Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 165 of 195
Found at i:27370311 original size:22 final size:22
Alignment explanation
Indices: 27370283--27370353 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 22
27370273 GATGAAAATG
27370283 AAAAAAAGATGAAAAAAAGAAA
1 AAAAAAAGATGAAAAAAAGAAA
**
27370305 AAAAAAAGAAAAAAAAAAGAAA
1 AAAAAAAGATGAAAAAAAGAAA
*
27370327 AATGAAGAAA-ATGAAAAAATGAAA
1 AA--AA-AAAGATGAAAAAAAGAAA
27370351 AAA
1 AAA
27370354 TGAAAAAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 23 0.56
24 15 0.37
25 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.06
Consensus pattern (22 bp):
AAAAAAAGATGAAAAAAAGAAA
Found at i:27371777 original size:82 final size:81
Alignment explanation
Indices: 27371556--27371935 Score: 621
Period size: 82 Copynumber: 4.7 Consensus size: 81
27371546 GTCTAGGAGT
* *
27371556 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTCGTGTTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
27371620 TCTG--TAGAGGAGCA
66 TCTGTTTAGAGGAGCA
27371634 ATTTACTTTTC-AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
27371697 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
*
27371713 ATTTACTTTCCAAAGTTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG-GGTG
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
27371777 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
*
27371795 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGC
1 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
27371860 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
*
27371877 ATTTATTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
27371936 AGCAATTTAC
Statistics
Matches: 285, Mismatches: 7, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
77 54 0.19
78 11 0.04
79 20 0.07
80 12 0.04
81 42 0.15
82 125 0.44
83 21 0.07
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
TCTGTTTAGAGGAGCA
Found at i:27371822 original size:41 final size:39
Alignment explanation
Indices: 27371556--27371935 Score: 536
Period size: 41 Copynumber: 9.5 Consensus size: 39
27371546 GTCTAGGAGT
27371556 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
27371596 ATTTAC-TTTCAAAGTCGTGTTACCTCTG--TAGAGGAGCA
1 ATTTACTTTTCAAAGTC--GTTGCCTCTGTTTAGAGGAGCA
27371634 ATTTACTTTTC-AAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
27371673 ATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
27371713 ATTTACTTTCCAAAGTTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGT--TGCCTCTGTTTAGAGGAGCA
*
27371755 ATTTACTTTTCAAAGTCGGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTC-GTTGCCTCTGTTTAGAGGAGCA
27371795 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
27371836 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
27371877 ATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
27371918 ATTTACTTTTCAAAGTCG
1 ATTTACTTTTCAAAGTCG
27371936 AGCAATTTAC
Statistics
Matches: 314, Mismatches: 10, Indels: 31
0.88 0.03 0.09
Matches are distributed among these distances:
37 9 0.03
38 29 0.09
39 37 0.12
40 76 0.24
41 120 0.38
42 43 0.14
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (39 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:27371941 original size:22 final size:22
Alignment explanation
Indices: 27371913--27371957 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
27371903 CTGTTTAGAG
*
27371913 GAGCAATTTACTTTTCAAAGTC
1 GAGCAATTTACTTTCCAAAGTC
27371935 GAGCAATTTACTTTCCAAAGTC
1 GAGCAATTTACTTTCCAAAGTC
27371957 G
1 G
27371958 TGGTGCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (22 bp):
GAGCAATTTACTTTCCAAAGTC
Found at i:27373900 original size:2 final size:2
Alignment explanation
Indices: 27373893--27373929 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27373883 AATAGAAACA
27373893 AT AT AT AT 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 AT AT AT AT A
27373930 GATCAGTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27374431 original size:27 final size:27
Alignment explanation
Indices: 27374401--27374452 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
27374391 AAATTCTTTT
*
27374401 AAATTCATAATC-TAAAAAAGTCTGATA
1 AAATTCATAACCTTAAAAAA-TCTGATA
*
27374428 AAATTCGTAACCTTAAAAAATCTGA
1 AAATTCATAACCTTAAAAAATCTGA
27374453 CAATATACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTCATAACCTTAAAAAATCTGATA
Found at i:27375544 original size:3 final size:3
Alignment explanation
Indices: 27375536--27375562 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27375526 TCTCTGTTTA
27375536 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
27375563 GCTATTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27375966 original size:25 final size:26
Alignment explanation
Indices: 27375919--27375975 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
27375909 AAATTGTTGA
27375919 TTTTTATTACCCAATTATGATTAATGT
1 TTTTTATTACCCAATTATGATT-ATGT
* * *
27375946 TTTTTATT-GCCAA-TATTATTATTT
1 TTTTTATTACCCAATTATGATTATGT
27375970 TTTTTA
1 TTTTTA
27375976 GTTGTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.33
25 6 0.22
26 4 0.15
27 8 0.30
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (26 bp):
TTTTTATTACCCAATTATGATTATGT
Found at i:27377205 original size:5 final size:6
Alignment explanation
Indices: 27377176--27377204 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
27377166 AATACATATA
27377176 TAAAAT TAAAAT TAAAAT TAAAA- TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
27377205 ATATACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAAAT
Found at i:27378902 original size:58 final size:57
Alignment explanation
Indices: 27378275--27378902 Score: 638
Period size: 58 Copynumber: 10.7 Consensus size: 57
27378265 TTGTACAGGA
* *
27378275 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCA-TTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTGAAAACTTATTTTCAAGG
* * * *
27378333 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAAC-TTATTTTCAAGG
* * *
27378391 AAAATTGATACTTTCAACTTTTCGC-CAAAAATATTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTTGAAAAC-TTATTTTCAAGG
* * * *
27378449 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAAGAG
1 AAAATTGATACTTTCAACTTTTCCT--CAAAAATA---TTTTTTGAAAACTTATTTTCAAG-G
* *
27378512 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTT-GAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAAC-TT-ATTTTCAAGG
* * ** *
27378570 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAACCTTTTTTGAAAATTTATTTTTTAGA
1 AAAATTGATACTTTCAACTTTTCCTC--AAAAATA--TTTTTTGAAAACTTATTTTCAAGG
* * * * * *
27378631 AAAATTGATAGTTTCAACTTTTTCC-CAAAAATTTTTTTTTGGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAA-TATTTTTTGAAAAC-TTATTTTCAAGG
* * * *
27378690 AAAATTGATACTTTCAACTTTTCCTTAAAAAT-TCACTTTTGAAAACTT-GTCTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTGAAAACTTATTTTC-AAGG
* * * * *
27378748 AAAATTGATACTTTAAACTTTTTCTTAAAAATCTATTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTGAAAACTTATTTTCAAGG
* * * *
27378806 AGAATTGATACTTTCAACTTTTCTTCAAAAATCCTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTGAAAACTTATTTTCAAGG
27378864 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
27378903 TTAGAAAACA
Statistics
Matches: 485, Mismatches: 58, Indels: 55
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.00
57 19 0.04
58 300 0.62
59 55 0.11
60 22 0.05
61 28 0.06
62 25 0.05
63 35 0.07
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.42
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTATTTTCAAGG
Found at i:27378932 original size:5 final size:5
Alignment explanation
Indices: 27378922--27378988 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
27378912 ATATTTAAAG
*
27378922 AAAAT AAAAT --AAT AAAAT AAAAT ACAAT AAAAAT GAAAAT AAAA- AATACAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AA-A-AT
27378973 AAAAAT AAAAAT AAAA
1 -AAAAT -AAAAT AAAA
27378989 ATGTTAAACA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
3 3 0.06
4 2 0.04
5 26 0.50
6 18 0.35
7 1 0.02
8 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:27378950 original size:10 final size:10
Alignment explanation
Indices: 27378922--27378988 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 10
27378912 ATATTTAAAG
27378922 AAAATAAAAT
1 AAAATAAAAT
27378932 --AATAAAAT
1 AAAATAAAAT
*
27378940 AAAATACAAT
1 AAAATAAAAT
27378950 AAAAATGAAAAT
1 -AAAAT-AAAAT
27378962 AAAA-AATACAT
1 AAAATAA-A-AT
27378973 AAAAATAAAAAT
1 -AAAAT-AAAAT
27378985 AAAA
1 AAAA
27378989 ATGTTAAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
8 8 0.17
9 2 0.04
10 8 0.17
11 15 0.33
12 10 0.22
13 1 0.02
14 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:27378961 original size:35 final size:35
Alignment explanation
Indices: 27378921--27378991 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
27378911 CATATTTAAA
*
27378921 GAAAATAAAATAATAAA-ATAAAAT-ACAATAAAAAT
1 GAAAATAAAA-AATAAATA-AAAATAAAAATAAAAAT
*
27378956 GAAAATAAAAAATACATAAAAATAAAAATAAAAAT
1 GAAAATAAAAAATAAATAAAAATAAAAATAAAAAT
27378991 G
1 G
27378992 TTAAACAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 10 0.31
35 22 0.69
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (35 bp):
GAAAATAAAAAATAAATAAAAATAAAAATAAAAAT
Found at i:27378967 original size:24 final size:23
Alignment explanation
Indices: 27378927--27378989 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
27378917 TAAAGAAAAT
*
27378927 AAAATAATAAA-ATAAAATACAATA
1 AAAATAA-AAATAAAAAATAC-ATA
*
27378951 AAAATGAAAATAAAAAATACATA
1 AAAATAAAAATAAAAAATACATA
27378974 AAAATAAAAATAAAAA
1 AAAATAAAAATAAAAA
27378990 TGTTAAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.60
24 14 0.40
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAATAAAAATAAAAAATACATA
Found at i:27378990 original size:29 final size:29
Alignment explanation
