Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 158 of 343
Found at i:52362590 original size:22 final size:22
Alignment explanation
Indices: 52362562--52362614 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
52362552 AATCATTTCT
52362562 ATTTTTATATGTTTTTTTTATA
1 ATTTTTATATGTTTTTTTTATA
**
52362584 ATTTTTAGGTGTTTTTTTTATA
1 ATTTTTATATGTTTTTTTTATA
*
52362606 ATTGTTATA
1 ATTTTTATA
52362615 AAAATAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (22 bp):
ATTTTTATATGTTTTTTTTATA
Found at i:52365700 original size:25 final size:25
Alignment explanation
Indices: 52365671--52365729 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
52365661 TCGGGCTTTG
*
52365671 AACCCAATACTTTATAATTTGAGCC
1 AACCCAATACTTTATAATTTGAGCA
52365696 AACCCAATACTTTATAATTTGAGCA
1 AACCCAATACTTTATAATTTGAGCA
52365721 AACCCAATA
1 AACCCAATA
52365730 TTTGTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.29
Consensus pattern (25 bp):
AACCCAATACTTTATAATTTGAGCA
Found at i:52365965 original size:19 final size:19
Alignment explanation
Indices: 52365942--52365983 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
52365932 ACATAAATTC
*
52365942 ATTTTTCA-TGTCATTTTT
1 ATTTTTCATTGTCATATTT
*
52365960 ATTTTTCATTTTCATATTT
1 ATTTTTCATTGTCATATTT
52365979 ATTTT
1 ATTTT
52365984 GGAGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTCATTGTCATATTT
Found at i:52368112 original size:27 final size:27
Alignment explanation
Indices: 52368057--52368118 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
52368047 TCGGGACATT
*
52368057 AACACGGGGTAGTCCATCAGGACACTA
1 AACATGGGGTAGTCCATCAGGACACTA
* * * *
52368084 AACGTGGGGTAGTCCATCGGGATAGTA
1 AACATGGGGTAGTCCATCAGGACACTA
52368111 AACATGGG
1 AACATGGG
52368119 AATTTTGTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.32, T:0.18
Consensus pattern (27 bp):
AACATGGGGTAGTCCATCAGGACACTA
Found at i:52369432 original size:46 final size:47
Alignment explanation
Indices: 52369339--52369432 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
52369329 CAAGTGTGTG
52369339 TAAATAATGACCCAATGCTCTCTTTATATAGGGAGAGTTTAGAGAGT
1 TAAATAATGACCCAATGCTCTCTTTATATAGGGAGAGTTTAGAGAGT
*
52369386 TAAATAATGACCCAATGGTCTCTTT-TATAGGGAGAGTTTAGAGAGT
1 TAAATAATGACCCAATGCTCTCTTTATATAGGGAGAGTTTAGAGAGT
52369432 T
1 T
52369433 CAACTGTGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 22 0.48
47 24 0.52
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (47 bp):
TAAATAATGACCCAATGCTCTCTTTATATAGGGAGAGTTTAGAGAGT
Found at i:52369603 original size:20 final size:18
Alignment explanation
Indices: 52369556--52369647 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 18
52369546 CAAGAGAAAC
*
52369556 ATTAAATTAA-ATTTAGT
1 ATTAAATTAATATTTAAT
52369573 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
*
52369593 ATTAAATTAATA--AAAT
1 ATTAAATTAATATTTAAT
*
52369609 ACT--ATTAATA--TAAGT
1 ATTAAATTAATATTTAA-T
52369624 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
52369641 ATTAAAT
1 ATTAAAT
52369648 ACATTAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
14 9 0.15
15 3 0.05
16 6 0.10
17 21 0.35
18 4 0.07
19 3 0.05
20 14 0.23
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:52375454 original size:47 final size:47
Alignment explanation
Indices: 52375376--52375827 Score: 717
Period size: 47 Copynumber: 9.6 Consensus size: 47
52375366 CCCTTCGGGA
* * * * * *
52375376 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52375423 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52375470 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52375517 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52375564 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52375613 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52375660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52375707 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52375756 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52375802 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52375828 CACAATTATC
Statistics
Matches: 377, Mismatches: 24, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
46 31 0.08
47 256 0.68
49 90 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52375614 original size:96 final size:94
Alignment explanation
Indices: 52375376--52375827 Score: 717
Period size: 96 Copynumber: 4.8 Consensus size: 94
52375366 CCCTTCGGGA
* * * * * * * *
52375376 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52375441 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
52375470 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52375535 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
52375564 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
52375629 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
52375660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
52375725 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52375756 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52375820 ATTCACAT
66 TTTCACAT
52375828 CACAATTATC
Statistics
Matches: 334, Mismatches: 20, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
93 16 0.05
94 136 0.41
95 16 0.05
96 166 0.50
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:52375632 original size:143 final size:142
Alignment explanation
Indices: 52375376--52375827 Score: 755
Period size: 143 Copynumber: 3.2 Consensus size: 142
52375366 CCCTTCGGGA
* * * * * * * *
52375376 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
52375439 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
52375504 TCGGCTATTAGGC
131 TCGGC-ATTAGGC
52375517 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52375582 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
52375647 TCGGCCATTAGGC
131 TCGG-CATTAGGC
52375660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52375725 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
52375790 TCGGCATTAGGC
131 TCGGCATTAGGC
* *
52375802 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52375828 CACAATTATC
Statistics
Matches: 295, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
141 47 0.16
142 32 0.11
143 215 0.73
144 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCATTAGGC
Found at i:52377831 original size:56 final size:56
Alignment explanation
Indices: 52377764--52377883 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52377754 TATTAGTTTA
52377764 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
52377820 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
52377876 TTGCCCAT
1 TTGCCCAT
52377884 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:52379199 original size:40 final size:40
Alignment explanation
Indices: 52379154--52379481 Score: 419
Period size: 40 Copynumber: 8.1 Consensus size: 40
52379144 CGAATACACG
* * * *
52379154 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
52379194 ACACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCG-GGACTTAGCCCGGATACA
* * *
52379234 TTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
52379274 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
52379314 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
52379353 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
52379393 TCACTAGCATGAATGCTCTTCGGGATTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATG--C-TC-----TTCGGGACTTAGCCCGGATACA
52379441 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
52379480 TC
1 TC
52379482 GTCGAGACCT
Statistics
Matches: 257, Mismatches: 20, Indels: 23
0.86 0.07 0.08
Matches are distributed among these distances:
39 43 0.17
40 169 0.66
41 2 0.01
42 1 0.00
43 2 0.01
45 2 0.01
46 1 0.00
48 37 0.14
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:52379442 original size:48 final size:48
Alignment explanation
Indices: 52379371--52379465 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
52379361 ACGAATGCTC
52379371 TTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAT
1 TTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAT
52379419 TTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
52379466 CTTAGCCCGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (48 bp):
TTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAT
Found at i:52381782 original size:47 final size:47
Alignment explanation
Indices: 52381704--52382156 Score: 744
Period size: 47 Copynumber: 9.6 Consensus size: 47
52381694 CCCTTCGGGA
* * * * * *
52381704 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52381751 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52381798 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52381845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52381892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52381941 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52381988 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52382035 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52382084 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52382131 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52382157 CACAATTATC
Statistics
Matches: 382, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 290 0.76
49 92 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52381938 original size:96 final size:94
Alignment explanation
Indices: 52381704--52382156 Score: 744
Period size: 96 Copynumber: 4.8 Consensus size: 94
52381694 CCCTTCGGGA
* * * * * * * *
52381704 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52381769 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
52381798 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52381863 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
52381892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
52381957 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
52381988 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
52382053 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52382084 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52382149 ATTCACAT
66 TTTCACAT
52382157 CACAATTATC
Statistics
Matches: 339, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
94 154 0.45
