Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 286 of 290
Found at i:98818935 original size:151 final size:151
Alignment explanation
Indices: 98818657--98819104 Score: 677
Period size: 151 Copynumber: 3.0 Consensus size: 151
98818647 CCCTTGTAAC
* * *
98818657 CGAAGCTCTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
* * * * *
98818722 CACGTAGTAGCCTGCACTTAGTACTACACACGTGAGCTAACCATCGGATACATGTAGCAGCCTGC
66 CACGAAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCGAATACACGTAGTAGCCTGC
98818787 ACTTAGTACTACACACGTGAT
131 ACTTAGTACTACACACGTGAT
*
98818808 CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATCCGACCTAACAATCTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
98818873 CACGAAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCGAATACACGTAGTAGCCTGC
66 CACGAAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCGAATACACGTAGTAGCCTGC
98818938 ACTTAGTACTACACACGTGAT
131 ACTTAGTACTACACACGTGAT
* *
98818959 CGAAGCTATCGGGTATGCATAGTAG-CTGCACTTAGTACTACACATGCGACCTAAAAATCTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
** ** * *
98819023 CAC-ATAGTAGCCTGCACTTAGTACTACACATATGACCTAAAACTGTCTTAAT-CACATAGTAGC
66 CACGA-AGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATC-GAATACACGTAGTAGC
*
98819086 CTGCACATAGTACTACACA
127 CTGCACTTAGTACTACACA
98819105 TGTGTTCTCA
Statistics
Matches: 274, Mismatches: 19, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
149 1 0.00
150 71 0.26
151 166 0.61
152 33 0.12
153 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (151 bp):
CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
CACGAAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCGAATACACGTAGTAGCCTGC
ACTTAGTACTACACACGTGAT
Found at i:98819053 original size:26 final size:26
Alignment explanation
Indices: 98819021--98819105 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
98819011 AAAAATCTGG
98819021 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
** ** *
98819047 TACACATA-T-GACCTAAAACTGTCTTAA
1 TACACATAGTAG-CCT-GCACT-TAGTAC
*
98819074 T-CACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
98819099 TACACAT
1 TACACAT
98819106 GTGTTCTCAC
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
24 1 0.02
25 8 0.19
26 24 0.57
27 8 0.19
28 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:98831617 original size:15 final size:15
Alignment explanation
Indices: 98831592--98831624 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
98831582 AACCACTTAC
98831592 ATGTAGAACTGTT-T
1 ATGTAGAACTGTTAT
98831606 ATGTACGAACTGTTAT
1 ATGTA-GAACTGTTAT
98831622 ATG
1 ATG
98831625 CGATCTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 8 0.47
16 4 0.24
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (15 bp):
ATGTAGAACTGTTAT
Found at i:98832759 original size:27 final size:27
Alignment explanation
Indices: 98832707--98832760 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
98832697 GAAACAGTGT
* *
98832707 GGGCTTGAGCCCATTTCAGTAACAGTA
1 GGGCTTAAGCCCATTACAGTAACAGTA
98832734 GGGCTTAAGCCCATTACAG-AATCAGTA
1 GGGCTTAAGCCCATTACAGTAA-CAGTA
98832761 CAGTATGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (27 bp):
GGGCTTAAGCCCATTACAGTAACAGTA
Found at i:98838401 original size:47 final size:47
Alignment explanation
Indices: 98838323--98838956 Score: 1034
Period size: 47 Copynumber: 13.4 Consensus size: 47
98838313 CCCTTCGGGA
* * * * * *
98838323 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
98838370 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
98838417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
98838464 CTTATCACATATATATACACTTTAACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
98838513 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
98838562 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
98838609 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
98838656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
98838703 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
98838750 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
98838797 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
98838844 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
98838891 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
98838938 CTTATCACATATATACACT
1 CTTATCACATATATACACT
98838957 GTCTTGGCTG
Statistics
Matches: 562, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 471 0.84
49 91 0.16
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:98842163 original size:40 final size:40
Alignment explanation
Indices: 98842131--98842522 Score: 561
Period size: 40 Copynumber: 9.8 Consensus size: 40
98842121 CCAGCATGAT
* * * * *
98842131 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
98842171 TGCTCTTCGGGGTTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
98842211 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
98842251 TGCTCTT-GGAGACTTAACCCGGATACATCACTAGCACGGA
1 TGCTCTTCGG-GACTTAGCCCGGATACATCACTAGCACGAA
*
98842291 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
98842331 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
98842371 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
98842411 TGCTCTTCGAGACTTAGCCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
98842451 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
98842491 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
98842523 CTCAATTCTC
Statistics
Matches: 317, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
39 2 0.01
40 313 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:98842313 original size:23 final size:23
Alignment explanation
Indices: 98842282--98842354 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 23
98842272 GATACATCAC
98842282 TAGCACGGATGCTCTTCGGGACT
1 TAGCACGGATGCTCTTCGGGACT
* * *
98842305 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGGATGCTCTTCGGGACT
*
98842322 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGGATGCTCTTCGGGACT
*
98842345 TAGCCCGGAT
1 TAGCACGGAT
98842355 ATATCACTAG
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
17 8 0.23
18 3 0.09
19 2 0.06
21 2 0.06
22 3 0.09
23 17 0.49
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (23 bp):
TAGCACGGATGCTCTTCGGGACT
Found at i:98842730 original size:36 final size:36
Alignment explanation
Indices: 98842661--98842736 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
98842651 ATTTATAGTC
98842661 ATAACACTCTTTCAAAATTGCATCACTTATACCCTT
1 ATAACACTCTTTCAAAATTGCATCACTTATACCCTT
98842697 ATAACACTCTTTCAAAATTGCATCACTTATACCCTT
1 ATAACACTCTTTCAAAATTGCATCACTTATACCCTT
98842733 ATAA
1 ATAA
98842737 TTCAATCCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (36 bp):
ATAACACTCTTTCAAAATTGCATCACTTATACCCTT
Found at i:98844005 original size:47 final size:47
Alignment explanation
Indices: 98843927--98844341 Score: 677
Period size: 47 Copynumber: 8.7 Consensus size: 47
98843917 CCCTTCGGGA
* * * * * *
98843927 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
98843974 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
98844021 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
98844068 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
98844115 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
98844162 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
98844209 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
98844258 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
98844307 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
98844342 AGAATCCTAA
Statistics
Matches: 350, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 257 0.73
49 93 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:98848035 original size:34 final size:34
Alignment explanation
Indices: 98847997--98848062 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
98847987 AGTAGTAAAC
* *
98847997 AATATGCTCATAATGGTTCGATTTAGTAGCAATT
1 AATATGCTCATAATAGTTCAATTTAGTAGCAATT
* * *
98848031 AATATGCTTATGATAGTTCAATTTGGTAGCAA
1 AATATGCTCATAATAGTTCAATTTAGTAGCAA
98848063 AAATTATGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (34 bp):
AATATGCTCATAATAGTTCAATTTAGTAGCAATT
Found at i:98849897 original size:31 final size:31
Alignment explanation
Indices: 98849859--98849933 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
98849849 ACGGTTACTG
98849859 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
98849890 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
98849921 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
98849934 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:98850003 original size:42 final size:42
Alignment explanation
Indices: 98849956--98850047 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
98849946 TGGCCCTTAG
* ** *
98849956 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
98849998 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
98850040 GCCCATTT
1 GCCCATTT
98850048 GGAGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:98850237 original size:26 final size:26
Alignment explanation
