCACTGTAACTCTCAGAGAGATAAGATCTCTAGCTTCAATATA
Found at i:15417925 original size:44 final size:44
Alignment explanation
Indices: 15417789--15417926 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 44
15417779 TAACCGAGAG
* * * * *
15417789 AGGCAAGATTTGTGTCTTCGATCTACTTCGCTGTCAAGGCAAGA
1 AGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAACGTAGGA
* * * * ** *
15417833 AGGCAAGATCTGTTATCTTCAACCAGCTTTACT-ACAAC-T-GAGA
1 AGGCAAGATTTG-TGTCTTCAATCTGCTTCGCTGTCAACGTAG-GA
*
15417876 GAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAACGTAGGA
1 -AGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAACGTAGGA
15417921 AGGCAA
1 AGGCAA
15417927 TATCTGTTAT
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 17 0.25
44 34 0.50
45 16 0.24
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
AGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAACGTAGGA
Found at i:15418143 original size:88 final size:88
Alignment explanation
Indices: 15417945--15418423 Score: 703
Period size: 88 Copynumber: 5.5 Consensus size: 88
15417935 ATCTTTAGTT
* * * *
15417945 TGCTCCGCTGTCATTACAGGAAGGCAAAATCTTTTGTCTTCAACCAGCTCCATCACCACC--GAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* * * *
15418008 AGGCAATGTTTGTGTCTTGGACC
66 AGGAAAGGTTTGTGTTTTCGACC
* *
15418031 TGCTTCGCTATCAATATAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* * *
15418096 AGGGAAGGTTTGTGTCTTCGATC
66 AGGAAAGGTTTGTGTTTTCGACC
* *
15418119 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
15418184 AGGAAAGGTTTGTGTTTTCGACC
66 AGGAAAGGTTTGTGTTTTCGACC
*
15418207 TGCTTCGCTGTCAATACAGGAAGGCAAGATCCTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
15418272 AGGAAAGGTTTGTGTTTTCGACC
66 AGGAAAGGTTTGTGTTTTCGACC
* *
15418295 TGCTTCGCTGTCAATACAGGAAGGCAAGATCCTTTGTCTTCAACCAGCTCCATCACCACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* *
15418360 AGGCAAGGTTT-TGTTTTCGATC
66 AGGAAAGGTTTGTGTTTTCGACC
* ** * **
15418382 TGCTTCGCTGTTAACGCGGGAAGGCAAGATCTGCTGTCTTCA
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCA
15418424 CTGATCTGTT
Statistics
Matches: 361, Mismatches: 30, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
86 54 0.15
87 45 0.12
88 262 0.73
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
AGGAAAGGTTTGTGTTTTCGACC
Found at i:15436968 original size:17 final size:17
Alignment explanation
Indices: 15436946--15436978 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15436936 ATGGACACCT
15436946 TTATTACAA-ATTCTAAG
1 TTATTA-AATATTCTAAG
15436963 TTATTAAATATTCTAA
1 TTATTAAATATTCTAA
15436979 ATAACTCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
TTATTAAATATTCTAAG
Found at i:15437572 original size:115 final size:116
Alignment explanation
Indices: 15437366--15437599 Score: 299
Period size: 115 Copynumber: 2.0 Consensus size: 116
15437356 AAATAAATTC
* * ** *
15437366 AATATTCAAAGTCTATCCTTTCTTCCTTTCATTTTATGTGTGTATGAAGGCAGTAAAAATACTAT
1 AATATTCAAAGTCCATCCTTTCTTCCTTCCATTTTATGCATGTATGAAGGCAGTAAAAATACCAT
* * *** ** * *
15437431 GGAGACCCTTGTATAAAGAGTTAGATTGCACTTTGCTTCATTTACTCAAAA
66 GGAGAACCTTGTAGAAAGAAAAAGATTGCACTTTGCCCCATATACTAAAAA
* *
15437482 AATATTCAAAGTCCATCC-TTCTTCCTTCCATTTTATGCATGTATGAAGGCGGTAAAAGTACCAT
1 AATATTCAAAGTCCATCCTTTCTTCCTTCCATTTTATGCATGTATGAAGGCAGTAAAAATACCAT
* *
15437546 GGAGAACCTTGTAGAAGGAAAAAGATTGCATTTTGCCCCATATACTAAAAA
66 GGAGAACCTTGTAGAAAGAAAAAGATTGCACTTTGCCCCATATACTAAAAA
15437597 AAT
1 AAT
15437600 GGTAAATTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
115 83 0.83
116 17 0.17
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (116 bp):
AATATTCAAAGTCCATCCTTTCTTCCTTCCATTTTATGCATGTATGAAGGCAGTAAAAATACCAT
GGAGAACCTTGTAGAAAGAAAAAGATTGCACTTTGCCCCATATACTAAAAA
Found at i:15438797 original size:31 final size:30
Alignment explanation
Indices: 15438762--15438892 Score: 102
Period size: 31 Copynumber: 4.3 Consensus size: 30
15438752 ATTTCATATT
* *
15438762 TGGTACTTGTATTTTCATAAAATGTCTAATG
1 TGGTACTTGTACTTTCA-AAAATGTCCAATG
* * * * ** *
15438793 TGGTACCTGAACTATCAATATATGTTTATTG
1 TGGTACTTGTACTTTCAA-AAATGTCCAATG
* * *
15438824 TAGTACTTGTACTTTCATAAAATATCCATTG
1 TGGTACTTGTACTTTCA-AAAATGTCCAATG
* *
15438855 TGATACTTGTACTTT-AAAAGTGTCCAATG
1 TGGTACTTGTACTTTCAAAAATGTCCAATG
15438884 TGGTACTTG
1 TGGTACTTG
15438893 AATTATCAAT
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
29 18 0.23
30 2 0.03
31 56 0.73
32 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (30 bp):
TGGTACTTGTACTTTCAAAAATGTCCAATG
Found at i:15438885 original size:29 final size:31
Alignment explanation
Indices: 15438827--15438892 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
15438817 TTTATTGTAG
*
15438827 TACTTGTACTTTCATAAAATATCCATTGTGA
1 TACTTGTACTTTCATAAAATATCCAATGTGA
* * *
15438858 TACTTGTACTTT-A-AAAGTGTCCAATGTGG
1 TACTTGTACTTTCATAAAATATCCAATGTGA
15438887 TACTTG
1 TACTTG
15438893 AATTATCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.58
30 1 0.03
31 12 0.39
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (31 bp):
TACTTGTACTTTCATAAAATATCCAATGTGA
Found at i:15439068 original size:15 final size:15
Alignment explanation
Indices: 15439050--15439081 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15439040 AGTTATTTAC
15439050 TTTTTAATTTAATTT