96 185 0.55
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:52381960 original size:143 final size:143
Alignment explanation
Indices: 52381704--52382156 Score: 766
Period size: 143 Copynumber: 3.2 Consensus size: 143
52381694 CCCTTCGGGA
* * * * * * * *
52381704 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
52381767 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
52381832 TCGGCTATTAGGC
131 TCGGCCATTAGGC
52381845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52381910 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
52381975 TCGGCCATTAGGC
131 TCGGCCATTAGGC
52381988 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
52382053 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
52382118 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
52382131 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52382157 CACAATTATC
Statistics
Matches: 296, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 47 0.16
143 249 0.84
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:52384161 original size:56 final size:56
Alignment explanation
Indices: 52384094--52384213 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52384084 TATTAGTTTA
52384094 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
52384150 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
52384206 TTGCCCAT
1 TTGCCCAT
52384214 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:52388064 original size:19 final size:20
Alignment explanation
Indices: 52388040--52388077 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52388030 GGTACCACCA
52388040 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52388059 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52388078 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52388418 original size:93 final size:93
Alignment explanation
Indices: 52388307--52388477 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
52388297 GCCCCTAAGT
* * * *
52388307 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
52388372 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
52388400 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
52388465 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52388478 TCGACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52388493 original size:46 final size:46
Alignment explanation
Indices: 52388302--52388480 Score: 175
Period size: 46 Copynumber: 3.9 Consensus size: 46
52388292 AACCCGCCCC
* * * *
52388302 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCA
* * *
52388348 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCA
* * * ** *
52388396 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCA
*
52388441 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCG
52388481 ACCATCCTAG
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 63 0.60
47 30 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCA
Found at i:52391515 original size:14 final size:14
Alignment explanation
Indices: 52391490--52391517 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52391480 TATTAATCAA
52391490 TATATGATAATTTG
1 TATATGATAATTTG
52391504 TATATGATAATTTG
1 TATATGATAATTTG
52391518 GCAACTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
TATATGATAATTTG
Found at i:52394487 original size:39 final size:35
Alignment explanation
Indices: 52394410--52394503 Score: 91
Period size: 39 Copynumber: 2.5 Consensus size: 35
52394400 ATTAAATTTA
52394410 ATATTAAGATAATTACTTTAATATTAAATTAATAAAAT
1 ATATTAAGATAA-TA--TTAATATTAAATTAATAAAAT
52394448 ACTATTAAGATAAGTATTAA-ATTAAATTTAATATTAAAT
1 A-TATTAAGATAA-TATTAATATTAAA-TTAATA--AAAT
* *
52394487 ATTTTAAAATAATATTA
1 ATATTAAGATAATATTA
52394504 TTTTTGGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
36 6 0.12
37 15 0.31
38 10 0.20
39 18 0.37
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (35 bp):
ATATTAAGATAATATTAATATTAAATTAATAAAAT
Found at i:52394900 original size:9 final size:9
Alignment explanation
Indices: 52394886--52394915 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
52394876 AAAATATCAT
52394886 ATTAATTTA
1 ATTAATTTA
*
52394895 ATTAATTTG
1 ATTAATTTA
52394904 ATTAATTTA
1 ATTAATTTA
52394913 ATT
1 ATT
52394916 TTACTTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:52408193 original size:94 final size:94
Alignment explanation
Indices: 52408032--52408219 Score: 349
Period size: 94 Copynumber: 2.0 Consensus size: 94
52408022 GTCCAATGTA
* *
52408032 TCATTCTGCCAATGAATACATCTTTGTCTCTATATGTGAAGTCAACTACTTTGATTGCCAAGACT
1 TCATTCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACT
52408097 AGTCATCCCCTCAATTTGTTTTGTAGAAG
66 AGTCATCCCCTCAATTTGTTTTGTAGAAG
52408126 TCATTCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACT
1 TCATTCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACT
*
52408191 AGTCATCTCCTCAATTTGTTTTGTAGAAG
66 AGTCATCCCCTCAATTTGTTTTGTAGAAG
52408220 ACATAATAAT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (94 bp):
TCATTCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACT
AGTCATCCCCTCAATTTGTTTTGTAGAAG
Found at i:52410755 original size:21 final size:20
Alignment explanation
Indices: 52410726--52410765 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
52410716 CATTGAAACA
52410726 AGGCACACG-CTCGTGTGGAT
1 AGGCACACGCCT-GTGTGGAT
52410746 AGGCAACACGCCTGTGTGGA
1 AGGC-ACACGCCTGTGTGGA
52410766 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.17
Consensus pattern (20 bp):
AGGCACACGCCTGTGTGGAT
Found at i:52415076 original size:20 final size:20
Alignment explanation
Indices: 52415051--52415090 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
52415041 TATGGCAGAT
*
52415051 AATTCTTCTCATGAGGTTTC
1 AATTCTCCTCATGAGGTTTC
* *
52415071 AATTCTCCTCTTGTGGTTTC
1 AATTCTCCTCATGAGGTTTC
52415091 TCGTCTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (20 bp):
AATTCTCCTCATGAGGTTTC
Found at i:52415162 original size:26 final size:25
Alignment explanation
Indices: 52415126--52415198 Score: 128
Period size: 26 Copynumber: 2.9 Consensus size: 25
52415116 GTGTGATAGT
52415126 TTTTCCTATATTAGGAATGAGTAGC
1 TTTTCCTATATTAGGAATGAGTAGC
52415151 TTTTCCTCATATTAGGAATGAGTAGC
1 TTTTCCT-ATATTAGGAATGAGTAGC
*
52415177 TTTTCCTAAATTAGGAATGAGT
1 TTTTCCTATATTAGGAATGAGT
52415199 TCAAAATCCA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 21 0.46
26 25 0.54
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (25 bp):
TTTTCCTATATTAGGAATGAGTAGC
Found at i:52417430 original size:40 final size:40
Alignment explanation
Indices: 52417319--52417485 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
52417309 CCTTCGGAGT
*
52417319 TTAG-CCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
52417358 TTAGCCCGG-TATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
52417397 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
** * *
52417437 TTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
52417477 TTAGCCCGG
1 TTAGCCCGG
52417486 TTATCATCCG
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
39 44 0.39
40 69 0.61
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:52417439 original size:79 final size:80
Alignment explanation
Indices: 52417319--52417485 Score: 223
Period size: 79 Copynumber: 2.1 Consensus size: 80
52417309 CCTTCGGAGT
* * * *
52417319 TTAG-CCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCGCAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAACAACTAGCAC
52417382 AAATGC-CTTCGGGAC
66 AAATGCTC-TCGGGAC
* * * * *
52417397 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAACAACTAGCAC
52417462 AAATGCTCTCGGGAC
66 AAATGCTCTCGGGAC
52417477 TTAGCCCGG
1 TTAGCCCGG
52417486 TTATCATCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 4 0.05
79 42 0.55
80 30 0.39
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAACAACTAGCAC
AAATGCTCTCGGGAC
Found at i:52425388 original size:40 final size:39
Alignment explanation
Indices: 52425344--52425528 Score: 246
Period size: 40 Copynumber: 4.7 Consensus size: 39
52425334 GCCACTAGCT
*
52425344 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
52425384 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
*
52425423 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
52425463 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
52425503 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
52425529 TATCATCCGA
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.31
40 89 0.69
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:52425442 original size:79 final size:80
Alignment explanation
Indices: 52425337--52425531 Score: 268
Period size: 79 Copynumber: 2.5 Consensus size: 80
52425327 GGATATAGCC
* *
52425337 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
52425402 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * *
52425416 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
52425481 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
*
52425496 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
52425532 CATCCGAACA
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 69 0.68
80 32 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:52431800 original size:3 final size:3
Alignment explanation
Indices: 52431792--52431843 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
52431782 AAACAGATAT
* *
52431792 TTA TTA TTA TAA TTA TTAA TTA TTA TTT TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
52431837 TTA TTA T
1 TTA TTA T
52431844 GGAATAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:52438398 original size:35 final size:35
Alignment explanation
Indices: 52438359--52438565 Score: 137
Period size: 35 Copynumber: 5.6 Consensus size: 35
52438349 ATATTTTTTG
*
52438359 GTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCA
1 GTTTATCTGACTAGTGCTGGGCGCAACTTTTGTCA
* * * * *
52438394 GTTTATCTGAGTAGTGCTGGGCACACCATGATATTTTTCG
1 GTTTATCTGACTAGTGCTGGGCGCA--A--CT-TTTGTCA
*
52438434 GTTTATCTGACTAGTGTTGGGCGCAACTTTCT-TCA
1 GTTTATCTGACTAGTGCTGGGCGCAACTTT-TGTCA
* * * * * * * *
52438469 ATTTATTTGACTAGTGATGAGCACACTATTGTAATTTTTA
1 GTTTATCTGACTAGTGCTGGGCGCA--ACT-T--TTGTCA
* * * *
52438509 GTTTATCCGACTAGCGCTGGGTGCAACTTTCGTCA
