Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 63 of 129
Found at i:9611677 original size:18 final size:18
Alignment explanation
Indices: 9611654--9611778 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
9611644 ATGGTTATTA
9611654 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
9611672 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
*
9611693 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
9611712 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* * *
9611729 TCTACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
9611747 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
9611762 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
9611779 AAGAACAAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 55 0.64
19 1 0.01
21 17 0.20
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.28
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:9611684 original size:21 final size:21
Alignment explanation
Indices: 9611658--9611700 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9611648 TTATTATCCA
*
9611658 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
9611679 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
9611700 C
1 C
9611701 AAATGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:9612170 original size:6 final size:6
Alignment explanation
Indices: 9612159--9612186 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9612149 ATAAGAGTTT
9612159 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
9612187 TACATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:9619721 original size:358 final size:356
Alignment explanation
Indices: 9619030--9620001 Score: 1202
Period size: 358 Copynumber: 2.7 Consensus size: 356
9619020 TATAACAATT
* ** *
9619030 TATTGAAGTCAGTTTATAATAAAAGACGCTTTTAATAATCCGTGAAATTTTTTTGAGAAAAATTA
1 TATTGAAGGCAGTTTATAATAAAAGACGC-TTTAATAATCCACGAAATTTTTTTAAGAAAAATTA
* * * *
9619095 TTGAAGGCGTTGTTTTCTGTAGCCGCCTTCAGTTATTATCCACAAACTATGATAGGAATTATTAA
65 TTGAAGGCGTTGTTTTCTGCA-ACGCCTTCAGTTATTATCTACAAACTATGATAGAAATTATTAA
*
9619160 AGGCATCTTTCTTAGATGTACGCCTTTAATAACAGTGTTAGAATTTGTGTTGTGACGGTTTTATT
129 AGGCATCTTTCTTAGATGTACGCCTTTAATAACAGTGTTAGAATTTGTG-TG-G-CGG-TATA-T
* * * * *
9619225 AGAA-GTATTTTACAATAGAAGATACCTTTAATAATTCTCAACATATTTAGTGG-AAAATTTTGA
189 AGAAGGTATTTTACAGTAGAAGACACCTTTAATAATTCACAAAATATTTAGTGGAAAAATTTTAA
*** * * *
9619288 AGGTGTCTGTATTAAACAAACGCCTTTTAGTAATGGATTACTAAGTTTAAATGTATATTGAAGGC
254 AGACATCTGTATTAAACAAACGCCTTTCAATAATGGATTACTAAGTTTAAAGGTATATTGAAGGC
** *
9619353 TCTTTTTCTAATAAATGCCTTCTATTACCATCGTGGTA
319 TCTTTTTCTAATAAACACCTTCCATTACCATCGTGGTA
* * *
9619391 TATTGAAGGCGGTTTATAATAAAAGGCGTCTTTAATAATCTACGAAATTTTTTTAAGAAAAATTA
1 TATTGAAGGCAGTTTATAATAAAAGACG-CTTTAATAATCCACGAAATTTTTTTAAGAAAAATTA
* * * * * *
9619456 TTGGAGGTGTTGTTTTTTGCAATCGCCTTCAATTATTATCTATAAAACTGTGATAGAAATTATTA
65 TTGAAGGCGTTGTTTTCTGCAA-CGCCTTCAGTTATTATCTA-CAAACTATGATAGAAATTATTA
* ** * * * * *
9619521 AAAGTGTCTTTCATGGATGTACACCTTCAATAATAGTGTTAGAATTTGTGTGGCGGTATATAGAA
128 AAGGCATCTTTCTTAGATGTACGCCTTTAATAACAGTGTTAGAATTTGTGTGGCGGTATATAGAA
* * *
9619586 GGTATTTTACAGTAGAAGACGCCTTTAATAATTCCCAAAATATGTAGTGGAAAAATTTTAAAGAC
193 GGTATTTTACAGTAGAAGACACCTTTAATAATTCACAAAATATTTAGTGGAAAAATTTTAAAGAC
* * *
9619651 ATTTGTTATT-AACAAATGCC-TTCAATAATGGATTACTAAGTTTATAGGTATATTGAAGGCATC
258 ATCTG-TATTAAACAAACGCCTTTCAATAATGGATTACTAAGTTTAAAGGTATATTGAAGGC-TC
9619714 -TTTTCTAATAAACACCTTCCATTACCATCGTGGTA
321 TTTTTCTAATAAACACCTTCCATTACCATCGTGGTA
* * * *
9619749 TATTAAAGGCAGTTTATAATAAAAGAAAC-CTTTAAAAATCCACAAAAATTTTTTGAA-AAAAAT
1 TATTGAAGGCAGTTTATAATAAAAG--ACGCTTTAATAATCCAC-GAAATTTTTTTAAGAAAAAT
* * *
9619812 TATTGAAGGCGTTGTTTTCTACAACTGCCTTTAGTTATTGTCTACAAACTATGATAGAAATTATT
63 TATTGAAGGCGTTGTTTTCTGCAAC-GCCTTCAGTTATTATCTACAAACTATGATAGAAATTATT
* * * * *
9619877 AAAGGCATCTATCTTAAATATACGCCTTTAATAACAGTGTTAGAATTTGTGTGACGGTATATAAA
127 AAAGGCATCTTTCTTAGATGTACGCCTTTAATAACAGTGTTAGAATTTGTGTGGCGGTATATAGA
* * *
9619942 AGGTATTTGACAGTAGAAGACACCTTTAATAATTCATAAAATATTTAGTGAAAAAATTTT
192 AGGTATTTTACAGTAGAAGACACCTTTAATAATTCACAAAATATTTAGTGGAAAAATTTT
9620002 GAAGGTGTCT
Statistics
Matches: 520, Mismatches: 80, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
357 131 0.25
358 190 0.37
359 39 0.08
360 6 0.01
361 92 0.18
362 62 0.12
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (356 bp):
TATTGAAGGCAGTTTATAATAAAAGACGCTTTAATAATCCACGAAATTTTTTTAAGAAAAATTAT
TGAAGGCGTTGTTTTCTGCAACGCCTTCAGTTATTATCTACAAACTATGATAGAAATTATTAAAG
GCATCTTTCTTAGATGTACGCCTTTAATAACAGTGTTAGAATTTGTGTGGCGGTATATAGAAGGT
ATTTTACAGTAGAAGACACCTTTAATAATTCACAAAATATTTAGTGGAAAAATTTTAAAGACATC
TGTATTAAACAAACGCCTTTCAATAATGGATTACTAAGTTTAAAGGTATATTGAAGGCTCTTTTT
CTAATAAACACCTTCCATTACCATCGTGGTA
Found at i:9620248 original size:296 final size:297
Alignment explanation
Indices: 9619703--9620326 Score: 910
Period size: 296 Copynumber: 2.1 Consensus size: 297
9619693 TATAGGTATA
* *
9619703 TTGAAGGCATCTTTTCTAATAAACACCTTCCATTACCATCGTGGTATATTAAAGGCAGTTTATAA
1 TTGAAGGCGTCTTTTCTAATAAACACCTTCCATTACCATCATGGTATATTAAAGGCAGTTTATAA
9619768 TAAAAGAAACCTTTAAAAATCCACAAAAATTTTTTGAAAAAAATTATTGAAGGCGTTGTTTTCTA
66 TAAAAGAAACCTTTAAAAATCCACAAAAATTTTTTGAAAAAAATTATTGAAGGCGTTGTTTTCTA
* * *
9619833 CAACTGCCTTTAGTTATTGTCTACAAACTATGATAGAAATTATTAAAGGCATCTATCTTAAATAT
131 CAACCGCCTTTAGTTATTATCTACAAACTATGATAAAAATTATTAAAGGCATCTATCTTAAATAT
* * * * *
9619898 ACGCCTTTAATAACAGTGTTAGAATTTGTGTGACGGTATATAAAAGGTATTTGACAGTAGAAGAC
196 ACGCCTTTAATAACAATGTTAAAATTTATGTGACAGTATATAAAAGGCATTTGACAGTAGAAGAC
9619963 ACCTTTAATAATTCAT-AAAATATTTAGTGAAAAAATT
261 ACCTTTAATAATT-ATCAAAATATTTAGTGAAAAAATT
* ** *
9620000 TTGAAGGTGTCTTTTCTAATAAATGCCTTCCATTACCATCATGGTATATTAAAGGCGGTTTATAA
1 TTGAAGGCGTCTTTTCTAATAAACACCTTCCATTACCATCATGGTATATTAAAGGCAGTTTATAA
** ** ** * *
9620065 TAAAAGACGCCTTTAAAAATCCA-TGAAATTTTTTGAGGAAAATTATTGAAGGTGTTGTTTTCTG
66 TAAAAGAAACCTTTAAAAATCCACAAAAATTTTTTGAAAAAAATTATTGAAGGCGTTGTTTTCTA
* * *
9620129 CAACCGCCTTTAGTTATTATCTACAAACTGTGATAAAAATTATTAAAGGCATTTATCTTAAATGT
131 CAACCGCCTTTAGTTATTATCTACAAACTATGATAAAAATTATTAAAGGCATCTATCTTAAATAT
* ** *
9620194 ACGTCTTTAATAACAATGTTAAAATTTATGTGGTAGTATATAGAAGGCATTTGACAGTAGAAGAC
196 ACGCCTTTAATAACAATGTTAAAATTTATGTGACAGTATATAAAAGGCATTTGACAGTAGAAGAC
* *
9620259 GCCTTTAATAATTTTCAAAATATTTAGTGAAAAAATT
261 ACCTTTAATAATTATCAAAATATTTAGTGAAAAAATT
** *
9620296 TTGAAGGCGTCTATTAGTAACAAACACCTTC
1 TTGAAGGCGTCT-TTTCTAATAAACACCTTC
9620327 ACTAATGGAT
Statistics
Matches: 288, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
295 1 0.00
296 194 0.67
297 93 0.32
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (297 bp):
TTGAAGGCGTCTTTTCTAATAAACACCTTCCATTACCATCATGGTATATTAAAGGCAGTTTATAA
TAAAAGAAACCTTTAAAAATCCACAAAAATTTTTTGAAAAAAATTATTGAAGGCGTTGTTTTCTA
CAACCGCCTTTAGTTATTATCTACAAACTATGATAAAAATTATTAAAGGCATCTATCTTAAATAT
ACGCCTTTAATAACAATGTTAAAATTTATGTGACAGTATATAAAAGGCATTTGACAGTAGAAGAC
ACCTTTAATAATTATCAAAATATTTAGTGAAAAAATT
Found at i:9629512 original size:3 final size:3
Alignment explanation
Indices: 9629504--9629551 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
9629494 TCCACCTCAG
9629504 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9629552 ATTTAATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9630882 original size:20 final size:20
Alignment explanation
Indices: 9630850--9630892 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
9630840 TTTTTCCAGT
*
9630850 CTTTCAGCATCCTTCTTCTC
1 CTTTCAGCATCCTTCTCCTC
9630870 CTTTCCAGC-TCCTTCTCCTC
1 CTTT-CAGCATCCTTCTCCTC
9630890 CTT
1 CTT
9630893 CAGTAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.07, C:0.44, G:0.05, T:0.44
Consensus pattern (20 bp):
CTTTCAGCATCCTTCTCCTC
Found at i:9632105 original size:38 final size:37
Alignment explanation
Indices: 9632048--9632437 Score: 271
Period size: 38 Copynumber: 10.5 Consensus size: 37
9632038 GGATGATACT
*
9632048 ACAAGCCAAAAAATAAAGAACATGACCAGGACAACACC
1 ACAAGTCAAAAAATAAAGAACATGACC-GGACAACACC
* * *
9632086 ACAAATCAAAAAATAAAGAACATGACCGAGATAACATC
1 ACAAGTCAAAAAATAAAGAACATGACCG-GACAACACC
* * * ** * * *
9632124 GCAAGTCATAAAATAAAAAACATGATTGGGATAAAATC
1 ACAAGTCAAAAAATAAAGAACATGA-CCGGACAACACC
* * * *
9632162 ATAAGTCATAAAATAAAAAATATGATCCGGACAACACC
1 ACAAGTCAAAAAATAAAGAACATGA-CCGGACAACACC
* * * *
9632200 ACAAGTTAGAAAATAAAGAATATGACCGAGACAATACC
1 ACAAGTCAAAAAATAAAGAACATGACCG-GACAACACC
* * *
9632238 ACAAGTC--AAAATAAAAAACATGACTGGGATAACACC
1 ACAAGTCAAAAAATAAAGAACATGAC-CGGACAACACC
* *
9632274 ACAAGTCAAAAAATAAAGAACATGGCCAAGACAACACC
1 ACAAGTCAAAAAATAAAGAACATGACC-GGACAACACC
* * *
9632312 AC-AGTCAAAAAAATATA-ACCA--A---GATAACACC
1 ACAAGTC-AAAAAATAAAGAACATGACCGGACAACACC
* * *
9632343 AAAAGTCAAAAAAATAAAGAACATGACTGGGACAACACT
1 ACAAGTC-AAAAAATAAAGAACATGAC-CGGACAACACC
* ** * *
9632382 ACAAGTCATAAAATAAAG-A-ATGATTGGGATAACATC
1 ACAAGTCAAAAAATAAAGAACATGA-CCGGACAACACC
*
9632418 ACAAGTCAAAAAATAGAGAA
1 ACAAGTCAAAAAATAAAGAA
9632438 TGATCGGTAA
Statistics
Matches: 282, Mismatches: 52, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
31 9 0.03
32 14 0.05
33 3 0.01
35 1 0.00
36 57 0.20
37 14 0.05
38 170 0.60
39 14 0.05
ACGTcount: A:0.55, C:0.18, G:0.13, T:0.14
Consensus pattern (37 bp):
ACAAGTCAAAAAATAAAGAACATGACCGGACAACACC
Found at i:9632243 original size:114 final size:112
Alignment explanation
Indices: 9632048--9632323 Score: 331
Period size: 114 Copynumber: 2.5 Consensus size: 112
9632038 GGATGATACT
* *
9632048 ACAAGCCAAAAAATAAAGAACATGACCAGGACAACACCACAAATCAAAAAATAAAGAACATGACC
1 ACAAGTCAAAAAATAAAAAACATGACCAGGACAACACCACAAATCAAAAAATAAAGAACATGACC