1 TTTTTAATTTAATTT
*
15439065 TTTTTTATTTAATTT
1 TTTTTAATTTAATTT
15439080 TT
1 TT
15439082 CCCATAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTAATTTAATTT
Found at i:15445655 original size:15 final size:16
Alignment explanation
Indices: 15445624--15445662 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
15445614 ACTAATTGAC
15445624 TTCATTCATTCATTTTT
1 TTCATT-ATTCATTTTT
15445641 TTCATTATT-ATTTTT
1 TTCATTATTCATTTTT
*
15445656 TTAATTA
1 TTCATTA
15445663 AACCTGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 3 0.14
17 6 0.29
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCATTATTCATTTTT
Found at i:15446837 original size:37 final size:37
Alignment explanation
Indices: 15446795--15446866 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
15446785 TACAGTTTCT
*
15446795 CAATTCAATATACATTTCA-ATTATTCACATA-TAATCA
1 CAATTCAATATA-ATTTCATATAATTCA-ATACTAATCA
*
15446832 CAATTCAATTTAATTTCATATAATTCAATACTAAT
1 CAATTCAATATAATTTCATATAATTCAATACTAAT
15446867 ACTTGCCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 9 0.29
37 22 0.71
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (37 bp):
CAATTCAATATAATTTCATATAATTCAATACTAATCA
Found at i:15447788 original size:3 final size:3
Alignment explanation
Indices: 15447780--15447839 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
15447770 TTAATTTATT
* * * *
15447780 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAG TTA TAA TAA TAC TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15447827 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
15447840 TAAATCTACT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:15449062 original size:365 final size:366
Alignment explanation
Indices: 15448390--15449115 Score: 1418
Period size: 365 Copynumber: 2.0 Consensus size: 366
15448380 GTGTTGGATG
15448390 GTAAGTGGGACTTTATTTAGTTAAATAGTTATAATAGTCAGTAGAATAAAGAAACAAAAGGAAAA
1 GTAAGTGGGACTTTATTTAGTTAAATAGTTATAATAGTCAGTAGAATAAAGAAACAAAAGGAAAA
15448455 ACATTTTCTTTAGCTTGTTCATCATCTTCTTTCACAAAAAAAAAGGGGAAAAGCTAGGTTTGGTT
66 ACATTTTCTTTAGCTTGTTCATCATCTTCTTTCAC-AAAAAAAAGGGGAAAAGCTAGGTTTGGTT
15448520 ATTCAAGTTTCGTTCCTTGATTAGATAAGTTATTTTAGTTTGTTTCTTGTAATTTTTATGTTTTT
130 ATTCAAGTTTCGTTCCTTGATTAGATAAGTTATTTTAGTTTGTTTCTTGTAATTTTTATGTTTTT
*
15448585 GGAATCCCAAAAGCTTGATTTAGCTAACCTAAGGACTATTTCGTGAAACTGCTAAAGTTTTTTAA
195 GGAATCCCAAAAGCTTGATTAAGCTAACCTAAGGACTATTTCGTGAAACTGCTAAAGTTTTTTAA
15448650 AGTTTCAATTGATGTTTTCTTGGAGTATTTATGGTTATTTGGTTAGTTTTGAAGCTTAGATATGT
260 AGTTTCAATTGATGTTTTCTTGGAGTATTTATGGTTATTTGGTTAGTTTTGAAGCTTAGATATGT
15448715 TAATGGACTAGTTTGTAAAGTAAAAGTTGTTATTTTAGATAT
325 TAATGGACTAGTTTGTAAAGTAAAAGTTGTTATTTTAGATAT
*
15448757 GTAAGTGGGACTTTATTTAGTTCAATAGTTATAATAGTCAGTAGAATAAAGAAACAAAAGGAAAA
1 GTAAGTGGGACTTTATTTAGTTAAATAGTTATAATAGTCAGTAGAATAAAGAAACAAAAGGAAAA
15448822 ACATTTTCTTTAGCTTGTTCATCATCTTCTTTCAC-AAAAAAAGGGGAAAAGCTAGGTTTGGTTA
66 ACATTTTCTTTAGCTTGTTCATCATCTTCTTTCACAAAAAAAAGGGGAAAAGCTAGGTTTGGTTA
15448886 TTCAAGTTTCGTTCCTTGATTAGATAAGTTATTTTAGTTTGTTTCTTGTAATTTTTATGTTTTTG
131 TTCAAGTTTCGTTCCTTGATTAGATAAGTTATTTTAGTTTGTTTCTTGTAATTTTTATGTTTTTG
15448951 GAATCCCAAAAGCTTGATTAAGCTAACCTAAGGACTATTTCGTGAAACTGCTAAAGTTTTTTAAA
196 GAATCCCAAAAGCTTGATTAAGCTAACCTAAGGACTATTTCGTGAAACTGCTAAAGTTTTTTAAA
15449016 GTTTCAATTGATGTTTTCTTGGAGTATTTATGGTTATTTGGTTAGTTTTGAAGCTTAGATATGTT
261 GTTTCAATTGATGTTTTCTTGGAGTATTTATGGTTATTTGGTTAGTTTTGAAGCTTAGATATGTT
15449081 AATGGACTAGTTTGTAAAGTAAAAGTTGTTATTTT
326 AATGGACTAGTTTGTAAAGTAAAAGTTGTTATTTT
15449116 TGAACCTAAT
Statistics
Matches: 357, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
365 258 0.72
367 99 0.28
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (366 bp):
GTAAGTGGGACTTTATTTAGTTAAATAGTTATAATAGTCAGTAGAATAAAGAAACAAAAGGAAAA
ACATTTTCTTTAGCTTGTTCATCATCTTCTTTCACAAAAAAAAGGGGAAAAGCTAGGTTTGGTTA
TTCAAGTTTCGTTCCTTGATTAGATAAGTTATTTTAGTTTGTTTCTTGTAATTTTTATGTTTTTG
GAATCCCAAAAGCTTGATTAAGCTAACCTAAGGACTATTTCGTGAAACTGCTAAAGTTTTTTAAA
GTTTCAATTGATGTTTTCTTGGAGTATTTATGGTTATTTGGTTAGTTTTGAAGCTTAGATATGTT
AATGGACTAGTTTGTAAAGTAAAAGTTGTTATTTTAGATAT
Found at i:15454630 original size:71 final size:71
Alignment explanation
Indices: 15454541--15454683 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
15454531 ATCCAAGATT
15454541 CTGAAACAAACAGAGCAGAGCGTCCAAATTGAGCCACCAAAAACTGTTTGACAAATATGTTATAT
1 CTGAAACAAACAGAGCAGAGCGTCCAAATTGAGCCACCAAAAACTGTTTGACAAATATGTTATAT
15454606 ATGTCG
66 ATGTCG
15454612 CTGAAACAAACAGAGCAGAGCGTCCAAATTGAGCCACCAAAAACTGTTTGACAAATATGTTATAT
1 CTGAAACAAACAGAGCAGAGCGTCCAAATTGAGCCACCAAAAACTGTTTGACAAATATGTTATAT
15454677 ATGTCG
66 ATGTCG
15454683 C
1 C
15454684 ATACAATACA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.22
Consensus pattern (71 bp):
CTGAAACAAACAGAGCAGAGCGTCCAAATTGAGCCACCAAAAACTGTTTGACAAATATGTTATAT
ATGTCG
Found at i:15459039 original size:55 final size:55
Alignment explanation
Indices: 15458937--15459059 Score: 131
Period size: 55 Copynumber: 2.2 Consensus size: 55
15458927 CATGCCCTTC
* *
15458937 ACCCGTGGGCAACACTGACTTATCAACACGGTCATGGCACACACCCGTGCT-GCCT
1 ACCCGTGGACAACACTGACTTATCAACACGGGCATGGCACACACCCGTG-TGGCCT
* * * * * ** *
15458992 GCCCGTGGACGACACTGTCTTTTTAACACGGGCATGGTGCACGCCCGTGTGGCCT