1 GTTTATCTGACTAGTGCTGGGCGCAACTTTTGTCA
52438544 GTTTATCTGACTAGTGCTGGGC
1 GTTTATCTGACTAGTGCTGGGC
52438566 ACATCATTAT
Statistics
Matches: 127, Mismatches: 33, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
35 68 0.54
36 2 0.02
37 4 0.03
38 4 0.03
39 2 0.02
40 47 0.37
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (35 bp):
GTTTATCTGACTAGTGCTGGGCGCAACTTTTGTCA
Found at i:52438409 original size:75 final size:75
Alignment explanation
Indices: 52438328--52438577 Score: 322
Period size: 75 Copynumber: 3.3 Consensus size: 75
52438318 GATTTATTCA
*
52438328 ACTAGTGCTCGGCACACCATTATATTTTTTGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTC
1 ACTAGTGCTGGGCACACCATTATATTTTTTGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTC
52438393 AGTTTATCTG
66 AGTTTATCTG
* * *
52438403 AGTAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTCT-T
1 ACTAGTGCTGGGCACACCATTATATTTTTTGGTTTATCTGACTAGTGTTGGGCGCAACTTT-TGT
* *
52438467 CAATTTATTTG
65 CAGTTTATCTG
* * * * * * * * * * *
52438478 ACTAGTGATGAGCACACTATTGTAATTTTTAGTTTATCCGACTAGCGCTGGGTGCAACTTTCGTC
1 ACTAGTGCTGGGCACACCATTATATTTTTTGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTC
52438543 AGTTTATCTG
66 AGTTTATCTG
*
52438553 ACTAGTGCTGGGCACATCATTATAT
1 ACTAGTGCTGGGCACACCATTATAT
52438578 CTGTCAGTTT
Statistics
Matches: 145, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
75 144 0.99
76 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (75 bp):
ACTAGTGCTGGGCACACCATTATATTTTTTGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTC
AGTTTATCTG
Found at i:52438449 original size:40 final size:39
Alignment explanation
Indices: 52438328--52438455 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 39
52438318 GATTTATTCA
* *
52438328 ACTAGTGCTCGGCACACCATTATATTTTTTGGTTTATCTG
1 ACTAGTGCTGGGCACACCA-TATATTTTTCGGTTTATCTG
* * * * *
52438368 ACTAGTGTTGGGCGCA--A-CT-TTTGTCAGTTTATCTG
1 ACTAGTGCTGGGCACACCATATATTTTTCGGTTTATCTG
*
52438403 AGTAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTG
1 ACTAGTGCTGGGCACACCAT-ATATTTTTCGGTTTATCTG
*
52438443 ACTAGTGTTGGGC
1 ACTAGTGCTGGGC
52438456 GCAACTTTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
35 26 0.38
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 38 0.56
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (39 bp):
ACTAGTGCTGGGCACACCATATATTTTTCGGTTTATCTG
Found at i:52444820 original size:40 final size:40
Alignment explanation
Indices: 52444589--52444813 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
52444579 TTGAATGATG
* * * *
52444589 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52444628 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52444668 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52444708 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52444748 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
52444789 -CTGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52444814 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 19 0.11
40 148 0.88
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52444820 original size:120 final size:119
Alignment explanation
Indices: 52444589--52444846 Score: 292
Period size: 120 Copynumber: 2.2 Consensus size: 119
52444579 TTGAATGATG
* * *
52444589 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
**
52444654 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * **
52444708 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* * * * *
52444772 TGTGCGAGTTACTATAA-CTGGGCTATG-TCCTGAAGGCATTTGAACGAGTAGCTATA
64 TGTACGAGTTACTA-AATCCGGACTAAGATCC-GAAGGCATTTGAACGAGTAGCTAAA
* *
52444828 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52444847 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
119 40 0.34
120 76 0.64
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:52449808 original size:9 final size:9
Alignment explanation
Indices: 52449770--52449813 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
52449760 TGATACCTGC
52449770 AAAATAAGAA
1 AAAATAAG-A
*
52449780 AATAACAAGA
1 AA-AATAAGA
52449790 AAAATAAAGA
1 AAAAT-AAGA
52449800 AAAATAAGA
1 AAAATAAGA
52449809 AAAAT
1 AAAAT
52449814 TTCAAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 11 0.37
10 14 0.47
11 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (9 bp):
AAAATAAGA
Found at i:52460304 original size:40 final size:40
Alignment explanation
Indices: 52460230--52460411 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
52460220 AACCCAAGTA
* *
52460230 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATA
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
52460269 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
52460309 CCTTCGGGAT-TTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATG
*
52460349 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
52460389 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
52460412 CATTCAAATA
Statistics
Matches: 135, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 120 0.89
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52460362 original size:80 final size:80
Alignment explanation
Indices: 52460230--52460411 Score: 305
Period size: 80 Copynumber: 2.3 Consensus size: 80
52460220 AACCCAAGTA
* *
52460230 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCGGATATAG
52460294 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
52460309 CCTTCGGGATTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGATTTAGCCCGGATATAG-CAACTAGCACAAATACCTTCGGGACTTAGCCCGGATATA
52460373 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
*
52460389 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATAT
52460412 CATTCAAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
79 14 0.14
80 82 0.85
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:52466314 original size:46 final size:46
Alignment explanation
Indices: 52466262--52466489 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
52466252 AGTGTGCTCT
52466262 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
52466308 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
52466354 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
52466400 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
52466446 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
52466490 TCATGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:52467663 original size:23 final size:23
Alignment explanation
Indices: 52467631--52467694 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
52467621 ACCAATATCG
*
52467631 CAGCATAGCTGCTAATAGTAACA
1 CAGCAAAGCTGCTAATAGTAACA
* *
52467654 CAGTAAAGCTGCTAATAGTAACG
1 CAGCAAAGCTGCTAATAGTAACA
*
52467677 CAGCAAAGTTGCTAATAG
1 CAGCAAAGCTGCTAATAG
52467695 AGGTAAACGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (23 bp):
CAGCAAAGCTGCTAATAGTAACA
Found at i:52471442 original size:16 final size:16
Alignment explanation
Indices: 52471421--52471452 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52471411 ACTATAACGC
52471421 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
52471437 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
52471453 TCCCGAACTT
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:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:52473324 original size:28 final size:28
Alignment explanation
Indices: 52473286--52473392 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
52473276 GAATCATTCG
* *
52473286 ATATTTTGCACACTAAGTGACATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
52473314 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
52473342 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
52473370 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
52473393 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:52476002 original size:29 final size:28
Alignment explanation
Indices: 52475950--52476061 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 28
52475940 ATGAGCATGA
* *
52475950 ATATGAATGTGAATGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
52475978 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
52476007 ATATACAGGTGATTTGGGCCTAATGAGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
52476036 ATATAAATATGATTGGGCTTAATGGG
1 ATATAAATGTGATTGGGCCTAATGGG
52476062 GCAGATACAG
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 23 0.32
29 50 0.68
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:52483279 original size:46 final size:46
Alignment explanation
Indices: 52483225--52483398 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
52483215 GTTGAGCATT
52483225 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * * *
52483271 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* *
52483318 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
*
52483364 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52483399 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:52483384 original size:93 final size:93
Alignment explanation
Indices: 52483220--52483391 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
52483210 GGATGGTTGA
* * *
52483220 GCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52483285 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
52483313 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52483378 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
52483392 CTTATGGGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:52490229 original size:46 final size:46
Alignment explanation
Indices: 52490179--52490354 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
52490169 TGGTTGGGCA
52490179 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
52490225 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
52490270 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
52490318 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52490355 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52490334 original size:93 final size:93
Alignment explanation
Indices: 52490175--52490347 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
52490165 AGGATGGTTG
* *