* * * * *
9632113 GAGATAACATCGCAAGTCATAAAATAAAAAACATGATTGGGATAAAATC
66 GAGACAACACCACAAGTC--AAAATAAAAAACATGACTGGGATAAAACC
* * * * * * *
9632162 ATAAGTCATAAAATAAAAAATATGATCC-GGACAACACCACAAGTTAGAAAATAAAGAATATGAC
1 ACAAGTCAAAAAATAAAAAACATGA-CCAGGACAACACCACAAATCAAAAAATAAAGAACATGAC
* *
9632226 CGAGACAATACCACAAGTCAAAATAAAAAACATGACTGGGATAACACC
65 CGAGACAACACCACAAGTCAAAATAAAAAACATGACTGGGATAAAACC
* * * *
9632274 ACAAGTCAAAAAATAAAGAACATGGCCAAGACAACACCAC-AGTCAAAAAA
1 ACAAGTCAAAAAATAAAAAACATGACCAGGACAACACCACAAATCAAAAAA
9632324 ATATAACCAA
Statistics
Matches: 136, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
111 10 0.07
112 57 0.42
114 67 0.49
115 2 0.01
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (112 bp):
ACAAGTCAAAAAATAAAAAACATGACCAGGACAACACCACAAATCAAAAAATAAAGAACATGACC
GAGACAACACCACAAGTCAAAATAAAAAACATGACTGGGATAAAACC
Found at i:9632275 original size:74 final size:75
Alignment explanation
Indices: 9632048--9632437 Score: 311
Period size: 76 Copynumber: 5.3 Consensus size: 75
9632038 GGATGATACT
* * *
9632048 ACAAGCCAAAAAATAAAGAACATGACC-AGGACAACACCACAAATCAAAAAATAAAGAACATGAC
1 ACAAGTCAAAAAATAAAGAACATGACCGA-GACAACACCACAAGTC-AAAAATAAAAAACATGAC
* * *
9632112 CGAGATAACATC
64 TGGGATAACACC
* * * ** * * * * * *
9632124 GCAAGTCATAAAATAAAAAACATGATTGGGATAAAATCATAAGTCATAAAATAAAAAATATGA-T
1 ACAAGTCAAAAAATAAAGAACATGACCGAGACAACACCACAAGTCA-AAAATAAAAAACATGACT
* *
9632188 CCGGACAACACC
65 -GGGATAACACC
* * * *
9632200 ACAAGTTAGAAAATAAAGAATATGACCGAGACAATACCACAAGTC-AAAATAAAAAACATGACTG
1 ACAAGTCAAAAAATAAAGAACATGACCGAGACAACACCACAAGTCAAAAATAAAAAACATGACTG
9632264 GGATAACACC
66 GGATAACACC
* * *
9632274 ACAAGTCAAAAAATAAAGAACATGGCCAAGACAACACCAC-AGTCAAAAA-AATATAACCA--A-
1 ACAAGTCAAAAAATAAAGAACATGACCGAGACAACACCACAAGTCAAAAATAA-A-AAACATGAC
9632334 ---GATAACACC
64 TGGGATAACACC
* * * * * *
9632343 AAAAGTCAAAAAAATAAAGAACATGACTGGGACAACACTACAAGTCATAAAAT-AAAGA-ATGAT
1 ACAAGTC-AAAAAATAAAGAACATGACCGAGACAACACCACAAGTCA-AAAATAAAAAACATGAC
*
9632406 TGGGATAACATC
64 TGGGATAACACC
*
9632418 ACAAGTCAAAAAATAGAGAA
1 ACAAGTCAAAAAATAAAGAA
9632438 TGATCGGTAA
Statistics
Matches: 245, Mismatches: 52, Indels: 36
0.74 0.16 0.11
Matches are distributed among these distances:
69 16 0.07
70 29 0.12
71 7 0.03
72 5 0.02
73 7 0.03
74 75 0.31
75 20 0.08
76 86 0.35
ACGTcount: A:0.55, C:0.18, G:0.13, T:0.14
Consensus pattern (75 bp):
ACAAGTCAAAAAATAAAGAACATGACCGAGACAACACCACAAGTCAAAAATAAAAAACATGACTG
GGATAACACC
Found at i:9632341 original size:31 final size:32
Alignment explanation
Indices: 9632299--9632358 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
9632289 AAGAACATGG
*
9632299 CCAAGACAACACC-ACAGTCAAAAAAATATAA
1 CCAAGACAACACCAAAAGTCAAAAAAATATAA
*
9632330 CCAAGATAACACCAAAAGTCAAAAAAATA
1 CCAAGACAACACCAAAAGTCAAAAAAATA
9632359 AAGAACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.10
Consensus pattern (32 bp):
CCAAGACAACACCAAAAGTCAAAAAAATATAA
Found at i:9632422 original size:36 final size:35
Alignment explanation
Indices: 9632334--9632441 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 35
9632324 ATATAACCAA
* *
9632334 GATAACACCAAAAGTCAAAAAAATAAAGAACATGACTGG
1 GATAACA-CACAAGTC-AAAAAATAAAG-A-ATGATTGG
* *
9632373 GACAACACTACAAGTCATAAAATAAAGAATGATTGG
1 GATAACAC-ACAAGTCAAAAAATAAAGAATGATTGG
*
9632409 GATAACATCACAAGTCAAAAAATAGAGAATGAT
1 GATAACA-CACAAGTCAAAAAATAAAGAATGAT
9632442 CGGTAATTCG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
36 35 0.58
37 2 0.03
38 11 0.18
39 12 0.20
ACGTcount: A:0.54, C:0.14, G:0.16, T:0.17
Consensus pattern (35 bp):
GATAACACACAAGTCAAAAAATAAAGAATGATTGG
Found at i:9632470 original size:35 final size:35
Alignment explanation
Indices: 9632428--9632497 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
9632418 ACAAGTCAAA
* * * * *
9632428 AAATAGAGAATGATCGGTAATTCGAGTTTATGTGC
1 AAATAGAGAATAACCAGTAATCCAAGTTTATGTGC
9632463 AAATAGAGAATAACCAGTAATCCAAGTTTATGTGC
1 AAATAGAGAATAACCAGTAATCCAAGTTTATGTGC
9632498 CAGCTAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (35 bp):
AAATAGAGAATAACCAGTAATCCAAGTTTATGTGC
Found at i:9632525 original size:23 final size:23
Alignment explanation
Indices: 9632490--9632552 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
9632480 TAATCCAAGT
* *
9632490 TTATGTGCCAGCTAATCTTAGGC
1 TTATATGCTAGCTAATCTTAGGC
* *
9632513 TTATATGCTAGCTAA-CCTGGGC
1 TTATATGCTAGCTAATCTTAGGC
*
9632535 TCATATG-TAAGCTAATCT
1 TTATATGCT-AGCTAATCT
9632553 AGGTTTGCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.03
22 17 0.53
23 14 0.44
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (23 bp):
TTATATGCTAGCTAATCTTAGGC
Found at i:9632932 original size:18 final size:18
Alignment explanation
Indices: 9632893--9632932 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9632883 ATTTTTTCAC
* *
9632893 AATGCAAATGTCAATGTA
1 AATGCAAAGGTCAATGCA
*
9632911 AATGCAAAGGTCAATGCG
1 AATGCAAAGGTCAATGCA
9632929 AATG
1 AATG
9632933 TTTAAAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (18 bp):
AATGCAAAGGTCAATGCA
Found at i:9632978 original size:69 final size:69
Alignment explanation
Indices: 9632834--9632978 Score: 229
Period size: 69 Copynumber: 2.1 Consensus size: 69
9632824 TTCCCATCAA
* * *
9632834 ATAATGTGAATGCAAATGTCAATGCGAATGCTTAAAGCATATATAAATGATTTTTTCACAATGCA
1 ATAATGTAAATGCAAAGGTCAATGCGAATGCTTAAAGCATATATAAATGACTTTTTCACAATGCA
9632899 AATG
66 AATG
* *
9632903 -TCAATGTAAATGCAAAGGTCAATGCGAATGTTTAAAGTATATATAAATGACTTTTTCACAATGC
1 AT-AATGTAAATGCAAAGGTCAATGCGAATGCTTAAAGCATATATAAATGACTTTTTCACAATGC
9632967 AAATG
65 AAATG
9632972 ATAATGT
1 ATAATGT
9632979 TCCTTTCATG
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
68 1 0.01
69 67 0.97
70 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (69 bp):
ATAATGTAAATGCAAAGGTCAATGCGAATGCTTAAAGCATATATAAATGACTTTTTCACAATGCA
AATG
Found at i:9633444 original size:41 final size:43
Alignment explanation
Indices: 9633346--9633444 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 43
9633336 AGTATGAATG
* * * *
9633346 TGAGTGATGCAAATGTGAATATCTTTTTTTTGTGATGTAAATG
1 TGAGTGATGCAAATGTGAATATCTTTTTTGTGTAATGCAAATA
* * ** *
9633389 TAAGTAATATAAATGTGAATGTC-TTTTTGT-TAATGCAAATA
1 TGAGTGATGCAAATGTGAATATCTTTTTTGTGTAATGCAAATA
9633430 TGAGTGATGCAAATG
1 TGAGTGATGCAAATG
9633445 CCCTTTTTTT
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
41 19 0.44
42 6 0.14
43 18 0.42
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (43 bp):
TGAGTGATGCAAATGTGAATATCTTTTTTGTGTAATGCAAATA
Found at i:9633573 original size:254 final size:256
Alignment explanation
Indices: 9633256--9633931 Score: 702
Period size: 260 Copynumber: 2.6 Consensus size: 256
9633246 AGCAAATGCA
* *
9633256 AGTGATGCAAATGCAAATGTCTTTCTTTTTTTTTGTGATATAGATG-TGAATACAAATGTCTTTC
1 AGTGATGCAAATGCAAATGTC---C---TTTTTTGTGATGTAGA-GCTGAAAACAAATGTCTTTC
* * * * * * *
9633320 TCATGATGTACATATAAGTATGAATGTGAGTGATGCAAATGTGAATATCTTTTTTTTGTGATGTA
59 TTATGATGCACACATAAGTACGAATATGAGTGATGCAAATATGAATATC-TTTTTTTATGATGTA
* ** **
9633385 AATGTAAGTAATATAAATGTGAATGTCTTTTTGTTAATGCAAATATGAGTGATGCAAATGCC-C-
123 AATGTAAGTGATGCAAATGTGAATGTCTTTTTGTTAATGCAAATATGAGTGACACAAATGCCTCT
* * * *
9633448 TTT-TTTTGTGATACATATGTGAATGCAAATATTTTTCTCATGACGTGA-ATGTAATTGATACAA
188 TTTATTTTATGATACAGATGTGAATGCAAATATTTTTCTCATGACGT-ACATGCAAGTGATACAA
9633511 ATACG
252 ATACG
* *
9633516 AGTGATGCAAATGCAAATGTCCTTTGTTGTGATGTAGAGCTGAAAACAAATGTCTTTCTTATAAT
1 AGTGATGCAAATGCAAATGTCCTTTTTTGTGATGTAGAGCTGAAAACAAATGTCTTTCTTATGAT
** *
9633581 GCACACATAAGTACGAATATGAGTGATGCAAATACAAATATCTTTTTTTATGATGTAGATGTAAG
66 GCACACATAAGTACGAATATGAGTGATGCAAATATGAATATCTTTTTTTATGATGTAAATGTAAG
* * * * * * *
9633646 TGATGGAAATGTGAAT-TTTTTTTGTTGATGTAGATGTGAGTGACACAAGTGCCTTCTTTTTTTT
131 TGATGCAAATGTGAATGTCTTTTTGTTAATGCAAATATGAGTGACACAAATGCC-TC----TTTT
* * * *
9633710 ATTTTATGATGCAGATGTGAATGCAAATGTTTTTCTCATGATGTACATGCAAGTGATACAAATGC
191 ATTTTATGATACAGATGTGAATGCAAATATTTTTCTCATGACGTACATGCAAGTGATACAAATAC
9633775 G
256 G
** ** * * * * * *
9633776 AGTGATAAAAATGTGAATTTTCTTTTTTGTGATGCAGAGC-CAAAAGCAAATATCTTTCTTTTGA
1 AGTGATGCAAATGCAAATGTCCTTTTTTGTGATGTAGAGCTGAAAA-CAAATGTCTTTCTTATGA
* * * ** *
9633840 TGCACACGTCAGTACGAATACGA-TGATGCAAATATGAATGCCTTTTTTTATGAAGTAAATGTAA
65 TGCACACATAAGTACGAATATGAGTGATGCAAATATGAATATCTTTTTTTATGATGTAAATGTAA
*
9633904 GTGATGCAAATGTAAATGTCTTTTTGTT
130 GTGATGCAAATGTGAATGTCTTTTTGTT
9633932 TTTGCAACAT
Statistics
Matches: 347, Mismatches: 57, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
252 29 0.08
253 35 0.10
254 72 0.21
257 1 0.00
259 58 0.17
260 152 0.44
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (256 bp):
AGTGATGCAAATGCAAATGTCCTTTTTTGTGATGTAGAGCTGAAAACAAATGTCTTTCTTATGAT
GCACACATAAGTACGAATATGAGTGATGCAAATATGAATATCTTTTTTTATGATGTAAATGTAAG
TGATGCAAATGTGAATGTCTTTTTGTTAATGCAAATATGAGTGACACAAATGCCTCTTTTATTTT
ATGATACAGATGTGAATGCAAATATTTTTCTCATGACGTACATGCAAGTGATACAAATACG
Found at i:9643316 original size:37 final size:37
Alignment explanation
Indices: 9643270--9643342 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
9643260 CAATAACTAA
*
9643270 CATGTAATTTATTTTATCAAAATAAAGTACCAACCAG
1 CATGCAATTTATTTTATCAAAATAAAGTACCAACCAG
*
9643307 CATGCAATTTATTTTATCAAAATAAAGTACTAACCA
1 CATGCAATTTATTTTATCAAAATAAAGTACCAACCA
9643343 ACAACATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (37 bp):
CATGCAATTTATTTTATCAAAATAAAGTACCAACCAG
Found at i:9643448 original size:26 final size:26
Alignment explanation
Indices: 9643399--9643448 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9643389 TGAAAAATTA
** *
9643399 AAATAAAAGGAATTAAATTAAATATC