Indices: 27378922--27378988 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
27378912 ATATTTAAAG
27378922 AAAATAAAATAATAAAATAAAATACAATA
1 AAAATAAAATAATAAAATAAAATACAATA
27378951 AAAATGAAAATAA-AAAATACATAA-A-AATA
1 AAAAT-AAAATAATAAAATA-A-AATACAATA
27378980 AAAATAAAA
1 AAAATAAAA
27378989 ATGTTAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
28 4 0.11
29 20 0.57
30 9 0.26
31 2 0.06
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (29 bp):
AAAATAAAATAATAAAATAAAATACAATA
Found at i:27379036 original size:8 final size:7
Alignment explanation
Indices: 27378928--27379043 Score: 52
Period size: 6 Copynumber: 17.4 Consensus size: 7
27378918 AAAGAAAATA
27378928 AAATAAT
1 AAATAAT
27378935 AAAATAA-
1 -AAATAAT
*
27378942 AATACAAT
1 AA-ATAAT
27378950 AAA-AAT
1 AAATAAT
*
27378956 GAA-AAT
1 AAATAAT
*
27378962 AAAAAAT
1 AAATAAT
*
27378969 ACATAA-
1 AAATAAT
27378975 AAATAA-
1 AAATAAT
27378981 AAATAA-
1 AAATAAT
**
27378987 AAATGTT
1 AAATAAT
*
27378994 AAACAAT
1 AAATAAT
**
27379001 -TCTAAT
1 AAATAAT
27379007 -AATAAT
1 AAATAAT
27379013 -AATAAT
1 AAATAAT
*
27379019 AATTAAT
1 AAATAAT
27379026 AAATAAAT
1 AAAT-AAT
27379034 AAATAAT
1 AAATAAT
27379041 AAA
1 AAA
27379044 AAAAAACCTG
Statistics
Matches: 84, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
6 40 0.48
7 29 0.35
8 15 0.18
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (7 bp):
AAATAAT
Found at i:27379519 original size:20 final size:19
Alignment explanation
Indices: 27379491--27379599 Score: 74
Period size: 20 Copynumber: 5.2 Consensus size: 19
27379481 ATAAATATAT
*
27379491 TAATAGATAACAAAAAAAA
1 TAATAGATAATAAAAAAAA
*
27379510 TAATTAGATAATAAAAGAAA
1 TAA-TAGATAATAAAAAAAA
*
27379530 TAGATAAATAATAATAAAAAA
1 TA-ATAGATAATAA-AAAAAA
*
27379551 TAAAAGCAGATAAATAATAAAAATA
1 T--AA-TAGAT-AATAA-AAAAA-A
*
27379576 TTAATAGATAAAAAATAAAAA
1 -TAATAGATAATAAA-AAAAA
27379597 TAA
1 TAA
27379600 AAATAAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
19 3 0.04
20 28 0.39
21 9 0.12
22 9 0.12
23 8 0.11
24 13 0.18
25 1 0.01
26 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (19 bp):
TAATAGATAATAAAAAAAA
Found at i:27379525 original size:16 final size:17
Alignment explanation
Indices: 27379506--27379547 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
27379496 GATAACAAAA
*
27379506 AAAATAATTAGAT-AAT
1 AAAATAAATAGATAAAT
*
27379522 AAAAGAAATAGATAAAT
1 AAAATAAATAGATAAAT
27379539 AATAATAAA
1 AA-AATAAA
27379548 AAATAAAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
18 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (17 bp):
AAAATAAATAGATAAAT
Found at i:27379538 original size:8 final size:7
Alignment explanation
Indices: 27379527--27379625 Score: 59
Period size: 6 Copynumber: 14.4 Consensus size: 7
27379517 ATAATAAAAG
27379527 AAATAGAT
1 AAATA-AT
27379535 AAATAAT
1 AAATAAT
*
27379542 -AATAAA
1 AAATAAT
27379548 AAATAA-
1 AAATAAT
**
27379554 AAGCAGAT
1 AAATA-AT
27379562 AAATAAT
1 AAATAAT
27379569 AAA-AAT
1 AAATAAT
27379575 ATTAATAGAT
1 A--AATA-AT
*
27379585 AAAAAAT
1 AAATAAT
27379592 AAA-AAT
1 AAATAAT
27379598 AAA-AAT
1 AAATAAT
27379604 AAATAAT
1 AAATAAT
*
27379611 GAA-AAT
1 AAATAAT
27379617 AAA-AAT
1 AAATAAT
27379623 AAA
1 AAA
27379626 AAGCCATTGG
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
6 35 0.47
7 23 0.31
8 13 0.17
9 1 0.01
10 3 0.04
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (7 bp):
AAATAAT
Found at i:27379570 original size:30 final size:30
Alignment explanation
Indices: 27379519--27379575 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
27379509 ATAATTAGAT
* *
27379519 AATAAAAGAAATAGATAAATAATAATAAAA
1 AATAAAAGAAATAAATAAATAAAAATAAAA
*
27379549 AATAAAAGCAGATAAAT-AATAAAAATA
1 AATAAAAG-AAATAAATAAATAAAAATA
27379576 TTAATAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (30 bp):
AATAAAAGAAATAAATAAATAAAAATAAAA
Found at i:27379574 original size:23 final size:21
Alignment explanation
Indices: 27379539--27379621 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 21
27379529 ATAGATAAAT
27379539 AATAATAAAAAATAAAAGCAGATA
1 AATAAT-AAAAATAAAA--AGATA
*
27379563 AATAATAAAAATATTAATAGATA
1 AATAATAAAAATA--AAAAGATA
*
27379586 AAAAATAAAAAT-AAAA-ATA
1 AATAATAAAAATAAAAAGATA
*
27379605 AATAATGAAAATAAAAA
1 AATAATAAAAATAAAAA
27379622 TAAAAAGCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
19 13 0.25
20 7 0.14
23 23 0.45
24 6 0.12
25 2 0.04
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.20
Consensus pattern (21 bp):
AATAATAAAAATAAAAAGATA
Found at i:27379595 original size:6 final size:6
Alignment explanation
Indices: 27379586--27379627 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
27379576 TTAATAGATA
*
27379586 AAAAAT AAAAAT AAAAAT AAATAAT GAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT AAAAA
27379628 GCCATTGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:27379605 original size:19 final size:19
Alignment explanation
Indices: 27379560--27379627 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
27379550 ATAAAAGCAG
*
27379560 ATAAATAATAAAAATATTAATA
1 ATAAAAAATAAAAATA--AA-A
27379582 GATAAAAAATAAAAATAAAA
1 -ATAAAAAATAAAAATAAAA
* *
27379602 ATAAATAATGAAAATAAAA
1 ATAAAAAATAAAAATAAAA
27379621 ATAAAAA
1 ATAAAAA
27379628 GCCATTGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 23 0.56
20 1 0.02
21 2 0.05
23 15 0.37
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
ATAAAAAATAAAAATAAAA
Found at i:27379920 original size:45 final size:42
Alignment explanation
Indices: 27379855--27380009 Score: 172
Period size: 41 Copynumber: 3.6 Consensus size: 42
27379845 AAATTTTGAT
*
27379855 CAAAGCTCCTCTAAGT-AGAGGCTTAACGACTTTGAGAAACATAAA
1 CAAAGCTCCTCTAA-TCAGAGGCTCAACGACTTT--GAAA-ATAAA
*
27379900 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAA-GAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAATAAA
** *
27379942 -ATGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAA
* * *
27379983 TAAAGCTCCTCTACTCAAAGGCTCAAC
1 CAAAGCTCCTCTAATCAGAGGCTCAAC
27380010 TTTTGGAAAG
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
40 8 0.08
41 28 0.29
42 24 0.25
43 1 0.01
44 5 0.05
45 27 0.28
46 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (42 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAA
Found at i:27380005 original size:42 final size:43
Alignment explanation
Indices: 27379856--27380009 Score: 172
Period size: 45 Copynumber: 3.6 Consensus size: 43
27379846 AATTTTGATC
* * * *
27379856 AAAGCTCCTCTAAGT-AGAGGCTTAACGACTTTGAGAAACATAAAC
1 AAAGCTCCTCTAA-TCAGAGGCTCAACAACTTT-TGAAA-ATAAAT
* *
27379901 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAAT
*
27379944 --GGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAAT
* *
27379984 AAAGCTCCTCTACTCAAAGGCTCAAC
1 AAAGCTCCTCTAATCAGAGGCTCAAC
27380010 TTTTGGAAAG
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
40 12 0.12
41 25 0.26
42 21 0.22
43 4 0.04
44 5 0.05
45 29 0.30
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (43 bp):
AAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAAT
Found at i:27380052 original size:42 final size:42
Alignment explanation
Indices: 27379904--27380282 Score: 367
Period size: 42 Copynumber: 9.1 Consensus size: 42
27379894 CATAAACAAA
* * * * *
27379904 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAG-AAATG
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* * * *
27379945 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAA-TAAATAAA
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAAT--T
** * * *
27379987 GCTCCTCTACTCAAAGG---CTCAACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* *
27380026 GCTTCTCTAAACAGAGGCACCACAACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* * * *
27380068 ACTCCTTTAAACAGAGGCACCTCAACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* * * *
27380110 GCTCCTCTAAATAGAGGCACCTCAACTTTTAAAAAGCAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* * *
27380152 GCTCTTCTAAACAGAGGCACCTCAACTTTTAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* * * *
27380194 ACTCTTCTAAATAGAGGCACCACAAC-TTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
** * * *
27380235 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
27380277 GCTCCT
1 GCTCCT
27380283 TGACAATTAT
Statistics
Matches: 291, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
39 17 0.06
40 19 0.07
41 64 0.22
42 191 0.66
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
Found at i:27380631 original size:43 final size:42
Alignment explanation
Indices: 27380573--27380654 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
27380563 TTTGGCAAAC
*
27380573 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTTTCATTTGAATT
27380615 TTGGAAATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
1 TTGG-AATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
27380655 GTTCAAAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 4 0.11
43 31 0.84
44 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:27382005 original size:1 final size:1
Alignment explanation
Indices: 27381999--27382055 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
27381989 AATTTGAATC
** * * * *
27381999 TTTTTTTTTCATTTTTTATTTTTTTTTATTTTTTTTATTTTTTTTATTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
27382056 CATCATCTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.09, C:0.02, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:27382020 original size:18 final size:16
Alignment explanation
Indices: 27381999--27382055 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 16
27381989 AATTTGAATC
*
27381999 TTTTTTTTTCATTTTT
1 TTTTTTTTTTATTTTT
27382015 TATTTTTTTTTATTTTTT
1 T-TTTTTTTTTA-TTTTT
27382033 TTATTTTTTTTATTTTT
1 TT-TTTTTTTTATTTTT
27382050 TTTTTT
1 TTTTTT
27382056 CATCATCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 5 0.14
