Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 15 of 325
Found at i:4680046 original size:38 final size:38
Alignment explanation
Indices: 4679995--4680067 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
4679985 AAGCAAAAAG
4679995 TTAGACATTTAAACCAGATTAAATTCAATTTAAAACAA
1 TTAGACATTTAAACCAGATTAAATTCAATTTAAAACAA
4680033 TTAGACATTTAAACCAGATTAAATTCAATTTAAAA
1 TTAGACATTTAAACCAGATTAAATTCAATTTAAAA
4680068 TAATCTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.33
Consensus pattern (38 bp):
TTAGACATTTAAACCAGATTAAATTCAATTTAAAACAA
Found at i:4682564 original size:19 final size:19
Alignment explanation
Indices: 4682540--4682578 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4682530 ACCATTGATA
4682540 GATGATAGCACTAAGATTG
1 GATGATAGCACTAAGATTG
* *
4682559 GATGATAGTACTAATATTG
1 GATGATAGCACTAAGATTG
4682578 G
1 G
4682579 TAACAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (19 bp):
GATGATAGCACTAAGATTG
Found at i:4685099 original size:2 final size:2
Alignment explanation
Indices: 4685094--4685130 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4685084 GGGTGATGCT
*
4685094 GA GA GA GA GT GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4685131 GAAACTAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.03
Consensus pattern (2 bp):
GA
Found at i:4690246 original size:31 final size:31
Alignment explanation
Indices: 4690192--4690250 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4690182 TTTTTAATTT
4690192 TTTAAAAATATTTATATTATTTTAATTTAATA
1 TTTAAAAATATTTATATTATTTT-ATTTAATA
*
4690224 TTTAATAAT-TTTATA-TATTTTTATTTA
1 TTTAAAAATATTTATATTA-TTTTATTTA
4690251 TTAAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 7 0.28
31 10 0.40
32 8 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTAAAAATATTTATATTATTTTATTTAATA
Found at i:4691577 original size:31 final size:29
Alignment explanation
Indices: 4691535--4691643 Score: 113
Period size: 31 Copynumber: 3.8 Consensus size: 29
4691525 AAATAGTACT
* *
4691535 AAAGCAGACAGTACTATACACATTATTACAA
1 AAAGCAAACAGTACTATAGACA-TATTAC-A
4691566 AAAGCAAACAGTACTATAGAC--A-T---
1 AAAGCAAACAGTACTATAGACATATTACA
4691589 AAAGCAAACAGTACTATAGACATCATTACA
1 AAAGCAAACAGTACTATAGACAT-ATTACA
*
4691619 TAAAGCAAACAGTATTATAGACATA
1 -AAAGCAAACAGTACTATAGACATA
4691644 AAGTAGCTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
23 21 0.31
26 1 0.01
27 2 0.03
28 1 0.01
30 1 0.01
31 41 0.61
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.21
Consensus pattern (29 bp):
AAAGCAAACAGTACTATAGACATATTACA
Found at i:4691596 original size:23 final size:23
Alignment explanation
Indices: 4691566--4691611 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4691556 ATTATTACAA
4691566 AAAGCAAACAGTACTATAGACAT
1 AAAGCAAACAGTACTATAGACAT
4691589 AAAGCAAACAGTACTATAGACAT
1 AAAGCAAACAGTACTATAGACAT
4691612 CATTACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.17
Consensus pattern (23 bp):
AAAGCAAACAGTACTATAGACAT
Found at i:4691600 original size:54 final size:54
Alignment explanation
Indices: 4691534--4691646 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
4691524 CAAATAGTAC
* *
4691534 TAAAGCAGACAGTACTATACACATTATTACAAAAAGCAAACAGTACTATAGACA
1 TAAAGCAAACAGTACTATACACATCATTACAAAAAGCAAACAGTACTATAGACA
* * *
4691588 TAAAGCAAACAGTACTATAGACATCATTACATAAAGCAAACAGTATTATAGACA
1 TAAAGCAAACAGTACTATACACATCATTACAAAAAGCAAACAGTACTATAGACA
4691642 TAAAG
1 TAAAG
4691647 TAGCTGATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (54 bp):
TAAAGCAAACAGTACTATACACATCATTACAAAAAGCAAACAGTACTATAGACA
Found at i:4693976 original size:13 final size:13
Alignment explanation
Indices: 4693958--4693982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4693948 TTTGCATTAT
4693958 TAGCAATAAATGC
1 TAGCAATAAATGC
4693971 TAGCAATAAATG
1 TAGCAATAAATG
4693983 ATTGATATTG
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:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
TAGCAATAAATGC
Found at i:4696296 original size:14 final size:14
Alignment explanation
Indices: 4696277--4696306 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4696267 AAAGTAAAAG
4696277 AATAATAAATGAAT
1 AATAATAAATGAAT
4696291 AATAATAAATGAAT
1 AATAATAAATGAAT
4696305 AA
1 AA
4696307 ATAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
AATAATAAATGAAT
Found at i:4703753 original size:19 final size:18
Alignment explanation
Indices: 4703707--4703760 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
4703697 GACAATCTTT
*
4703707 TTTAAA-AAATAAAACATA
1 TTTAAAGAAACAAAA-ATA
*
4703725 -TTAAAGAAACCAAAATA
1 TTTAAAGAAACAAAAATA
4703742 TTTAAAGAAAACAAAAATA
1 TTTAAAG-AAACAAAAATA
4703761 AACCATGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 8 0.27
18 12 0.40
19 10 0.33
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (18 bp):
TTTAAAGAAACAAAAATA
Found at i:4706097 original size:24 final size:24
Alignment explanation
Indices: 4706065--4706115 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
4706055 TAGTATAAAG
4706065 ACAAATGTATAG-TAAATAAAATAT
1 ACAAATGTATAGATAAA-AAAATAT
* * *
4706089 ACAAGTGTATGGATAAAAATATAT
1 ACAAATGTATAGATAAAAAAATAT
4706113 ACA
1 ACA
4706116 TTTGTAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
ACAAATGTATAGATAAAAAAATAT
Found at i:4706284 original size:19 final size:19
Alignment explanation
Indices: 4706249--4706285 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4706239 TTATAAATGA
* *
4706249 ATACAAATGTATTAATAAT
1 ATACAAATGAATAAATAAT
4706268 ATACAAATGAATAAATAA
1 ATACAAATGAATAAATAA
4706286 ATAATACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
ATACAAATGAATAAATAAT
Found at i:4708377 original size:46 final size:46
Alignment explanation
Indices: 4708325--4708550 Score: 292
Period size: 46 Copynumber: 4.9 Consensus size: 46
4708315 GCTCTCTGAA
* *
4708325 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
*
4708371 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
* *
4708417 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
** * * *
4708463 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC-ACATTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-CTAAT
** * **
4708509 GGGCAAACGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4708551 ATGACAGAAA
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.01
46 126 0.77
47 34 0.21
48 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
Found at i:4708539 original size:47 final size:46
Alignment explanation
Indices: 4708320--4708594 Score: 279
Period size: 46 Copynumber: 6.0 Consensus size: 46
4708310 AGTGTGCTCT
* ** * *
4708320 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
4708366 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
4708412 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
4708458 GTAACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
4708503 ATTGACGGGCAAACGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 -CTGACATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
4708551 ATGACA-GAAAACT-AGTGAA-ACCATAGTTGAAAGATACTATGGCA
1 CTGACATG-AAA-TGAAT-AAGACCATGGTTGAAAGATACCATGGCA
4708595 TCATGTCGAA
Statistics
Matches: 202, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
45 2 0.01
46 158 0.78
47 40 0.20
48 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4711507 original size:30 final size:30
Alignment explanation
Indices: 4711471--4711575 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
4711461 TAAATCTTAG
*
4711471 CCTTTTCCACCACCAACTCCACTGGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
4711501 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
4711531 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-TTCCACCACCAACTCCACTAGCCACA
*
4711561 -CTTGCTCCACCACCA
1 CCTT-TTCCACCACCA
4711576 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
29 3 0.05
30 62 0.95
ACGTcount: A:0.25, C:0.49, G:0.05, T:0.22
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:4711978 original size:18 final size:18