1 ACCCGTGGACAACACTGACTTATCAACACGGGCATGGCACACACCCGTGTGGCCT
*
15459047 ACCCGTGTACAAC
1 ACCCGTGGACAAC
15459060 TTTGAACTAA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
54 1 0.02
55 53 0.98
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.20
Consensus pattern (55 bp):
ACCCGTGGACAACACTGACTTATCAACACGGGCATGGCACACACCCGTGTGGCCT
Found at i:15461794 original size:12 final size:12
Alignment explanation
Indices: 15461777--15461807 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15461767 TATAGGACTT
15461777 AGTTTTCCTTAA
1 AGTTTTCCTTAA
15461789 AGTTTTCCTTAA
1 AGTTTTCCTTAA
15461801 AGTTTTC
1 AGTTTTC
15461808 TTTATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.10, T:0.52
Consensus pattern (12 bp):
AGTTTTCCTTAA
Found at i:15468181 original size:44 final size:41
Alignment explanation
Indices: 15468041--15468196 Score: 154
Period size: 44 Copynumber: 3.7 Consensus size: 41
15468031 AGCACGTACA
* * *
15468041 ATGCCAACGTCCCATAGATGGCCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATC-AA-ATCG
* * *
15468084 ATGCC-ACTGTCCCAGACA-AGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAAT-CG
*
15468125 ATGCCAATGTCCCAGACATGGTCTTACATGTAACTCACAGATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAA-TCA-A-ATCG
* *
15468169 ATGCCAACGTCCCATACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
15468197 CGATAACACA
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
40 2 0.02
41 19 0.20
42 26 0.28
43 16 0.17
44 28 0.30
45 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATCG
Found at i:15487952 original size:21 final size:21
Alignment explanation
Indices: 15487915--15488011 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 21
15487905 AAGAGCTCCA
* *
15487915 AGCTAAACAGAAACTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
15487936 AGTTTAATAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
15487957 ACCTAAACAGAAACTCATAAG
1 AGCTGAACAGAAGCTCATAAG
*
15487978 AGTTGAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
*
15487999 AGCTGAATAGAAG
1 AGCTGAACAGAAG
15488012 TTCGAAAGAG
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:15488021 original size:42 final size:42
Alignment explanation
Indices: 15487917--15487999 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
15487907 GAGCTCCAAG
* *
15487917 CTAAACAGAAACTCATAAGAGTTTAATAGAAGCTCATAAGAC
1 CTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCATAAGAC
15487959 CTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCATAAGA
1 CTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCATAAGA
15488000 GCTGAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (42 bp):
CTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCATAAGAC
Found at i:15489328 original size:31 final size:32
Alignment explanation
Indices: 15489280--15489353 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
15489270 GATATTTTGA
*
15489280 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATAAGATATAATAT
*
15489310 TATTTTATTAA-TACTTTAATAAGATATTTATTAT
1 TATTTTATTAATTA-TTTAATAAGATA--TAATAT
15489344 TATTTTATTA
1 TATTTTATTA
15489354 GTATATAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 9 0.24
31 14 0.38
34 14 0.38
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATAAGATATAATAT
Found at i:15491537 original size:46 final size:46
Alignment explanation
Indices: 15491482--15491658 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
15491472 GCTCTCTAAT
* * * * *
15491482 ATGAAATGTGTAAGACCATGGTTGAAAGAAACCATCGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
15491528 ATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
15491574 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
15491620 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
15491659 TCACGTCAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 114 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:15491964 original size:23 final size:25
Alignment explanation
Indices: 15491919--15491965 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
15491909 AATAAATATA
*
15491919 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
15491944 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
15491966 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:15496679 original size:39 final size:39
Alignment explanation
Indices: 15496612--15496873 Score: 373
Period size: 39 Copynumber: 6.7 Consensus size: 39
15496602 ACAAAGCATG
* * * *
15496612 CGGGACTTTAAGCCCGGATATCATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
15496652 CGGGACTTTAGCCCAGATATAACACCAGCACGAATGTCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
15496692 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
15496731 CGGGACTTAGCCCAGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
15496770 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
15496809 CAGGACTGAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
15496848 CGGGACTTAGCCCAGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
15496874 TTATAAAGTC
Statistics
Matches: 201, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 182 0.91
40 19 0.09
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:15496987 original size:28 final size:28
Alignment explanation