17 17 0.46
18 15 0.41
ACGTcount: A:0.09, C:0.02, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTTATTTTT
Found at i:27382041 original size:35 final size:35
Alignment explanation
Indices: 27382001--27382085 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
27381991 TTTGAATCTT
** * *
27382001 TTTTTTTCATTTTTTATTTTTTTTTAT-TTTTTTTA
1 TTTTTTTCATTTTTT-TTTTTCATCATCTTCTTTTA
*
27382036 TTTTTTTTATTTTTTTTTTTCATCATCTTCTTTTA
1 TTTTTTTCATTTTTTTTTTTCATCATCTTCTTTTA
27382071 TTTTTTCTCATTTTT
1 TTTTTT-TCATTTTT
27382086 CATCCATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 8 0.19
35 27 0.64
36 7 0.17
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (35 bp):
TTTTTTTCATTTTTTTTTTTCATCATCTTCTTTTA
Found at i:27382053 original size:10 final size:9
Alignment explanation
Indices: 27382000--27382052 Score: 81
Period size: 9 Copynumber: 5.9 Consensus size: 9
27381990 ATTTGAATCT
27382000 TTTTTTTTCA
1 TTTTTTTT-A
*
27382010 TTTTTTAT-
1 TTTTTTTTA
27382018 TTTTTTTTA
1 TTTTTTTTA
27382027 TTTTTTTTA
1 TTTTTTTTA
27382036 TTTTTTTTA
1 TTTTTTTTA
27382045 TTTTTTTT
1 TTTTTTTT
27382053 TTTCATCATC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
8 7 0.17
9 26 0.65
10 7 0.17
ACGTcount: A:0.09, C:0.02, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:27386280 original size:60 final size:59
Alignment explanation
Indices: 27386000--27386448 Score: 410
Period size: 58 Copynumber: 7.6 Consensus size: 59
27385990 TGCTTTTGTA
* * ** * * *
27386000 TAAGAAAAATTGATACTTTCAACTTTTTCTC-AAAAACCCATTTTTAAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTAATTT
** *
27386058 TAAGGAAAATTGATACTTTCAACTTTTTTTC-AAAAATA-TTTTTTGAAAACTTTAATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAA-TTTAATTT
* * * *
27386116 TGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATCTTTTGTGAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAAAAA-CTTTTTTGAAAATTTAATTT
* * * * *
27386177 TAAGGAAAATTGATACTTTCAACTTTTCC-CTAAGAATATTTTTTTGAAACTTTAATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTAATTT
** * * * *
27386235 CGAGAAAAATTGGTACTTTAAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAA-CTTTTTTGAAAATTTAATTT
**** *
27386295 TAAGGAAAATTGATACTTTCAACTTTTCC-CAAAAATTTTTTTTTTTGGAAACTTTAATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-AAACTTTTTT-GAAAATTTAATTT
** ** ** * *
27386355 CGAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATTCAC--TTTTGAAAACTT-GTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-AAACTTTTTTGAAAATTTAATTT
**
27386412 CTAACAAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 -TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
27386449 TATTTTTTTT
Statistics
Matches: 319, Mismatches: 61, Indels: 22
0.79 0.15 0.05
Matches are distributed among these distances:
57 12 0.04
58 144 0.45
59 27 0.08
60 84 0.26
61 42 0.13
62 10 0.03
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (59 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTAATTT
Found at i:27386310 original size:118 final size:117
Alignment explanation
Indices: 27386002--27386457 Score: 582
Period size: 119 Copynumber: 3.9 Consensus size: 117
27385992 CTTTTGTATA
* * * *
27386002 AGAAAAATTGATACTTTCAACTTTTTCTC-AAAAACCCATTTTTAAAAATTTATTTTTAAGGAAA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAA
** *
27386066 ATTGATACTTTCAACTTTTTTTCAAAAATA-TTTTTTGAAAACTTTAATTTTG
66 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAACTTTAATTTCG
* *
27386118 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATCTTTTGTGAAAATTTATTTTTAAGGA
1 AGAAAAATTGATACTTTCAACTTTTCCTC--AAAAAAACCTTTTTTGAAAATTTATTTTTAAGGA
*
27386183 AAATTGATACTTTCAACTTTTCC-CTAAGAATATTTTTTTGAAACTTTAATTTCG
64 AAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAACTTTAATTTCG
* *
27386237 AGAAAAATTGGTACTTTAAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAA
1 AGAAAAATTGATACTTTCAACTTTTCCTC-AAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAA
*
27386302 AATTGATACTTTCAACTTTTCC-CAAAAATTTTTTTTTTTGGAAACTTTAATTTCG
65 AATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTT-GAAACTTTAATTTCG
* ** ** * * * **
27386357 AGGAAAATTGATACTTTCAACTTTTTTTCAAAAATTCAC--TTTTGAAAACTTGTTTCTAACAAA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAC-CTTTTTTGAAAATTTATTTTTAAGGAA
27386420 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
65 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
27386458 TAGAAAGCTT
Statistics
Matches: 301, Mismatches: 29, Indels: 19
0.86 0.08 0.05
Matches are distributed among these distances:
116 28 0.09
117 12 0.04
118 99 0.33
119 115 0.38
120 47 0.16
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (117 bp):
AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTCG
Found at i:27386391 original size:27 final size:27
Alignment explanation
Indices: 27386360--27386449 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
27386350 AATTTCGAGG
27386360 AAAATTGATACTTTCAACTTTTTTTCA
1 AAAATTGATACTTTCAACTTTTTTTCA
* * *
27386387 AAAATT--CACTTTTGAAAACTTGTTTCTAACA
1 AAAATTGATAC-TTT--CAACTT-TTT-T-TCA
**
27386418 AAAATTGATACTTTCAACTTTTCCTCA
1 AAAATTGATACTTTCAACTTTTTTTCA
27386445 AAAAT
1 AAAAT
27386450 ATTTTTTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 13 0.28
28 5 0.11
29 5 0.11
30 6 0.13
31 8 0.17
32 3 0.06
33 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.41
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTTTCA
Found at i:27386486 original size:5 final size:5
Alignment explanation
Indices: 27386476--27386529 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
27386466 TTATCTAAAG
*
27386476 AAAAT AAAAT --AAT AAAAT AAAAT ACAAT AAAAAT GAAAAT -AAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT -AAAAT
27386526 AAAA
1 AAAA
27386530 ATATTAAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
3 3 0.07
4 4 0.10
5 21 0.51
6 13 0.32
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:27386514 original size:22 final size:22
Alignment explanation
Indices: 27386476--27386531 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
27386466 TTATCTAAAG
27386476 AAAATAAAATAAT-AAAATAAA-A
1 AAAAT-AAA-AATGAAAATAAATA
*
27386498 TACAATAAAAATGAAAATAAATA
1 -AAAATAAAAATGAAAATAAATA
27386521 AAAATAAAAAT
1 AAAATAAAAAT
27386532 ATTAAACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 3 0.10
22 21 0.72
23 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAATAAAAATGAAAATAAATA
Found at i:27386532 original size:16 final size:15
Alignment explanation
Indices: 27386476--27386529 Score: 76
Period size: 16 Copynumber: 3.6 Consensus size: 15
27386466 TTATCTAAAG
27386476 AAAATAAAAT-AAT-
1 AAAATAAAATAAATA
27386489 AAAATAAAATACAATA
1 AAAATAAAATA-AATA
27386505 AAAATGAAAATAAATA
1 AAAAT-AAAATAAATA
27386521 AAAATAAAA
1 AAAATAAAA
27386530 ATATTAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.27
15 7 0.19
16 14 0.38
17 6 0.16
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAATAAAATAAATA
Found at i:27387124 original size:23 final size:22
Alignment explanation
Indices: 27387082--27387175 Score: 95
Period size: 23 Copynumber: 4.1 Consensus size: 22
27387072 TAAATAAAAG
27387082 AAATAGATAAATAATAAATAATAATA
1 AAATAGATAAATAAT--A-AA-AATA
27387108 AAAGTAGATAAATAATAAAAATA
1 AAA-TAGATAAATAATAAAAATA
* *
27387131 TTAATAGATAAAAAATAAAAAT-
1 -AAATAGATAAATAATAAAAATA
27387153 AAA-A-ATAAATAATAAAAATA
1 AAATAGATAAATAATAAAAATA
27387173 AAA
1 AAA
27387176 ACCCATTGAG
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
19 14 0.23
20 4 0.07
21 2 0.03
23 21 0.34
24 4 0.07
25 1 0.02
26 3 0.05
27 12 0.20
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (22 bp):
AAATAGATAAATAATAAAAATA
Found at i:27387150 original size:6 final size:6
Alignment explanation
Indices: 27387141--27387176 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
27387131 TTAATAGATA
27387141 AAAAAT AAAAAT AAAAAT AAATAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAA
27387177 CCCATTGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:27387153 original size:17 final size:17
Alignment explanation
Indices: 27387050--27387172 Score: 69
Period size: 17 Copynumber: 7.2 Consensus size: 17
27387040 TAAATATATT
*
27387050 AATAGATAACAAA-AAA
1 AATAGATAAAAAATAAA
* *
27387066 ATTAGATAAATAAA-AGA
1 AATAGATAAA-AAATAAA
*
27387083 AATAGATAAATAATAAA
1 AATAGATAAAAAATAAA
*
27387100 TAATA-AT-AAAAGTAGATA
1 -AATAGATAAAAAATA-A-A
**
27387118 AATA-AT-AAAAATATT
1 AATAGATAAAAAATAAA
27387133 AATAGATAAAAAATAAA
1 AATAGATAAAAAATAAA
* *
27387150 AATAAAAATAAATAATAAA
1 AAT--AGATAAAAAATAAA
27387169 AATA
1 AATA
27387173 AAAACCCATT
Statistics
Matches: 83, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
15 4 0.05
16 17 0.20
17 42 0.51
18 5 0.06
19 15 0.18
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.23
Consensus pattern (17 bp):
AATAGATAAAAAATAAA
Found at i:27387160 original size:19 final size:19
Alignment explanation
Indices: 27387088--27387176 Score: 81
Period size: 19 Copynumber: 4.4 Consensus size: 19
27387078 AAAGAAATAG
27387088 ATAAATAATAAATAATAATAA
1 ATAAA-AATAAATAATAA-AA
* *
27387109 A-AGTAGATAAATAATAAAA
1 ATA-AAAATAAATAATAAAA
*
27387128 ATATTAATAGATAAAAAATAAAA
1 ATA--AA-A-ATAAATAATAAAA
27387151 ATAAAAATAAATAATAAAA
1 ATAAAAATAAATAATAAAA
27387170 ATAAAAA
1 ATAAAAA
27387177 CCCATTGAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
19 22 0.39
20 14 0.25
21 5 0.09
23 15 0.27
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
ATAAAAATAAATAATAAAA
Found at i:27387313 original size:14 final size:14
Alignment explanation
Indices: 27387293--27387325 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27387283 TACAATTATT
27387293 AATATAA-TACATA
1 AATATAATTACATA
27387306 ATATATAATTACATA
1 A-ATATAATTACATA
27387321 AATAT
1 AATAT
27387326 TAACATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 10 0.56