Alignment explanation
Indices: 4711955--4712003 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
4711945 ATGTGAGGTA
*
4711955 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
4711973 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
4711991 ATTATTATTATTA
1 AGTATTATTATTA
4712004 TGAGTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:4711983 original size:3 final size:3
Alignment explanation
Indices: 4711957--4712004 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
4711947 GTGAGGTAAG
* * * *
4711957 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4712005 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:4712004 original size:12 final size:12
Alignment explanation
Indices: 4711957--4712004 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
4711947 GTGAGGTAAG
* *
4711957 TATTAATATTAG
1 TATTAGTATTAT
4711969 TATTAGTATTAT
1 TATTAGTATTAT
4711981 TATTAGTATTAT
1 TATTAGTATTAT
*
4711993 TATTATTATTAT
1 TATTAGTATTAT
4712005 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:4712177 original size:24 final size:26
Alignment explanation
Indices: 4712150--4712217 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 26
4712140 GTGAAGTTGT
*
4712150 GAAATAATTATTG-ATTGAAAG-GTG-
1 GAAATAATGA-TGAATTGAAAGTGTGA
4712174 GAAA-AATGATGAATTGAAAGTGTGA
1 GAAATAATGATGAATTGAAAGTGTGA
**
4712199 GAAATTGTGATTGAATTGA
1 GAAATAATGA-TGAATTGA
4712218 GAATATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.06
23 12 0.33
24 7 0.19
25 4 0.11
26 3 0.08
27 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (26 bp):
GAAATAATGATGAATTGAAAGTGTGA
Found at i:4712420 original size:37 final size:39
Alignment explanation
Indices: 4712361--4712451 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
4712351 CGGATAGATT
* * *
4712361 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTAT-C
* **
4712398 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
4712437 CGATGAGGCACTGGG
1 CGATGAGGCACTGGG
4712452 CCATTCTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.43
38 2 0.05
39 20 0.45
40 3 0.07
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
Found at i:4733473 original size:75 final size:75
Alignment explanation
Indices: 4733350--4733509 Score: 266
Period size: 75 Copynumber: 2.1 Consensus size: 75
4733340 CAATTTCTGT
* * *
4733350 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
4733415 TGCTGAGGTA
66 CGCTGAGGTA
*
4733425 TTTTCAATTTCTGCTCTTCAAAAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGCTCTTCAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
4733490 CGCTGAGGTA
66 CGCTGAGGTA
*
4733500 ATTTCAATTT
1 TTTTCAATTT
4733510 ATGTTTTTCA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (75 bp):
TTTTCAATTTCTGCTCTTCAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTA
Found at i:4733523 original size:89 final size:89
Alignment explanation
Indices: 4733425--4733876 Score: 742
Period size: 89 Copynumber: 5.1 Consensus size: 89
4733415 TGCTGAGGTA
* * * *
4733425 TTTTCAATTTCTGCTCTTCAAAAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
4733490 CGCTGAGGTAATTTCAATTTATGT
66 CGCTGAGGTATTTTCAATTTCTGT
4733514 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
4733579 CGCTGAGGTATTTTCAATTTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
* *
4733603 TTTTCAATTTCTACTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
4733668 CGCTGAGGTATTTTCGATTTCTGC
66 CGCTGAGGTATTTTCAATTTCTGT
*
4733692 TTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
4733757 TGCTGAGGTATTTTCAATTTATGT
66 CGCTGAGGTATTTTCAATTTCTGT
* * *
4733781 TTTTCAATTTCTGCTCTTCAAAGAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
*
4733846 CGCTGAGGTAATTTCAATTTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
4733870 TTGTCAA
1 TTTTCAA
4733877 AAATCAACTC
Statistics
Matches: 338, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 338 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (89 bp):
TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:4733562 original size:164 final size:164
Alignment explanation
Indices: 4733286--4734039 Score: 805
Period size: 178 Copynumber: 4.5 Consensus size: 164
4733276 TGTTCCAAAG
4733286 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
4733351 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
66 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
4733416 GCTGAGGTATTTTCAATTTCTGCTCTTCAAAAAA
131 GCTGAGGTATTTTCAATTTCTGCTCTTCAAAAAA
* * * *
4733450 AACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
4733515 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
66 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
4733580 GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTACTCTTCAAAAAA
131 GCTGAGGTATTTTCAATTTCTG--------------CTCTTCAAAAAA
* * * * *
4733628 ATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
4733693 TTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
66 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
*
4733758 GCTGAGGTATTTTCAATTTATGTTTTTCAATTTCTGCTCTTCAAAGAA
131 GCTGAGG-----------TA---TTTTCAATTTCTGCTCTTCAAAAAA
*
4733806 ATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG--
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
* * *
4733869 -------TT-TG----TC--AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTC-GGCTCA
66 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---G
* * *
4733919 CATGCTGAGGTCTTTTCAATTTCTGTTCGTC----AA
128 CATGCTGAGGTATTTTCAATTTCTGCTCTTCAAAAAA
* * * * *
4733952 ATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCGCACGTTGAGGTATTTTCAATTTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT
* *
4734016 GTTTTTTCAATTTATGCTTTTCAA
63 G-TTTTTCAATTTCTGCTCTTCAA
4734040 TTTATGCTTT
Statistics
Matches: 505, Mismatches: 34, Indels: 101
0.79 0.05 0.16
Matches are distributed among these distances:
145 2 0.00
146 34 0.07
148 22 0.04
150 17 0.03
153 1 0.00
158 2 0.00
159 2 0.00
161 2 0.00
162 36 0.07
163 2 0.00
164 159 0.31
168 2 0.00
169 2 0.00
178 207 0.41
189 2 0.00
192 13 0.03
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (164 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
GCTGAGGTATTTTCAATTTCTGCTCTTCAAAAAA
Found at i:4733936 original size:75 final size:75
Alignment explanation
Indices: 4733781--4734019 Score: 301
Period size: 73 Copynumber: 3.2 Consensus size: 75
4733771 CAATTTATGT
* * *
4733781 TTTTCAATTTCTGCTCT-TCAAAGAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGG--
1 TTTTCAATTTCTG-TTTGTC-AA-AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCT
4733843 -ACACGCTGAGGTA
62 CACACGCTGAGGTA
* *
4733856 ATTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACA
* *
4733921 TGCTGAGGTC
66 CGCTGAGGTA
* *
4733931 TTTTCAATTTCTGTTCGTC--AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCGCA
1 TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACA
*
4733994 CGTTGAGGTA
66 CGCTGAGGTA
*
4734004 TTTTCAATTTTTGTTT
1 TTTTCAATTTCTGTTT
4734020 TTTCAATTTA
Statistics
Matches: 144, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
72 2 0.01
73 96 0.67
74 4 0.03
75 42 0.29
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACA
CGCTGAGGTA
Found at i:4734036 original size:14 final size:14
Alignment explanation
Indices: 4734004--4734050 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
4733994 CGTTGAGGTA
* *
4734004 TTTTCAATTTTTGTT
1 TTTTCAATTTATG-C
4734019 TTTTCAATTTATGC
1 TTTTCAATTTATGC
4734033 TTTTCAATTTATGC
1 TTTTCAATTTATGC
4734047 TTTT
1 TTTT
4734051 TAAAAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:4734051 original size:15 final size:15
Alignment explanation
Indices: 4734004--4734051 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
4733994 CGTTGAGGTA
* *
4734004 TTTTCAATTTTTGTT
1 TTTTCAATTTATGCT
4734019 TTTTCAATTTATGC-
1 TTTTCAATTTATGCT
4734033 TTTTCAATTTATGCT
1 TTTTCAATTTATGCT
4734048 TTTT
1 TTTT
4734052 AAAAAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTCAATTTATGCT
Found at i:4734945 original size:30 final size:30
Alignment explanation
Indices: 4734916--4735015 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
4734906 CTTAGCCTTT
*
4734916 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACCACCAACTCCACTAGCCACA-CTTGC
*
4734946 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
4734976 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
4735006 TCCACCACCA
1 TCCACCACCA
4735016 CTTGTACCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 3 0.05
30 56 0.95
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:4735606 original size:25 final size:25
Alignment explanation
Indices: 4735515--4735719 Score: 75
Period size: 25 Copynumber: 8.2 Consensus size: 25
4735505 ATTATATTTC
* * *
4735515 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
4735539 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
4735560 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
4735587 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* * * *
4735612 TTAATATTATATTATTTATATTTTTTTT
1 TTAATACTATATTATGTATA---TATAT
** * *
4735640 TCTACATGTTATCTTATGTATATAT-C
1 T-TA-ATACTATATTATGTATATATAT
* *
4735666 TT-A-ACTATATTATGTATGTATTT
1 TTAATACTATATTATGTATATATAT
* * *
4735689 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
4735714 TTAATA
1 TTAATA
4735720 TTATCACGTA
Statistics
Matches: 134, Mismatches: 33, Indels: 27
0.69 0.17 0.14
Matches are distributed among these distances:
21 2 0.01
22 29 0.22
23 11 0.08
24 3 0.02
25 54 0.40
26 2 0.01
27 13 0.10
28 4 0.03
29 2 0.01
30 14 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:4735896 original size:16 final size:15
Alignment explanation
Indices: 4735872--4735919 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4735862 TAATTATTAT
*
4735872 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
4735888 TATTTTAATATTTTA
1 TATTTTAATATTTTA
4735903 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
4735919 T
1 T
4735920 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:4735907 original size:7 final size:8
Alignment explanation
Indices: 4735872--4735923 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4735862 TAATTATTAT
*
4735872 TATTCTAA
1 TATTTTAA
*
4735880 TATTTTGA
1 TATTTTAA
4735888 TATTTTAA
1 TATTTTAA
4735896 TATTTT-A
1 TATTTTAA
4735903 TATTTTATA
1 TATTTTA-A
*
4735912 TATTTTAT
1 TATTTTAA
4735920 TATT
1 TATT
4735924 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:4741147 original size:21 final size:20
Alignment explanation
Indices: 4741113--4741157 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4741103 CTAAAATGTG
*
4741113 AATTGGATTGAATTGAATATA
1 AATTGGATTAAATTGAAT-TA
* *
4741134 AATTGTATTAAATTGAGTTA
1 AATTGGATTAAATTGAATTA
4741154 AATT
1 AATT
4741158 TACTCGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
AATTGGATTAAATTGAATTA
Found at i:4757657 original size:15 final size:15
Alignment explanation
Indices: 4757637--4757666 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4757627 AATAATAATT
4757637 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
4757652 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
4757667 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:4757778 original size:18 final size:18
Alignment explanation
Indices: 4757755--4757820 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
4757745 AAATATATAT
4757755 TAATAATAGTAATAAATA
1 TAATAATAGTAATAAATA
4757773 TAATAATAGTAATAAATAGA
1 TAATAATAGTAATAAAT--A
* *
4757793 AAATAATAGTACAT-TA-A
1 TAATAATAGTA-ATAAATA
4757810 TAATAATAGTA
1 TAATAATAGTA
4757821 TATGTTGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 11 0.26
18 17 0.40
20 12 0.29
21 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (18 bp):
TAATAATAGTAATAAATA
Found at i:4758105 original size:3 final size:3
Alignment explanation
Indices: 4758099--4758212 Score: 70
Period size: 3 Copynumber: 37.7 Consensus size: 3
4758089 ATAGTTGTAG
* * * * * * *
4758099 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
4758146 T-A TAA AAA AAA TAA TAA TAG TAA GGGAGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA --TA-A TAA TAA TAA TAA TAA TAA
* *
4758193 TAA TGA TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
4758213 TAAATAAAAA
Statistics
Matches: 83, Mismatches: 23, Indels: 10
0.72 0.20 0.09
Matches are distributed among these distances:
2 4 0.05
3 76 0.92
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:4758143 original size:20 final size:21
Alignment explanation
Indices: 4758104--4758143 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4758094 TGTAGTAATA
*
4758104 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
4758125 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
4758144 AATATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:4758146 original size:17 final size:17
Alignment explanation
Indices: 4758100--4758164 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
4758090 TAGTTGTAGT
4758100 AATAATAATAGTAAGAAAA
1 AATAATAATA-TAA-AAAA
* * *
4758119 ATAGTGATAATATAACAAT
1 A-A-TAATAATATAAAAAA
*
4758138 AATAGTAATATAAAAAA
1 AATAATAATATAAAAAA
4758155 AATAATAATA
1 AATAATAATA
4758165 GTAAGGGAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
17 20 0.56
18 1 0.03
19 4 0.11
20 4 0.11
21 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (17 bp):
AATAATAATATAAAAAA
Found at i:4758218 original size:12 final size:13
Alignment explanation
Indices: 4758174--4758226 Score: 65
Period size: 12 Copynumber: 4.1 Consensus size: 13
4758164 AGTAAGGGAG
4758174 ATAATAATAATA-
1 ATAATAATAATAT
4758186 ATAATAATAATGAT
1 ATAATAATAAT-AT
4758200 ACTAATAATAATAT
1 A-TAATAATAATAT
*
4758214 A-AATAAAAATAT
1 ATAATAATAATAT
4758226 A
1 A
4758227 AACAACAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 22 0.59
13 1 0.03
14 4 0.11
15 10 0.27
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:4759967 original size:23 final size:23
Alignment explanation
Indices: 4759941--4760013 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
4759931 AGTGCCACAT
*
4759941 TGATATATAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4759964 TGATATGTAGCC-ATAGCTACCAC
1 TGATATGTAGCCGA-AGCTACCAC
*
4759987 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4760010 TGAT
1 TGAT
4760014 CAATAACACT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
22 1 0.02
23 43 0.96
24 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:4760113 original size:8 final size:8
Alignment explanation
Indices: 4760100--4760128 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4760090 ACCCGGGACT
4760100 CACTGTAA
1 CACTGTAA
4760108 CACTGTAA
1 CACTGTAA
4760116 CACTGTAA
1 CACTGTAA
4760124 CACTG
1 CACTG
4760129 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:4762456 original size:41 final size:40
Alignment explanation
Indices: 4762409--4762525 Score: 119
Period size: 41 Copynumber: 2.9 Consensus size: 40
4762399 CCTGTATCTC
* * * *
4762409 ACACCGGCACAAGGCCTGCTAGACTCAAAGTCTGATTTTAT
1 ACACCGGCA-AAGGCCTGCTAGGCTCAAAGCCCGATTTAAT
*
4762450 ACACCGGCAATAAGCCTGCTAGGCAT-AAAGCCCGATTTAAT
1 ACACCGGCAA-AGGCCTGCTAGGC-TCAAAGCCCGATTTAAT
* * *
4762491 TCACCAGCAAAAGGCTTGCTAGGCTCAAAGCCCGA
1 ACACCGGC-AAAGGCCTGCTAGGCTCAAAGCCCGA
4762526 ATATCACTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.03
41 58 0.92
42 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (40 bp):
ACACCGGCAAAGGCCTGCTAGGCTCAAAGCCCGATTTAAT
Found at i:4762985 original size:7 final size:7
Alignment explanation
Indices: 4762973--4762999 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4762963 CAAAATTCAT
4762973 AAAACAC
1 AAAACAC
4762980 AAAACAC
1 AAAACAC
4762987 AAAACAC
1 AAAACAC
4762994 AAAACA
1 AAAACA
4763000 AACATAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAC
Found at i:4778007 original size:26 final size:26
Alignment explanation
Indices: 4777978--4778028 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4777968 ATTTTATTTT