Indices: 98850192--98850289 Score: 137
Period size: 26 Copynumber: 3.8 Consensus size: 26
98850182 CCTCTTTAAT
98850192 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
98850217 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
98850243 AACAGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
98850269 AACAT-GGGCATAAACCCTTTT
1 AAC-TGGGGCATAAGCCCTTTT
98850290 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
25 10 0.16
26 54 0.84
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:98851152 original size:27 final size:27
Alignment explanation
Indices: 98851090--98851167 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
98851080 GGGCATATTC
98851090 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
98851117 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
98851144 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
98851168 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:98851238 original size:27 final size:27
Alignment explanation
Indices: 98851212--98851341 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
98851202 ATCTACAAAC
*
98851212 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
98851239 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* **
98851268 CAAGTGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
98851295 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
98851322 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
98851342 CACAAACCAG
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 56 0.69
28 7 0.09
29 16 0.20
30 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:98851346 original size:27 final size:26
Alignment explanation
Indices: 98851298--98851436 Score: 143
Period size: 27 Copynumber: 5.2 Consensus size: 26
98851288 TGTAAATCAG
*
98851298 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
** * *
98851325 GGGTATTTCAGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACTA
98851351 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
*
98851378 GGGCCATTTTGGTAATTTTACAAACTA
1 GGG-TATTTTGGTAATTTTACAAACTA
** * * *
98851405 GGGGTATTTCAGTAATTTCACAATCGA
1 -GGGTATTTTGGTAATTTTACAAACTA
98851432 GGGTA
1 GGGTA
98851437 AAACGGTAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.10
27 81 0.87
28 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:98851357 original size:54 final size:54
Alignment explanation
Indices: 98851295--98851436 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
98851285 TTTTGTAAAT
98851295 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAAC
* * * ** *
98851349 CAGTGGTATTTTGGTAATTTTACAAACT-AGGGCCATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATTGAGGG-TATTTCAGTAATTTCACAAAC
* ** * *
98851403 TAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
98851437 AAACGGTAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
53 7 0.10
54 65 0.90
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAAC
Found at i:98851460 original size:27 final size:27
Alignment explanation
Indices: 98851426--98851624 Score: 249
Period size: 27 Copynumber: 7.4 Consensus size: 27
98851416 GTAATTTCAC
*
98851426 AATCGAGGGTAAAACGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
98851453 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
98851480 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
98851507 AATCGAGGGCAAAATGGT-ATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
98851533 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
98851560 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
98851587 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
98851614 AATCGAGGGTA
1 AATCGAGGGTA
98851625 TTTCAGTAAT
Statistics
Matches: 150, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.15
27 127 0.85
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:98851490 original size:80 final size:80
Alignment explanation
Indices: 98851414--98851624 Score: 221
Period size: 80 Copynumber: 2.6 Consensus size: 80
98851404 AGGGGTATTT
* * * *
98851414 CAGTAA-TTT-CACAATCGAGGGTAAAACGGTAATTTTTTAAACTGAGGGTAAAATGGTAATTTT
1 CAGTAATTTTGCA-AATCGAGGGCAAAACGGT-ATTCTATAAACTGAGGGTAAAACGGTAATTTT
98851477 GTAAATCGAGGGTAAAA
64 GTAAATCGAGGGTAAAA
* * * *
98851494 CGGTAATTTTGTAAATCGAGGGCAAAATGGTATTCTATAAATTGAGGGTAAAACGGTAATTTTGT
1 CAGTAATTTTGCAAATCGAGGGCAAAACGGTATTCTATAAACTGAGGGTAAAACGGTAATTTTGT
*
98851559 AAATCGAGGGTGAAA
66 AAATCGAGGGTAAAA
* * ** * * *
98851574 CGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAA-TCGAGGGTA
1 CAGTAATTTTGCAAATCGAGGGCAAAACGGT-ATTCTATAAACT-GAGGGTA
98851625 TTTCAGTAAT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
80 78 0.68
81 35 0.31
82 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.29
Consensus pattern (80 bp):
CAGTAATTTTGCAAATCGAGGGCAAAACGGTATTCTATAAACTGAGGGTAAAACGGTAATTTTGT
AAATCGAGGGTAAAA
Found at i:98851502 original size:54 final size:54
Alignment explanation
Indices: 98851426--98851624 Score: 276
Period size: 54 Copynumber: 3.7 Consensus size: 54
98851416 GTAATTTCAC
* * *
98851426 AATCGAGGGTAAAACGGTAATTTTTTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
98851480 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGCAAAATGGT-ATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
98851533 AATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * **
98851587 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
98851625 TTTCAGTAAT
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
53 47 0.36
54 81 0.63
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:98855193 original size:30 final size:30
Alignment explanation
Indices: 98855149--98855211 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
98855139 ACTTAACAAG
98855149 CAAATGCCTCTAAAATAATAAAAAAAATAA
1 CAAATGCCTCTAAAATAATAAAAAAAATAA
* * * *
98855179 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATAA
98855209 CAA
1 CAA
98855212 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAAATAA
Found at i:98856642 original size:15 final size:15
Alignment explanation
Indices: 98856622--98856653 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
98856612 TTGATGTCAT
98856622 TAATAATTATATATA
1 TAATAATTATATATA
98856637 TAATAATTATATATA
1 TAATAATTATATATA
98856652 TA
1 TA
98856654 CTACGATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATTATATATA
Found at i:98871247 original size:38 final size:37
Alignment explanation
Indices: 98871174--98871252 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
98871164 TATTACGAAA
* *
98871174 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
98871211 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
98871249 TCTT
1 TCTT
98871253 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:98871738 original size:49 final size:49
Alignment explanation
Indices: 98871426--98872543 Score: 1894
Period size: 49 Copynumber: 23.0 Consensus size: 49
98871416 GCCCCGTCAC
* *
98871426 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTA-TCACAT
* *
98871474 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTA-TCACAT
* *
98871522 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTA-TCACAT
* *
98871570 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTA-TCACAT
* *
98871618 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTA-TCACAT
98871666 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98871715 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98871764 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98871813 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98871862 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98871911 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98871960 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872009 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872058 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872107 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872156 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872205 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872254 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872303 ATATATACACTTTCACATTCATCACATCGGACCCATTAGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGA--CATTAGGCCTTATCACAT
* *
98872352 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTA-TCACAT
*
98872400 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
98872447 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGACATTAGG--CCTTATCACAT
*
98872496 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACA
98872544 ATTTAGAATT
Statistics
Matches: 1055, Mismatches: 7, Indels: 16
0.98 0.01 0.01
Matches are distributed among these distances:
47 65 0.06
48 279 0.26
49 695 0.66
51 16 0.02
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACAT
Found at i:98878567 original size:46 final size:45
Alignment explanation
Indices: 98878480--98878722 Score: 299
Period size: 45 Copynumber: 5.4 Consensus size: 45
98878470 AGACCACAAC
* * ** *
98878480 TGAAAGACGCTATGGCATCACAAATTA-AATGAATAAGACCATGGT
