Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 176 of 214
Found at i:51706767 original size:19 final size:19
Alignment explanation
Indices: 51706743--51706785 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
51706733 CTGTTTTTGT
51706743 TGAAGTTTTAGATTTCTGA
1 TGAAGTTTTAGATTTCTGA
* *
51706762 TGAAGTTTTTGCTTTCTGA
1 TGAAGTTTTAGATTTCTGA
51706781 TGAAG
1 TGAAG
51706786 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (19 bp):
TGAAGTTTTAGATTTCTGA
Found at i:51713451 original size:23 final size:23
Alignment explanation
Indices: 51713425--51713470 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
51713415 GTAATTATAA
51713425 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
51713448 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
51713471 CCATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:51714604 original size:20 final size:20
Alignment explanation
Indices: 51714579--51714617 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51714569 TTCAATTAAG
*
51714579 TCTTTCATT-AAGTGTTTTTT
1 TCTTTC-TTCAAGTATTTTTT
51714599 TCTTTCTTCAAGTATTTTT
1 TCTTTCTTCAAGTATTTTT
51714618 CATCTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.15, C:0.13, G:0.08, T:0.64
Consensus pattern (20 bp):
TCTTTCTTCAAGTATTTTTT
Found at i:51714641 original size:12 final size:12
Alignment explanation
Indices: 51714606--51714737 Score: 50
Period size: 12 Copynumber: 10.2 Consensus size: 12
51714596 TTTTCTTTCT
51714606 TCAAGTATTTTTCA
1 TCAAGT-TTTTT-A
*
51714620 TCTAGTTTTTTTA
1 TCAAG-TTTTTTA
51714633 TCAAGTTTTTAATTA
1 TCAAG-TTTT--TTA
*
51714648 CCAAGTTTTTTTTA
1 TCAAG--TTTTTTA
**
51714662 TCAAGTTTTGCA
1 TCAAGTTTTTTA
*
51714674 GCAAGTTCTTTT-
1 TCAAGTT-TTTTA
* *
51714686 TAAAGTTTTTCA
1 TCAAGTTTTTTA
*
51714698 TCAAGTCTTTTCA
1 TCAAGT-TTTTTA
* * **
51714711 TAAAATTTTCCA
1 TCAAGTTTTTTA
*
51714723 TCAAGTTTTTAA
1 TCAAGTTTTTTA
51714735 TCA
1 TCA
51714738 TTTCATTTTT
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
11 3 0.03
12 37 0.41
13 22 0.24
14 16 0.18
15 8 0.09
16 5 0.05
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (12 bp):
TCAAGTTTTTTA
Found at i:51714654 original size:15 final size:14
Alignment explanation
Indices: 51714623--51714670 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
51714613 TTTTTCATCT
*
51714623 AGTTTTT-TTATCA
1 AGTTTTTATTACCA
51714636 AGTTTTTAATTACCA
1 AGTTTTT-ATTACCA
* *
51714651 AGTTTTTTTTATCA
1 AGTTTTTATTACCA
51714665 AGTTTT
1 AGTTTT
51714671 GCAGCAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 7 0.23
14 11 0.37
15 12 0.40
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (14 bp):
AGTTTTTATTACCA
Found at i:51714714 original size:25 final size:23
Alignment explanation
Indices: 51714664--51714732 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
51714654 TTTTTTTATC
* *
51714664 AAGTTTTGCAGCAAGTTCTTTTTA
1 AAGTTTTCCATCAAG-TCTTTTTA
*
51714688 AAGTTTTTCATCAAGTCTTTTCATA
1 AAGTTTTCCATCAAGTCTTTT--TA
*
51714713 AAATTTTCCATCAAGT-TTTT
1 AAGTTTTCCATCAAGTCTTTT
51714733 AATCATTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.15
24 17 0.44
25 16 0.41
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (23 bp):
AAGTTTTCCATCAAGTCTTTTTA
Found at i:51716052 original size:25 final size:25
Alignment explanation
Indices: 51716024--51716150 Score: 158
Period size: 25 Copynumber: 5.3 Consensus size: 25
51716014 ACTTTAGCGC
51716024 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
51716049 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
51716074 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
*
51716099 GCTCTCTG--T-TTAGCACATCTGT
1 GCTCTCTGATTATTAGCACATCAGT
*
51716121 GCTCTCTG--TA-TAGCACTTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
51716143 GCTCTCTG
1 GCTCTCTG
51716151 TTCATTAATG
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
22 37 0.40
23 1 0.01
25 54 0.59
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:51716122 original size:22 final size:22
Alignment explanation
Indices: 51716036--51716152 Score: 126
Period size: 22 Copynumber: 5.0 Consensus size: 22
51716026 TCTCTGATTA
51716036 TTAGCACATCAGTGCTCTCTGATT
1 TTAGCACATCAGTGCTCTCTG--T
* *
51716060 ATTAGCACGTTAGTGCTCTCTGAT
1 -TTAGCACATCAGTGCTCTCTG-T
*
51716084 TACTAGCACGTCAGTGCTCTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
51716108 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
51716130 ATAGCACTTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
51716152 T
1 T
51716153 CATTAATGCA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
22 38 0.47
23 1 0.01
24 3 0.04
25 38 0.47
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.38
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:51721923 original size:16 final size:16
Alignment explanation
Indices: 51721899--51721929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51721889 TGGTTCGCTG
51721899 TATTAGATTAGAGGTA
1 TATTAGATTAGAGGTA
*
51721915 TATTGGATTAGAGGT
1 TATTAGATTAGAGGT
51721930 GTAATAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (16 bp):
TATTAGATTAGAGGTA
Found at i:51722176 original size:25 final size:25
Alignment explanation
Indices: 51722144--51722198 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
51722134 TAATTTAATC
*
51722144 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
51722168 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
51722193 ATATAT
1 ATATAT
51722199 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:51722383 original size:47 final size:45
Alignment explanation
Indices: 51722329--51722479 Score: 122
Period size: 47 Copynumber: 3.4 Consensus size: 45
51722319 GATTTAATAA
51722329 AATTTAAAATAATTATAACTAATAAATTGTCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATT-TCTTATATGAATTTGTAT
*
51722376 AATTTAAAATAATTATTATTACATATAA--T-TTA-AT-AA---GATAT
1 AATTTAAAATAATTA-TAATA-ATA-AATTTCTTATATGAATTTG-TAT
* * *
51722417 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAA-TTTCTTATATGAATTTGTAT
51722464 AATTTAAAATAATTAT
1 AATTTAAAATAATTAT
51722480 TATTAAATAT
Statistics
Matches: 83, Mismatches: 6, Indels: 31
0.69 0.05 0.26
Matches are distributed among these distances:
39 2 0.02
40 4 0.05
41 17 0.20
42 4 0.05
43 5 0.06
44 4 0.05
45 5 0.06
46 5 0.06
47 30 0.36
48 5 0.06
49 2 0.02
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (45 bp):
AATTTAAAATAATTATAATAATAAATTTCTTATATGAATTTGTAT
Found at i:51722431 original size:88 final size:88
Alignment explanation
Indices: 51722339--51722499 Score: 270
Period size: 88 Copynumber: 1.8 Consensus size: 88
51722329 AATTTAAAAT
* *
51722339 AATTA-TAACTAATAAATTGTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATA
1 AATTATTAA-TAATAAATTGTCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATA
51722403 ATTTAATAAGATATAATTTCATAA
65 ATTTAATAAGATATAATTTCATAA
* *
51722427 AATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATAA
1 AATTATTAATAATAAATTGTCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATAA
51722492 TTTAATAA
66 TTTAATAA
51722500 TAAAATGTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 66 0.97
89 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (88 bp):
AATTATTAATAATAAATTGTCTTATATGAATTTATATAATTTAAAATAATTATTATTAAATATAA
TTTAATAAGATATAATTTCATAA
Found at i:51722475 original size:34 final size:34
Alignment explanation
Indices: 51722435--51722522 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 34
51722425 AAAATTATTG
51722435 ATAATAAATTTTCTTATATGAATTTATATAATTTA
1 ATAATAAA-TTTCTTATATGAATTTATATAATTTA
*
51722470 A-AAT-AA-TTATTAT-T-AA---ATATAATTTA
1 ATAATAAATTTCTTATATGAATTTATATAATTTA
51722496 ATAATAAAATGTTCTTATATGAATTTA
1 ATAAT-AAAT-TTCTTATATGAATTTA
51722523 CTAAAATCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 19
0.66 0.03 0.31
Matches are distributed among these distances:
26 11 0.27
27 3 0.07
29 4 0.10
30 1 0.02
31 12 0.29
32 1 0.02
33 4 0.10
34 3 0.07
35 1 0.02
36 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (34 bp):
ATAATAAATTTCTTATATGAATTTATATAATTTA
Found at i:51732804 original size:25 final size:26
Alignment explanation
Indices: 51732768--51732819 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
51732758 ATTTGATTCG
*
51732768 AAATTTGCATATTTAAA-TAATATCC
1 AAATTTGCATATTAAAATTAATATCC
*
51732793 AAATTT-CAATATTAAAATTATTATCC
1 AAATTTGC-ATATTAAAATTAATATCC
51732819 A
1 A
51732820 CTTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 14 0.61
26 8 0.35
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (26 bp):
AAATTTGCATATTAAAATTAATATCC
Found at i:51733269 original size:15 final size:15
Alignment explanation
Indices: 51733251--51733319 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
51733241 AATAAAAAGT
51733251 TAATTAATATTTATA
1 TAATTAATATTTATA
*
51733266 TAATTAACTA-TTAAA
1 TAATTAA-TATTTATA
51733281 TAATT-ATATTTAGTA
1 TAATTAATATTTA-TA
51733296 TATATT-ATA-TTATA
1 TA-ATTAATATTTATA
* *
51733310 AAAATAATAT
1 TAATTAATAT
51733320 ACATACACGT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.09
14 10 0.23
15 22 0.50
16 8 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
TAATTAATATTTATA
Found at i:51738807 original size:15 final size:14
Alignment explanation
Indices: 51738787--51738855 Score: 72
Period size: 15 Copynumber: 4.9 Consensus size: 14
51738777 TGGTCTGCTG
51738787 CTTTTTTTTTCTTT
1 CTTTTTTTTTCTTT
* *
51738801 CCTTTTTCTT-TTT
1 CTTTTTTTTTCTTT
51738814 C-TTTTTTTTCTTT
1 CTTTTTTTTTCTTT
51738827 -TTCTTTTTCTTCTTT
1 CTT-TTTTT-TTCTTT
51738842 CTTTTTTTCTTCTT
