Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 98 of 328
Found at i:27380230 original size:46 final size:46
Alignment explanation
Indices: 27380055--27380230 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
27380045 TGTAACCCGC
* * *
27380055 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
27380101 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
27380151 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27380194 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27380231 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27387726 original size:93 final size:93
Alignment explanation
Indices: 27387614--27387785 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
27387604 CGCCCATAAG
* *
27387614 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27387679 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
27387707 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27387772 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27387786 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27387782 original size:46 final size:46
Alignment explanation
Indices: 27387607--27387782 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
27387597 TGTAACCCGC
* * *
27387607 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
27387653 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
27387703 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27387746 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27387783 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27389501 original size:2 final size:2
Alignment explanation
Indices: 27389438--27389482 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
27389428 TGCTAGCACC
27389438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27389480 AT A
1 AT A
27389483 AAAGTTTGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27390555 original size:18 final size:19
Alignment explanation
Indices: 27390532--27390567 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
27390522 GAGGGAGATG
27390532 AGAAGAAAG-AAAGAAAAT
1 AGAAGAAAGAAAAGAAAAT
27390550 AGAAGAAAGAAAAGAAAA
1 AGAAGAAAGAAAAGAAAA
27390568 GAAAAGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (19 bp):
AGAAGAAAGAAAAGAAAAT
Found at i:27390569 original size:14 final size:14
Alignment explanation
Indices: 27390537--27390571 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27390527 AGATGAGAAG
*
27390537 AAAGAAAGAAAATA
1 AAAGAAAGAAAAGA
*
27390551 GAAGAAAGAAAAGA
1 AAAGAAAGAAAAGA
27390565 AAAGAAA
1 AAAGAAA
27390572 AGGTAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAAAAGA
Found at i:27396908 original size:33 final size:33
Alignment explanation
Indices: 27396829--27396954 Score: 123
Period size: 33 Copynumber: 3.8 Consensus size: 33
27396819 ATACGACCCA
** *
27396829 GGAGGAGTGGAGTACT-ACGGTGGATACAGGCCG
1 GGAGGAGTGCTGTACTGA-GGTGGATACGGGCCG
*
27396862 GGGGGAGTGCTGTACTGAGGTGGATACGGGCCG
1 GGAGGAGTGCTGTACTGAGGTGGATACGGGCCG
* * * *
27396895 GGAGAAGTACTGTACT-AGGATGGATATGGGTCG
1 GGAGGAGTGCTGTACTGAGG-TGGATACGGGCCG
*
27396928 GGAGGAGTGCTATACTGCA-GTGGATAC
1 GGAGGAGTGCTGTACTG-AGGTGGATAC
27396955 AACCCAAAGA
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
32 3 0.04
33 70 0.92
34 2 0.03
35 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.44, T:0.20
Consensus pattern (33 bp):
GGAGGAGTGCTGTACTGAGGTGGATACGGGCCG
Found at i:27398287 original size:6 final size:6
Alignment explanation
Indices: 27398276--27398332 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
27398266 CATAGAGGCC
* * * *
27398276 GAGCCA GAGCCA GAGCCA GAG-CA CGAGCCT GAGTCT GAGCCC GAGCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA -GAGCCA GAGCCA GAGCCA GAGCCA
*
27398324 TAGCCA GAG
1 GAGCCA GAG
27398333 ACCGAGTCTG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 2 0.05
6 39 0.93
7 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.33, T:0.07
Consensus pattern (6 bp):
GAGCCA
Found at i:27398316 original size:30 final size:30
Alignment explanation
Indices: 27398282--27398345 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
27398272 GGCCGAGCCA
27398282 GAGCCAGAGCCAGAG-CACGAG-CCTGAGTCT
1 GAGCCAGAGCCAGAGCCA-GAGACC-GAGTCT
* *
27398312 GAGCCCGAGCCATAGCCAGAGACCGAGTCT
1 GAGCCAGAGCCAGAGCCAGAGACCGAGTCT
27398342 GAGC
1 GAGC
27398346 AATCGCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.27, C:0.31, G:0.33, T:0.09
Consensus pattern (30 bp):
GAGCCAGAGCCAGAGCCAGAGACCGAGTCT
Found at i:27401480 original size:652 final size:653
Alignment explanation
Indices: 27399698--27402308 Score: 4562
Period size: 648 Copynumber: 4.0 Consensus size: 653
27399688 GGATTGGGGT
*
27399698 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACGGATCGAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
* *
27399763 ACAACTTATGCATACGCAAAACATATGTCACATCATTAACTTTATTGACCAAATATTAGACCTAT
66 ACAACTTATGCATACACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
* * **
27399828 ATAGATATATATTTATATATATAATTCATACGTATAGGCCAAATCATACATCAATTGGAATAAAT
131 ATAGA-ATATA--TATATATATAAGTCACACGTATACACCAAATCATACATCAATTGGAATAAAT
27399893 TTTCATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACAT
193 TTTCATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACAT
* *
27399958 GTTTGCATCATAACATAATTTAAAACATGCATTCGTTTATAAGTAATCCACTTATACATATTTTA
258 GTTTGCATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTA
27400023 TAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCAC
323 TAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCAC
27400088 GTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAATGCTCA
388 GTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAATGCTCA
* *
27400153 TGTATATAATGCGCAACTTACTCCAAAATAAAAACTACACTTAGCATTAATTACATATTAAAAAC
453 TGTATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAAAAC
27400218 AACCGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACT
518 AACCGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACT
*
27400283 AGCATACATTCACCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATAT
583 AGCATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATAT
27400348 ACCAAG
648 ACCAAG
*
27400354 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTTATTTTACAGATCGAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
27400419 ACAACTTATGCATACACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
66 ACAACTTATGCATACACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
* * * * *
27400484 AT-G----GATATATATATAAGTTATACGTATAGACCAAATCATACATCAATTGGGATAAATTTT
131 ATAGAATATATATATATATAAGTCACACGTATACACCAAATCATACATCAATTGGAATAAATTTT
*
27400544 CATTACTAACCCTTTTATCCATGTATGTGGCATTAACGCGTTTGTCTATGTGAAATTCACATGTT
196 CATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTT
27400609 TGCATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAA
261 TGCATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAA
27400674 CTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTG
326 CTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTG
*
27400739 ACCTACCTTAGTTCAATTAACATCCATATAAACATATGGCTGAAACATACTAACAATGCTCATGT
391 ACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAATGCTCATGT
* * *
27400804 ATATAATGCGCAACTTACTCCAAAATAAAGACTATATTTAGCATTAATTACATACTAAAAACAAT
456 ATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAAAACAAC
27400869 CGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGC
521 CGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGC
*
27400934 ATACATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAACTAATATACC
586 ATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACC
27400999 AAG
651 AAG
27401002 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
* * *
27401067 ACAACTTATGCATATACAGAACATATGTCACATCATTAACTTTATTGATCGAATATTAGACCTAT
66 ACAACTTATGCATACACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
*
27401132 ATAG-ATATATATATATATAAGTCACATGTATACACCAAATCATACATCAATTGGAATAAATTTT
131 ATAGAATATATATATATATAAGTCACACGTATACACCAAATCATACATCAATTGGAATAAATTTT
*
27401196 CATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCATTTGTCTATGTGAAATTCACATGTT
196 CATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTT
*
27401261 TGCATCATAACATAATTCAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAA
261 TGCATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAA
* * * *
27401326 CTTACGATTAACTAAAAATCTATATAGCCATGCATATGCTTTGATTTATGTTCATCAACCACGTG
326 CTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTG
* *
27401391 CCCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGT
391 ACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAATGCTCATGT
* * *
27401456 ATATAATGCGCAACTTACTCCAAAATAAAGACTAGACTTACCATTAATTACATATTAAAAACAAC
456 ATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAAAACAAC
27401521 CGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGC
521 CGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGC
*
27401586 ATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATGAAAAACTAACTAATATACC
586 ATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACC
27401651 AAG
651 AAG
* *
27401654 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
1 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
*
27401719 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
66 ACAACTTATGCATACACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
* *
27401784 ATAGATATATATATATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAA
131 ATAG----A-ATATATATATATATAAGTCACACGTATACACCAAATCATACATCAATTGGAATAA
* * * *
27401849 ATTTTCATTACTAACCCTTTTATCCATGTATGCGGCATTAATGCGTTTGTCTGTATGAAATTCAT
191 ATTTTCATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCAC
*
27401914 ATGTTTG---C--AACATAATTTAAAACAAT-CATTCGGTTATAAGTAACCCATTTATACATATT
256 ATGTTTGCATCATAACATAATTTAAAAC-ATGCATTCGGTTATAAGTAATCCATTTATACATATT
27401973 TTATAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAAC
320 TTATAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAAC
*
27402038 CACGTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAGCAATGC
385 CACGTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAATGC
*
27402103 TCATGTATATAATACGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAA
450 TCATGTATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAA
* **
27402168 AACAACTGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACAAAATAATTTAA
515 AACAACCGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAA
27402233 ACTAGCATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAA
580 ACTAGCATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAA
27402298 TATACCAAG
645 TATACCAAG
27402307 TA
1 TA
27402309 CATATATTAT
Statistics
Matches: 1868, Mismatches: 76, Indels: 25
0.95 0.04 0.01
Matches are distributed among these distances:
648 626 0.34
649 1 0.00
650 1 0.00
652 622 0.33
653 367 0.20
654 2 0.00
655 2 0.00
656 128 0.07
658 119 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (653 bp):
TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
ACAACTTATGCATACACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
ATAGAATATATATATATATAAGTCACACGTATACACCAAATCATACATCAATTGGAATAAATTTT
CATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTT
TGCATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAA
CTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTG
ACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAATGCTCATGT
ATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAAAACAAC
CGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGC
ATACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACC
AAG
Found at i:27411066 original size:2 final size:2
Alignment explanation
Indices: 27411017--27411048 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27411007 AGATCCAATC
27411017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27411049 TCATATTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27412797 original size:6 final size:6
Alignment explanation
Indices: 27412756--27412810 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
27412746 ACAAGTTTGT
* * * *
27412756 AAAATA AACAT- AAAAGA AAAATA AAAGA-G AAGATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA
27412803 AAAATA AA
1 AAAATA AA
27412811 TGGACTCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
5 4 0.11
6 33 0.87
7 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:27413739 original size:69 final size:69
Alignment explanation
Indices: 27413628--27413834 Score: 387
Period size: 69 Copynumber: 3.0 Consensus size: 69
27413618 CTCATATGTC
* *
27413628 ACACTAAGCCACCAAGTAAGAAAGTGATAGTACCGACCTCGTCATGGGTATTCATCATATGCTGT
1 ACACTAAGCCACCAAGTTAGAAAGTGATAGTGCCGACCTCGTCATGGGTATTCATCATATGCTGT
27413693 AGAT
66 AGAT
27413697 ACACTAAGCCACCAAGTTAGAAAGTGATAGTGCCGACCTCGTCATGGGTATTCATCATATGCTGT
1 ACACTAAGCCACCAAGTTAGAAAGTGATAGTGCCGACCTCGTCATGGGTATTCATCATATGCTGT
27413762 AGAT
66 AGAT
*
27413766 ACACTAAGCCACCAAGTTAGAAAGTGATAGTGCCGACCTCGTCATGGGTATTCATCACATGCTGT
1 ACACTAAGCCACCAAGTTAGAAAGTGATAGTGCCGACCTCGTCATGGGTATTCATCATATGCTGT
27413831 AGAT
66 AGAT
27413835 GGAAAGTAGT
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 135 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (69 bp):
ACACTAAGCCACCAAGTTAGAAAGTGATAGTGCCGACCTCGTCATGGGTATTCATCATATGCTGT
AGAT
Found at i:27421614 original size:2 final size:2
Alignment explanation
Indices: 27421607--27421635 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27421597 ATGATTACTG
27421607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27421636 CGTATACGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27424210 original size:5 final size:5
Alignment explanation
Indices: 27424200--27424231 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27424190 TTGTGTGTTC
27424200 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27424232 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27424214 original size:9 final size:9
Alignment explanation
Indices: 27424200--27424230 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27424190 TTGTGTGTTC
27424200 TTTATTTTA
1 TTTATTTTA
27424209 TTTATTTTA
1 TTTATTTTA
27424218 TTTTATTTTA
1 -TTTATTTTA
27424228 TTT
1 TTT
27424231 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27428652 original size:5 final size:5
Alignment explanation
Indices: 27428642--27428673 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27428632 TTGTGTGTTC
27428642 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27428674 TCACAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27428656 original size:9 final size:9
Alignment explanation
Indices: 27428642--27428672 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27428632 TTGTGTGTTC
27428642 TTTATTTTA
1 TTTATTTTA
27428651 TTTATTTTA
1 TTTATTTTA
27428660 TTTTATTTTA
1 -TTTATTTTA
27428670 TTT
1 TTT
27428673 TTCACAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27430197 original size:56 final size:56
Alignment explanation
Indices: 27430137--27430273 Score: 177
Period size: 56 Copynumber: 2.4 Consensus size: 56
27430127 TCCCAGACAG
* *
27430137 GGTCTTACTAAG-ACACATAAATTGAAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACT-AGCACACATAAATCGAAATCACATATCAATGCCAACATATTAAACGT
* * * *
27430193 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTAGCACACATAAATCGAAATCACATATCAATGCCAACATATTAAACGT
* * *
27430249 GGACTTACTCGCACACATATATCGA
1 GGTCTTACTAGCACACATAAATCGA
27430274 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 1 0.01
56 71 0.99
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (56 bp):
GGTCTTACTAGCACACATAAATCGAAATCACATATCAATGCCAACATATTAAACGT
Found at i:27430906 original size:15 final size:15
Alignment explanation
Indices: 27430883--27430912 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27430873 TCAAAAATTC
27430883 TAATACAAAACATAT
1 TAATACAAAACATAT
*
27430898 TAATCCAAAACATAT
1 TAATACAAAACATAT
27430913 CTTTCATAAT
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:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:27431445 original size:14 final size:14
Alignment explanation
Indices: 27431426--27431455 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27431416 TAAAAACACG
27431426 AAAAATTAACACAT
1 AAAAATTAACACAT
*
27431440 AAAAATTCACACAT
1 AAAAATTAACACAT
27431454 AA
1 AA
27431456 TAAACACAAA
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:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATTAACACAT
Found at i:27440587 original size:26 final size:26
Alignment explanation
Indices: 27440551--27440601 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
27440541 ATAGTAGGCC
*
27440551 TTGAGCTGGTGTTTATTTAGCAGGTT
1 TTGAGCCGGTGTTTATTTAGCAGGTT
27440577 TTGAGCCGGTGTTTATTTAGCAGGT
1 TTGAGCCGGTGTTTATTTAGCAGGT
27440602 ACTATGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.10, G:0.31, T:0.43
Consensus pattern (26 bp):
TTGAGCCGGTGTTTATTTAGCAGGTT
Found at i:27442078 original size:2 final size:2
Alignment explanation
Indices: 27442071--27442108 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
27442061 CCTGTTGGTG
*
27442071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27442109 TTATGCGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27442515 original size:21 final size:21
Alignment explanation
Indices: 27442491--27442533 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27442481 TAGCTATTTT
27442491 ACCTTTATAAGTTAAACTCGA
1 ACCTTTATAAGTTAAACTCGA
27442512 ACCTTTATAAGTTAAACTCGA
1 ACCTTTATAAGTTAAACTCGA
27442533 A
1 A
27442534 TTATGGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
ACCTTTATAAGTTAAACTCGA
Found at i:27443483 original size:3 final size:3
Alignment explanation
Indices: 27443469--27443520 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
27443459 TGTCAAGTGA
* * *
27443469 AAT AAA AAT AAT AAT AAT AAT AAT AAT AGT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27443517 AAT A
1 AAT A
27443521 TTGAATCTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27445373 original size:21 final size:20