1 AAATAAAACAAATTAAATCAAATATC
*
9643425 AAATAAAACAAATTAAATCCAATA
1 AAATAAAACAAATTAAATCAAATA
9643449 ATTATTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (26 bp):
AAATAAAACAAATTAAATCAAATATC
Found at i:9658365 original size:19 final size:19
Alignment explanation
Indices: 9658341--9658379 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9658331 TTAGCACTTA
9658341 TTCATGATTTTGCTTTAGT
1 TTCATGATTTTGCTTTAGT
9658360 TTCATGATTTTGCTTTAGT
1 TTCATGATTTTGCTTTAGT
9658379 T
1 T
9658380 ATATCTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.59
Consensus pattern (19 bp):
TTCATGATTTTGCTTTAGT
Found at i:9660589 original size:26 final size:24
Alignment explanation
Indices: 9660553--9660604 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
9660543 ATATAAGCTT
* *
9660553 TATAAAGTCTAAGTGAGTAAGCAA
1 TATAAAGTCTAAATCAGTAAGCAA
*
9660577 TATATAAGTTCTAAATCAGTGAGCAA
1 TATA-AAG-TCTAAATCAGTAAGCAA
9660603 TA
1 TA
9660605 CTCAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
26 16 0.70
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (24 bp):
TATAAAGTCTAAATCAGTAAGCAA
Found at i:9662774 original size:27 final size:30
Alignment explanation
Indices: 9662738--9662793 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
9662728 TATAAATTAT
9662738 AAAATGTAAA-AAATAAAAA-AGAATATAA
1 AAAATGTAAATAAATAAAAATAGAATATAA
* *
9662766 AAAAT-TAAATTAATAAAAATATAATATA
1 AAAATGTAAATAAATAAAAATAGAATATA
9662794 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 13 0.54
29 7 0.29
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (30 bp):
AAAATGTAAATAAATAAAAATAGAATATAA
Found at i:9663377 original size:16 final size:16
Alignment explanation
Indices: 9663358--9663397 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
9663348 ATTTTGCATA
*
9663358 TTAATTTTTTTATTTG
1 TTAATTTTTTTATTAG
9663374 TTAA--TTTTTATTAG
1 TTAATTTTTTTATTAG
9663388 TTAATTTTTT
1 TTAATTTTTT
9663398 ATTGATATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TTAATTTTTTTATTAG
Found at i:9669390 original size:17 final size:16
Alignment explanation
Indices: 9669370--9669430 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 16
9669360 CTAAAATATT
9669370 TTAAAAATTATACAAAA
1 TTAAAAATTATA-AAAA
**
9669387 TTAAAAAATAATATATAATT
1 TT-AAAAAT--TATA-AAAA
9669407 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
9669423 CTTAAAAA
1 -TTAAAAA
9669431 ATTCAGAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.06
17 13 0.37
18 6 0.17
19 6 0.17
20 8 0.23
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAAATTATAAAAA
Found at i:9669393 original size:18 final size:17
Alignment explanation
Indices: 9669372--9669433 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
9669362 AAAATATTTT
9669372 AAAAATTATACAAAATTA
1 AAAAATTATA-AAAATTA
* * *
9669390 AAAAATAATATATAATTTT
1 AAAAAT--TATAAAAATTA
9669409 AAAAATTATAAAAACTTA
1 AAAAATTATAAAAA-TTA
9669427 AAAAATT
1 AAAAATT
9669434 CAGAAATCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 6 0.17
18 15 0.43
19 10 0.29
20 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATTATAAAAATTA
Found at i:9669605 original size:19 final size:19
Alignment explanation
Indices: 9669583--9669623 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9669573 AATAAAAAAT
*
9669583 AAAATCTAAAATTTTTGAAA
1 AAAAT-TAAAATTTTTCAAA
*
9669603 AAAATTAAATTTTTTCAAA
1 AAAATTAAAATTTTTCAAA
9669622 AA
1 AA
9669624 TTGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTAAAATTTTTCAAA
Found at i:9669713 original size:9 final size:9
Alignment explanation
Indices: 9669682--9669712 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
9669672 ATTTATTATT
9669682 TTTTTGAAA
1 TTTTTGAAA
9669691 TTTTTGAAA
1 TTTTTGAAA
9669700 TTTTTG-AA
1 TTTTTGAAA
9669708 TTTTT
1 TTTTT
9669713 TATTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (9 bp):
TTTTTGAAA
Found at i:9669777 original size:18 final size:19
Alignment explanation
Indices: 9669756--9669831 Score: 52
Period size: 18 Copynumber: 4.1 Consensus size: 19
9669746 TAAAAGAAAA
*
9669756 TTTAAAT-TTTTATAATTT
1 TTTAAATATTTTAAAATTT
* *
9669774 TTTAGAATA-TTTCATA-TT
1 TTTA-AATATTTTAAAATTT
9669792 TTTAAAGTATTTTAAAATTT
1 TTTAAA-TATTTTAAAATTT
** *
9669812 CATATAT-TTTTAAAATTT
1 TTTAAATATTTTAAAATTT
9669830 TT
1 TT
9669832 AGCTTTAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
17 2 0.05
18 23 0.53
19 13 0.30
20 5 0.12
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTAAATATTTTAAAATTT
Found at i:9669792 original size:28 final size:26
Alignment explanation
Indices: 9669752--9669832 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 26
9669742 TTTTTAAAAG
9669752 AAAATTT-AA-ATTTTTATAATTTTTT
1 AAAATTTCAATATTTTTA-AATTTTTT
*
9669777 AGAATATTTC-ATATTTTTAAAGTATTTT
1 A-AA-ATTTCAATATTTTTAAA-TTTTTT
*
9669805 AAAATTTCATATATTTTTAAAATTTTT
1 AAAATTTCA-ATATTTTTAAATTTTTT
9669832 A
1 A
9669833 GCTTTAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 14 0.30
28 24 0.52
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
AAAATTTCAATATTTTTAAATTTTTT
Found at i:9669930 original size:17 final size:16
Alignment explanation
Indices: 9669892--9669930 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
9669882 TGTTCTTTGA
*
9669892 ATTTTAAGAAAATTTT
1 ATTTTAAAAAAATTTT
9669908 AGTTTTAAAAAAATTTT
1 A-TTTTAAAAAAATTTT
9669925 CATTTT
1 -ATTTT
9669931 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.90
18 1 0.05
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTTTAAAAAAATTTT
Found at i:9669997 original size:17 final size:16
Alignment explanation
Indices: 9669977--9670017 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
9669967 TTTTTGAATT
*
9669977 TTTTAAATTTTTATAAC
1 TTTTAAA-TTTTATAAA
9669994 TTTTATAATTTTATAAA
1 TTTTA-AATTTTATAAA
9670011 TTTTAAA
1 TTTTAAA
9670018 AAATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAATTTTATAAA
Found at i:9670905 original size:22 final size:23
Alignment explanation
Indices: 9670878--9670921 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9670868 TTTATAACAG
*
9670878 TTATTTT-AAAAAGTAAAAATAC
1 TTATTTTAAAAAAATAAAAATAC
9670900 TTATTTTAAAAAAATAAAAATA
1 TTATTTTAAAAAAATAAAAATA
9670922 TTAATCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
TTATTTTAAAAAAATAAAAATAC
Found at i:9671272 original size:42 final size:42
Alignment explanation
Indices: 9671225--9671310 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
9671215 AACTAATACA
*
9671225 TAATTTAATAATTAATACCTAATTAAGCCTAATCAATTACTC
1 TAATTTAATAATTAATACCTAATTAAGCCTAACCAATTACTC
*
9671267 TAATTTAATAATTAATGCCTAATTAAGCCTAACCAATTACTC
1 TAATTTAATAATTAATACCTAATTAAGCCTAACCAATTACTC
9671309 TA
1 TA
9671311 TTCCACAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (42 bp):
TAATTTAATAATTAATACCTAATTAAGCCTAACCAATTACTC
Found at i:9671700 original size:29 final size:29
Alignment explanation
Indices: 9671662--9671721 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
9671652 CGGATGTGTT
* * * *
9671662 TAATGATTTAGTGATGGGATGTAGATGTG
1 TAATGATTTAGTCATAGGATATAGACGTG
*
9671691 TAATGCTTTAGTCATAGGATATAGACGTG
1 TAATGATTTAGTCATAGGATATAGACGTG
9671720 TA
1 TA
9671722 CATATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.37
Consensus pattern (29 bp):
TAATGATTTAGTCATAGGATATAGACGTG
Found at i:9672437 original size:13 final size:13
Alignment explanation
Indices: 9672419--9672443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9672409 TCTTTAAATC
9672419 ATTATTTTTTATA
1 ATTATTTTTTATA
9672432 ATTATTTTTTAT
1 ATTATTTTTTAT
9672444 CTTCAATGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTATTTTTTATA
Found at i:9673262 original size:18 final size:19
Alignment explanation
Indices: 9673203--9673263 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 19
9673193 TATAGTATGA
9673203 TTTATTAGTAAAACATATATTT
1 TTTATTAGTAAAA-ATATA--T
** *
9673225 TTTATTTTTCAAAATA-AT
1 TTTATTAGTAAAAATATAT
9673243 TTTATTAGT-AAAATATAT
1 TTTATTAGTAAAAATATAT
9673261 TTT
1 TTT
9673264 TTTAAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 6 0.18
18 13 0.39
20 1 0.03
21 3 0.09
22 10 0.30
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTATTAGTAAAAATATAT
Found at i:9673264 original size:19 final size:20
Alignment explanation
Indices: 9673203--9673264 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 20
9673193 TATAGTATGA
9673203 TTTATTAGTAAAACATATATTT
1 TTTATTAGTAAAA-ATATA-TT
** *
9673225 TTTATTTTTCAAAATA-A-T
1 TTTATTAGTAAAAATATATT
9673243 TTTATTAGT-AAAATATATT
1 TTTATTAGTAAAAATATATT
9673262 TTT
1 TTT
9673265 TTAAATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
17 6 0.18
18 9 0.27
19 4 0.12
20 1 0.03
21 3 0.09
22 10 0.30
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTATTAGTAAAAATATATT
Found at i:9674014 original size:15 final size:16
Alignment explanation
Indices: 9673994--9674027 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9673984 TTAGTTTGAA
*
9673994 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
9674009 AATATAAAATAATTAT
1 AATATAAAATAATTAT
9674025 AAT
1 AAT
9674028 TTTAAGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:9675720 original size:19 final size:20
Alignment explanation
Indices: 9675693--9675734 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9675683 ATAAAGTTTT
9675693 TTTTATTTA-TTTCTATTAC
1 TTTTATTTATTTTCTATTAC
* *
9675712 TTTTCTTTATTTTCTTTTAC
1 TTTTATTTATTTTCTATTAC
9675732 TTT
1 TTT
9675735 CCTTCCCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATTTATTTTCTATTAC
Found at i:9676843 original size:32 final size:31
Alignment explanation
