Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 12 of 196
Found at i:3478269 original size:24 final size:24
Alignment explanation
Indices: 3478241--3478292 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3478231 TTTCTAGACG
* *
3478241 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
3478265 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
3478289 ATTT
1 ATTT
3478293 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:3482950 original size:21 final size:21
Alignment explanation
Indices: 3482897--3482944 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
3482887 AATTTATACA
* *
3482897 ATAATAATAAAATAATAGCAT
1 ATAATAGTGAAATAATAGCAT
3482918 ATAATAGTGAAATAATAGCA-
1 ATAATAGTGAAATAATAGCAT
3482938 A-AATAGT
1 ATAATAGT
3482945 AGGAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
21 18 0.72
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.27
Consensus pattern (21 bp):
ATAATAGTGAAATAATAGCAT
Found at i:3486116 original size:2 final size:2
Alignment explanation
Indices: 3486109--3486136 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3486099 ATTAGTACAC
3486109 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
3486137 TCATTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:3486662 original size:16 final size:16
Alignment explanation
Indices: 3486641--3486674 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3486631 CATTAGAACC
3486641 CAACATTCTAACAATG
1 CAACATTCTAACAATG
3486657 CAACATTCTAACAATG
1 CAACATTCTAACAATG
3486673 CA
1 CA
3486675 GATCACACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (16 bp):
CAACATTCTAACAATG
Found at i:3490650 original size:6 final size:6
Alignment explanation
Indices: 3490639--3490672 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
3490629 TGACACCTAA
3490639 TTTTCT TTTTCT TTTT-T TTTTCTT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTT
3490673 TCCCTTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:3490659 original size:17 final size:18
Alignment explanation
Indices: 3490639--3490673 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3490629 TGACACCTAA
3490639 TTTTC-TTTTTCTTTTTT
1 TTTTCTTTTTTCTTTTTT
3490656 TTTTCTTTTTTCTTTTTT
1 TTTTCTTTTTTCTTTTTT
3490674 CCCTTAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTTTT
Found at i:3512781 original size:40 final size:40
Alignment explanation
Indices: 3512726--3512820 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
3512716 ACGTCAGCGT
3512726 GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
1 GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
* *
3512766 GATTTGCTGATGTGGACACAAATAGCGCCCTTTAGGACGC
1 GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
3512806 GATTTGCTGACGTGG
1 GATTTGCTGACGTGG
3512821 CATGAACAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
Found at i:3516470 original size:75 final size:75
Alignment explanation
Indices: 3516344--3516496 Score: 279
Period size: 75 Copynumber: 2.0 Consensus size: 75
3516334 CCTTTAAGGG
*
3516344 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTGGAGGACCTTAGGCGCTCC
1 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
* *
3516409 CGATAAACTC
66 CAAGAAACTC
3516419 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
1 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
3516484 CAAGAAACTC
66 CAAGAAACTC
3516494 CAT
1 CAT
3516497 AAACCCCTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (75 bp):
CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
CAAGAAACTC
Found at i:3520007 original size:16 final size:15
Alignment explanation
Indices: 3519988--3520066 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 15
3519978 AAGTATTTTA
3519988 AAAAAATTTTAAAATT
1 AAAAAATTTTAAAA-T
**
3520004 AAAAAATAATAAAA-
1 AAAAAATTTTAAAAT
3520018 AAAAAGTATTTT--AA-
1 AAAAA--ATTTTAAAAT
3520032 AAAAAA-TTTAAAATT
1 AAAAAATTTTAAAA-T
3520047 AAAACAATTTTAAAAAT
1 AAAA-AATTTT-AAAAT
3520064 AAA
1 AAA
3520067 TATATTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
11 3 0.06
12 1 0.02
13 2 0.04
14 12 0.24
15 4 0.08
16 17 0.34
17 7 0.14
18 4 0.08
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (15 bp):
AAAAAATTTTAAAAT
Found at i:3520048 original size:17 final size:17
Alignment explanation
Indices: 3520028--3520066 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3520018 AAAAAGTATT
3520028 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
* *
3520045 TTAAAACAATTTTAAAA
1 TTAAAAAAAATTTAAAA
*
3520062 ATAAA
1 TTAAA
3520067 TATATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:3520062 original size:43 final size:43
Alignment explanation
Indices: 3519968--3520050 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
3519958 TTATTTTAAA
*
3519968 AATTAAAAAAAAGTATTTTAAAAAAATTTTAAAATTAAAAAAT
1 AATTAAAAAAAAGTATTTTAAAAAAAATTTAAAATTAAAAAAT
*
3520011 AATAAAAAAAAAGTATTTTAAAAAAAATTTAAAATTAAAA
1 AATTAAAAAAAAGTATTTTAAAAAAAATTTAAAATTAAAA
3520051 CAATTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (43 bp):
AATTAAAAAAAAGTATTTTAAAAAAAATTTAAAATTAAAAAAT
Found at i:3521298 original size:15 final size:16
Alignment explanation
Indices: 3521278--3521314 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3521268 ACAAAATCAA
3521278 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
3521293 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
3521309 ATAAAA
1 ATAAAA
3521315 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:3521506 original size:60 final size:60
Alignment explanation
Indices: 3521432--3521553 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
3521422 ATACTAAACT
* * * * * *
3521432 AAACACAACAATTTATAGCTTAATCCTAAATTGCTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
3521492 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
3521552 AA
1 AA
3521554 TATTCATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:3521575 original size:23 final size:21
Alignment explanation
Indices: 3521541--3521608 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 21
3521531 AATTAATTAT
3521541 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
*
3521563 AAACAATATTACAATATCCATAC
1 AAA-AA-ATTACAATATTCATAC
3521586 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
3521605 AAAA
1 AAAA
3521609 TACTAATCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 15 0.38
20 2 0.05
21 3 0.08
22 4 0.10
23 16 0.40
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:3521592 original size:19 final size:19
Alignment explanation
Indices: 3521546--3521689 Score: 89
Period size: 19 Copynumber: 7.2 Consensus size: 19
3521536 ATTATAAAAT
3521546 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
*
3521568 ATATTACAATATCCATACAA
1 A-ATTACAATATTCATACAA
3521588 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* * *
3521607 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-A-A
*
3521627 AA-TACAAAATTAATT-ATAAAA
1 AATTAC--AA-T-ATTCATACAA
3521648 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
* *
3521668 CATTATAATATTCATACAA
1 AATTACAATATTCATACAA
3521687 AAT
1 AAT
3521690 ACTAATCAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
17 3 0.03
18 7 0.07
19 42 0.43
20 14 0.14
21 4 0.04
22 5 0.05
23 20 0.21
25 2 0.02
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:3521654 original size:80 final size:80
Alignment explanation
Indices: 3521570--3521856 Score: 439
Period size: 80 Copynumber: 3.5 Consensus size: 80
3521560 TACAAACAAT
*
3521570 ATTACAATATCCATACAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAA
1 ATTACAATATCCATACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAA
3521635 ATTAATTATAAAATA
66 ATTAATTATAAAATA
* * *
3521650 ATTACAATATTCATACAACATTATAATATTCATACAAAATACTAATCAAAAACTATAAATACAAA
1 ATTACAATATCCATACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAA
3521715 ATTAATTATAAAATA
66 ATTAATTATAAAATA
3521730 ATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATA
1 ATTACAATA-TC---C---A-TACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATA
3521795 AATACAAAATTAATTATAAAATA
58 AATACAAAATTAATTATAAAATA
* * *
3521818 ATTACAATATTCATAAAAAATTACAATATTTATACAAAA
1 ATTACAATATCCATACAAAATTACAATATTCATACAAAA
3521857 AATTACACTA
Statistics
Matches: 189, Mismatches: 10, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
80 109 0.58
81 2 0.01
84 2 0.01
87 2 0.01
88 74 0.39
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (80 bp):
ATTACAATATCCATACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAA
ATTAATTATAAAATA
Found at i:3521841 original size:19 final size:19
Alignment explanation
Indices: 3521810--3521982 Score: 113
Period size: 19 Copynumber: 8.6 Consensus size: 19
3521800 AAAATTAATT
3521810 ATAAAATAATTACAATATTC
1 ATAAAA-AATTACAATATTC
*
3521830 ATAAAAAATTACAATATTT
1 ATAAAAAATTACAATATTC
*
3521849 ATACAAAAAATTACACTATTC
1 AT--AAAAAATTACAATATTC
* *
3521870 ATACAAAA-TAC--TAATC
1 ATAAAAAATTACAATATTC
3521886 A-AAAAATATAAATACAAAATTAATT-
1 ATAAAAA-AT---TAC--AA-T-ATTC
3521911 ATAAAATAATTACAATATTC
1 ATAAAA-AATTACAATATTC
* *
3521931 ATACAAAATTATAATATTC
1 ATAAAAAATTACAATATTC
*
3521950 ATACAAAAAGTTACAATATAC
1 ATA-AAAAA-TTACAATATTC
*
3521971 ATACAAAATTAC
1 ATAAAAAATTAC
3521983 CCATTGGCGC
Statistics
Matches: 122, Mismatches: 13, Indels: 37
0.71 0.08 0.22
Matches are distributed among these distances:
15 4 0.03
16 6 0.05
18 3 0.02
19 41 0.34
20 23 0.19
21 31 0.25
23 3 0.02
25 2 0.02
26 8 0.07
27 1 0.01
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.31
Consensus pattern (19 bp):
ATAAAAAATTACAATATTC
Found at i:3521881 original size:101 final size:101
Alignment explanation
Indices: 3521722--3521979 Score: 390
Period size: 101 Copynumber: 2.5 Consensus size: 101
3521712 AAAATTAATT
3521722 ATAAAATAATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAATACTAATCAA
1 ATAAAA-AATTACAATATTCATAC---A--A-AAAATTACAATATTCATACAAAATACTAATCAA
*
3521787 AAACTATAAATACAAAATTAATTATAAAATAATTACAATATTC
59 AAAATATAAATACAAAATTAATTATAAAATAATTACAATATTC
* *
3521830 ATAAAAAATTACAATATTTATACAAAAAATTACACTATTCATACAAAATACTAATCAAAAAATAT
1 ATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCAAAAAATAT
3521895 AAATACAAAATTAATTATAAAATAATTACAATATTC
66 AAATACAAAATTAATTATAAAATAATTACAATATTC
* * * *
3521931 ATACAAAATTATAATATTCATACAAAAAGTTACAATATACATACAAAAT
1 ATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAAT
3521980 TACCCATTGG
Statistics
Matches: 141, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
101 117 0.83
102 1 0.01
104 1 0.01
107 16 0.11
108 6 0.04
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (101 bp):
ATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCAAAAAATAT
AAATACAAAATTAATTATAAAATAATTACAATATTC
Found at i:3522030 original size:27 final size:27
Alignment explanation
Indices: 3521987--3522059 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
3521977 AATTACCCAT
*
3521987 TGGCGCCTCCCTGTGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACTTTTAA
*
3522014 TGGCGCCTCCTTATGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACTTTTAA
*
3522041 TGGTGCCTCCCTATGAGGC
1 TGGCGCCTCCCTATGAGGC
3522060 GCCACCCGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.15, C:0.29, G:0.26, T:0.30
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACTTTTAA
Found at i:3523761 original size:32 final size:31
Alignment explanation
Indices: 3523719--3523782 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
3523709 AAAAAAGTTT
3523719 AAAAATATATATATATAAACATAAATATTTATAA
1 AAAAATATA-ATA-ATAAACATAAAT-TTTATAA
**
3523753 AAAAATATAATAATAAATTTAAATTTTATA
1 AAAAATATAATAATAAACATAAATTTTATA
3523783 TTAATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 6 0.21
32 10 0.36
33 3 0.11
34 9 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAAATATAATAATAAACATAAATTTTATAA
Found at i:3526892 original size:105 final size:107
Alignment explanation
Indices: 3526771--3526968 Score: 292
Period size: 108 Copynumber: 1.9 Consensus size: 107
3526761 TGAAATTCAA
* *
3526771 AAGGATATTTGACTATTTGGTTAAACGAG-AAATCGAAACCCAACACATTAGGGCACG-TTCCTC
1 AAGGATATTCGACTATTTGGTTAAACGAGAAAATCAAAACCCAACACATTAGGGCACGTTTCCTC
* *
3526834 GAATTTCCAAACGTAAAACATTGCCTTATTTGAAATTTTTGG
66 GAATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGG
* * * *
3526876 AAGGATATTCGGCTATTTGGTTGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGTTTTCT
1 AAGGATATTCGACTATTTGGTTAAACGAG-AAAATCAAAACCCAACACATTAGGGCACGTTTCCT
*
3526941 CGAATTTCCAAACGCAAAATATTACCTT
65 CGAATTTCCAAACGCAAAACATTACCTT
3526969 TATTATTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 26 0.32
107 26 0.32
108 29 0.36
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (107 bp):
AAGGATATTCGACTATTTGGTTAAACGAGAAAATCAAAACCCAACACATTAGGGCACGTTTCCTC
GAATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGG
Found at i:3527805 original size:3 final size:3
Alignment explanation
Indices: 3527758--3527785 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3527748 CAAGATATAG
3527758 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3527786 CTTATTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3528525 original size:13 final size:13
Alignment explanation
Indices: 3528507--3528531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3528497 AAAAAAGGGT
3528507 ATAAAACAAAATG
1 ATAAAACAAAATG
3528520 ATAAAACAAAAT
1 ATAAAACAAAAT
3528532 AAAATGAAAA
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:0.08, G:0.04, T:0.16
Consensus pattern (13 bp):
ATAAAACAAAATG
Found at i:3543923 original size:15 final size:15
Alignment explanation
Indices: 3543900--3543935 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3543890 AACGACAAAA
3543900 TAAAATAACAAAATT
1 TAAAATAACAAAATT
* *
3543915 TAAATTAACGAAATT
1 TAAAATAACAAAATT
3543930 TAAAAT
1 TAAAAT
3543936 TTCTCCTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (15 bp):
TAAAATAACAAAATT
Found at i:3544952 original size:23 final size:23
Alignment explanation
Indices: 3544922--3544971 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3544912 AAATTTTAAA
**
3544922 TTTTAAAAAT-ATATAAAAGCTAT
1 TTTTAAAAATCAT-TAAAAAATAT
3544945 TTTTAAAAATCATTAAAAAATAT
1 TTTTAAAAATCATTAAAAAATAT
3544968 TTTT
1 TTTT
3544972 TAATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTAAAAATCATTAAAAAATAT
Found at i:3549895 original size:18 final size:18
Alignment explanation
Indices: 3549874--3549914 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3549864 ATTTGGGAAT
*
3549874 GGTGGTGGATATGGCGGC
1 GGTGGAGGATATGGCGGC
3549892 GGTGGAGGATATGGCGGC
1 GGTGGAGGATATGGCGGC
3549910 GGTGG
1 GGTGG
3549915 CGGTGGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.10, G:0.59, T:0.20
Consensus pattern (18 bp):
GGTGGAGGATATGGCGGC
Found at i:3552158 original size:43 final size:44
Alignment explanation
Indices: 3552110--3552207 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 44
3552100 TCGATCTAAT
* *
3552110 CAAAATTTGAGCT-GCTCTGATCGCCTCATGCCCCAATT-TGATC
1 CAAAATTTGAGCTCGCTCTGATCACCTAATGCCCC-ATTATGATC
*
3552153 CAAAATTTGAG-TCGCTCTGATCACCTAATGTCCCATTATGATC
1 CAAAATTTGAGCTCGCTCTGATCACCTAATGCCCCATTATGATC
*
3552196 AAAAATTTGAGC
1 CAAAATTTGAGC
3552208 CGCCCTTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 4 0.08
43 44 0.92
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
CAAAATTTGAGCTCGCTCTGATCACCTAATGCCCCATTATGATC
Found at i:3553101 original size:7 final size:7
Alignment explanation
Indices: 3553085--3553118 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
3553075 TGACCTCTCA
3553085 TTTTTC-
1 TTTTTCT
3553091 TTTTTCT
1 TTTTTCT
3553098 TTTTTCT
1 TTTTTCT
*
3553105 TATTTCT
1 TTTTTCT
3553112 TTTTTCT
1 TTTTTCT
3553119 CCTATTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:3553125 original size:16 final size:14
Alignment explanation
Indices: 3553085--3553118 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3553075 TGACCTCTCA
3553085 TTTTTCTT-TTTCT
1 TTTTTCTTATTTCT
3553098 TTTTTCTTATTTCT
1 TTTTTCTTATTTCT
3553112 TTTTTCT
1 TTTTTCT
3553119 CCTATTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTATTTCT
Found at i:3557894 original size:27 final size:27
Alignment explanation
Indices: 3557840--3557903 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
3557830 AGCATTCTTT
* *
3557840 TAAAATAATGACATAAATGTAAACAAA
1 TAAAAAAATGACATAAATATAAACAAA
3557867 TAAAGAAAATGA-ATAAAATATAAA-AAA
1 TAAA-AAAATGACAT-AAATATAAACAAA
*
3557894 TATAAAAATG
1 TAAAAAAATG
3557904 TAAAAGGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.19
27 12 0.38
28 14 0.44
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (27 bp):
TAAAAAAATGACATAAATATAAACAAA
Found at i:3558128 original size:20 final size:20
Alignment explanation
Indices: 3558103--3558150 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3558093 AATATGTATG
3558103 TATATATATTATAAAAAATA
1 TATATATATTATAAAAAATA
* **
3558123 TATATAAATTATAAAGTATA
