Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 328 of 410
Found at i:101884951 original size:164 final size:165
Alignment explanation
Indices: 101884593--101884978 Score: 496
Period size: 164 Copynumber: 2.3 Consensus size: 165
101884583 TCTGAAGGCC
101884593 AGATCTGCAATACTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCT
1 AGATCTGCAA-A-TTTAACCTGTTACCCTACTGCTTA-GGGGTTAAGGCGCATCTTCGATCTGCT
* *
101884658 GCACTACTGCTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACCCTACTACTTAGGGGATTAA
63 CCACTACTGCTTAGGGAGATAAGAT-C-C-A-TGTGACCTGTTACCCTACTACTTAGGGGATTAA
* * * *
101884723 GGTGAGTCGTCGTTGATCTGTTCCGCTACTGCTTAAGCAGATA
124 GGCGAGTCGTC-TCGATCTGCTCCACTACTGCTTAAGCAGATA
* *
101884766 AGATCTGTAATTTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCG-AGTCGTCGTCGATCTGC
1 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGCA-TC-T--TCGATCTGC
* *
101884830 TCCGCTACTGCTTAGGGAGATAAGAT-C-TGTGAACCTGTTACCC-ACTGCTTAGGGGATTAAGG
62 TCCACTACTGCTTAGGGAGATAAGATCCATGTG-ACCTGTTACCCTACTACTTAGGGGATTAAGG
* *
101884892 CGAGTC-T-TCGATCTGCTCCACTACTGCTTAGGGAGATA
126 CGAGTCGTCTCGATCTGCTCCACTACTGCTTAAGCAGATA
101884930 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGG-TTAAGGCGC
101884979 TGAATTTTGT
Statistics
Matches: 192, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
164 63 0.33
165 8 0.04
166 1 0.01
167 26 0.14
168 11 0.06
169 1 0.01
170 15 0.08
171 25 0.13
173 42 0.22
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (165 bp):
AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGCATCTTCGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATCCATGTGACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGT
CGTCTCGATCTGCTCCACTACTGCTTAAGCAGATA
Found at i:101885914 original size:1 final size:1
Alignment explanation
Indices: 101885904--101885979 Score: 80
Period size: 1 Copynumber: 76.0 Consensus size: 1
101885894 GGCCTCTCCA
* * * * * * * *
101885904 TTTTTCTTTTTTCTTTTTTCTTTTTTTTTTTTTCTTTTTTCTCTTTTTTCTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
101885969 TTTTTTTTTTT
1 TTTTTTTTTTT
101885980 GAAATAGAAG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:101885916 original size:7 final size:7
Alignment explanation
Indices: 101885904--101885976 Score: 98
Period size: 7 Copynumber: 10.7 Consensus size: 7
101885894 GGCCTCTCCA
101885904 TTTTTCT
1 TTTTTCT
101885911 TTTTTCT
1 TTTTTCT
101885918 TTTTTCT
1 TTTTTCT
*
101885925 TTTTTTT
1 TTTTTCT
101885932 TTTTTCT
1 TTTTTCT
101885939 TTTTTCT
1 TTTTTCT
101885946 CTTTTT-T
1 -TTTTTCT
*
101885953 CTTTT-T
1 TTTTTCT
101885959 TTTTTCT
1 TTTTTCT
101885966 TTTTT-T
1 TTTTTCT
101885972 TTTTT
1 TTTTT
101885977 TTTGAAATAG
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
6 15 0.25
7 40 0.67
8 5 0.08
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTCT
Found at i:101885956 original size:37 final size:35
Alignment explanation
Indices: 101885904--101885979 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 35
101885894 GGCCTCTCCA
101885904 TTTTTCTTTTTTCTTTTTTCTTTT-TTTTTTTTTCTT
1 TTTTTCTTTTTTCTTTTTT-TTTTCTTTTTTTTT-TT
101885940 TTTTCTCTTTTTTCTTTTTTTTTTCTTTTTTTTTTT
1 TTTT-TCTTTTTTCTTTTTTTTTTCTTTTTTTTTTT
101885976 TTTT
1 TTTT
101885980 GAAATAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 14 0.37
37 24 0.63
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (35 bp):
TTTTTCTTTTTTCTTTTTTTTTTCTTTTTTTTTTT
Found at i:101891702 original size:19 final size:19
Alignment explanation
Indices: 101891678--101891766 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
101891668 TCATATCTTT
*
101891678 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
101891697 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
101891715 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
101891732 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
101891751 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