Indices: 9676782--9676849 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 31
9676772 ATAATGATTC
*
9676782 ATATATTAATATTATATAAAATATTAAAATTT
1 ATATATTAATATTATATAAAATATGAAAA-TT
* ***
9676814 ATATATTTATATTATATTTTATATGAAAATT
1 ATATATTAATATTATATAAAATATGAAAATT
9676845 ATATA
1 ATATA
9676850 ATATAGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 7 0.23
32 24 0.77
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
ATATATTAATATTATATAAAATATGAAAATT
Found at i:9676854 original size:18 final size:18
Alignment explanation
Indices: 9676782--9676854 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 18
9676772 ATAATGATTC
*
9676782 ATATATTAATATTATATA
1 ATATATTAAAATTATATA
*
9676800 AAATATTAAAATT-TAT-
1 ATATATTAAAATTATATA
* *
9676816 ATAT-TT-ATATTATATT
1 ATATATTAAAATTATATA
* *
9676832 TTATATGAAAATTATATA
1 ATATATTAAAATTATATA
9676850 ATATA
1 ATATA
9676855 GTTTATATCG
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
14 4 0.10
15 5 0.12
16 6 0.14
17 4 0.10
18 23 0.55
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (18 bp):
ATATATTAAAATTATATA
Found at i:9682996 original size:14 final size:13
Alignment explanation
Indices: 9682967--9683009 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
9682957 AGTCACCTTC
*
9682967 AAAA-AAAAAAAG
1 AAAATAAAAAAAT
9682979 AAAATAATAAAAAT
1 AAAATAA-AAAAAT
*
9682993 AAAATAAAATAAT
1 AAAATAAAAAAAT
9683006 AAAA
1 AAAA
9683010 CAAAGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
14 12 0.44
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:9682996 original size:19 final size:19
Alignment explanation
Indices: 9682968--9683009 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9682958 GTCACCTTCA
9682968 AAAAAAAAAAGAAAATAAT
1 AAAAAAAAAAGAAAATAAT
* *
9682987 AAAAATAAAATAAAATAAT
1 AAAAAAAAAAGAAAATAAT
9683006 AAAA
1 AAAA
9683010 CAAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAAAAAAGAAAATAAT
Found at i:9685328 original size:25 final size:26
Alignment explanation
Indices: 9685271--9685338 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 26
9685261 AATTTGAAAC
9685271 CCTAAACCTTAAAACCCTAAAACATA
1 CCTAAACCTTAAAACCCTAAAACATA
*
9685297 CCATAAACC-T-AAACCCTAAAATATA
1 CC-TAAACCTTAAAACCCTAAAACATA
*
9685322 TCCTAAACATTAAAACC
1 -CCTAAACCTTAAAACC
9685339 AACATTTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 19 0.53
26 6 0.17
27 11 0.31
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (26 bp):
CCTAAACCTTAAAACCCTAAAACATA
Found at i:9690759 original size:44 final size:44
Alignment explanation
Indices: 9690725--9690832 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 44
9690715 GTGGGGAAGT
* *
9690725 ATTTTATTTTTTCAAAAGTTTCAATTTGTCAGTTGTAAGGGAGC
1 ATTTTATTTTTTCAAAAGTTTCAATGTCTCAGTTGTAAGGGAGC
* *
9690769 ATTTTA-TTTTTCAAAAGTTTCTATGTCTCAGTTGTATGGGAGC
1 ATTTTATTTTTTCAAAAGTTTCAATGTCTCAGTTGTAAGGGAGC
* *
9690812 ATTTTATTTATCCAAAAGTTT
1 ATTTTATTTTTTCAAAAGTTT
9690833 TAAAGACTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 39 0.68
44 18 0.32
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (44 bp):
ATTTTATTTTTTCAAAAGTTTCAATGTCTCAGTTGTAAGGGAGC
Found at i:9691078 original size:3 final size:3
Alignment explanation
Indices: 9691064--9691107 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
9691054 AAAATATGTT
*
9691064 TTA TTCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9691108 AGGTTTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:9692613 original size:20 final size:21
Alignment explanation
Indices: 9692552--9692614 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
9692542 GATGAGTTTT
*
9692552 TTAATATATATTTGCAAGATT-
1 TTAA-ATATATTTGCATGATTA
* *
9692573 TTAAATATATGTACATGATTA
1 TTAAATATATTTGCATGATTA
9692594 TT-AATATATTTGCATGATTA
1 TTAAATATATTTGCATGATTA
9692614 T
1 T
9692615 ATATGCATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 30 0.83
21 6 0.17
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
TTAAATATATTTGCATGATTA
Found at i:9693249 original size:31 final size:31
Alignment explanation
Indices: 9693193--9693285 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
9693183 TTATGCTTAT
9693193 GCTTATCCTTTCCTTTCTTTTTCTTTTTTCTA
1 GCTTATCCTTTCCTTTC-TTTTCTTTTTTCTA
*
9693225 GTTTATCCTTTCCTTTCTTTTCTTTTTTCTA
1 GCTTATCCTTTCCTTTCTTTTCTTTTTTCTA
*
9693256 GCTTATCATTTCCTTTCTTTTCTTTTTTCT
1 GCTTATCCTTTCCTTTCTTTTCTTTTTTCT
9693286 TTTGATTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
31 42 0.72
32 16 0.28
ACGTcount: A:0.06, C:0.24, G:0.03, T:0.67
Consensus pattern (31 bp):
GCTTATCCTTTCCTTTCTTTTCTTTTTTCTA
Found at i:9694644 original size:12 final size:12
Alignment explanation
Indices: 9694627--9694661 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9694617 AGGTGGATTT
9694627 ATTAAACAGTTC
1 ATTAAACAGTTC
*
9694639 ATTAAACAGTTT
1 ATTAAACAGTTC
*
9694651 ATTAAATAGTT
1 ATTAAACAGTT
9694662 GAAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (12 bp):
ATTAAACAGTTC
Found at i:9694922 original size:321 final size:321
Alignment explanation
Indices: 9694340--9694962 Score: 1192
Period size: 321 Copynumber: 1.9 Consensus size: 321
9694330 TTTTTTCTCA
*
9694340 TGAAAAAATTAATATGATGAAATTATTGTATTACATGCCATTTTGGAAAAAGATCAGTTGCATGA
1 TGAAAAAATTAATATGATGAAATTACTGTATTACATGCCATTTTGGAAAAAGATCAGTTGCATGA
*
9694405 CCTACCTACTTGGAAGAAGCACTTTCTTTTCTATATGTATTCTATGCTGGATTTTTCCCTCTTGT
66 CCTACCTACTTGGAACAAGCACTTTCTTTTCTATATGTATTCTATGCTGGATTTTTCCCTCTTGT
9694470 TATTTTCTATCATGTGTGTGGTTAAATGTTATTCATGGAGAACCTACAAACTCATATTTAGCACA
131 TATTTTCTATCATGTGTGTGGTTAAATGTTATTCATGGAGAACCTACAAACTCATATTTAGCACA
9694535 TTTGCTTTACTCTGATTTATTCAGTTGATACGAAAGCATGTAATTGAATAGGCTTAGGTTGTACA
196 TTTGCTTTACTCTGATTTATTCAGTTGATACGAAAGCATGTAATTGAATAGGCTTAGGTTGTACA
9694600 TATACAACCCCAAACTAAGGTGGATTTATTAAACAGTTCATTAAACAGTTTATTAAATAGT
261 TATACAACCCCAAACTAAGGTGGATTTATTAAACAGTTCATTAAACAGTTTATTAAATAGT
9694661 TGAAAAAATTAATATGATGAAATTACTGTATTACATGCCATTTTGGAAAAAGATCAGTTGCATGA
1 TGAAAAAATTAATATGATGAAATTACTGTATTACATGCCATTTTGGAAAAAGATCAGTTGCATGA
*
9694726 CCTACCTACTTGGAACAAGCACTTTCTTTTCTATATGTATTCTATGCTGGATTTTTCCCTTTTGT
66 CCTACCTACTTGGAACAAGCACTTTCTTTTCTATATGTATTCTATGCTGGATTTTTCCCTCTTGT
* *
9694791 TATTTTTTATCATGTGTGTGGTTAAATGTTATTCATGGAGAACCTACAAACTCATATTTAGCATA
131 TATTTTCTATCATGTGTGTGGTTAAATGTTATTCATGGAGAACCTACAAACTCATATTTAGCACA
*
9694856 TTTGCTTTACTTTGATTTATTCAGTTGATACGAAAGCATGTAATTGAATAGGCTTAGGTTGTACA
196 TTTGCTTTACTCTGATTTATTCAGTTGATACGAAAGCATGTAATTGAATAGGCTTAGGTTGTACA
9694921 TATACAACCCCAAACTAAGGTGGATTTATTAAACAGTTCATT
261 TATACAACCCCAAACTAAGGTGGATTTATTAAACAGTTCATT
9694963 TTGTTGTTAA
Statistics
Matches: 296, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
321 296 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (321 bp):
TGAAAAAATTAATATGATGAAATTACTGTATTACATGCCATTTTGGAAAAAGATCAGTTGCATGA
CCTACCTACTTGGAACAAGCACTTTCTTTTCTATATGTATTCTATGCTGGATTTTTCCCTCTTGT
TATTTTCTATCATGTGTGTGGTTAAATGTTATTCATGGAGAACCTACAAACTCATATTTAGCACA
TTTGCTTTACTCTGATTTATTCAGTTGATACGAAAGCATGTAATTGAATAGGCTTAGGTTGTACA
TATACAACCCCAAACTAAGGTGGATTTATTAAACAGTTCATTAAACAGTTTATTAAATAGT
Found at i:9696670 original size:15 final size:16
Alignment explanation
Indices: 9696632--9696672 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
9696622 AAAGAAAAAT
*
9696632 AAAATAAAATAAATCA
1 AAAAGAAAATAAATCA
9696648 AAATAGAAAATAAA-CA
1 AAA-AGAAAATAAATCA
9696664 AAAAGAAAA
1 AAAAGAAAA
9696673 AGAATACCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 9 0.39
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAGAAAATAAATCA
Found at i:9696673 original size:16 final size:17
Alignment explanation
Indices: 9696637--9696672 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9696627 AAAATAAAAT
9696637 AAAATAAATCAAAATAG
1 AAAATAAATCAAAATAG
9696654 AAAATAAA-CAAAA-AG
1 AAAATAAATCAAAATAG
9696669 AAAA
1 AAAA
9696673 AGAATACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAATAAATCAAAATAG
Found at i:9697715 original size:5 final size:5
Alignment explanation
Indices: 9697698--9697777 Score: 54
Period size: 5 Copynumber: 14.8 Consensus size: 5
9697688 GAAAAAAAAC
* *
9697698 AAATA ATAATA AAATA AAATA AAATAA AAATA TAATATA ATATT AAATA
1 AAATA A-AATA AAATA AAATA AAAT-A AAATA -AA-ATA AAATA AAATA
* *
9697747 ATATTA AACCA-A AAATA CAATA AAATA AAAT
1 A-AATA AA--ATA AAATA AAATA AAATA AAAT
9697778 CTTTGTTATC
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
4 1 0.02
5 35 0.59
6 20 0.34
7 3 0.05
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (5 bp):
AAATA
Found at i:9697716 original size:21 final size:21
Alignment explanation
Indices: 9697698--9697739 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9697688 GAAAAAAAAC
*
9697698 AAATAATAATAAAATAAAATA
1 AAATAAAAATAAAATAAAATA
* *
9697719 AAATAAAAATATAATATAATA
1 AAATAAAAATAAAATAAAATA
9697740 TTAAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATAAAAATAAAATAAAATA
Found at i:9704676 original size:2 final size:2
Alignment explanation
Indices: 9704671--9704707 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9704661 TTAACCCCAA
9704671 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9704708 ACAGGACGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9713148 original size:71 final size:71
Alignment explanation
Indices: 9713041--9713173 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
9713031 AGGGCAAAAT
* *
9713041 AATATATACTCTTATTTTATTATTGTCACATTATAAAGAACAAAGGGTTGAATAAAAACCTATAA
1 AATATATACTCTTAGTTTATTATTGCCACATTATAAAGAACAAAGGGTTGAATAAAAACCTATAA
9713106 AGGGCA
66 AGGGCA
* * *
9713112 AATATATACTCTTAGTTTATTATTGCCACATTATAAAGAGCAAAGGGTTGAGTAGAAACCTA