Indices: 15496945--15497027 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 28
15496935 TATTTAATCA
* *
15496945 CTCAATATTTTGCACACTAAGTGTCATT
1 CTCAATATTTCGCACACTAAGTGCCATT
* *
15496973 CTCAATATCTCGCACATTAAGTGCCATT
1 CTCAATATTTCGCACACTAAGTGCCATT
* *
15497001 CTCAATATTTCGTACACTGAGTGCCAT
1 CTCAATATTTCGCACACTAAGTGCCAT
15497028 ATTTGATTGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (28 bp):
CTCAATATTTCGCACACTAAGTGCCATT
Found at i:15503226 original size:39 final size:39
Alignment explanation
Indices: 15503159--15503342 Score: 271
Period size: 39 Copynumber: 4.7 Consensus size: 39
15503149 ACAAAGCATG
* * * *
15503159 CGGGACTTTAAGCCCAGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
15503199 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
15503239 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
15503278 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
15503317 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
15503343 TTATAAAGTC
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 113 0.84
40 21 0.16
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:15503448 original size:28 final size:28
Alignment explanation
Indices: 15503415--15503496 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
15503405 ATTTAATCAT
* *
15503415 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
15503443 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
15503471 TCAATATTTCGTACACTGAGTGCCAT
1 TCAATATTTCGCACACTAAGTGCCAT
15503497 ATTTGATTGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:15506755 original size:46 final size:46
Alignment explanation
Indices: 15506698--15506818 Score: 181
Period size: 46 Copynumber: 2.6 Consensus size: 46
15506688 ATGAAATGTG
*
15506698 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
*
15506744 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * *
15506790 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
15506819 TCACGTCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
45 5 0.07
46 64 0.93
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:15515253 original size:22 final size:22
Alignment explanation
Indices: 15515228--15515271 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15515218 TAGTCATATA
15515228 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
15515250 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
15515272 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:15515331 original size:16 final size:17
Alignment explanation
Indices: 15515295--15515331 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
15515285 AATTTTATTT
*
15515295 TAATAATAAATTTTAAA
1 TAATAATAAATTTGAAA
15515312 -AATAAT-AATTTGAAA
1 TAATAATAAATTTGAAA
15515327 TAATA
1 TAATA
15515332 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTGAAA
Found at i:15515895 original size:14 final size:14
Alignment explanation
Indices: 15515876--15515914 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
15515866 CCAAAAAAGT
15515876 AAATCATTTTCCAG
1 AAATCATTTTCCAG
* *
15515890 AAATCATTTTTCGG
1 AAATCATTTTCCAG
*
15515904 AAGTCATTTTC
1 AAATCATTTTC
15515915 AGTAAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:15517836 original size:22 final size:22
Alignment explanation
Indices: 15517808--15517852 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15517798 TATTCAAGTG
15517808 TTTGAACTTTTTCAATACTTTC
1 TTTGAACTTTTTCAATACTTTC
15517830 TTTGAACTTTTTCAATACTTTC
1 TTTGAACTTTTTCAATACTTTC
15517852 T
1 T
15517853 CAATGTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTGAACTTTTTCAATACTTTC
Found at i:15538356 original size:93 final size:93
Alignment explanation
Indices: 15538197--15538368 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
15538187 CGTCCATAAG
* * * *
15538197 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15538262 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
15538290 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15538355 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
15538369 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:15538365 original size:46 final size:46
Alignment explanation
Indices: 15538189--15538365 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
15538179 ATGTAACCCG
* * * * *
15538189 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCA
* * * *
15538235 TCCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCA
*
15538285 T-C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCA
*
15538328 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
15538366 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCA
Found at i:15540786 original size:15 final size:15
Alignment explanation
Indices: 15540760--15540815 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
15540750 CAAGGAAACC
15540760 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
15540775 -ACATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
*
15540790 GAATAAAGAAATCTA
1 GAATAAAGAAATCCA
15540805 GAATAAAGAAA
1 GAATAAAGAAA
15540816 CCCAAGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:15543851 original size:47 final size:49
Alignment explanation
Indices: 15543733--15543912 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 49