4777978 ATTTTAATATTTAAT-AATTTTTTTAC
1 ATTTT-ATATTTAATAAATTTTTTTAC
* *
4778004 ATTTTTTATTTATTAAATTTTTTTA
1 ATTTTATATTTAATAAATTTTTTTA
4778029 TATAGTCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
ATTTTATATTTAATAAATTTTTTTAC
Found at i:4781908 original size:69 final size:69
Alignment explanation
Indices: 4781797--4781934 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
4781787 ATCATGCCAT
*
4781797 CCAACTCGCATGTTGCTTTCTACCATATCATTCAAATGAAGTTTTACCATAACGTTCCTCTAGTT
1 CCAACTCGCATGTTGCTTTCTACCACATCATTCAAATGAAGTTTTACCATAACGTTCCTCTAGTT
4781862 TGGA
66 TGGA
* *
4781866 CCAACTCGCATGTTGCTTTCTATCACATCATTCAAATGAAGTTTTACCATAACGTTCCTTTAGTT
1 CCAACTCGCATGTTGCTTTCTACCACATCATTCAAATGAAGTTTTACCATAACGTTCCTCTAGTT
4781931 TGGA
66 TGGA
4781935 ACATTTATTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (69 bp):
CCAACTCGCATGTTGCTTTCTACCACATCATTCAAATGAAGTTTTACCATAACGTTCCTCTAGTT
TGGA
Found at i:4785686 original size:11 final size:11
Alignment explanation
Indices: 4785670--4785695 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4785660 CATGATCTGC
4785670 CATGAGACTGT
1 CATGAGACTGT
4785681 CATGAGACTGT
1 CATGAGACTGT
4785692 CATG
1 CATG
4785696 CTTTAGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (11 bp):
CATGAGACTGT
Found at i:4790888 original size:23 final size:23
Alignment explanation
Indices: 4790862--4790907 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4790852 ACGAAAAATC
4790862 AAATGCTTGACCATCTTACCAAA
1 AAATGCTTGACCATCTTACCAAA
*
4790885 AAATGCTTGATCATCTTACCAAA
1 AAATGCTTGACCATCTTACCAAA
4790908 GAAAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (23 bp):
AAATGCTTGACCATCTTACCAAA
Found at i:4792462 original size:31 final size:31
Alignment explanation
Indices: 4792427--4792493 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
4792417 AAATCCTTAA
4792427 AAAGAAAAAAAGTAAATGTGAAGTAGCCTTT
1 AAAGAAAAAAAGTAAATGTGAAGTAGCCTTT
4792458 AAAGAAAAAAAGTAAATGTGAAGTAGCCTTT
1 AAAGAAAAAAAGTAAATGTGAAGTAGCCTTT
4792489 AAAGA
1 AAAGA
4792494 CTTTGGTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.21
Consensus pattern (31 bp):
AAAGAAAAAAAGTAAATGTGAAGTAGCCTTT
Found at i:4793441 original size:18 final size:18
Alignment explanation
Indices: 4793418--4793459 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4793408 GTTTCTTGGT
* * *
4793418 TTATTTTGTTTAGTTTTA
1 TTATTTTGATTACTTTAA
4793436 TTATTTTGATTACTTTAA
1 TTATTTTGATTACTTTAA
4793454 TTATTT
1 TTATTT
4793460 AGGTTATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (18 bp):
TTATTTTGATTACTTTAA
Found at i:4799570 original size:11 final size:11
Alignment explanation
Indices: 4799554--4799578 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4799544 AGAAAATTAA
4799554 AATTTTAAAAT
1 AATTTTAAAAT
4799565 AATTTTAAAAT
1 AATTTTAAAAT
4799576 AAT
1 AAT
4799579 AATTTTGCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:4801927 original size:19 final size:20
Alignment explanation
Indices: 4801903--4801941 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4801893 GTCCCATTAT
4801903 TTATTTATTTTT-TGTTTTA
1 TTATTTATTTTTATGTTTTA
4801922 TTATTTATTTTTATGTTTTA
1 TTATTTATTTTTATGTTTTA
4801942 AATGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTATTTATTTTTATGTTTTA
Found at i:4801933 original size:20 final size:19
Alignment explanation
Indices: 4801903--4801941 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
4801893 GTCCCATTAT
*
4801903 TTATTTATTTTTTGTTTTA
1 TTATTTATTTTATGTTTTA
4801922 TTATTTATTTTTATGTTTTA
1 TTATTTA-TTTTATGTTTTA
4801942 AATGTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTATTTATTTTATGTTTTA
Found at i:4801960 original size:25 final size:23
Alignment explanation
Indices: 4801904--4801968 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
4801894 TCCCATTATT
*
4801904 TATTTATTTTT-TGTTTT--AT-
1 TATTTATTTTTATATTTTAAATG
*
4801923 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
4801946 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
4801969 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
22 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:4808277 original size:12 final size:12
Alignment explanation
Indices: 4808260--4808293 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4808250 ATATATATTT
*
4808260 AAAAATTATATA
1 AAAAATAATATA
4808272 AAAAATAATATA
1 AAAAATAATATA
*
4808284 AAAATTAATA
1 AAAAATAATA
4808294 CGGGCCAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAATAATATA
Found at i:4808485 original size:27 final size:27
Alignment explanation
Indices: 4808450--4808501 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4808440 CATGAACACC
4808450 TTTAATTGTAACTAATCATTCACATCT
1 TTTAATTGTAACTAATCATTCACATCT
*
4808477 TTTACTTGTAACTAATCATTCACAT
1 TTTAATTGTAACTAATCATTCACAT
4808502 TCTATAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTAATTGTAACTAATCATTCACATCT
Found at i:4809051 original size:15 final size:15
Alignment explanation
Indices: 4809031--4809059 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4809021 GACGCGAGCA
4809031 AGAAGAAGGCTGCTC
1 AGAAGAAGGCTGCTC
4809046 AGAAGAAGGCTGCT
1 AGAAGAAGGCTGCT
4809060 GCCGCTGCGA
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:0.34, C:0.17, G:0.34, T:0.14
Consensus pattern (15 bp):
AGAAGAAGGCTGCTC
Found at i:4813043 original size:26 final size:26
Alignment explanation
Indices: 4813014--4813066 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4813004 GTCCCTTTTA
4813014 AGCTTTTTAAACTTCTTCAAATAGAG
1 AGCTTTTTAAACTTCTTCAAATAGAG
4813040 AGCTTTTTAAACTTCTTCAAATAGAG
1 AGCTTTTTAAACTTCTTCAAATAGAG
4813066 A
1 A
4813067 TGATGAGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (26 bp):
AGCTTTTTAAACTTCTTCAAATAGAG
Found at i:4819809 original size:13 final size:13
Alignment explanation
Indices: 4819791--4819815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4819781 ATGGTATTGC
4819791 TTGAATGTTAATA
1 TTGAATGTTAATA
4819804 TTGAATGTTAAT
1 TTGAATGTTAAT
4819816 TACTTATAAA
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGAATGTTAATA
Found at i:4820403 original size:85 final size:85
Alignment explanation
Indices: 4820303--4820461 Score: 264
Period size: 85 Copynumber: 1.9 Consensus size: 85
4820293 ATGTGAATAA
* *
4820303 AACCTTTAATCAAAGTTAAACCTAAAAGAGACGTGGTTGAATTATAAACATAACACGACACCGTT
1 AACCTTCAATCAAAGTTAAACATAAAAGAGACGTGGTTGAATTATAAACATAACACGACACCGTT
4820368 TAGTTGGAAGATAGGGAGGC
66 TAGTTGGAAGATAGGGAGGC
* **
4820388 AACCTTCAATCAAAGTTTAACATAAAAGAGACGTGGTTGAATTATAAACATAACACGATGCCGTT
1 AACCTTCAATCAAAGTTAAACATAAAAGAGACGTGGTTGAATTATAAACATAACACGACACCGTT
*
4820453 TGGTTGGAA
66 TAGTTGGAA
4820462 TTGAGTCCGT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (85 bp):
AACCTTCAATCAAAGTTAAACATAAAAGAGACGTGGTTGAATTATAAACATAACACGACACCGTT
TAGTTGGAAGATAGGGAGGC
Found at i:4820836 original size:15 final size:15
Alignment explanation
Indices: 4820816--4820844 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4820806 GACGCGAGCA
4820816 AGAAGAAGGCTGCTC
1 AGAAGAAGGCTGCTC
4820831 AGAAGAAGGCTGCT
1 AGAAGAAGGCTGCT
4820845 GCCGCTGCGA
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:0.34, C:0.17, G:0.34, T:0.14
Consensus pattern (15 bp):
AGAAGAAGGCTGCTC
Found at i:4824762 original size:22 final size:22
Alignment explanation
Indices: 4824737--4824780 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4824727 ACAAAAAGTT
4824737 GGTTTCAAAGTGATTCAATAAA
1 GGTTTCAAAGTGATTCAATAAA
4824759 GGTTTCAAAGTGATTCAATAAA
1 GGTTTCAAAGTGATTCAATAAA
4824781 TGAAATTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
GGTTTCAAAGTGATTCAATAAA
Found at i:4830204 original size:12 final size:12
Alignment explanation
Indices: 4830187--4830217 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4830177 CTTCGTTTGA
4830187 AGAAAACGAAAT
1 AGAAAACGAAAT
4830199 AGAAAACGAAAT
1 AGAAAACGAAAT
4830211 AGAAAAC
1 AGAAAAC
4830218 CTCTTGGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.10, G:0.16, T:0.06