Alignment explanation
Indices: 27445341--27445379 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27445331 TTTGTCATGA
27445341 TTAGATTAAATTATTATATG
1 TTAGATTAAATTATTATATG
* *
27445361 TTAGCATTTAATTTTTATA
1 TTAG-ATTAAATTATTATA
27445380 ATTGTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TTAGATTAAATTATTATATG
Found at i:27445933 original size:2 final size:2
Alignment explanation
Indices: 27445926--27445953 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27445916 TCATTCCATC
27445926 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
27445954 TCCATCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27454931 original size:20 final size:20
Alignment explanation
Indices: 27454906--27454944 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
27454896 CAGTCGCAAT
27454906 ATCAGTGTGGGCCTTAGCCA
1 ATCAGTGTGGGCCTTAGCCA
27454926 ATCAGTGTGGGCCTTAGCC
1 ATCAGTGTGGGCCTTAGCC
27454945 CACTTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
ATCAGTGTGGGCCTTAGCCA
Found at i:27459124 original size:8 final size:8
Alignment explanation
Indices: 27459111--27459139 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27459101 GGATTCTCTC
27459111 TTTTTCTT
1 TTTTTCTT
27459119 TTTTTC-T
1 TTTTTCTT
27459126 TTTTTCTT
1 TTTTTCTT
27459134 TTTTTC
1 TTTTTC
27459140 ATCTTCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:27459131 original size:15 final size:15
Alignment explanation
Indices: 27459111--27459139 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27459101 GGATTCTCTC
27459111 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
27459126 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
27459140 ATCTTCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:27462024 original size:26 final size:26
Alignment explanation
Indices: 27461993--27462100 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
27461983 TGAAATTCCC
*
27461993 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27462019 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
27462045 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
27462071 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27462097 ATCA
1 ATCA
27462101 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27464884 original size:14 final size:15
Alignment explanation
Indices: 27464860--27464888 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27464850 CAATTCTTTA
27464860 ATTTAAAAATTAATT
1 ATTTAAAAATTAATT
27464875 ATTT-AAAATTAATT
1 ATTTAAAAATTAATT
27464889 TAATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAAAAATTAATT
Found at i:27466130 original size:38 final size:38
Alignment explanation
Indices: 27466079--27466155 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
27466069 GTTGAGAATT
27466079 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
1 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
27466117 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
1 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
27466155 G
1 G
27466156 TATATGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (38 bp):
GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
Found at i:27466174 original size:38 final size:38
Alignment explanation
Indices: 27466094--27466177 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
27466084 ATTTAGGTGT
** ** *
27466094 TAAATTGTTAGAAATTAAGCTTAGAATGATTTAGGTGT
1 TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATGC
*
27466132 TAAATTGTTAGAAATTAAGCTTAGTAT-ATGAAAATGAC
1 TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATG-C
27466170 TAAATTGT
1 TAAATTGT
27466178 AAGCTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (38 bp):
TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATGC
Found at i:27467361 original size:4 final size:4
Alignment explanation
Indices: 27467352--27467382 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
27467342 TAGTATGCTT
27467352 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
27467383 ATGTACTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:27470993 original size:39 final size:40
Alignment explanation
Indices: 27470886--27471013 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
27470876 CCGAACACAA
* * *
27470886 CAAACAGAAGCTCATAAGAGCTGATCCAACTAAAATACGC
1 CAAACAGAAGCTCATAAGAGCTGATCCACCCAAAACACGC
* *
27470926 CAAACAAAAGCTCATAAGAGCT-AGTCCACCCAAAACATGC
1 CAAACAGAAGCTCATAAGAGCTGA-TCCACCCAAAACACGC
* ** *
27470966 C-AACAGAAGCTCATAAGAGTTGATCCACCTGAATCACGC
1 CAAACAGAAGCTCATAAGAGCTGATCCACCCAAAACACGC
27471005 CAAACAGAA
1 CAAACAGAA
27471014 AGTATAACGC
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 32 0.43
40 42 0.57
ACGTcount: A:0.44, C:0.27, G:0.15, T:0.14
Consensus pattern (40 bp):
CAAACAGAAGCTCATAAGAGCTGATCCACCCAAAACACGC
Found at i:27473978 original size:19 final size:20
Alignment explanation
Indices: 27473938--27473978 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
27473928 CTAAACCGAT
*
27473938 AACTCAGAAAACTTTTAGAA
1 AACTCAGAAAACTTTTACAA
*
27473958 AACTTAGAAAA-TTTTACAA
1 AACTCAGAAAACTTTTACAA
27473977 AA
1 AA
27473979 TACAGGGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (20 bp):
AACTCAGAAAACTTTTACAA
Found at i:27474683 original size:26 final size:26
Alignment explanation
Indices: 27474654--27474761 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
27474644 TGATACAAAT
*
27474654 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27474680 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27474706 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27474732 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27474758 TGAT
1 TGAT
27474762 GGGAATTTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27476430 original size:27 final size:26
Alignment explanation
Indices: 27476381--27476539 Score: 140
Period size: 27 Copynumber: 5.9 Consensus size: 26
27476371 AGGAAGCGTC
* * *
27476381 CTGGTGGCTATGTCGCAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
27476408 CTGGTGGCTTTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
27476434 CCCGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTGAT
* *
27476462 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
27476489 CTAGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * * *
27476516 CTGGTGACTTTGTCACAGTATCTG
1 CTGGTGGCTCTGCCACAATATCTG
27476540 GCAGCCTCGC
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.08
27 97 0.89
28 3 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:27476465 original size:54 final size:54
Alignment explanation
Indices: 27476378--27476532 Score: 204
Period size: 54 Copynumber: 2.9 Consensus size: 54
27476368 TGGAGGAAGC
* *
27476378 GTCCTGGTGGCTATGTCGCAATTATCTGATCTGGTGGCTTTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
* * *
27476432 GTCCCGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
* * * * *
27476486 GTTCTAGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTTTGTCACA
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTTTGCCACA
27476533 GTATCTGGCA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
Found at i:27483084 original size:2 final size:2
Alignment explanation
Indices: 27483077--27483119 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
27483067 AGGTTTCTTT
27483077 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27483119 T
1 T
27483120 TTCATTCTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27484734 original size:29 final size:29
Alignment explanation
Indices: 27484679--27484734 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
27484669 TTAGTTAATG
* *
27484679 TGTAATGTTATATATGAAATTTGATTTTA
1 TGTAATGTTATACATGAAATTTAATTTTA
*
27484708 TGTAATTTTATACAT-AAATTTTAATTT
1 TGTAATGTTATACATGAAA-TTTAATTT
27484735 AACTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (29 bp):
TGTAATGTTATACATGAAATTTAATTTTA
Found at i:27485373 original size:17 final size:17
Alignment explanation
Indices: 27485351--27485391 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
27485341 CTTAAAGATA
27485351 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
*
27485368 AAAAAAAAAAGAAGAAG
1 AAAAAAAAAAGAAAAAG
*
27485385 CAAAAAA
1 AAAAAAA
27485392 TGGAAATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:27485373 original size:20 final size:20
Alignment explanation
Indices: 27485344--27485383 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27485334 TCCCATTCTT
*
27485344 AAAGATAAAAAAAAAAAGAA
1 AAAGAAAAAAAAAAAAAGAA
*
27485364 AAAGAAAAAAAAAAGAAGAA
1 AAAGAAAAAAAAAAAAAGAA
27485384 GCAAAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAAAAAAAAAGAA
Found at i:27486501 original size:33 final size:33
Alignment explanation
Indices: 27486464--27486530 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
27486454 AAATTTATAA
*
27486464 ATATGAGGTAAATATATAATATATGTGGAAACT
1 ATATGAGGTAAATATATAATATATATGGAAACT
27486497 ATATGAGGTAAATATATAATATATATGGAAACT
1 ATATGAGGTAAATATATAATATATATGGAAACT
27486530 A
1 A