15 7 0.39
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAATTACATA
Found at i:27388221 original size:31 final size:31
Alignment explanation
Indices: 27388184--27388246 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
27388174 ATATTTGGTC
*
27388184 ATATTTTTTAATAATAATATATATGTATAAA
1 ATATTTTTTAATAATAATATATATGCATAAA
27388215 ATATTTTTTAATAATAATATATATGCATAAA
1 ATATTTTTTAATAATAATATATATGCATAAA
27388246 A
1 A
27388247 AATATTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (31 bp):
ATATTTTTTAATAATAATATATATGCATAAA
Found at i:27389836 original size:13 final size:13
Alignment explanation
Indices: 27389820--27389847 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27389810 AGTAAAAAAA
27389820 AATTTTAAAATAT
1 AATTTTAAAATAT
27389833 AATTTTAAAATAT
1 AATTTTAAAATAT
27389846 AA
1 AA
27389848 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTTTAAAATAT
Found at i:27390360 original size:75 final size:75
Alignment explanation
Indices: 27390237--27390392 Score: 262
Period size: 75 Copynumber: 2.1 Consensus size: 75
27390227 TTCATTTGTT
*
27390237 CTCTTTTTGATTGGGACATGAAAACTACAAGCCAGGCCATTATTCAACTATAGTTGTTGCCTTCA
1 CTCTTTTTGATTGAGACATGAAAACTACAAGCCAGGCCATTATTCAACTATAGTTGTTGCCTTCA
27390302 ACATTGCAGA
66 ACATTGCAGA
* *
27390312 CTCTTTTTGATTGAGACATGAAAACT-CTAAGCCAGGCCATTATTCAACTATAGTTTTTGCTTTC
1 CTCTTTTTGATTGAGACATGAAAACTAC-AAGCCAGGCCATTATTCAACTATAGTTGTTGCCTTC
27390376 AACATTGCAGA
65 AACATTGCAGA
27390387 CT-TTTT
1 CTCTTTT
27390393 CTTTTTATTT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
74 5 0.06
75 72 0.94
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (75 bp):
CTCTTTTTGATTGAGACATGAAAACTACAAGCCAGGCCATTATTCAACTATAGTTGTTGCCTTCA
ACATTGCAGA
Found at i:27390896 original size:26 final size:27
Alignment explanation
Indices: 27390867--27390939 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
27390857 TACTATTATT
*
27390867 TTTTATTTTTAAT-TTTGTTAAT-ATAA
1 TTTTATTTTTAATAATT-TTAATAATAA
*
27390893 TTTT-TATTTTAATAATTTTAATAATTA
1 TTTTAT-TTTTAATAATTTTAATAATAA
27390920 TTTTATTTTTATTATAATTT
1 TTTTATTTTTA--ATAATTT
27390940 ATTTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 1 0.03
26 16 0.41
27 14 0.36
28 1 0.03
29 7 0.18
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTTATTTTTAATAATTTTAATAATAA
Found at i:27391027 original size:27 final size:26
Alignment explanation
Indices: 27390980--27391042 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
27390970 AATATATATC
* *
27390980 TTATTATT-TTATCATTAATTTTAACT
1 TTATTATTATAATAATTAATTTT-ACT
27391006 TTATTATTATAATAATTAATTTTACT
1 TTATTATTATAATAATTAATTTTACT
27391032 TTCATTATTAT
1 TT-ATTATTAT
27391043 TTTCAATCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (26 bp):
TTATTATTATAATAATTAATTTTACT
Found at i:27393165 original size:28 final size:28
Alignment explanation
Indices: 27393112--27393168 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
27393102 TTAAAATTAG
* *
27393112 ATTAATTGAATTATGTTATTTTATTTTT
1 ATTAATTAAATTATGTTATTTAATTTTT
*
27393140 ATTAATTAAATTAATTTTA-TTAATTTTT
1 ATTAATTAAATT-ATGTTATTTAATTTTT
27393168 A
1 A
27393169 AAATTAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
ATTAATTAAATTATGTTATTTAATTTTT
Found at i:27393503 original size:18 final size:17
Alignment explanation
Indices: 27393477--27393524 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
27393467 ATTTCAATGA
*
27393477 TAAACCAATTAATTGAAT
1 TAAATCAATTAATTG-AT
27393495 TAAATCAATTCAATTGAT
1 TAAATCAATT-AATTGAT
*
27393513 TAATTCAATTAA
1 TAAATCAATTAA
27393525 AACTAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 20 0.74
19 5 0.19
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (17 bp):
TAAATCAATTAATTGAT
Found at i:27397614 original size:43 final size:44
Alignment explanation
Indices: 27397585--27397685 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
27397575 GTGAATGGAT
27397585 CATTTTAGATTTTT-CAAAGTTTCAAAGCCTCTGGTTAGAAGAG
1 CATTTTAGATTTTTCCAAAGTTTCAAAGCCTCTGGTTAGAAGAG
* * * **
27397628 CATTTTAGATTTTTCCAAAGTTTTGAAA-CTTCTGGTGAGGGGAG
1 CATTTTAGATTTTTCCAAAG-TTTCAAAGCCTCTGGTTAGAAGAG
*
27397672 CATTTTATATTTTT
1 CATTTTAGATTTTT
27397686 TAAAATTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 14 0.28
44 30 0.60
45 6 0.12
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (44 bp):
CATTTTAGATTTTTCCAAAGTTTCAAAGCCTCTGGTTAGAAGAG
Found at i:27398006 original size:16 final size:14
Alignment explanation
Indices: 27397987--27398026 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
27397977 ATTTTATTTG
27397987 TAATTTATTTTTAGTT
1 TAATTTATTTTTA--T
*
27398003 TAATTTAATTTTAT
1 TAATTTATTTTTAT
27398017 TAATTTATTT
1 TAATTTATTT
27398027 ATTTAGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
16 12 0.55
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
TAATTTATTTTTAT
Found at i:27399256 original size:95 final size:95
Alignment explanation
Indices: 27399103--27399322 Score: 237
Period size: 96 Copynumber: 2.3 Consensus size: 95
27399093 TCAGAAAACA
* * * *
27399103 TGGTCTTTGTAAAATCTAATCAAAAACCACATTTTTTGCTTTCAAAACGGAGCCTTTG-ACACAT
1 TGGTCTTTGTAAAAT-TCATTAAAAACCACATTTTTAGCTTTCAAAACAGAGCCTTTGAACACAT
* * *
27399167 TATAAAAACCACATTTTTTACATAA-AAAGTG
65 TACAAAAACCACATTTATGACATAAGAAA-TG
* * **
27399198 TGGTCTTTGTTAAATTCATTAAAAGACCACATTTTTAGCTTTCAAAACATAGTTTTTGAACACAT
1 TGGTCTTTGTAAAATTCATTAAAA-ACCACATTTTTAGCTTTCAAAACAGAGCCTTTGAACACAT
** **
27399263 TACAATGACCATGTTTATGACATAAGAAATG
65 TACAAAAACCACATTTATGACATAAGAAATG
* *
27399294 TGGTCTTTGTAAAAATCATTCAAACACCA
1 TGGTCTTTGTAAAATTCATT-AAAAACCA
27399323 TGTTTTTTAC
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
94 7 0.07
95 42 0.41
96 48 0.47
97 6 0.06
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (95 bp):
TGGTCTTTGTAAAATTCATTAAAAACCACATTTTTAGCTTTCAAAACAGAGCCTTTGAACACATT
ACAAAAACCACATTTATGACATAAGAAATG
Found at i:27401594 original size:41 final size:41
Alignment explanation
Indices: 27401532--27401614 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
27401522 CTTAAGTATG
*
27401532 TTTTTCTTTTGATTACGATTTTTATGTTATGCATTTAATCT
1 TTTTTCTTTTGATTACAATTTTTATGTTATGCATTTAATCT
* * *
27401573 TTTTTCTTTTGATTGCAATTTTTATGTTGTGTATTTAATCT
1 TTTTTCTTTTGATTACAATTTTTATGTTATGCATTTAATCT
27401614 T
1 T
27401615 GATCTTTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.18, C:0.08, G:0.11, T:0.63
Consensus pattern (41 bp):
TTTTTCTTTTGATTACAATTTTTATGTTATGCATTTAATCT
Found at i:27405714 original size:21 final size:22
Alignment explanation
Indices: 27405690--27405739 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 22
27405680 ATTGGGTTTT
27405690 AAAGAGAGAAAATA-AAATTTG
1 AAAGAGAGAAAATATAAATTTG
* *
27405711 -AA-AGAGAAAATATGAATTTT
1 AAAGAGAGAAAATATAAATTTG
27405731 AAAGAGAGA
1 AAAGAGAGA
27405740 TTATGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 2 0.08
22 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (22 bp):
AAAGAGAGAAAATATAAATTTG
Found at i:27405734 original size:20 final size:20
Alignment explanation
Indices: 27405694--27405748 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
27405684 GGTTTTAAAG
*
27405694 AGAGAAAATA-AAATTTGAA
1 AGAGAAAATATGAATTTGAA
*
27405713 AGAGAAAATATGAATTTTAA
1 AGAGAAAATATGAATTTGAA
* *
27405733 AGAGAGATTATGAATT
1 AGAGAAAATATGAATT
27405749 AAAATGAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (20 bp):
AGAGAAAATATGAATTTGAA
Found at i:27406608 original size:25 final size:25
Alignment explanation
Indices: 27406580--27406648 Score: 59
Period size: 28 Copynumber: 2.6 Consensus size: 25
27406570 ATTTCAACCT
*
27406580 ATAAAAAAAAAAAAAACCCACC-AAC
1 ATAAAAAAAAAAAAAA-CCACCTAAA
27406605 ATAATGCAAAAAATAAAAAACCACCTAAA
1 ATAA---AAAAAA-AAAAAACCACCTAAA
* *
27406634 ATCAAAATAAAAAAA
1 ATAAAAAAAAAAAAA
27406649 GGAAACGCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
25 9 0.25
26 5 0.14
28 11 0.31
29 11 0.31
ACGTcount: A:0.71, C:0.17, G:0.01, T:0.10
Consensus pattern (25 bp):
ATAAAAAAAAAAAAAACCACCTAAA
Found at i:27414990 original size:13 final size:13
Alignment explanation
Indices: 27414972--27415018 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
27414962 CAAATGTTTC
*
27414972 AAAAAAA-AAAGA
1 AAAAAAAGAAAAA
*
27414984 AAAAAAAGCAAAA
1 AAAAAAAGAAAAA
* *
27414997 AAAAAAAGCAAAG
1 AAAAAAAGAAAAA
27415010 AAAAAAAGA
1 AAAAAAAGA
27415019 CATGCACCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 7 0.23
13 23 0.77
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:27415259 original size:15 final size:15
Alignment explanation
Indices: 27415235--27415264 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27415225 TCAAGTAAAA
*
27415235 AAGAAGATAGAATTC
1 AAGAAAATAGAATTC
27415250 AAGAAAATAGAATTC
1 AAGAAAATAGAATTC
27415265 TAAAGTTGAA
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:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
AAGAAAATAGAATTC
Found at i:27416357 original size:85 final size:86
Alignment explanation
Indices: 27416227--27416402 Score: 219
Period size: 85 Copynumber: 2.1 Consensus size: 86
27416217 ATTGAAAAAA
* * **
27416227 ACATTTGATCTGCATATTGTAAAAATAAAAAAGATATTCACATTTGCATCACTTGTGTTCGCACT
1 ACATTTGATCTGCATACTGTAAAAATAAAAAAGACATTCACATTTGCATCACTTGCATTCGCACT
*
27416292 AACATATGCATTATAGGAAAG
66 AACATATGCATTATAAGAAAG
* * * ** *
27416313 ACATTTGATCTGC-TGCTGTAAAATTTAAAAAGACATTCGTATTTGCATTACTTGCATTCGCACT
1 ACATTTGATCTGCATACTGTAAAAATAAAAAAGACATTCACATTTGCATCACTTGCATTCGCACT
** *
27416377 TGCATATGTATTATAAGAAAG
66 AACATATGCATTATAAGAAAG
27416398 ACATT
1 ACATT
27416403 CATATTTGCA
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 63 0.83
86 13 0.17
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (86 bp):
ACATTTGATCTGCATACTGTAAAAATAAAAAAGACATTCACATTTGCATCACTTGCATTCGCACT
AACATATGCATTATAAGAAAG
Found at i:27416495 original size:34 final size:35