Consensus pattern (12 bp):
AGAAAACGAAAT
Found at i:4834379 original size:19 final size:19
Alignment explanation
Indices: 4834355--4834392 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4834345 ATAATCCATG
4834355 TTTAAGCTGTAACATTCAA
1 TTTAAGCTGTAACATTCAA
4834374 TTTAAGCTGTAACATTCAA
1 TTTAAGCTGTAACATTCAA
4834393 AACTCAGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TTTAAGCTGTAACATTCAA
Found at i:4844215 original size:46 final size:46
Alignment explanation
Indices: 4844168--4844441 Score: 363
Period size: 46 Copynumber: 6.0 Consensus size: 46
4844158 GCTCTCTGAT
** *
4844168 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-ACTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA-TGAC
** * * * *
4844214 ATGAAATGTGTAAGACCATGATTAAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
4844260 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
4844306 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
4844352 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
4844398 A-GAAAATGAGTAAGACCATGGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
4844442 TCAAAGATAA
Statistics
Matches: 205, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 204 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:4844321 original size:92 final size:92
Alignment explanation
Indices: 4844164--4844436 Score: 404
Period size: 92 Copynumber: 3.0 Consensus size: 92
4844154 GTGTGCTCTC
** * * *
4844164 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-ACTGATATGAAATGTGTAAG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA-TGACAGGAAATGAGTAAG
* *
4844228 ACCATGATTAAAAGATACCATGGCAACG
65 ACCATGGTTGAAAGATACCATGGCAACG
* *
4844256 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
*
4844321 CCATGGTTGAAAGATACCATGGCAGCG
66 CCATGGTTGAAAGATACCATGGCAACG
* *
4844348 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
* *
4844413 CCATGGTTGAAAGACACTATGGCA
66 CCATGGTTGAAAGATACCATGGCA
4844437 TCATGTCAAA
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 163 0.99
93 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACG
Found at i:4844743 original size:16 final size:17
Alignment explanation
Indices: 4844722--4844754 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4844712 ATGATGGAGC
4844722 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
4844738 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
4844755 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:4862540 original size:46 final size:47
Alignment explanation
Indices: 4862416--4862934 Score: 697
Period size: 46 Copynumber: 11.1 Consensus size: 47
4862406 GAAATGATAG
*
4862416 TAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTAATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGA
* *
4862463 T-AGTGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAG-GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
4862510 TAAGG-CTAATGGCCGATGTGTATGAA-GTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTG-ATGAATGTGAAAGTGTATATATGTGA
* *
4862556 TTAAGGCCT-ATGGCCGATGTTGTATGAATGTGAAAGTGTATATGTGTGA
1 -TAAGGCCTAATAGCCGATG-TG-ATGAATGTGAAAGTGTATATATGTGA
* *
4862605 T-AGG-CTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
4862650 T-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
4862696 TAAGGCCTAATAG-CGA-GCTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATG-TGATGAATGTGAAAGTGTATATATGTGA
* * *
4862742 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
4862789 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-ATGT-TGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
4862834 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAG-GTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
4862880 TAAGGCCTAATGGCCGATGTGATGAATGTTGAAAGTGTATATATG-GA
1 TAAGGCCTAATAGCCGATGTGATGAATG-TGAAAGTGTATATATGTGA
4862927 CTAAGGCC
1 -TAAGGCC
4862935 GAGTGGCCAA
Statistics
Matches: 440, Mismatches: 13, Indels: 37
0.90 0.03 0.08
Matches are distributed among these distances:
44 1 0.00
45 73 0.17
46 160 0.36
47 127 0.29
48 61 0.14
49 18 0.04
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:4862734 original size:186 final size:185
Alignment explanation
Indices: 4862416--4862922 Score: 733
Period size: 186 Copynumber: 2.7 Consensus size: 185
4862406 GAAATGATAG
* * *
4862416 TAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTAATATATGTGATAGTGCCTAATGGCCGAT
1 TAAGGCTAATAGCCGACGTGATGAATGTGAAAGTGT-ATAT-TGTGATAG-GCCTAATAGCCGAT
*
4862481 GTGATGAATGTGAAAGTGTATATACGTGATAAGG-CTAATGGCCGATGTGTATGAA-GTGAAAGT
63 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGT
*
4862544 GTATATACGTGATTAAGGCCT-ATGGCCGATGTTGTATGAATGTGAAAGTGTATATGTGTGA
127 GTATATACGTGA-TAAGGCCTAATAGCCGATG-TG-ATGAATGTGAAAGTGTATATGTGTGA
4862605 T-AGGCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAGGCCTAATAGCCGATGT
1 TAAGGCTAATAGCCGACGTGATGAATGTGAAAGTGTATAT-TGTGATAGGCCTAATAGCCGATGT
* *
4862669 GATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAG-CGA-GCTGATGAATGTGAAAGTGT
65 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG-TGATGAATGTGAAAGTGT
** * *
4862732 ATATGTGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTGTGTGA
129 ATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
4862789 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-ATGTTGTGATAAGGCCTAATAGCCGACG
1 TAAGG-CTAATAGCCGACGTGATGAATGTGAAAGTGTATATTGTGAT-AGGCCTAATAGCCGATG
4862853 TGATGAATGTGAAAG-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTTGAAAGTG
64 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG-TGAAAGTG
4862917 TATATA
128 TATATA
4862923 TGGACTAAGG
Statistics
Matches: 291, Mismatches: 17, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
184 55 0.19
185 64 0.22
186 121 0.42
187 18 0.06
188 32 0.11
189 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (185 bp):
TAAGGCTAATAGCCGACGTGATGAATGTGAAAGTGTATATTGTGATAGGCCTAATAGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:4865084 original size:43 final size:43
Alignment explanation
Indices: 4865020--4865165 Score: 258
Period size: 43 Copynumber: 3.4 Consensus size: 43
4865010 TTGGTTTTCA
*
4865020 GCACTAAGTGTGCGAGCAATAAGTGTTCACGG-TGTTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTG-TGAGATTG
*
4865063 GCACTAAGTGTGCGGGTAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
4865106 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
4865149 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
4865166 TTGAAATGCA
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
43 97 0.98
44 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:4865182 original size:29 final size:29
Alignment explanation
Indices: 4865147--4865220 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
4865137 GTTGTGAGAT
* *
4865147 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
4865176 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
4865205 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
4865221 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:4865579 original size:40 final size:40
Alignment explanation
Indices: 4865534--4865765 Score: 333
Period size: 40 Copynumber: 5.8 Consensus size: 40
4865524 AATGATGTCC
4865534 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
4865574 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
*
4865614 GGCTAAGTCCCGAGGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* * *
4865654 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* ** *
4865694 TGCTAAACCCCGAAGAGCATTCATGCTGGTGTTATGT-TCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTG--ATGTATCCG
* * *
4865735 GGCTAGGTCCCG-AGAGCAATCATGCTGGTGA
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
4865766 CGTGTATTCG
Statistics
Matches: 173, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
40 157 0.91
41 12 0.07
42 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
Found at i:4869336 original size:47 final size:47