1 TATATATATTATAAAAAATA
3558143 -ATATATAT
1 TATATATAT
3558151 AAGTAGGCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TATATATATTATAAAAAATA
Found at i:3558209 original size:3 final size:3
Alignment explanation
Indices: 3558195--3558272 Score: 68
Period size: 3 Copynumber: 24.7 Consensus size: 3
3558185 TAAATGGGTA
* *
3558195 AAT AAA AAT AAT AAT AAGGT AAGT AAT AAT AAT AA- ATAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT A-AT AAT AAT AAT
* *
3558243 GAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
3558273 AAGATGATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 1 0.02
3 51 0.81
4 8 0.13
5 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:3558249 original size:39 final size:34
Alignment explanation
Indices: 3558195--3558315 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 34
3558185 TAAATGGGTA
*
3558195 AATAAAAATAATAATAAGGTAAGTAATAATAATAAAT
1 AATAAAAATGATAATAA--TAA-TAATAATAATAAAT
* *
3558232 ACAATAATAATGATAATAATAATAGTAATAATAAAT
1 --AATAAAAATGATAATAATAATAATAATAATAAAT
*
3558268 AATAAAAGATGATAATACATTAA-AATAATGAAGAAAAT
1 AATAAAA-ATGATAATA-A-TAATAATAAT-AA-TAAAT
3558306 AATAAAAATG
1 AATAAAAATG
3558316 CTAAAAATGG
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
34 6 0.08
35 9 0.13
36 19 0.27
37 11 0.15
38 11 0.15
39 15 0.21
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (34 bp):
AATAAAAATGATAATAATAATAATAATAATAAAT
Found at i:3559668 original size:14 final size:14
Alignment explanation
Indices: 3559644--3559685 Score: 68
Period size: 15 Copynumber: 3.0 Consensus size: 14
3559634 TTTAAAGTAT
3559644 TTTAAAA-TTAAAA
1 TTTAAAATTTAAAA
3559657 TTTAAAATTTAAAA
1 TTTAAAATTTAAAA
3559671 TTTAAAAATTTAAAA
1 TTT-AAAATTTAAAA
3559686 ATAAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 7 0.26
14 9 0.33
15 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTTAAAATTTAAAA
Found at i:3559687 original size:8 final size:7
Alignment explanation
Indices: 3559644--3559685 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
3559634 TTTAAAGTAT
3559644 TTTAAAA
1 TTTAAAA
3559651 -TTAAAA
1 TTTAAAA
3559657 TTTAAAA
1 TTTAAAA
3559664 TTTAAAA
1 TTTAAAA
3559671 TTTAAAAA
1 TTT-AAAA
3559679 TTTAAAA
1 TTTAAAA
3559686 ATAAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
7 20 0.61
8 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TTTAAAA
Found at i:3559690 original size:14 final size:14
Alignment explanation
Indices: 3559647--3559693 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3559637 AAAGTATTTT
*
3559647 AAAA-TTAAAATTT
1 AAAATTTAAAATTA
3559660 AAAATTTAAAATTTA
1 AAAATTTAAAA-TTA
*
3559675 AAAATTTAAAAATA
1 AAAATTTAAAATTA
3559689 AAAAT
1 AAAAT
3559694 AAAATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 4 0.13
14 13 0.43
15 13 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATTTAAAATTA
Found at i:3560444 original size:89 final size:93
Alignment explanation
Indices: 3560338--3560541 Score: 256
Period size: 94 Copynumber: 2.2 Consensus size: 93
3560328 GTAAATTTTT
*
3560338 AAATAATTA-TTAATATTTTTGCATATTTTCTA-CTTTTTTATAGTTTTGCA-CT-TGT-CTAGA
1 AAAT-ATTATTTAATATTTTTGCATATTTTCTATCTTTTTTATAGTTTTACACCTATGTACTAGA
* *
3560398 ATGAAATGGACAAATATATATCCAGATTC
65 ATGAAATGAACAAATATATATCCAGATCC
** * * *
3560427 AAATATTATTTAATATTTTTTTATATTTTCTATTTTTTTTATAGTTTTACACCTATTTAATTAGA
1 AAATATTATTTAATATTTTTGCATATTTTCTATCTTTTTTATAGTTTTACACCTATGT-ACTAGA
* * *
3560492 ATGAAATGAAGAAATGTGTATCCAGATCC
65 ATGAAATGAACAAATATATATCCAGATCC
3560521 AAATATTATTTAATATTTTTG
1 AAATATTATTTAATATTTTTG
3560542 TATGTTTTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
88 4 0.04
89 25 0.26
90 16 0.16
91 2 0.02
92 2 0.02
94 48 0.49
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (93 bp):
AAATATTATTTAATATTTTTGCATATTTTCTATCTTTTTTATAGTTTTACACCTATGTACTAGAA
TGAAATGAACAAATATATATCCAGATCC
Found at i:3561587 original size:12 final size:13
Alignment explanation
Indices: 3561570--3561598 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3561560 CATTTCGCGC
3561570 TTAATTAATTA-A
1 TTAATTAATTATA
3561582 TTAATTAATTATA
1 TTAATTAATTATA
3561595 TTAA
1 TTAA
3561599 ATTGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTAATTATA
Found at i:3565319 original size:21 final size:22
Alignment explanation
Indices: 3565302--3565342 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
3565292 AAAATAATTA
3565302 AATA-TTAAAATAATATAATAT
1 AATATTTAAAATAATATAATAT
3565323 AATATTTAAAA-AA-ATAATAT
1 AATATTTAAAATAATATAATAT
3565343 GGGTTGGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATTTAAAATAATATAATAT
Found at i:3566717 original size:18 final size:18
Alignment explanation
Indices: 3566686--3566723 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3566676 GGATTTTTAT
3566686 TAAAATAATACAAAAAAA
1 TAAAATAATACAAAAAAA
*
3566704 TAAAA-AATATCAAAATAA
1 TAAAATAATA-CAAAAAAA
3566722 TA
1 TA
3566724 TATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAATAATACAAAAAAA
Found at i:3566758 original size:28 final size:27
Alignment explanation
Indices: 3566681--3566759 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
3566671 ATGTGGGATT
*
3566681 TTTATTAAAATAATACAAAAAAATAAAA
1 TTTATCAAAATAATACAAAAAAA-AAAA
** * * **
3566709 AATATCAAAATAATATATAAAAAATTA
1 TTTATCAAAATAATACAAAAAAAAAAA
3566736 TTTATCAAAATAATACAAAAAAAA
1 TTTATCAAAATAATACAAAAAAAA
3566760 GGCTGAAGGA
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (27 bp):
TTTATCAAAATAATACAAAAAAAAAAA
Found at i:3568653 original size:27 final size:27
Alignment explanation
Indices: 3568597--3568655 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3568587 TTTTAGTCCT
* *
3568597 GTGCCGCCTATGAAAAAGGCACCATCG
1 GTGCCACCTATGAAAAAGGAACCATCG
* *
3568624 GTGCCACCTATCG-AAAAGGAACCTTTG
1 GTGCCACCTAT-GAAAAAGGAACCATCG
3568651 GTGCC
1 GTGCC
3568656 GCCTTTCCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (27 bp):
GTGCCACCTATGAAAAAGGAACCATCG
Found at i:3570630 original size:16 final size:15
Alignment explanation
Indices: 3570609--3570639 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
3570599 GTTATTTTTG
3570609 TAATATTATTACTTAT
1 TAATATTATTA-TTAT
3570625 TAATATTATTATTAT
1 TAATATTATTATTAT
3570640 AATTGGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTATTATTAT
Found at i:3571410 original size:111 final size:112
Alignment explanation
Indices: 3571127--3571681 Score: 837
Period size: 112 Copynumber: 5.0 Consensus size: 112
3571117 TATCAAGAAT
* * *
3571127 AAAATTTTTAAAATAAGGTAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGCTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * *
3571192 GGATGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATACTTTTAA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAA
3571239 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* *
3571304 CGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT-A
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAA
* * * * * * *
3571350 AAAAATTTTAAAATAAGGCAATATTTTACGTTTGAGAAATTCGAGAAAACATGTCTTAAGGTGTT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* *
3571415 GAGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATTCTTTT--
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAA
*
3571460 GAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
3571525 GGGTGTCGATTTTTTTCATTCAACCAAATGGCTAAATATCCTTTTAA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAA
* * * * *
3571572 AAAAAATTCAAAAAAAGGTAATGTTTTGTGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * * *
3571637 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
3571682 TATTTCAATC
Statistics
Matches: 402, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
110 99 0.25
111 100 0.25
112 203 0.50
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (112 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAA
Found at i:3578047 original size:16 final size:16
Alignment explanation
Indices: 3578023--3578061 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3578013 TAGATGTATT
3578023 CATTAGAAAAATGATA
1 CATTAGAAAAATGATA
*
3578039 CATTGGAAAAATGATA
1 CATTAGAAAAATGATA
*
3578055 AATTAGA
1 CATTAGA
3578062 CTGGACCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (16 bp):
CATTAGAAAAATGATA
Found at i:3578203 original size:51 final size:51
Alignment explanation
Indices: 3578148--3578248 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
3578138 AATCCCGAGT
*