Alignment explanation
Indices: 27416452--27416523 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
27416442 GTATCACTTG
*
27416452 CATCTGTATCATAA-GAAGACATTCACATTTACAT
1 CATCTGTATCATAACCAAGACATTCACATTTACAT
* * *
27416486 CATCTGTATCATAACCAAGGCATTCGCATTTGCAT
1 CATCTGTATCATAACCAAGACATTCACATTTACAT
27416521 CAT
1 CAT
27416524 AAGAAAGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
34 14 0.42
35 19 0.58
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
CATCTGTATCATAACCAAGACATTCACATTTACAT
Found at i:27416522 original size:26 final size:26
Alignment explanation
Indices: 27416493--27416549 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
27416483 CATCATCTGT
* * *
27416493 ATCATAACCAAGGCATTCGCATTTGC
1 ATCATAACAAAGACATTCACATTTGC
* *
27416519 ATCATAAGAAAGACATTTACATTTGC
1 ATCATAACAAAGACATTCACATTTGC
27416545 ATCAT
1 ATCAT
27416550 GGCATCTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (26 bp):
ATCATAACAAAGACATTCACATTTGC
Found at i:27416915 original size:44 final size:44
Alignment explanation
Indices: 27416852--27416952 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
27416842 CACCTGGATC
* * *
27416852 TTTAAGACTTTTGAGCATAATCTTTAAGACCTATGTGTATAATT
1 TTTAAGACTTCTAAGCATAATCTTTAAGACCTATGGGTATAATT
* * *
27416896 TTTAAGACTTCTAAGCATAATTTTTAAGATCTCTGGGTATAATT
1 TTTAAGACTTCTAAGCATAATCTTTAAGACCTATGGGTATAATT
* *
27416940 TTCAAGACCTCTA
1 TTTAAGACTTCTA
27416953 GGCAAAAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.42
Consensus pattern (44 bp):
TTTAAGACTTCTAAGCATAATCTTTAAGACCTATGGGTATAATT
Found at i:27416937 original size:22 final size:22
Alignment explanation
Indices: 27416852--27416951 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
27416842 CACCTGGATC
* * * *
27416852 TTTAAGACTTTTGAGCATAATC
1 TTTAAGACCTCTGAGTATAATT
* *
27416874 TTTAAGACCTATGTGTATAATT
1 TTTAAGACCTCTGAGTATAATT
* * *
27416896 TTTAAGACTTCTAAGCATAATT
1 TTTAAGACCTCTGAGTATAATT
* *
27416918 TTTAAGATCTCTGGGTATAATT
1 TTTAAGACCTCTGAGTATAATT
*
27416940 TTCAAGACCTCT
1 TTTAAGACCTCT
27416952 AGGCAAAAAT
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTAAGACCTCTGAGTATAATT
Found at i:27416965 original size:44 final size:44
Alignment explanation
Indices: 27416874--27416966 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
27416864 GAGCATAATC
* * * * *
27416874 TTTAAGACCTATGTGTATAATTTTTAAGACTTCTAAGCATAATT
1 TTTAAGACCTATGGGTATAATTTTCAAGACCTCTAAGCAAAAAT
* * *
27416918 TTTAAGATCTCTGGGTATAATTTTCAAGACCTCTAGGCAAAAAT
1 TTTAAGACCTATGGGTATAATTTTCAAGACCTCTAAGCAAAAAT
27416962 TTTAA
1 TTTAA
27416967 ATTTTCAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (44 bp):
TTTAAGACCTATGGGTATAATTTTCAAGACCTCTAAGCAAAAAT
Found at i:27417083 original size:22 final size:22
Alignment explanation
Indices: 27417033--27417089 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
27417023 TAAGACATTC
*
27417033 GGCATAATATTTAAAACCTTTA
1 GGCATAATCTTTAAAACCTTTA
*
27417055 GGCATAATCTTTAATA-CTTTCA
1 GGCATAATCTTTAAAACCTTT-A
*
27417077 GGTATAATCTTTA
1 GGCATAATCTTTA
27417090 TGATTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (22 bp):
GGCATAATCTTTAAAACCTTTA
Found at i:27421834 original size:13 final size:15
Alignment explanation
Indices: 27421805--27421858 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 15
27421795 TAACTATATA
27421805 TATTATATTATATTT
1 TATTATATTATATTT
27421820 TATTA-ATTA-ATTT
1 TATTATATTATATTT
* *
27421833 TATTTTGATTTATATGT
1 TATTAT-A-TTATATTT
27421850 T-TTATATTA
1 TATTATATTA
27421859 ATAAAAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 8 0.25
14 7 0.22
15 7 0.22
16 6 0.19
17 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (15 bp):
TATTATATTATATTT
Found at i:27421910 original size:28 final size:26
Alignment explanation
Indices: 27421855--27421913 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
27421845 TATGTTTTAT
* *
27421855 ATTAATAAAAATAGTATTTAATATTA
1 ATTAATAAAAATACTATTTAATAATA
*
27421881 ATTAATAAAAATACTATATTTATAGATA
1 ATTAATAAAAATACTAT-TTAATA-ATA
27421909 ATTAA
1 ATTAA
27421914 GATGTAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.57
27 5 0.18
28 7 0.25
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (26 bp):
ATTAATAAAAATACTATTTAATAATA
Found at i:27422251 original size:15 final size:14
Alignment explanation
Indices: 27422230--27422268 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
27422220 CCTAATGAGC
27422230 TTTTTTTTTCTTTT
1 TTTTTTTTTCTTTT
27422244 TATTTTTTTT-TTTT
1 T-TTTTTTTTCTTTT
27422258 TTTGTTTTTTC
1 TTT-TTTTTTC
27422269 GACATTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTCTTTT
Found at i:27422251 original size:16 final size:16
Alignment explanation
Indices: 27422230--27422267 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27422220 CCTAATGAGC
27422230 TTTTTTTTTCTTTTTA
1 TTTTTTTTTCTTTTTA
* *
27422246 TTTTTTTTTTTTTTTG
1 TTTTTTTTTCTTTTTA
27422262 TTTTTT
1 TTTTTT
27422268 CGACATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.92
Consensus pattern (16 bp):
TTTTTTTTTCTTTTTA
Found at i:27423794 original size:21 final size:21
Alignment explanation
Indices: 27423768--27423830 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 21
27423758 AATATTACAA
27423768 AAATGTGATCCTTTTTGGATT
1 AAATGTGATCCTTTTTGGATT
*
27423789 AAATGTGATCACTCTTATGGATT
1 AAATGTGATC-CT-TTTTGGATT
27423812 AAATGGGTGATCCTTTTTG
1 AAAT--GTGATCCTTTTTG
27423831 AATAGATAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.28
22 2 0.06
23 16 0.44
24 2 0.06
25 6 0.17
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGTGATCCTTTTTGGATT
Found at i:27427345 original size:87 final size:86
Alignment explanation
Indices: 27427181--27427364 Score: 226
Period size: 87 Copynumber: 2.1 Consensus size: 86
27427171 TGTACATTTG
* * * * * * *
27427181 AGAAAGACATTTGATTTGTATATTGTAAAAATAAAAAAGATATTCGCATTTGCATCACTTGTATT
1 AGAAAGACATTTGATCTGTATACTGCAAAAAAAAAAAAAACATTCGCATTTGCATCACTTGCATT
27427246 CGCACTGACATGTGCATCATA
66 CGCACTGACATGTGCATCATA
* *
27427267 AGAAAGATATTTGATCTGTATACTGCAAAATAAAAAAAAAACATTCGCATTTGCATTACTTGCAT
1 AGAAAGACATTTGATCTGTATACTGCAAAA-AAAAAAAAAACATTCGCATTTGCATCACTTGCAT
* * * *
27427332 TCGCATTTG-CATGTGTATTATG
65 TCGCA-CTGACATGTGCATCATA
27427354 AGAAAGACATT
1 AGAAAGACATT
27427365 CACATTTGCA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
86 26 0.32
87 54 0.66
88 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (86 bp):
AGAAAGACATTTGATCTGTATACTGCAAAAAAAAAAAAAACATTCGCATTTGCATCACTTGCATT
CGCACTGACATGTGCATCATA
Found at i:27427371 original size:32 final size:32
Alignment explanation
Indices: 27427329--27427398 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
27427319 GCATTACTTG
* * * * *
27427329 CATTCGCATTTGCATGTGTATTATGAGAAAGA
1 CATTCACATTTGCATCTATATAATGAAAAAGA
27427361 CATTCACATTTGCATCTATATAATGAAAAAGA
1 CATTCACATTTGCATCTATATAATGAAAAAGA
27427393 CATTCA
1 CATTCA
27427399 TAGTTGTATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
CATTCACATTTGCATCTATATAATGAAAAAGA
Found at i:27427493 original size:14 final size:14
Alignment explanation
Indices: 27427474--27427500 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27427464 CAAGACATTT
27427474 GCATTTGCATCATG
1 GCATTTGCATCATG
27427488 GCATTTGCATCAT
1 GCATTTGCATCAT
27427501 AAAAAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (14 bp):
GCATTTGCATCATG
Found at i:27427811 original size:22 final size:21
Alignment explanation
Indices: 27427786--27427885 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 21
27427776 CTATCATCAA
27427786 AATCTCTAAGACCTTTGGACAT
1 AATCTCTAAGACCTTTGG-CAT
* *
27427808 AATCTCTAATACCTCATGGCAT
1 AATCTCTAAGACCT-TTGGCAT
* *
27427830 AATTTTTAAGA-CTTCTGGGCAT
1 AATCTCTAAGACCTT-T-GGCAT
*
27427852 AATTTCTAAGA-CTTTCAGGCAT
1 AATCTCTAAGACCTTT--GGCAT
* *
27427874 AATTTCCAAGAC
1 AATCTCTAAGAC
27427886 TTCCGAGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.06
22 57 0.89
23 3 0.05
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (21 bp):
AATCTCTAAGACCTTTGGCAT
Found at i:27427860 original size:44 final size:44
Alignment explanation
Indices: 27427790--27427888 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
27427780 CATCAAAATC
*
27427790 TCTAAGACCTT-TGGACATAATCTCTAATAC-CTCATGGCATAATT
1 TCTAAGA-CTTCTGGACATAATCTCTAAGACTCTCA-GGCATAATT
* * * *
27427834 TTTAAGACTTCTGGGCATAATTTCTAAGACTTTCAGGCATAATT
1 TCTAAGACTTCTGGACATAATCTCTAAGACTCTCAGGCATAATT
*
27427878 TCCAAGACTTC
1 TCTAAGACTTC
27427889 CGAGCAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 3 0.07
44 40 0.87
45 3 0.07
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (44 bp):
TCTAAGACTTCTGGACATAATCTCTAAGACTCTCAGGCATAATT
Found at i:27427886 original size:22 final size:23
Alignment explanation
Indices: 27427825--27427887 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
27427815 AATACCTCAT
* *
27427825 GGCATAATTTTTAAGAC-TTCTG
1 GGCATAATTTCTAAGACTTTCTA
27427847 GGCATAATTTCTAAGACTTTC-A
1 GGCATAATTTCTAAGACTTTCTA
*
27427869 GGCATAATTTCCAAGACTT
1 GGCATAATTTCTAAGACTT
27427888 CCGAGCAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (23 bp):
GGCATAATTTCTAAGACTTTCTA
Found at i:27428114 original size:170 final size:170
Alignment explanation
Indices: 27427792--27428115 Score: 372
Period size: 170 Copynumber: 1.9 Consensus size: 170
27427782 TCAAAATCTC
* * * *
27427792 TAAGACCTTTGGACATAATCTCTAATACCTCATGGCATAATTTTTAAGACTTCTGGGCATAATTT
1 TAAGACATTTGGACATAATCTCTAAAACCTCATGGCATAATTTTTAAGACTTCTAGGCATAATCT
*
27427857 CTAAGACTTTCAGGCATAATTTCCAAGACTTCCGAGCAAAATATTTTAAAATTTCAAAGTTTCCA
66 CTAAAACTTTCAGGCATAATTTCCAAGACTTCCGAGCAAAATATTTTAAAATTTCAAAGTTTCCA
* * *
27427922 AGCCTTTGATTAGAGAAGCTTTCATCCATGTCAAGATTTA
131 AACCTCTAATTAGAGAAGCTTTCATCCATGTCAAGATTTA
* * * * *
27427962 TAAGACATTTGGGCATAATCTTTAAAACCTC-TGGGGATAATTTTTAAGA-TTTTCAGGTATAAT