52490175 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52490240 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
52490268 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52490333 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
52490348 CTTATGGGTG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:52492849 original size:54 final size:54
Alignment explanation
Indices: 52492671--52492822 Score: 180
Period size: 54 Copynumber: 2.8 Consensus size: 54
52492661 GGACATGGGC
* * ** * * *
52492671 TGAGACACGGGCATGTCG-CCCAAGTCAGTGAGTTACACGGTCTGGCATACGGGT
1 TGAGACACGGGCGTGT-GACCCAAGTCAGTGAGTTACATGGTCTAACACATGAGT
* * **
52492725 TGTGACATGATCGTGTGACCCAAGTCAGTGAGTTACATGGTCTAACACATGAGT
1 TGAGACACGGGCGTGTGACCCAAGTCAGTGAGTTACATGGTCTAACACATGAGT
*
52492779 TGAGACACGGGCGTGTGACCCAAGTTAGTGAGTTACATGGTCTA
1 TGAGACACGGGCGTGTGACCCAAGTCAGTGAGTTACATGGTCTA
52492823 GTAGATGATT
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 80 0.99
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (54 bp):
TGAGACACGGGCGTGTGACCCAAGTCAGTGAGTTACATGGTCTAACACATGAGT
Found at i:52495078 original size:20 final size:19
Alignment explanation
Indices: 52495052--52495103 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
52495042 TTAGAGCTGG
*
52495052 AATATCGATACCTTAGGAA
1 AATATCGATACCTTAAGAA
52495071 ACATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
52495091 AATTATCGATACC
1 AA-TATCGATACC
52495104 AGATCGATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:52495502 original size:32 final size:33
Alignment explanation
Indices: 52495448--52495513 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
52495438 TGAATAGATT
* *
52495448 GCTCCCCTTTAATAAAAGTCATTTTCAATTTAA
1 GCTCCCCTATAATAAAAATCATTTTCAATTTAA
52495481 GCTCCCCTAT-ATAAAAATCATTTTCAATTTAA
1 GCTCCCCTATAATAAAAATCATTTTCAATTTAA
52495513 G
1 G
52495514 GCATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 22 0.71
33 9 0.29
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (33 bp):
GCTCCCCTATAATAAAAATCATTTTCAATTTAA
Found at i:52497004 original size:55 final size:53
Alignment explanation
Indices: 52496941--52497078 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 53
52496931 GCAAGGAAAT
* *
52496941 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATG-TAAACTAC-ATAAGGCAAAGATAC
* * ** * * *
52496996 CATGTAAGACCATGCCAAGGCATGGCAATGTTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGTAAACTACATAAGGCAAAGATAC
* *
52497049 CACGTAAGACCATATCAAGACATGGCAATG
1 CATGTAAGACCATGTCAAGACATGGCAATG
52497079 GTAAGTTAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
53 39 0.56
54 4 0.06
55 27 0.39
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGTAAACTACATAAGGCAAAGATAC
Found at i:52502586 original size:3 final size:3
Alignment explanation
Indices: 52502580--52502613 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
52502570 TGAAGGAGGA
52502580 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
52502614 GAGAAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:52504411 original size:12 final size:11
Alignment explanation
Indices: 52504395--52504436 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
52504385 TATAGATGCC
52504395 AATATATA-AT
1 AATATATATAT
52504405 AATATATATAT
1 AATATATATAT
*
52504416 GAATTTATATAT
1 -AATATATATAT
52504428 -ATATATATA
1 AATATATATA
52504437 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 16 0.57
11 2 0.07
12 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
AATATATATAT
Found at i:52509234 original size:38 final size:37
Alignment explanation
Indices: 52509192--52509301 Score: 94
Period size: 38 Copynumber: 3.1 Consensus size: 37
52509182 GGTTTTCTAC
*
52509192 ATTAACATAATACATTAAATATTATTGTTAAACTAAAT
1 ATTAAAATAATACATTAAATATTATT-TTAAACTAAAT
* *
52509230 ATTAAAATAAT--ATT--ATCTTGGTTTT---CT--AT
1 ATTAAAATAATACATTAAATATT-ATTTTAAACTAAAT
*
52509259 ATTAATATAATACATTAAATATTATTTTTAAACTAAAT
1 ATTAAAATAATACATTAAATATTA-TTTTAAACTAAAT
52509297 ATTAA
1 ATTAA
52509302 TATTAAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
29 12 0.22
31 5 0.09
33 8 0.15
34 6 0.11
35 2 0.04
36 5 0.09
38 17 0.31
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
ATTAAAATAATACATTAAATATTATTTTAAACTAAAT
Found at i:52509277 original size:67 final size:68
Alignment explanation
Indices: 52509141--52509301 Score: 218
Period size: 67 Copynumber: 2.4 Consensus size: 68
52509131 TGGTTAGAGT
* * * *
52509141 AATATTAATATTAAAAT-AAGATTTACAATAAGATTATCTTGGGTTTTCTACATTAACATAATAC
1 AATATTATTATTAAACTAAATA-TTAAAATAAGATTATCTTGGGTTTTCTACATTAACATAATAC
52509205 ATTA
65 ATTA
* * * *
52509209 AATATTATTGTTAAACTAAATATTAAAATAATATTATCTT-GGTTTTCTATATTAATATAATACA
1 AATATTATTATTAAACTAAATATTAAAATAAGATTATCTTGGGTTTTCTACATTAACATAATACA
52509273 TTA
66 TTA
*
52509276 AATATTATTTTTAAACTAAATATTAA
1 AATATTATTATTAAACTAAATATTAA
52509302 TATTAAAAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
67 50 0.60
68 30 0.36
69 3 0.04
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (68 bp):
AATATTATTATTAAACTAAATATTAAAATAAGATTATCTTGGGTTTTCTACATTAACATAATACA
TTA
Found at i:52509307 original size:18 final size:18
Alignment explanation
Indices: 52509274--52509308 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52509264 TATAATACAT
* *
52509274 TAAATATTATTTTTAAAC
1 TAAATATTAATATTAAAC
52509292 TAAATATTAATATTAAA
1 TAAATATTAATATTAAA
52509309 AATTAATTCT
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATATTAATATTAAAC
Found at i:52517954 original size:13 final size:13
Alignment explanation
Indices: 52517936--52517961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52517926 ATTAACATAG
52517936 CACATTTTATATT
1 CACATTTTATATT
52517949 CACATTTTATATT
1 CACATTTTATATT
52517962 TTACACTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
CACATTTTATATT
Found at i:52524354 original size:21 final size:20
Alignment explanation
Indices: 52524311--52524381 Score: 90
Period size: 21 Copynumber: 3.5 Consensus size: 20
52524301 CAAATATGCC
*
52524311 AACAGAAGCT-TAAAAGCTA
1 AACAGAAGCTCTAAGAGCTA
*
52524330 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTC-TAAGAGCTA
52524351 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTC-TAAGAGCTA
*
52524372 AACAAAAGCT
1 AACAGAAGCT
52524382 AAACAGAAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
19 10 0.22
21 35 0.78
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (20 bp):
AACAGAAGCTCTAAGAGCTA
Found at i:52524391 original size:53 final size:53
Alignment explanation
Indices: 52524322--52524431 Score: 166
Period size: 53 Copynumber: 2.1 Consensus size: 53
52524312 ACAGAAGCTT
* * *
52524322 AAAAGCTAAACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTAAGAGCTAAAC
1 AAAAGCTAAACAGAAGCTCATAAGAACTGAAAAGAAGCTCATAAGAGCTAAAC
* * *
52524375 AAAAGCTAAACAGAAGCTCATAAGAACTTAAAAGAAGCTCATAAGAGTTGAAC
1 AAAAGCTAAACAGAAGCTCATAAGAACTGAAAAGAAGCTCATAAGAGCTAAAC
52524428 AAAA
1 AAAA
52524432 AGTAAAACAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.15
Consensus pattern (53 bp):
AAAAGCTAAACAGAAGCTCATAAGAACTGAAAAGAAGCTCATAAGAGCTAAAC
Found at i:52525970 original size:22 final size:22
Alignment explanation
Indices: 52525931--52526009 Score: 88
Period size: 24 Copynumber: 3.5 Consensus size: 22
52525921 TAGCTCGTAT
*
52525931 GAGCTTATTGTTTCAGCTCAGA-A
1 GAGCTTACTG-TTCAGCTCA-ATA
52525954 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
*
52525976 GAGCTTACCGTTTTCAGCTCAATA
1 GAGCTTA-C-TGTTCAGCTCAATA
*
52526000 GGGCTTACTG
1 GAGCTTACTG
52526010 GCCATGTCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
21 1 0.02
22 18 0.37
23 11 0.22
24 19 0.39
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:52527146 original size:24 final size:24
Alignment explanation
Indices: 52527109--52527156 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
52527099 GCCACGACTT
52527109 AGACACACGGGCGTGTCTAAAGCC
1 AGACACACGGGCGTGTCTAAAGCC
* *
52527133 AGACACATGTGCGTGTCTAAAGCC
1 AGACACACGGGCGTGTCTAAAGCC
52527157 GTGTGAGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (24 bp):
AGACACACGGGCGTGTCTAAAGCC
Found at i:52530386 original size:15 final size:15
Alignment explanation
Indices: 52530366--52530422 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
52530356 CGATGAATTT
52530366 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
52530381 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
52530396 ATTGAATTTATATTG
1 ATTGAATTTATATTG
52530411 ATTGAA-TTATAT
1 ATTGAATTTATAT
52530423 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:52530825 original size:23 final size:23
Alignment explanation
Indices: 52530795--52530881 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
52530785 GCTTTATCGA
* *
52530795 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
52530818 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
52530839 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTCATGTGTCGTATT
* * *
52530860 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
52530882 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
21 32 0.60
23 20 0.38
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:52530842 original size:21 final size:22
Alignment explanation
Indices: 52530807--52530856 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
52530797 AGGCACTTTA
52530807 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
52530830 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
52530851 TGTGTC
1 TGTGTC
52530857 ATTTTAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.12, C:0.26, G:0.28, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:52532019 original size:15 final size:15
Alignment explanation
Indices: 52531980--52532020 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
52531970 GGACGTTACA
52531980 TATATTGATTGAAAT
1 TATATTGATTGAAAT
* *
52531995 TATTTTGATTGAATT
1 TATATTGATTGAAAT
*
52532010 TATATCGATTG
1 TATATTGATTG
52532021 CATTATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (15 bp):
TATATTGATTGAAAT
Found at i:52537317 original size:12 final size:12
Alignment explanation
Indices: 52537302--52537335 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52537292 GCAAACGTGA
52537302 GAAAGAAAGAAG
1 GAAAGAAAGAAG