101891767 TGAAGATTAC
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:101891733 original size:35 final size:37
Alignment explanation
Indices: 101891678--101891766 Score: 137
Period size: 35 Copynumber: 2.4 Consensus size: 37
101891668 TCATATCTTT
*
101891678 TAAGATTGTATATCATATCTAAGATTGCA-ATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCACATC
101891715 TAAGATTG-TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGATATCATATCTAAGATTGCATATCACATC
101891751 TAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
101891767 TGAAGATTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.40
36 15 0.31
37 8 0.17
38 6 0.12
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCACATC
Found at i:101891745 original size:14 final size:15
Alignment explanation
Indices: 101891690--101891745 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
101891680 AGATTGTATA
101891690 TCATATCTAAGATTG
1 TCATATCTAAGATTG
101891705 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
101891723 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
101891740 -CATATC
1 TCATATC
101891746 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:101892024 original size:28 final size:28
Alignment explanation
Indices: 101891991--101892050 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
101891981 AACATTACTG
*
101891991 AAACCCTA-ACTATAAAACAATAAACCCC
1 AAACCCCAGACTAT-AAACAATAAACCCC
* * *
101892019 AAACCCCAGACTCTAAACCATAAACCCT
1 AAACCCCAGACTATAAACAATAAACCCC
101892047 AAAC
1 AAAC
101892051 TCAAAACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.50, C:0.35, G:0.02, T:0.13
Consensus pattern (28 bp):
AAACCCCAGACTATAAACAATAAACCCC
Found at i:101892059 original size:28 final size:28
Alignment explanation
Indices: 101892005--101892062 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
101891995 CCTAACTATA
* *
101892005 AAACAATAAACCCCAAACCCCAGACTCT
1 AAACAATAAACCCCAAACCCAAAACTCT
* * *
101892033 AAACCATAAACCCTAAACTCAAAACTCT
1 AAACAATAAACCCCAAACCCAAAACTCT
101892061 AA
1 AA
101892063 TCACAATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.14
Consensus pattern (28 bp):
AAACAATAAACCCCAAACCCAAAACTCT
Found at i:101892134 original size:14 final size:14
Alignment explanation
Indices: 101892117--101892148 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
101892107 CCATAGACAT
*
101892117 TAAACCTTAAATCA
1 TAAACCCTAAATCA
101892131 TAAACCCTAAATCA
1 TAAACCCTAAATCA
101892145 TAAA
1 TAAA
101892149 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:101892289 original size:40 final size:40
Alignment explanation
Indices: 101892228--101892459 Score: 191
Period size: 40 Copynumber: 5.5 Consensus size: 40
101892218 TGGTCAACTT
* *
101892228 TTTTGCGGCG-TTTTCTGAAAAGCGCTGCTAATGCTCGATC
1 TTTTGCGGCGTTTTTC-AAAAAGCGCCGCTAATGCTCGATC
* *
101892268 TTTTGCGGCGTTTTTCAAAAAGCACCGCTAATTCTCGATC
1 TTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC
* * ** *
101892308 TATTGCTGCGTTTTTCAAAAAGATCCG-TAATGCCGTCGTTTGCTAAAC
1 TTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATG-C-TC----G---ATC
*
101892356 TTTTCTGCGGC-ATTTTCTAAAAAGCGCCGCTAATGCTCGATC
1 -TTT-TGCGGCGTTTTTC-AAAAAGCGCCGCTAATGCTCGATC
* * *
101892398 TTTAGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCTATC
1 TTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC
*
101892438 TTTAGCGGCGTTTTTCACAAAA
1 TTTTGCGGCGTTTTTCA-AAAA
101892460 ATGCCACTAT
Statistics
Matches: 156, Mismatches: 20, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
39 4 0.03
40 98 0.63
41 19 0.12
42 2 0.01
45 2 0.01
48 2 0.01
49 9 0.06
50 15 0.10
51 5 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC
Found at i:101917215 original size:3 final size:3
Alignment explanation
Indices: 101917203--101917233 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
101917193 GATGATGATG
*
101917203 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