1 CTTTTTTT-TTCTT
51738856 CTTCGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
12 7 0.15
13 8 0.17
14 13 0.28
15 17 0.36
16 2 0.04
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTTTTTTTCTTT
Found at i:51738813 original size:6 final size:6
Alignment explanation
Indices: 51738788--51738847 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
51738778 GGTCTGCTGC
*
51738788 TTTT-T TTTTC- TTTCCT TTTTCT TTTTC- -TTT-T TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
51738831 TTTTCT TCTTTCT TTTT
1 TTTTCT T-TTTCT TTTT
51738848 TTCTTCTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
4 3 0.06
5 11 0.23
6 27 0.57
7 6 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:51738832 original size:27 final size:28
Alignment explanation
Indices: 51738789--51738858 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
51738779 GTCTGCTGCT
*
51738789 TTTTTTTTC-TTTCCTTTTTCTT-TTTC
1 TTTTTTTTCTTTTTCTTTTTCTTCTTTC
51738815 TTTTTTTTCTTTTTCTTTTTCTTCTTTC
1 TTTTTTTTCTTTTTCTTTTTCTTCTTTC
*
51738843 -TTTTTTTCTTCTTCTT
1 TTTTTTTTCTTTTTCTT
51738859 CGGGCCAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.22
27 27 0.68
28 4 0.10
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (28 bp):
TTTTTTTTCTTTTTCTTTTTCTTCTTTC
Found at i:51738849 original size:21 final size:21
Alignment explanation
Indices: 51738789--51738859 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
51738779 GTCTGCTGCT
* *
51738789 TTTTTTTTCTTTC-CTTTTTC
1 TTTTTCTTCTTTCTTTTTTTC
*
51738809 TTTTTCTT-TTTTTTCTTTTTC
1 TTTTTCTTCTTTCTT-TTTTTC
51738830 TTTTTCTTCTTTCTTTTTTTC
1 TTTTTCTTCTTTCTTTTTTTC
*
51738851 TTCTTCTTC
1 TTTTTCTTC
51738860 GGGCCAAACC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.07
20 7 0.16
21 28 0.65
22 5 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTCTTCTTTCTTTTTTTC
Found at i:51739008 original size:24 final size:22
Alignment explanation
Indices: 51738968--51739028 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
51738958 CAGCGCTCCC
* *
51738968 TTCTCTTTTTTCTTCTTTTCTT
1 TTCTTTTTTTTCTTCTTCTCTT
*
51738990 CTTTTTTTTTTTCTCTCTTCTCTT
1 -TTCTTTTTTTTCT-TCTTCTCTT
51739014 TTCTTTTTTTGTCTT
1 TTCTTTTTTT-TCTT
51739029 TTCGAAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (22 bp):
TTCTTTTTTTTCTTCTTCTCTT
Found at i:51739010 original size:22 final size:23
Alignment explanation
Indices: 51738968--51739023 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 23
51738958 CAGCGCTCCC
*
51738968 TTCTCTTTTTTCTTCTTTTCTTCTT
1 TTCT-TTTTTTCTTCTCTTC-TCTT
51738993 TT-TTTTTTTC-TCTCTTCTCTT
1 TTCTTTTTTTCTTCTCTTCTCTT
51739014 TTCTTTTTTT
1 TTCTTTTTTT
51739024 GTCTTTTCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.21
22 13 0.45
23 7 0.24
24 1 0.03
25 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TTCTTTTTTTCTTCTCTTCTCTT
Found at i:51739015 original size:20 final size:18
Alignment explanation
Indices: 51738967--51739028 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 18
51738957 CCAGCGCTCC
51738967 CTTCTCTTTTTTCTTCTTTT
1 CTTCTCTTTTTT-TT-TTTT
51738987 CTTCT-TTTTTTTTTTCTCT
1 CTTCTCTTTTTTTTTT-T-T
51739006 CTTCTCTTTTCTTTTTTTGT
1 CTTCTCTTTT-TTTTTTT-T
51739026 CTT
1 CTT
51739029 TTCGAAAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
17 2 0.05
18 3 0.08
19 12 0.32
20 14 0.38
21 6 0.16
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.76
Consensus pattern (18 bp):
CTTCTCTTTTTTTTTTTT
Found at i:51739022 original size:7 final size:7
Alignment explanation
Indices: 51738971--51739022 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
51738961 CGCTCCCTTC
51738971 TCTTTTT
1 TCTTTTT
51738978 TCTTCTTT
1 TCTT-TTT
51738986 TCTTCTTT
1 TCTT-TTT
*
51738994 TTTTTTT
1 TCTTTTT
* *
51739001 TCTCTCT
1 TCTTTTT
*
51739008 TCTCTTT
1 TCTTTTT
51739015 TCTTTTT
1 TCTTTTT
51739022 T
1 T
51739023 TGTCTTTTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 24 0.63
8 14 0.37
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:51739436 original size:29 final size:30
Alignment explanation
Indices: 51739404--51739512 Score: 134
Period size: 29 Copynumber: 3.7 Consensus size: 30
51739394 CATAATTGTG
* *
51739404 GAAAAATAT-GGGTCTAAAATGCAATTTAT
1 GAAAAATTTAGGGTCTAAAATGTAATTTAT
* *
51739433 GAAAATTTTAGGG-CTCAAATGTAATTTAT
1 GAAAAATTTAGGGTCTAAAATGTAATTTAT
*
51739462 GAAAAGTTTAGGGTCTAAAATGTAATTTAT
1 GAAAAATTTAGGGTCTAAAATGTAATTTAT
*
51739492 -AAAAAGTTTAGGGGCTAAAAT
1 GAAAAA-TTTAGGGTCTAAAAT
51739513 ATATTTTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
29 37 0.54
30 32 0.46
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (30 bp):
GAAAAATTTAGGGTCTAAAATGTAATTTAT
Found at i:51739485 original size:30 final size:30
Alignment explanation
Indices: 51739413--51739512 Score: 148
Period size: 30 Copynumber: 3.4 Consensus size: 30
51739403 GGAAAAATAT
* *
51739413 GGGTCTAAAATGCAATTTATGAAAATTTTA
1 GGGTCTAAAATGTAATTTATGAAAAGTTTA
*
51739443 GGG-CTCAAATGTAATTTATGAAAAGTTTA
1 GGGTCTAAAATGTAATTTATGAAAAGTTTA
*
51739472 GGGTCTAAAATGTAATTTATAAAAAGTTTA
1 GGGTCTAAAATGTAATTTATGAAAAGTTTA
*
51739502 GGGGCTAAAAT
1 GGGTCTAAAAT
51739513 ATATTTTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 26 0.41
30 37 0.59
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (30 bp):
GGGTCTAAAATGTAATTTATGAAAAGTTTA
Found at i:51739572 original size:17 final size:18
Alignment explanation
Indices: 51739544--51739581 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
51739534 ATTTTCTGAT
51739544 TTATTATTGTTATTATCA
1 TTATTATTGTTATTATCA
*
51739562 TTATT-TTGTTATTATTA
1 TTATTATTGTTATTATCA
51739579 TTA
1 TTA
51739582 AAATTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (18 bp):
TTATTATTGTTATTATCA
Found at i:51739617 original size:14 final size:14
Alignment explanation
Indices: 51739600--51739632 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
51739590 AAAGCATAAC
*
51739600 AACAAAACAAAACA
1 AACAAAACAAAAAA
51739614 AACAAAACAAAAAA
1 AACAAAACAAAAAA
51739628 AACAA
1 AACAA
51739633 TAAGGGGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (14 bp):
AACAAAACAAAAAA
Found at i:51739618 original size:4 final size:5
Alignment explanation
Indices: 51739600--51739632 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
51739590 AAAGCATAAC
51739600 AACAA AACAA AAC-A AACAA AACAA AA-AA AACAA
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA
51739633 TAAGGGGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:51741351 original size:27 final size:27
Alignment explanation
Indices: 51741320--51741375 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
51741310 AATAAATATA
51741320 TTTATT-TTTTTAATTTTAAAATACTTT
1 TTTATTATTTTTAATTTTAAAATA-TTT
51741347 TTTATTATTTTTAATTTTAAAATATTT
1 TTTATTATTTTTAATTTTAAAATATTT
51741374 TT
1 TT
51741376 AAAATACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTATTATTTTTAATTTTAAAATATTT
Found at i:51741386 original size:28 final size:28
Alignment explanation
Indices: 51741327--51741386 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
51741317 ATATTTATTT
* * *
51741327 TTTTAATTTTAAAATACTTTTTTATTAT
1 TTTTAATTTTAAAATACTTTTTAAATAC
51741355 TTTTAATTTTAAAATA-TTTTTAAAATAC
1 TTTTAATTTTAAAATACTTTTT-AAATAC
51741383 TTTT
1 TTTT
51741387 TAAAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTAATTTTAAAATACTTTTTAAATAC
Found at i:51741388 original size:12 final size:11
Alignment explanation
Indices: 51741361--51741402 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
51741351 TTATTTTTAA
51741361 TTTTAAAATAT
1 TTTTAAAATAT
51741372 TTTTAAAATACT
1 TTTTAAAATA-T
51741384 TTTT-AAA-AT
1 TTTTAAAATAT
51741393 TTTTAAAATA
1 TTTTAAAATA
51741403 AATTTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.18
10 4 0.14
11 14 0.50
12 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:51741396 original size:21 final size:22
Alignment explanation
Indices: 51741361--51741402 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
51741351 TTATTTTTAA
51741361 TTTTAAAATATTTTTAAAATAC
1 TTTTAAAATATTTTTAAAATAC
*
51741383 TTTTTAAA-ATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATA
51741403 AATTTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAAATATTTTTAAAATAC
Found at i:51741408 original size:21 final size:23
Alignment explanation
Indices: 51741359--51741408 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
51741349 TATTATTTTT
51741359 AATTTTAAAATATTTTTAAAAT-
1 AATTTTAAAATATTTTTAAAATA
* *
51741381 ACTTTTTAAA-ATTTTTAAAATA
1 AATTTTAAAATATTTTTAAAATA
51741403 AATTTT
1 AATTTT
51741409 TGTATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTAAAATATTTTTAAAATA
Found at i:51741415 original size:21 final size:21
Alignment explanation
Indices: 51741358--51741422 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
51741348 TTATTATTTT
*
51741358 TAATTTTAAAATATTTTTAAAA
1 TAATTTT-TAATATTTTTAAAA
* *
51741380 TACTTTTTAAAATTTTTAAAA
1 TAATTTTTAATATTTTTAAAA
*
51741401 TAAATTTTT-GTATTTATTAAAA
1 T-AATTTTTAATATTT-TTAAAA
51741423 AATGGGCAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATTTTTAATATTTTTAAAA
Found at i:51742055 original size:8 final size:8
Alignment explanation
Indices: 51742042--51742067 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
51742032 ATTATCATTG
51742042 TTTTTTAT
1 TTTTTTAT
51742050 TTTTTTAT
1 TTTTTTAT
51742058 TTTTTTAT
1 TTTTTTAT
51742066 TT
1 TT
51742068 ATATTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:51751385 original size:21 final size:21
Alignment explanation