1 TAAGACATTTGGACATAATCTCTAAAACCTCAT-GGCATAATTTTTAAGACTTCT-AGGCATAAT
* * ** * *
27428025 CTCTAAAATCTTTGA-GCATAATTTTCAAGACCTTGGGA-TAAAATATTTTAAAATTTTAAAGTT
64 CTCTAAAA-CTTTCAGGCATAATTTCCAAGA-CTTCCGAGCAAAATATTTTAAAATTTCAAAGTT
*
27428088 T-CAATACCTCTAATTGGA-AGAGCTTTCA
127 TCCAA-ACCTCTAATTAGAGA-AGCTTTCA
27428116 AAGATGTCTA
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
169 8 0.06
170 110 0.86
171 10 0.08
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (170 bp):
TAAGACATTTGGACATAATCTCTAAAACCTCATGGCATAATTTTTAAGACTTCTAGGCATAATCT
CTAAAACTTTCAGGCATAATTTCCAAGACTTCCGAGCAAAATATTTTAAAATTTCAAAGTTTCCA
AACCTCTAATTAGAGAAGCTTTCATCCATGTCAAGATTTA
Found at i:27428316 original size:6 final size:7
Alignment explanation
Indices: 27428299--27428323 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27428289 TTATTGATTA
27428299 AAAAAAT
1 AAAAAAT
27428306 AAAAAAT
1 AAAAAAT
27428313 AAAAAAT
1 AAAAAAT
27428320 AAAA
1 AAAA
27428324 TTTTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:27430417 original size:22 final size:22
Alignment explanation
Indices: 27430388--27430443 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
27430378 GAATTTATGT
*
27430388 CCGGAGGTCTT-AGAAATCATGC
1 CCGGAGGTCTTAAG-AATCATAC
*
27430410 TCGGAGGTCTTAAGAATCATAC
1 CCGGAGGTCTTAAGAATCATAC
*
27430432 CCGAAGGTCTTA
1 CCGGAGGTCTTA
27430444 CAAAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (22 bp):
CCGGAGGTCTTAAGAATCATAC
Found at i:27430545 original size:22 final size:21
Alignment explanation
Indices: 27430494--27430556 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
27430484 GAATTTATGC
* *
27430494 CCGAAGGTCTCAAAAATCATG
1 CCGAAGGTCTTAAGAATCATG
*
27430515 CCTAGAGGTCTTAAGAATCATG
1 CCGA-AGGTCTTAAGAATCATG
*
27430537 CGCGAAGGTCCTACAGAATC
1 C-CGAAGGTCTTA-AGAATC
27430557 GACTAGGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.09
22 23 0.68
23 8 0.24
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (21 bp):
CCGAAGGTCTTAAGAATCATG
Found at i:27430676 original size:111 final size:108
Alignment explanation
Indices: 27430507--27430775 Score: 301
Period size: 110 Copynumber: 2.5 Consensus size: 108
27430497 AAGGTCTCAA
* * * * * * *
27430507 AAATCATGCCTAGAGGTCTTAAGAATCATGCGCGAAGGTCCTACAGAATCGACTAGGATAATACC
1 AAATTATGCCTGGAGGTCTTAAGAATCATGCCCGAAGGTCTTACAAAATCGACCAGGATAACACC
* *
27430572 ACAAGTCAAAAAATAAAGAATCGATC-AAGATAACACCATGAATC
66 ACAAGTC-AAAAATAAAGAATCGATCGAA-ACAACACCACGAATC
27430616 GAAATTATGCCTGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAAAATCGACCAGGATAACA
1 -AAATTATGCCTGGAGGTCTTA-AGAATCATGCCCGAAGGTCTTACAAAATCGACCAGGATAACA
** * * *
27430681 CCGTAAGTCAAAAATAATGAATTGATCGAAACAACACCGCGAATC
64 CCACAAGTCAAAAATAAAGAATCGATCGAAACAACACCACGAATC
* * * *
27430726 AAATTTATG-CTCGAAAGTCTTAAAAATCATGCCTGAAGGTCTTA-AAAATC
1 AAA-TTATGCCT-GGAGGTCTTAAGAATCATGCCCGAAGGTCTTACAAAATC
27430776 ATGCTCGAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
108 6 0.04
109 25 0.18
110 60 0.44
111 46 0.34
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (108 bp):
AAATTATGCCTGGAGGTCTTAAGAATCATGCCCGAAGGTCTTACAAAATCGACCAGGATAACACC
ACAAGTCAAAAATAAAGAATCGATCGAAACAACACCACGAATC
Found at i:27430757 original size:22 final size:22
Alignment explanation
Indices: 27430732--27430791 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 22
27430722 AATCAAATTT
27430732 ATGCTCGAAAGTCTTAAAAATC
1 ATGCTCGAAAGTCTTAAAAATC
*
27430754 ATGC-CTGAAGGTCTTAAAAATC
1 ATGCTC-GAAAGTCTTAAAAATC
27430776 ATGCTCGAAAGTCTTA
1 ATGCTCGAAAGTCTTA
27430792 CAGAATCGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (22 bp):
ATGCTCGAAAGTCTTAAAAATC
Found at i:27430769 original size:242 final size:240
Alignment explanation
Indices: 27430283--27430907 Score: 667
Period size: 242 Copynumber: 2.6 Consensus size: 240
27430273 TCAACGTCCG
* * * * *
27430283 GAGGTCTTAAGAATCATGC-CTGAAGGTCTTATAGAATCGACCAGGATAACACCACAAGTC-AAA
1 GAGGTCTTAAAAATCATGCGC-GAAAGTCCTACAGAATCGACTAGGATAACACCACAAGTCAAAA
* ** * * ** * *
27430346 AATAATGAATCGAT-GGGACAACATCGCGAATTGAATTTATGTCC-GGAGGTCTTAGAAATCATG
65 AATAAAGAATCGATCAAGACAACACCACGAATCAAATTTATG-CCTAGAGGTCTTACAAATCATG
* * * * * *** * ** *
27430409 CTCGGAGGTCTTAAGAATCATACC-CG--AAGGTCTTACA-AAAAAAATAAAGAATTGATCGAGA
129 CCCGAAGGTCTTAAAAATC-GACCAGGATAACACCGTA-AGTCAAAAATAAAGAATTGATCGAAA
* * *
27430470 CAACACCATGAATCGAATTTATGCCCGAAGGTCTCAAAAATCATGCCTA
192 CAACACCACGAATCAAATTTATGCCCGAAAGTCTCAAAAATCATGCCTA
* * *
27430519 GAGGTCTTAAGAATCATGCGCGAAGGTCCTACAGAATCGACTAGGATAATACCACAAGTCAAAAA
1 GAGGTCTTAAAAATCATGCGCGAAAGTCCTACAGAATCGACTAGGATAACACCACAAGTCAAAAA
* * *
27430584 ATAAAGAATCGATCAAGATAACACCATGAATCGAAA-TTATGCCTGGAGGTCTTACAGAATCATG
66 ATAAAGAATCGATCAAGACAACACCACGAATC-AAATTTATGCCTAGAGGTCTTACA-AATCATG
*
27430648 CCCGAAGGTCTTACAAAATCGACCAGGATAACACCGTAAGTCAAAAATAATGAATTGATCGAAAC
129 CCCGAAGGTCTTA-AAAATCGACCAGGATAACACCGTAAGTCAAAAATAAAGAATTGATCGAAAC
* * *
27430713 AACACCGCGAATCAAATTTATGCTCGAAAGTCTTAAAAATCATGCCT-
193 AACACCACGAATCAAATTTATGCCCGAAAGTCTCAAAAATCATGCCTA
* * * * *
27430760 GAAGGTCTTAAAAATCATGCTCGAAAGTCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAA
1 G-AGGTCTTAAAAATCATGCGCGAAAGTCCTACAGAATCGACTAGGATAACACCACAAGTCAAAA
*** * *
27430825 AATAAAGAATCGATTGGGACAACACTACGAATCAAATTTATGCCTAGAGGTCTTAGAAATCATGC
65 AATAAAGAATCGATCAAGACAACACCACGAATCAAATTTATGCCTAGAGGTCTTACAAATCATGC
27430890 CCGAAGGTCTTAAAAATC
130 CCGAAGGTCTTAAAAATC
27430908 ATGCCTGAAA
Statistics
Matches: 327, Mismatches: 49, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
236 54 0.17
237 19 0.06
238 27 0.08
239 23 0.07
240 12 0.04
241 25 0.08
242 167 0.51
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (240 bp):
GAGGTCTTAAAAATCATGCGCGAAAGTCCTACAGAATCGACTAGGATAACACCACAAGTCAAAAA
ATAAAGAATCGATCAAGACAACACCACGAATCAAATTTATGCCTAGAGGTCTTACAAATCATGCC
CGAAGGTCTTAAAAATCGACCAGGATAACACCGTAAGTCAAAAATAAAGAATTGATCGAAACAAC
ACCACGAATCAAATTTATGCCCGAAAGTCTCAAAAATCATGCCTA
Found at i:27430862 original size:132 final size:130
Alignment explanation
Indices: 27430617--27430923 Score: 373
Period size: 132 Copynumber: 2.3 Consensus size: 130
27430607 CCATGAATCG
* * * *
27430617 AAATTATGCCTGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAAAATCGACCAGGATAACAC
1 AAATCATGCCTGAAGGTCTTA-AAAATCATG-CCGAAAGTCTTACAAAATCGACCAGGATAACAC
* * * *
27430682 CGTAAGTCAAAAATAATGAATTGATCGAAACAACACCGCGAATCAAATTTATGCTCGA-AAGTCT
64 CGCAAGTCAAAAATAAAGAATCGATCGAAACAACACCACGAATCAAATTTATGC-CGAGAAGTCT
27430746 TAA
128 TAA
* ** *
27430749 AAATCATGCCTGAAGGTCTTAAAAATCATGCTCGAAAGTCTTACAGAATCGACTGGGATAACATC
1 AAATCATGCCTGAAGGTCTTAAAAATCATGC-CGAAAGTCTTACAAAATCGACCAGGATAACACC
* ** * * *
27430814 GCAAGTCAAAAAATAAAGAATCGATTGGGACAACACTACGAATCAAATTTATGCCTAGAGGTCTT
65 GCAAGTC-AAAAATAAAGAATCGATCGAAACAACACCACGAATCAAATTTATGCCGAGAAGTCTT
*
27430879 AG
129 AA
*
27430881 AAATCATGCCCGAAGGTCTTAAAAATCATGCCTGAAAGTCTTA
1 AAATCATGCCTGAAGGTCTTAAAAATCATGCC-GAAAGTCTTA
27430924 TGAATTATGT
Statistics
Matches: 151, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
130 1 0.01
131 45 0.30
132 105 0.70
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (130 bp):
AAATCATGCCTGAAGGTCTTAAAAATCATGCCGAAAGTCTTACAAAATCGACCAGGATAACACCG
CAAGTCAAAAATAAAGAATCGATCGAAACAACACCACGAATCAAATTTATGCCGAGAAGTCTTAA
Found at i:27430889 original size:22 final size:23
Alignment explanation
Indices: 27430864--27430923 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
27430854 AATCAAATTT
*
27430864 ATGCCTAG-AGGTCTTAGAAATC
1 ATGCCTAGAAGGTCTTAAAAATC
*
27430886 ATGCC-CGAAGGTCTTAAAAATC
1 ATGCCTAGAAGGTCTTAAAAATC
*
27430908 ATGCCT-GAAAGTCTTA
1 ATGCCTAGAAGGTCTTA
27430924 TGAATTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (23 bp):
ATGCCTAGAAGGTCTTAAAAATC
Found at i:27431030 original size:154 final size:154
Alignment explanation
Indices: 27430732--27431033 Score: 358
Period size: 154 Copynumber: 2.0 Consensus size: 154
27430722 AATCAAATTT
* *
27430732 ATGCTCGAAAGTCTTAAAAATCATGCCTGAAGGTCTTAAAAATCATGCTCGAAAGTCTTACAGAA
1 ATGCCCGAAAGTCTTAAAAATCATGCCTGAAAGTCTTAAAAATCATGCTCGAAAGTCTTACAGAA
* * * ** *
27430797 TCGACTGGGATAACATCGCAAGTCAAAAAATAAAGAATCGATTGGGACAACACTACGAATCAAAT
66 TCAACTGGGACAACATCGCAAGTCAAAAAATAAAAAATCGATCCGGACAACACTACGAATCAAAA
*
27430862 TTATGCCTAGAGGTCTTAGAAATC
131 TTATGCCGAGAGGTCTTAGAAATC
* ** * ***
27430886 ATGCCCGAAGGTCTTAAAAATCATGCCTGAAAGTCTTATGAATTATG-TACGGGGGTCTTACAGA
1 ATGCCCGAAAGTCTTAAAAATCATGCCTGAAAGTCTTAAAAATCATGCT-CGAAAGTCTTACAGA
* * * * **
27430950 ATCAATTGGGACAACA-CTGTAAGTTAAAAAATAAAAAATCGATCCGGATAACACTGTGAATCAA
65 ATCAACTGGGACAACATC-GCAAGTCAAAAAATAAAAAATCGATCCGGACAACACTACGAATCAA
27431014 AATTATGCTCGA-AGGTCTTA
129 AATTATGC-CGAGAGGTCTTA
27431034 CAAAATCGAC
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
153 2 0.02
154 119 0.97
155 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (154 bp):
ATGCCCGAAAGTCTTAAAAATCATGCCTGAAAGTCTTAAAAATCATGCTCGAAAGTCTTACAGAA
TCAACTGGGACAACATCGCAAGTCAAAAAATAAAAAATCGATCCGGACAACACTACGAATCAAAA
TTATGCCGAGAGGTCTTAGAAATC
Found at i:27431048 original size:88 final size:87
Alignment explanation
Indices: 27430939--27431302 Score: 408
Period size: 88 Copynumber: 4.2 Consensus size: 87
27430929 TATGTACGGG
* * * * * *
27430939 GGTCTTACAGAATCAATTGGGACAACACTGTAAGTTAAAAAATAAAAAATCGATCCGGATAACAC
1 GGTCTTACAGAATCGACTGGGATAACACCGTAAGTCAAAAAATAAAAAATCGATCGGGATAACAC
* **
27431004 TGTGAATCAAAATTATGCTCGAA
66 CGCAAATCAAAATTATGC-CGAA
* * * * *
27431027 GGTCTTACAAAATCGACTGGGATAACATCGCAAGTCGAAAGAT-AAAAATCGATCGGGATAACAC
1 GGTCTTACAGAATCGACTGGGATAACACCGTAAGTCAAAAAATAAAAAATCGATCGGGATAACAC
* * *
27431091 CACAAATCGAAATTATGCCCGGA
66 CGCAAATCAAAATTATG-CCGAA
* *
27431114 GGTCTTATAGAATCGACTGGGATAACACCGTAAGTCAAAAAATAAGAAATCGATCGGGATAACAC
1 GGTCTTACAGAATCGACTGGGATAACACCGTAAGTCAAAAAATAAAAAATCGATCGGGATAACAC
* * * *
27431179 CGCGAATTAAAATTATACCTGGA
66 CGCAAATCAAAATTATGCC-GAA