27486531 CCTATTTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.33
Consensus pattern (33 bp):
ATATGAGGTAAATATATAATATATATGGAAACT
Found at i:27486875 original size:41 final size:41
Alignment explanation
Indices: 27486830--27486913 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
27486820 CTTACCACAT
* *
27486830 ATAAATTTTTTATTTTTTAAAAAAGATTAAAGTACCCTTAA
1 ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
*
27486871 ATAAATTTTTTATTTTTTTAAAAAGACTAAAGTACCCTAAA
1 ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
27486912 AT
1 AT
27486914 TTCAGCCACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (41 bp):
ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
Found at i:27488400 original size:20 final size:20
Alignment explanation
Indices: 27488371--27488408 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
27488361 ATAAAAATAC
27488371 TTTTATAA-TTTTATACTCT
1 TTTTATAATTTTTATACTCT
27488390 TTTTAATAATTTTTATACT
1 TTTT-ATAATTTTTATACT
27488409 TTTGAATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATACTCT
Found at i:27494017 original size:14 final size:13
Alignment explanation
Indices: 27493996--27494025 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
27493986 GTAAAATATT
27493996 TTTCGGAAAATGA
1 TTTCGGAAAATGA
27494009 TTTCTGGAAAATGA
1 TTTC-GGAAAATGA
27494023 TTT
1 TTT
27494026 ACTTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (13 bp):
TTTCGGAAAATGA
Found at i:27505735 original size:46 final size:47
Alignment explanation
Indices: 27505589--27505946 Score: 258
Period size: 46 Copynumber: 7.6 Consensus size: 47
27505579 TCATTTGTGT
* *
27505589 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGTCCAC-ATTATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCG-CCTCGA-GATGTAGA
* * ** * *
27505635 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTATTGAGACG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC-GCCTCGAGATGTAGA
27505683 GCTAGTGTAAGA-CATGTCTGGGACATGCATCTGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGAGATGTAGA
*
27505729 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGACTACGAGATGT-G-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGCCT-CGAGATGTAGA
* * *
27505774 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGCCTC-GAGATGT-AGA
* * * ** *
27505823 GCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCG-ATA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GC-ATCGCCTCGAGAT-GTAGA
* * * * *
27505872 G-TCAGTGTAAGACCATGTCTGGGACGTGGCACCGACT--TGATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGCCTCGAGATGTA-GA
* *
27505919 GCCATTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
27505947 TCATTGATAT
Statistics
Matches: 252, Mismatches: 40, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
44 9 0.04
45 20 0.08
46 80 0.32
47 51 0.20
48 25 0.10
49 32 0.13
50 30 0.12
51 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGTAGA
Found at i:27505832 original size:94 final size:93
Alignment explanation
Indices: 27505592--27505946 Score: 300
Period size: 94 Copynumber: 3.8 Consensus size: 93
27505582 TTTGTGTGCT
* * * *
27505592 AGTGTAAGACATGTCTGGGACATGCATCGTCCAC-A-TTATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCACGAGATGTGAGAGCCAGTGTAAGACCATGTCT
* * * * *
27505655 GGGACATGGCATC-AGTATTGAGACGAGAGC
65 GGGACATGGCATCGACTA-CGAGATGTG-TC
* * *
27505685 TAGTGTAAGACATGTCTGGGACATGCATCTGCCTCGAGATGT-A-AGCTAGTGTAAGA-CATGTC
1 -AGTGTAAGACATGTCTGGGACATGCATC-GGCACGAGATGTGAGAGCCAGTGTAAGACCATGTC
27505747 TGGGACAT-GCATCGACTACGAGATGTGTC
64 TGGGACATGGCATCGACTACGAGATGTGTC
27505776 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGATGTGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC-GAGATGTGAGAGCCAGTGTAAGACCATGT
* * * **
27505841 CTGGGACATGGCGTTGGCCT-CGATTTCGATAGTC
63 CTGGGACATGGC-ATCGACTACGAGAT-G-T-GTC
* * ** *
27505875 AGTGTAAGACCATGTCTGGGACGTGGCA-CCG-ACTTGATG-GATGAGCCATTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACGAGATGTGA-GAGCCAGTGTAAGACCATGT
27505937 CTGGGACATG
63 CTGGGACATG
27505947 TCATTGATAT
Statistics
Matches: 222, Mismatches: 23, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
90 9 0.04
91 18 0.08
92 23 0.10
93 17 0.08
94 55 0.25
95 19 0.09
96 41 0.18
97 7 0.03
98 3 0.01
99 30 0.14
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACGAGATGTGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGACTACGAGATGTGTC
Found at i:27511610 original size:47 final size:44
Alignment explanation
Indices: 27511541--27511667 Score: 150
Period size: 47 Copynumber: 2.8 Consensus size: 44
27511531 CATTTGTGCA
*
27511541 CTAGTGTAAGACATGTCTGAGACATGCAT-GGACCACATT-ATGAGAG
1 CTAGTGTAAGACATGTCTGAGACATGCATCGG----CATTGATGAAAG
27511587 CTAGTGTAAGACCATGTCTGAGACATGTCATCGGCATTGAGATGAAAG
1 CTAGTGTAAGA-CATGTCTGAGACATG-CATCGGCATT--GATGAAAG
*
27511635 CTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 CTAGTGTAAGACATGTCTGAGACATGCATCGGC
27511668 TACGAGATGT
Statistics
Matches: 73, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
45 4 0.05
46 18 0.25
47 29 0.40
48 20 0.27
49 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
CTAGTGTAAGACATGTCTGAGACATGCATCGGCATTGATGAAAG
Found at i:27511710 original size:46 final size:47
Alignment explanation
Indices: 27511580--27511810 Score: 186
Period size: 49 Copynumber: 4.8 Consensus size: 47
27511570 GGACCACATT
* * *
27511580 ATGAGAGCTAGTGTAAGACCATGTCTGAGACATGTCATCGGCATTGAG
1 ATGA-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAG
27511628 ATGAAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAG
1 ATG-AAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAG
* * ** *
27511674 ATG-TGTTAGTGTAAGACCATGTCTGGGACATGGCATCAACA-CAAAG
1 ATGAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-GAG
* * * * *
27511720 ATGTGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGAT
1 A--TGA-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAG
* * *
27511770 TTCGATAG-TCAGTGTAAGACAATGTTTGGGACATGGCATCG
1 AT-GA-AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
27511811 ACTTGATGGA
Statistics
Matches: 149, Mismatches: 21, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.07
45 16 0.11
46 22 0.15
47 13 0.09
48 19 0.13
49 34 0.23
50 33 0.22
51 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (47 bp):
ATGAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAG
Found at i:27511722 original size:92 final size:98
Alignment explanation
Indices: 27511588--27511809 Score: 233
Period size: 92 Copynumber: 2.3 Consensus size: 98
27511578 TTATGAGAGC
* * ** *** *
27511588 TAGTGTAAGACCATGTCTGAGACATGTCATCGGCATTGAGA-TGAAAGCTAGTGTAAGA-CATGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAACACAAAGAGTGAAAGCCAGTGTAAGACCATGT
*
27511651 CTGGGACAT-GCATC-GGCTACGAGAT-G-T-GT
66 CTGGGACATGGCATCAGCCT-CGAGATCGATAGT
*
27511680 TAGTGTAAGACCATGTCTGGGACATGGCATCAACACAAAGATGTGAGAGCCAGTGTAAGACCATG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAACACAAAGA-GTGAAAGCCAGTGTAAGACCATG
* **
27511745 TTTGGGACATGGCATCAGCCTCGATTTCGATAGT
65 TCTGGGACATGGCATCAGCCTCGAGATCGATAGT
* * *
27511779 CAGTGTAAGACAATGTTTGGGACATGGCATC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC
27511810 GACTTGATGG
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
92 34 0.32
94 15 0.14
95 13 0.12
96 9 0.08
97 4 0.04
98 1 0.01
99 30 0.28
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (98 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAACACAAAGAGTGAAAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCAGCCTCGAGATCGATAGT
Found at i:27511745 original size:50 final size:49
Alignment explanation
Indices: 27511681--27511839 Score: 164
Period size: 49 Copynumber: 3.3 Consensus size: 49
27511671 GAGATGTGTT
*
27511681 AGTGTAAGACCATGTCTGGGACATGGCATCAACACAAAGATGT-GAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCAAC-C-AAGATGTCGAGAGCC
* ** * * *
27511731 AGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCAACCAAGATGTCGAGAGCC
* * **
27511780 AGTGTAAGACAATGTTTGGGACATGGCATCGA-CTTGATG--GATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCAACCAAGATGTCGA-GAGCC
27511827 AGTGTAAGACCAT
1 AGTGTAAGACCAT
27511840 TAAGACCATG
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
46 2 0.02
47 15 0.16
48 9 0.10
49 35 0.38
50 31 0.34
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCAACCAAGATGTCGAGAGCC
Found at i:27516960 original size:41 final size:40
Alignment explanation
Indices: 27516852--27516963 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 40
27516842 TCGGATAATT
27516852 CGAAGTAACAA-GTTGACACCCAGTGTCTCATCG-GCTATGC
1 CGAAGTAA-AATG-TGACACCCAGTGTCTCATCGAGCTATGC
** ** **
27516892 CGAAGT-AAAT-TGGTACCCAGTACCTCATCGAATTTAT-C
1 CGAAGTAAAATGTGACACCCAGTGTCTCATCG-AGCTATGC
27516930 CGAAGTAATAATGTGACACCCAGTGTCTCATCGA
1 CGAAGTAA-AATGTGACACCCAGTGTCTCATCGA
27516964 CTCGAAGTCG
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
37 16 0.29
38 9 0.16
39 5 0.09
40 10 0.18
41 16 0.29
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
CGAAGTAAAATGTGACACCCAGTGTCTCATCGAGCTATGC