Indices: 51751322--51751394 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 21
51751312 CAGAAATCTC
*
51751322 CCCTCGTTCTTGCTGGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
* * *
51751343 CCCT--TGTTTACTGGTTTGT
1 CCCTCGTTTTTGCTGGTTTCT
*
51751362 CCCTCGTTTTTGCTAGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
*
51751383 CCCCTCTTTTTT
1 -CCCTCGTTTTT
51751395 ACTTTGTTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 15 0.38
21 15 0.38
22 10 0.25
ACGTcount: A:0.03, C:0.30, G:0.15, T:0.52
Consensus pattern (21 bp):
CCCTCGTTTTTGCTGGTTTCT
Found at i:51753902 original size:13 final size:12
Alignment explanation
Indices: 51753878--51753908 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
51753868 TATTGTTGAT
51753878 AATGGGAATGGG
1 AATGGGAATGGG
51753890 AATGGGAAATGGG
1 AATGGG-AATGGG
51753903 AATGGG
1 AATGGG
51753909 TATTGCATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (12 bp):
AATGGGAATGGG
Found at i:51753924 original size:6 final size:6
Alignment explanation
Indices: 51753878--51753908 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
51753868 TATTGTTGAT
51753878 AATGGG AATGGG AATGGG AAATGGG AATGGG
1 AATGGG AATGGG AATGGG -AATGGG AATGGG
51753909 TATTGCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
AATGGG
Found at i:51753990 original size:60 final size:59
Alignment explanation
Indices: 51753915--51754107 Score: 214
Period size: 60 Copynumber: 3.3 Consensus size: 59
51753905 TGGGTATTGC
*
51753915 ATGGGAATGGAAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATCGATGGAAAAGGGGAG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAAT-GATGGAAAAGGGGAG
* * * * * * *
51753975 ATGGGAATGGGAAATGGGAGAACGGCACAGTGGAA-TGGGAAAT--TGG-AATGGGTATTG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAAAGGGGA--G
* * *
51754032 CATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
1 -ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAAAGGGGAG
51754092 ATGGGAATGGCGAAAT
1 ATGGGAATGG-GAAAT
51754108 TGCATTGTAT
Statistics
Matches: 106, Mismatches: 19, Indels: 16
0.75 0.13 0.11
Matches are distributed among these distances:
55 6 0.06
56 3 0.03
57 1 0.01
58 30 0.28
59 21 0.20
60 37 0.35
61 3 0.03
62 5 0.05
ACGTcount: A:0.35, C:0.05, G:0.47, T:0.13
Consensus pattern (59 bp):
ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAAAGGGGAG
Found at i:51754107 original size:118 final size:118
Alignment explanation
Indices: 51753888--51754107 Score: 381
Period size: 118 Copynumber: 1.9 Consensus size: 118
51753878 AATGGGAATG
*
51753888 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATGGAAAATGGGAGGAGGGCACGGTGGAAGAG
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATGGAAAATGGGAGGAGGGAACGGTGGAAGAG
51753953 GGGAATCGATGGAAAAGGGGAGATGGGAATGGGAAATGGGAGAACGGCACAGT
66 GGGAATCGATGGAAAAGGGGAGATGGGAATGGGAAATGGGAGAACGGCACAGT
*
51754006 GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGG-AAATGGGAGGAGGGAACGGTGGAAGA
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAAT-GGAAAATGGGAGGAGGGAACGGTGGAAGA
*
51754070 GGGGAAT-GATGGAAGAGGGGAGATGGGAATGGCGAAAT
65 GGGGAATCGATGGAAAAGGGGAGATGGGAATGG-GAAAT
51754108 TGCATTGTAT
Statistics
Matches: 97, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
117 24 0.25
118 71 0.73
119 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.47, T:0.15
Consensus pattern (118 bp):
GGAATGGGAAATGGGAATGGGTATTGCATGGGAATGGAAAATGGGAGGAGGGAACGGTGGAAGAG
GGGAATCGATGGAAAAGGGGAGATGGGAATGGGAAATGGGAGAACGGCACAGT
Found at i:51758031 original size:20 final size:21
Alignment explanation
Indices: 51757985--51758038 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
51757975 ACCATTATTT
*
51757985 CTAATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAA
*
51758006 CCAATCTCACCGCTA-AGTAA
1 CTAATCTCACCGCTACAGTAA
51758026 CTAATCTCACCGC
1 CTAATCTCACCGC
51758039 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.22
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:51758188 original size:17 final size:16
Alignment explanation
Indices: 51758166--51758205 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
51758156 TAAAAAATTA
*
51758166 TATTTTTTTCATCTTTC
1 TATTTTTTT-ACCTTTC
51758183 TATTTTTTTACCTTTC
1 TATTTTTTTACCTTTC
*
51758199 AATTTTT
1 TATTTTT
51758206 ATATTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTTTTACCTTTC
Found at i:51758220 original size:16 final size:16
Alignment explanation
Indices: 51758169--51758220 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 16
51758159 AAAATTATAT
*
51758169 TTTTTTCATCTTTCTAT
1 TTTTTT-ATCTTTCTAA
*
51758186 TTTTTTACCTTTC-AA
1 TTTTTTATCTTTCTAA
*
51758201 -TTTTTATATTTCTAA
1 TTTTTTATCTTTCTAA
51758216 TTTTT
1 TTTTT
51758221 ATGAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 10 0.34
15 3 0.10
16 10 0.34
17 6 0.21
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTATCTTTCTAA
Found at i:51767076 original size:46 final size:45
Alignment explanation
Indices: 51767009--51767166 Score: 248
Period size: 46 Copynumber: 3.5 Consensus size: 45
51766999 TGATCAGTGA
51767009 CAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCT-AGCTACACTTATCTGAT
* *
51767055 CAAGTGAAAAAGTTATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGAT
*
51767101 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATTTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
*
51767146 C-AGGGAC-AAGTGATAAGTGGT
1 CAAGTGACAAAGTGATAAGTGGT
51767167 CATACGTAAG
Statistics
Matches: 105, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
43 14 0.13
44 5 0.05
45 18 0.17
46 67 0.64
47 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (45 bp):
CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
Found at i:51775324 original size:16 final size:15
Alignment explanation
Indices: 51775279--51775326 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
51775269 ATATTAAGAA
51775279 TATT-ATTTAAAATT
1 TATTAATTTAAAATT
*
51775293 TA-AAATTTAAAA-T
1 TATTAATTTAAAATT
51775306 TATTAATGTTAAAATT
1 TATTAAT-TTAAAATT
51775322 TATTA
1 TATTA
51775327 TTAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 13 0.46
15 6 0.21
16 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TATTAATTTAAAATT
Found at i:51786609 original size:31 final size:31
Alignment explanation
Indices: 51786574--51786634 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
51786564 TAACAACCAG
*
51786574 TGACTTCAATAAAACCTATCGAATAGTTCAA
1 TGACTTAAATAAAACCTATCGAATAGTTCAA
* * * *
51786605 TGACTTAAATGAAAGCTTTTGAATAGTTCA
1 TGACTTAAATAAAACCTATCGAATAGTTCA
51786635 GTGATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAACCTATCGAATAGTTCAA
Found at i:51787092 original size:22 final size:23
Alignment explanation
Indices: 51787067--51787109 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51787057 AATTGAATTT
51787067 TTAAA-TCTGAAAAATAAAAGGA
1 TTAAATTCTGAAAAATAAAAGGA
*
51787089 TTAAATTTTGAAAAATAAAAG
1 TTAAATTCTGAAAAATAAAAG
51787110 TAAGAGGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.28
Consensus pattern (23 bp):
TTAAATTCTGAAAAATAAAAGGA
Found at i:51790233 original size:16 final size:15
Alignment explanation
Indices: 51790212--51790244 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
51790202 TTTTTTAGAT
51790212 TAATTTTTATTAAAAA
1 TAATTTTT-TTAAAAA
51790228 TAATTTTTTTAAAAA
1 TAATTTTTTTAAAAA
51790243 TA
1 TA
51790245 TAGTACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTTTTTAAAAA
Found at i:51792734 original size:31 final size:32
Alignment explanation
Indices: 51792696--51792827 Score: 80
Period size: 31 Copynumber: 4.3 Consensus size: 32
51792686 AAAAAAGATT
51792696 AGGTACCAAATTAGA-AAAAAGAGTCAAGTTC
1 AGGTACCAAATTAGACAAAAAGAGTCAAGTTC
* * *** *
51792727 AGGTACCAGATTGGACCCCAA-A---AAGTTT
1 AGGTACCAAATTAGACAAAAAGAGTCAAGTTC
* * * * * *
51792755 AAGTACCAACTTA-AGAAGAAGTGTCAAGTTT
1 AGGTACCAAATTAGACAAAAAGAGTCAAGTTC
* *
51792786 AGGTATCAAATTAGA-AAAAAGTGTCAAGTTC
1 AGGTACCAAATTAGACAAAAAGAGTCAAGTTC
*
51792817 AAGTACCAAAT
1 AGGTACCAAAT
51792828 GTTATATTAA
Statistics
Matches: 73, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
27 3 0.04
28 14 0.19
31 53 0.73
32 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (32 bp):
AGGTACCAAATTAGACAAAAAGAGTCAAGTTC
Found at i:51799092 original size:21 final size:23
Alignment explanation
Indices: 51799059--51799110 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
51799049 TAAAAAAAAG
* *
51799059 TTAAAAAT-TTTATAA-T-TTAT
1 TTAAAAATAATTATAATTATTAA
51799079 TTAAAAATAATTATAATTATTAA
1 TTAAAAATAATTATAATTATTAA
51799102 TTAAAAATA
1 TTAAAAATA
51799111 TTGTACTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 1 0.04
23 12 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAAAATAATTATAATTATTAA
Found at i:51799409 original size:19 final size:20
Alignment explanation
Indices: 51799382--51799430 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
51799372 ATTCAAAATT
*
51799382 TAAATATATGAATTTA-TAA
1 TAAAAATATGAATTTAGTAA
* *
51799401 TAAAAATATTAATTTAGTGA
1 TAAAAATATGAATTTAGTAA
*
51799421 TAAAATTATG
1 TAAAAATATG
51799431 TAAACTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
TAAAAATATGAATTTAGTAA
Found at i:51804540 original size:107 final size:108
Alignment explanation
Indices: 51804330--51804845 Score: 599
Period size: 107 Copynumber: 4.8 Consensus size: 108
51804320 TCTAATTGAT
*
51804330 GCAATATTTAGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTT
1 GCAATATTTTGCGTTTGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTT
* * *