52537314 GAAAGAAAGAAG
1 GAAAGAAAGAAG
*
52537326 AAATAGAAAG
1 GAA-AGAAAG
52537336 GAAAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (12 bp):
GAAAGAAAGAAG
Found at i:52538175 original size:45 final size:45
Alignment explanation
Indices: 52538091--52538199 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
52538081 GACATTGAGT
*
52538091 CGATG-AGACACTATGTGTCGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGT--ACTAATGTTAAAGTTCCGGATTTGTTC
* *
52538138 CGATGAAGTACTTTGTGTACTAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACTAATGTTAAAGTTCCGGATTTGTTC
52538183 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
52538200 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 41 0.73
47 13 0.23
48 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (45 bp):
CGATGAAGCACTATGTGTACTAATGTTAAAGTTCCGGATTTGTTC
Found at i:52545270 original size:22 final size:22
Alignment explanation
Indices: 52545245--52545301 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
52545235 AGCTCGCAAA
52545245 AGCTTATTGTTCAGCTCAATAG
1 AGCTTATTGTTCAGCTCAATAG
52545267 AGCTTACCGTT-TTCAGCTCAATAG
1 AGCTTA---TTGTTCAGCTCAATAG
*
52545291 AGCTTACTGTT
1 AGCTTATTGTT
52545302 ATCAACTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 1 0.03
22 8 0.27
24 19 0.63
25 2 0.07
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (22 bp):
AGCTTATTGTTCAGCTCAATAG
Found at i:52545310 original size:24 final size:24
Alignment explanation
Indices: 52545259--52545324 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
52545249 TATTGTTCAG
* * *
52545259 CTCAATAGAGCTTACCGTTTTCAG
1 CTCAATAGAGCTTACTGTTATCAA
52545283 CTCAATAGAGCTTACTGTTATCAA
1 CTCAATAGAGCTTACTGTTATCAA
52545307 CTC-ATGAAGAGCTTACTG
1 CTCAAT--AGAGCTTACTG
52545325 GCCATGTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.05
24 24 0.65
25 11 0.30
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (24 bp):
CTCAATAGAGCTTACTGTTATCAA
Found at i:52545865 original size:18 final size:18
Alignment explanation
Indices: 52545818--52545857 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
52545808 GCTAGAGTTT
52545818 ATGAAAGATTATGAGCTG
1 ATGAAAGATTATGAGCTG
*
52545836 TTGAAAGATTATGAGCTG
1 ATGAAAGATTATGAGCTG
52545854 ATGA
1 ATGA
52545858 TTGATTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (18 bp):
ATGAAAGATTATGAGCTG
Found at i:52546950 original size:4 final size:4
Alignment explanation
Indices: 52546941--52546972 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
52546931 AAATTTCGTC
*
52546941 TATT TATT TATT TATT TATT TATT TATA TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
52546973 ACCATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:52551614 original size:47 final size:48
Alignment explanation
Indices: 52551552--52551726 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 48
52551542 TTATGAGATC
* *
52551552 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGA-GAG-
1 CAGTCTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGACGATG-GT
*
52551599 CTAGTCTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGATGGT
1 C-AGTCTAAGACCATGTCTGGGACATGGCATCGGCTATGAGACGATGGT
* * * * * * *
52551646 CAGTGTAAGATCATGTCTGGGACATGGCATCGACT-TGATA-TATAAGC
1 CAGTCTAAGACCATGTCTGGGACATGGCATCGGCTATGAGACGAT-GGT
* *
52551693 CAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 CAGTCTAAGACCATGTCTGGGACATGGCATCGGC
52551727 ACCTTACCCA
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
46 26 0.24
47 67 0.61
48 16 0.15
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTCTAAGACCATGTCTGGGACATGGCATCGGCTATGAGACGATGGT
Found at i:52551669 original size:94 final size:94
Alignment explanation
Indices: 52551504--52551677 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 94
52551494 GTTATTGTTG
* * *
52551504 GCTAGTGTAAGACATGTCTAGGACATGCATTGGCCACATTATGAGATCCAGTGTAAGACCATGTC
1 GCTAGTCTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGATCCAGTGTAAGACCATGTC
52551569 TAGGACATGGCATCGGCATTGAGACGAGA
66 TAGGACATGGCATCGGCATTGAGACGAGA
* * * * *
52551598 GCTAGTCTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATGGT-CAGTGTAAGATCATG
1 GCTAGTCTAAGACATGTCTAGGACATGCATCGGCCA-CATGATGA-GATCCAGTGTAAGACCATG
*
52551661 TCTGGGACATGGCATCG
64 TCTAGGACATGGCATCG
52551678 ACTTGATATA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 66 0.96
95 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
GCTAGTCTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGATCCAGTGTAAGACCATGTC
TAGGACATGGCATCGGCATTGAGACGAGA
Found at i:52551708 original size:94 final size:95
Alignment explanation
Indices: 52551552--52551726 Score: 230
Period size: 94 Copynumber: 1.9 Consensus size: 95
52551542 TTATGAGATC
* * *
52551552 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGTCTAAGACATGTCT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAAAGCCAGTCTAAGACATGTCT
52551617 GGGACAT-GCATCGGCTATGAGATGATGGT
66 GGGACATGGCATCGGCTATGAGATGATGGT
* * * * *
52551646 CAGTGTAAGATCATGTCTGGGACATGGCATCGAC-TTGATA-TATAAGCCAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGA-AAGCCAGTCTAAGA-CATGT
*
52551709 TTGGGACATGGCATCGGC
64 CTGGGACATGGCATCGGC
52551727 ACCTTACCCA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
92 1 0.01
93 16 0.23
94 44 0.64
95 8 0.12
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAAAGCCAGTCTAAGACATGTCT
GGGACATGGCATCGGCTATGAGATGATGGT
Found at i:52555321 original size:46 final size:45
Alignment explanation
Indices: 52555177--52555346 Score: 186
Period size: 47 Copynumber: 3.7 Consensus size: 45
52555167 ATTGTTGGCT
* * *
52555177 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCAGA-GATGAGAG-C
*
52555223 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAAGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--GAGATGAGAGC
*
52555270 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGC-A-GAGATGAGAG-C
52555317 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
52555347 AGCACCTTAC
Statistics
Matches: 108, Mismatches: 7, Indels: 16
0.82 0.05 0.12
Matches are distributed among these distances:
46 34 0.31
47 48 0.44
48 25 0.23
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAGAGATGAGAGC
Found at i:52555335 original size:94 final size:94
Alignment explanation
Indices: 52555174--52555346 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 94
52555164 GTTATTGTTG
* *
52555174 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTC
52555239 TGGGACATGGCATCGGCATTGAGAAGAGA
66 TGGGACATGGCATCGGCATTGAGAAGAGA
* * * *
52555268 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-GATGATGAGAGCCAGTGTAAGACCATGT
52555332 CTGGGACATGGCATC
65 CTGGGACATGGCATC
52555347 AGCACCTTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 71 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAGAAGAGA
Found at i:52570323 original size:47 final size:48
Alignment explanation
Indices: 52570258--52570578 Score: 223
Period size: 47 Copynumber: 6.7 Consensus size: 48
52570248 GGGTTATTGT
* * *
52570258 GAGCTAGTGCAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGA
* *
52570304 GAGCCAGTGTAAGACCATGTCCGGAACATGGCATCGG---CATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ACGA
* * * * * *
52570352 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGTGAAGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACG-A
* * *
52570399 -AGCCAGTGTAAGACCATGTCTGGGACATAGCATTGG-CACGGATATGCGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC--AT-TACGA
* * * * *
52570448 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCAATGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTACGA
* * * ** *** *
52570497 TAGTCAGTGTAAGACCATGTCTAGGACATGGCATCAACTTGA-GAC-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGA
*
52570543 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
52570579 AGCATTACAC
Statistics
Matches: 217, Mismatches: 41, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
45 4 0.02
46 33 0.15
47 75 0.35
48 29 0.13
49 40 0.18
50 34 0.16
51 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGA
Found at i:52570518 original size:99 final size:93
Alignment explanation
Indices: 52570258--52570578 Score: 317
Period size: 94 Copynumber: 3.4 Consensus size: 93
52570248 GGGTTATTGT
* * * * *
52570258 GAGCTAGTGCAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCATGAAGATAGCCAGTGTAAGACCATG
* * **
52570323 TCCGGAACATGGCATCGGCATTGAGACGA
65 TCTGGGACATGGCATCGGCACGGAGACGA
*
52570352 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGAAG-TAAGCCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG-CCTCATGAAGAT-AGCCAGTGTAAGACCAT
* * *
52570416 GTCTGGGACATAGCATTGGCACGGATATGCGA
64 GTCTGGGACATGGCATCGGCACGGAGA--CGA
* *
52570448 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCAATGACGATAGTCAGTGTAAGACC
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATC-GCCTC-ATGAAGATAGCCAGTGTAAGACC
* * *
52570513 ATGTCTAGGACATGGCATC--AACTTGAGAC-A
62 ATGTCTGGGACATGGCATCGGCAC-GGAGACGA
* *
52570543 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
52570579 AGCATTACAC
Statistics
Matches: 191, Mismatches: 24, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
93 1 0.01
94 75 0.39
95 1 0.01
96 49 0.26
97 18 0.09
98 11 0.06
99 35 0.18
100 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCATGAAGATAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCACGGAGACGA
Found at i:52570558 original size:146 final size:144
Alignment explanation
Indices: 52570302--52570577 Score: 342
Period size: 146 Copynumber: 1.9 Consensus size: 144
52570292 GCCACATTAT
* * **
52570302 GAGAGCCAGTGTAAGACCATGTCCGGAACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACCATGTCCGGAACATGACATCAGCATCAAGACGAGAGCTAGTGTAAGAC
* * * *
52570367 ATGTCTGGGACATGCATCGACCTCGTGAAGTAAGCCAGTGTAAGACCATGTCTGGGACATAGCAT
66 ATGTCTAGGACATGCATCGAACTCGAGAAGTAAGCCAATGTAAGACCATGTCTGGGACATAGCAT
52570432 TGGCACGGATATGC
131 TGGCACGGATATGC
* * * * *
52570446 GAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCAATGACGATAG-TCAGTGTAAG
1 GAGAGCCAGTGTAAGACCATGTCCGGAACATGACATCAGCATCAA-GACGAGAGCT-AGTGTAAG
* *
52570510 ACCATGTCTAGGACATGGCATC-AACTTGAGACA-TGAGCCAATGTAAGACCATGTCTGGGACAT