1 AATATATACTCTTAGTTTATTATTGCCACATTATAAAGAACAAAGGGTTGAATAAAAACCTA
9713174 GCTACTAGAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (71 bp):
AATATATACTCTTAGTTTATTATTGCCACATTATAAAGAACAAAGGGTTGAATAAAAACCTATAA
AGGGCA
Found at i:9719162 original size:98 final size:98
Alignment explanation
Indices: 9719047--9719236 Score: 317
Period size: 98 Copynumber: 1.9 Consensus size: 98
9719037 AACAACTCTC
*
9719047 AACTTTACTTAAGACAAATTGAGATATCATAATAAGTCTAAAACTTTCTTGTGTAAAAGCTAACT
1 AACTTTACTTAAGACAAATTGAGATATCATAATAAGTCTAAAACTTTCTTGTGTAAAAGCTAACC
*
9719112 CACTTGGTTATCATAAGACACTATACACCTTTT
66 CACTTGGCTATCATAAGACACTATACACCTTTT
**
9719145 AACTTTACTTAAGACAAATTGAGATATCATAATAAGTCTAAAACTTTCTTGTGTGGAAGCTAACC
1 AACTTTACTTAAGACAAATTGAGATATCATAATAAGTCTAAAACTTTCTTGTGTAAAAGCTAACC
** *
9719210 CTTTTGGCTATTATAAGACACTATACA
66 CACTTGGCTATCATAAGACACTATACA
9719237 ATAAATATGT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (98 bp):
AACTTTACTTAAGACAAATTGAGATATCATAATAAGTCTAAAACTTTCTTGTGTAAAAGCTAACC
CACTTGGCTATCATAAGACACTATACACCTTTT
Found at i:9720686 original size:9 final size:9
Alignment explanation
Indices: 9720672--9720705 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9720662 TTATCCTGTA
9720672 TTTTTTTTC
1 TTTTTTTTC
9720681 TTTTTTTTTC
1 -TTTTTTTTC
*
9720691 TCTTTTTTC
1 TTTTTTTTC
9720700 TTTTTT
1 TTTTTT
9720706 GTATATCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:9720770 original size:3 final size:3
Alignment explanation
Indices: 9720757--9720814 Score: 82
Period size: 3 Copynumber: 18.7 Consensus size: 3
9720747 ATGTATATAG
9720757 TTA TATA TTA TTA -TA TTA TTA TTA TTA TTTA TTTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA
9720804 TTA TTA TTA TT
1 TTA TTA TTA TT
9720815 TTTAATCTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.77
4 10 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9721310 original size:31 final size:31
Alignment explanation
Indices: 9721275--9721341 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
9721265 AATTTCCAGA
*
9721275 TTCCGGCGAA-AATTCCGACGAA-ATTTGAATT
1 TTCCGGC-AACAATTCCGACGAACA-TTGAAGT
*
9721306 TTCCGGCAACAATTCCGGCGAACATTGAAGT
1 TTCCGGCAACAATTCCGACGAACATTGAAGT
9721337 TTCCG
1 TTCCG
9721342 ATGACCTGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 29 0.91
32 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (31 bp):
TTCCGGCAACAATTCCGACGAACATTGAAGT
Found at i:9721814 original size:6 final size:6
Alignment explanation
Indices: 9721793--9721877 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
9721783 TCTCATATTC
* * *
9721793 TTTTTA TCTTTA -TTTTA TTTTTTA TTTCT- GTTTTA CTTTTCT- TTATTTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA -TTTT-TA TT-TTTA
* *
9721842 TTTTTA TTTTTA TTTATC TTTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TT-TA TTTT
9721878 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
5 7 0.12
6 32 0.53
7 16 0.27
8 5 0.08
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:9721857 original size:16 final size:15
Alignment explanation
Indices: 9721829--9721877 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
9721819 TCTGTTTTAC
*
9721829 TTTTCTTTATTTATT
1 TTTTTTTTATTTATT
*
9721844 TTTATTTTTATTTATC
1 TTT-TTTTTATTTATT
*
9721860 TTTTTATTATTCTATT
1 TTTTTTTTATT-TATT
9721876 TT
1 TT
9721878 CTTTAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTATTTATT
Found at i:9721970 original size:15 final size:15
Alignment explanation
Indices: 9721950--9721979 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9721940 ATTTTCCTTA
9721950 AAAAAAAAAATTTTC
1 AAAAAAAAAATTTTC
*
9721965 AAAAAAAATATTTTC
1 AAAAAAAAAATTTTC
9721980 GGGGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAAAAAATTTTC
Found at i:9721977 original size:61 final size:61
Alignment explanation
Indices: 9721893--9722140 Score: 324
Period size: 59 Copynumber: 4.1 Consensus size: 61
9721883 AATAAAAATG
*
9721893 AAAAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAA
1 AAAAATTTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAA
* * *
9721955 AAAAATTTTCAAAAAAAATATTTTCGGGGAAAAATTGAAAGTATCAATTTTCCTT--AGAA
1 AAAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAA
* ** * * *
9722014 ATAAATTTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAA
** *
9722075 CGAAATTTTC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTACACAAAA
1 AAAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA-A-AAAA
9722136 AAAAA
1 AAAAA
9722141 ATCATTATTT
Statistics
Matches: 160, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
59 91 0.57
60 1 0.01
61 58 0.36
62 10 0.06
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (61 bp):
AAAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAA
Found at i:9724188 original size:22 final size:21
Alignment explanation
Indices: 9724146--9724190 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9724136 TGTCTTCCGA
*
9724146 AAAAAAAAAAAAAACTACCAC
1 AAAAAAAAAAAAAACAACCAC
* *
9724167 AAAAAATAAAAAACCAAGCCAC
1 AAAAAAAAAAAAAACAA-CCAC
9724189 AA
1 AA
9724191 TATAGTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.73, C:0.20, G:0.02, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAAAAACAACCAC
Found at i:9725166 original size:33 final size:32
Alignment explanation
Indices: 9725129--9725192 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
9725119 TTAAGAATTA
*
9725129 AAAATTAAAAATAATTAAA-AAATTTTCTTTCAC
1 AAAATT-AAAATAA-TAAATAAAATTTCTTTCAC
*
9725162 AAAATTGAAATAATAAATAAAATTTCTTTCA
1 AAAATTAAAATAATAAATAAAATTTCTTTCA
9725193 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
32 18 0.64
33 6 0.21
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (32 bp):
AAAATTAAAATAATAAATAAAATTTCTTTCAC
Found at i:9725473 original size:24 final size:24
Alignment explanation
Indices: 9725444--9725502 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
9725434 GAAAAACTTG
9725444 AAACCTTAAAATCCTAAGATCCTA
1 AAACCTTAAAATCCTAAGATCCTA
*
9725468 AAACCTTAAAATTCTAAGATCCTA
1 AAACCTTAAAATCCTAAGATCCTA
*
9725492 AAACCCTAAAA
1 AAACCTTAAAA
9725503 CCATCAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (24 bp):
AAACCTTAAAATCCTAAGATCCTA
Found at i:9725499 original size:8 final size:8
Alignment explanation
Indices: 9725444--9725682 Score: 67
Period size: 8 Copynumber: 30.4 Consensus size: 8
9725434 GAAAAACTTG
*
9725444 AAACCTTA
1 AAACCCTA
*
9725452 AAATCCTA
1 AAACCCTA
* *
9725460 AGATCCTA
1 AAACCCTA
*
9725468 AAACCTTA
1 AAACCCTA
**
9725476 AAATTCTA
1 AAACCCTA
* *
9725484 AGATCCTA
1 AAACCCTA
9725492 AAACCCTA
1 AAACCCTA
* *
9725500 AAACCATC
1 AAACCCTA
*
9725508 AAACCTTA
1 AAACCCTA
* *
9725516 GAACCTTA
1 AAACCCTA
9725524 AAACTCCT-
1 AAAC-CCTA
*
9725532 AAACCTTA
1 AAACCCTA
***
9725540 AAAAATTA
1 AAACCCTA
* *
9725548 AAGCCTTA
1 AAACCCTA
* *
9725556 AAACCTTC
1 AAACCCTA
* *
9725564 AAATCCTG
1 AAACCCTA
* *
9725572 AAACCTTG
1 AAACCCTA
*
9725580 AATCCCTA
1 AAACCCTA
* *
9725588 AAACCTTG
1 AAACCCTA
*
9725596 AAACTCTA
1 AAACCCTA
*
9725604 AAACACTA
1 AAACCCTA
* *
9725612 AAACCTTG
1 AAACCCTA
*
9725620 AAACCAT-
1 AAACCCTA
* *
9725627 ACACCTTA
1 AAACCCTA
*
9725635 AAACACTA
1 AAACCCTA
* *
9725643 AATCCCTG
1 AAACCCTA
9725651 AAA-CCTCA
1 AAACCCT-A
9725659 AAACCCTA
1 AAACCCTA
9725667 AAA--C-A
1 AAACCCTA
9725672 AAACCCTA
1 AAACCCTA
9725680 AAA
1 AAA
9725683 ACTTGACCTA
Statistics
Matches: 166, Mismatches: 57, Indels: 16
0.69 0.24 0.07
Matches are distributed among these distances:
5 4 0.02
6 1 0.01
7 11 0.07
8 145 0.87
9 5 0.03
ACGTcount: A:0.47, C:0.28, G:0.04, T:0.21
Consensus pattern (8 bp):
AAACCCTA
Found at i:9725527 original size:16 final size:15
Alignment explanation
Indices: 9725508--9725638 Score: 77
Period size: 16 Copynumber: 8.3 Consensus size: 15
9725498 TAAAACCATC
9725508 AAACCTTAGAACCTTA
1 AAACCTTA-AACCTTA
*
9725524 AAACTCCTAAACCTTA
1 AAAC-CTTAAACCTTA
**
9725540 AAAAATTAAAGCCTTA
1 AAACCTTAAA-CCTTA
*
9725556 AAACCTTCAAATCC-TG
1 AAACCTT-AAA-CCTTA
* *
9725572 AAACCTTGAATCCCTA
1 AAACCTT-AAACCTTA
9725588 AAACCTTGAAA-CTCTA
1 AAACCTT-AAACCT-TA
* *
9725604 AAACACTAAAACCTTG
1 AAAC-CTTAAACCTTA
* *
9725620 AAACCATACACCTTA
1 AAACCTTAAACCTTA
9725635 AAAC
1 AAAC
9725639 ACTAAATCCC
Statistics
Matches: 89, Mismatches: 19, Indels: 15
0.72 0.15 0.12
Matches are distributed among these distances:
15 18 0.20
16 59 0.66
17 12 0.13
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.23
Consensus pattern (15 bp):
AAACCTTAAACCTTA
Found at i:9725597 original size:24 final size:25
Alignment explanation
Indices: 9725585--9725670 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 25
9725575 CCTTGAATCC
9725585 CTAAAACCTTGAAA-CTCTAAAACA
1 CTAAAACCTTGAAACCTCTAAAACA
9725609 CTAAAACCTTGAAACCATACACCTTAAAACA
1 CTAAAACCTTGAAACC-T----C-TAAAACA
* * *
9725640 CTAAATCCCTGAAACCTC-AAAACC
1 CTAAAACCTTGAAACCTCTAAAACA
9725664 CTAAAAC
1 CTAAAAC
9725671 AAAACCCTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
24 25 0.49
25 1 0.02
26 2 0.04
30 2 0.04
31 21 0.41
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.19
Consensus pattern (25 bp):
CTAAAACCTTGAAACCTCTAAAACA
Found at i:9725675 original size:13 final size:13
Alignment explanation
Indices: 9725657--9725682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9725647 CCTGAAACCT
9725657 CAAAACCCTAAAA
1 CAAAACCCTAAAA
9725670 CAAAACCCTAAAA
1 CAAAACCCTAAAA
9725683 ACTTGACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAACCCTAAAA
Found at i:9731438 original size:33 final size:30
Alignment explanation