1 TGAAAGACACTATGGCATCA-AGACGAGAATAAATAAGACCATGGT
* * * * *
98878525 TGAAAGACACTATGGCAACACGACGGAAAATGAATAAGACCATGTT
1 TGAAAGACACTATGGCATCAAGAC-GAGAATAAATAAGACCATGGT
* *
98878571 TGAAAGACACTATGGCATCAAGACGAGAATAAATATGACAATGGT
1 TGAAAGACACTATGGCATCAAGACGAGAATAAATAAGACCATGGT
* *
98878616 TGAAAGACACCATGGCACCAAGACGAGAATAAATAAGACCATGGT
1 TGAAAGACACTATGGCATCAAGACGAGAATAAATAAGACCATGGT
* *
98878661 TGAAAGACATTATGGCATCAAGACGAGAGTAAATAAGACCATGGT
1 TGAAAGACACTATGGCATCAAGACGAGAATAAATAAGACCATGGT
* *
98878706 TGAAAGATACCATGGCA
1 TGAAAGACACTATGGCA
98878723 CACTCTGATC
Statistics
Matches: 171, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 131 0.77
46 39 0.23
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (45 bp):
TGAAAGACACTATGGCATCAAGACGAGAATAAATAAGACCATGGT
Found at i:98892839 original size:101 final size:101
Alignment explanation
Indices: 98892659--98892865 Score: 260
Period size: 101 Copynumber: 2.0 Consensus size: 101
98892649 TAAATAGGAT
* * *
98892659 TAAGACCATAGCTGAAAGACGTTATAACATCAAGTGAAAGTCCACTGAGACAATAAACACGGGGT
1 TAAGACCATAGCTGAAAGACATTACAACATCAAGTGAAAGTCCACTGAGACAATAAACACAGGGT
* * *
98892724 AGTTCACTAGGATAGTAAGAACGGGGTTATATTGTG
66 AGTCCACTAGGATAGTAAAAACAGGGTTATATTGTG
** * *
98892760 TAAGACCATAGCTGAAAGACATTACAGA-ATCATA-TGAAAGT-CTGTCGGGACAATAAACACAT
1 TAAGACCATAGCTGAAAGACATTACA-ACATCA-AGTGAAAGTCCACT-GAGACAATAAACACAG
98892822 GGTAGTCCACT-GAGATAGTAAAAACAGGGTTATATTGTG
63 GGTAGTCCACTAG-GATAGTAAAAACAGGGTTATATTGTG
98892861 TAAGA
1 TAAGA
98892866 ATACAATTGA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
100 3 0.03
101 87 0.95
102 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (101 bp):
TAAGACCATAGCTGAAAGACATTACAACATCAAGTGAAAGTCCACTGAGACAATAAACACAGGGT
AGTCCACTAGGATAGTAAAAACAGGGTTATATTGTG
Found at i:98892877 original size:101 final size:101
Alignment explanation
Indices: 98892707--98892929 Score: 256
Period size: 101 Copynumber: 2.2 Consensus size: 101
98892697 AGTCCACTGA
* * * * * * *
98892707 GACAATAAACACGGGGTAGTTCACTAGGATAGTAAGAACGGGGTTATATTGTGTAAGACCATAGC
1 GACAATAAACACAGGGTAGTCCACTAGGATAGTAAAAACAGGGTTATATTGTGTAAGAACACAAC
* *
98892772 TGAAAGACA-TTACAGA-ATCATATGAAAGTCTGT-CGG
66 TGAAAGA-AGCTAC-GACATCATATAAAAGTCT-TACGG
* *
98892808 GACAATAAACACATGGTAGTCCACT-GAGATAGTAAAAACAGGGTTATATTGTGTAAGAATACAA
1 GACAATAAACACAGGGTAGTCCACTAG-GATAGTAAAAACAGGGTTATATTGTGTAAGAACACAA
*
98892872 TTGAAAGAAGCTACGACATCATATAAAAGTCTTACGG
65 CTGAAAGAAGCTACGACATCATATAAAAGTCTTACGG
* *
98892909 GACAAGAAACATAGGGTAGTC
1 GACAATAAACACAGGGTAGTC
98892930 TATCGAGACA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
100 5 0.05
101 98 0.95
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (101 bp):
GACAATAAACACAGGGTAGTCCACTAGGATAGTAAAAACAGGGTTATATTGTGTAAGAACACAAC
TGAAAGAAGCTACGACATCATATAAAAGTCTTACGG
Found at i:98893702 original size:71 final size:71
Alignment explanation
Indices: 98893586--98893729 Score: 243
Period size: 71 Copynumber: 2.0 Consensus size: 71
98893576 ACAGACATGT
* * *
98893586 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGAGTATAAGGAAGTAATTCGACCGCTATTCAT
1 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGAGTACAAGGAAGTAATTCAAACGCTATTCAT
98893651 CCCAAG
66 CCCAAG
* *
98893657 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGATTACAAGGAAGTAATTCAAATGCTATTCAT
1 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGAGTACAAGGAAGTAATTCAAACGCTATTCAT
98893722 CCCAAG
66 CCCAAG
98893728 CA
1 CA
98893730 GGACTTAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (71 bp):
CACACTTCCAAGCATGGTATTTTGAACAAGGTGGAGTACAAGGAAGTAATTCAAACGCTATTCAT
CCCAAG
Found at i:98896275 original size:57 final size:58
Alignment explanation
Indices: 98896199--98896314 Score: 150
Period size: 57 Copynumber: 2.0 Consensus size: 58
98896189 CATTTTCAAG
* *
98896199 TCATTTTCATTTTTAAGAAAA-C-TACATACATTTCCAAATGGTTT-T-ATTTCTCCATTT
1 TCATTATCATTTTGAAGAAAACCATA-AT-CATTTCCAAAT-GTTTCTCATTTCTCCATTT
*
98896256 TCATTATCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTCCATTT
1 TCATTATCATTTTGAAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTCCATTT
98896314 T
1 T
98896315 TACCATTTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
56 4 0.08
57 30 0.58
58 16 0.31
59 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (58 bp):
TCATTATCATTTTGAAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTCCATTT
Found at i:98899271 original size:48 final size:48
Alignment explanation
Indices: 98899148--98899283 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 48
98899138 TCTCATATCG
* * * *
98899148 ATGCCATGTCCCAGACATA-TTCTTACATAGAATCACATATCGATGCCA
1 ATGCCATGTCCCAAACA-AGGTCTTACATGGAATCTCATATCGATGCCA
* * * *
98899196 ATGCCATGTCCCAAACATGGTCGTACATGGGATCTCATATCGATGCTA
1 ATGCCATGTCCCAAACAAGGTCTTACATGGAATCTCATATCGATGCCA
* * * *
98899244 ATGCGATGTCCTAGACAAGGTCTTACATGGTATCTCATAT
1 ATGCCATGTCCCAAACAAGGTCTTACATGGAATCTCATAT
98899284 AACTCCAATG
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACAAGGTCTTACATGGAATCTCATATCGATGCCA
Found at i:98909272 original size:99 final size:99
Alignment explanation
Indices: 98909101--98909294 Score: 379
Period size: 99 Copynumber: 2.0 Consensus size: 99
98909091 AAAGACATCA
*
98909101 TGAATCTTTTCAAGCTCCGGGGGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGAT
1 TGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGAT
98909166 TTCGTACGGCCCAATGAATCTTGGGCTCAAATCG
66 TTCGTACGGCCCAATGAATCTTGGGCTCAAATCG
98909200 TGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGAT
1 TGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGAT
98909265 TTCGTACGGCCCAATGAATCTTGGGCTCAA
66 TTCGTACGGCCCAATGAATCTTGGGCTCAA
98909295 CTTGCCCTTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (99 bp):
TGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGAT
TTCGTACGGCCCAATGAATCTTGGGCTCAAATCG
Found at i:98909713 original size:106 final size:106
Alignment explanation
Indices: 98909528--98909739 Score: 406
Period size: 106 Copynumber: 2.0 Consensus size: 106
98909518 AATGGTGTAC
98909528 GGCATTTACGACCGTACAAAACCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTG
1 GGCATTTACGACCGTACAAAACCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTG
98909593 TAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACT
66 TAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACT
* *
98909634 GGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTG
1 GGCATTTACGACCGTACAAAACCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTG
98909699 TAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACT
66 TAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACT
98909740 ACTGAACTCG
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (106 bp):
GGCATTTACGACCGTACAAAACCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTG
TAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACT
Found at i:98909988 original size:94 final size:94
Alignment explanation
Indices: 98909827--98910014 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
98909817 GGTGAAAAGC
98909827 AGTGCTAAAATGCAGCTTAGTACCCAGAGCTTCTTGCAATTTCTTCCAAAATCGTGAGGTGAATC
1 AGTGCTAAAATGCAGCTTAGTACCCAGAGCTTCTTGCAATTTCTTCCAAAATCGTGAGGTGAATC
98909892 TCGGATCTCTATCCGACACGATAGAAACA
66 TCGGATCTCTATCCGACACGATAGAAACA
*
98909921 AGTGCTAAAATGCAGCTTGGTACCCAGAGCTTCTTGCAATTTCTTCCAAAATCGTGAGGTGAATC
1 AGTGCTAAAATGCAGCTTAGTACCCAGAGCTTCTTGCAATTTCTTCCAAAATCGTGAGGTGAATC
98909986 TCGGATCTCTATCCGACACGATAGAAACA
66 TCGGATCTCTATCCGACACGATAGAAACA
98910015 GGTACCCCGT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (94 bp):
AGTGCTAAAATGCAGCTTAGTACCCAGAGCTTCTTGCAATTTCTTCCAAAATCGTGAGGTGAATC
TCGGATCTCTATCCGACACGATAGAAACA
Found at i:98913668 original size:53 final size:53
Alignment explanation
Indices: 98913603--98913709 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
98913593 TTACTCAGCC
98913603 TCACAGGATCAGTAACTGATAGCATTACGGGCTCCTGGGGTGGATTATTCAAA
1 TCACAGGATCAGTAACTGATAGCATTACGGGCTCCTGGGGTGGATTATTCAAA
98913656 TCACAGGATCAGTAACTGATAGCATTACGGGCTCCTGGGGTGGATTATTCAAA
1 TCACAGGATCAGTAACTGATAGCATTACGGGCTCCTGGGGTGGATTATTCAAA
98913709 T
1 T
98913710 TCAGGAATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (53 bp):
TCACAGGATCAGTAACTGATAGCATTACGGGCTCCTGGGGTGGATTATTCAAA
Found at i:98915637 original size:29 final size:29
Alignment explanation
Indices: 98915574--98915641 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
98915564 TAATCAACCA
98915574 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
98915603 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
98915632 CGCACACTTA
1 CGCACACTTA
98915642 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:98915782 original size:29 final size:30
Alignment explanation
Indices: 98915743--98915821 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
98915733 CTTAATAATC
98915743 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
98915773 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
98915802 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
98915822 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:98915814 original size:174 final size:173