64 A-CATGTCTAGGACAT-GCATCGAACTCGAGA-AGTAAGCCAATGTAAGACCATGTCTGGGACAT
*
52570573 GGCAT
126 AGCAT
52570578 CAGCATTACA
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
144 38 0.34
145 16 0.14
146 51 0.46
147 6 0.05
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.21
Consensus pattern (144 bp):
GAGAGCCAGTGTAAGACCATGTCCGGAACATGACATCAGCATCAAGACGAGAGCTAGTGTAAGAC
ATGTCTAGGACATGCATCGAACTCGAGAAGTAAGCCAATGTAAGACCATGTCTGGGACATAGCAT
TGGCACGGATATGC
Found at i:52570579 original size:47 final size:48
Alignment explanation
Indices: 52570304--52570579 Score: 224
Period size: 47 Copynumber: 5.8 Consensus size: 48
52570294 CACATTATGA
* * ** *
52570304 GAGCCAGTGTAAGACCATGTCCGGAACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TCGAGACGAT
* * * *
52570352 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGTGAAG-T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTCGAGACGAT
* * *** * *
52570398 AAGCCAGTGTAAGACCATGTCTGGGACATAGCATTGGCACGGATATGCGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTC-GAGA--CGAT
* * * *
52570448 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCAATGACGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA-ACTCGA-GACGAT
* * *
52570498 -AGTCAGTGTAAGACCATGTCTAGGACATGGCATCAACTTGAGAC-AT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGACGAT
*
52570544 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA
52570580 GCATTACACC
Statistics
Matches: 179, Mismatches: 37, Indels: 25
0.74 0.15 0.10
Matches are distributed among these distances:
46 24 0.13
47 64 0.36
48 22 0.12
49 34 0.19
50 32 0.18
51 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGACGAT
Found at i:52570811 original size:22 final size:23
Alignment explanation
Indices: 52570779--52570824 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
52570769 AGTTGTGCTT
52570779 ATGCTTTCTTTTGTATTATGAGC
1 ATGCTTTCTTTTGTATTATGAGC
52570802 ATGC-TTCTTTTGTATTATGAGC
1 ATGCTTTCTTTTGTATTATGAGC
52570824 A
1 A
52570825 CGTTGACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (23 bp):
ATGCTTTCTTTTGTATTATGAGC
Found at i:52577189 original size:13 final size:13
Alignment explanation
Indices: 52577171--52577195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52577161 GTAAGTGATT
52577171 TTGATGATTTTTC
1 TTGATGATTTTTC
52577184 TTGATGATTTTT
1 TTGATGATTTTT
52577196 GTACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:52578034 original size:94 final size:95
Alignment explanation
Indices: 52577865--52578185 Score: 330
Period size: 94 Copynumber: 3.4 Consensus size: 95
52577855 GGGTTATTGT
* * * * * *
52577865 GAGCTAGTGCAAGA-CATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAGGACCAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCATGAAGAGAGCCAGTGTAAGACCAT
* *
52577929 GTCCGGAACATGGCATCGGCATTGAGACGA
66 GTCTGGGACATGGCATCGGCATTGAGACGA
*
52577959 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCTCGTGAAGTA-AGCCAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCATGAAG-AGAGCCAGTGTAAGACCA
* ** *
52578022 TGTCTGGGACATGGCATTGGCACGGATATGCGA
65 TGTCTGGGACATGGCATCGGCATTGAGA--CGA
* * *
52578055 GAGCTAGTGTAAGACCATGTCTGGGACATGACATC-AGCCTCAATGACGATAGTCAGTGTAAGAC
1 GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGA-CCTC-ATGAAGAGAGCCAGTGTAAGAC
* * **
52578119 CATGTCTAGGACGTGGCATCAAC-TTGAGAC-A
63 CATGTCTGGGACATGGCATCGGCATTGAGACGA
* *
52578150 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATC
52578186 AGCATTACAC
Statistics
Matches: 191, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
94 76 0.40
95 2 0.01
96 49 0.26
97 17 0.09
98 12 0.06
99 35 0.18
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (95 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCATGAAGAGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCATTGAGACGA
Found at i:52578139 original size:49 final size:48
Alignment explanation
Indices: 52577864--52578188 Score: 197
Period size: 47 Copynumber: 6.8 Consensus size: 48
52577854 TGGGTTATTG
* * * * ** *
52577864 TGAGCTAGTGCAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAAGA-CA
* * * * * **
52577911 -GAGCCAGTGTAGGACCATGTCCGGAACATGGCATCGGCATTGAGACGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAAGAC-A
* **
52577959 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-GACCTCGTGA-A
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CCTCAAGACA
* ** **
52578003 GTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGATATG-CGA
1 -TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCA-A-GAC-A
* *
52578055 -GAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCAATGACGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAA-GAC-A
* * * * **
52578104 T-AGTCAGTGTAAGACCATGTCTAGGACGTGGCATCA-ACTTGAGACA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAAGACA
*
52578150 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGC
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
52578189 ATTACACCTT
Statistics
Matches: 214, Mismatches: 46, Indels: 35
0.73 0.16 0.12
Matches are distributed among these distances:
44 1 0.00
45 1 0.00
46 35 0.16
47 72 0.34
48 33 0.15
49 37 0.17
50 33 0.15
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAAGACA
Found at i:52578183 original size:47 final size:48
Alignment explanation
Indices: 52577911--52578186 Score: 215
Period size: 47 Copynumber: 5.8 Consensus size: 48
52577901 CACATTATGA
* * * ** *
52577911 GAGCCAGTGTAGGACCATGTCCGGAACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TCGAGACGAT
* * * *
52577959 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGTGAAG-T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTCGAGACGAT
* *** * *
52578005 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGATATGCGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTC-GAGA--CGAT
* * * *
52578055 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCAATGACGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA-ACTCGA-GACGAT
* * * *
52578105 -AGTCAGTGTAAGACCATGTCTAGGACGTGGCATCAACTTGAGAC-AT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGACGAT
*
52578151 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA
52578187 GCATTACACC
Statistics
Matches: 177, Mismatches: 39, Indels: 25
0.73 0.16 0.10
Matches are distributed among these distances:
46 24 0.14
47 63 0.36
48 21 0.12
49 33 0.19
50 33 0.19
51 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGACGAT
Found at i:52578414 original size:22 final size:22
Alignment explanation
Indices: 52578389--52578430 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
52578379 GTGCTTATGC
52578389 CTTCTTTTGTATTATGAGCATG
1 CTTCTTTTGTATTATGAGCATG
52578411 CTTCTTTTGTATTATGAGCA
1 CTTCTTTTGTATTATGAGCA
52578431 CGTTGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (22 bp):
CTTCTTTTGTATTATGAGCATG
Found at i:52584311 original size:101 final size:101
Alignment explanation
Indices: 52584101--52584324 Score: 274
Period size: 101 Copynumber: 2.2 Consensus size: 101
52584091 AATTGATGGA
**
52584101 TAAGACCATGGTTGGACCATGGAAGTCCTTATATGTAAGACCATAGCTGGGCTATGGCATATTAA
1 TAAGACCATGGTTGGACCATGGAAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATATTAA
* * * **
52584166 TGAAAAGATCATAACTGGGTTATGGCACTTTAAACG
66 TCAAAAGACCATAACTAGGTTATGGCACTACAAACG
* *
52584202 TAAAACCATGGTTGGACTAT-GACAGTAATTATATGTAAGACCATAGCTGGGCTATGGCAT-TCT
1 TAAGACCATGGTTGGACCATGGA-AGTAATTATATGTAAGACCATAGCTGGGCTATGGCATAT-T
* * *
52584265 GA-CAATAAGACCATAACTAGGTTATGGCACTACGAATG
64 AATCAA-AAGACCATAACTAGGTTATGGCACTACAAACG
* *
52584303 TAAGACCATGGCTGGTCCATGG
1 TAAGACCATGGTTGGACCATGG
52584325 CAATGCATGT
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
100 5 0.05
101 97 0.94
102 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGAAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATATTAA
TCAAAAGACCATAACTAGGTTATGGCACTACAAACG
Found at i:52584617 original size:17 final size:16
Alignment explanation
Indices: 52584585--52584618 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52584575 CATGAAAATG
*
52584585 AATGAAATATTGATAT
1 AATGAAATAATGATAT
52584601 AATGAAATGAATGATAT
1 AATGAAAT-AATGATAT
52584618 A
1 A
52584619 TGTTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (16 bp):
AATGAAATAATGATAT
Found at i:52588429 original size:47 final size:47
Alignment explanation
Indices: 52588366--52588669 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
52588356 CCCTTCGGGA
* * *
52588366 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * *
52588413 ATTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52588460 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
52588507 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52588554 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52588601 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52588650 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
52588670 GTATGTCAAT
Statistics
Matches: 236, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 191 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:52597580 original size:33 final size:34
Alignment explanation
Indices: 52597498--52597692 Score: 123
Period size: 33 Copynumber: 5.8 Consensus size: 34
52597488 ATTGACGGAT
* * * * *
52597498 AAGACCATAGTTGGACCATGGCAGTGTTTATAT-AT
1 AAGACCATAGTTGGGCTATGGCACT-ATTA-ATGAA
52597533 AAGACCATAGTTGGGCTATGGCA-TATTAATGAA
1 AAGACCATAGTTGGGCTATGGCACTATTAATGAA
* * * *
52597566 AAGACCATAATTGGGTTATGGCACT-TTGAA-CAT
1 AAGACCATAGTTGGGCTATGGCACTATT-AATGAA
* * * * * *
52597599 AAGACCATGGTTGGACCATAGCAGTAATTATATG-T
1 AAGACCATAGTTGGGCTATGGCACT-ATTA-ATGAA
* *
52597634 AAGACCATAGCTGGGCTACGGCA-TATTAATGAA
1 AAGACCATAGTTGGGCTATGGCACTATTAATGAA
** *
52597667 AAGACCATAACTGGGTTATGGCACTA
1 AAGACCATAGTTGGGCTATGGCACTA
52597693 CGAATGTAAG
Statistics
Matches: 125, Mismatches: 26, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
32 5 0.04
33 70 0.56
34 8 0.06
35 42 0.34
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (34 bp):
AAGACCATAGTTGGGCTATGGCACTATTAATGAA
Found at i:52597671 original size:101 final size:101
Alignment explanation
Indices: 52597496--52597691 Score: 320
Period size: 101 Copynumber: 1.9 Consensus size: 101
52597486 GAATTGACGG
* ** * *