Indices: 9731401--9731488 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 30
9731391 TCAAGTATAT
9731401 AACCAAAATCTAAACAAATTTCAACAAACATAA
1 AACCAAAA-C-AAA-AAATTTCAACAAACATAA
9731434 AACC--AAC-AAAAATTTCAACAAACATAA
1 AACCAAAACAAAAAATTTCAACAAACATAA
*
9731461 AACCAAAACCCAAATAAATTTCATCAAA
1 AACCAAAA--CAAA-AAATTTCAACAAA
9731489 TAATTAACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
27 22 0.46
28 2 0.04
29 2 0.04
30 1 0.02
31 3 0.06
32 2 0.04
33 16 0.33
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (30 bp):
AACCAAAACAAAAAATTTCAACAAACATAA
Found at i:9734132 original size:49 final size:48
Alignment explanation
Indices: 9734054--9734160 Score: 119
Period size: 50 Copynumber: 2.2 Consensus size: 48
9734044 AAGTTTGTAA
* *
9734054 AAAAAAAAAGCAAAAAAGAAAGAGGAGTCTGT-TGAAAGAAAAAAAAAG
1 AAAAAAAAAGCAAAAAAGAAAGAGAAGTCTATATGAAA-AAAAAAAAAG
* **
9734102 AAAAAAAATGCAAAAAATGATAAG-GAAGTCTATCATGAAAAAGGAAAAAG
1 AAAAAAAAAGCAAAAAA-GA-AAGAGAAGTCTAT-ATGAAAAAAAAAAAAG
9734152 AAAAAAAAA
1 AAAAAAAAA
9734161 AGAGAAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
48 16 0.33
49 9 0.18
50 19 0.39
51 5 0.10
ACGTcount: A:0.67, C:0.05, G:0.18, T:0.10
Consensus pattern (48 bp):
AAAAAAAAAGCAAAAAAGAAAGAGAAGTCTATATGAAAAAAAAAAAAG
Found at i:9734431 original size:52 final size:53
Alignment explanation
Indices: 9734375--9734488 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 53
9734365 GATTAACTAT
* *
9734375 CACCCATATA-TTAAGCCCAGTTTAG-TAGACACTTTAAGCCTAGATTAGCTGG
1 CACCCATATATTTAAGCCCAATTTAGCTAG-CACTTTAAGCCCAGATTAGCTGG
* * * *
9734427 CACCCA-AAATTTAAGCCTAATTTAGCTAGGACTTTAAGCCCAGTTTAGCTGG
1 CACCCATATATTTAAGCCCAATTTAGCTAGCACTTTAAGCCCAGATTAGCTGG
9734479 CACCTCATAT
1 CACC-CATAT
9734489 TAGTTGGCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
51 2 0.04
52 43 0.84
53 5 0.10
54 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (53 bp):
CACCCATATATTTAAGCCCAATTTAGCTAGCACTTTAAGCCCAGATTAGCTGG
Found at i:9738793 original size:19 final size:19
Alignment explanation
Indices: 9738763--9738819 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
9738753 TTTGTGTGTG
9738763 ATTTTTTATATTTAAAATCTA
1 ATTTTTTAT-TTT-AAATCTA
* *
9738784 ATTTTTTATTTTATATTTA
1 ATTTTTTATTTTAAATCTA
9738803 ATTTTATTATTTTAAAT
1 ATTTT-TTATTTTAAAT
9738820 TATGAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.31
20 13 0.41
21 9 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTTATTTTAAATCTA
Found at i:9738796 original size:20 final size:20
Alignment explanation
Indices: 9738763--9738818 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
9738753 TTTGTGTGTG
9738763 ATTTTTTATATTTAAAATCTA
1 ATTTTTTAT-TTTAAAATCTA
* *
9738784 ATTTTTTATTTT-ATATTTA
1 ATTTTTTATTTTAAAATCTA
9738803 ATTTTATTATTTTAAA
1 ATTTT-TTATTTTAAA
9738819 TTATGAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.33
20 10 0.33
21 10 0.33
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTTTATTTTAAAATCTA
Found at i:9739019 original size:19 final size:19
Alignment explanation
Indices: 9738995--9739078 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
9738985 ATTTGAACTA
* *
9738995 AGGTTTTAGGGTTTTGCTT
1 AGGTTTTAGGGTTTTACAT
* *
9739014 AGGTTTTAGGATTTCACAT
1 AGGTTTTAGGGTTTTACAT
* *
9739033 AGGGTTTAGGGTTTTACCT
1 AGGTTTTAGGGTTTTACAT
*
9739052 AGAGTTTT-GGGTTTCACAT
1 AG-GTTTTAGGGTTTTACAT
*
9739071 AGGATTTA
1 AGGTTTTA
9739079 TAGTTTTACC
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
18 4 0.08
19 43 0.84
20 4 0.08
ACGTcount: A:0.20, C:0.08, G:0.27, T:0.44
Consensus pattern (19 bp):
AGGTTTTAGGGTTTTACAT
Found at i:9739047 original size:38 final size:38
Alignment explanation
Indices: 9738999--9739090 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
9738989 GAACTAAGGT
* * *
9738999 TTTAGGGTTTTGCTTAG-GTTTTAGGATTTCACATAGGG
1 TTTAGGGTTTTACCTAGAGTTTT-GGATTTCACATAGGA
*
9739037 TTTAGGGTTTTACCTAGAGTTTTGGGTTTCACATAGGA
1 TTTAGGGTTTTACCTAGAGTTTTGGATTTCACATAGGA
**
9739075 TTTATAGTTTTACCTA
1 TTTAGGGTTTTACCTA
9739091 TAGCTTACGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 42 0.89
39 5 0.11
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.46
Consensus pattern (38 bp):
TTTAGGGTTTTACCTAGAGTTTTGGATTTCACATAGGA
Found at i:9739103 original size:38 final size:38
Alignment explanation
Indices: 9739025--9739106 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
9739015 GGTTTTAGGA
* * * **
9739025 TTTCACATAGGGTTTAGGGTTTTACCTAGAGTTTTGGG
1 TTTCACATAGGATTTAGAGTTTTACCTAGAGCTTACGG
* *
9739063 TTTCACATAGGATTTATAGTTTTACCTATAGCTTACGG
1 TTTCACATAGGATTTAGAGTTTTACCTAGAGCTTACGG
9739101 TTTCAC
1 TTTCAC
9739107 TTAGAGTTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (38 bp):
TTTCACATAGGATTTAGAGTTTTACCTAGAGCTTACGG
Found at i:9739148 original size:13 final size:12
Alignment explanation
Indices: 9739130--9739183 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 12
9739120 TTTCACCTAA
9739130 GGTTTTAGTTTAG
1 GGTTTTA-TTTAG
9739143 GGTTTTATTTAAG
1 GGTTTTATTT-AG
*
9739156 GGTTTTATTTTG
1 GGTTTTATTTAG
9739168 GGTTTTCATTTTAG
1 GGTTTT-A-TTTAG
9739182 GG
1 GG
9739184 ATTCATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
12 10 0.28
13 20 0.56
14 6 0.17
ACGTcount: A:0.15, C:0.02, G:0.28, T:0.56
Consensus pattern (12 bp):
GGTTTTATTTAG
Found at i:9739178 original size:26 final size:25
Alignment explanation
Indices: 9739130--9739199 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
9739120 TTTCACCTAA
*
9739130 GGTTTTAGTTTAGGGTTTTATTTAAG
1 GGTTTTA-TTTTGGGTTTTATTTAAG
*
9739156 GGTTTTATTTTGGGTTTTCATTTTAG
1 GGTTTTATTTTGGGTTTT-ATTTAAG
* * *
9739182 GGATTCATTTTAGGTTTT
1 GGTTTTATTTTGGGTTTT
9739200 TGAATTAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 10 0.26
26 28 0.74
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.57
Consensus pattern (25 bp):
GGTTTTATTTTGGGTTTTATTTAAG
Found at i:9739356 original size:3 final size:3
Alignment explanation
Indices: 9739348--9739378 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9739338 AGAAATTTAC
9739348 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9739379 TAATAATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9740268 original size:13 final size:14
Alignment explanation
Indices: 9740250--9740281 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9740240 CCCAATTCTG
9740250 GAAAACA-AATGAA
1 GAAAACAGAATGAA
9740263 GAAAACAGAATGAA
1 GAAAACAGAATGAA
9740277 GAAAA
1 GAAAA
9740282 GAAAAGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.69, C:0.06, G:0.19, T:0.06
Consensus pattern (14 bp):
GAAAACAGAATGAA
Found at i:9741589 original size:15 final size:15
Alignment explanation
Indices: 9741571--9741645 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 15
9741561 TAATTTATCA
9741571 TTATTTAATTATTTT
1 TTATTTAATTATTTT
9741586 TTATTTTATCTATTATTATT
1 TTA-TTTA---ATTATT-TT
9741606 TTAATATT-ATTATTTAT
1 TT-AT-TTAATTATTT-T
9741623 TTATTT-ATTATTTT
1 TTATTTAATTATTTT
*
9741637 TTGTTTAAT
1 TTATTTAAT
9741646 GGCCAACAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
14 6 0.12
15 14 0.28
16 7 0.14
17 9 0.18
19 6 0.12
20 5 0.10
21 3 0.06
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (15 bp):
TTATTTAATTATTTT
Found at i:9741599 original size:16 final size:14
Alignment explanation
Indices: 9741565--9741636 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 14
9741555 TTAATTTAAT
* *
9741565 TTATCATTATTTAA
1 TTATTATTATTTTA
*
9741579 TTATTTTTTATTTTA
1 TTA-TTATTATTTTA
9741594 TCTATTATTATTTTA
1 T-TATTATTATTTTA
*
9741609 ATATTATTA-TTTA
1 TTATTATTATTTTA
9741622 TTTATTTATTATTTT
1 -TTA-TTATTATTTT
9741637 TTGTTTAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.09
14 13 0.28
15 25 0.53
16 5 0.11
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATTATTTTA
Found at i:9742091 original size:14 final size:13
Alignment explanation
Indices: 9742069--9742110 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
9742059 AAAATAAAGA
*
9742069 TATTTTTTGTTGTT
1 TATTATTTGTT-TT
9742083 TATTATTTGTTTT
1 TATTATTTGTTTT
9742096 T-TTATTT-TTTT
1 TATTATTTGTTTT
9742107 TATT
1 TATT
9742111 TTTTTTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 3 0.12
14 10 0.38
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (13 bp):
TATTATTTGTTTT
Found at i:9742107 original size:10 final size:9
Alignment explanation
Indices: 9742092--9742116 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9742082 TTATTATTTG
9742092 TTTTTTTAT
1 TTTTTTTAT
9742101 TTTTTTTAT
1 TTTTTTTAT
9742110 TTTTTTT
1 TTTTTTT
9742117 CTCTTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:9742109 original size:21 final size:21
Alignment explanation
Indices: 9742071--9742116 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9742061 AATAAAGATA
*
9742071 TTTTTTGTTGTTTATTATTTGT
1 TTTTTTATTGTTTATTATTT-T
*
9742093 TTTTTTATT-TTTTTTATTTT
1 TTTTTTATTGTTTATTATTTT
9742113 TTTT
1 TTTT
9742117 CTCTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.85
Consensus pattern (21 bp):
TTTTTTATTGTTTATTATTTT
Found at i:9742282 original size:23 final size:22
Alignment explanation
Indices: 9742224--9742290 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
9742214 TAAGGTGACC
* *
9742224 ACTAATCTAGGCTTATGTG-TA
1 ACTAATCTAGGCTTACGTGCCA
* *
9742245 AGCTAATCTGGGCTTTCGTGCCA
1 A-CTAATCTAGGCTTACGTGCCA
9742268 ACTAATTCTAGGCTTACGTGCCA
1 ACTAA-TCTAGGCTTACGTGCCA
9742291 GTCAAATTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 19 0.51
23 17 0.46
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (22 bp):
ACTAATCTAGGCTTACGTGCCA
Found at i:9742349 original size:22 final size:21