Alignment explanation
Indices: 98915464--98915815 Score: 544
Period size: 173 Copynumber: 2.0 Consensus size: 173
98915454 AACTCAAGGT
* * *
98915464 ACTTACCTTTTCCGCTGTCCAAAATTGACTTGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
98915529 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
* ***
98915594 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
98915637 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
98915702 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATACTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
* **
98915767 ACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
130 ACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
98915811 ACTTA
1 ACTTA
98915816 GTGCCAATCT
Statistics
Matches: 162, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
173 79 0.49
174 79 0.49
175 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:98918726 original size:18 final size:18
Alignment explanation
Indices: 98918690--98918732 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
98918680 AGCGCGTATG
98918690 ATGCAATGCTGATGCATGA
1 ATGCAATGC-GATGCATGA
98918709 ATGCAATG-GATGCAATGA
1 ATGCAATGCGATGC-ATGA
98918727 ATGCAA
1 ATGCAA
98918733 AAAAGTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (18 bp):
ATGCAATGCGATGCATGA
Found at i:98921728 original size:39 final size:40
Alignment explanation
Indices: 98921633--98921894 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
98921623 TTGAATGATG
*
98921633 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
98921671 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
98921712 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
98921751 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
98921790 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
98921829 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
98921868 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
98921895 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:98925234 original size:18 final size:18
Alignment explanation
Indices: 98925210--98925255 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
98925200 TTATAAATAG
*
98925210 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
98925229 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
98925247 TATTATTTT
1 TATTATTTT
98925256 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:98929827 original size:2 final size:2
Alignment explanation
Indices: 98929820--98929845 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
98929810 AACACAATAC
98929820 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
98929846 TAAAAATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98930342 original size:23 final size:23
Alignment explanation
Indices: 98930303--98930347 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
98930293 TTTTGACATT
** *
98930303 AAAATAAATTAGTTTTTTAAAAC
1 AAAATAAATTAAATTTTAAAAAC
98930326 AAAATAAATTAAATTTTAAAAA
1 AAAATAAATTAAATTTTAAAAA
98930348 TATATAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATAAATTAAATTTTAAAAAC
Found at i:98933008 original size:17 final size:18
Alignment explanation
Indices: 98932963--98933014 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 18
98932953 TATATATGAA
*
98932963 ATATATACATAATATAGT
1 ATATATGCATAATATAGT
*
98932981 -TAT-TG-AAAATATA-T
1 ATATATGCATAATATAGT
98932995 ATATATGCATAATATAGT
1 ATATATGCATAATATAGT
98933013 AT
1 AT
98933015 TAAGACTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
14 1 0.04
15 10 0.37
16 3 0.11
17 10 0.37
18 3 0.11
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (18 bp):
ATATATGCATAATATAGT
Found at i:98934784 original size:24 final size:24
Alignment explanation
Indices: 98934757--98934808 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
98934747 AGTCAATGTC
* *
98934757 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
98934781 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
98934805 AAAT
1 AAAT
98934809 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:98947074 original size:2 final size:2
Alignment explanation
Indices: 98947067--98947096 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
98947057 AACACAATAC
98947067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98947097 TTAAAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98947593 original size:23 final size:23
Alignment explanation
Indices: 98947554--98947598 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
98947544 TTTTGACATT
** *
98947554 AAAATAAATTAGTTTTTTAAAAC
1 AAAATAAATTAAATTTTAAAAAC
98947577 AAAATAAATTAAATTTTAAAAA
1 AAAATAAATTAAATTTTAAAAA
98947599 TATATAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATAAATTAAATTTTAAAAAC
Found at i:98949985 original size:13 final size:13
Alignment explanation
Indices: 98949967--98949992 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98949957 CAAATCGCTA
98949967 TTATACAAATAAT
1 TTATACAAATAAT
98949980 TTATACAAATAAT
1 TTATACAAATAAT
98949993 GCTTGAATGG
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATACAAATAAT
Found at i:98954825 original size:21 final size:22
Alignment explanation
Indices: 98954796--98954842 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
98954786 CAGAAGGAGT
*
98954796 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
98954818 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
98954839 GAGT
1 GAGT
98954843 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:98962434 original size:30 final size:30
Alignment explanation
Indices: 98962372--98962434 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
98962362 TTATAGCCTA
* * * *
98962372 ATTTGCATGCTAGAATCATGTTATAATCAG
1 ATTTACATGCTAGAATCAAGCTAGAATCAG
*
98962402 ATTTACATGCTAGAATCAAGCTAGAATTAG
1 ATTTACATGCTAGAATCAAGCTAGAATCAG
98962432 ATT
1 ATT
98962435 AATACAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (30 bp):
ATTTACATGCTAGAATCAAGCTAGAATCAG
Found at i:98963783 original size:19 final size:20
Alignment explanation
Indices: 98963761--98963800 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
98963751 TTTAAATAAC
*
98963761 ATTTATAT-AATATATTTAA
1 ATTTATATAAATAAATTTAA
*
98963780 ATTTATTTAAATAAATTTAA
1 ATTTATATAAATAAATTTAA
98963800 A
1 A
98963801 AATATTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTATATAAATAAATTTAA
Found at i:98963797 original size:10 final size:10
Alignment explanation
Indices: 98963769--98963807 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
98963759 ACATTTATAT
98963769 AATATATTTA
1 AATATATTTA
*
98963779 AATTTATTTA
1 AATATATTTA
*
98963789 AATAAATTTA
1 AATATATTTA
*
98963799 AAAATATTT
1 AATATATTT
98963808 TGAAATTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
AATATATTTA
Found at i:98966853 original size:17 final size:17
Alignment explanation
Indices: 98966833--98966866 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98966823 AGGTTTAGGT
98966833 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
98966850 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
98966867 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:98970839 original size:64 final size:64
Alignment explanation
Indices: 98970762--98970885 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
98970752 TCATTCGTGA
* **
98970762 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTGGTTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
98970826 CACATTTAGTTAGGATCATTTGATTCATTTCAATGATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAA
98970886 ACATAGTTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:98971097 original size:44 final size:44
Alignment explanation
Indices: 98970949--98971199 Score: 201
Period size: 44 Copynumber: 5.8 Consensus size: 44
98970939 GTGGAATTGG
*
98970949 TGAATTCACAAG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
98970992 TGAATTTACAA-ATCTTAACCCCCTAAGCAGTAAGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * ** * *
98971034 TCGAAGATGA-TGGGCCTTAAAACCCTAAGCAGTAGGGTAACAGGC
1 T-GAA-TTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
98971079 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * *
98971122 TCGAA--GGCGATGAACCTTAAACCCTTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-AAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * *
98971167 TGAATTTACAAGATCTTAACCCCCTAAGAAGTA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTA
98971200 TGGAAATAGA
Statistics
Matches: 154, Mismatches: 42, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
42 3 0.02
43 43 0.28
44 101 0.66
45 6 0.04
46 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (44 bp):
TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:98971118 original size:88 final size:88
Alignment explanation
Indices: 98970961--98971258 Score: 474
Period size: 88 Copynumber: 3.4 Consensus size: 88
98970951 AATTCACAAG
*
98970961 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGTAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAA
** *
98971025 GGAAACAGATCGAAGATGATGGG