15543723 TGTAACCCGC
* *
15543733 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GC--GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTT-ACAT
* * *
15543779 CCATGAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-CTAGTTACAT
* * *
15543829 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---TATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTTACAT
*
15543872 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCT
15543913 CAACCATCCT
Statistics
Matches: 111, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
45 2 0.02
46 61 0.55
47 28 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTTACAT
Found at i:15543899 original size:93 final size:93
Alignment explanation
Indices: 15543740--15543911 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
15543730 CGCCCATAAG
* * * *
15543740 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15543805 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
15543833 CGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15543898 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
15543912 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:15550110 original size:47 final size:47
Alignment explanation
Indices: 15550052--15550410 Score: 493
Period size: 47 Copynumber: 7.4 Consensus size: 47
15550042 CAGCCAAGAC
15550052 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15550099 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG--A----A
* *
15550152 TATGTGTGATATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 -A-GTGT-ATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
15550204 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15550251 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15550298 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
15550345 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
15550392 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
15550411 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 17, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
47 228 0.80
49 5 0.02
50 4 0.01
51 1 0.00
53 1 0.00
54 1 0.00
55 4 0.01
56 6 0.02
58 34 0.12
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:15550585 original size:37 final size:37
Alignment explanation
Indices: 15550529--15550607 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
15550519 CCGAGCTCTA
* *
15550529 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
15550566 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
15550603 AAGAC
1 AAGAC
15550608 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:15556676 original size:29 final size:31
Alignment explanation
Indices: 15556643--15556712 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 31
15556633 AATAAATGTA
15556643 TTATGTG-TATAATTACACCA-AA-T-TAAAAT
1 TTATGTGTTA-AATTACA-CATAAGTATAAAAT
*
15556672 TTATGTATTAAATTACACATAAGTATAAAAT
1 TTATGTGTTAAATTACACATAAGTATAAAAT
15556703 TTATGTGTTA
1 TTATGTGTTA
15556713 TTTTGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 2 0.06
29 15 0.43
30 3 0.09
31 15 0.43
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (31 bp):
TTATGTGTTAAATTACACATAAGTATAAAAT
Found at i:15557111 original size:26 final size:25
Alignment explanation
Indices: 15557078--15557128 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
15557068 TTTGATAACC
*
15557078 ATTTAATTTAAAAATAATGTAATTA
1 ATTTAATTTAAAAATAATATAATTA
*
15557103 ATTTAAATTTAAAAATATTATAATTA
1 ATTT-AATTTAAAAATAATATAATTA
15557129 GACCTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTTAATTTAAAAATAATATAATTA
Found at i:15558126 original size:19 final size:19
Alignment explanation
Indices: 15558104--15558143 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15558094 ATAATAAATT
*
15558104 TTATTATCATACATAATCA
1 TTATTATCATACATAAACA
*
15558123 TTATTATCATCCATAAACA
1 TTATTATCATACATAAACA
15558142 TT
1 TT
15558144 TCTAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
TTATTATCATACATAAACA
Found at i:15570688 original size:16 final size:15
Alignment explanation
Indices: 15570667--15570696 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15570657 GAGTTGAAAA
15570667 TATATATATGTATAAT
1 TATATATA-GTATAAT
15570683 TATATATAGTATAA
1 TATATATAGTATAA
15570697 ATGTGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TATATATAGTATAAT
Found at i:15576445 original size:38 final size:39
Alignment explanation
Indices: 15576356--15576455 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 39
15576346 CGGATATAAT
* * * *
15576356 AATTATAATTACCATAATGATAATAATGTTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTCGACCGAAA
* ** *
15576395 AATTACAATTACAATAATTATAATAATATTCGATTG-TA
1 AATTATAATTACAATAATTATAATAATATTCGACCGAAA
15576433 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
15576456 CAAGGATTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
38 23 0.44
39 29 0.56
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (39 bp):
AATTATAATTACAATAATTATAATAATATTCGACCGAAA
Found at i:15578698 original size:21 final size:21
Alignment explanation
Indices: 15578668--15578708 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15578658 TGCCAATAAA
15578668 TTTGTGGATAAACCATCAGTG