51804394 CAACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAAT-ATG
66 CAACCAAATAGCTAAATATCCTTTTCAAAAATATCAAAATGA-G
* * *
51804437 GCAATATTTTGCGTTTGGAGATTCGAGATAACATGCCCTAAGGTGCTGGG-TGTCGATTTTTCTC
1 GCAATATTTTGCGTTTGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTTG-CGA--TTTCTC
**
51804501 GTTCAACCAAATAGCTAAATATCC-TTTC-AATTTAT-AAAATGAG
63 GTTCAACCAAATAGCTAAATATCCTTTTCAAAAATATCAAAATGAG
* *
51804544 GCAATGTTTTGCGTTTGGAAATTCGA-AGAACGTGCCCTAAGGTACTGGGTTGCGATTTCTCGTT
1 GCAATATTTTGCGTTTGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTT
* * * *
51804608 AAACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAAT-ATG
66 CAACCAAATAGCTAAATATCCTTTTCAAAAATATCAAAATGA-G
* * *
51804651 GCAATGTTTTGCGTTT-GAAGATTCGAGATAACATGCCCTAAGGTGCTGGG-TGTCGATTTTTCT
1 GCAATATTTTGCGTTTGGAA-ATTCGAGAGAACGTGCCCTAAGGTGCTGGGTTG-CGA--TTTCT
*
51804714 CGTTCAACCAAATAGCTAAATATCC-TTTCAAAAGTTAT-AAAATGAG
62 CGTTCAACCAAATAGCTAAATATCCTTTTCAAAA-ATATCAAAATGAG
* * * * * *
51804760 GCAACATTTTGCGTTTGGAAATTCGAG-GAACGTGCTCTAAGGTGTTGGGTTACAATTTCTTGTT
1 GCAATATTTTGCGTTTGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTT
* * *
51804824 TAACCAAATTGTTAAATATCCT
66 CAACCAAATAGCTAAATATCCT
51804846 CTTGAATTTT
Statistics
Matches: 349, Mismatches: 40, Indels: 40
0.81 0.09 0.09
Matches are distributed among these distances:
104 27 0.08
105 4 0.01
106 57 0.16
107 89 0.26
108 71 0.20
109 40 0.11
110 61 0.17
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (108 bp):
GCAATATTTTGCGTTTGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTT
CAACCAAATAGCTAAATATCCTTTTCAAAAATATCAAAATGAG
Found at i:51804709 original size:214 final size:215
Alignment explanation
Indices: 51804330--51804845 Score: 856
Period size: 214 Copynumber: 2.4 Consensus size: 215
51804320 TCTAATTGAT
* *
51804330 GCAATATTTAGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
*
51804395 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGGAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGAAGATT
51804460 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
*
51804525 TTTC-AATTTATAAAATGAG
196 TTTCAAAGTTATAAAATGAG
* * *
51804544 GCAATGTTTTGCGTTTGGAAATTCGAAGAACGTGCCCTAAGGTACTGGGTTGCGATTTCTCGTTA
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
*
51804609 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGAAGATT
51804674 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
51804739 TTTCAAAAGTTATAAAATGAG
196 TTTC-AAAGTTATAAAATGAG
* * * * * * *
51804760 GCAACATTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGTTGGGTTACAATTTCTTGTTT
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
*
51804825 AACCAAATTG-TTAAATATCCT
66 AACCAAATGGCTT-AATATCCT
51804846 CTTGAATTTT
Statistics
Matches: 280, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
214 192 0.69
215 2 0.01
216 86 0.31
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (215 bp):
GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGAAGATT
CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
TTTCAAAGTTATAAAATGAG
Found at i:51810628 original size:18 final size:18
Alignment explanation
Indices: 51810602--51810636 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51810592 TCATCCATGT
*
51810602 TTTGAATGTTAATGTTGC
1 TTTGAATGTTAAGGTTGC
*
51810620 TTTGTATGTTAAGGTTG
1 TTTGAATGTTAAGGTTG
51810637 ATTTTGCATT
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:0.20, C:0.03, G:0.26, T:0.51
Consensus pattern (18 bp):
TTTGAATGTTAAGGTTGC
Found at i:51817615 original size:7 final size:7
Alignment explanation
Indices: 51817603--51817628 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51817593 AAAGCAATTC
51817603 GAGGATA
1 GAGGATA
51817610 GAGGATA
1 GAGGATA
51817617 GAGGATA
1 GAGGATA
51817624 GAGGA
1 GAGGA
51817629 GAAGATCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.46, T:0.12
Consensus pattern (7 bp):
GAGGATA
Found at i:51819470 original size:20 final size:20
Alignment explanation
Indices: 51819431--51819475 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51819421 TATTAAATTG
*
51819431 TTTTATTTATAAGACCATTA
1 TTTTATTTATAAAACCATTA
**
51819451 TTTTATTTATAAAATTATTA
1 TTTTATTTATAAAACCATTA
51819471 TTTTA
1 TTTTA
51819476 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTATTTATAAAACCATTA
Found at i:51819600 original size:12 final size:12
Alignment explanation
Indices: 51819583--51819607 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51819573 TTTTATCGAA
51819583 AAATAAATTTTT
1 AAATAAATTTTT
51819595 AAATAAATTTTT
1 AAATAAATTTTT
51819607 A
1 A
51819608 TTCTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAAATTTTT
Found at i:51819616 original size:26 final size:22
Alignment explanation
Indices: 51819586--51819637 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 22
51819576 TATCGAAAAA
51819586 TAAATTTTTAAATAAATTTTTATTCT
1 TAAATTTTT-AA-AAA-TTTTATT-T
51819612 TAAATTTTTAAAAATTTTATTT
1 TAAATTTTTAAAAATTTTATTT
51819634 TAAA
1 TAAA
51819638 AATAAGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 7 0.27
24 3 0.12
25 2 0.08
26 9 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAATTTTTAAAAATTTTATTT
Found at i:51823770 original size:6 final size:6
Alignment explanation
Indices: 51823759--51823787 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51823749 TTCATATCAC
51823759 TTATAT TTATAT TTATAT TTATAT TTATA
1 TTATAT TTATAT TTATAT TTATAT TTATA
51823788 CAAGAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:51824961 original size:6 final size:6
Alignment explanation
Indices: 51824950--51824979 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
51824940 CTCATCATTA
51824950 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
51824980 AGAGTATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTTTC
Found at i:51828911 original size:3 final size:3
Alignment explanation
Indices: 51828905--51828929 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51828895 TTCCACCACC
51828905 ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT A
51828930 TTAACAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:51840366 original size:18 final size:17
Alignment explanation
Indices: 51840343--51840386 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
51840333 TGCTTTGAAG
*
51840343 TTTTTAATTGTTATAATA
1 TTTTTAATTATT-TAATA
51840361 TTTTTAATTATTTAATA
1 TTTTTAATTATTTAATA
51840378 TATTTTAAT
1 T-TTTTAAT
51840387 AGATTCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTAATTATTTAATA
Found at i:51847469 original size:166 final size:166
Alignment explanation
Indices: 51847195--51847529 Score: 661
Period size: 166 Copynumber: 2.0 Consensus size: 166
51847185 CAAACCGAAA
*
51847195 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCTAATTAGTTCAACTTGTTTACTTCTTT
1 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
51847260 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
66 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
51847325 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
131 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
51847361 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
1 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
51847426 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
66 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
51847491 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
131 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
51847527 TTA
1 TTA
51847530 TTAAACATAC
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 168 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (166 bp):
TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
Found at i:51851653 original size:24 final size:24
Alignment explanation
Indices: 51851626--51851677 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
51851616 TTTTTAAAAG
* **
51851626 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
51851650 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
51851674 ATTT
1 ATTT
51851678 GACTTTAATT
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):
ATTTAGCATTTATGAACATAATAT
Found at i:51858813 original size:21 final size:20
Alignment explanation
Indices: 51858788--51858833 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
51858778 CATAATCATT
51858788 AATAATTAATTACAAATTTTA
1 AATAATT-ATTACAAATTTTA
* * *
51858809 AATAATTTTTACAACTTTTT
1 AATAATTATTACAAATTTTA
51858829 AATAA
1 AATAA
51858834 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATTATTACAAATTTTA
Found at i:51865403 original size:3 final size:3
Alignment explanation
Indices: 51865395--51865426 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51865385 GTAGATCATT
51865395 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
51865427 GCAAATGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51872883 original size:28 final size:28
Alignment explanation
Indices: 51872842--51872911 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
51872832 AGTATTAATA
* * *
51872842 ATTTTATAT-TTTTTTACACTTTTCTAT
1 ATTTTAAATATTTTTAACAATTTTCTAT
* *
51872869 ATTTTTAAATATTTTTAATAATTTTCTGT
1 A-TTTTAAATATTTTTAACAATTTTCTAT
51872898 ATTTTAAA-ATTTTT
1 ATTTTAAATATTTTT
51872912 GTATATTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 7 0.19
28 14 0.39
29 15 0.42
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTTTAAATATTTTTAACAATTTTCTAT
Found at i:51872904 original size:18 final size:16
Alignment explanation
Indices: 51872881--51872915 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