* * * *
27431202 TGTTTTACAGAATCGATTGGGATAACACCGTAAGTCAAAAAATAAAAAATCGATCGGGATAACAT
1 GGTCTTACAGAATCGACTGGGATAACACCGTAAGTCAAAAAATAAAAAATCGATCGGGATAACAC
* * *
27431267 CGTAAATCAAAATTTTGCCCAGA
66 CGCAAATCAAAATTATGCCGA-A
27431290 GGTCTTACA-AATC
1 GGTCTTACAGAATC
27431303 TTGAAATCTT
Statistics
Matches: 228, Mismatches: 44, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
87 78 0.34
88 150 0.66
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (87 bp):
GGTCTTACAGAATCGACTGGGATAACACCGTAAGTCAAAAAATAAAAAATCGATCGGGATAACAC
CGCAAATCAAAATTATGCCGAA
Found at i:27431225 original size:175 final size:176
Alignment explanation
Indices: 27430939--27431302 Score: 455
Period size: 175 Copynumber: 2.1 Consensus size: 176
27430929 TATGTACGGG
* * *
27430939 GGTCTTACAGAATCAATTGGGACAACACTGTAAGTTAAAAAATAAAAAATCGATCCGGATAACAC
1 GGTCTTACAGAATCAACTGGGACAACACCGTAAGTCAAAAAATAAAAAATCGATCCGGATAACAC
* * * * * *
27431004 TGTGAATCAAAATTATGCTCGAAGGTCTTACAAAATCGACTGGGATAACATCGCAAGTCGAAAGA
66 CGCGAATCAAAATTATCCTCGAAGGTCTTACAAAATCGACTGGGATAACACCGCAAGTCAAAAAA
* *
27431069 T-AAAAATCGATCGGGATAACACCACAAATCGAAATTATGCCCGGA
131 TAAAAAATCGATCGGGATAACACCACAAATCAAAATTATGCCCAGA
* * * * *
27431114 GGTCTTATAGAATCGACTGGGATAACACCGTAAGTCAAAAAATAAGAAATCGATCGGGATAACAC
1 GGTCTTACAGAATCAACTGGGACAACACCGTAAGTCAAAAAATAAAAAATCGATCCGGATAACAC
* * * * * * *
27431179 CGCGAATTAAAATTATACCT-GGATGTTTTACAGAATCGATTGGGATAACACCGTAAGTCAAAAA
66 CGCGAATCAAAATTAT-CCTCGAAGGTCTTACAAAATCGACTGGGATAACACCGCAAGTCAAAAA
* ** *
27431243 ATAAAAAATCGATCGGGATAACATCGTAAATCAAAATTTTGCCCAGA
130 ATAAAAAATCGATCGGGATAACACCACAAATCAAAATTATGCCCAGA
27431290 GGTCTTACA-AATC
1 GGTCTTACAGAATC
27431303 TTGAAATCTT
Statistics
Matches: 159, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
175 111 0.70
176 48 0.30
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (176 bp):
GGTCTTACAGAATCAACTGGGACAACACCGTAAGTCAAAAAATAAAAAATCGATCCGGATAACAC
CGCGAATCAAAATTATCCTCGAAGGTCTTACAAAATCGACTGGGATAACACCGCAAGTCAAAAAA
TAAAAAATCGATCGGGATAACACCACAAATCAAAATTATGCCCAGA
Found at i:27431506 original size:42 final size:40
Alignment explanation
Indices: 27431427--27431519 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 40
27431417 CTGAAGAAGG
* *
27431427 TTCTTTCTAAATAGAGGCTTTGAAACCTTAATCGAAATTGGT
1 TTCTTT-TAAACAAAGGCTTTGAAACCTTAATCGAAA-TGGT
* * *
27431469 TTCTTTTAAACAAAGGCTTTGAAATCTTGACTGGAAATGGT
1 TTCTTTTAAACAAAGGCTTTGAAACCTT-AATCGAAATGGT
* *
27431510 TCCTCTTAAA
1 TTCTTTTAAA
27431520 TAGAGTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 31 0.72
42 12 0.28
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (40 bp):
TTCTTTTAAACAAAGGCTTTGAAACCTTAATCGAAATGGT
Found at i:27431519 original size:41 final size:41
Alignment explanation
Indices: 27431441--27431519 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
27431431 TTCTAAATAG
* *
27431441 AGGCTTTGAAACCTTAATCGAAATTGGTTTCTTTTAAACAA
1 AGGCTTTGAAACCTTAATCGAAATTGGTTCCTCTTAAACAA
* * *
27431482 AGGCTTTGAAATCTTGACTGGAAA-TGGTTCCTCTTAAA
1 AGGCTTTGAAACCTT-AATCGAAATTGGTTCCTCTTAAA
27431520 TAGAGTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 26 0.81
42 6 0.19
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (41 bp):
AGGCTTTGAAACCTTAATCGAAATTGGTTCCTCTTAAACAA
Found at i:27431825 original size:25 final size:25
Alignment explanation
Indices: 27431775--27431837 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
27431765 AGATGCCATA
* * *
27431775 TGCAAATGCAAAT-TCTTTTTATAG
1 TGCAAATGCAAATGTCTTATAAGAG
**
27431799 TGTGAATGCAAATGTCTTATAAGAG
1 TGCAAATGCAAATGTCTTATAAGAG
27431824 TGCAAATGCAAATG
1 TGCAAATGCAAATG
27431838 ATGCAAATGT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (25 bp):
TGCAAATGCAAATGTCTTATAAGAG
Found at i:27439464 original size:13 final size:13
Alignment explanation
Indices: 27439446--27439471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27439436 GAGTTTTGAG
27439446 GGTTTTAAGGTTT
1 GGTTTTAAGGTTT
27439459 GGTTTTAAGGTTT
1 GGTTTTAAGGTTT
27439472 AGAGGGTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
GGTTTTAAGGTTT
Found at i:27441076 original size:23 final size:25
Alignment explanation
Indices: 27441045--27441092 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27441035 CACTAGCCAC
27441045 CCTACTTTCT-ATT-TTTTCTTTTT
1 CCTACTTTCTCATTCTTTTCTTTTT
* *
27441068 CCTATTTTCTCTTTCTTTTCTTTTT
1 CCTACTTTCTCATTCTTTTCTTTTT
27441093 TTTAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 10 0.48
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (25 bp):
CCTACTTTCTCATTCTTTTCTTTTT
Found at i:27441146 original size:3 final size:3
Alignment explanation
Indices: 27441131--27441169 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
27441121 ATATATATAT
*
27441131 TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27441170 ATTTTAATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:27443134 original size:29 final size:28
Alignment explanation
Indices: 27443089--27443148 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
27443079 GAAAGAGCTA
*
27443089 TTCACTTCTGTTGCTAGCTTTGAAAAATT
1 TTCACTTCTGTTACTAGCTTTG-AAAATT
*
27443118 TTCACTTTTGTTACTAGCTTTGAAAATT
1 TTCACTTCTGTTACTAGCTTTGAAAATT
27443146 TTC
1 TTC
27443149 GGTTACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (28 bp):
TTCACTTCTGTTACTAGCTTTGAAAATT
Found at i:27443860 original size:15 final size:13
Alignment explanation
Indices: 27443819--27443852 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
27443809 TTTTTTTGTC
27443819 TTTTATTTTTTAAAA
1 TTTT-TTTTTT-AAA
27443834 TTTTTTTTTTAAA
1 TTTTTTTTTTAAA
27443847 TTTTTT
1 TTTTTT
27443853 ATATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTTAAA
Found at i:27444891 original size:15 final size:13
Alignment explanation
Indices: 27444873--27444906 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
27444863 TTTTTTTTTG
27444873 TTTTATTCTTTTCA
1 TTTT-TTCTTTTCA
27444887 TTTTTTCATTTTCA
1 TTTTTTC-TTTTCA
27444901 TTTTTT
1 TTTTTT
27444907 TTGTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTCTTTTCA
Found at i:27445355 original size:19 final size:19
Alignment explanation
Indices: 27445307--27445347 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
27445297 TTTTTTCTCA
27445307 TTTTTTACTTT-T-TTATTT
1 TTTTTTA-TTTATCTTATTT
27445325 TTTTTTATTTATCTTATTT
1 TTTTTTATTTATCTTATTT
27445344 TTTT
1 TTTT
27445348 CTTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 8 0.38
19 10 0.48
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTATTTATCTTATTT
Found at i:27446219 original size:25 final size:25
Alignment explanation
Indices: 27446191--27446251 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
27446181 TGAATCAAAC
* * * *
27446191 CAAATCGAATTAGTGAAATTCGGTT
1 CAAATCAAATTAATAAAATTCGATT
*
27446216 CAAATCAAATTAATAAAATTTGATT
1 CAAATCAAATTAATAAAATTCGATT
*
27446241 CAAATTAAATT
1 CAAATCAAATT
27446252 GAATCATATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (25 bp):
CAAATCAAATTAATAAAATTCGATT
Found at i:27446689 original size:18 final size:18
Alignment explanation
Indices: 27446666--27446700 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27446656 GTTAAATTTT
27446666 TTTAATAAAAAATTTAAA
1 TTTAATAAAAAATTTAAA
* *
27446684 TTTAATTAAAATTTTAA
1 TTTAATAAAAAATTTAA
27446701 TAAAAAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAATAAAAAATTTAAA
Found at i:27446923 original size:21 final size:20
Alignment explanation
Indices: 27446887--27446927 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
27446877 AATTTTTTTA
*
27446887 AAAATATTTGATTTATGTAAT
1 AAAATATTTGAATTAT-TAAT
*
27446908 AAAATATTTTAATTATTAAT
1 AAAATATTTGAATTATTAAT
27446928 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AAAATATTTGAATTATTAAT
Found at i:27450787 original size:14 final size:14
Alignment explanation
Indices: 27450768--27450810 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
27450758 TATCTTTATT
27450768 TTATTTTATTTTAA
1 TTATTTTATTTTAA
*
27450782 TTATTTTAATTT-A
1 TTATTTTATTTTAA
27450795 -TATTTTATTTATAA
1 TTATTTTATTT-TAA
27450809 TT
1 TT
27450811 TTTAGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 9 0.38
13 2 0.08
14 12 0.50
15 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTTATTTTAA
Found at i:27450811 original size:7 final size:5
Alignment explanation
Indices: 27450756--27450804 Score: 55
Period size: 5 Copynumber: 9.4 Consensus size: 5
27450746 TTTGTTGTTA
*
27450756 TTTAT CTTTAT TTTAT TTTAT TTTA- ATTAT TTTAAT TTATAT TTTAT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TT-TAT TTTAT
27450803 TT
1 TT
27450805 ATAATTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.08
5 21 0.55
6 13 0.34
7 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:27453173 original size:22 final size:22
Alignment explanation
Indices: 27453145--27453187 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27453135 TTTTCAATTT
27453145 TTTTTTGTTTTGTTCTTTTTTG
1 TTTTTTGTTTTGTTCTTTTTTG
*
27453167 TTTTTTGTTTTGTTTTTTTTT
1 TTTTTTGTTTTGTTCTTTTTT
27453188 TATAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (22 bp):
TTTTTTGTTTTGTTCTTTTTTG
Found at i:27453441 original size:24 final size:24
Alignment explanation
Indices: 27453414--27453460 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27453404 GACTCAGATA
27453414 TCACCA-CCAAAGAGTACTTGGATG
1 TCACCATCCAAA-AGTACTTGGATG
*
27453438 TCACCATCGAAAAGTACTTGGAT
1 TCACCATCCAAAAGTACTTGGAT
27453461 ATAACTACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (24 bp):
TCACCATCCAAAAGTACTTGGATG
Found at i:27453906 original size:79 final size:78
Alignment explanation
Indices: 27453652--27453933 Score: 273
Period size: 79 Copynumber: 3.6 Consensus size: 78
27453642 GAATGCTCAA
* * * * * *
27453652 ATATCATCATTAAGTGATTTGAAAAAGCTCAGATATCACAACCAAGAGATTTTAGCAAAATTTAG