1 TTTGTGGATAAACCATCAGTG
* *
15578689 TTTGTTGATAAACTATCAGT
1 TTTGTGGATAAACCATCAGT
15578709 ACTTCCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (21 bp):
TTTGTGGATAAACCATCAGTG
Found at i:15588442 original size:33 final size:31
Alignment explanation
Indices: 15588359--15588443 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 31
15588349 TGAAAACTTA
15588359 AATATAAT-A-ATAAATATATTTAAATAATTT
1 AATATAATAACATAAA-ATATTTAAATAATTT
15588389 AATATAATAACATATGAAATATTTAAATAATTT
1 AATATAATAACATA--AAATATTTAAATAATTT
15588422 AATATAATGATACATAAAATAT
1 AATATAAT-A-ACATAAAATAT
15588444 AAATTAATCT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
30 8 0.16
31 1 0.02
32 3 0.06
33 29 0.59
34 3 0.06
35 5 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (31 bp):
AATATAATAACATAAAATATTTAAATAATTT
Found at i:15591110 original size:18 final size:19
Alignment explanation
Indices: 15591079--15591117 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15591069 CTCCTCAACC
15591079 TTTTTTAAAGGGTTTAAGG
1 TTTTTTAAAGGGTTTAAGG
*
15591098 TTTTTTTAA-GGTTTAAGG
1 TTTTTTAAAGGGTTTAAGG
15591116 TT
1 TT
15591118 AGAAATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (19 bp):
TTTTTTAAAGGGTTTAAGG
Found at i:15593505 original size:28 final size:29
Alignment explanation
Indices: 15593459--15593517 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
15593449 TTTGTACGAA
** *
15593459 CTCTTTGTTTGGCTCTGCTT-TGTGCAAG
1 CTCTTTGTTTACCTCTGCTTCAGTGCAAG
*
15593487 CTCTTTGTTTACCTTTGCTTCAGTGCAAG
1 CTCTTTGTTTACCTCTGCTTCAGTGCAAG
15593516 CT
1 CT
15593518 TTCTATTCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (29 bp):
CTCTTTGTTTACCTCTGCTTCAGTGCAAG
Found at i:15593659 original size:41 final size:42
Alignment explanation
Indices: 15593592--15593672 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
15593582 ATGTTAAGTT
* * *
15593592 TCACTCTGCGTGTTCCTTTGAGAGCATGAGCTTTTGTGAGCC
1 TCACTCTGCATGCTCCTTTGAAAGCATGAGCTTTTGTGAGCC
*
15593634 TCACTCTGCATGCT-CTTTGAAAGCATGGGCTTTTGTGAG
1 TCACTCTGCATGCTCCTTTGAAAGCATGAGCTTTTGTGAG
15593673 AATTGTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 23 0.66
42 12 0.34
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (42 bp):
TCACTCTGCATGCTCCTTTGAAAGCATGAGCTTTTGTGAGCC
Found at i:15594841 original size:15 final size:15
Alignment explanation
Indices: 15594821--15594851 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15594811 TTTTCCACTA
*
15594821 CTTTATCTTTATCTT
1 CTTTATCTTGATCTT
15594836 CTTTATCTTGATCTT
1 CTTTATCTTGATCTT
15594851 C
1 C
15594852 ACCTCAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.61
Consensus pattern (15 bp):
CTTTATCTTGATCTT
Found at i:15598103 original size:39 final size:39
Alignment explanation
Indices: 15597899--15598121 Score: 180
Period size: 40 Copynumber: 5.6 Consensus size: 39
15597889 TTGAATGCTG
* * * * * *
15597899 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
15597939 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * * *
15597978 TTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
15598019 TCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
15598059 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
15598098 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15598122 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 38 0.25
40 102 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:15598129 original size:79 final size:80
Alignment explanation
Indices: 15597982--15598129 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
15597972 TACAAATTCT
* * * *
15597982 GGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTA
1 GGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
15598047 CGAGTTGTTAAATCC
66 CGAGTTGTTAAATCC
* * * * * *
15598062 GGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAA
1 GGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
15598126 CGAG
66 CGAG
15598130 GAGCTATATC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
79 43 0.74
80 15 0.26
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
GGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
CGAGTTGTTAAATCC
Found at i:15598141 original size:79 final size:80
Alignment explanation
Indices: 15597982--15598146 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 80
15597972 TACAAATTCT
* * * *
15597982 GGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTA
1 GGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
** *
15598047 CGAGTTGTTAAATCC
66 CGAGGAGCTAAATCC
* * * * * *
15598062 GGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAA
1 GGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
*
15598126 CGAGGAGCTATATCC
66 CGAGGAGCTAAATCC
15598141 -GGTTAA
1 GGGTTAA
15598147 ATCCCGAATG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 5 0.07
79 50 0.71
80 15 0.21
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
GGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
CGAGGAGCTAAATCC
Found at i:15605377 original size:80 final size:79
Alignment explanation
Indices: 15605293--15605464 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
15605283 GGACTAAGAT
* *
15605293 CCGAAGGCTTTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