Alignment explanation
Indices: 9742317--9742357 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9742307 ATTTTCATAA
*
9742317 ATGCCAGCTAATATGGGCTTGC
1 ATGCCAACTAA-ATGGGCTTGC
*
9742339 ATGCCAACTAAATTGGCTT
1 ATGCCAACTAAATGGGCTT
9742358 AAATTTGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (21 bp):
ATGCCAACTAAATGGGCTTGC
Found at i:9742468 original size:32 final size:32
Alignment explanation
Indices: 9742432--9742774 Score: 134
Period size: 33 Copynumber: 10.6 Consensus size: 32
9742422 TGAATGTCTA
*
9742432 CTAAATTAGGCTTAAATTTTTATTGATGTCAG
1 CTAAATTAGGCTTAAATTTTCATTGATGTCAG
* * * *
9742464 CTAAACTAGGCTTAAA-TTTGATTGGGTGCCAG
1 CTAAATTAGGCTTAAATTTTCATT-GATGTCAG
* * * *
9742496 -TTAATCTGGGCTTAAATTTGCATTGAT-ACTAG
1 CTAAAT-TAGGCTTAAATTTTCATTGATGTC-AG
* * *
9742528 CTAAATTAGGCTTAAATTTGCATTGAGTGCCAA
1 CTAAATTAGGCTTAAATTTTCATTGA-TGTCAG
* * *
9742561 CTAAACTGGGCTTAAATTTGCATTGA-GTGCTAG
1 CTAAATTAGGCTTAAATTTTCATTGATGT-C-AG
* * * * * *
9742594 CTAAACT-GGACTTAGATTTTTATTGGGTGTTAA
1 CTAAATTAGG-CTTAAATTTTCATT-GATGTCAG
* * * *
9742627 CCAAATTGGGCTTAAATTTTTATT-AGTGTCAA
1 CTAAATTAGGCTTAAATTTTCATTGA-TGTCAG
* * *
9742659 AT-AATCTAGGCTTAAA--CTCATTG-GGTACCAG
1 CTAAAT-TAGGCTTAAATTTTCATTGATGT--CAG
* *
9742690 CT-AATCTAGGTTTAAATTTGCATT-AGTGTCAG
1 CTAAAT-TAGGCTTAAATTTTCATTGA-TGTCAG
* * * *
9742722 CTAAACTGGGCTTAAATTTTCATTAGGTGTAAG
1 CTAAATTAGGCTTAAATTTTCATT-GATGTCAG
* * *
9742755 CCAAACTAGGCTTGAATTTT
1 CTAAATTAGGCTTAAATTTT
9742775 TATAGGTACC
Statistics
Matches: 235, Mismatches: 51, Indels: 49
0.70 0.15 0.15
Matches are distributed among these distances:
29 2 0.01
30 4 0.02
31 30 0.13
32 90 0.38
33 101 0.43
34 6 0.03
35 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (32 bp):
CTAAATTAGGCTTAAATTTTCATTGATGTCAG
Found at i:9742573 original size:33 final size:33
Alignment explanation
Indices: 9742432--9742773 Score: 225
Period size: 32 Copynumber: 10.6 Consensus size: 33
9742422 TGAATGTCTA
* ** *
9742432 CTAAATTAGGCTTAAATTTTTATTGA-TGTCAG
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
*
9742464 CTAAACTAGGCTTAAATTTG-ATTGGGTGCCAG
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
* * * * *
9742496 TTAATCTGGGCTTAAATTTGCATTGA-TACTAG
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
* *
9742528 CTAAATTAGGCTTAAATTTGCATTGAGTGCCAA
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
* *
9742561 CTAAACTGGGCTTAAATTTGCATTGAGTGCTAG
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
* ** * ** *
9742594 CTAAACT-GGACTTAGATTTTTATTGGGTGTTAA
1 CTAAACTAGG-CTTAAATTTGCATTGAGTGCCAG
* * * ** * *
9742627 CCAAATTGGGCTTAAATTTTTATT-AGTGTCAA
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
* * * * *
9742659 ATAATCTAGGCTTAAA-CT-CATTGGGTACCAG
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
* * *
9742690 CTAATCTAGGTTTAAATTTGCATT-AGTGTCAG
1 CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
* * **
9742722 CTAAACTGGGCTTAAATTTTCATT-AGGTGTAAG
1 CTAAACTAGGCTTAAATTTGCATTGA-GTGCCAG
* *
9742755 CCAAACTAGGCTTGAATTT
1 CTAAACTAGGCTTAAATTT
9742774 TTATAGGTAC
Statistics
Matches: 244, Mismatches: 57, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
30 3 0.01
31 23 0.09
32 112 0.46
33 104 0.43
34 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (33 bp):
CTAAACTAGGCTTAAATTTGCATTGAGTGCCAG
Found at i:9742644 original size:66 final size:65
Alignment explanation
Indices: 9742440--9742645 Score: 202
Period size: 66 Copynumber: 3.2 Consensus size: 65
9742430 TACTAAATTA
** * * *** *
9742440 GGCTTAAATTTTTATTGAT-GTCAGCTAAACTAGGCTTAAATTTG-ATTGGGTGCCAGTTAATCT
1 GGCTTAAATTTGCATTGATACT-AGCTAAACTAGGCTTAAATTTGCATTGAGTGCCAACCAAACT
9742503 G
65 G
* *
9742504 GGCTTAAATTTGCATTGATACTAGCTAAATTAGGCTTAAATTTGCATTGAGTGCCAACTAAACTG
1 GGCTTAAATTTGCATTGATACTAGCTAAACTAGGCTTAAATTTGCATTGAGTGCCAACCAAACTG
* * ** * ** *
9742569 GGCTTAAATTTGCATTGAGTGCTAGCTAAACT-GGACTTAGATTTTTATTGGGTGTTAACCAAAT
1 GGCTTAAATTTGCATTGA-TACTAGCTAAACTAGG-CTTAAATTTGCATTGAGTGCCAACCAAAC
9742633 TG
64 TG
9742635 GGCTTAAATTT
1 GGCTTAAATTT
9742646 TTATTAGTGT
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
64 38 0.32
65 37 0.31
66 45 0.38
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (65 bp):
GGCTTAAATTTGCATTGATACTAGCTAAACTAGGCTTAAATTTGCATTGAGTGCCAACCAAACTG
Found at i:9744049 original size:10 final size:9
Alignment explanation
Indices: 9744028--9744123 Score: 58
Period size: 8 Copynumber: 11.0 Consensus size: 9
9744018 CATACGTTTC
9744028 TTTTCTTCTT
1 TTTTCTT-TT
*
9744038 TTATC-TTT
1 TTTTCTTTT
*
9744046 TTTT-TTCT
1 TTTTCTTTT
9744054 TTTTCTTTCT
1 TTTTCTTT-T
**
9744064 TTCACTTTT
1 TTTTCTTTT
*
9744073 TTGTC-TTT
1 TTTTCTTTT
* *
9744081 TTTTCATCT
1 TTTTCTTTT
9744090 TTTT-TTTT
1 TTTTCTTTT
*
9744098 TTGT-TTTT
1 TTTTCTTTT
*
9744106 TTTACTTTT
1 TTTTCTTTT
9744115 TTTTCTTTT
1 TTTTCTTTT
9744124 AGTGAATTTA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
8 29 0.45
9 25 0.38
10 11 0.17
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:9744083 original size:27 final size:26
Alignment explanation
Indices: 9744024--9744091 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
9744014 CATTCATACG
*
9744024 TTTC-TTTTCTTCTTTTATCTTTTTT
1 TTTCTTTTTCTTCTTTCATCTTTTTT
9744049 TTTCTTTTTCTTTCTTTCA-CTTTTTT
1 TTTCTTTTTC-TTCTTTCATCTTTTTT
*
9744075 GTCTT-TTTTTCATCTTT
1 -T-TTCTTTTTCTTCTTT
9744092 TTTTTTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 4 0.11
26 17 0.46
27 14 0.38
28 2 0.05
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (26 bp):
TTTCTTTTTCTTCTTTCATCTTTTTT
Found at i:9744085 original size:19 final size:19
Alignment explanation
Indices: 9744053--9744095 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9744043 TTTTTTTTTC
9744053 TTTTTCTTTCTTTCA-CTT
1 TTTTTCTTTCTTTCATCTT
*
9744071 TTTTGTCTTTTTTTCATCTT
1 TTTT-TCTTTCTTTCATCTT
9744091 TTTTT
1 TTTTT
9744096 TTTTGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTCTTTCTTTCATCTT
Found at i:9748101 original size:25 final size:26
Alignment explanation
Indices: 9748055--9748103 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
9748045 TCATTAAATT
*
9748055 ATTATTTACTATTAAAATATATTAAA
1 ATTATTGACTATTAAAATATATTAAA
9748081 ATTATTGA-TATTCAAAA-ATATTA
1 ATTATTGACTATT-AAAATATATTA
9748104 TATTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTGACTATTAAAATATATTAAA
Found at i:9748130 original size:19 final size:19
Alignment explanation
Indices: 9748108--9748153 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9748098 ATATTATATT
9748108 TTAATAATAATAT-TTAATA
1 TTAA-AATAATATGTTAATA
*
9748127 TTAAAATATTATGTTAATA
1 TTAAAATAATATGTTAATA
*
9748146 TAAAAATA
1 TTAAAATA
9748154 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAAAATAATATGTTAATA
Found at i:9748134 original size:34 final size:34
Alignment explanation
Indices: 9748095--9748270 Score: 93
Period size: 34 Copynumber: 5.3 Consensus size: 34
9748085 TTGATATTCA
9748095 AAAATATTATATTTTAATAATAATATTTAATATT
1 AAAATATTATATTTTAATAATAATATTTAATATT
* * * *
9748129 AAAATATTAT-GTTAATATAAAAATATTTAA-AAT
1 AAAATATTATATTTTA-ATAATAATATTTAATATT
** * * * *
9748162 AAAACTATT-TATTATTCTTTATATTATTTATTAAT
1 AAAA-TATTATATT-TTAATAATAATATTTAATATT
*
9748197 AATATATTAT-TTATTAAT-AT-ATGA-TT--TATT
1 AAAATATTATATT-TTAATAATAAT-ATTTAATATT
* *
9748227 AATAATATTATATATTATATATTAATA-TTAATATT
1 AA-AATATTATATTTTA-ATAATAATATTTAATATT
*
9748262 AATATATTA
1 AAAATATTA
9748271 GTATATATAT
Statistics
Matches: 107, Mismatches: 21, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
30 5 0.05
31 10 0.09
32 6 0.06
33 17 0.16
34 55 0.51
35 14 0.13
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (34 bp):
AAAATATTATATTTTAATAATAATATTTAATATT
Found at i:9748204 original size:18 final size:18
Alignment explanation
Indices: 9748181--9748400 Score: 119
Period size: 18 Copynumber: 12.4 Consensus size: 18
9748171 TATTATTCTT
9748181 TATATTATTTATTAATAA
1 TATATTATTTATTAATAA
9748199 TATATTATTTATTAAT-A
1 TATATTATTTATTAATAA
*
9748216 TATGATT-TATTAATAATATTA
1 TAT-ATTAT-TTATTAATA--A
* *
9748237 TATATTATATATTAATAT
1 TATATTATTTATTAATAA
* *
9748255 TAATATTAATATATTAGT-A
1 T-ATATT-ATTTATTAATAA
*
9748274 TATA-TATTTATTTATAA
1 TATATTATTTATTAATAA
*
9748291 TA-A-TATTTATTAATAT
1 TATATTATTTATTAATAA
9748307 TATATT-TTT-TGT--TAA
1 TATATTATTTAT-TAATAA
*
9748322 TATATTA--TATTAATAG
1 TATATTATTTATTAATAA
* * * *
9748338 TATGTCATTTATT-CTTA
1 TATATTATTTATTAATAA
*
9748355 TAATATTATTTGTTAAT-A
1 T-ATATTATTTATTAATAA
9748373 TAATATTATTTATTTATATAA
1 T-ATATTATTTA-TTA-ATAA
9748394 TAT-TTAT
1 TATATTAT
9748401 AAGTGAAATT
Statistics
Matches: 156, Mismatches: 23, Indels: 45
0.70 0.10 0.20
Matches are distributed among these distances:
14 2 0.01
15 9 0.06
16 29 0.19
17 16 0.10
18 56 0.36
19 14 0.09
20 23 0.15
21 7 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (18 bp):
TATATTATTTATTAATAA
Found at i:9748397 original size:15 final size:15
Alignment explanation
Indices: 9748181--9748400 Score: 80
Period size: 15 Copynumber: 13.8 Consensus size: 15
9748171 TATTATTCTT
*
9748181 TATATTATTTA-TTA
1 TATAATATTTATTTA
9748195 -ATAATATATTATTTA
1 TATAATAT-TTATTTA
*
9748210 T-TAATATATGATTTA
1 TATAATAT-TTATTTA
*
9748225 T-TAATA-ATA-TTA
1 TATAATATTTATTTA
* * *
9748237 TATATTATATATTAA
1 TATAATATTTATTTA
9748252 TATTAATATTAATATATTA
1 TA-TAATATT--TAT-TTA
9748271 GTATATATATTTATTTA
1 -TATA-ATATTTATTTA
*
9748288 TAATAATATTTATTAA
1 T-ATAATATTTATTTA
* *
9748304 TATTATATTT-TTTG
1 TATAATATTTATTTA
9748318 T-TAATATATTATATTAA
1 TATAATAT-TTAT-TT-A
*
9748335 TAGTATGTCATTTATTCT-
1 TA-TA-AT-ATTTATT-TA
*
9748353 TATAATATTATTTGTTAA