52597496 ATAAGACCATAGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGGCATATTA
1 ATAAGACCATAGTTGGACCATAGCAGTAATTATATATAAGACCATAGCTGGGCTACGGCATATTA
*
52597561 ATGAAAAGACCATAATTGGGTTATGGCACTTTGAAC
66 ATGAAAAGACCATAACTGGGTTATGGCACTTTGAAC
* *
52597597 ATAAGACCATGGTTGGACCATAGCAGTAATTATATGTAAGACCATAGCTGGGCTACGGCATATTA
1 ATAAGACCATAGTTGGACCATAGCAGTAATTATATATAAGACCATAGCTGGGCTACGGCATATTA
52597662 ATGAAAAGACCATAACTGGGTTATGGCACT
66 ATGAAAAGACCATAACTGGGTTATGGCACT
52597692 ACGAATGTAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 87 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (101 bp):
ATAAGACCATAGTTGGACCATAGCAGTAATTATATATAAGACCATAGCTGGGCTACGGCATATTA
ATGAAAAGACCATAACTGGGTTATGGCACTTTGAAC
Found at i:52597704 original size:33 final size:32
Alignment explanation
Indices: 52597630--52597707 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
52597620 CAGTAATTAT
* **
52597630 ATGTAAGACCATAGCTGGGCTACGGCATATTA
1 ATGTAAGACCATAACTGGGCTACGGCATACGA
* * *
52597662 ATGAAAAGACCATAACTGGGTTATGGCACTACGA
1 ATG-TAAGACCATAACTGGGCTACGGCA-TACGA
52597696 ATGTAAGACCAT
1 ATGTAAGACCAT
52597708 GACAAGGCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 3 0.08
33 28 0.76
34 6 0.16
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTACGGCATACGA
Found at i:52598697 original size:23 final size:23
Alignment explanation
Indices: 52598671--52598714 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
52598661 TTGGTAAACT
*
52598671 TTAGGTATAAATATGCATATAAG
1 TTAGGTATAAATATGAATATAAG
* *
52598694 TTAGTTATACATATGAATATA
1 TTAGGTATAAATATGAATATA
52598715 CCTGTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (23 bp):
TTAGGTATAAATATGAATATAAG
Found at i:52602782 original size:14 final size:14
Alignment explanation
Indices: 52602765--52602811 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
52602755 TATAATGTGT
52602765 TCAATATTTAACTA
1 TCAATATTTAACTA
* *
52602779 TCAA-ATTAAATTAA
1 TCAATATTTAACT-A
52602793 TTCAATATTTAACTA
1 -TCAATATTTAACTA
52602808 TCAA
1 TCAA
52602812 CTATAGGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 6 0.23
14 9 0.35
15 5 0.19
16 6 0.23
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TCAATATTTAACTA
Found at i:52605880 original size:40 final size:39
Alignment explanation
Indices: 52605797--52605885 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 39
52605787 TTGAGCAAGA
*
52605797 ACTAAGTGTGCGGTTCGAAATAACTTCGGCTATAAATGAC
1 ACTAAGTGTACGGTTCGAAATAACTTCGGCTAT-AATGAC
* *
52605837 ACTAAGTGTACGAGTT-GGAATAGCTTCGGCTAT-ATGAGGC
1 ACTAAGTGTACG-GTTCGAAATAACTTCGGCTATAATGA--C
52605877 ACTAAGTGT
1 ACTAAGTGT
52605886 GCGATACCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
38 4 0.09
40 36 0.84
41 3 0.07
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (39 bp):
ACTAAGTGTACGGTTCGAAATAACTTCGGCTATAATGAC
Found at i:52622140 original size:46 final size:44
Alignment explanation
Indices: 52621925--52622141 Score: 125
Period size: 46 Copynumber: 4.7 Consensus size: 44
52621915 GTTGTGAGCT
* * * ** *
52621925 AGTGTAAGATATGTCTGGGATATGCATCGGCCATATTATGA-GAATC
1 AGTGTAAGACATGTCTAGGACATGCATCGG-C-TACGA-GATGATTC
* * * * *
52621971 AGTATAAGACCATGTTTAGGACATGGCATCGGC-ATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGATGA-TTC
* * * **
52622018 TAGTGTAAGACATGTCTGGGACATGCGTCGGCCT-CGAGACATAAGCC
1 -AGTGTAAGACATGTCTAGGACATGCATCGG-CTACGAG--ATGATTC
* *
52622065 AGTGTAAGACATGTCTAGGACATGTATCGGCTACGAGATGTTTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATTC
*
52622109 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
52622142 ATAGATATGC
Statistics
Matches: 132, Mismatches: 26, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
44 12 0.09
45 18 0.14
46 59 0.45
47 26 0.20
48 17 0.13
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATTC
Found at i:52633053 original size:18 final size:18
Alignment explanation
Indices: 52633030--52633066 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52633020 ATAATTCATT
52633030 TAATTGAATCGAAAGAAC
1 TAATTGAATCGAAAGAAC
52633048 TAATTGAATCGAAAGAAC
1 TAATTGAATCGAAAGAAC
52633066 T
1 T
52633067 GAGGTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (18 bp):
TAATTGAATCGAAAGAAC
Found at i:52634554 original size:33 final size:34
Alignment explanation
Indices: 52634517--52634597 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
52634507 AATTTTATGG
*
52634517 TTTTTAATTAATTTTTAAT-AATTA-TTTTTATAT
1 TTTTTAATT-ATTTTTAATAAATTATTTTTTATAA
* ** *
52634550 TTTTTTATGGTTTTTAGTAAATTATTTTTTATAA
1 TTTTTAATTATTTTTAATAAATTATTTTTTATAA
*
52634584 ATTTTAATTATTTT
1 TTTTTAATTATTTT
52634598 AATGATATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 7 0.19
33 12 0.32
34 18 0.49
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (34 bp):
TTTTTAATTATTTTTAATAAATTATTTTTTATAA
Found at i:52640039 original size:26 final size:26
Alignment explanation
Indices: 52640010--52640059 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
52640000 ACCAATATCA
52640010 GTATCGCAGCAAAGCTACCAGTAACG
1 GTATCGCAGCAAAGCTACCAGTAACG
*
52640036 GTATCGCAGCAAAGCTGCCAGTAA
1 GTATCGCAGCAAAGCTACCAGTAA
52640060 TCAGTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (26 bp):
GTATCGCAGCAAAGCTACCAGTAACG
Found at i:52642887 original size:48 final size:48
Alignment explanation
Indices: 52642783--52643259 Score: 452
Period size: 48 Copynumber: 9.9 Consensus size: 48
52642773 AAAGGGTAAG
* * * * * * * *
52642783 ATGCTGATGCTATGTTCCAAACATGGTTTTACACTAGCGCACATGTCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * * *
52642831 AGGCCGATGCCATGTCCCAGACATGGTCTTATACTAACTCTCCTATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * ** * * *
52642879 ATGTCGATGCCATGTTCCAAACATGGTCTTGTACCAGCTCACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* *
52642927 AGGCCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * * * * *
52642975 ATACCGATGTCATGTTCCAAATATGGTCTTACACTGGCTCACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * * *
52643023 AGGCTGATGCCATGTCTCAGACATGGTCTTATACTAGCTCTCATATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
** * * * * * *
52643071 ATGTTGATGTCATGTTCCAAACATAGTCTTACACTGGCTCACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * * *
52643119 AGGCCCATGCCATGTCCCAGACATGGTCTCACACTAGCTCTCATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* *
52643167 ATGCCGATG-CATTGTCCCAGACATAGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCA-TGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * * *
52643215 ATACCGATGCCATGTTCCAAAGATGGTCTTACACTAACTCACATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
52643260 ACCCTAGTAT
Statistics
Matches: 340, Mismatches: 87, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
47 2 0.01
48 336 0.99
49 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
Found at i:52642952 original size:96 final size:96
Alignment explanation
Indices: 52642783--52643259 Score: 569
Period size: 96 Copynumber: 5.0 Consensus size: 96
52642773 AAAGGGTAAG
* * * * *
52642783 ATGCTGATGCTATGTTCCAAACATGGTTTTACACTAGCGCACATGTCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* * *
52642848 CAGACATGGTCTTATACTAACTCTCCTATCA
66 CAGACATGGTCTTACACTAGCTCTCATATCA
* ** *
52642879 ATGTCGATGCCATGTTCCAAACATGGTCTTGTACCAGCTCACATATCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* *
52642944 CAAACATGGTTTTACACTAGCTCTCATATCA
66 CAGACATGGTCTTACACTAGCTCTCATATCA
* * * * * *
52642975 ATACCGATGTCATGTTCCAAATATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCT
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
*
52643040 CAGACATGGTCTTATACTAGCTCTCATATCA
66 CAGACATGGTCTTACACTAGCTCTCATATCA
** * * * *
52643071 ATGTTGATGTCATGTTCCAAACATAGTCTTACACTGGCTCACATATCGAGGCCCATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* *
52643136 CAGACATGGTCTCACACTAGCTCTCATATCG
66 CAGACATGGTCTTACACTAGCTCTCATATCA
* * * * * ** *
52643167 ATGCCGATG-CATTGTCCCAGACATAGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTT
1 ATGCCGATGCCA-TGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
* * * *
52643231 CCAAAGATGGTCTTACACTAACTCACATA
65 CCAGACATGGTCTTACACTAGCTCTCATA
52643260 ACCCTAGTAT
Statistics
Matches: 326, Mismatches: 54, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
95 2 0.01
96 324 0.99
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCATATCA
Found at i:52643048 original size:144 final size:144
Alignment explanation
Indices: 52642783--52643259 Score: 528
Period size: 144 Copynumber: 3.3 Consensus size: 144
52642773 AAAGGGTAAG
* * * * *
52642783 ATGCTGATGCTATGTTCCAAACATGGTTTTACACTAGCGCACATGTCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* * * * * *
52642848 CAGACATGGTCTTATACTAACTCTCCTATCAATG-TCGATGCCATGT-TCCAAACATGGTCTTGT
66 CAGACATGGTCTTACACTAGCTCTCATATCGATGCT-GATGCCATGTCT-CAGACATGGTCTTAT
* * *
52642911 ACCAGCTCACATATCG
129 ACTAGCTCTCATATCA
* * * * * ** * *
52642927 AGGCCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATATCAATACCGATGTCATGTTC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* * * * *
52642992 CAAATATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCTCAGACATGGTCTTATAC
66 CAGACATGGTCTTACACTAGCTCTCATATCGATGCTGATGCCATGTCTCAGACATGGTCTTATAC
52643057 TAGCTCTCATATCA
131 TAGCTCTCATATCA
** * * * *
52643071 ATGTTGATGTCATGTTCCAAACATAGTCTTACACTGGCTCACATATCGAGGCCCATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* * * * *
52643136 CAGACATGGTCTCACACTAGCTCTCATATCGATGCCGATG-CATTGTCCCAGACATAGTCTTACA
66 CAGACATGGTCTTACACTAGCTCTCATATCGATGCTGATGCCA-TGTCTCAGACATGGTCTTATA
52643200 CTAGCTCTCATATCA
130 CTAGCTCTCATATCA
* * *
52643215 ATACCGATGCCATGTTCCAAAGATGGTCTTACACTAACTCACATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
52643260 ACCCTAGTAT
Statistics
Matches: 271, Mismatches: 59, Indels: 6
0.81 0.18 0.02
Matches are distributed among these distances:
143 2 0.01
144 267 0.99
145 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (144 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCATATCGATGCTGATGCCATGTCTCAGACATGGTCTTATAC
TAGCTCTCATATCA
Found at i:52643316 original size:48 final size:48
Alignment explanation
Indices: 52643255--52643350 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