Found at i:27521069 original size:31 final size:33
Alignment explanation
Indices: 27521015--27521080 Score: 109
Period size: 31 Copynumber: 2.0 Consensus size: 33
27521005 TTTCAAAGAT
27521015 CTTAAGTGGTGATTGCTTGAGGGGAGTAAATTAA
1 CTTAAGTGGTGATT-CTTGAGGGGAGTAAATTAA
27521049 CTTAAGTGGTGA-T-TTGAGGGGAGTAAATTAA
1 CTTAAGTGGTGATTCTTGAGGGGAGTAAATTAA
27521080 C
1 C
27521081 ACTACATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 19 0.59
33 1 0.03
34 12 0.38
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (33 bp):
CTTAAGTGGTGATTCTTGAGGGGAGTAAATTAA
Found at i:27534033 original size:11 final size:11
Alignment explanation
Indices: 27534013--27534061 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
27534003 ATTAGATAAA
*
27534013 TAATAATTTAT
1 TAATATTTTAT
27534024 TAATATTTTAAT
1 TAATATTTT-AT
* *
27534036 AAGATATTTTAA
1 TA-ATATTTTAT
27534048 TAATATTTTAT
1 TAATATTTTAT
27534059 TAA
1 TAA
27534062 AAATAGCTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 19 0.61
12 5 0.16
13 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:27534044 original size:13 final size:13
Alignment explanation
Indices: 27534026--27534050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27534016 TAATTTATTA
27534026 ATATTTTAATAAG
1 ATATTTTAATAAG
27534039 ATATTTTAATAA
1 ATATTTTAATAA
27534051 TATTTTATTA
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:27535128 original size:27 final size:27
Alignment explanation
Indices: 27535097--27535192 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 27
27535087 GACTATGACT
*
27535097 TAAGTAGACAGCTTTGATATGAACACA
1 TAAGTAGATAGCTTTGATATGAACACA
*
27535124 TAAGTAAATAG-TGGAATT-ATATGAACA-A
1 TAAGTAGATAGCT----TTGATATGAACACA
*
27535152 TTAAGTAGATAGCTTTGATATGAATACA
1 -TAAGTAGATAGCTTTGATATGAACACA
*
27535180 TAAGTAAATAGCT
1 TAAGTAGATAGCT
27535193 AAAGATTCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
26 3 0.05
27 29 0.52
28 2 0.04
29 19 0.34
30 3 0.05
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (27 bp):
TAAGTAGATAGCTTTGATATGAACACA
Found at i:27537249 original size:12 final size:12
Alignment explanation
Indices: 27537227--27537267 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
27537217 CAACTTAGCA
*
27537227 GAATAAAAATA-
1 GAATAACAATAT
27537238 GAAATAACAATAT
1 G-AATAACAATAT
27537251 GAATAACAATAT
1 GAATAACAATAT
27537263 -AATAA
1 GAATAA
27537268 AACAAATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 6 0.22
12 20 0.74
13 1 0.04
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (12 bp):
GAATAACAATAT
Found at i:27537288 original size:16 final size:16
Alignment explanation
Indices: 27537261--27537300 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
27537251 GAATAACAAT
27537261 ATAATAAAACAAATAAG
1 ATAAT-AAACAAATAAG
27537278 ATAATAAACAAATAAG
1 ATAATAAACAAATAAG
27537294 ATAATAA
1 ATAATAA
27537301 TAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (16 bp):
ATAATAAACAAATAAG
Found at i:27537699 original size:2 final size:2
Alignment explanation
Indices: 27537681--27537789 Score: 200
Period size: 2 Copynumber: 54.5 Consensus size: 2
27537671 CGACGACTGC
* *
27537681 GT GT GT AT GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
27537723 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
27537765 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
27537790 ATAGAAGAGA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 103 1.00
ACGTcount: A:0.02, C:0.00, G:0.49, T:0.50
Consensus pattern (2 bp):
GT
Found at i:27540950 original size:43 final size:43
Alignment explanation
Indices: 27540850--27541054 Score: 205
Period size: 43 Copynumber: 4.8 Consensus size: 43
27540840 TTATGTAAAA
* * ** * *
27540850 AAATGCCGCTAAAGAACATGACCTTTAGTGGCGTTTTTGAGA-
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
** *
27540892 AAGCGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCACAC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
* * * * *
27540935 AAATACCGCTAAAGAACGTGACCTTTAACGGTGCATTCCATAC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
* * * * *
27540978 AAACGCCGTTAAGGGACGTGACCTTTAGCGGCGCCTCTCATAC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
** *
27541021 AAATGCCGCTAAAGAATATGACTTTTAGCGGCGC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGC
27541055 TTTTACAAAA
Statistics
Matches: 129, Mismatches: 33, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 34 0.26
43 95 0.74
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (43 bp):
AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
Found at i:27541898 original size:13 final size:14
Alignment explanation
Indices: 27541872--27541900 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27541862 ACTAACGACG
27541872 AATTAAACCATTAT
1 AATTAAACCATTAT
27541886 AATTAAA-CATTAT
1 AATTAAACCATTAT
27541899 AA
1 AA
27541901 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:27543397 original size:26 final size:26
Alignment explanation
Indices: 27543361--27543496 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
27543351 TGATACAAAT
27543361 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
27543387 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27543413 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27543439 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27543465 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
27543491 TGATAA
1 TGATAA
27543497 GAATATCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:27545533 original size:137 final size:137
Alignment explanation
Indices: 27545287--27545573 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
27545277 GAGTAGTCTC
27545287 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
27545352 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27545417 ACTGTTA
131 ACTGTTA
*
27545424 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
27545489 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27545554 ACTGTTA
131 ACTGTTA
**
27545561 CCTGAATGGGCTT
1 CCCAAATGGGCTT
27545574 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:27549359 original size:26 final size:26
Alignment explanation
Indices: 27549329--27549464 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
27549319 TGATACAAAT
*
27549329 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
27549355 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27549381 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27549407 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27549433 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
27549459 TGATAA
1 TGATAA
27549465 GAATATCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:27552532 original size:26 final size:26
Alignment explanation
Indices: 27552473--27552606 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
27552463 TGATACAAAT
27552473 TGATAATAGGTTAGGTAAATG-TT-A
1 TGATAATAGGTTAGGTAAATGTTTCA
27552497 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27552523 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27552549 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27552575 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
27552601 TGATAA
1 TGATAA
27552607 GAATTCATGT
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
24 21 0.20
25 2 0.02
26 82 0.78
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:27554124 original size:25 final size:26
Alignment explanation
Indices: 27554083--27554134 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
27554073 TTTACAGTTT
27554083 TACCCCTAGGAGAAAATT-ACCGAAA
1 TACCCCTAGGAGAAAATTGACCGAAA
* *
27554108 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAG-AAAATTGACCGAAA
27554134 T
1 T
27554135 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGAGAAAATTGACCGAAA
Found at i:27554627 original size:137 final size:136
Alignment explanation
Indices: 27554382--27554667 Score: 545
Period size: 137 Copynumber: 2.1 Consensus size: 136
27554372 GAGTAGTCTC
27554382 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
27554447 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
27554512 CTGTTA
131 CTGTTA
27554518 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
27554583 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27554648 ACTGTTA
130 ACTGTTA
**
27554655 CCTGAATGGGCTT
1 CCCAAATGGGCTT
27554668 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 20 0.14
137 127 0.86
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:27558595 original size:26 final size:25
Alignment explanation
Indices: 27558510--27558641 Score: 205
Period size: 26 Copynumber: 5.2 Consensus size: 25
27558500 TGATACAAAT
27558510 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
27558535 TGAT-A-AGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
27558558 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
27558584 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
*
27558610 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