Alignment explanation
Indices: 4869229--4869751 Score: 793
Period size: 47 Copynumber: 11.1 Consensus size: 47
4869219 TGAATGATAG
*
4869229 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * *
4869278 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
4869325 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
4869372 TAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
4869416 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
4869463 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
4869510 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
4869557 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * *
4869604 TAAGGCCTAATAGCCGACATGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
4869651 TAAGGCCTAATAGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
4869697 TAAGGCCTAATGGCCGATGTGGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGT-GATGAATGTGAAAGTGTATATATGTGA
*
4869745 CAAGGCC
1 TAAGGCC
4869752 GAGTGGCCAC
Statistics
Matches: 446, Mismatches: 23, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
44 10 0.02
45 30 0.07
46 74 0.17
47 266 0.60
48 31 0.07
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:4869969 original size:37 final size:37
Alignment explanation
Indices: 4869913--4869991 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
4869903 CCGAGCTCTA
* *
4869913 AAGACCCGATGACTACGTGTGGGGATGT-TGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGAT-TATGTCCGGGT
*
4869950 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
4869987 AAGAC
1 AAGAC
4869992 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:4875436 original size:67 final size:69
Alignment explanation
Indices: 4875363--4875493 Score: 185
Period size: 67 Copynumber: 1.9 Consensus size: 69
4875353 TTAATGTAAG
* * *
4875363 ATTAAAATTAATTTTTTAATTTCTTAAATTAAATTTAAAAGTATCTATCT-TTTT-GTCTTATTA
1 ATTAAAATTAACTTTTTAATTTCTTAAATTAAATCTAAAAATATCTATCTCTTTTAGTCTTATTA
4875426 ATTT
66 ATTT
* * * *
4875430 ATTAAAATTAACTTTTTAATTTCTTACATTATATCTAAAAATATGTATCTCTTTTATTCTTATT
1 ATTAAAATTAACTTTTTAATTTCTTAAATTAAATCTAAAAATATCTATCTCTTTTAGTCTTATT
4875494 CATATTTCCA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 44 0.80
68 4 0.07
69 7 0.13
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (69 bp):
ATTAAAATTAACTTTTTAATTTCTTAAATTAAATCTAAAAATATCTATCTCTTTTAGTCTTATTA
ATTT
Found at i:4876577 original size:32 final size:31
Alignment explanation
Indices: 4876539--4876601 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
4876529 ACACTTATTT
4876539 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
4876571 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
4876602 CATATCTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.27
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:4876860 original size:41 final size:41
Alignment explanation
Indices: 4876815--4876970 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
4876805 ACCGGCTCTT
*
4876815 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
4876856 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
4876897 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
4876938 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4876971 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:4878469 original size:12 final size:12
Alignment explanation
Indices: 4878452--4878476 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4878442 TTTCACACAT
4878452 AACACACAAATA
1 AACACACAAATA
4878464 AACACACAAATA
1 AACACACAAATA
4878476 A
1 A
4878477 TATTAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (12 bp):
AACACACAAATA
Found at i:4884154 original size:32 final size:31
Alignment explanation
Indices: 4884116--4884179 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
4884106 ACACTTATTT
4884116 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
4884148 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
4884179 T
1 T
4884180 ACATATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:4884437 original size:41 final size:41
Alignment explanation
Indices: 4884392--4884547 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
4884382 ACCGGCTCTT
*
4884392 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
4884433 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
4884474 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
4884515 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4884548 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:4887502 original size:15 final size:15
Alignment explanation
Indices: 4887482--4887515 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4887472 ATTAATTTTG
*
4887482 ATATTTTCTATTATT
1 ATATTTACTATTATT
4887497 ATATTTACTATTATT
1 ATATTTACTATTATT
4887512 -TATT
1 ATATT
4887516 GTTATTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATTTACTATTATT
Found at i:4888031 original size:26 final size:24
Alignment explanation
Indices: 4888002--4888075 Score: 60
Period size: 26 Copynumber: 2.8 Consensus size: 24
4887992 CTTATGTACA
4888002 TATATTTACATGCATATATTTTCTTT
1 TATATTTA-ATGCATATATTTT-TTT
4888028 TATATATT-ATGCATATACATTTTTTT
1 TATAT-TTAATGCATAT--ATTTTTTT
* *
4888054 AATATTATATATGTATATATTT
1 TATATT-TA-ATGCATATATTT
4888076 ATACTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
25 9 0.22
26 17 0.43
27 7 0.17
28 7 0.17
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATTTAATGCATATATTTTTTT
Found at i:4888032 original size:28 final size:26
Alignment explanation
Indices: 4888001--4888075 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 26
4887991 TCTTATGTAC
4888001 ATATATTTACATGCATATATTTTCTTTT
1 ATATATTTA-ATGCATATATTTT-TTTT
*
4888029 ATATA-TT-ATGCATATACATTTTTTT
1 ATATATTTAATGCATATA-TTTTTTTT
*
4888054 A-ATATTATATATGTATATATTT
1 ATATATT-TA-ATGCATATATTT
4888076 ATACTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
24 3 0.08
25 15 0.38
26 4 0.10
27 4 0.10
28 13 0.33
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (26 bp):
ATATATTTAATGCATATATTTTTTTT
Found at i:4888042 original size:25 final size:24
Alignment explanation
Indices: 4888011--4888061 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
4888001 ATATATTTAC
*
4888011 ATGCATATA-TTTTCTTTTATATATT
1 ATGCATATACATTT-TTTTA-ATATT
4888036 ATGCATATACATTTTTTTAATATT
1 ATGCATATACATTTTTTTAATATT
4888060 AT
1 AT
4888062 ATATGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 14 0.58
26 3 0.12
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (24 bp):
ATGCATATACATTTTTTTAATATT
Found at i:4889702 original size:10 final size:10
Alignment explanation
Indices: 4889684--4889715 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
4889674 GCTCTTTCAC
*
4889684 TTAGTTTTGT
1 TTAGATTTGT
4889694 TTAGATTTGT
1 TTAGATTTGT
4889704 TTAGATTTGT
1 TTAGATTTGT
4889714 TT
1 TT
4889716 GGGTCTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.66
Consensus pattern (10 bp):
TTAGATTTGT
Found at i:4895977 original size:47 final size:48
Alignment explanation
Indices: 4895923--4896019 Score: 142
Period size: 47 Copynumber: 2.0 Consensus size: 48
4895913 AACCTCGATA
* *
4895923 CAATGTCAGCTTGTATGAGCAA-ATTCATAAATGTTAGCTTGTGTGAG
1 CAATGTCAGCTTGTATGAGCAACATTAATAAATGTCAGCTTGTGTGAG
* * *
4895970 CAATGTCAGCTTGTATGAGCAACCTTAATCACTGTCAGCTTGTGTGAG
1 CAATGTCAGCTTGTATGAGCAACATTAATAAATGTCAGCTTGTGTGAG
4896018 CA
1 CA
4896020 CTATAGTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 22 0.50
48 22 0.50
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (48 bp):
CAATGTCAGCTTGTATGAGCAACATTAATAAATGTCAGCTTGTGTGAG
Found at i:4895980 original size:19 final size:19
Alignment explanation
Indices: 4895952--4895991 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4895942 CAAATTCATA
* *
4895952 AATGTTAGCTTGTGTGAGC
1 AATGTCAGCTTGTATGAGC
4895971 AATGTCAGCTTGTATGAGC
1 AATGTCAGCTTGTATGAGC
4895990 AA
1 AA
4895992 CCTTAATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (19 bp):