15605357 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
15605373 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
15605438 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
15605452 CCGAAGGCATTTG
1 CCGAAGGCATTTG
15605465 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 38 0.49
80 36 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:15605444 original size:39 final size:39
Alignment explanation
Indices: 15605240--15605462 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
15605230 TTGAATGCTG
* * * * * *
15605240 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
15605280 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
15605319 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
15605360 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
15605400 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
15605439 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15605463 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 39 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:15605482 original size:79 final size:80
Alignment explanation
Indices: 15605320--15605497 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
15605310 AGATACAAAT
* * * *
15605320 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
15605385 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
15605400 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
15605464 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
15605479 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
15605498 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:15616018 original size:18 final size:18
Alignment explanation
Indices: 15615995--15616032 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15615985 CTTTTTGGGG
**
15615995 AATTTTAAGGAGAAAAGA
1 AATTTTAAAAAGAAAAGA
15616013 AATTTTAAAAAGAAAAGA
1 AATTTTAAAAAGAAAAGA
15616031 AA
1 AA
15616033 AGAAAATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (18 bp):
AATTTTAAAAAGAAAAGA
Found at i:15620425 original size:38 final size:38
Alignment explanation
Indices: 15620382--15620576 Score: 264
Period size: 38 Copynumber: 5.1 Consensus size: 38
15620372 TTAAGCTCGA
* * * *
15620382 ATATAATATCAGCACTAAGCCTACGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * * * *
15620420 ATATAATACTAGCACTAAACTTGCGGAATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * ** *
15620458 ATATAATACCAGCACGAAGCATGCAGGATAAAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
15620496 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
15620534 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
15620572 ATATA
1 ATATA
15620577 CATCAAATAT
Statistics
Matches: 136, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 136 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:15620471 original size:76 final size:76
Alignment explanation
Indices: 15620349--15620576 Score: 269
Period size: 76 Copynumber: 3.0 Consensus size: 76
15620339 GAATCCAGTC
* * * * * *
15620349 ACCAGCAC-AGAACCTGCAGAACTTTAAGCTCGAATATAATATCAGCACTAAGCCTACGGGATTT
1 ACCAGCACGA-AACCTGCGGAA-TTTAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
*
15620413 AACCCAGATATAAT
63 AACCCGGATATAAT
* * * * * **
15620427 ACTAGCACTAAACTTGCGGAATTTAACCCGGATATAATACCAGCACGAAGCATGCAGGATAAAAC
1 ACCAGCACGAAACCTGCGGAATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
*
15620492 CTGGATATAAT
66 CCGGATATAAT
* *
15620503 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
1 ACCAGCACGAAACCTGCGGAATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
15620568 CCGGATATA
66 CCGGATATA
15620577 CATCAAATAT
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
76 103 0.82
77 5 0.04
78 16 0.13
79 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (76 bp):
ACCAGCACGAAACCTGCGGAATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
CCGGATATAAT
Found at i:15629140 original size:27 final size:25
Alignment explanation
Indices: 15629091--15629140 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
15629081 TCTAAAATAC
*
15629091 AATTTTTTTCTATTTGGTCACTCTA
1 AATTTTTTTCTATTTAGTCACTCTA
*
15629116 AATTTTTTTCTCAATTTAGTTACTC
1 AATTTTTTTCT--ATTTAGTCACTC
15629141 CAGATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
27 10 0.48
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (25 bp):
AATTTTTTTCTATTTAGTCACTCTA
Found at i:15629814 original size:25 final size:24
Alignment explanation
Indices: 15629765--15629817 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
15629755 ATTAATATTC
*
15629765 TTAATATTTTATTTTAAAAATTATA
1 TTAATATTTTA-TATAAAAATTATA
15629790 TTAATATTTTA-ATAATAAATATATA
1 TTAATATTTTATATAA-AAAT-TATA
15629815 TTA
1 TTA
15629818 CAATTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 4 0.16
25 18 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAATATTTTATATAAAAATTATA
Found at i:15633338 original size:23 final size:24
Alignment explanation
Indices: 15633312--15633379 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 24
15633302 GATGGATTAT
15633312 ATTATTA-TGGTGTGTTTGGGAGG
1 ATTATTACTGGTGTGTTTGGGAGG
*
15633335 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--TACTGGTGTGTTTGGGAGG
15633363 ATTA-TACTGGTGTGTTT
1 ATTATTACTGGTGTGTTT