51872871 TTTTAAATAT
51872881 TTTTAATAATTTTCTGTA
1 TTTTAA-AATTTT-TGTA
51872899 TTTTAAAATTTTTGTA
1 TTTTAAAATTTTTGTA
51872915 T
1 T
51872916 ATTGAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTTAAAATTTTTGTA
Found at i:51889161 original size:25 final size:25
Alignment explanation
Indices: 51889133--51889180 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
51889123 TACAGCTCTT
51889133 ATGAGCTTACC-GTTACATGGCTCAC
1 ATGAGCTT-CCTGTTACATGGCTCAC
*
51889158 ATGAGCTTCCTGTTATATGGCTC
1 ATGAGCTTCCTGTTACATGGCTC
51889181 GAAAGAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGCTCAC
Found at i:51896378 original size:21 final size:23
Alignment explanation
Indices: 51896336--51896380 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
51896326 CTGCCACCGC
*
51896336 CTCTGACCAGCGCCGCACCTGCT
1 CTCTGACCAGCGCCGCAACTGCT
*
51896359 CTCTG-CCATCGCC-CAACTGCT
1 CTCTGACCAGCGCCGCAACTGCT
51896380 C
1 C
51896381 ACCTGCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.13, C:0.49, G:0.18, T:0.20
Consensus pattern (23 bp):
CTCTGACCAGCGCCGCAACTGCT
Found at i:51898137 original size:110 final size:108
Alignment explanation
Indices: 51897938--51898234 Score: 470
Period size: 110 Copynumber: 2.7 Consensus size: 108
51897928 TACTTCAAAA
*
51897938 TTAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAAGGTG
* * * *
51898003 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
65 CTGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC-CC
* *
51898049 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGC
51898114 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCC
66 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCC
*
51898157 TTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTG
1 TT-AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTG
*
51898221 CTGGGTTTCGATTT
65 CTGGGTGTCGATTT
51898235 CTCATTTATC
Statistics
Matches: 174, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
108 31 0.18
109 45 0.26
110 64 0.37
111 34 0.20
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (108 bp):
TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCC
Found at i:51910375 original size:753 final size:753
Alignment explanation
Indices: 51908929--51911191 Score: 4454
Period size: 753 Copynumber: 3.0 Consensus size: 753
51908919 CAATGTCACT
51908929 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
1 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
51908994 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
66 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
51909059 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
131 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
51909124 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACAGTCACAT
196 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACAGTCACAT
51909189 ATACTTCTGAGGTTAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
261 ATACTTCTGAGGTTAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
51909254 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
326 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
51909319 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCAATTAATTCTTTCTTTAA
391 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCAATTAATTCTTTCTTTAA
51909384 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
456 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
51909449 CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
521 CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
51909514 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTTATAAG
586 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTTATAAG
51909579 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
651 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
51909644 AAACCTCAAATTTATCCTACACATAAATGCACGTGACA
716 AAACCTCAAATTTATCCTACACATAAATGCACGTGACA
51909682 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
1 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
51909747 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
66 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
51909812 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
131 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
51909877 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACAGTCACAT
196 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACAGTCACAT
51909942 ATACTTCTGAGGTTAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
261 ATACTTCTGAGGTTAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
*
51910007 GCTATTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
326 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
51910072 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCAATTAATTCTTTCTTTAA
391 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCAATTAATTCTTTCTTTAA
51910137 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
456 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
51910202 CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
521 CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
51910267 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTTATAAG
586 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTTATAAG
51910332 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
651 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
51910397 AAACCTCAAATTTATCCTACACATAAATGCACGTGACA
716 AAACCTCAAATTTATCCTACACATAAATGCACGTGACA
51910435 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
1 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
51910500 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
66 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
*
51910565 AATAAATACCAGAAAAAGACATGGCAATGTCAAACATAACCCAAACAAACCAGTAATTCTTTCAT
131 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
*
51910630 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACGGTCACAT
196 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACAGTCACAT
*
51910695 ATACTTCTGAGGATAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
261 ATACTTCTGAGGTTAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
51910760 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
326 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
*
51910825 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCGATTAATTCTTTCTTTAA
391 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCAATTAATTCTTTCTTTAA
51910890 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
456 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
51910955 CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
521 CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
*
51911020 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTCATAAG
586 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTTATAAG
* *
51911085 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTACTGATATGGGGGGTGAGTCTAGT
651 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
51911150 AAACCTCAAATTTATCCTACACATAAATGCACGTGACA
716 AAACCTCAAATTTATCCTACACATAAATGCACGTGACA
51911188 CATA
1 CATA
51911192 CTATCACAAA
Statistics
Matches: 1501, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
753 1501 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (753 bp):
CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACAGTCACAT
ATACTTCTGAGGTTAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCAATTAATTCTTTCTTTAA
ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTTATAAG
CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
AAACCTCAAATTTATCCTACACATAAATGCACGTGACA
Found at i:51915256 original size:50 final size:49
Alignment explanation
Indices: 51915184--51915280 Score: 140
Period size: 50 Copynumber: 2.0 Consensus size: 49
51915174 TTAACTATTA
* * *
51915184 TCATTCGATACACGTAGCAGCCTTCACATAGTACTATACATGTGACCTT
1 TCATTCGATACACGTAGCAGCCTACACATAGTACTACACACGTGACCTT
* *
51915233 TCATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACC
1 TCATT-CGATACACGTAGCAGCCTACACATAGTACTACACACGTGACC
51915281 ATCACTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 5 0.12
50 37 0.88
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (49 bp):
TCATTCGATACACGTAGCAGCCTACACATAGTACTACACACGTGACCTT
Found at i:51931020 original size:49 final size:49
Alignment explanation
Indices: 51930923--51931020 Score: 108
Period size: 49 Copynumber: 2.0 Consensus size: 49
51930913 AGTCATTTAA
* * * * * *
51930923 CGGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATAATAGTCATAAT
1 CGGGAAGCTCATGAGAGCCATATAACGAGAAGCTTAGAAGAGCCATAAT
* *
51930972 CGGGAAGCTCATGAGAGCC-TATAACGAGTAGCTTCGAAGAGCCAATAAT
1 CGGGAAGCTCATGAGAGCCATATAACGAGAAGCTTAGAAGAGCC-ATAAT
51931021 TAGGAGCTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
48 17 0.43
49 23 0.57
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (49 bp):
CGGGAAGCTCATGAGAGCCATATAACGAGAAGCTTAGAAGAGCCATAAT
Found at i:51933960 original size:49 final size:49
Alignment explanation
Indices: 51933844--51933966 Score: 144
Period size: 47 Copynumber: 2.5 Consensus size: 49
51933834 AATGTATATA
* * * *
51933844 TATAAATATATTTGTTATGCATGAAAATGAGTTAATCTATAGCTAAATG
1 TATATATATATTTGTTATGCATGAAAATGAATTAAACTATAGCCAAATG
* * *
51933893 TATATGTA-A-TTGTTATGCA-GAGAAATGAATTAAACTATGGCCGAATG
1 TATATATATATTTGTTATGCATGA-AAATGAATTAAACTATAGCCAAATG
51933940 TATATATATATTTGTTATGCATTGAAA
1 TATATATATATTTGTTATGCA-TGAAA
51933967 TAAATTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