27558636 TGATAA
1 TGATAA
27558642 GAATATCATG
Statistics
Matches: 102, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
23 22 0.22
24 2 0.02
25 20 0.20
26 56 0.55
27 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:27560670 original size:137 final size:137
Alignment explanation
Indices: 27560424--27560710 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
27560414 GAGTAGTCTC
27560424 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
27560489 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27560554 ACTGTTA
131 ACTGTTA
*
27560561 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
27560626 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27560691 ACTGTTA
131 ACTGTTA
**
27560698 CCTGAATGGGCTT
1 CCCAAATGGGCTT
27560711 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:27562532 original size:75 final size:73
Alignment explanation
Indices: 27562444--27562615 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
27562434 GGTTTTCCTC
** * * **
27562444 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCAAACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCAAACCTACATTTCACAAC
27562508 TCAGTATGG
65 TCAGTATGG
* *
27562517 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCAAACCTACATTTCACAA
27562582 CTCAGTATGG
64 CTCAGTATGG
27562592 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
27562616 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCAAACCTACATTTCACAACT
CAGTATGG
Found at i:27562613 original size:35 final size:35
Alignment explanation
Indices: 27562449--27562615 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
27562439 TCCTCATTGA
** *
27562449 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* * **
27562484 AATGCCAAACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
27562524 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
27562559 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
27562594 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
27562616 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 86 0.75
39 3 0.03
40 26 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:27566079 original size:27 final size:27
Alignment explanation
Indices: 27566050--27566274 Score: 132
Period size: 27 Copynumber: 7.9 Consensus size: 27
27566040 TATGATATTT
*
27566050 ATTTATGTCAGTTATGTAAATTATGATA
1 ATTTATGTAAGTTATGTAAATTATG-TA
* *
27566078 TTCATTTATGTCAGTTATGTAAATTGTGTA
1 ---ATTTATGTAAGTTATGTAAATTATGTA
* *
27566108 AGTTATGTAAATTATGTAAATTATGTA
1 ATTTATGTAAGTTATGTAAATTATGTA
* *
27566135 ACTTATGTAAGTTATGTAAGTTATG-A
1 ATTTATGTAAGTTATGTAAATTATGTA
* * *
27566161 CATTTATGGTATGATATATATTTATGCATTATGTA
1 -ATTTAT-GTA--A-GT-TATGTA--AATTATGTA
* * * *
27566196 AGTTATGTAAGTTATG-ATATGATATA
1 ATTTATGTAAGTTATGTAAATTATGTA
* *
27566222 TATTTATATAAGTTATGTAAGTTATGT-
1 -ATTTATGTAAGTTATGTAAATTATGTA
* * *
27566249 ATGTTATGTGAGGTATGTAAGTTATG
1 AT-TTATGTAAGTTATGTAAATTATG
27566275 ATATGATATA
Statistics
Matches: 154, Mismatches: 28, Indels: 28
0.73 0.13 0.13
Matches are distributed among these distances:
26 9 0.06
27 84 0.55
28 9 0.06
29 3 0.02
30 4 0.03
31 26 0.17
32 5 0.03
33 3 0.02
34 10 0.06
35 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTATGTAAGTTATGTAAATTATGTA
Found at i:27566097 original size:9 final size:9
Alignment explanation
Indices: 27566083--27566313 Score: 159
Period size: 9 Copynumber: 25.9 Consensus size: 9
27566073 TGATATTCAT
*
27566083 TTATGTCAG
1 TTATGTAAG
*
27566092 TTATGTAAA
1 TTATGTAAG
*
27566101 TTGTGTAAG
1 TTATGTAAG
*
27566110 TTATGTAAA
1 TTATGTAAG
*
27566119 TTATGTAAA
1 TTATGTAAG
*
27566128 TTATGTAAC
1 TTATGTAAG
27566137 TTATGTAAG
1 TTATGTAAG
27566146 TTATGTAAG
1 TTATGTAAG
*
27566155 TTATG-ACAT
1 TTATGTA-AG
*
27566164 TTATGGTATG
1 TTAT-GTAAG
* * *
27566174 ATATAT-AT
1 TTATGTAAG
*
27566182 TTATG-CA-
1 TTATGTAAG
27566189 TTATGTAAG
1 TTATGTAAG
27566198 TTATGTAAG
1 TTATGTAAG
*
27566207 TTATGATATG
1 TTATG-TAAG
* * *
27566217 ATATAT-AT
1 TTATGTAAG
*
27566225 TTATATAAG
1 TTATGTAAG
27566234 TTATGTAAG
1 TTATGTAAG
*
27566243 TTATGTATG
1 TTATGTAAG
*
27566252 TTATGTGAG
1 TTATGTAAG
*
27566261 GTATGTAAG
1 TTATGTAAG
*
27566270 TTATGATATG
1 TTATG-TAAG
* * *
27566280 ATATAT-AT
1 TTATGTAAG
27566288 TTATGTAAG
1 TTATGTAAG
*
27566297 GTATGTAAG
1 TTATGTAAG
27566306 TTATGTAA
1 TTATGTAA
27566314 TTTTAAAGAA
Statistics
Matches: 170, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
7 5 0.03
8 15 0.09
9 133 0.78
10 16 0.09
11 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27566272 original size:63 final size:63
Alignment explanation
Indices: 27566189--27566312 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
27566179 TATTTATGCA
* *
27566189 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTTATGTATG
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTATG
* *
27566252 TTATGTGAGGTATGTAAGTTATGATATGATATATATTTATGTAAGGTATGTAAGTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTA
27566313 ATTTTAAAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (63 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTATG
Found at i:27569900 original size:7 final size:7
Alignment explanation
Indices: 27569888--27569935 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
27569878 ATTTGATCTT
27569888 CCCTAAA
1 CCCTAAA
27569895 CCCTAAA
1 CCCTAAA
*
27569902 CCC-AAG
1 CCCTAAA
**
27569908 CTATAAA
1 CCCTAAA
*
27569915 CACTAAA
1 CCCTAAA
27569922 CCCTAAA
1 CCCTAAA
27569929 CCCTAAA
1 CCCTAAA
27569936 TCTTAACACT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
6 3 0.09
7 30 0.91
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.15
Consensus pattern (7 bp):
CCCTAAA
Found at i:27569943 original size:27 final size:29
Alignment explanation
Indices: 27569890--27569961 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 29
27569880 TTGATCTTCC
27569890 CTAAACCCTAAACCC--AAGCTATAAACA
1 CTAAACCCTAAACCCTAAAGCTATAAACA
*
27569917 CTAAACCCTAAACCCTAAATCT-T-AACA
1 CTAAACCCTAAACCCTAAAGCTATAAACA
* *
27569944 CT-AACCTTAAACCATAAA
1 CTAAACCCTAAACCCTAAA
27569962 CTTTGAACCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 14 0.35
27 21 0.52
28 1 0.03
29 4 0.10
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.19
Consensus pattern (29 bp):
CTAAACCCTAAACCCTAAAGCTATAAACA
Found at i:27569999 original size:14 final size:14
Alignment explanation
Indices: 27569952--27569999 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
27569942 CACTAACCTT
* *
27569952 AAACCATAAACTTT
1 AAACCTTAAACTTA
* *
27569966 GAACCTTAAATCTCA
1 AAACCTTAAA-CTTA
27569981 AAACCTTAAACTTA
1 AAACCTTAAACTTA
27569995 AAACC
1 AAACC
27570000 ACTATCCCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (14 bp):
AAACCTTAAACTTA
Found at i:27570610 original size:41 final size:41
Alignment explanation
Indices: 27570548--27570717 Score: 180
Period size: 41 Copynumber: 4.1 Consensus size: 41
27570538 ATAAAATGCT
* * * *
27570548 TTTTGCGGCGTTTTTAGCATAAACGCCACTAATTCTAAACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* * **
27570589 TTTTGCTGCGTTTTTCTCATAAACGCCGCTAATTCTGGACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* ** **
27570630 TTTTG-TGGCGTTTTTCTCATAAACATCGCTAATGCTGGACC
1 TTTTGCT-GCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* * *
27570671 TTTTGCAGCGTTTTTATCATAAAGGCCGTTAATGCTAAACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
27570712 TTTTGC
1 TTTTGC
27570718 GGCATTTTCC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 109 0.99
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (41 bp):
TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
Found at i:27582961 original size:14 final size:16
Alignment explanation
Indices: 27582932--27582968 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27582922 AAGGTAAAAT
27582932 AATTTTTTTACCTTTTC
1 AATTTTTTTA-CTTTTC
27582949 -ATTTTTTTA-TTTTC
1 AATTTTTTTACTTTTC
27582963 AATTTT
1 AATTTT
27582969 AAATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.26
15 5 0.26
16 9 0.47
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (16 bp):
AATTTTTTTACTTTTC
Found at i:27583338 original size:43 final size:43
Alignment explanation
Indices: 27583280--27583365 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
27583270 CATTTTTTAG
* * *
27583280 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGTGCTTTTTT
1 AAAAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTTTT
* *
27583323 AAAAAACACCGCTAAAGACCATGACATTTAGTGGCGCTTTTTT
1 AAAAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTTTT
27583366 TCAAGACGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (43 bp):
AAAAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTTTT
Found at i:27587519 original size:7 final size:7
Alignment explanation
Indices: 27587509--27587572 Score: 92
Period size: 7 Copynumber: 9.0 Consensus size: 7
27587499 ATATGAACTA
*
27587509 AAATATT
1 AAATTTT
*
27587516 AAATATT
1 AAATTTT
27587523 AAATTTTT
1 AAA-TTTT
*
27587531 AATTTTT
1 AAATTTT
27587538 AAATTTT
1 AAATTTT