1 ATATCACCATTGAGTGATTTGAAAAAGCTCAGATATCACCACCGAGAGATTTTAACAAAA-TTAA
* *
27453717 ATTTAGATATTTGG
65 ATTTAGATACTTAG
* * * * * ** ** *
27453731 ATATTACCATCGAATCATTTAAAAAAGCTCAGATATCACCAATGAGAGATTTTAATGAAATT-CA
1 ATATCACCATTGAGTGATTTGAAAAAGCTCAGATATCACCACCGAGAGATTTTAACAAAATTAAA
*
27453795 TATATGAATACTTAG
66 TTTA-G-ATACTTAG
* * *
27453810 ATATCACCACTGAGTGATTTTGAGAAAA-CTTAGATATCGCCACCGAGAGATTTTAACAAAATTA
1 ATATCACCATTGAGTGA-TTTGA-AAAAGCTCAGATATCACCACCGAGAGATTTTAACAAAATTA
27453874 AATTTAGATACTTAG
64 AATTTAGATACTTAG
* *
27453889 AAATCACCATTGAGTGATTTGAAAAAGATCA-ACTATCACCACCGA
1 ATATCACCATTGAGTGATTTGAAAAAGCTCAGA-TATCACCACCGA
27453934 AAAACTTTTA
Statistics
Matches: 159, Mismatches: 37, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
77 9 0.06
78 21 0.13
79 87 0.55
80 34 0.21
81 8 0.05
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (78 bp):
ATATCACCATTGAGTGATTTGAAAAAGCTCAGATATCACCACCGAGAGATTTTAACAAAATTAAA
TTTAGATACTTAG
Found at i:27454147 original size:150 final size:147
Alignment explanation
Indices: 27453891--27454284 Score: 388
Period size: 150 Copynumber: 2.7 Consensus size: 147
27453881 ATACTTAGAA
* *
27453891 ATCACCATTGAGTGATTTGAAAAAGATCA-ACTATCACCACCGAA-AAACTTTTAATGAAATGAA
1 ATCACCATTGAGTGATTTGAAAAAGATTAGA-TATCACCA-CGAAGAAAATTTTAATGAAATGAA
* ** * ** *
27453954 AACTCGGATATCATTACTT-AGTGATTTTGAGAAA-GTTCAGATATCACCATTAACAGGTTTAAG
64 TACTCAAATATCATTA-TTAAGTGATTTTGAGAAAGGGTCAGATATCACCACCAACAGATTT---
*
27454017 AAAATTCAAAA-TTACATACTC-AAT
125 -AAA--CAAAATTTACATAATCGAAT
* * * * *
27454041 ATCACCATCGAATAATTTGAAAAAGCTTAGATATCACCACGAAGAAAATTTTAATGAAATGAGTA
1 ATCACCATTGAGTGATTTGAAAAAGATTAGATATCACCACGAAGAAAATTTTAATGAAATGAATA
* ***
27454106 CTCAAATATCATTATTAAGTGATTTTGAGAAAGGGT-GGATATCACCACCGTGAGATTTAAACAA
66 CTCAAATATCATTATTAAGTGATTTTGAGAAAGGGTCAGATATCACCACCAACAGATTTAAACAA
**
27454170 AATTTTGATAATCGAAT
131 AATTTACATAATCGAAT
* * * *
27454187 ATCACCATTGAGTGATTTGAAAAAGTTTAGATATCACCACCAAGAAAATTTTAACGAAATAAATA
1 ATCACCATTGAGTGATTTGAAAAAGATTAGATATCACCACGAAGAAAATTTTAATGAAATGAATA
** ** *
27454252 CTCAAATATTTTTACCATGTGATTTTGAGAAAG
66 CTCAAATATCATTATTAAGTGATTTTGAGAAAG
27454285 CTCAAATATC
Statistics
Matches: 204, Mismatches: 34, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
144 5 0.02
145 7 0.03
146 91 0.45
149 6 0.03
150 92 0.45
151 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (147 bp):
ATCACCATTGAGTGATTTGAAAAAGATTAGATATCACCACGAAGAAAATTTTAATGAAATGAATA
CTCAAATATCATTATTAAGTGATTTTGAGAAAGGGTCAGATATCACCACCAACAGATTTAAACAA
AATTTACATAATCGAAT
Found at i:27454319 original size:146 final size:146
Alignment explanation
Indices: 27454038--27454309 Score: 348
Period size: 146 Copynumber: 1.9 Consensus size: 146
27454028 TTACATACTC
* * *
27454038 AATATCACCATCGAATAATTTGAAAAAGCTTAGATATCACCACGAAGAAAATTTTAATGAAATGA
1 AATATCACCATCGAATAATTTGAAAAAGCTTAGATATCACCACCAAGAAAATTTTAACGAAATAA
* ** * ** * *
27454103 GTACTCAAATATCATTATTAAGTGATTTTGAGAAAGGGTGGATATCACCACCGTGAGATTTAAAC
66 ATACTCAAATATCATTACCAAGTGATTTTGAGAAAGGCTAAATATCACCACCGAGAAATTTAAAC
27454168 AAAATTTTGATAATCG
131 AAAATTTTGATAATCG
* * * *
27454184 AATATCACCATTGAGTGATTTGAAAAAGTTTAGATATCACCACCAAGAAAATTTTAACGAAATAA
1 AATATCACCATCGAATAATTTGAAAAAGCTTAGATATCACCACCAAGAAAATTTTAACGAAATAA
** * * *
27454249 ATACTCAAATATTTTTACCATGTGATTTTGAGAAA-GCTCAAATATCACTACTGAGAAATTT
66 ATACTCAAATATCATTACCAAGTGATTTTGAGAAAGGCT-AAATATCACCACCGAGAAATTT
27454310 TAATGAAATT
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
145 2 0.02
146 103 0.98
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (146 bp):
AATATCACCATCGAATAATTTGAAAAAGCTTAGATATCACCACCAAGAAAATTTTAACGAAATAA
ATACTCAAATATCATTACCAAGTGATTTTGAGAAAGGCTAAATATCACCACCGAGAAATTTAAAC
AAAATTTTGATAATCG
Found at i:27456357 original size:78 final size:78
Alignment explanation
Indices: 27456223--27456373 Score: 239
Period size: 78 Copynumber: 1.9 Consensus size: 78
27456213 CCTCAAAGAA
* *
27456223 AAGCTCTTCAATTTAAACATTCATACTTGATCGAGTACAGACTTTTCTAAGGACATAACGTAGGC
1 AAGCTCCTCAATTTAAACATTCATACTTGATCGAGTACAGACTTTTCTAAGGACATAACATAGGC
27456288 CAAGGTTTCCAGT
66 CAAGGTTTCCAGT
* ** * *
27456301 AAGCTCCTCAATTTAAACATTCATGCTTGATCGAGTATGGAGTTTTCTAAGTACATAACATAGGC
1 AAGCTCCTCAATTTAAACATTCATACTTGATCGAGTACAGACTTTTCTAAGGACATAACATAGGC
27456366 CAAGGTTT
66 CAAGGTTT
27456374 TCGATTTTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (78 bp):
AAGCTCCTCAATTTAAACATTCATACTTGATCGAGTACAGACTTTTCTAAGGACATAACATAGGC
CAAGGTTTCCAGT
Found at i:27456586 original size:21 final size:22
Alignment explanation
Indices: 27456557--27456598 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27456547 TGCCTTTTCA
**
27456557 TTTTCTTTTCTTTTTTTTCTTG
1 TTTTCTTTTCTTACTTTTCTTG
27456579 TTTT-TTTTCTTACTTTTCTT
1 TTTTCTTTTCTTACTTTTCTT
27456599 TACACACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTCTTTTCTTACTTTTCTTG
Found at i:27462433 original size:23 final size:23
Alignment explanation
Indices: 27462385--27462437 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
27462375 TAGTTTATTT
*
27462385 TTATTTTATTCTTAATTATTTAA
1 TTATTTTATTCTTAATAATTTAA
* *
27462408 TTATTTTA-TCTTCATAATTATCA
1 TTATTTTATTCTTAATAATT-TAA
27462431 TTATTTT
1 TTATTTT
27462438 TTTTGAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (23 bp):
TTATTTTATTCTTAATAATTTAA
Found at i:27463010 original size:16 final size:16
Alignment explanation
Indices: 27462989--27463034 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
27462979 TCATACACAT
27462989 TTTTTTAATTTACTAA
1 TTTTTTAATTTACTAA
**
27463005 TTTTTTAA-ACACTAA
1 TTTTTTAATTTACTAA
*
27463020 TTTTTTTATTT-CTAA
1 TTTTTTAATTTACTAA
27463035 AAAAATGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTTAATTTACTAA
Found at i:27470217 original size:1 final size:1
Alignment explanation
Indices: 27470211--27470235 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
27470201 GTGTGATGGT
27470211 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
27470236 ATTTTATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:27470863 original size:22 final size:22
Alignment explanation
Indices: 27470835--27470881 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
27470825 AACTATTAAA
* *
27470835 TTTTTTTTTATAAAAAAAATGC
1 TTTTTTTATAAAAAAAAAATGC
27470857 TTTTTTTATAAAAAAAAAATGC
1 TTTTTTTATAAAAAAAAAATGC
27470879 TTT
1 TTT
27470882 AAAAAGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTTTTTATAAAAAAAAAATGC
Found at i:27473995 original size:3 final size:3
Alignment explanation
Indices: 27473982--27474012 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
27473972 TTTAGGTTTT
27473982 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27474013 TATTTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:27474056 original size:20 final size:20
Alignment explanation
Indices: 27474033--27474091 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
27474023 ATCTGTATTC
27474033 TTTTTATCTTATTTATTTTA
1 TTTTTATCTTATTTATTTTA
* *
27474053 TTTTTATATTATTTATCTTA
1 TTTTTATCTTATTTATTTTA
*
27474073 TTTTTATTCTTAATTATTT
1 TTTTTA-TCTTATTTATTT
27474092 GATTATTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTATCTTATTTATTTTA
Found at i:27474098 original size:49 final size:52
Alignment explanation
Indices: 27473986--27474099 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 52
27473976 GGTTTTTTAT
* *
27473986 TTTATTATTATTATTATTATTATTATTTATTTTACTTATCTGTATTCTTTTTA
1 TTTATTATT-TTATTATTATTATTATTTATCTTACTTATCTGTATTCTTATTA
*
27474039 TCTTATTTATTTTATTTTTA-TATTATTTATCTTA-TT-T-T-TATTCTTAATTA
1 T-TTA-TTATTTTATTATTATTATTATTTATCTTACTTATCTGTATTCTT-ATTA
27474089 TTTGATTATTT
1 TTT-ATTATTT
27474100 CAAAAATCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
49 15 0.28
50 6 0.11
51 1 0.02
52 2 0.04
53 14 0.26
54 11 0.20
55 5 0.09
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (52 bp):
TTTATTATTTTATTATTATTATTATTTATCTTACTTATCTGTATTCTTATTA
Found at i:27476738 original size:93 final size:93
Alignment explanation
Indices: 27476579--27476761 Score: 339
Period size: 93 Copynumber: 2.0 Consensus size: 93
27476569 TGATCACATA
* * *
27476579 TTAAATTATACAACAATTATGATAATAGTGATCAAGACTAAAGGTGGAATATACCGTATATAATA
1 TTAAATTATACAACAATTATGATAACAGTGATCAAGACTAAAGGTGGAATACACCATATATAATA
27476644 TTCAGTAATTTACCTTTCTTCTCCTTTT
66 TTCAGTAATTTACCTTTCTTCTCCTTTT
27476672 TTAAATTATACAACAATTATGATAACAGTGATCAAGACTAAAGGTGGAATACACCATATATAATA
1 TTAAATTATACAACAATTATGATAACAGTGATCAAGACTAAAGGTGGAATACACCATATATAATA
27476737 TTCAGTAATTTACCTTTCTTCTCCT
66 TTCAGTAATTTACCTTTCTTCTCCT
27476762 CTTAAGTTCA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (93 bp):
TTAAATTATACAACAATTATGATAACAGTGATCAAGACTAAAGGTGGAATACACCATATATAATA
TTCAGTAATTTACCTTTCTTCTCCTTTT
Found at i:27477601 original size:12 final size:12
Alignment explanation
Indices: 27477580--27477617 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
27477570 AGCTCAAATT
27477580 TTTTAA-TTTGA
1 TTTTAATTTTGA
27477591 TTTTAATTTTGA
1 TTTTAATTTTGA
*
27477603 TTTTGATTTT-A
1 TTTTAATTTTGA
27477614 TTTT
1 TTTT
27477618 TAAGTTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (12 bp):
TTTTAATTTTGA
Found at i:27478349 original size:24 final size:23
Alignment explanation
Indices: 27478261--27478349 Score: 57
Period size: 20 Copynumber: 4.0 Consensus size: 23
27478251 ATTTATTTGC
*
27478261 TTAATATATTTATTTGCATGATTA
1 TTAATACA-TTATTTGCATGATTA
*
27478285 AT-ATAC-TTATTGTG--TGATTTA
1 TTAATACATTATT-TGCATGA-TTA
*
27478306 TTAAT--A-TATTTGCATAATTA
1 TTAATACATTATTTGCATGATTA
*
27478326 TTAATACATTTATTTGTATGATTA
1 TTAATACA-TTATTTGCATGATTA
27478350 AATTTAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 20
0.65 0.08 0.27
Matches are distributed among these distances:
19 2 0.04
20 15 0.31
21 11 0.22
22 5 0.10
23 3 0.06
24 13 0.27
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (23 bp):
TTAATACATTATTTGCATGATTA
Done.