66 GGAAACAGATCGAAGGCGATGGA
*
98971048 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAA
*
98971113 GGAAACAGATCGAAGGCGATGAA
66 GGAAACAGATCGAAGGCGATGGA
*
98971136 CCTT-AAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGAAGTA
1 CCTTAAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
* *
98971200 TGGAAATAGATCGAAGGCGATGGA
65 AGGAAACAGATCGAAGGCGATGGA
* *
98971224 CCTTAAACCCCTAACCAGTAGGGTAACAGGCTGAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAA
98971259 AATTATAGAT
Statistics
Matches: 196, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
87 47 0.24
88 144 0.73
89 5 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (88 bp):
CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAA
GGAAACAGATCGAAGGCGATGGA
Found at i:98971675 original size:186 final size:186
Alignment explanation
Indices: 98971361--98971731 Score: 733
Period size: 186 Copynumber: 2.0 Consensus size: 186
98971351 ATGTCTTATC
*
98971361 TTCTTGAAGCTGCAACAGACTGAAGATAGCAGATCTTATTTCTCTGAAGCTGCAATAGAGCAAAG
1 TTCTTGAAGCTGCAACAGAATGAAGATAGCAGATCTTATTTCTCTGAAGCTGCAATAGAGCAAAG
98971426 TAAAGTGACAAGCCACAGTAGACTGCAATGAGACTAGCCGAAGAAGAGAAGCACCAAAAGTTAAG
66 TAAAGTGACAAGCCACAGTAGACTGCAATGAGACTAGCCGAAGAAGAGAAGCACCAAAAGTTAAG
98971491 ACTCGGCGAAACCGACCAAAATTGGCCCTTTTAAAGTCTTTGCTCTATTCCCGTTT
131 ACTCGGCGAAACCGACCAAAATTGGCCCTTTTAAAGTCTTTGCTCTATTCCCGTTT
98971547 TTCTTGAAGCTGCAACAGAATGAAGATAGCAGATCTTATTTCTCTGAAGCTGCAATAGAGCAAAG
1 TTCTTGAAGCTGCAACAGAATGAAGATAGCAGATCTTATTTCTCTGAAGCTGCAATAGAGCAAAG
98971612 TAAAGTGACAAGCCACAGTAGACTGCAATGAGACTAGCCGAAGAAGAGAAGCACCAAAAGTTAAG
66 TAAAGTGACAAGCCACAGTAGACTGCAATGAGACTAGCCGAAGAAGAGAAGCACCAAAAGTTAAG
98971677 ACTCGGCGAAACCGACCAAAATTGGCCCTTTTAAAGTCTTTGCTCTATTCCCGTT
131 ACTCGGCGAAACCGACCAAAATTGGCCCTTTTAAAGTCTTTGCTCTATTCCCGTT
98971732 ACACGACAAT
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 184 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (186 bp):
TTCTTGAAGCTGCAACAGAATGAAGATAGCAGATCTTATTTCTCTGAAGCTGCAATAGAGCAAAG
TAAAGTGACAAGCCACAGTAGACTGCAATGAGACTAGCCGAAGAAGAGAAGCACCAAAAGTTAAG
ACTCGGCGAAACCGACCAAAATTGGCCCTTTTAAAGTCTTTGCTCTATTCCCGTTT
Found at i:98972542 original size:12 final size:12
Alignment explanation
Indices: 98972527--98972574 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
98972517 TATTTATCTC
98972527 TTTATATTTATG
1 TTTATATTTATG
98972539 TTTATATTTTATG
1 TTTATA-TTTATG
** *
98972552 TATTATACATATC
1 T-TTATATTTATG
98972565 TTTATATTTA
1 TTTATATTTA
98972575 CACATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:98972755 original size:22 final size:22
Alignment explanation
Indices: 98972727--98972768 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
98972717 TAACGTGCTA
* *
98972727 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
98972749 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
98972769 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:98979055 original size:11 final size:10
Alignment explanation
Indices: 98979009--98979059 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
98978999 TTGTTAAACG
*
98979009 TGATTGATTA
1 TGATTAATTA
98979019 TGATTAATTAA
1 TGATTAATT-A
*
98979030 AGATTAATTA
1 TGATTAATTA
*
98979040 -GTTTAATTA
1 TGATTAATTA
*
98979049 TGATTTATTA
1 TGATTAATTA
98979059 T
1 T
98979060 ATAATAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
10 17 0.50
11 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (10 bp):
TGATTAATTA
Found at i:98980486 original size:20 final size:20
Alignment explanation
Indices: 98980461--98980502 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
98980451 TATCAGAGCT
98980461 ACAAATTAACCGATTCTAAG
1 ACAAATTAACCGATTCTAAG
*
98980481 ACAAATTAGCCGATTCTAAG
1 ACAAATTAACCGATTCTAAG
98980501 AC
1 AC
98980503 TGGAACGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAAATTAACCGATTCTAAG
Found at i:98984292 original size:36 final size:36
Alignment explanation
Indices: 98984252--98984324 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
98984242 GAACAGTCTT
98984252 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
1 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
98984288 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
1 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
98984324 A
1 A
98984325 GTATATTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (36 bp):
ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
Found at i:98985229 original size:25 final size:26
Alignment explanation
Indices: 98985201--98985268 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
98985191 TCTCTAAAGT
*
98985201 TAGTGTTAGCAGCATCG-TACT-AAGC
1 TAGTGTTAGCAACATCGAT-CTGAAGC
* *
98985226 TAGTGTTAGCAACTTTGATCTGAAGC
1 TAGTGTTAGCAACATCGATCTGAAGC
98985252 TAGTGTTAGCAAC-TCGA
1 TAGTGTTAGCAACATCGA
98985269 ATATGTTAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 19 0.51
26 18 0.49
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (26 bp):
TAGTGTTAGCAACATCGATCTGAAGC
Found at i:98989029 original size:22 final size:22
Alignment explanation
Indices: 98989004--98989046 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
98988994 TGTTTAATAA
*
98989004 TATAAAACAGTCTAATAATTAC
1 TATAAAAAAGTCTAATAATTAC
98989026 TATAAAAAAGTCTAATAATTA
1 TATAAAAAAGTCTAATAATTA
98989047 AAGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (22 bp):
TATAAAAAAGTCTAATAATTAC
Found at i:98989602 original size:40 final size:40
Alignment explanation
Indices: 98989547--98989653 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
98989537 TTGGTTGATG
*
98989547 AGAAAATGTAAGAAAATCTGGTAAAAATTATTTGATGAGA
1 AGAAAATATAAGAAAATCTGGTAAAAATTATTTGATGAGA
* * * * *
98989587 ATAAAATATACGAAAATTTGGTAAAATTTGTTTGATGAGA
1 AGAAAATATAAGAAAATCTGGTAAAAATTATTTGATGAGA
*
98989627 AGAAAATATTAAAAAAATCTGGTAAAA
1 AGAAAATA-TAAGAAAATCTGGTAAAA
98989654 TCAACACTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 41 0.73
41 15 0.27
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (40 bp):
AGAAAATATAAGAAAATCTGGTAAAAATTATTTGATGAGA
Found at i:98990253 original size:33 final size:33
Alignment explanation
Indices: 98990211--98990277 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
98990201 AAGTGAAAAG
98990211 TAGTTCTCTATCTACTTATCATTTTCCATACTT
1 TAGTTCTCTATCTACTTATCATTTTCCATACTT
98990244 TAGTTCTCTATCTACTTATCATTTTCCATACTT
1 TAGTTCTCTATCTACTTATCATTTTCCATACTT
98990277 T
1 T
98990278 TTCATTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (33 bp):
TAGTTCTCTATCTACTTATCATTTTCCATACTT
Found at i:98994106 original size:43 final size:43
Alignment explanation
Indices: 98994058--98994140 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
98994048 GTAAAAAAAC
*
98994058 ATATGAAACAATATACTCAAAATACAAATAACCTTGTTTAGCA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAGCA
98994101 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTA
98994141 ATAATCATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.29
Consensus pattern (43 bp):
ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAGCA
Found at i:98994552 original size:21 final size:21
Alignment explanation
Indices: 98994518--98994557 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
98994508 TAAAAAAATC
*
98994518 AAAATTAATAATG-TATATAA
1 AAAATAAATAATGTTATATAA
98994538 AAAATAAAGTAATGTTATAT
1 AAAATAAA-TAATGTTATAT
98994558 GAGTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAATAAATAATGTTATATAA
Found at i:98995924 original size:21 final size:23
Alignment explanation
Indices: 98995900--98995943 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
98995890 TTTACCCTTT
98995900 TTCCTT-CCCTAA-ATGCAGCCG
1 TTCCTTACCCTAATATGCAGCCG
98995921 TTCCTTCACCCTAATATGCAGCC
1 TTCCTT-ACCCTAATATGCAGCC
98995944 CCCAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.20, C:0.39, G:0.11, T:0.30
Consensus pattern (23 bp):
TTCCTTACCCTAATATGCAGCCG
Found at i:98996962 original size:21 final size:20
Alignment explanation
Indices: 98996933--98996973 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
98996923 TTTATTTTGG
* *
98996933 TTTATTTTTTTGTTTGTTTTT
1 TTTAATTTTTTGGTT-TTTTT
98996954 TTTAATTTTTTGGTTTTTTT
1 TTTAATTTTTTGGTTTTTTT
98996974 GGTTTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (20 bp):
TTTAATTTTTTGGTTTTTTT
Found at i:98996979 original size:17 final size:15
Alignment explanation
Indices: 98996921--98996973 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
98996911 ACTTTTATTG
*
98996921 TTTTTATTTTGGTTT
1 TTTTTTTTTTGGTTT
*
98996936 ATTTTTTTGTTTGTTTT
1 -TTTTTTT-TTTGGTTT
98996953 TTTTAATTTTTTGGTTT
1 TTTT--TTTTTTGGTTT
98996970 TTTT
1 TTTT
98996974 GGTTTTCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.32
17 18 0.58
18 3 0.10
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTTGGTTT
Found at i:98998835 original size:25 final size:23
Alignment explanation
Indices: 98998798--98998847 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
98998788 AAATGCATTT
98998798 TTGTTCTAAAAAGATTTTAAAATTA
1 TTGTTCTAAAAAG--TTTAAAATTA
* *
98998823 TTGTTGTATAAAGTTTAAAATTA
1 TTGTTCTAAAAAGTTTAAAATTA