AATGTCAGCTTGTATGAGC
Found at i:4904170 original size:15 final size:16
Alignment explanation
Indices: 4904133--4904193 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
4904123 AAATTTTAAG
* * *
4904133 TTATTTTGAGTTAGGA
1 TTATTTTAAGTTTGAA
4904149 TTATTTTAAGTTTGAA
1 TTATTTTAAGTTTGAA
* *
4904165 -TATTTTAAATTTAAA
1 TTATTTTAAGTTTGAA
*
4904180 TTATTTTGAGTTTG
1 TTATTTTAAGTTTG
4904194 GGATATTCGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
15 13 0.36
16 23 0.64
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (16 bp):
TTATTTTAAGTTTGAA
Found at i:4904186 original size:16 final size:16
Alignment explanation
Indices: 4904148--4904186 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4904138 TTGAGTTAGG
* *
4904148 ATTATTTTAAGTTTGA
1 ATTATTTTAAATTTAA
4904164 A-TATTTTAAATTTAA
1 ATTATTTTAAATTTAA
4904179 ATTATTTT
1 ATTATTTT
4904187 GAGTTTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:4905038 original size:71 final size:71
Alignment explanation
Indices: 4904922--4905060 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
4904912 GTTAAGAGGA
4904922 AGCTTCAATTTGGAAAATATCAATTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
1 AGCTTCAATTTGGAAAATATCAATTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
4904987 TGGTCC
66 TGGTCC
* * *
4904993 AGCTTCAATTTGGAAGATATCAGTTTTACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
1 AGCTTCAATTTGGAAAATATCAATTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
4905058 TGG
66 TGG
4905061 CCCTCTCAAC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (71 bp):
AGCTTCAATTTGGAAAATATCAATTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
TGGTCC
Found at i:4910335 original size:8 final size:8
Alignment explanation
Indices: 4910311--4910347 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
4910301 CATCAAAATT
4910311 AATAT-AA
1 AATATAAA
4910318 AATA-AAA
1 AATATAAA
4910325 AATATAAA
1 AATATAAA
4910333 AATATAAA
1 AATATAAA
*
4910341 AACATAA
1 AATATAA
4910348 CTTAAAATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
7 10 0.37
8 17 0.63
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (8 bp):
AATATAAA
Found at i:4911513 original size:25 final size:26
Alignment explanation
Indices: 4911453--4911501 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
4911443 ATTTGTTTTA
*
4911453 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
4911477 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
4911502 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:4914473 original size:38 final size:38
Alignment explanation
Indices: 4914422--4914497 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
4914412 ATAATTAGCC
*
4914422 TCCCTAGGAATATGTCTTACCACCCAATGCTCTGTATT
1 TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
4914460 TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
1 TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
4914498 ATGTAGCAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (38 bp):
TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
Found at i:4915475 original size:10 final size:10
Alignment explanation
Indices: 4915461--4915505 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
4915451 CAAAATTGAA
4915461 ATTATTTTAT
1 ATTATTTTAT
*
4915471 TTTATTTTAT
1 ATTATTTTAT
*
4915481 AATATTTTAT
1 ATTATTTTAT
4915491 A-TA-TTTA-
1 ATTATTTTAT
4915498 ATTATTTT
1 ATTATTTT
4915506 TAATAAATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.03
8 6 0.20
9 5 0.17
10 18 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTATTTTAT
Found at i:4922763 original size:24 final size:24
Alignment explanation
Indices: 4922717--4922763 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4922707 TGCATTATGT
** * *
4922717 ATTTTAATTATTATTTTTTAAAAA
1 ATTTTAATTAGAATCTTTCAAAAA
4922741 ATTTTAATTAGAATCTTTCAAAA
1 ATTTTAATTAGAATCTTTCAAAA
4922764 TATTAATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTTTAATTAGAATCTTTCAAAAA
Found at i:4923409 original size:6 final size:6
Alignment explanation
Indices: 4923398--4923437 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
4923388 GAAATATACT
* *
4923398 GCAAAA GCAAAA GCAAAG GCAAAG GCAAAG GCAAAG GCAA
1 GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAA
4923438 TTGAACGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.55, C:0.17, G:0.28, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:4934861 original size:20 final size:19
Alignment explanation
Indices: 4934822--4934861 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4934812 AATTAGAGAG
*
4934822 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
4934841 AATTATATTTTCTAGGAATA
1 AATT-TATTTTCTAAGAATA
4934861 A
1 A
4934862 CAATCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:4938956 original size:14 final size:15
Alignment explanation
Indices: 4938933--4938965 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4938923 TTCAAACTTC
*
4938933 AATTATTTAAAT-AT
1 AATTAATTAAATAAT
4938947 AATTAATTAAATAAT
1 AATTAATTAAATAAT
4938962 AATT
1 AATT
4938966 TGAAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATTAAATAAT
Found at i:4948150 original size:4 final size:4
Alignment explanation
Indices: 4948143--4948176 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
4948133 TTATATTAAT
4948143 TAAA TAAA GTAAA TAAA TAAA TAAA TAAAA TAAA
1 TAAA TAAA -TAAA TAAA TAAA TAAA T-AAA TAAA
4948177 GACAAATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:4948159 original size:13 final size:13
Alignment explanation
Indices: 4948143--4948177 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
4948133 TTATATTAAT
4948143 TAAATAAAGTAAA
1 TAAATAAAGTAAA
4948156 TAAATAAA-TAAA
1 TAAATAAAGTAAA
4948168 TAAAATAAAG
1 T-AAATAAAG
4948178 ACAAATGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (13 bp):
TAAATAAAGTAAA
Found at i:4948163 original size:17 final size:17
Alignment explanation
Indices: 4948143--4948176 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4948133 TTATATTAAT
4948143 TAAATAAAGT-AAATAAA
1 TAAATAAA-TAAAATAAA
4948160 TAAATAAATAAAATAAA
1 TAAATAAATAAAATAAA
4948177 GACAAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAATAAATAAAATAAA
Found at i:4948324 original size:16 final size:16
Alignment explanation
Indices: 4948276--4948329 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
4948266 ATTTACTATT
4948276 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
4948291 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
4948306 TATTATAAGATATTTA
1 TATAATAAGATATTTA
4948322 TATAATAA
1 TATAATAA
4948330 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:4949385 original size:15 final size:16
Alignment explanation
Indices: 4949365--4949396 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
4949355 TAATATAAAG
4949365 TGAATTGA-AATATAT
1 TGAATTGAGAATATAT
4949380 TGAATTGAGAATATAT
1 TGAATTGAGAATATAT
4949396 T
1 T
4949397 TGATTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (16 bp):
TGAATTGAGAATATAT
Found at i:4949420 original size:20 final size:20
Alignment explanation
Indices: 4949382--4949421 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4949372 AAATATATTG
*
4949382 AATTGAGAATATATTTGATT
1 AATTGAGAATATATCTGATT
4949402 AATTGA-AATATATACTGATT
1 AATTGAGAATATAT-CTGATT
4949422 GAAAACTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (20 bp):
AATTGAGAATATATCTGATT
Found at i:4949761 original size:18 final size:18
Alignment explanation
Indices: 4949741--4949851 Score: 91
Period size: 18 Copynumber: 6.2 Consensus size: 18
4949731 ATAAATGTAT
*
4949741 TGAATAACTGATTATTAT
1 TGAATAACTGATTATTAC
* * *
4949759 TGAATAATTGACTGTTAC
1 TGAATAACTGATTATTAC
* *
4949777 TAAATAAAC-GACTATTAC
1 TGAAT-AACTGATTATTAC
*
4949795 TGAATAAATGATTATTAC
1 TGAATAACTGATTATTAC
* *
4949813 TAAATAACTGATTAATAC
1 TGAATAACTGATTATTAC
* * *
4949831 TG-ATGACTGACTAATAC
1 TGAATAACTGATTATTAC
4949848 TGAA
1 TGAA
4949852 CAATAAAGAT