27587545 AAATTTT
1 AAATTTT
27587552 AAATTTT
1 AAATTTT
27587559 AAATTTT
1 AAATTTT
27587566 AAATTTT
1 AAATTTT
27587573 TTATTTTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
7 48 0.91
8 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:27587578 original size:21 final size:21
Alignment explanation
Indices: 27587514--27587579 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
27587504 AACTAAAATA
*
27587514 TTAAATATTAAATTTTTAATTT
1 TTAAATTTTAAATTTTTAA-TT
*
27587536 TTAAATTTTAAATTTTAAATT
1 TTAAATTTTAAATTTTTAATT
*
27587557 TTAAATTTTAAATTTTTTATT
1 TTAAATTTTAAATTTTTAATT
27587578 TT
1 TT
27587580 TTTAAAGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 23 0.57
22 17 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAATTTTAAATTTTTAATT
Found at i:27587786 original size:28 final size:28
Alignment explanation
Indices: 27587749--27587802 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
27587739 AAATTTATTT
* *
27587749 TTATATTTTAGGGTTTATGATTTATGGG
1 TTATAGTTTAGGGTTTAGGATTTATGGG
*
27587777 TTATAGTTTAGGGTTTGGGATTTATG
1 TTATAGTTTAGGGTTTAGGATTTATG
27587803 ATCTACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (28 bp):
TTATAGTTTAGGGTTTAGGATTTATGGG
Found at i:27591604 original size:3 final size:3
Alignment explanation
Indices: 27591596--27591626 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27591586 GCTTTGCGTG
27591596 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27591627 AAGTACAAAC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27592413 original size:3 final size:3
Alignment explanation
Indices: 27592405--27592435 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27592395 GTTGCCCTCT
27592405 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
27592436 CATGTGATTG
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:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:27594003 original size:3 final size:3
Alignment explanation
Indices: 27593995--27594030 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
27593985 GAAAGAGCAC
27593995 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27594031 GCAAATTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27596465 original size:17 final size:18
Alignment explanation
Indices: 27596425--27596473 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
27596415 TAGGGTTTGG
*
27596425 AAAGAGAATAGAAGAATA
1 AAAGAAAATAGAAGAATA
*
27596443 AGAAGAAAATA-AATAATA
1 A-AAGAAAATAGAAGAATA
27596461 AAAGAAAATAGAA
1 AAAGAAAATAGAA
27596474 ACTGGAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 9 0.33
18 10 0.37
19 8 0.30
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.12
Consensus pattern (18 bp):
AAAGAAAATAGAAGAATA
Found at i:27596539 original size:18 final size:17
Alignment explanation
Indices: 27596514--27596548 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
27596504 AAAGAAGAGG
27596514 GAAAAGAAAAATAAAGT
1 GAAAAGAAAAATAAAGT
27596531 GAAATAGAAAAATAAAGT
1 GAAA-AGAAAAATAAAGT
27596549 CATCATGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (17 bp):
GAAAAGAAAAATAAAGT
Found at i:27599880 original size:14 final size:14
Alignment explanation
Indices: 27599861--27599888 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27599851 TAAAATTAAA
27599861 CATAATTTATACAT
1 CATAATTTATACAT
27599875 CATAATTTATACAT
1 CATAATTTATACAT
27599889 AACATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
CATAATTTATACAT
Found at i:27624316 original size:297 final size:297
Alignment explanation
Indices: 27623782--27624377 Score: 1156
Period size: 297 Copynumber: 2.0 Consensus size: 297
27623772 TAGTTGCAAG
27623782 TTGATAACTCATGTGATTATTTTATAGATGCATCTACTAAAATTATATAATATCAAAACCATCCA
1 TTGATAACTCATGTGATTATTTTATAGATGCATCTACTAAAATTATATAATATCAAAACCATCCA
27623847 CATGGTGGACGAATGGGGCCCATATTCATTTTAGAAATGCAACACATTAAACCTCAACTTTAGTC
66 CATGGTGGACGAATGGGGCCCATATTCATTTTAGAAATGCAACACATTAAACCTCAACTTTAGTC
* *
27623912 AGTGAGTTTTTAATGATCAATTATCATTGAGAATGAGCAACACATGAGAATAATTTAAATTAAAG
131 AGTGAGTTTTTAATAATCAATTATCATTGAGAATAAGCAACACATGAGAATAATTTAAATTAAAG
*
27623977 AACTTGTGGTTTTTTAATGAATGTCTATACGAATTCTCAATTAATTTTTGCATCATATATGATCT
196 AACTTGTGGTTCTTTAATGAATGTCTATACGAATTCTCAATTAATTTTTGCATCATATATGATCT
27624042 ATGATGGTCTAACTTGTCGTGCCAAATAGTAAATGTA
261 ATGATGGTCTAACTTGTCGTGCCAAATAGTAAATGTA
27624079 TTGATAACTCATGTGATTATTTTATAGATGCATCTACTAAAATTATATAATATCAAAACCATCCA
1 TTGATAACTCATGTGATTATTTTATAGATGCATCTACTAAAATTATATAATATCAAAACCATCCA
27624144 CATGGTGGACGAATGGGGCCCATATTCATTTTAGAAATGCAACACATTAAACCTCAACTTTAGTC
66 CATGGTGGACGAATGGGGCCCATATTCATTTTAGAAATGCAACACATTAAACCTCAACTTTAGTC
*
27624209 AGTGAGTTTTTAATAATCAATTATCATTGAGAATAAGCAACACATGAGAATTATTTAAATTAAAG
131 AGTGAGTTTTTAATAATCAATTATCATTGAGAATAAGCAACACATGAGAATAATTTAAATTAAAG
27624274 AACTTGTGGTTCTTTAATGAATGTCTATACGAATTCTCAATTAATTTTTGCATCATATATGATCT
196 AACTTGTGGTTCTTTAATGAATGTCTATACGAATTCTCAATTAATTTTTGCATCATATATGATCT
27624339 ATGATGGTCTAACTTGTCGTGCCAAATAGTAAATGTA
261 ATGATGGTCTAACTTGTCGTGCCAAATAGTAAATGTA
27624376 TT
1 TT
27624378 TGTACCAGTA
Statistics
Matches: 295, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
297 295 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (297 bp):
TTGATAACTCATGTGATTATTTTATAGATGCATCTACTAAAATTATATAATATCAAAACCATCCA
CATGGTGGACGAATGGGGCCCATATTCATTTTAGAAATGCAACACATTAAACCTCAACTTTAGTC
AGTGAGTTTTTAATAATCAATTATCATTGAGAATAAGCAACACATGAGAATAATTTAAATTAAAG
AACTTGTGGTTCTTTAATGAATGTCTATACGAATTCTCAATTAATTTTTGCATCATATATGATCT
ATGATGGTCTAACTTGTCGTGCCAAATAGTAAATGTA
Found at i:27631269 original size:13 final size:13
Alignment explanation
Indices: 27631251--27631275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27631241 ACAACAATTT
27631251 TTGTTGCTAGCAA
1 TTGTTGCTAGCAA
27631264 TTGTTGCTAGCA
1 TTGTTGCTAGCA
27631276 GAGTTTGTTT
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (13 bp):
TTGTTGCTAGCAA
Found at i:27648226 original size:37 final size:39
Alignment explanation
Indices: 27648127--27648229 Score: 101
Period size: 37 Copynumber: 2.7 Consensus size: 39
27648117 ATCTACAAGA
*
27648127 TAAACATTAAATTTAAT-TT-AA-TATTAAGATAATCACT
1 TAAATATT-AATTTAATATTAAACTATTAAGATAATCACT
* * * *
27648164 TTAATATTAAATTAATAATATACTATTAAGATAAAT-A-T
1 TAAATATTAATTTAATATTAAACTATTAAGAT-AATCACT
27648202 TAAAT-TTAATTTAATATTAAACTATTAA
1 TAAATATTAATTTAATATTAAACTATTAA
27648230 ACTATTATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
36 7 0.13
37 27 0.51
38 6 0.11
39 10 0.19
40 3 0.06
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (39 bp):
TAAATATTAATTTAATATTAAACTATTAAGATAATCACT
Found at i:27651105 original size:20 final size:20
Alignment explanation
Indices: 27651075--27651121 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
27651065 GGTGTCGCGA
27651075 CACAGCCTGAGGATGTCATGT
1 CACA-CCTGAGGATGTCATGT
27651096 CACACCTGAGGATGTCATGT
1 CACACCTGAGGATGTCATGT
27651116 CACACC
1 CACACC
27651122 CCTGAAGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (20 bp):
CACACCTGAGGATGTCATGT
Found at i:27656401 original size:21 final size:21
Alignment explanation
Indices: 27656372--27656424 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
27656362 TAGCCTACGG
* **
27656372 CACGGGCGTGTCCTTTGGTCA
1 CACGGGCGTGTCCCTTGACCA
* *
27656393 CATGGGCGTTTCCCTTGACCA
1 CACGGGCGTGTCCCTTGACCA
27656414 CACGGGCGTGT
1 CACGGGCGTGT
27656425 ATGCCCTACA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.11, C:0.30, G:0.32, T:0.26
Consensus pattern (21 bp):
CACGGGCGTGTCCCTTGACCA
Found at i:27665444 original size:21 final size:20
Alignment explanation
Indices: 27665396--27665466 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
27665386 ATGATGTCAG
* *
27665396 AATATAAAAATA-TATTAAA
1 AATATAAAAATATTTTTTAA
27665415 AATTAATAAAAATATTTTTTAA
1 AA-T-ATAAAAATATTTTTTAA
**
27665437 AATCAT-AATTTATTTTTTAA
1 AAT-ATAAAAATATTTTTTAA
27665457 AATA-AAAAAT
1 AATATAAAAAT
27665467 CTAAAATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 6 0.15
20 16 0.39
21 12 0.29
22 7 0.17
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATAAAAATATTTTTTAA
Found at i:27669192 original size:27 final size:27
Alignment explanation
Indices: 27669161--27669215 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
27669151 AACCAGAGTA
27669161 AAGGAGTTGAAAAGTACTAAAGGCATG
1 AAGGAGTTGAAAAGTACTAAAGGCATG
27669188 AAGGAGTTGAAAAGTACTAAAGGCATG
1 AAGGAGTTGAAAAGTACTAAAGGCATG
27669215 A
1 A
27669216 TAATGTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.18
Consensus pattern (27 bp):
AAGGAGTTGAAAAGTACTAAAGGCATG
Found at i:27674098 original size:3 final size:3
Alignment explanation
Indices: 27674090--27674127 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
27674080 TAGAATTTTG
27674090 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27674128 GAAATAGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27676310 original size:25 final size:25
Alignment explanation
Indices: 27676282--27676329 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
27676272 GGGTTTGTTT