46 2 0.03
47 37 0.61
48 2 0.03
49 16 0.26
50 2 0.03
51 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (49 bp):
TATATATATATTTGTTATGCATGAAAATGAATTAAACTATAGCCAAATG
Found at i:51934136 original size:41 final size:41
Alignment explanation
Indices: 51934077--51934233 Score: 233
Period size: 41 Copynumber: 3.8 Consensus size: 41
51934067 TTTTGTAAGT
51934077 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* *
51934118 TTGGGCTTTATGCCTAGCAGGCTCTGTGTCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* *
51934159 TCAGGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* * * * *
51934200 TCGGGCTTTGTGTCTAGAAGGCTTTATGCCGGTG
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTG
51934234 TTTTATATAA
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
Found at i:51934247 original size:82 final size:82
Alignment explanation
Indices: 51934080--51934252 Score: 220
Period size: 82 Copynumber: 2.1 Consensus size: 82
51934070 TGTAAGTTCG
* * * *
51934080 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATTGGGCTTTATGCCTAGCAGGCTCTGT
1 GGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTATCGGGCTTTATGCCTAGAAGGCTCTAT
* * *
51934145 GTCGGTGAAATGTATCA
66 GCCGGTGAAATATATAA
* * *
51934162 GGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTATCGGGCTTTGTGTCTAGAAGGCTTTAT
1 GGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTATCGGGCTTTATGCCTAGAAGGCTCTAT
***
51934227 GCCGGTGTTTTATATAA
66 GCCGGTGAAATATATAA
*
51934244 GGCTCTATG
1 GGCTTTATG
51934253 TTTAACAAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.34
Consensus pattern (82 bp):
GGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTATCGGGCTTTATGCCTAGAAGGCTCTAT
GCCGGTGAAATATATAA
Found at i:51937981 original size:18 final size:18
Alignment explanation
Indices: 51937958--51937993 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51937948 ACTATTTTAG
*
51937958 ATCAAGAAAAAGTGAAAA
1 ATCAAGAAAAAGAGAAAA
*
51937976 ATCAAGGAAAAGAGAAAA
1 ATCAAGAAAAAGAGAAAA
51937994 TTACAGAATA
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:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (18 bp):
ATCAAGAAAAAGAGAAAA
Found at i:51940784 original size:25 final size:24
Alignment explanation
Indices: 51940705--51940785 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
51940695 TTTGTGAACC
* *
51940705 TCCCATTAAAGGCTTTTTGGAGCT
1 TCCCGTTAAAGGCTCTTTGGAGCT
* *
51940729 TCCCGTT-AAGTTCTCTTCGGAGCT
1 TCCCGTTAAAG-GCTCTTTGGAGCT
*
51940753 ACCCGTTAAAGGCTCTTTGTGAGCT
1 TCCCGTTAAAGGCTCTTTG-GAGCT
*
51940778 TCTCGTTA
1 TCCCGTTA
51940786 CATGCTCATA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 3 0.07
24 28 0.62
25 14 0.31
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (24 bp):
TCCCGTTAAAGGCTCTTTGGAGCT
Found at i:51943621 original size:48 final size:48
Alignment explanation
Indices: 51943563--51943684 Score: 181
Period size: 53 Copynumber: 2.4 Consensus size: 48
51943553 TTTTTCAAAA
*
51943563 AAATTGTTTTTACATATATTGATATGTATTAATAAATTTTTATATTTT
1 AAATTATTTTTACATATATTGATATGTATTAATAAATTTTTATATTTT
51943611 AAATTATTTTTACATATATTGCAATGATATGTATTAATAAATTTTTATATTTT
1 AAATTATTTTTACATATA-T----TGATATGTATTAATAAATTTTTATATTTT
*
51943664 AAATTATTCTTACATATATTG
1 AAATTATTTTTACATATATTG
51943685 CAATGATTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
48 19 0.28
49 1 0.01
52 1 0.01
53 46 0.69
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (48 bp):
AAATTATTTTTACATATATTGATATGTATTAATAAATTTTTATATTTT
Found at i:51943654 original size:53 final size:53
Alignment explanation
Indices: 51943582--51943691 Score: 211
Period size: 53 Copynumber: 2.1 Consensus size: 53
51943572 TTACATATAT
*
51943582 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
1 TGATATGTATTAATAAATTTTTATATTTTAAATTATTCTTACATATATTGCAA
51943635 TGATATGTATTAATAAATTTTTATATTTTAAATTATTCTTACATATATTGCAA
1 TGATATGTATTAATAAATTTTTATATTTTAAATTATTCTTACATATATTGCAA
51943688 TGAT
1 TGAT
51943692 TTATTTATAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (53 bp):
TGATATGTATTAATAAATTTTTATATTTTAAATTATTCTTACATATATTGCAA
Found at i:51945440 original size:25 final size:24
Alignment explanation
Indices: 51945402--51945450 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
51945392 GTGATGGATT
51945402 TTTATTTTATTTAACATTAATATA
1 TTTATTTTATTTAACATTAATATA
**
51945426 TTTATATTTATTTAATTTTAATATA
1 TTTAT-TTTATTTAACATTAATATA
51945451 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTATTTTATTTAACATTAATATA
Found at i:51945466 original size:17 final size:18
Alignment explanation
Indices: 51945435--51945473 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
51945425 ATTTATATTT
*
51945435 ATTTAATTTTAATATAAA
1 ATTTAAATTTAATATAAA
*
51945453 ATTTAAATTT-ATATAAT
1 ATTTAAATTTAATATAAA
51945470 ATTT
1 ATTT
51945474 CTAAATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAAATTTAATATAAA
Found at i:51956916 original size:29 final size:29
Alignment explanation
Indices: 51956882--51956979 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 29
51956872 TACATCTTGG
51956882 CCCTAACTTTTTATTATTTACATTTTGAC
1 CCCTAACTTTTTATTATTTACATTTTGAC
* *
51956911 CCCTAATTTTTTATTATTTACAATTTGAC
1 CCCTAACTTTTTATTATTTACATTTTGAC
** * * * *
51956940 CATTAACATTTTACTATTTATATTTTGGC
1 CCCTAACTTTTTATTATTTACATTTTGAC
*
51956969 CCTTAACTTTT
1 CCCTAACTTTT
51956980 CCTAAAATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.26, C:0.18, G:0.04, T:0.52
Consensus pattern (29 bp):
CCCTAACTTTTTATTATTTACATTTTGAC
Found at i:51957560 original size:5 final size:5
Alignment explanation
Indices: 51957552--51957597 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
51957542 ACAACAAAAC
* *
51957552 AGAAA AGAAGA A-AGA AGAGA AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAA-A AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
51957598 AAGAAGACGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 2 0.05
5 33 0.89
6 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:51957721 original size:13 final size:13
Alignment explanation
Indices: 51957703--51957727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51957693 TGGAGACAAA
51957703 AAGAAAGAAAAAG
1 AAGAAAGAAAAAG
51957716 AAGAAAGAAAAA
1 AAGAAAGAAAAA
51957728 AGAAAAAAAA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAG
Found at i:51958010 original size:16 final size:17
Alignment explanation
Indices: 51957983--51958014 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
51957973 AGCCCAAAAT
51957983 AAAAAGAGAAAAAGAAG
1 AAAAAGAGAAAAAGAAG
51958000 AAAAAGA-AAAAAGAA
1 AAAAAGAGAAAAAGAA
51958015 AAGTCTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAAAAGAAG
Found at i:51960789 original size:41 final size:41
Alignment explanation
Indices: 51960744--51960923 Score: 279
Period size: 41 Copynumber: 4.4 Consensus size: 41
51960734 GGCTCGATGC
* *
51960744 CTAGCAGGTTTAATGCTGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* * *
51960785 CTAGCAGGCTTAATGCCAGTGAGTTATTTCAGGCTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* *
51960826 CTAGTAGGTTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
51960867 CTAACAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
51960908 CTAGCAGGCTTCATGC
1 CTAGCAGGCTTAATGC
51960924 TAGTGTATTA
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
Found at i:51960945 original size:82 final size:82
Alignment explanation
Indices: 51960744--51960959 Score: 229
Period size: 82 Copynumber: 2.6 Consensus size: 82
51960734 GGCTCGATGC
* ** ** * *
51960744 CTAGCAGGTTTAATGCTGGTGAATTATTTCAGACTTTATGTCTAGCAGGCTTAATGCCAGTGAGT
1 CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
*
51960809 TATTTCAGGCTTTATGT
66 TATTTCAGACTTTATGT
* * * ** *
51960826 CTAGTAGGTTTAATGCCGGTGAATTATTTCAGACTTTATGTCTAACAGGCTTAATGCCGGTGAAT
1 CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
51960891 TATTTCAGACTTTATGT
66 TATTTCAGACTTTATGT
* * * * *
51960908 CTAGCAGGCTTCATGCTAGTGTATTAAAGT-AGGCTTTA-GACCTAACAGGCTT
1 CTAGCAGGCTTAATGCCAGTGAATT-AAGTCAGACTTTATG-TCTAACAGGCTT
51960960 CGTGTCGGTG
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 1 0.01
82 113 0.97
83 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (82 bp):
CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
TATTTCAGACTTTATGT
Found at i:51969314 original size:12 final size:12
Alignment explanation
Indices: 51969292--51969325 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
51969282 AAAATATACA
51969292 ACTCT-TTTCTT
1 ACTCTATTTCTT
51969303 ACTCTATTTCTT
1 ACTCTATTTCTT
*
51969315 ACTCAATTTCT
1 ACTCTATTTCT
51969326 ATCATTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (12 bp):
ACTCTATTTCTT
Found at i:51978515 original size:76 final size:76
Alignment explanation
Indices: 51978299--51978904 Score: 772
Period size: 76 Copynumber: 7.9 Consensus size: 76
51978289 ATTGTTTTCT
* *
51978299 TTTTTCGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCGGGTCGCACGTCGA
1 TTTTT-GTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGA
51978364 GGTATTTTCCAA
65 GGTATTTTCCAA
* * * *
51978376 TTTCTT-TTTTTCAAAAAAATTAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGAT-GTACGC
1 TTT-TTGTTTTTC--AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGG-TCGCACGC
51978439 CGAGGTATTTTCCAA
62 CGAGGTATTTTCCAA
* * ** *
51978454 TTTTTGTTTTTTAAAGATCAACTCATAATCCGATAATTGAGTTGAGCCTCAGGTCGCACGCCGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
51978519 TTA-TTTCCAA
66 GTATTTTCCAA
* * * *
51978529 TTTCTATTTTTCAAAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