52643245 ACACTAACTC
52643255 ACATAACCCTAGTATTACAGCATGGATATCCGATCTATTCTTATGGTT
1 ACATAACCCTAGTATTACAGCATGGATATCCGATCTATTCTTATGGTT
52643303 ACATAACCCTAGTATTACAGCATGGATATCCGATCTATTCTTATGGTT
1 ACATAACCCTAGTATTACAGCATGGATATCCGATCTATTCTTATGGTT
52643351 CAATAGGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (48 bp):
ACATAACCCTAGTATTACAGCATGGATATCCGATCTATTCTTATGGTT
Found at i:52644842 original size:25 final size:25
Alignment explanation
Indices: 52644814--52644869 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
52644804 AAGCTCCTTT
* *
52644814 GAGCTGAATAACGGTAAACTCATAC
1 GAGCTGAATAACAGTAAACTCATAA
* * *
52644839 GAGCTGAGTATCAGTAAGCTCATAA
1 GAGCTGAATAACAGTAAACTCATAA
52644864 GAGCTG
1 GAGCTG
52644870 GAATCGATAA
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:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (25 bp):
GAGCTGAATAACAGTAAACTCATAA
Found at i:52645693 original size:21 final size:23
Alignment explanation
Indices: 52645668--52645713 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
52645658 TGGGCTACAC
52645668 AAAAT-AGAGAAAGAA-AGA-AGA
1 AAAATGAGAG-AAGAATAGAGAGA
52645689 AAAATGAGAGAAGAATAGAGAGA
1 AAAATGAGAGAAGAATAGAGAGA
52645712 AA
1 AA
52645714 GAAGGCTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 7 0.32
23 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (23 bp):
AAAATGAGAGAAGAATAGAGAGA
Found at i:52645990 original size:22 final size:22
Alignment explanation
Indices: 52645957--52646000 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
52645947 ATAATTTTAC
*
52645957 GGATTTAAAATTA-AGAGTTTG
1 GGATTTAAAATTACACAGTTTG
*
52645978 GGATGTTACAATTACACAGTTTG
1 GGAT-TTAAAATTACACAGTTTG
52646001 TTTGCACGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (22 bp):
GGATTTAAAATTACACAGTTTG
Found at i:52648250 original size:26 final size:25
Alignment explanation
Indices: 52648215--52648290 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
52648205 GCAGCTCTTA
*
52648215 TGAGCGTCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTA-ATGGCTCTTCG
* * * *
52648241 TGAGTTTCCCAATTAAAGGCTCTTTG
1 TGAGCTTCCC-GTTAATGGCTCTTCG
*
52648267 TGAGCTTCCTGATTAATGGCTCTT
1 TGAGCTTCCCG-TTAATGGCTCTT
52648291 TGGAGCTACT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 36 0.92
27 3 0.08
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
TGAGCTTCCCGTTAATGGCTCTTCG
Found at i:52648291 original size:26 final size:26
Alignment explanation
Indices: 52648230--52648297 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
52648220 GTCCCGTTAT
* *
52648230 ATGGCTCTTCGTGAGTTTCCCAATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
* **
52648256 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
52648282 ATGGCTCTTTG-GAGCT
1 ATGGCTCTTTGTGAGCT
52648298 ACTCATTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 5 0.14
26 31 0.86
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (26 bp):
ATGGCTCTTTGTGAGCTTCCCAATTA
Found at i:52648336 original size:24 final size:23
Alignment explanation
Indices: 52648309--52648354 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
52648299 CTCATTGTTA
52648309 GCTCGTATGAGCTTCCTGATTATG
1 GCTCGTATGAGCTTCCTG-TTATG
* *
52648333 GCTCTTATGAGTTTCCTGTTAT
1 GCTCGTATGAGCTTCCTGTTAT
52648355 ACAGCCCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCGTATGAGCTTCCTGTTATG
Found at i:52652704 original size:14 final size:15
Alignment explanation
Indices: 52652685--52652713 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52652675 AGTAAGGAGC
52652685 AATTCT-TTTTTTTA
1 AATTCTGTTTTTTTA
52652699 AATTCTGTTTTTTTA
1 AATTCTGTTTTTTTA
52652714 TATTTTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTCTGTTTTTTTA
Found at i:52653292 original size:16 final size:16
Alignment explanation
Indices: 52653273--52653306 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52653263 TCTCTAATGA
*
52653273 AATAAGATTATAATAG
1 AATAAAATTATAATAG
*
52653289 AATAAAATTGTAATAG
1 AATAAAATTATAATAG
52653305 AA
1 AA
52653307 GTGTAATGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AATAAAATTATAATAG
Found at i:52656311 original size:29 final size:29
Alignment explanation
Indices: 52656281--52656334 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
52656271 ATACCTTAAT
52656281 TTATTT-T-TATATTA-A-ATAAATATAA
1 TTATTTATATATATTATATATAAATATAA
52656306 TTATTTATATATATTATATATAAATATAA
1 TTATTTATATATATTATATATAAATATAA
52656335 AATAGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.24
26 1 0.04
27 7 0.28
28 1 0.04
29 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATTTATATATATTATATATAAATATAA
Found at i:52666751 original size:49 final size:49
Alignment explanation
Indices: 52666624--52666753 Score: 188
Period size: 49 Copynumber: 2.7 Consensus size: 49
52666614 CATCAAAGTT
* *
52666624 GATGCCATGTCCTAGACAGGTCTTACACTAACTTTCATATATCGATGCC
1 GATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATAACGATGCC
* * * *
52666673 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATCTAACGATGTC
1 GATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATAACGATGCC
* *
52666722 GATGCCATGTCCTAGAAAGGTATTACACTGAC
1 GATGCCATGTCCTAGACAGGTCTTACACTGAC
52666754 ACACAACAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATAACGATGCC
Found at i:52666901 original size:48 final size:48
Alignment explanation
Indices: 52666771--52666892 Score: 183
Period size: 48 Copynumber: 2.6 Consensus size: 48
52666761 AAGCTGACGC
* * *
52666771 CATGTACC-GACATGTCTTACACTAGCTTGTATATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATG
* * *
52666818 CATATCCCAAACATGTCTTACACTGGCTTGTATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATG
52666866 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
52666893 ACACATATCA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 6 0.09
48 59 0.91
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATG
Found at i:52667477 original size:20 final size:20
Alignment explanation
Indices: 52667452--52667490 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52667442 ACAATTTCAA
52667452 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
52667472 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
52667491 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:52675413 original size:37 final size:37
Alignment explanation
Indices: 52675354--52675499 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
52675344 AGCTCAGACG
* * *
52675354 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52675391 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52675428 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52675465 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52675500 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52675768 original size:47 final size:47
Alignment explanation
Indices: 52675706--52676239 Score: 726
Period size: 47 Copynumber: 11.1 Consensus size: 47
52675696 ATACGTTTCG
* * * **
52675706 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
52675753 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
52675800 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
52675847 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
52675894 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
52675947 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*** *
52675994 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCTTCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
52676045 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
52676092 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
52676139 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
52676190 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
52676237 CAT
1 CAT
52676240 AAAATCCTAA
Statistics
Matches: 436, Mismatches: 37, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
47 306 0.70
49 1 0.00
51 87 0.20
53 42 0.10
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:52676143 original size:145 final size:144
Alignment explanation
Indices: 52675706--52676239 Score: 783
Period size: 145 Copynumber: 3.7 Consensus size: 144
52675696 ATACGTTTCG
* **
52675706 CATTAGCCATTCGGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
* * * * *
52675768 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCAT
66 CTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
52675833 GTTCACATTCATCA
131 GTTCACATTCATCA
***
52675847 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
* ** * *
52675909 CTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
66 CTTATCA--C----ACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACAT
52675974 ACGCATGTTCACATTCATCA
125 ACGCATGTTCACATTCATCA
*
52675994 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCTTCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CGGGTTCACATTCATCACATTGGCCATTCGG
*
52676059 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
65 CCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCA
52676124 TGTTCACATTCATCA
130 TGTTCACATTCATCA
*
52676139 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGA
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CGGGTTCACATTCATCACATTGGCCATTCGG
52676204 CCTTATCACACATACGCATGTTCACATCCATCACAT
65 CCTTATCACACATACGCATGTTCACATCCATCACAT
52676240 AAAATCCTAA
Statistics
Matches: 359, Mismatches: 21, Indels: 22
0.89 0.05 0.05
Matches are distributed among these distances:
141 53 0.15
142 1 0.00
143 7 0.02
144 1 0.00
145 163 0.45
147 98 0.27
149 1 0.00
151 35 0.10
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (144 bp):
CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
GTTCACATTCATCA
Found at i:52678549 original size:85 final size:85
Alignment explanation
Indices: 52678420--52678598 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
52678410 TATTTTATTG
*
52678420 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52678485 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52678505 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52678570 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52678590 CCCATGCTC
1 CCCATGCTC
52678599 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Done.