27676282 GTGAAATTATTAAGGACTTTAATCA
1 GTGAAATTATTAAGGACTTTAATCA
*
27676307 GTGAAATTATTAGGGACTTTAAT
1 GTGAAATTATTAAGGACTTTAAT
27676330 AAGGACTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGAAATTATTAAGGACTTTAATCA
Found at i:27678266 original size:29 final size:30
Alignment explanation
Indices: 27678202--27678268 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
27678192 TTGATGCAAT
*
27678202 TATATATATAAAACTTTTATTGTGCTTAAA
1 TATATATATAAAACTTTTATTGTGATTAAA
* *
27678232 TATATA-ATAAAACTTTTTATTTTGATTTAA
1 TATATATATAAAAC-TTTTATTGTGATTAAA
27678262 T-TATATA
1 TATATATA
27678269 CATTTAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TATATATATAAAACTTTTATTGTGATTAAA
Found at i:27679132 original size:18 final size:19
Alignment explanation
Indices: 27679087--27679132 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
27679077 CTCATTTTTA
*
27679087 AAAAAAAATTTGATTAAATG
1 AAAAAAAATTT-ATTAAAAG
*
27679107 AAATAAAATTT-TTAAAAG
1 AAAAAAAATTTATTAAAAG
27679125 AAAAAAAA
1 AAAAAAAA
27679133 CAATGATGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 13 0.57
20 10 0.43
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAAAAATTTATTAAAAG
Found at i:27679855 original size:15 final size:15
Alignment explanation
Indices: 27679827--27679860 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27679817 ATTTTTAAGG
* *
27679827 AATAATATATAATAA
1 AATAAAATACAATAA
27679842 AATAAAATACAATAA
1 AATAAAATACAATAA
27679857 AATA
1 AATA
27679861 TAATGATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAAATACAATAA
Found at i:27680046 original size:28 final size:25
Alignment explanation
Indices: 27680015--27680074 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
27680005 AAATGCAAGG
27680015 AATAATATATAGTAAATATATAATGTAT
1 AATAATATATA-TAAATA-A-AATGTAT
* *
27680043 AATAAAATTTATAAATAAAATGTAT
1 AATAATATATATAAATAAAATGTAT
27680068 AATAATA
1 AATAATA
27680075 AAAATAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 13 0.45
26 1 0.03
27 6 0.21
28 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (25 bp):
AATAATATATATAAATAAAATGTAT
Found at i:27680061 original size:13 final size:13
Alignment explanation
Indices: 27680036--27680069 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27680026 GTAAATATAT
27680036 AATGTAT-AATAA
1 AATGTATAAATAA
*
27680048 AATTTATAAATAA
1 AATGTATAAATAA
27680061 AATGTATAA
1 AATGTATAA
27680070 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:27680071 original size:12 final size:12
Alignment explanation
Indices: 27680036--27680072 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
27680026 GTAAATATAT
27680036 AATGTATAATAA
1 AATGTATAATAA
*
27680048 AATTTATAAATAA
1 AATGTAT-AATAA
27680061 AATGTATAATAA
1 AATGTATAATAA
27680073 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:27680081 original size:25 final size:27
Alignment explanation
Indices: 27680027--27680087 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
27680017 TAATATATAG
**
27680027 TAAATATATAATGTATAATAAAATTTA
1 TAAATATATAATGTATAATAAAATAAA
27680054 TAAATA-A-AATGTATAATAATAA-AAA
1 TAAATATATAATGTATAATAA-AATAAA
27680079 T-AATATATA
1 TAAATATATA
27680088 CTATTTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 4 0.14
25 15 0.52
26 4 0.14
27 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (27 bp):
TAAATATATAATGTATAATAAAATAAA
Found at i:27683723 original size:1 final size:1
Alignment explanation
Indices: 27683717--27683754 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
27683707 TATTCTCTAG
27683717 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27683755 CTACCAAGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27685671 original size:14 final size:14
Alignment explanation
Indices: 27685652--27685680 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27685642 CCAAGGAATT
27685652 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
27685666 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
27685680 T
1 T
27685681 AATTTGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:27685974 original size:25 final size:24
Alignment explanation
Indices: 27685946--27686003 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
27685936 CTTCTTTTCA
27685946 TTTATTTT-ACAACTTAATTTTATAT
1 TTTATTTTAACAACTTAATTTT-T-T
* *
27685971 TTTATTTTTAAGAATTTAATTTTTT
1 TTTA-TTTTAACAACTTAATTTTTT
27685996 TTTATTTT
1 TTTATTTT
27686004 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 9 0.31
26 5 0.17
27 11 0.38
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTATTTTAACAACTTAATTTTTT
Found at i:27692016 original size:19 final size:20
Alignment explanation
Indices: 27691994--27692031 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27691984 ATTCATATCT
*
27691994 TTATTATTGAAAT-TAAAAC
1 TTATTATTAAAATATAAAAC
*
27692013 TTATTGTTAAAATATAAAA
1 TTATTATTAAAATATAAAA
27692032 TTGAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TTATTATTAAAATATAAAAC
Found at i:27700366 original size:26 final size:26
Alignment explanation
Indices: 27700337--27700460 Score: 76
Period size: 26 Copynumber: 4.8 Consensus size: 26
27700327 AAATGGAGCA
*
27700337 AAATAATATGTAAAACAATTTGAAGT
1 AAATAATATGTAAAACAATTTGAAAT
** *
27700363 AAATAGCA--TAAAACAATTTACAAAT
1 AAATAATATGTAAAACAATTT-GAAAT
* * * *
27700388 AAGTAGTATGTAAAATAATTT-AGAAC
1 AAATAATATGTAAAACAATTTGA-AAT
** *
27700414 AAATAATATACAAAGCAATTT-ATAAT
1 AAATAATATGTAAAACAATTTGA-AAT
* *
27700440 AAATAATTTGTAAGACAATTT
1 AAATAATATGTAAAACAATTT
27700461 AAAGTAACAT
Statistics
Matches: 73, Mismatches: 21, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
24 11 0.15
25 10 0.14
26 42 0.58
27 10 0.14
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATAATATGTAAAACAATTTGAAAT
Found at i:27700722 original size:26 final size:26
Alignment explanation
Indices: 27700682--27700742 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
27700672 CAGTTTAATC
27700682 AAATAATATAGAAAACAATTTAAAAT
1 AAATAATATAGAAAACAATTTAAAAT
** * *
27700708 AAATAATATCTAAAATAATTTGAAAT
1 AAATAATATAGAAAACAATTTAAAAT
27700734 AAA-AATATA
1 AAATAATATA
27700743 AAATAGTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (26 bp):
AAATAATATAGAAAACAATTTAAAAT
Found at i:27700799 original size:37 final size:37
Alignment explanation
Indices: 27700720--27700799 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
27700710 ATAATATCTA
* **
27700720 AAATAATTTGAAATAAAAATATAAAATAGTTTACTAT
1 AAATAATTTGAAATAAAAAAATAAAATAGTTTAAAAT
*
27700757 AAATAATTT-AAATAAAATAAATAGAATAGTTTAAAAT
1 AAATAATTTGAAATAAAA-AAATAAAATAGTTTAAAAT
*
27700794 GAATAA
1 AAATAA
27700800 GATGTAAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 8 0.22
37 29 0.78
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (37 bp):
AAATAATTTGAAATAAAAAAATAAAATAGTTTAAAAT
Found at i:27700982 original size:18 final size:18
Alignment explanation
Indices: 27700954--27701011 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
27700944 ATATAATCAC
**
27700954 AATAA-AATAATAGCCAT
1 AATAATAATAATAGAAAT
27700971 AATAATAATAATAGAAAT
1 AATAATAATAATAGAAAT
*
27700989 AATAGTAATAATA-AAAT
1 AATAATAATAATAGAAAT
*
27701006 CATAAT
1 AATAAT
27701012 GGTATTAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 13 0.37
18 22 0.63
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAATAATAATAGAAAT
Found at i:27709842 original size:18 final size:18
Alignment explanation
Indices: 27709805--27709844 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
27709795 ACATAAATTC
*
27709805 AAATAACAAAACACCTAA
1 AAATAACAAAACAACTAA
*
27709823 AAATAAC-AAACAACTGA
1 AAATAACAAAACAACTAA
27709840 AAATA
1 AAATA
27709845 GCAGTCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.68, C:0.17, G:0.03, T:0.12
Consensus pattern (18 bp):
AAATAACAAAACAACTAA
Found at i:27713117 original size:2 final size:2
Alignment explanation
Indices: 27713112--27713147 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
27713102 CCAAAAAATA
* *
27713112 AT AT AT AT AA AT AT AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27713148 TCTTTCCACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:27713126 original size:10 final size:10
Alignment explanation
Indices: 27713111--27713147 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
27713101 ACCAAAAAAT
27713111 AATATATATA
1 AATATATATA
27713121 AATATATATA
1 AATATATATA
27713131 AATATATATA
1 AATATATATA
*
27713141 TATATAT
1 AATATAT
27713148 TCTTTCCACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AATATATATA
Found at i:27718857 original size:17 final size:17
Alignment explanation
Indices: 27718831--27718879 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
27718821 AGAAAAATTT
* *
27718831 TATTTCTATTAATTTAG
1 TATTTTTATTAATTTAA
27718848 TATTTTTA-T--TTTAA
1 TATTTTTATTAATTTAA
*
27718862 TATTTTTTTTAATTTAA
1 TATTTTTATTAATTTAA
27718879 T
1 T
27718880 TGTTACATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 11 0.42
15 1 0.04
16 1 0.04
17 13 0.50
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTTATTAATTTAA
Done.