1 TTTTTGTTTTTC--AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
51978594 AGGTATTTTCCAA
64 AGGTATTTTCCAA
* * * *
51978607 TTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGAGAGTTGAGCCTCAGTTCGCACGCCGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
51978672 TTATTTT-CAA
66 GTATTTTCCAA
* * * *
51978682 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCACGGCAAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
51978747 GTACTTTCCAA
66 GTATTTTCCAA
* * * * * * *
51978758 TTTCTGTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTAAGCTTTGGGTCGCACACTGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
51978823 CTATTTT-CAA
66 GTATTTTCCAA
* * *
51978833 TTTTTGTTTTTCAAAGGTCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCAAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
51978898 ATATTTT
66 GTATTTT
51978905 TTTTAAAATT
Statistics
Matches: 454, Mismatches: 65, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
75 146 0.32
76 170 0.37
77 54 0.12
78 83 0.18
79 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (76 bp):
TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
GTATTTTCCAA
Found at i:51978770 original size:151 final size:152
Alignment explanation
Indices: 51978301--51978904 Score: 793
Period size: 151 Copynumber: 4.0 Consensus size: 152
51978291 TGTTTTCTTT
* *
51978301 TTTC-GTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCGGGTCGCACGTCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * * *
51978365 GTATTTTCCAATTTCTTTTTTTCAAAAAAATTAACTCATAATCCGAGAAGTGAGTTGAGCCTCGG
66 TTATTTT-CAATTTCTGTTTTTC-AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGG
* *
51978430 GAT-GTACGCCGAGGTATTTTCCAA
129 G-TCGCACGCCAAGGTATTTTCCAA
* * * ** *
51978454 TTTTTGTTTTTTAAAGATCAACTCATAATCCGATAATTGAGTTGAGCCTCAGGTCGCACGCCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * *
51978519 TTATTTCCAATTTCTATTTTTCAAAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGG
66 TTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGG
*
51978584 TCGCACGCCGAGGTATTTTCCAA
130 TCGCACGCCAAGGTATTTTCCAA
* * * * *
51978607 TTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGAGAGTTGAGCCTCAGTTCGCACGCCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* *
51978672 TTATTTTCAATTTCTGTTTTTC-AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGT
66 TTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
* *
51978736 CGCACGGCAAGGTACTTTCCAA
131 CGCACGCCAAGGTATTTTCCAA
* * ** * *
51978758 TTTCTGTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTAAGCTTTGGGTCGCACACTGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * ** *
51978823 CTATTTTCAATTTTTGTTTTTC-AAAGGTCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGT
66 TTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
*
51978887 CGCACGCCAAGATATTTT
131 CGCACGCCAAGGTATTTT
51978905 TTTTAAAATT
Statistics
Matches: 400, Mismatches: 49, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
151 186 0.47
152 1 0.00
153 155 0.39
154 58 0.14
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (152 bp):
TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
TTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
CGCACGCCAAGGTATTTTCCAA
Found at i:51979415 original size:23 final size:23
Alignment explanation
Indices: 51979389--51979433 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
51979379 TAGGGATTTG
*
51979389 GCCCATTAGTGTTTTTGTTTTTA
1 GCCCATTAGTATTTTTGTTTTTA
51979412 GCCCATTAGTATTTTTGTTTTT
1 GCCCATTAGTATTTTTGTTTTT
51979434 GTTTTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (23 bp):
GCCCATTAGTATTTTTGTTTTTA
Found at i:51979589 original size:29 final size:29
Alignment explanation
Indices: 51979501--51979581 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
51979491 AATACAAAAA
*
51979501 TTTACTAA-TTACATTTTTGCCCTTAACTT
1 TTTAC-AATTTACATTTTGGCCCTTAACTT
* * * *
51979530 TTTACTATTTACATTTTGACTCTTAATTT
1 TTTACAATTTACATTTTGGCCCTTAACTT
*
51979559 TTTACAATTTATATTTTGGCCCT
1 TTTACAATTTACATTTTGGCCCT
51979582 CAAGTTTTCC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.54
Consensus pattern (29 bp):
TTTACAATTTACATTTTGGCCCTTAACTT
Found at i:51980315 original size:20 final size:20
Alignment explanation
Indices: 51980305--51980342 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51980295 AAGTAGATAT
51980305 AAAAAAGAAAAAGAAAAAAG
1 AAAAAAGAAAAAGAAAAAAG
*
51980325 AAAAAAGAAAAATAAAAA
1 AAAAAAGAAAAAGAAAAA
51980343 TAAAAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAAAAGAAAAAAG
Found at i:51980317 original size:6 final size:6
Alignment explanation
Indices: 51980306--51980351 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
51980296 AGTAGATATA
* *
51980306 AAAAAG AAAAAG AAAAAAG AAAAAAG AAAAAT AAAAAT AAAAAG AA
1 AAAAAG AAAAAG -AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AA
51980352 TCAGCCGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 24 0.65
7 13 0.35
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:51980322 original size:7 final size:7
Alignment explanation
Indices: 51980305--51980336 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
51980295 AAGTAGATAT
51980305 AAAAAAG
1 AAAAAAG
51980312 -AAAAAG
1 AAAAAAG
51980318 AAAAAAG
1 AAAAAAG
51980325 AAAAAAG
1 AAAAAAG
51980332 AAAAA
1 AAAAA
51980337 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:51980341 original size:13 final size:13
Alignment explanation
Indices: 51980303--51980348 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
51980293 AAAAGTAGAT
51980303 ATAAAAAAGAAAA
1 ATAAAAAAGAAAA
*
51980316 AGAAAAAAGAAAA
1 ATAAAAAAGAAAA
*
51980329 A-AGAAAAATAAAA
1 ATA-AAAAAGAAAA
51980342 ATAAAAA
1 ATAAAAA
51980349 GAATCAGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 1 0.03
13 27 0.93
14 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.07
Consensus pattern (13 bp):
ATAAAAAAGAAAA
Found at i:51980625 original size:16 final size:17
Alignment explanation
Indices: 51980599--51980631 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
51980589 ACCCAAAATA
51980599 AAAAGAGAAAAAGAAAG
1 AAAAGAGAAAAAGAAAG
51980616 AAAA-AGAAAAAGAAAG
1 AAAAGAGAAAAAGAAAG
51980632 GGCCCGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAGAAAAAGAAAG
Found at i:51981690 original size:3 final size:3
Alignment explanation
Indices: 51981682--51981715 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
51981672 GAAAGAGAGA
51981682 AAG AAG AAG AA- AAG AAG -AG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
51981716 GAGAGGGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:51981695 original size:11 final size:11
Alignment explanation
Indices: 51981681--51981714 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
51981671 CGAAAGAGAG
51981681 AAAGAAGAAGA
1 AAAGAAGAAGA
51981692 AAAGAAG-AGA
1 AAAGAAGAAGA
51981702 AGAAGAAGAAGA
1 A-AAGAAGAAGA
51981714 A
1 A
51981715 GGAGAGGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 13 0.62
12 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAGA
Found at i:51981704 original size:19 final size:19
Alignment explanation
Indices: 51981673--51981711 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
51981663 CCCCTAGCCG
51981673 AAAGAGAGAAAGAAGAAGA
1 AAAGAGAGAAAGAAGAAGA
51981692 AAAGA-AGAGAAGAAGAAGA
1 AAAGAGAGA-AAGAAGAAGA
51981711 A
1 A
51981712 GAAGGAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAGAGAGAAAGAAGAAGA
Found at i:51981749 original size:4 final size:4
Alignment explanation
Indices: 51981740--51981768 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
51981730 GGAAGGGAAT
51981740 AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
51981769 GCAAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:51988648 original size:12 final size:12
Alignment explanation
Indices: 51988629--51988659 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51988619 ATTCTATTTG
51988629 AAAATAACAATA
1 AAAATAACAATA
*
51988641 ACAATAACAATA
1 AAAATAACAATA
51988653 AAAATAA
1 AAAATAA
51988660 ATTTTCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAACAATA
Found at i:51988681 original size:15 final size:15
Alignment explanation
Indices: 51988661--51988689 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51988651 TAAAAATAAA
51988661 TTTTCTTTCTTTCTC
1 TTTTCTTTCTTTCTC
51988676 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
51988690 TCTCTTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTTCTTTCTC
Found at i:51988708 original size:23 final size:19
Alignment explanation
Indices: 51988662--51988709 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
51988652 AAAAATAAAT
*
51988662 TTTCTTTCTTTCTCTTTTC
1 TTTCTTTCTTTCTCTTCTC
51988681 TTTCTTTC-TTCTCTTCTC
1 TTTCTTTCTTTCTCTTCTC
*
51988699 TCTCTCTTCTT
1 TTTCT-TTCTT
51988710 CTGCTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.52
19 11 0.44
20 1 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTCTTTCTCTTCTC
Found at i:51989893 original size:19 final size:19
Alignment explanation
Indices: 51989869--51989919 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
51989859 AATTAAACCA
51989869 TATTATATATTTAAATACT
1 TATTATATATTTAAATACT
* *
51989888 TATTATTTAGTTT-AATTCT
1 TATTATATA-TTTAAATACT
51989907 T-TTATATATTTAA
1 TATTATATATTTAA
51989920 TAGCAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 14 0.52
20 3 0.11
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTATATATTTAAATACT
Found at i:51995778 original size:23 final size:22