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
17 17 0.23
18 55 0.74
19 2 0.03
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAATAACTGATTATTAC
Found at i:4949783 original size:36 final size:36
Alignment explanation
Indices: 4949743--4949833 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 36
4949733 AAATGTATTG
* * *
4949743 AATAACTGATTATTATTGAATAATTGACTGTTACTA
1 AATAACTGATTATTACTGAATAAATGACTATTACTA
* *
4949779 AATAAAC-GACTATTACTGAATAAATGATTATTACTA
1 AAT-AACTGATTATTACTGAATAAATGACTATTACTA
*
4949815 AATAACTGATTAATACTGA
1 AATAACTGATTATTACTGA
4949834 TGACTGACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
35 3 0.07
36 40 0.87
37 3 0.07
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (36 bp):
AATAACTGATTATTACTGAATAAATGACTATTACTA
Found at i:4966580 original size:17 final size:17
Alignment explanation
Indices: 4966558--4966591 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4966548 TAAATTTTAG
4966558 AATATATATAA-AAAATA
1 AATATATA-AATAAAATA
4966575 AATATATAAATAAAATA
1 AATATATAAATAAAATA
4966592 TAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATATAAATAAAATA
Found at i:4967122 original size:10 final size:10
Alignment explanation
Indices: 4967109--4967136 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4967099 AAAAAGAATT
4967109 AATTTTAAAA
1 AATTTTAAAA
4967119 AATTTTAAAA
1 AATTTTAAAA
4967129 AATTTTAA
1 AATTTTAA
4967137 GTCTGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:4968497 original size:25 final size:24
Alignment explanation
Indices: 4968469--4968536 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 24
4968459 AGCCCTCCCC
4968469 AAAAAAAAACCTAACCAAAAAAAAGA
1 AAAAAAAAACCTAACC--AAAAAAGA
*
4968495 AAAGAAAAAACCTAACCCAAAAAGA
1 AAA-AAAAAACCTAACCAAAAAAGA
*
4968520 AAAAGAAAATCCTAACC
1 AAAA-AAAAACCTAACC
4968537 CCCCCAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 1 0.03
25 21 0.55
26 3 0.08
27 13 0.34
ACGTcount: A:0.69, C:0.19, G:0.06, T:0.06
Consensus pattern (24 bp):
AAAAAAAAACCTAACCAAAAAAGA
Found at i:4968502 original size:27 final size:26
Alignment explanation
Indices: 4968472--4968536 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
4968462 CCTCCCCAAA
4968472 AAAAAACCTAACCAAAAAAAAGAAAAG
1 AAAAAACCTAACCAAAAAAAA-AAAAG
* *
4968499 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAAAG
*
4968525 -AAAATCCTAACC
1 AAAAAACCTAACC
4968537 CCCCCAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 11 0.31
26 5 0.14
27 19 0.54
ACGTcount: A:0.68, C:0.20, G:0.06, T:0.06
Consensus pattern (26 bp):
AAAAAACCTAACCAAAAAAAAAAAAG
Found at i:4973587 original size:15 final size:17
Alignment explanation
Indices: 4973547--4973587 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
4973537 CAATCATTCT
4973547 AGTAAATTAACTCATCA
1 AGTAAATTAACTCATCA
*
4973564 ACT-AATTAA-TC-TCA
1 AGTAAATTAACTCATCA
4973578 AGTAAATTAA
1 AGTAAATTAA
4973588 GTAATTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 6 0.29
17 2 0.10
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (17 bp):
AGTAAATTAACTCATCA
Found at i:4978620 original size:18 final size:19
Alignment explanation
Indices: 4978597--4978641 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4978587 CTTTTATAAA
*
4978597 TTTATAAAGA-ATATTATT
1 TTTATAAAAACATATTATT
*
4978615 TTTATAAAAACATTTTATT
1 TTTATAAAAACATATTATT
*
4978634 TCTATAAA
1 TTTATAAA
4978642 TTTGTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTATAAAAACATATTATT
Found at i:4979960 original size:39 final size:39
Alignment explanation
Indices: 4979883--4979960 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
4979873 ATATCATGTC
** * *
4979883 ATTAATTACTATGTTTAAAGGAATATCACGTGACACGTT
1 ATTAATTACTATGTGCAAAGGAATACCACATGACACGTT
* * *
4979922 ATTAATTACTATGTGCAAATGAATACCATATGATACGTT
1 ATTAATTACTATGTGCAAAGGAATACCACATGACACGTT
4979961 TTCATTGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (39 bp):
ATTAATTACTATGTGCAAAGGAATACCACATGACACGTT
Found at i:4980459 original size:13 final size:13
Alignment explanation
Indices: 4980441--4980470 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4980431 ACAAATTAAA
4980441 AAAATAAAAAATT
1 AAAATAAAAAATT
4980454 AAAATAAAAAATT
1 AAAATAAAAAATT
4980467 AAAA
1 AAAA
4980471 CAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAAAATT
Found at i:4988265 original size:13 final size:13
Alignment explanation
Indices: 4988247--4988271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4988237 TAAAGGGATA
4988247 AATAAATAAATAC
1 AATAAATAAATAC
4988260 AATAAATAAATA
1 AATAAATAAATA
4988272 TTAAGGAAAA
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAATAAATAC
Found at i:4988499 original size:25 final size:24
Alignment explanation
Indices: 4988470--4988516 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
4988460 AAAGGATAAT
*
4988470 AAATAAATAATAATAATAAATGTGC
1 AAATAAATAAAAATAA-AAATGTGC
4988495 AAATAAATAAAAATAAAAATGT
1 AAATAAATAAAAATAAAAATGT
4988517 AAGCGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (24 bp):
AAATAAATAAAAATAAAAATGTGC
Found at i:4988719 original size:12 final size:13
Alignment explanation
Indices: 4988694--4988730 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4988684 CATACAAATG
4988694 AATAAAAGAATAA
1 AATAAAAGAATAA
4988707 AATAAAA-AATAA
1 AATAAAAGAATAA
4988719 AA-AAAATGAATA
1 AATAAAA-GAATA
4988731 GCATATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.18
12 7 0.32
13 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (13 bp):
AATAAAAGAATAA
Found at i:4996527 original size:15 final size:15
Alignment explanation
Indices: 4996509--4996550 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4996499 ATAAATTCTA
4996509 AAATTTTAAAATGA-T
1 AAATTTTAAAAT-ATT
*
4996524 AAATTATAAAATATT
1 AAATTTTAAAATATT
4996539 AATATTTTAAAA
1 AA-ATTTTAAAA
4996551 ATTTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 14 0.61
16 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAATTTTAAAATATT
Found at i:4997616 original size:17 final size:16
Alignment explanation
Indices: 4997596--4997643 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
4997586 TAATTTTTAT
4997596 AATTTTAAAAATGATTA
1 AATTTTAAAAAT-ATTA
*
4997613 AATTTTATAAATATTTTA
1 AATTTTA-AAA-ATATTA
4997631 AATTTTTAAAAAT
1 AA-TTTTAAAAAT
4997644 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 9 0.33
18 11 0.41
19 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTTTAAAAATATTA
Found at i:5001588 original size:10 final size:10
Alignment explanation
Indices: 5001575--5001599 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5001565 GTTAAAACAA
5001575 AAAAAAAAAG
1 AAAAAAAAAG
5001585 AAAAAAAAAG
1 AAAAAAAAAG
5001595 AAAAA
1 AAAAA
5001600 GAATTTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:5001598 original size:16 final size:15
Alignment explanation
Indices: 5001573--5001602 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5001563 TAGTTAAAAC
5001573 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
5001588 AAAAAAGAAAAAGAA
1 AAAAAA-AAAAAGAA
5001603 TTTGAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:5008120 original size:14 final size:14
Alignment explanation
Indices: 5008101--5008128 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5008091 TCAGTTAATA
5008101 GTGGTTATTTGGAC
1 GTGGTTATTTGGAC
5008115 GTGGTTATTTGGAC
1 GTGGTTATTTGGAC
5008129 ATGTACTTGT
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:0.14, C:0.07, G:0.36, T:0.43
Consensus pattern (14 bp):
GTGGTTATTTGGAC
Found at i:5014855 original size:3 final size:3
Alignment explanation
Indices: 5014841--5014893 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
5014831 AAACATACGC
* * *
5014841 TAA TAT TAA TAA TAA TAA TAA TAAA TAG TAA TAA TAC TACA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A -TAA TAA
5014889 TAA TA
1 TAA TA
5014894 TGTTAATAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
3 35 0.85
4 4 0.10
5 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Done.