98998846 TT
1 TT
98998848 CATATCCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
25 11 0.48
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (23 bp):
TTGTTCTAAAAAGTTTAAAATTA
Found at i:99003166 original size:18 final size:18
Alignment explanation
Indices: 99003143--99003178 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
99003133 ACAAGAGAGG
99003143 GAAAAGAGAAGAAAGAAA
1 GAAAAGAGAAGAAAGAAA
*
99003161 GAAAAGAGGAGAAAGAAA
1 GAAAAGAGAAGAAAGAAA
99003179 AGGTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAAGAGAAGAAAGAAA
Found at i:99005561 original size:18 final size:18
Alignment explanation
Indices: 99005538--99005602 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
99005528 AGAACGTGTC
99005538 ATTCATTTTCATAACGTT
1 ATTCATTTTCATAACGTT
* *
99005556 ATTCATTATT-ATAAAGCT
1 ATTCATT-TTCATAACGTT
* *
99005574 ATAC-TATTTCAAAACGTT
1 ATTCAT-TTTCATAACGTT
*
99005592 ATTAATTTTCA
1 ATTCATTTTCA
99005603 AAATATCACT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
17 3 0.09
18 29 0.83
19 3 0.09
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTCATTTTCATAACGTT
Found at i:99015798 original size:64 final size:64
Alignment explanation
Indices: 99015677--99015957 Score: 476
Period size: 64 Copynumber: 4.4 Consensus size: 64
99015667 AGTCCATGTG
* * * * *
99015677 ATTTATATAAAAAAAATTATATTACAAAGTTTGTTCCAATT--TTTAATGTTGTAATGTATTTA
1 ATTTATATAACAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
*
99015739 ATTTATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
1 ATTTATATAACAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
*
99015803 ATTTATATAACAAAATTTATATTACAATGTTTATTTCAATTAGATTAATGTTGTAATGTATTTA
1 ATTTATATAACAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
*
99015867 ATTTATATAACAAAATTTATATTACAATGTTTATTTCAATTAGATTAATGTTGTAATGTATTTA
1 ATTTATATAACAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
99015931 ATTTATATAACAAAATTTATATTACAA
1 ATTTATATAACAAAATTTATATTACAA
99015958 AACTAAGTTT
Statistics
Matches: 211, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
62 38 0.18
64 173 0.82
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (64 bp):
ATTTATATAACAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
Found at i:99015949 original size:14 final size:14
Alignment explanation
Indices: 99015930--99015959 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99015920 TAATGTATTT
99015930 AATTTATATAACAA
1 AATTTATATAACAA
*
99015944 AATTTATATTACAA
1 AATTTATATAACAA
99015958 AA
1 AA
99015960 CTAAGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:99016360 original size:33 final size:33
Alignment explanation
Indices: 99016323--99016553 Score: 171
Period size: 33 Copynumber: 7.0 Consensus size: 33
99016313 CTTGAGCCGG
*
99016323 GAGGAGTGCCATACTAG-GGTGGATACGACCCAA
1 GAGGAGTGCCATACT-GCGGTGGATACGAGCCAA
* * *
99016356 GAGGAGTG-GAGTACTACGGTGGATACCG-GCCAG
1 GAGGAGTGCCA-TACTGCGGTGGATA-CGAGCCAA
* * ****
99016389 GAGGAGTGCCATGCTGTGGTGGATACGAGTTGG
1 GAGGAGTGCCATACTGCGGTGGATACGAGCCAA
* * * *
99016422 GAGGAGTGCCATACTGCGGTGGATATGGGCTAG
1 GAGGAGTGCCATACTGCGGTGGATACGAGCCAA
* * *
99016455 GAGGAGTGCCATAATGCGGTGGATACGGGTCAA
1 GAGGAGTGCCATACTGCGGTGGATACGAGCCAA
** * * * *
99016488 GAGGAGTGCTGTACTACGGTGGATACTAGTCGA
1 GAGGAGTGCCATACTGCGGTGGATACGAGCCAA
* ** *
99016521 GAGGAATGCTGTACTGCGGTGGATACGACCCAA
1 GAGGAGTGCCATACTGCGGTGGATACGAGCCAA
99016554 AGATATCAAA
Statistics
Matches: 158, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
32 3 0.02
33 152 0.96
34 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.39, T:0.19
Consensus pattern (33 bp):
GAGGAGTGCCATACTGCGGTGGATACGAGCCAA
Found at i:99016525 original size:66 final size:67
Alignment explanation
Indices: 99016322--99016548 Score: 221
Period size: 66 Copynumber: 3.4 Consensus size: 67
99016312 ACTTGAGCCG
** * *
99016322 GGAGGAGTGCCATACTAG-GGTGGATACGACCCAAGAGGAGTGGAGTACTACGGTGGATAC-CGG
1 GGAGGAGTGCCATACT-GCGGTGGATACGAGTCAAGAGGAGTGCAGTACTACGGTGGATACTAGG
99016385 CCA
65 CCA
* * *** * *
99016388 GGAGGAGTGCCATGCTGTGGTGGATACGAGTTGGGAGGAGTGCCA-TACTGCGGTGGATA-TGGG
1 GGAGGAGTGCCATACTGCGGTGGATACGAGTCAAGAGGAGTG-CAGTACTACGGTGGATACTAGG
*
99016451 CTA
65 CCA
* * * *
99016454 GGAGGAGTGCCATAATGCGGTGGATACGGGTCAAGAGGAGTGCTGTACTACGGTGGATACTAGTC
1 GGAGGAGTGCCATACTGCGGTGGATACGAGTCAAGAGGAGTGCAGTACTACGGTGGATACTAGGC
*
99016519 GA
66 CA
* **
99016521 -GAGGAATGCTGTACTGCGGTGGATACGA
1 GGAGGAGTGCCATACTGCGGTGGATACGA
99016549 CCCAAAGATA
Statistics
Matches: 129, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
65 2 0.02
66 122 0.95
67 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.40, T:0.20
Consensus pattern (67 bp):
GGAGGAGTGCCATACTGCGGTGGATACGAGTCAAGAGGAGTGCAGTACTACGGTGGATACTAGGC
CA
Found at i:99017370 original size:14 final size:14
Alignment explanation
Indices: 99017351--99017377 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99017341 AAATTACATA
99017351 TTAGAATAGTATCG
1 TTAGAATAGTATCG
99017365 TTAGAATAGTATC
1 TTAGAATAGTATC
99017378 ATTAAAAAGA
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:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (14 bp):
TTAGAATAGTATCG
Found at i:99018704 original size:104 final size:109
Alignment explanation
Indices: 99018569--99018785 Score: 295
Period size: 104 Copynumber: 2.0 Consensus size: 109
99018559 AATAAAAAAA
* * * *
99018569 TTATATTAAAATACTAAAAATAATATGCCAATAA-AAAATATATAA-ATAAA-TA-AAATAA-AT
1 TTATATTAAAATACTAAAAATAACATACCAATAACAAAA-ACATAACATAAACGATAAATAATA-
*
99018629 GATACGAATA-TTATTATTATTTTAAAATGATAATAAGTAAA-ATT
64 AATACGAATATTTATTATTATTTTAAAATGATAATAAGTAAACATT
*
99018673 TTATATTAAAATACTAAAAATAACATACCAATAACAAAAACATAACATAAACGATACATAATAAA
1 TTATATTAAAATACTAAAAATAACATACCAATAACAAAAACATAACATAAACGATAAATAATAAA
99018738 TACGAATATTTTTATTATTATTTTAAAATGATAATAAGTAAACATT
66 TACGAATA--TTTATTATTATTTTAAAATGATAATAAGTAAACATT
99018784 TT
1 TT
99018786 TAGTTTAAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
104 37 0.38
105 9 0.09
106 1 0.01
107 14 0.14
108 1 0.01
110 31 0.32
111 5 0.05
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (109 bp):
TTATATTAAAATACTAAAAATAACATACCAATAACAAAAACATAACATAAACGATAAATAATAAA
TACGAATATTTATTATTATTTTAAAATGATAATAAGTAAACATT
Found at i:99019710 original size:5 final size:5
Alignment explanation
Indices: 99019700--99019732 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
99019690 ACCAATACCA
99019700 TTATT TTATT TTATT TTATT TTATT TTACTT TT
1 TTATT TTATT TTATT TTATT TTATT TTA-TT TT
99019733 TTTGTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:99022591 original size:21 final size:20
Alignment explanation
Indices: 99022562--99022614 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
99022552 AAAAAAGGTG
*
99022562 ATTCTTTTGTTTTTTTCTTCT
1 ATTCTTTTGTTTTCTT-TTCT
*
99022583 ATTCGTTTGGTTTTCTTTTCT
1 ATTC-TTTTGTTTTCTTTTCT
99022604 A-TCTTTTGTTT
1 ATTCTTTTGTTT
99022615 CAATAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.25
20 2 0.07
21 9 0.32
22 10 0.36
ACGTcount: A:0.06, C:0.13, G:0.09, T:0.72
Consensus pattern (20 bp):
ATTCTTTTGTTTTCTTTTCT
Found at i:99022624 original size:3 final size:3
Alignment explanation
Indices: 99022616--99022671 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
99022606 CTTTTGTTTC
99022616 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
99022664 AAT AAT AA
1 AAT AAT AA
99022672 AGGAAGCTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:99022703 original size:11 final size:12
Alignment explanation
Indices: 99022687--99022716 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
99022677 GCTTTTTTGC
99022687 CTTTTTTTCTAT
1 CTTTTTTTCTAT
99022699 CTTTTTTTCTAT
1 CTTTTTTTCTAT
99022711 CTTTTT
1 CTTTTT
99022717 ATTGCCGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTTTTCTAT
Found at i:99023439 original size:4 final size:4
Alignment explanation
Indices: 99023430--99023471 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
99023420 GATTAAGTCC
* *
99023430 TTTA TTTA TTTA TTTA TTTA TTTA CTTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
99023472 AGTTCTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:99023587 original size:17 final size:18
Alignment explanation
Indices: 99023567--99023607 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
99023557 TGTGCCATTA
99023567 TTATTTTTATC-AT-TATT
1 TTATTTTTATCTATATA-T
*
99023584 TTATTATTATCTATATAT
1 TTATTTTTATCTATATAT
99023602 TTATTT
1 TTATTT
99023608 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 8 0.40
19 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTTATCTATATAT
Found at i:99023608 original size:4 final size:4
Alignment explanation
Indices: 99023599--99023624 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
99023589 ATTATCTATA
99023599 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
99023625 CACATACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:99023886 original size:12 final size:12
Alignment explanation
Indices: 99023869--99023895 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