3578148 TAGTCATTAACCATGCATATGTAACTCATGTGCTTTTATATAAGTGGAGGA
1 TAGTCATTAACCATGCATACGTAACTCATGTGCTTTTATATAAGTGGAGGA
3578199 TAGTCATTAACCATGCATACGTAACTCATGTGCTTTTATATAAGTGGAGG
1 TAGTCATTAACCATGCATACGTAACTCATGTGCTTTTATATAAGTGGAGG
3578249 CTTATGCTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (51 bp):
TAGTCATTAACCATGCATACGTAACTCATGTGCTTTTATATAAGTGGAGGA
Found at i:3578903 original size:14 final size:13
Alignment explanation
Indices: 3578877--3578910 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
3578867 TCAACTAGAG
3578877 AATTTAATTAAAA
1 AATTTAATTAAAA
*
3578890 AATTTTATTAAAA
1 AATTTAATTAAAA
3578903 AA-TTAATT
1 AATTTAATT
3578911 TAGAAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTAATTAAAA
Found at i:3580653 original size:43 final size:44
Alignment explanation
Indices: 3580572--3580824 Score: 200
Period size: 43 Copynumber: 5.9 Consensus size: 44
3580562 AGAACGGCAG
* * * * * *
3580572 TATAGAATATGACCTTTAGTGACG-TTTCTCACAAAAACGTC-TC
1 TATAGAACATGACCTTTAGCGGCGCTTT-TCCCACAAACGCCATC
* * *
3580615 TATAGAACATGGCCTTTAACGGCGCTTTTCCCACAAACGCCGT-
1 TATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCATC
* * *
3580658 TATAGAACAAGA-CTTCTAGCGGCGC-TTTCCCTACAAATGCC-GC
1 TATAGAACATGACCTT-TAGCGGCGCTTTTCCC-ACAAACGCCATC
* ** * *
3580701 TATAGAACATGACGTTTAGCGATG-TTTTCCCTACAAATG-CAGC
1 TATAGAACATGACCTTTAGCGGCGCTTTTCCC-ACAAACGCCATC
* * * *
3580744 TAAAGAACATGACTTTTAGCGGCGCTTTTACCACAAATGCCAT-
1 TATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCATC
* *
3580787 TATAGAACATGACCTTTAGTGGCGCTTTTCCCGCAAAC
1 TATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
3580825 ACCGTTAAAA
Statistics
Matches: 171, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
42 10 0.06
43 147 0.86
44 14 0.08
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
TATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCATC
Found at i:3580737 original size:86 final size:85
Alignment explanation
Indices: 3580614--3580805 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 85
3580604 AAAAACGTCT
* * ** * * *
3580614 CTATAGAACATGGCCTTTAACGGCGCTTTTCCCACAAACGCCGTTATAGAACAAGACTTCTAGCG
1 CTATAGAACATGACCTTTAGCGATG-TTTTCCCACAAACGCAGCTAAAGAACAAGACTTCTAGCG
* *
3580679 GCGC-TTTCCCTACAAATGCCG
65 GCGCTTTTACC-ACAAATGCCA
* * * *
3580700 CTATAGAACATGACGTTTAGCGATGTTTTCCCTACAAATGCAGCTAAAGAACATGACTTTTAGCG
1 CTATAGAACATGACCTTTAGCGATGTTTTCCC-ACAAACGCAGCTAAAGAACAAGACTTCTAGCG
3580765 GCGCTTTTACCACAAATGCCA
65 GCGCTTTTACCACAAATGCCA
*
3580786 TTATAGAACATGACCTTTAG
1 CTATAGAACATGACCTTTAG
3580806 TGGCGCTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 7 0.08
86 77 0.87
87 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (85 bp):
CTATAGAACATGACCTTTAGCGATGTTTTCCCACAAACGCAGCTAAAGAACAAGACTTCTAGCGG
CGCTTTTACCACAAATGCCA
Found at i:3582937 original size:28 final size:25
Alignment explanation
Indices: 3582888--3582938 Score: 66
Period size: 28 Copynumber: 1.9 Consensus size: 25
3582878 AATTAAAAAA
*
3582888 TCGTAAAATCTTACTACATCATGAT
1 TCGTAAAATCTTACCACATCATGAT
3582913 TCGTAAATATCTTCATCCACATCATG
1 TCGTAAA-ATCTT-A-CCACATCATG
3582939 GCGAACCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 5 0.23
27 1 0.05
28 9 0.41
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (25 bp):
TCGTAAAATCTTACCACATCATGAT
Found at i:3585209 original size:25 final size:25
Alignment explanation
Indices: 3585174--3585229 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
3585164 ACAAGGCGAA
* * *
3585174 GCAGCAGAGGGATGCTGACGGAGAT
1 GCAGCAAAGGGATACCGACGGAGAT
* *
3585199 GCAGCAAAGGGCTACCGACGGTGAT
1 GCAGCAAAGGGATACCGACGGAGAT
3585224 GCAGCA
1 GCAGCA
3585230 GACGTTAGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.39, T:0.11
Consensus pattern (25 bp):
GCAGCAAAGGGATACCGACGGAGAT
Found at i:3585478 original size:133 final size:131
Alignment explanation
Indices: 3585236--3585480 Score: 304
Period size: 133 Copynumber: 1.9 Consensus size: 131
3585226 AGCAGACGTT
* *
3585236 AGGGATTTCGGGGAGGGGGGAACTGATTTGGGGAAAAAAGTAGGGGAAAAATAAAGGGAATTGGG
1 AGGGATTTCAGAGAGGGGGGAACTGATTTGGGGAAAAAAGTAGGGGAAAAATAAAGGGAATTGGG
3585301 AAAAATATTAGAGATTTTAGGGAAGGGGAGAACTGATTTGGGGAAAATAGAACGGGAAAAAAAGA
66 AAAAATATTAGAGATTTTAGGGAAGGGGAGAACTGATTTGGGGAAAATAGAACGGGAAAAAAAGA
3585366 G
131 G
* * * *
3585367 AGGGATTTCAGAGA-GGGGGAACTGATTTGGGGGAAATGAA-TTGGGGAAAAATGGGAAGGG-TT
1 AGGGATTTCAGAGAGGGGGGAACTGATTT-GGGGAAA-AAAGTAGGGGAAAAAT--AAAGGGAAT
* *
3585429 CTGGGAAAATTACTTATG-GATTTT-GGGAAGAGGG-GAACTGATTTTGGGAAAA
62 -TGGGAAAAATA-TTA-GAGATTTTAGGGAAG-GGGAGAACTGATTTGGGGAAAA
3585481 AGACCAAGGC
Statistics
Matches: 98, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
130 14 0.14
131 30 0.31
132 3 0.03
133 38 0.39
134 12 0.12
135 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.38, T:0.21
Consensus pattern (131 bp):
AGGGATTTCAGAGAGGGGGGAACTGATTTGGGGAAAAAAGTAGGGGAAAAATAAAGGGAATTGGG
AAAAATATTAGAGATTTTAGGGAAGGGGAGAACTGATTTGGGGAAAATAGAACGGGAAAAAAAGA
G
Found at i:3588353 original size:23 final size:24
Alignment explanation
Indices: 3588321--3588381 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
3588311 TAAAGAATAA
*
3588321 AAAATATTATATATAAAT-AATTT
1 AAAATTTTATATATAAATAAATTT
* * *
3588344 AATATTTTATA-ATTATTAAATTT
1 AAAATTTTATATATAAATAAATTT
*
3588367 AAAATTTGATATATA
1 AAAATTTTATATATA
3588382 CAAATTTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 4 0.14
23 23 0.79
24 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
AAAATTTTATATATAAATAAATTT
Found at i:3590689 original size:22 final size:22
Alignment explanation
Indices: 3590664--3590706 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
3590654 TAGCTTTTTC
3590664 TAAAA-TATATACTTTATTAATG
1 TAAAATTATATA-TTTATTAATG
3590686 TAAAATTTATATATTTATTAA
1 TAAAA-TTATATATTTATTAA
3590707 ATTTTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAAATTATATATTTATTAATG
Found at i:3594274 original size:29 final size:30
Alignment explanation
Indices: 3594205--3594274 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 30
3594195 ACTATTAAAA
*
3594205 TAGTCACTTTTGTTTGAATCAGATTACATTT
1 TAGTCACTTATGTTTGAAT-AGATTACATTT
*
3594236 TAGTCACTTATGTTTGAA-ATG-TTATATTT
1 TAGTCACTTATGTTTGAATA-GATTACATTT
3594265 TAGTCACTTA
1 TAGTCACTTA
3594275 CGTTATCGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 18 0.50
30 1 0.03
31 17 0.47
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (30 bp):
TAGTCACTTATGTTTGAATAGATTACATTT
Found at i:3594465 original size:10 final size:9
Alignment explanation
Indices: 3594456--3594488 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
3594446 TGTTCTTTTA
3594456 ATTTTCTTT
1 ATTTTCTTT
3594465 A-TTTCTTT
1 ATTTTCTTT
3594473 ATTTCTCTTT
1 ATTT-TCTTT
3594483 ATTTTC
1 ATTTTC
3594489 CATTCACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTTCTTT
Found at i:3607795 original size:19 final size:19
Alignment explanation
Indices: 3607771--3607808 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3607761 GTGTTCATGC
3607771 TTATAATATAATTTTTATA
1 TTATAATATAATTTTTATA
3607790 TTATAATATAATTTTTATA
1 TTATAATATAATTTTTATA
3607809 ACTTGTATAA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATAATATAATTTTTATA
Found at i:3610006 original size:15 final size:15
Alignment explanation
Indices: 3609966--3610013 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
3609956 CACTACTTAA
3609966 TATTTATAAAAGAAT
1 TATTTATAAAAGAAT
* * *
3609981 T-TCTACCAAAAAAAT
1 TATTTA-TAAAAGAAT
3609996 TATTTATAAAAGAAT
1 TATTTATAAAAGAAT
3610011 TAT
1 TAT
3610014 AATTACTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (15 bp):
TATTTATAAAAGAAT
Found at i:3611500 original size:14 final size:14
Alignment explanation
Indices: 3611481--3611522 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
3611471 TGATTATCTA
3611481 ATTTAATTTTAATT
1 ATTTAATTTTAATT
3611495 ATTTAATTTT-ATT
1 ATTTAATTTTAATT
3611508 -TTTACATTTATAATT
1 ATTTA-ATTT-TAATT
3611523 CAACTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 11 0.44
15 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTAATTTTAATT
Found at i:3611501 original size:19 final size:19
Alignment explanation
Indices: 3611473--3611509 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3611463 CGCATATTTG
3611473 ATTATCTAATTTAATTTTA
1 ATTATCTAATTTAATTTTA
* *
3611492 ATTATTTAATTTTATTTT
1 ATTATCTAATTTAATTTT
3611510 TACATTTATA
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATCTAATTTAATTTTA
Found at i:3613968 original size:43 final size:41
Alignment explanation
Indices: 3613921--3614008 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 41
3613911 GCCCGGCCCG
3613921 AATATATATAATAA-A-TTTATTTTTTTATTTTTTTTATTTTTAA
1 AATATATATAA-AATACTTT-TTTTTTTA--TTTTTTATTTTTAA
* *
3613964 AATATTTTTAAAATACTTTTTTTTTTATTTTTTATTTTTAA
1 AATATATATAAAATACTTTTTTTTTTATTTTTTATTTTTAA
3614005 AATA
1 AATA
3614009 AATTTTTGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
41 18 0.44
42 2 0.05
43 18 0.44
44 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (41 bp):
AATATATATAAAATACTTTTTTTTTTATTTTTTATTTTTAA
Found at i:3613969 original size:11 final size:11
Alignment explanation
Indices: 3613955--3613984 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
3613945 TTATTTTTTT
3613955 TATTTTTAAAA
1 TATTTTTAAAA
3613966 TATTTTTAAAA
1 TATTTTTAAAA
3613977 TACTTTTT
1 TA-TTTTT
3613985 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:3618969 original size:42 final size:42
Alignment explanation
Indices: 3618922--3619007 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
3618912 ATATCAACTT
3618922 CAAATCCTATATCATAGGAGCAGAATCCAATCAATTTAAGCA
1 CAAATCCTATATCATAGGAGCAGAATCCAATCAATTTAAGCA
3618964 CAAATCCTATATCATAGGAGCAGAATCCAATCAATTTAAGCA
1 CAAATCCTATATCATAGGAGCAGAATCCAATCAATTTAAGCA
3619006 CA
1 CA
3619008 GAAATCTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (42 bp):
CAAATCCTATATCATAGGAGCAGAATCCAATCAATTTAAGCA
Found at i:3619010 original size:22 final size:22
Alignment explanation
Indices: 3618942--3619010 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 22
3618932 ATCATAGGAG
3618942 CAGAATCCAATCAATTTAAGCA
1 CAGAATCCAATCAATTTAAGCA
*
3618964 CA-AATCCTATATC-A--T-AGGA
1 CAGAATCC-A-ATCAATTTAAGCA
3618983 GCAGAATCCAATCAATTTAAGCA
1 -CAGAATCCAATCAATTTAAGCA
3619006 CAGAA
1 CAGAA
3619011 ATCTATTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
19 6 0.16
20 5 0.14
21 10 0.27
22 10 0.27
23 6 0.16
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.22
Consensus pattern (22 bp):
CAGAATCCAATCAATTTAAGCA
Found at i:3626110 original size:16 final size:16
Alignment explanation
Indices: 3626089--3626120 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3626079 GACAGATCGA
3626089 TTATTGGGGCACTCAT
1 TTATTGGGGCACTCAT
3626105 TTATTGGGGCACTCAT
1 TTATTGGGGCACTCAT
3626121 CAGAGATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (16 bp):
TTATTGGGGCACTCAT
Found at i:3635008 original size:29 final size:30
Alignment explanation
Indices: 3634968--3635033 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
3634958 ACATATTGTA
*
3634968 TTTAGGGATTGCTCACATATGGGTCAAA-T
1 TTTAGGGATTGCTCACATAAGGGTCAAATT
* *
3634997 TTTAGGGATTGCTCCCATAAGGGTTAAATT
1 TTTAGGGATTGCTCACATAAGGGTCAAATT
3635027 TTTAGGG
1 TTTAGGG
3635034 CCCAACCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (30 bp):
TTTAGGGATTGCTCACATAAGGGTCAAATT
Found at i:3647754 original size:18 final size:18
Alignment explanation
Indices: 3647731--3647766 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3647721 AGTAAGTAAT
* *
3647731 GTGTTTTTGATGTATTTA
1 GTGTTTTTCATGCATTTA
3647749 GTGTTTTTCATGCATTTA
1 GTGTTTTTCATGCATTTA
3647767 ATTTCAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.58
Consensus pattern (18 bp):
GTGTTTTTCATGCATTTA
Found at i:3649682 original size:4 final size:4
Alignment explanation
Indices: 3649659--3649743 Score: 62
Period size: 4 Copynumber: 20.5 Consensus size: 4
3649649 GAGTTGAGAA
* * * * *
3649659 AATT ATTT AATT AATA AATT AATTT AGTT AATT ATTT AATC AATT AATTT
1 AATT AATT AATT AATT AATT AA-TT AATT AATT AATT AATT AATT AA-TT
* * * *
3649709 AGTT AATT ATTT AATC AATT AATTT AATT GATT AA
1 AATT AATT AATT AATT AATT AA-TT AATT AATT AA
3649744 ATAAACAATA
Statistics
Matches: 60, Mismatches: 18, Indels: 6
0.71 0.21 0.07
Matches are distributed among these distances:
4 50 0.83
5 10 0.17
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:3649697 original size:17 final size:17
Alignment explanation
Indices: 3649658--3649737 Score: 58
Period size: 17 Copynumber: 4.8 Consensus size: 17
3649648 TGAGTTGAGA
3649658 AAATT-ATTTAATTAAT
1 AAATTAATTTAATTAAT
*
3649674 AAATTAATTTAGTTAAT
1 AAATTAATTTAATTAAT
* * *
3649691 TATTTAA-TCAATTAATT
1 AAATTAATTTAATTAA-T
* * *
3649708 TAGTTAA-TTATTTAAT
1 AAATTAATTTAATTAAT
*
3649724 CAATTAATTTAATT
1 AAATTAATTTAATT
3649738 GATTAAATAA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
16 17 0.34
17 33 0.66
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
AAATTAATTTAATTAAT
Found at i:3649743 original size:21 final size:21
Alignment explanation
Indices: 3649659--3649737 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
3649649 GAGTTGAGAA
* * *
3649659 AATT-ATTTAATTAATAAATT
1 AATTAATTTAATTATTTAATC
* *
3649679 AATTTAGTTAATTATTTAATC
1 AATTAATTTAATTATTTAATC
3649700 AATTAATTTAGTTAATTATTTAATC
1 AATTAA--T--TTAATTATTTAATC
3649725 AATTAATTTAATT
1 AATTAATTTAATT
3649738 GATTAAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.08
21 23 0.48
23 1 0.02
25 20 0.42
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (21 bp):
AATTAATTTAATTATTTAATC
Found at i:3649752 original size:25 final size:25
Alignment explanation
Indices: 3649669--3649734 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
3649659 AATTATTTAA
*
3649669 TTAATAAATTAATTTAGTTAATTAT
1 TTAATCAATTAATTTAGTTAATTAT
3649694 TTAATCAATTAATTTAGTTAATTAT
1 TTAATCAATTAATTTAGTTAATTAT
3649719 TTAATCAATTAATTTA
1 TTAATCAATTAATTTA
3649735 ATTGATTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (25 bp):
TTAATCAATTAATTTAGTTAATTAT
Found at i:3654496 original size:18 final size:17
Alignment explanation
Indices: 3654469--3654503 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3654459 AAATATGTGC
3654469 GAAGATTAAAGAACAAA
1 GAAGATTAAAGAACAAA
*
3654486 GAAGAATTAAAGCACAAA
1 GAAG-ATTAAAGAACAAA
3654504 TTAAGTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.63, C:0.09, G:0.17, T:0.11
Consensus pattern (17 bp):
GAAGATTAAAGAACAAA
Found at i:3655017 original size:21 final size:22
Alignment explanation
Indices: 3654993--3655033 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3654983 AAATATAAGT
*
3654993 ATAAATAATATAATT-AAGAAC
1 ATAAATAACATAATTCAAGAAC
3655014 ATAAATAACATAATTCAAGA
1 ATAAATAACATAATTCAAGA
3655034 GGAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (22 bp):
ATAAATAACATAATTCAAGAAC
Found at i:3655367 original size:16 final size:16
Alignment explanation
Indices: 3655346--3655418 Score: 74
Period size: 16 Copynumber: 4.6 Consensus size: 16
3655336 TACTAAGGGC
**
3655346 TAAGTGAAGCAAGTGG
1 TAAGTGAAATAAGTGG
**
3655362 TAAGTGAAATAAGTTC
1 TAAGTGAAATAAGTGG
* *
3655378 TAAGTTAAATAAATGG
1 TAAGTGAAATAAGTGG
**
3655394 TAAGTGATGTAAGTGG
1 TAAGTGAAATAAGTGG
3655410 TAAGTGAAA
1 TAAGTGAAA
3655419 ATTTTATGTT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.27
Consensus pattern (16 bp):
TAAGTGAAATAAGTGG
Found at i:3662844 original size:21 final size:21
Alignment explanation
Indices: 3662818--3662861 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3662808 TTTATTATCG
3662818 TTTAGCAACTTTGAAAGTGCA
1 TTTAGCAACTTTGAAAGTGCA
3662839 TTTAGCAACTTTGAAAGTGCA
1 TTTAGCAACTTTGAAAGTGCA
3662860 TT
1 TT
3662862 AACTGGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (21 bp):
TTTAGCAACTTTGAAAGTGCA
Found at i:3662975 original size:28 final size:29
Alignment explanation
Indices: 3662944--3662998 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
3662934 ATTGGGGCAA
3662944 TCAT-AAATAAATATAGGAATATAAAAAT
1 TCATCAAATAAATATAGGAATATAAAAAT
* * * *
3662972 TCATCCAATTAATATGGGAATCTAAAA
1 TCATCAAATAAATATAGGAATATAAAA
3662999 CCATAGAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.18
29 18 0.82
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (29 bp):
TCATCAAATAAATATAGGAATATAAAAAT
Found at i:3667064 original size:51 final size:51
Alignment explanation
Indices: 3667006--3667292 Score: 267
Period size: 51 Copynumber: 5.6 Consensus size: 51
3666996 CTAGTTCACA
* * **
3667006 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCAATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTCTCATCCGGTACACG
* * ** * *
3667057 TAGTAGCCTGCACATAGTACTACACACGTAATCGAAGCT-ATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTCTCATCCGGTACACG
* * * * *
3667108 TAGTAGCCTACACATAGTATTATACACGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTCTCATCCGGTACACG
* * * ** * * *
3667159 TACTAGCCTACACATAGTACTACACACGTGATCGAAGCT-ATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTCTCATCCGGTACACG
* * * *
3667210 TAGTAGCCTGCACATTGTACTACACATGCGA-C-TTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTCTCA-TCCGGTACACG
*
3667260 TAGTAGCCTGCACATAGTACTACACATGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
3667293 TAGCAACTTC
Statistics
Matches: 184, Mismatches: 46, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 40 0.22
51 136 0.74
52 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTCTCATCCGGTACACG
Found at i:3667139 original size:102 final size:102
Alignment explanation
Indices: 3667004--3667285 Score: 424
Period size: 102 Copynumber: 2.8 Consensus size: 102
3666994 ACCTAGTTCA
*
3667004 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
3667069 CATAGTACTACACACGTAATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTAATCGAAGCTATCCGGTACG
* * * * * *
3667106 CATAGTAGCCTACACATAGTATTATACACGTGACCATTTTCATCCGATACACGTACTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
* *
3667171 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
66 CATAGTACTACACACGTAATCGAAGCTATCCGGTACG
* * * *
3667208 CATAGTAGCCTGCACATTGTACTACACATGCGA-C-TTATCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATACACGTAGTAGCCTGC
3667271 ACATAGTACTACACA
65 ACATAGTACTACACA
3667286 TGTGACCTAG
Statistics
Matches: 160, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
100 5 0.03
101 35 0.22
102 120 0.75
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTAATCGAAGCTATCCGGTACG
Found at i:3690141 original size:27 final size:27
Alignment explanation
Indices: 3690111--3690173 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
3690101 AATTTTTTAT
**
3690111 AAAGGC-ATCCCTTTTAGAGTTTGCCAC
1 AAAGGCTAT-CCTTTTAGAGTTCACCAC
*
3690138 AAAGGCTATTCTTTTAGAGTTCACCAC
1 AAAGGCTATCCTTTTAGAGTTCACCAC
3690165 AAAGGCTAT
1 AAAGGCTAT
3690174 GATTAGTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (27 bp):
AAAGGCTATCCTTTTAGAGTTCACCAC
Found at i:3696057 original size:64 final size:65
Alignment explanation
Indices: 3695949--3696074 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 65
3695939 TACCAAACTA
* * * * *
3695949 ATATATAGTTTGTTAAGAAATTAAAAATTAGACTATAAATATATGTGTGAAAAATATTTAAATGT
1 ATATATAATTTATCAAGAAACTAAAAATTAGACTATAAATATATGTGTAAAAAATATTTAAATGT
*
3696014 ATATATAATTTATCAAGAAACT-AAAATTAGGCTATAAATATATGTGTAAAAAATATTTAAA
1 ATATATAATTTATCAAGAAACTAAAAATTAGACTATAAATATATGTGTAAAAAATATTTAAA
3696075 AATATCAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
64 37 0.67
65 18 0.33
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (65 bp):
ATATATAATTTATCAAGAAACTAAAAATTAGACTATAAATATATGTGTAAAAAATATTTAAATGT
Found at i:3696338 original size:18 final size:16
Alignment explanation
Indices: 3696312--3696350 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
3696302 ATTTTAAGAA
*
3696312 ATATTTTTTTATAATTTT
1 ATATATTTTTAT--TTTT
3696330 ATATATTTTTATTTTT
1 ATATATTTTTATTTTT
3696346 ATATA
1 ATATA
3696351 ATTGTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATATATTTTTATTTTT
Found at i:3696342 original size:26 final size:27
Alignment explanation
Indices: 3696313--3696363 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
3696303 TTTTAAGAAA
*
3696313 TATTTTTTTATAATT-TTATATATTTT
1 TATTTTTATATAATTGTTATATATTTT
3696339 TATTTTTATATAATTGTTATATATT
1 TATTTTTATATAATTGTTATATATT
3696364 ACAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TATTTTTATATAATTGTTATATATTTT
Found at i:3702115 original size:63 final size:63
Alignment explanation
Indices: 3702016--3702170 Score: 310
Period size: 63 Copynumber: 2.5 Consensus size: 63
3702006 AGGTAGTAGT
3702016 AAGCAGATAAGGAGGAATCTGCTTTTACAAACGTAAAGGACATGACTCATACATAAAGGACAC
1 AAGCAGATAAGGAGGAATCTGCTTTTACAAACGTAAAGGACATGACTCATACATAAAGGACAC
3702079 AAGCAGATAAGGAGGAATCTGCTTTTACAAACGTAAAGGACATGACTCATACATAAAGGACAC
1 AAGCAGATAAGGAGGAATCTGCTTTTACAAACGTAAAGGACATGACTCATACATAAAGGACAC
3702142 AAGCAGATAAGGAGGAATCTGCTTTTACA
1 AAGCAGATAAGGAGGAATCTGCTTTTACA
3702171 TTAATTTATC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 92 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (63 bp):
AAGCAGATAAGGAGGAATCTGCTTTTACAAACGTAAAGGACATGACTCATACATAAAGGACAC
Found at i:3706938 original size:71 final size:71
Alignment explanation
Indices: 3706822--3706964 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
3706812 AGTGATTCAG
3706822 AAGATTCAGAATTCTCTTCATCAGATTCATCATTGATGATACAGCCCCAGAAAGATTGCTGTTCT
1 AAGATTCAGAATTCTCTTCATCAGATTCATCATTGATGATACAGCCCCAGAAAGATTGCTGTTCT
3706887 CTCTCT
66 CTCTCT
3706893 AAGATTCAGAATTCTCTTCATCAGATTCATCATTGATGATACAGCCCCAGAAAGATTGCTGTTCT
1 AAGATTCAGAATTCTCTTCATCAGATTCATCATTGATGATACAGCCCCAGAAAGATTGCTGTTCT
3706958 CTCTCT
66 CTCTCT
3706964 A
1 A
3706965 CTCTTCCTCA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (71 bp):
AAGATTCAGAATTCTCTTCATCAGATTCATCATTGATGATACAGCCCCAGAAAGATTGCTGTTCT
CTCTCT
Found at i:3718765 original size:18 final size:18
Alignment explanation
Indices: 3718742--3718780 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
3718732 CATCATTGTT
3718742 GATTGGGATGATCTAACC
1 GATTGGGATGATCTAACC
3718760 GATTGGGATGATCTAACC
1 GATTGGGATGATCTAACC
3718778 GAT
1 GAT
3718781 CATGTCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (18 bp):
GATTGGGATGATCTAACC
Found at i:3720304 original size:31 final size:30
Alignment explanation
Indices: 3720269--3720333 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
3720259 TTAGTAATAT
* * *
3720269 TCTTCTCATATGAATTTGATTGAGAACTTAA
1 TCTTCCCACATGAATTTAATTGAGAACTT-A
*
3720300 TCTTCCCACATTAATTTAATTGAGAACTTA
1 TCTTCCCACATGAATTTAATTGAGAACTTA
3720330 TCTT
1 TCTT
3720334 AATAACTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (30 bp):
TCTTCCCACATGAATTTAATTGAGAACTTA
Found at i:3723003 original size:156 final size:156
Alignment explanation
Indices: 3722719--3723035 Score: 589
Period size: 156 Copynumber: 2.0 Consensus size: 156
3722709 ATCGGGCAAC
* *
3722719 ACTCCTATGATTCCTACTCTACATCTCACAAAAGAAGATGGTGGTTTATTTGAGAACCCTAAGAG
1 ACTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAG
3722784 GTATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAA
66 GTATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAA
3722849 CCGGTGTTGTTAGCCAATTTATGACA
131 CCGGTGTTGTTAGCCAATTTATGACA
3722875 ACTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAG
1 ACTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAG
* *
3722940 GTATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACTTGTCTAGATATCGCATATGCAA
66 GTATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAA
3723005 CCGGTGTTGTTAGCCAATTTATGACA
131 CCGGTGTTGTTAGCCAATTTATGACA
*
3723031 GCTCC
1 ACTCC
3723036 AACCATTCAT
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (156 bp):
ACTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAG
GTATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAA
CCGGTGTTGTTAGCCAATTTATGACA
Found at i:3726325 original size:2 final size:2
Alignment explanation
Indices: 3726318--3726345 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3726308 ATTTTCTGCT
3726318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3726346 CACACGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3736878 original size:19 final size:20
Alignment explanation
Indices: 3736838--3736895 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
3736828 TTATAAATAA
* *
3736838 TAAATTTT-AGAAAATTTAT
1 TAAATTTTAATAAAAATTAT
3736857 TAAATTTTAATAAAAATT-T
1 TAAATTTTAATAAAAATTAT
* *
3736876 TAAAATTTATTAAAAATTAT
1 TAAATTTTAATAAAAATTAT
3736896 AACTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 25 0.76
20 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAAATTTTAATAAAAATTAT
Found at i:3736888 original size:10 final size:10
Alignment explanation
Indices: 3736848--3736895 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
3736838 TAAATTTTAG
3736848 AAAATTTATT
1 AAAATTTATT
* *
3736858 AAATTTTAAT
1 AAAATTTATT
*
3736868 AAAAATT-TT
1 AAAATTTATT
3736877 AAAATTTATT
1 AAAATTTATT
*
3736887 AAAAATTAT
1 AAAATTTAT
3736896 AACTTTTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AAAATTTATT
Found at i:3737159 original size:21 final size:19
Alignment explanation
Indices: 3737111--3737181 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
3737101 AATTTACGAA
3737111 ATTTATATTTATTTACATTT
1 ATTTATATTT-TTTACATTT
*