1 TATAATATT-TAT-TT-A
9748371 TATAATATTATTTATTTA
1 TAT-A-A-TATTTATTTA
9748389 TATAATATTTAT
1 TATAATATTTAT
9748401 AAGTGAAATT
Statistics
Matches: 158, Mismatches: 19, Indels: 57
0.68 0.08 0.24
Matches are distributed among these distances:
12 4 0.03
13 16 0.10
14 11 0.07
15 45 0.28
16 24 0.15
17 11 0.07
18 15 0.09
19 10 0.06
20 16 0.10
21 6 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (15 bp):
TATAATATTTATTTA
Found at i:9753908 original size:19 final size:19
Alignment explanation
Indices: 9753845--9753900 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
9753835 TAGAATTTAG
*
9753845 GGTTTCACCTTAGGTTTCA
1 GGTTTCACCTAAGGTTTCA
* *
9753864 AGTTTCACCTAGGGCTTTCA
1 GGTTTCACCTAAGG-TTTCA
9753884 GGTTTCACCTAAGGTTT
1 GGTTTCACCTAAGGTTT
9753901 AGGGTTTCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (19 bp):
GGTTTCACCTAAGGTTTCA
Found at i:9754141 original size:20 final size:22
Alignment explanation
Indices: 9754112--9754157 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
9754102 TTTCCTTTCC
9754112 ATTAAAA-TTTATTAT-TATTT
1 ATTAAAATTTTATTATATATTT
* *
9754132 ATTAACATTTTATTATATTTTT
1 ATTAAAATTTTATTATATATTT
9754154 ATTA
1 ATTA
9754158 TTTAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTAAAATTTTATTATATATTT
Found at i:9754259 original size:3 final size:3
Alignment explanation
Indices: 9754251--9754323 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
9754241 GGATTTAAAA
9754251 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
9754299 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
9754324 AAAGTAAATT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:9754748 original size:122 final size:124
Alignment explanation
Indices: 9754532--9754781 Score: 452
Period size: 122 Copynumber: 2.0 Consensus size: 124
9754522 TTGTTATTTA
9754532 TTTTTGCTACTGCCCTTTTTAAAAAAAAAAAATCCATACTTCCAGTGTTTTTTGTTTTTTTCTGC
1 TTTTTGCTACTGCCC-TTTTAAAAAAAAAAAATCCATACTTCCAGTGTTTTTTGTTTTTTTCTGC
9754597 TTGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTAA-TTTTTTTTTTTTTGCCCTTT
65 TTGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTAATTTTTTTTTTTTTTGCCCTTT
*
9754656 TTTTTGCTACTGCCC-TTT-AAAAAAAAAAATCCATGCTTCCAGTGTTTTTTGTTTTTTTTCTGC
1 TTTTTGCTACTGCCCTTTTAAAAAAAAAAAATCCATACTTCCAGTGTTTTTTG-TTTTTTTCTGC
9754719 TTGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTAATTTTTTTTTTTTTTGCCCTTT
65 TTGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTAATTTTTTTTTTTTTTGCCCTTT
9754779 TTT
1 TTT
9754782 ATTGGATTTT
Statistics
Matches: 123, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
121 32 0.26
122 53 0.43
123 23 0.19
124 15 0.12
ACGTcount: A:0.15, C:0.23, G:0.11, T:0.51
Consensus pattern (124 bp):
TTTTTGCTACTGCCCTTTTAAAAAAAAAAAATCCATACTTCCAGTGTTTTTTGTTTTTTTCTGCT
TGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTAATTTTTTTTTTTTTTGCCCTTT
Found at i:9758115 original size:16 final size:16
Alignment explanation
Indices: 9758094--9758125 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9758084 TAATTAAAGG
9758094 TTACTAATTCAAAGTT
1 TTACTAATTCAAAGTT
*
9758110 TTACTAATTTAAAGTT
1 TTACTAATTCAAAGTT
9758126 GGGTTCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
TTACTAATTCAAAGTT
Found at i:9761485 original size:19 final size:19
Alignment explanation
Indices: 9761463--9761517 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
9761453 AGAATTTAGG
9761463 GTTTCACCTTAGGTTTCAA
1 GTTTCACCTTAGGTTTCAA
9761482 GTTTCACC-TAGGGCTTTCAA
1 GTTTCACCTTA-GG-TTTCAA
*
9761502 GTTTCACCTAAGGTTT
1 GTTTCACCTTAGGTTT
9761518 AGGGTTTCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.41
20 16 0.50
21 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (19 bp):
GTTTCACCTTAGGTTTCAA
Found at i:9761755 original size:20 final size:22
Alignment explanation
Indices: 9761726--9761771 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
9761716 TTTCCTTTCC
9761726 ATTAAAA-TTTATTAT-TATTT
1 ATTAAAATTTTATTATATATTT
* *
9761746 ATTAACATTTTATTATATTTTT
1 ATTAAAATTTTATTATATATTT
9761768 ATTA
1 ATTA
9761772 TTTAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTAAAATTTTATTATATATTT
Found at i:9761869 original size:3 final size:3
Alignment explanation
Indices: 9761861--9761928 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
9761851 GGGATTTAAA
9761861 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
9761909 -TC ATC ATC AT- ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC A
9761929 AAGTAAATTG
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 59 0.94
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:9762368 original size:125 final size:128
Alignment explanation
Indices: 9762135--9762391 Score: 434
Period size: 126 Copynumber: 2.0 Consensus size: 128
9762125 TTGTTATTTA
*
9762135 TTTTTGCTACTGCCCTTTTTAAAAAAAAAAAATCCATACTTCCAGTGTTTTTTTTGTTTTTTTCT
1 TTTTTGCTACTGCCC-TTTTAAAAAAAAAAAATCCATACTTCCAGTGTTTTTTGTGTTTTTTTCT
9762200 GCTTGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTTAA-TTTTTTTTTTTTTTGCCCTTT
65 GCTTGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTTAATTTTTTTTTTTTTTTGCCCTTT
*
9762263 TTTTTGCTACTGCCC-TTT-AAAAAAAAAAATCCATGCCTTCCAGTGTTTTTTGT-TTTTTTTCT
1 TTTTTGCTACTGCCCTTTTAAAAAAAAAAAATCCAT-ACTTCCAGTGTTTTTTGTGTTTTTTTCT
9762325 GCTTGCTGCCTTTCCTTTTCTGTTCACGCCTACTGCCGC-TAATTTTTTTTTTTTTTTGCCCTTT
65 GCTTGCTGCCTTTCC-TTTCTGTTCACGCCTACTGCCGCTTAATTTTTTTTTTTTTTTGCCCTTT
9762389 TTT
1 TTT
9762392 ATTGGATTTT
Statistics
Matches: 124, Mismatches: 2, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
125 43 0.35
126 66 0.53
128 15 0.12
ACGTcount: A:0.15, C:0.23, G:0.11, T:0.52
Consensus pattern (128 bp):
TTTTTGCTACTGCCCTTTTAAAAAAAAAAAATCCATACTTCCAGTGTTTTTTGTGTTTTTTTCTG
CTTGCTGCCTTTCCTTTCTGTTCACGCCTACTGCCGCTTAATTTTTTTTTTTTTTTGCCCTTT
Found at i:9765826 original size:16 final size:16
Alignment explanation
Indices: 9765805--9765836 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9765795 TAATTAAAGG
9765805 TTACTAATTCAAAGTT
1 TTACTAATTCAAAGTT
*
9765821 TTACTAATTTAAAGTT
1 TTACTAATTCAAAGTT
9765837 GGGTTCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
TTACTAATTCAAAGTT
Found at i:9771275 original size:36 final size:36
Alignment explanation
Indices: 9771234--9771308 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
9771224 TCTTATTTTC
9771234 TCTATTCAGCTTCTCTATTTTAGTATCTACTTTCTT
1 TCTATTCAGCTTCTCTATTTTAGTATCTACTTTCTT
9771270 TCTATTCAGCTTCTCTATTTTAGTATCTACTTTCTT
1 TCTATTCAGCTTCTCTATTTTAGTATCTACTTTCTT
9771306 TCT
1 TCT
9771309 TTAATTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.56
Consensus pattern (36 bp):
TCTATTCAGCTTCTCTATTTTAGTATCTACTTTCTT
Found at i:9773654 original size:33 final size:33
Alignment explanation
Indices: 9773614--9773683 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
9773604 TTCAAATACC
* *
9773614 CAAAAAAATCTAAATATGAAAAGATGCCATAGT
1 CAAAAAAATCTAAATATGAAAAAATGCCACAGT
*
9773647 CAAAAAAATCTAAATATGAAAAAATGTCACAGT
1 CAAAAAAATCTAAATATGAAAAAATGCCACAGT
9773680 CAAA
1 CAAA
9773684 TTAATAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (33 bp):
CAAAAAAATCTAAATATGAAAAAATGCCACAGT
Found at i:9780165 original size:15 final size:15
Alignment explanation
Indices: 9780119--9780156 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9780109 AAAATTTTCA
*
9780119 TTTATTTTGTTTATT
1 TTTATTTTCTTTATT
*
9780134 TTTATTTTCTATATT
1 TTTATTTTCTTTATT
9780149 TTTATTTT
1 TTTATTTT
9780157 TTTTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTATTTTCTTTATT
Found at i:9780542 original size:11 final size:11
Alignment explanation
Indices: 9780528--9780562 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
9780518 TTTACTTTGC
9780528 TTTCCTTTTTT
1 TTTCCTTTTTT
9780539 TTTCCTTTTTT
1 TTTCCTTTTTT
9780550 TCTTCCTTTTTT
1 T-TTCCTTTTTT
9780562 T
1 T
9780563 ATTAGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCCTTTTTT
Found at i:9780550 original size:12 final size:12
Alignment explanation
Indices: 9780528--9780562 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9780518 TTTACTTTGC
9780528 TTTCC-TTTTTT
1 TTTCCTTTTTTT
9780539 TTTCCTTTTTTT
1 TTTCCTTTTTTT
*
9780551 CTTCCTTTTTTT
1 TTTCCTTTTTTT
9780563 ATTAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCCTTTTTTT
Found at i:9783730 original size:11 final size:11
Alignment explanation
Indices: 9783714--9783741 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9783704 TTTAAAATGC
9783714 TATTTTTATTT
1 TATTTTTATTT
9783725 TATTTTTATTT
1 TATTTTTATTT
9783736 TATTTT
1 TATTTT
9783742 ATAATATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:9784327 original size:22 final size:22
Alignment explanation
Indices: 9784302--9784350 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9784292 AGTATGAGGG
*
9784302 TTTTGAAGGTTTAG-GGTTTCAA
1 TTTTGAAGGTATAGAGGTTT-AA
9784324 TTTTG-AGGTATAGAGGTTTAA
1 TTTTGAAGGTATAGAGGTTTAA
9784345 TTTTGA
1 TTTTGA
9784351 TTTTAAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (22 bp):
TTTTGAAGGTATAGAGGTTTAA
Found at i:9784407 original size:30 final size:29
Alignment explanation
Indices: 9784368--9784439 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
9784358 GTTTGCAAGC
* *
9784368 TTTAGGGTTTCGATTTTAG-GATTTGGAGGA
1 TTTAAGGTTTC-ATTTTAGCG-TTTAGAGGA
*
9784398 TTTAAGGTTTCAGTTTTAGCGTTTAGAGGG
1 TTTAAGGTTTCA-TTTTAGCGTTTAGAGGA
*
9784428 TTTAATGTTTCA
1 TTTAAGGTTTCA
9784440 ATTTCGGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 34 0.94
31 1 0.03
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.46
Consensus pattern (29 bp):
TTTAAGGTTTCATTTTAGCGTTTAGAGGA
Done.