15633380 TGGTTGGACA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
23 14 0.36
24 1 0.03
25 3 0.08
26 2 0.05
27 3 0.08
28 16 0.41
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (24 bp):
ATTATTACTGGTGTGTTTGGGAGG
Found at i:15633338 original size:28 final size:28
Alignment explanation
Indices: 15633285--15633368 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
15633275 CACTTTGTGC
*
15633285 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTATGGTGTGTTTTGGA-GGATTATAT
*
15633314 TATTATGGTGTGTTTGGGAGGATTATAT
1 TATTATGGTGTGTTTTGGAGGATTATAT
*
15633342 GA-TACTGGTGTGTTTTGGAGGATTATA
1 TATTA-TGGTGTGTTTTGGAGGATTATA
15633369 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.04
28 31 0.62
29 17 0.34
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTATGGTGTGTTTTGGAGGATTATAT
Found at i:15633620 original size:21 final size:21
Alignment explanation
Indices: 15633585--15633721 Score: 186
Period size: 21 Copynumber: 6.5 Consensus size: 21
15633575 AGGCACTTTA
*
15633585 TGTGTCGTATTTCAGGCACCTTG
1 TGTGTCGTA--TCAGGCACCTCG
15633608 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
15633629 TGTGTCGTTTCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
15633650 TGTGTCGTTTCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
15633671 TGTGTCGTTTCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
15633692 TGTGTCGTTTCAGGCA-CTTT
1 TGTGTCGTATCAGGCACCTCG
15633712 TGTGTCGTAT
1 TGTGTCGTAT
15633722 ACTGATCAGG
Statistics
Matches: 109, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
20 11 0.10
21 89 0.82
23 9 0.08
ACGTcount: A:0.11, C:0.25, G:0.28, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:15633653 original size:42 final size:42
Alignment explanation
Indices: 15633585--15633708 Score: 212
Period size: 42 Copynumber: 2.9 Consensus size: 42
15633575 AGGCACTTTA
* *
15633585 TGTGTCGTATTTCAGGCACCTTGTGTGTCGTATCAGGCACCTCG
1 TGTGTCG--TTTCAGGCACCTCGTGTGTCGTTTCAGGCACCTCG
15633629 TGTGTCGTTTCAGGCACCTCGTGTGTCGTTTCAGGCACCTCG
1 TGTGTCGTTTCAGGCACCTCGTGTGTCGTTTCAGGCACCTCG
15633671 TGTGTCGTTTCAGGCACCTCGTGTGTCGTTTCAGGCAC
1 TGTGTCGTTTCAGGCACCTCGTGTGTCGTTTCAGGCAC
15633709 TTTTGTGTCG
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
42 71 0.91
44 7 0.09
ACGTcount: A:0.11, C:0.27, G:0.28, T:0.34
Consensus pattern (42 bp):
TGTGTCGTTTCAGGCACCTCGTGTGTCGTTTCAGGCACCTCG
Found at i:15633674 original size:63 final size:64
Alignment explanation
Indices: 15633585--15633708 Score: 214
Period size: 63 Copynumber: 1.9 Consensus size: 64
15633575 AGGCACTTTA
*
15633585 TGTGTCGTATTTCAGGCACCTTGTGTGTCGTATCAGGCACCTCGTGTGTCGTTTCAGGCACCTCG
1 TGTGTCG-ATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTTTCAGGCACCTCG
*
15633650 TGTGTCG-TTTCAGGCACCTCGTGTGTCGTTTCAGGCACCTCGTGTGTCGTTTCAGGCAC
1 TGTGTCGATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTTTCAGGCAC
15633709 TTTTGTGTCG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
63 50 0.88
65 7 0.12
ACGTcount: A:0.11, C:0.27, G:0.28, T:0.34
Consensus pattern (64 bp):
TGTGTCGATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTTTCAGGCACCTCG
Found at i:15634853 original size:46 final size:46
Alignment explanation
Indices: 15634786--15634951 Score: 140
Period size: 46 Copynumber: 3.5 Consensus size: 46
15634776 ATTGACGGAA
* * *
15634786 AAGACCATGGTTGGACCATGGCATCAATGTGATATGTGATCTGTGT
1 AAGACCATAGTTGGGCTATGGCATCAATGTGATATGTGATCTGTGT
*
15634832 AAGACCATAGTTGGGCTATGGCATC-A-GAGATATGTGATTACGTGCTTCCGT
1 AAGACCATAGTTGGGCTATGGCATCAATGTGATATGTGA-T-C-TG--T--GT
* * * *
15634883 ATAGACCATATTTGGGATATGGCATCAGTGTGATATGTGAT-TCATGT
1 A-AGACCATAGTTGGGCTATGGCATCAATGTGATATGTGATCT-GTGT
* *
15634930 AAGACCATGGCTGGGCTATGGC
1 AAGACCATAGTTGGGCTATGGC
15634952 TACGGTGTGT
Statistics
Matches: 96, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
44 10 0.10
45 2 0.02
46 40 0.42
47 5 0.05
49 2 0.02
50 1 0.01
51 3 0.03
52 22 0.23
53 1 0.01
54 10 0.10
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
AAGACCATAGTTGGGCTATGGCATCAATGTGATATGTGATCTGTGT
Found at i:15641496 original size:7 final size:7
Alignment explanation
Indices: 15641484--15641551 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
15641474 AGGTTCACCC
15641484 TAAACCA
1 TAAACCA
15641491 TAAACCA
1 TAAACCA
15641498 TAAACCA
1 TAAACCA
*
15641505 TAAACCC
1 TAAACCA
15641512 TAAA-CA
1 TAAACCA
*
15641518 CTAAACCC
1 -TAAACCA
*
15641526 TAAAACCC
1 T-AAACCA
15641534 TAAATCC-
1 TAAA-CCA
*
15641541 TAAACCC
1 TAAACCA
15641548 TAAA
1 TAAA
15641552 TCCTCTAGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
6 3 0.06
7 40 0.75
8 10 0.19
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCA
Found at i:15641534 original size:22 final size:21
Alignment explanation
Indices: 15641480--15641551 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
15641470 CATAAGGTTC
* *
15641480 ACCCTAAACCATAAACCATAA
1 ACCCTAAACCCTAAACCCTAA
* *
15641501 ACCATAAACCCTAAACACTAA
1 ACCCTAAACCCTAAACCCTAA
*
15641522 ACCCTAAAACCCTAAATCCTAA
1 ACCCT-AAACCCTAAACCCTAA
15641544 ACCCTAAA
1 ACCCTAAA
15641552 TCCTCTAGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.56
22 19 0.44
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (21 bp):
ACCCTAAACCCTAAACCCTAA
Done.