3737131 -TGTATATTTTTTACGACTTT
1 ATTTATATTTTTTAC-A-TTT
*
3737151 ATTTATATTTTATA-ATTT
1 ATTTATATTTTTTACATTT
*
3737169 TTTTATGATTTTT
1 ATTTAT-ATTTTT
3737182 ATAAAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 13 0.31
19 15 0.36
20 3 0.07
21 11 0.26
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (19 bp):
ATTTATATTTTTTACATTT
Found at i:3737180 original size:10 final size:9
Alignment explanation
Indices: 3737112--3737239 Score: 57
Period size: 10 Copynumber: 13.4 Consensus size: 9
3737102 ATTTACGAAA
3737112 TTTATATTT
1 TTTATATTT
*
3737121 ATTTACATTT
1 -TTTATATTT
*
3737131 TGTATATTT
1 TTTATATTT
*
3737140 TTTACGACTTT
1 TTTA-TA-TTT
3737151 ATTTATATTT
1 -TTTATATTT
*
3737161 TATA-ATTT
1 TTTATATTT
3737169 TTT-TATGATT
1 TTTATAT--TT
**
3737179 TTTATAAAAT
1 TTTAT-ATTT
*
3737189 TTTACAATTT
1 TTTA-TATTT
3737199 TTTATATATT
1 TTTATAT-TT
*
3737209 TTT-TACGATT
1 TTTATA--TTT
3737219 TTTATATTT
1 TTTATATTT
3737228 TTT-TATTT
1 TTTATATTT
3737236 TTTA
1 TTTA
3737240 ATAAATTTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 29
0.66 0.12 0.22
Matches are distributed among these distances:
8 16 0.18
9 22 0.25
10 38 0.43
11 7 0.08
12 5 0.06
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTATATTT
Found at i:3737183 original size:20 final size:20
Alignment explanation
Indices: 3737158--3737232 Score: 75
Period size: 19 Copynumber: 3.8 Consensus size: 20
3737148 TTTATTTATA
*
3737158 TTTTATAATTTTTTTATGAT
1 TTTTATAATTTTTTTACGAT
** *
3737178 TTTTATAA-AATTTTACAAT
1 TTTTATAATTTTTTTACGAT
3737197 TTTT-TATATATTTTTTACGAT
1 TTTTATA-AT-TTTTTTACGAT
3737218 TTTTAT-ATTTTTTTA
1 TTTTATAATTTTTTTA
3737233 TTTTTTAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 2 0.05
19 19 0.43
20 10 0.23
21 12 0.27
22 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTATAATTTTTTTACGAT
Found at i:3737262 original size:27 final size:29
Alignment explanation
Indices: 3737232--3737285 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
3737222 ATATTTTTTT
*
3737232 ATTTTTTAAT-AAATTT-TTAATATTTGG
1 ATTTTTTAATAAAATTTAATAATATTTGG
*
3737259 ATTTTTTATTAAAATTTAATAATATTT
1 ATTTTTTAATAAAATTTAATAATATTT
3737286 ATATCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 6 0.26
29 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (29 bp):
ATTTTTTAATAAAATTTAATAATATTTGG
Found at i:3737479 original size:89 final size:89
Alignment explanation
Indices: 3737337--3737532 Score: 268
Period size: 89 Copynumber: 2.2 Consensus size: 89
3737327 AATTTTTAAT
* * ** *
3737337 AAAAGCAGGGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGTT
1 AAAAGTAGGGGCTTAATTGTTTTCTTGAAAAAGTTTGAGGACTTTTTTAATGCATTTTGAAAGTT
* * *
3737402 CAAGGACCCAATTGAGTGC-AAAA
66 CAAAGACCAAAATGAGTGCAAAAA
* *
3737425 AAAATTAGGGGCTTAATTGCTTTTCTTGAAAAGGTTTGAGGACTTTTTTAATGCATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTG-TTTTCTTGAAAAAGTTTGAGGACTTTTTTAATGCATTTTGAAAGT
*
3737490 TCAAATACCAAAATGAGTGCAAAAA
65 TCAAAGACCAAAATGAGTGCAAAAA
*
3737515 AAAAGTAAGGGCTTAATT
1 AAAAGTAGGGGCTTAATT
3737533 TTATTTTTTA
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 17 0.18
89 56 0.60
90 20 0.22
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.34
Consensus pattern (89 bp):
AAAAGTAGGGGCTTAATTGTTTTCTTGAAAAAGTTTGAGGACTTTTTTAATGCATTTTGAAAGTT
CAAAGACCAAAATGAGTGCAAAAA
Found at i:3741549 original size:83 final size:83
Alignment explanation
Indices: 3741410--3741574 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
3741400 AAAAACTGTT
*
3741410 TATTTCTTATAAGTTCTCCTGTACTGTTACTTTTTTATAATTTATTTAGCTTACTGCCATACAAG
1 TATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACAAG
3741475 ATTACAAGTTCAGGAATG
66 ATTACAAGTTCAGGAATG
3741493 TATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACAAG
1 TATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACAAG
3741558 ATTACAAGTTCAGGAAT
66 ATTACAAGTTCAGGAAT
3741575 TTAGTAGCTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (83 bp):
TATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACAAG
ATTACAAGTTCAGGAATG
Found at i:3749576 original size:14 final size:15
Alignment explanation
Indices: 3749543--3749578 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3749533 AAATAAAATG
3749543 TAAAAATTTTATTCA
1 TAAAAATTTTATTCA
3749558 TAAAAATTTTATT--
1 TAAAAATTTTATTCA
3749571 TAAAAATT
1 TAAAAATT
3749579 AAATGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
15 13 0.62
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAAATTTTATTCA
Found at i:3750067 original size:20 final size:20
Alignment explanation
Indices: 3750042--3750117 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
3750032 AATATTTTTC
3750042 TCATAAAAA-TATTAAAAAAG
1 TCATAAAAATTA-TAAAAAAG
*
3750062 TCATAAAAATTATAAAAAAAA
1 TCATAAAAATTAT-AAAAAAG
3750083 TCA-AACAAATTATAAAAAA-
1 TCATAA-AAATTATAAAAAAG
3750102 T-AT-AAAATTAATAAAA
1 TCATAAAAATT-ATAAAA
3750118 CTTATTTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.10
18 8 0.16
19 1 0.02
20 18 0.36
21 18 0.36
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (20 bp):
TCATAAAAATTATAAAAAAG
Found at i:3750079 original size:21 final size:21
Alignment explanation
Indices: 3750042--3750101 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
3750032 AATATTTTTC
* *
3750042 TCATAAAAA-TATTAAAAAAG
1 TCATAAAAATTATAAAAAAAA
3750062 TCATAAAAATTATAAAAAAAA
1 TCATAAAAATTATAAAAAAAA
3750083 TCA-AACAAATTATAAAAAA
1 TCATAA-AAATTATAAAAAA
3750102 TATAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 11 0.31
21 25 0.69
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (21 bp):
TCATAAAAATTATAAAAAAAA
Found at i:3750142 original size:19 final size:20
Alignment explanation
Indices: 3750104--3750142 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3750094 ATAAAAAATA
*
3750104 TAAAATTAATAAAACTTATT
1 TAAAATTAATAAAACATATT
3750124 TAAAATTAA-AAAACATATT
1 TAAAATTAATAAAACATATT
3750143 AGAATTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATTAATAAAACATATT
Found at i:3750148 original size:18 final size:18
Alignment explanation
Indices: 3750089--3750148 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 18
3750079 AAAATCAAAC
3750089 AAATTATAAAAA-ATA-TA
1 AAATTA-AAAAACATATTA
*
3750106 AAATTAATAAAACTTATTTA
1 AAATTAA-AAAACATA-TTA
3750126 AAATTAAAAAACATATTA
1 AAATTAAAAAACATATTA
*
3750144 GAATT
1 AAATT
3750149 CTTAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 10 0.28
18 9 0.25
19 7 0.19
20 9 0.25
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTAAAAAACATATTA
Found at i:3750169 original size:21 final size:21
Alignment explanation
Indices: 3750145--3750199 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
3750135 AACATATTAG
3750145 AATTCTTAAAAAATAATA-AAA
1 AATT-TTAAAAAATAATATAAA
* *
3750166 AATTGTAAAAAATTATTATAAA
1 AATTTTAAAAAA-TAATATAAA
3750188 AA-TTTAAAAAAT
1 AATTTTAAAAAAT
3750200 CTTAAAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AATTTTAAAAAATAATATAAA
Found at i:3750204 original size:10 final size:9
Alignment explanation
Indices: 3750150--3750207 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 9
3750140 ATTAGAATTC
3750150 TTAAAAAAT
1 TTAAAAAAT
*
3750159 AATAAAAAAT
1 -TTAAAAAAT
3750169 TGTAAAAAATT
1 T-TAAAAAA-T
3750180 ATTATAAAAAT
1 -TTA-AAAAAT
3750191 TTAAAAAAT
1 TTAAAAAAT
3750200 CTTAAAAA
1 -TTAAAAA
3750208 CTTGAGTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 6 0.15
10 25 0.61
11 4 0.10
12 6 0.15
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:3750713 original size:22 final size:21
Alignment explanation
Indices: 3750681--3750721 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3750671 TATTTTTTTA
*
3750681 TTTTTATAAAATTTTAATACG
1 TTTTTATAAAATTTAAATACG
3750702 TTTTTATAAAAATTTAAATA
1 TTTTTAT-AAAATTTAAATA
3750722 TATGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTTATAAAATTTAAATACG
Found at i:3751405 original size:21 final size:20
Alignment explanation
Indices: 3751357--3751406 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
3751347 TTTATTAATT
* *
3751357 AAAAAAATTTCTTTTATTAA
1 AAAAAAATTTATTTAATTAA
3751377 AAATAAAATTTATTTAACTTAA
1 AAA-AAAATTTATTTAA-TTAA
*
3751399 ATAAAAAT
1 AAAAAAAT
3751407 AAATAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAAAATTTATTTAATTAA
Found at i:3752427 original size:30 final size:30
Alignment explanation
Indices: 3752391--3752459 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
3752381 AGATGTGCAC
* *