Alignment explanation
Indices: 51995742--51995798 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
51995732 ACTTAAGAGT
51995742 AATTAAAATAATTAAATTCAAAAA
1 AATT-AAATAATTAAATT-AAAAA
* *
51995766 AATTAAATGATTAAATTTAAAA
1 AATTAAATAATTAAATTAAAAA
51995788 AATT-AATAATT
1 AATTAAATAATT
51995799 GAGTGAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 8 0.27
23 12 0.40
24 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AATTAAATAATTAAATTAAAAA
Found at i:51999327 original size:39 final size:40
Alignment explanation
Indices: 51999268--51999357 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
51999258 AAAAATTATA
* * * * *
51999268 TTTAATACAATAAAGCATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAATAAAACATTTATTATACTTATGTAGTATTT
*
51999307 TTTAATATAATAAAATATTTATTATACTTATGGTAGTATTT
1 TTTAATATAATAAAACATTTATTATACTTAT-GTAGTATTT
51999348 TTTAATATAA
1 TTTAATATAA
51999358 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 27 0.63
41 16 0.37
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTATTATACTTATGTAGTATTT
Found at i:52000362 original size:2 final size:2
Alignment explanation
Indices: 52000357--52000381 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52000347 AAAAAACCCA
52000357 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
52000382 ATATTCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:52001533 original size:145 final size:144
Alignment explanation
Indices: 52001257--52001522 Score: 315
Period size: 145 Copynumber: 1.8 Consensus size: 144
52001247 AATATCAATT
* * * * *
52001257 TTTATATCTATATTATTATTTAAATTTGTGACTGAATTGGTGTCATGAATCAACTCGACACTAAT
1 TTTATATCTATATTATCATTTAAATCTGTGACTGAATTGGTGTCACGAATCAACTCAACACTAAC
* ** * *
52001322 TCAATTAAGGAAAGTACTAAAAAAACCAAATTTTAAATGATTCATAAATATTATTATAGGGTTTT
66 TCAATCAAGGAAAGTACT-AAAAAACCAAATAATAAATGATTAATAAATATTATTATAGGCTTTT
52001387 TTGAATTTTCATACA
130 TTGAATTTTCATACA
* * *
52001402 TTTATATCTATATTATCATTT-AA-CTGTGCAGCT-AAGTTGGTGTTACGAGTTAACTCAACACT
1 TTTATATCTATATTATCATTTAAATCTGTG-A-CTGAA-TTGGTGTCACGAATCAACTCAACACT
* * * *
52001464 AACTCAGTCAAGGAAAGTACT-AAAAACTAAATAATAGATGATTAATAACTATTATTATA
63 AACTCAATCAAGGAAAGTACTAAAAAACCAAATAATAAATGATTAATAAATATTATTATA
52001523 ATTTCTTTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
143 36 0.35
144 5 0.05
145 61 0.60
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (144 bp):
TTTATATCTATATTATCATTTAAATCTGTGACTGAATTGGTGTCACGAATCAACTCAACACTAAC
TCAATCAAGGAAAGTACTAAAAAACCAAATAATAAATGATTAATAAATATTATTATAGGCTTTTT
TGAATTTTCATACA
Found at i:52005438 original size:30 final size:31
Alignment explanation
Indices: 52005404--52005464 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
52005394 ATTAAAATAT
**
52005404 TATTATAA-AAGGATTGTAAAGTTGATTTGC
1 TATTATAAGAAGGATTACAAAGTTGATTTGC
*
52005434 TATTATAATGAAGGATTACAAAGTTGGTTTG
1 TATTATAA-GAAGGATTACAAAGTTGATTTG
52005465 TGCTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
32 18 0.69
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (31 bp):
TATTATAAGAAGGATTACAAAGTTGATTTGC
Found at i:52014173 original size:23 final size:22
Alignment explanation
Indices: 52014128--52014174 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
52014118 CGAAAATATA
*
52014128 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
52014150 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
52014172 TTA
1 TTA
52014175 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:52014301 original size:35 final size:35
Alignment explanation
Indices: 52014255--52014377 Score: 149
Period size: 35 Copynumber: 3.3 Consensus size: 35
52014245 ATATAATTTG
52014255 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAATTAATACAATTAACAATTA
* * *
52014290 ATAATTTTACTAACAAAATATTAGTAACAATTAATAATTTG
1 ATAATTTTACTAAC---A-ATTAAT-ACAATTAACAA-TTA
52014331 ATAATTTTAGC-AACAATTAATACAATTAACAATTA
1 ATAATTTTA-CTAACAATTAATACAATTAACAATTA
52014366 ATAATTTTACTA
1 ATAATTTTACTA
52014378 GCAAAATGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
34 1 0.01
35 26 0.35
36 10 0.14
37 5 0.07
38 2 0.03
39 5 0.07
40 10 0.14
41 14 0.19
42 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (35 bp):
ATAATTTTACTAACAATTAATACAATTAACAATTA
Found at i:52014323 original size:33 final size:34
Alignment explanation
Indices: 52014255--52014329 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
52014245 ATATAATTTG
*
52014255 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
**
52014290 ATAATTTTACTAACAA-AATATTAGTAACAATTA
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
52014323 ATAATTT
1 ATAATTT
52014330 GATAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 21 0.57
35 16 0.43
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (34 bp):
ATAATTTTACTAACAATAATACAAGTAACAATTA
Found at i:52014338 original size:76 final size:76
Alignment explanation
Indices: 52014247--52014389 Score: 252
Period size: 76 Copynumber: 1.9 Consensus size: 76
52014237 ATAATTTGAT
52014247 ATAATTTGATAATTTTA-CTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATAT
1 ATAATTTGATAATTTTAGC-AACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATAT
52014311 TAGTAACAATTA
65 TAGTAACAATTA
* *
52014323 ATAATTTGATAATTTTAGCAACAATTAATACAATTAACAATTAATAATTTTACTAGCAAAATGTT
1 ATAATTTGATAATTTTAGCAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATATT
52014388 AG
66 AG
52014390 ATTTTATAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
76 63 0.98
77 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (76 bp):
ATAATTTGATAATTTTAGCAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATATT
AGTAACAATTA
Found at i:52017808 original size:19 final size:19
Alignment explanation
Indices: 52017781--52017856 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
52017771 TTTATACATG
52017781 TACATATTTATATTTTATA
1 TACATATTTATATTTTATA
* *
52017800 TATATATTTCTATAATTTATA
1 TACATA-TT-TATATTTTATA
* * *
52017821 TACATATCTATATATATCTA
1 TACATATTTATAT-TTTATA
* *
52017841 TACACATTTTTATTTT
1 TACATATTTATATTTT
52017857 CACGAATCTA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
19 11 0.26
20 17 0.40
21 15 0.35
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (19 bp):
TACATATTTATATTTTATA
Found at i:52017834 original size:21 final size:19
Alignment explanation
Indices: 52017781--52017832 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
52017771 TTTATACATG
*
52017781 TACATATTTATATTTTATA
1 TACATATTTATAATTTATA
*
52017800 TATATATTTCTATAATTTATA
1 TACATA-TT-TATAATTTATA
*
52017821 TACATATCTATA
1 TACATATTTATA
52017833 TATATCTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 15 0.56
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATTTATAATTTATA
Found at i:52019381 original size:25 final size:26
Alignment explanation
Indices: 52019330--52019385 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
52019320 AAAATAAATA
*
52019330 AATAAATAAAAATGGAATGTATATAT
1 AATAAATAAAAATGGAAAGTATATAT
*
52019356 AATAAAGTAAATAT-GAAAGTAT-TAT
1 AATAAA-TAAAAATGGAAAGTATATAT
52019381 AATAA
1 AATAA
52019386 TACTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (26 bp):
AATAAATAAAAATGGAAAGTATATAT
Found at i:52021215 original size:44 final size:44
Alignment explanation
Indices: 52021133--52021895 Score: 305
Period size: 44 Copynumber: 16.9 Consensus size: 44
52021123 TTTTAATCCA
* * ** *
52021133 CTCCATTGCAACTTTAGGGAGAT-AGAATTAATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAG-ATTGGTATCTTCAATCTG
* * *
52021177 CTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * *
52021221 CTCCACTGCAAC-T-ATGGAGATAAGGTTGGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAATCTG
* ** * **
52021264 CTCCACTGTAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATAAG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTATCTTCAATCTG
* * * * * * *
52021314 AC-CTACCGCAACTTTAGAGG-CATAGGATT--CATCGTTTTAATCTG
1 -CTCCACTGCAACTTCAG-GGAGATAAGATTGGTATC--TTCAATCTG
* * * ** *
52021358 CTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * * *
52021402 TTCCGCTGTAACTTCAGGGTGATAAGATTGGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * * *
52021446 CTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCAATCTG
** *
52021491 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTATCTTCAATCTG
* * * * *
52021541 AC-CTACTGCAACTTCAGAGG-CATAGGATT--TATCGCTTTAATCCG
1 -CTCCACTGCAACTTCAG-GGAGATAAGATTGGTAT--CTTCAATCTG
* * * * ** * *
52021585 CTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * *
52021629 CTCCGCTGTAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAATCTG
* ** ** * *
52021674 CTTCACTGCAACTTCAATGAGATAAGACTTGTTATGGTAGATTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTATCTTCAATCTG
* * * * ** * **
52021724 AC-CTATTGCAGCTTCAGAGG-CATTGGATT--TATCATTTTAATCCA
1 -CTCCACTGCAACTTCAG-GGAGATAAGATTGGTATC--TTCAATCTG
* * ** * * *
52021768 CTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTTAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * *
52021812 CTCCACTGCAACTTCTGGGAGATAAGATTAGTATCTTCAACCTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* *
52021856 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTTCA
1 CTCCACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCA
52021896 GTCTTGATCT
Statistics
Matches: 531, Mismatches: 139, Indels: 97
0.69 0.18 0.13
Matches are distributed among these distances:
42 19 0.04
43 31 0.06
44 287 0.54
45 95 0.18
46 7 0.01
49 1 0.00
50 77 0.15
51 14 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
Done.