99023859 TAAAATAGGG
99023869 TTTTAGCGGCGT
1 TTTTAGCGGCGT
99023881 TTTTAGCGGCGT
1 TTTTAGCGGCGT
99023893 TTT
1 TTT
99023896 ATCAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:99024170 original size:41 final size:41
Alignment explanation
Indices: 99023931--99024171 Score: 308
Period size: 41 Copynumber: 5.9 Consensus size: 41
99023921 AAACACAGAT
* ** * *
99023931 CAATAGCGGCGTTTTTGGTAAAACGCCATTAAAA-ACAGAG
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAG
* * * *
99023971 CAATAGCGGCACTTTTTGTTAAAACGCCGCTAAAA-ACAGAG
1 CAATAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAGTCGGAG
* *
99024012 CAATAGCGGCACTTTCGGTAAAACGCCGCTAAAAGTCGGAG
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAG
99024053 CAATAGCGGCGCTTTCT-GTAAAACGCCGCTAAAAGTCGGAG
1 CAATAGCGGCGCTTT-TGGTAAAACGCCGCTAAAAGTCGGAG
*
99024094 CAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCGGAG
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAG
* * *
99024135 CATTAGCGGTGCTTTTGATAAAACGCCGCTAAAAGTC
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
99024172 ATATAACCCC
Statistics
Matches: 181, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
40 30 0.17
41 151 0.83
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (41 bp):
CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAG
Found at i:99024405 original size:7 final size:7
Alignment explanation
Indices: 99024393--99024456 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
99024383 TTTATTTTTT
*
99024393 GGTTTAC
1 GGTTTAA
99024400 GGTTTAA
1 GGTTTAA
**
99024407 TATTTAA
1 GGTTTAA
99024414 GGTTTAA
1 GGTTTAA
* *
99024421 GGTCTAT
1 GGTTTAA
*
99024428 GGTTTAG
1 GGTTTAA
*
99024435 GGTTTTAT
1 GG-TTTAA
99024443 GGTTTAA
1 GGTTTAA
99024450 GGTTTAA
1 GGTTTAA
99024457 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:99024445 original size:15 final size:15
Alignment explanation
Indices: 99024409--99024459 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
99024399 CGGTTTAATA
*
99024409 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
99024423 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
99024438 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
99024453 TTAATGG
1 TTTATGG
99024460 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:99025068 original size:8 final size:8
Alignment explanation
Indices: 99025055--99025136 Score: 100
Period size: 8 Copynumber: 10.8 Consensus size: 8
99025045 AAATAAACTC
99025055 AAAATTTA
1 AAAATTTA
99025063 AAAATTTA
1 AAAATTTA
99025071 AAAATTTA
1 AAAATTTA
99025079 AAAATTTA
1 AAAATTTA
99025087 AAAA-TT-
1 AAAATTTA
99025093 AAAATTTA
1 AAAATTTA
99025101 AAAA--TA
1 AAAATTTA
* *
99025107 AAAAATAA
1 AAAATTTA
*
99025115 AAAACTTA
1 AAAATTTA
*
99025123 AAAACTTA
1 AAAATTTA
99025131 AAAATT
1 AAAATT
99025137 AATATTTTAG
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
6 10 0.15
7 4 0.06
8 52 0.79
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATTTA
Found at i:99025099 original size:30 final size:32
Alignment explanation
Indices: 99025055--99025136 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 32
99025045 AAATAAACTC
* * *
99025055 AAAATTTAAAAATTTAAAAATTTAAAAATTTA
1 AAAACTTAAAAATTTAAAAATTTAAAAAATAA
99025087 AAAA-TT-AAAATTTAAAAA--TAAAAAATAA
1 AAAACTTAAAAATTTAAAAATTTAAAAAATAA
*
99025115 AAAACTTAAAAACTTAAAAATT
1 AAAACTTAAAAATTTAAAAATT
99025137 AATATTTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
28 12 0.28
29 2 0.05
30 23 0.53
31 2 0.05
32 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (32 bp):
AAAACTTAAAAATTTAAAAATTTAAAAAATAA
Found at i:99027893 original size:19 final size:21
Alignment explanation
Indices: 99027865--99027912 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
99027855 TAATTATTTA
99027865 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
99027885 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
99027905 TTTTAGTT
1 TTTTAGTT
99027913 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:99028011 original size:27 final size:28
Alignment explanation
Indices: 99027976--99028029 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
99027966 TATTTTGATA
*
99027976 ATGAATTTTA-AATTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATTTTTC
* *
99028003 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
99028030 TAAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:99028047 original size:17 final size:19
Alignment explanation
Indices: 99027990--99028049 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 19
99027980 ATTTTAAATT
*
99027990 TTTTAT-ATTTTTCATGAC
1 TTTTATAATATTTCATGAC
* *
99028008 TTTTATAATATTTTAT--T
1 TTTTATAATATTTCATGAC
* *
99028025 TTTTTTAAAATTTCATGAC
1 TTTTATAATATTTCATGAC
99028044 TTTTAT
1 TTTTAT
99028050 CGGCATTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
17 13 0.42
18 6 0.19
19 12 0.39
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTATAATATTTCATGAC
Found at i:99029173 original size:10 final size:10
Alignment explanation
Indices: 99029141--99029174 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
99029131 TAAAACATGT
99029141 AAAAAATTTA
1 AAAAAATTTA
99029151 AAATAATATTTA
1 AAA-AA-ATTTA
99029163 AAAAAATTTA
1 AAAAAATTTA
99029173 AA
1 AA
99029175 TCTTTTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:99032987 original size:5 final size:5
Alignment explanation
Indices: 99032977--99033015 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
99032967 ATATATGTCA
99032977 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
99033016 AAGCACAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:99033634 original size:18 final size:18
Alignment explanation
Indices: 99033611--99033645 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99033601 TCAAATACAT
*
99033611 TTAAAAACATAAAAAATA
1 TTAAAAAAATAAAAAATA
99033629 TTAAAAAAATAAAAAAT
1 TTAAAAAAATAAAAAAT
99033646 GATACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TTAAAAAAATAAAAAATA
Found at i:99037340 original size:19 final size:17
Alignment explanation
Indices: 99037316--99037362 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
99037306 AATTAAAGTA
*
99037316 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
99037335 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
99037352 AT-AAAAATATA
1 ATAAAAAATATA
99037363 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:99037358 original size:18 final size:19
Alignment explanation
Indices: 99037319--99037367 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
99037309 TAAAGTAATA
*
99037319 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
99037337 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
99037354 AAAAATATACACTA
1 AAAAATATATACTA
99037368 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:99037594 original size:3 final size:3
Alignment explanation
Indices: 99037581--99037663 Score: 54
Period size: 3 Copynumber: 28.3 Consensus size: 3
99037571 GAGGGCATAT
99037581 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
99037625 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
99037664 AAAATAAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 13 0.20
3 43 0.66
4 7 0.11
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:99037607 original size:18 final size:18
Alignment explanation
Indices: 99037586--99037663 Score: 70
Period size: 18 Copynumber: 4.2 Consensus size: 18
99037576 CATATATAAT
99037586 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
99037604 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
99037625 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
99037643 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
99037660 ATAA
1 ATAA
99037664 AAAATAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
16 4 0.08
17 7 0.14
18 18 0.36
19 5 0.10
20 5 0.10
21 11 0.22
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:99038122 original size:38 final size:38
Alignment explanation
Indices: 99038080--99038162 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
99038070 TGGGGTGGTT
* *
99038080 TAGGTGGCTAAGGTAGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTAGGTCGCCAACAAGGGTGGTGGAG
*
99038118 TAGGTGGCCAAGGTGGGTCGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTAGGTCGCCAACAAGGGTGGTGGAG
99038156 TAGGTGG
1 TAGGTGG
99038163 GATTAGGGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.22, C:0.12, G:0.48, T:0.18
Consensus pattern (38 bp):
TAGGTGGCCAAGGTAGGTCGCCAACAAGGGTGGTGGAG
Found at i:99038688 original size:68 final size:68
Alignment explanation
Indices: 99038571--99038841 Score: 409
Period size: 68 Copynumber: 4.0 Consensus size: 68
99038561 GCTTCGATTA
* * ** *
99038571 ATCCACTAAAACTTCAAGGAAATCTGTTGTGGCTTTTAGCTGCTCCAACGCCATTTCAGGAAGAA
1 ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
99038636 GAG
66 GAG
* ** * *
99038639 ATTCACTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATATCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
99038704 GAG
66 GAG
*
99038707 ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACACCATTTCAGGGAA-A
1 ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGA
99038771 AGAG
65 AGAG
* *
99038775 ACCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
99038840 GA
66 GA
99038842 TATTTGATTT
Statistics
Matches: 186, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
67 3 0.02
68 180 0.97
69 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (68 bp):
ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAA
GAG
Found at i:99047480 original size:72 final size:72
Alignment explanation
Indices: 99047363--99047504 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
99047353 GGTATAGTAG
*
99047363 CTGTGTTCGGTTGCTTGATTCTCGTTGGTTTCCAGATTAACTGAAATAATTTTGTTTAATCAGGG
1 CTGTGTTCGATTGCTTGATTCTCGTTGGTTTCCAGATTAACTGAAATAATTTTGTTTAATCAGGG
99047428 TTCTTGA
66 TTCTTGA
*
99047435 CTGTGTTCGATTGCTTGATTCTCGTTGGTTTCTAGATTAACTGAAATAATTTTGTTTAATCAGGG
1 CTGTGTTCGATTGCTTGATTCTCGTTGGTTTCCAGATTAACTGAAATAATTTTGTTTAATCAGGG
99047500 TTCTT
66 TTCTT
99047505 TAGTGAAAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.20, C:0.13, G:0.21, T:0.46
Consensus pattern (72 bp):
CTGTGTTCGATTGCTTGATTCTCGTTGGTTTCCAGATTAACTGAAATAATTTTGTTTAATCAGGG
TTCTTGA
Found at i:99047558 original size:19 final size:19
Alignment explanation
Indices: 99047516--99047562 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
99047506 AGTGAAAGTT
*
99047516 TAATGCAAATGTTTCAATG
1 TAATGCAAATGTTGCAATG
*
99047535 TAATGCAAATGTATGGAATG
1 TAATGCAAATGT-TGCAATG
99047555 -AATGCAAA
1 TAATGCAAA
99047563 AGAAAGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (19 bp):
TAATGCAAATGTTGCAATG
Found at i:99050282 original size:18 final size:18
Alignment explanation
Indices: 99050261--99050303 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
99050251 TAGGGGTGAT
99050261 AATAATA-ATAATACAAAC
1 AATAATACAT-ATACAAAC
* *
99050279 AATAATACATATATATAC
1 AATAATACATATACAAAC
99050297 AATAATA
1 AATAATA
99050304 GTAGTCAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAATACATATACAAAC
Found at i:99051338 original size:26 final size:26
Alignment explanation
Indices: 99051268--99051362 Score: 115
Period size: 26 Copynumber: 3.8 Consensus size: 26
99051258 GGACTCACCA
* *
99051268 CAGCTCGTATGAGCTTACAGATATAT
1 CAGCTCGTAAGAGCTTACCGATATAT
*
99051294 CAGCTCATAAGAGCTTACCGATATAT
1 CAGCTCGTAAGAGCTTACCGATATAT
*
99051320 TAGCTCGTAAGAGCTTACC-AT-T-T
1 CAGCTCGTAAGAGCTTACCGATATAT
* *
99051343 CAACTCGAAAGAGCTTACCG
1 CAGCTCGTAAGAGCTTACCG
99051363 TTTCAACTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 17 0.28
24 1 0.02
25 2 0.03
26 40 0.67
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (26 bp):
CAGCTCGTAAGAGCTTACCGATATAT
Found at i:99051354 original size:23 final size:23
Alignment explanation
Indices: 99051323--99051409 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
99051313 GATATATTAG
*
99051323 CTCGTAAGAGCTTACCATTTCAA
1 CTCGAAAGAGCTTACCATTTCAA
*
99051346 CTCGAAAGAGCTTACCGTTTCAA
1 CTCGAAAGAGCTTACCATTTCAA
* * *
99051369 CTCAAAAGAGCTTACTATTTCAG
1 CTCGAAAGAGCTTACCATTTCAA
*
99051392 CTTGAAAAAGAGCTTACC
1 CTCG--AAAGAGCTTACC
99051410 GATCATGGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 42 0.79
25 11 0.21
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (23 bp):
CTCGAAAGAGCTTACCATTTCAA
Found at i:99058040 original size:60 final size:59
Alignment explanation
Indices: 99057975--99058101 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 59
99057965 ATTGAATAGT
* **
99057975 TTGAGTG-TCCATTTTGTAATTTTTCATAGTTAGATGAGTAAAAGAAAATTTTACTAATAC
1 TTGAGTGAT-CATTTTGTAACTTTTCATAGTTAGATGAAAAAAAGAAAA-TTTACTAATAC
* * * *
99058035 TTGAGTGATCATTTTGTAACTTTTCCTAGTTGGATGAAAAAAATAAAATTTACTAATAG
1 TTGAGTGATCATTTTGTAACTTTTCATAGTTAGATGAAAAAAAGAAAATTTACTAATAC
99058094 TTGAGTGA
1 TTGAGTGA
99058102 CTATTAGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 18 0.31
60 40 0.68
61 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (59 bp):
TTGAGTGATCATTTTGTAACTTTTCATAGTTAGATGAAAAAAAGAAAATTTACTAATAC
Found at i:99058624 original size:37 final size:35
Alignment explanation
Indices: 99058582--99058653 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 35
99058572 AAAAAATTAA
99058582 TGTTTTAGCCAATATTCCATTAAAAAACATTAATTTG
1 TGTTTTAGCCAATATTCCATTAAAAAA-A-TAATTTG
*
99058619 TGTTTTAGCCCATATTCCATTAAAAAAATAATTTG
1 TGTTTTAGCCAATATTCCATTAAAAAAATAATTTG
99058654 ACTCTTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 7 0.21
36 1 0.03
37 26 0.76
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (35 bp):
TGTTTTAGCCAATATTCCATTAAAAAAATAATTTG
Found at i:99059209 original size:25 final size:27
Alignment explanation
Indices: 99059152--99059201 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
99059142 TAAAAGATAA
* *
99059152 AATTATACTTTGATCTTTCTAAAAAAT
1 AATTATACTTTAATCTCTCTAAAAAAT
99059179 AATTATA-TTTAATCTCTC-AAAAA
1 AATTATACTTTAATCTCTCTAAAAA
99059202 TTTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 9 0.43
27 7 0.33
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTATACTTTAATCTCTCTAAAAAAT
Found at i:99063350 original size:26 final size:26
Alignment explanation
Indices: 99063319--99063426 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
99063309 TGAAATGCCC
*
99063319 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
99063345 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
99063371 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
99063397 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99063423 ATCA
1 ATCA
99063427 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99067340 original size:26 final size:26
Alignment explanation
Indices: 99067289--99067341 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
99067279 TCAAACATGC
*
99067289 ATTTAGGTCAATTTAACTCTATGGGT
1 ATTTAGGTCAATTTAACTCTAGGGGT
* *
99067315 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACT-CTAGGGGT
99067341 A
1 A
99067342 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCTAGGGGT
Found at i:99068863 original size:26 final size:26
Alignment explanation
Indices: 99068827--99068910 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
99068817 CATGAAATTC
99068827 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
99068853 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
99068879 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
99068905 TTATCA
1 TTATCA
99068911 ATTTGTAGCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:99073586 original size:34 final size:34
Alignment explanation
Indices: 99073543--99073611 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 34
99073533 ACAATGTGTC
99073543 TACTTTGTATAATAACCTTAATTTGGG-CCTTGAT
1 TACTTTGTATAATAACCTTAATTTGGGTCC-TGAT
99073577 TACTTTGTATAATAACCTTAATTTGGGTCCTGAT
1 TACTTTGTATAATAACCTTAATTTGGGTCCTGAT
99073611 T
1 T
99073612 TTGAGATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (34 bp):
TACTTTGTATAATAACCTTAATTTGGGTCCTGAT
Found at i:99075147 original size:27 final size:27
Alignment explanation
Indices: 99075117--99075169 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
99075107 ACTTGTGAAA
99075117 TTAA-TTTAATTTATTATTTTT-ATTTTT
1 TTAAGTTT-ATTT-TTATTTTTCATTTTT
*
99075144 TTAAGTTTATTTTTGTTTTTCATTTT
1 TTAAGTTTATTTTTATTTTTCATTTT
99075170 AGTTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.30
27 13 0.57
28 3 0.13
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (27 bp):
TTAAGTTTATTTTTATTTTTCATTTTT
Found at i:99076660 original size:45 final size:45
Alignment explanation
Indices: 99076502--99076661 Score: 124
Period size: 45 Copynumber: 3.6 Consensus size: 45
99076492 AAAGGATACT
* * * * * * * **
99076502 ATAACGTCTTTCAACTATGATCTTAGTCCTATTTACCATGATACC
1 ATAACATCTTTCAACTATGGTCTTAATCATCTATATCATGATGTC
* ** * *
99076547 ATAGCATCTTGAAACTATGGTCTTAATCATTTATATCGTGATGTC
1 ATAACATCTTTCAACTATGGTCTTAATCATCTATATCATGATGTC
* * *
99076592 ATAGCATCTTTCAACTATTGTCTTACTCATCCT-TATCATGATGTC
1 ATAACATCTTTCAACTATGGTCTTAATCAT-CTATATCATGATGTC
* **
99076637 ATAACATCTTTTAGTTATGGTCTTA
1 ATAACATCTTTCAACTATGGTCTTA
99076662 TTTATTTTAG
Statistics
Matches: 90, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
45 89 0.99
46 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (45 bp):
ATAACATCTTTCAACTATGGTCTTAATCATCTATATCATGATGTC
Found at i:99077609 original size:26 final size:26
Alignment explanation
Indices: 99077570--99077621 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
99077560 TTTAACCATG
*
99077570 TCTAAATCAACCATTTTATTTCTCTA
1 TCTAAATCAACCATTATATTTCTCTA
* *
99077596 TCTAAATTAGCCATTATATTTCTCTA
1 TCTAAATCAACCATTATATTTCTCTA
99077622 ACTCTTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (26 bp):
TCTAAATCAACCATTATATTTCTCTA
Found at i:99077792 original size:17 final size:18
Alignment explanation
Indices: 99077770--99077804 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
99077760 GTAAGATCCC
99077770 AAAAA-TAGGGTTAGAAA
1 AAAAATTAGGGTTAGAAA
*
99077787 AAAAATTAGGGTTTGAAA
1 AAAAATTAGGGTTAGAAA
99077805 CTAAGAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
AAAAATTAGGGTTAGAAA
Done.