3752391 GGCAACCCCATTCCACTT-ACTGACGAGCAT
1 GGCAACCCCATT-CAATTGACTGACGAACAT
*
3752421 GGCAACCCCGTTCAATTGACTGACGAACAT
1 GGCAACCCCATTCAATTGACTGACGAACAT
*
3752451 GGTAACCCC
1 GGCAACCCC
3752460 GTTTACGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (30 bp):
GGCAACCCCATTCAATTGACTGACGAACAT
Found at i:3758683 original size:30 final size:30
Alignment explanation
Indices: 3758637--3758818 Score: 153
Period size: 30 Copynumber: 6.1 Consensus size: 30
3758627 TTTAAAATTT
*
3758637 TTACATTTTAACCCCTAATCTTTTCT-AAAA
1 TTACATTTTGACCCCTAA-CTTTTCTCAAAA
*
3758667 TTACCTTTTGACCCCTAATCTTTTCT-AAAA
1 TTACATTTTGACCCCTAA-CTTTTCTCAAAA
* ** *
3758697 TTACCTTTTGACCCCTAAAATTTCTCGAAA
1 TTACATTTTGACCCCTAACTTTTCTCAAAA
* * * *
3758727 TTACAATTTAACCCTTGAAC-TTT-TAAAAA
1 TTACATTTTGACCCCT-AACTTTTCTCAAAA
*
3758756 TTACATTTTGACCCCTTAAC-TTTCTAAAAA
1 TTACATTTTGACCCC-TAACTTTTCTCAAAA
*
3758786 TTATATTTTGA-CCCTGATA-TTTTCTCAAAA
1 TTACATTTTGACCCCT-A-ACTTTTCTCAAAA
3758816 TTA
1 TTA
3758819 TGTTTCAGCC
Statistics
Matches: 128, Mismatches: 17, Indels: 14
0.81 0.11 0.09
Matches are distributed among these distances:
28 1 0.01
29 31 0.24
30 94 0.73
31 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (30 bp):
TTACATTTTGACCCCTAACTTTTCTCAAAA
Found at i:3758800 original size:59 final size:59
Alignment explanation
Indices: 3758637--3758800 Score: 163
Period size: 59 Copynumber: 2.7 Consensus size: 59
3758627 TTTAAAATTT
* * * *
3758637 TTACATTTTAACCCC-TAATCTTTTCTAAAATTACCTTTTGACCCCTAATCTTTTCTAAAA
1 TTACATTTTGACCCCTTAA-C-TTTCTAAAATTACATTTTGACCCTTAATCTTTTCAAAAA
* * * * * *
3758697 TTACCTTTTGACCCCTAAAATTTCTCGAAATTACAATTTAACCCTTGAA-CTTTT-AAAAA
1 TTACATTTTGACCCCTTAACTTTCT-AAAATTACATTTTGACCCTT-AATCTTTTCAAAAA
*
3758756 TTACATTTTGACCCCTTAACTTTCTAAAAATTATATTTTGACCCT
1 TTACATTTTGACCCCTTAACTTTCT-AAAATTACATTTTGACCCT
3758801 GATATTTTCT
Statistics
Matches: 83, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
59 46 0.55
60 33 0.40
61 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (59 bp):
TTACATTTTGACCCCTTAACTTTCTAAAATTACATTTTGACCCTTAATCTTTTCAAAAA
Found at i:3758810 original size:89 final size:90
Alignment explanation
Indices: 3758637--3758818 Score: 212
Period size: 89 Copynumber: 2.0 Consensus size: 90
3758627 TTTAAAATTT
* * * *
3758637 TTACATTTTAACCCCTAATCTTTTCTAAAATTACCTTTTGACCCCTAATCTTTTCTAAAATTACC
1 TTACAATTTAACCCCTAATCTTTTCAAAAATTACATTTTGACCCCTAATCTTTTCTAAAATTACA
*
3758702 TTTTGACCCCTAAAATTTCTCGAAA
66 TTTTGACCCCTAAAATTTCTCAAAA
*
3758727 TTACAATTTAACCCTTGAA-CTTTT-AAAAATTACATTTTGACCCCTTAA-C-TTTCTAAAAATT
1 TTACAATTTAACCCCT-AATCTTTTCAAAAATTACATTTTGACCCC-TAATCTTTTCT-AAAATT
* * *
3758788 ATATTTTGA-CCCTGATATTTTCTCAAAA
63 ACATTTTGACCCCT-AAAATTTCTCAAAA
3758816 TTA
1 TTA
3758819 TGTTTCAGCC
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
88 9 0.11
89 46 0.58
90 22 0.28
91 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (90 bp):
TTACAATTTAACCCCTAATCTTTTCAAAAATTACATTTTGACCCCTAATCTTTTCTAAAATTACA
TTTTGACCCCTAAAATTTCTCAAAA
Found at i:3759139 original size:6 final size:6
Alignment explanation
Indices: 3759108--3759165 Score: 53
Period size: 6 Copynumber: 8.5 Consensus size: 6
3759098 ACACCTAACT
3759108 AAAGAA ATAAGAA CCAAAGCAA AAAGAA AAAGAA AAAGAA AAAGCAA GCAAAGAA
1 AAAGAA A-AAGAA --AAAG-AA AAAGAA AAAGAA AAAGAA AAAG-AA --AAAGAA
3759163 AAA
1 AAA
3759166 AAATTTTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
6 22 0.49
7 11 0.24
8 5 0.11
9 7 0.16
ACGTcount: A:0.74, C:0.09, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:3759255 original size:10 final size:10
Alignment explanation
Indices: 3759240--3759266 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3759230 AGGGAAGTGC
3759240 GCCGTCGTCG
1 GCCGTCGTCG
3759250 GCCGTCGTCG
1 GCCGTCGTCG
3759260 GCCGTCG
1 GCCGTCG
3759267 CACCGTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.41, G:0.41, T:0.19
Consensus pattern (10 bp):
GCCGTCGTCG
Found at i:3759329 original size:3 final size:3
Alignment explanation
Indices: 3759321--3759362 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
3759311 GGGGGCTGAT
*
3759321 AGA AGA AGA AGA AGA AGA AGA AGAA AGA GAGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA -AGA AGA AGA AGA A
3759363 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3759487 original size:20 final size:21
Alignment explanation
Indices: 3759462--3759501 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
3759452 CCAAGCCCAA
3759462 AGCAAAAAAAAAG-AAGCAGC
1 AGCAAAAAAAAAGAAAGCAGC
3759482 AGCAAAAAAAAAGAAAGCAG
1 AGCAAAAAAAAAGAAAGCAG
3759502 GCCATCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.68, C:0.12, G:0.20, T:0.00
Consensus pattern (21 bp):
AGCAAAAAAAAAGAAAGCAGC
Found at i:3759647 original size:20 final size:21
Alignment explanation
Indices: 3759622--3759687 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
3759612 AAAAGAAGAG
3759622 AAAGAAAG-AAAAGAAAAAAA
1 AAAGAAAGAAAAAGAAAAAAA
* **
3759642 AAAGAACGAAAAAGAAAAAGT
1 AAAGAAAGAAAAAGAAAAAAA
*
3759663 GAAGCAAA-AAAAAGAAAAAGAA
1 AAAG-AAAGAAAAAGAAAAA-AA
3759685 AAA
1 AAA
3759688 AGGGGGTTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 7 0.20
21 24 0.69
22 4 0.11
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAGAAAGAAAAAGAAAAAAA
Found at i:3759660 original size:27 final size:26
Alignment explanation
Indices: 3759626--3759687 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
3759616 GAAGAGAAAG
3759626 AAAG-AAAA-GAAAAAAAAAAGAACGAA
1 AAAGAAAAAGGAAAAAAAAAA-AA-GAA
**
3759652 AAAGAAAAAGTGAAGCAAAAAAAAGAA
1 AAAGAAAAAG-GAAAAAAAAAAAAGAA
3759679 AAAGAAAAA
1 AAAGAAAAA
3759688 AGGGGGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.13
27 16 0.52
28 2 0.06
29 9 0.29
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (26 bp):
AAAGAAAAAGGAAAAAAAAAAAAGAA
Found at i:3760193 original size:36 final size:35
Alignment explanation
Indices: 3760151--3760247 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
3760141 ACGGTACTTC
*
3760151 TTAAAAAAATCTCGTGTTTCAAAATT-TTCGCGTTTT
1 TTAAAAAAAT-TCGTGTTTCAAAATTCTT-GCATTTT
*
3760187 TTAAAAAAAATTCGTGTTTCTAAAATTCTTGTATTTT
1 TT-AAAAAAATTCGTGTTTC-AAAATTCTTGCATTTT
**
3760224 AAAAAAAAATTCGTGTTTTCAAAA
1 TTAAAAAAATTCGTG-TTTCAAAA
3760248 AAAAAGTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
36 28 0.53
37 23 0.43
38 2 0.04
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.42
Consensus pattern (35 bp):
TTAAAAAAATTCGTGTTTCAAAATTCTTGCATTTT
Found at i:3760232 original size:21 final size:20
Alignment explanation
Indices: 3760208--3760252 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3760198 TCGTGTTTCT
* *
3760208 AAAATTCTTGTATTTTAAAAA
1 AAAATTCGTGT-TTTCAAAAA
3760229 AAAATTCGTGTTTTCAAAAA
1 AAAATTCGTGTTTTCAAAAA
3760249 AAAA
1 AAAA
3760253 GTTGTTGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (20 bp):
AAAATTCGTGTTTTCAAAAA
Found at i:3764110 original size:3 final size:3
Alignment explanation
Indices: 3764102--3764127 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3764092 GCCTTGCGAT
3764102 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
3764128 GGTTTTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3765128 original size:43 final size:42
Alignment explanation
Indices: 3765066--3765230 Score: 195
Period size: 43 Copynumber: 3.8 Consensus size: 42
3765056 TTTTAGAAAT
* *
3765066 AAACGTCGCTAAAAGTCATGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAA-TCATGACCTTTAGCGGCGCTTTTCCCAC
* *
3765109 AAACGCCGCTATAAATCATGACTTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTA-AAATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
3765152 AAACGCTGCTATAGATCATGACTTTTAGCCGCGCTTTTCCTAC
1 AAACGCCGCTA-AAATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
3765195 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTT
1 AAACGCCGCTAAA-ATCATGACCTTTAGCGGCGCTT
3765231 GTTGGCTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 102 0.96
44 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAATCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:3773837 original size:20 final size:20
Alignment explanation
Indices: 3773809--3773848 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3773799 ATGAGCAACC
* *
3773809 TCGACAGGCAACCTAGGTAA
1 TCGAAAGGCAACCTAAGTAA
3773829 TCGAAAGGCAACCTAAGTAA
1 TCGAAAGGCAACCTAAGTAA
3773849 GATAAGAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (20 bp):
TCGAAAGGCAACCTAAGTAA
Done.