101917234 ATTAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:101917303 original size:15 final size:15
Alignment explanation
Indices: 101917283--101917311 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
101917273 CATGCAAATT
101917283 AGAAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
101917298 AGAAAAGAAAGAAA
1 AGAAAAGAAAGAAA
101917312 GAAAAAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAGAAAA
Found at i:101918492 original size:18 final size:18
Alignment explanation
Indices: 101918469--101918508 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
101918459 AATGGAAAAT
* *
101918469 ATGAGAAATGATTATGAG
1 ATGAGAAATGAATATGAA
101918487 ATGAGAAATGAATATGAA
1 ATGAGAAATGAATATGAA
101918505 ATGA
1 ATGA
101918509 TGAATTGAAA
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:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:101923436 original size:14 final size:14
Alignment explanation
Indices: 101923417--101923444 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101923407 CATGTCTATA
101923417 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
101923431 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
101923445 CATATCATAT
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTTTAAAT
Found at i:101924987 original size:2 final size:2
Alignment explanation
Indices: 101924982--101925066 Score: 143
Period size: 2 Copynumber: 42.5 Consensus size: 2
101924972 ACCCATTGAC
*
101924982 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
101925024 TG TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101925066 T
1 T
101925067 TAATTAGAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101925011 original size:20 final size:20
Alignment explanation
Indices: 101924986--101925064 Score: 158
Period size: 20 Copynumber: 4.0 Consensus size: 20
101924976 ATTGACTATA
101924986 TATATATATATATATATATG
1 TATATATATATATATATATG
101925006 TATATATATATATATATATG
1 TATATATATATATATATATG
101925026 TATATATATATATATATATG
1 TATATATATATATATATATG
101925046 TATATATATATATATATAT
1 TATATATATATATATATAT
101925065 ATTAATTAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TATATATATATATATATATG
Found at i:101925678 original size:31 final size:29
Alignment explanation
Indices: 101925611--101925680 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
101925601 CAATTAGACT
* *
101925611 TTCATGTGTATAATTGCACCAAATTAAAG
1 TTCATGTATATAATTGCACCAAATTAAAA
101925640 TTCATGTATATAATTGCA-CATTAATTCAAAA
1 TTCATGTATATAATTGCACCA--AATT-AAAA
101925671 TTCATGTATA
1 TTCATGTATA
101925681 ATTTTGAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.47
30 4 0.11
31 13 0.36
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (29 bp):
TTCATGTATATAATTGCACCAAATTAAAA
Found at i:101928846 original size:25 final size:25
Alignment explanation
Indices: 101928818--101928897 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
101928808 CTTTCTTAAA
*
101928818 CTTCCTGATAAATGGCTCGTAAGAG
1 CTTCCTGATAAATGGCTCATAAGAG
* * ** *
101928843 CTTCCCGTTAAACAGCTCATATGAG
1 CTTCCTGATAAATGGCTCATAAGAG
* *
101928868 CTTCCT-ATTATATGGCTCAAAAGAG
1 CTTCCTGA-TAAATGGCTCATAAGAG
101928893 CTTCC
1 CTTCC
101928898 CGTTTACATG
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (25 bp):
CTTCCTGATAAATGGCTCATAAGAG
Found at i:101928918 original size:25 final size:25
Alignment explanation
Indices: 101928832--101928910 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
101928822 CTGATAAATG
* *
101928832 GCTCGTAAGAGCTTCCCGTTAAACA-
1 GCTCATAAGAGCTTCCCGTT-TACAT
* *
101928857 GCTCATATGAGCTT-CC-TATTATAT
1 GCTCATAAGAGCTTCCCGT-TTACAT
*
101928881 GGCTCAAAAGAGCTTCCCGTTTACAT
1 -GCTCATAAGAGCTTCCCGTTTACAT
101928907 GCTC
1 GCTC
101928911 GTATGAGCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 28 0.67
26 7 0.17
27 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (25 bp):
GCTCATAAGAGCTTCCCGTTTACAT
Found at i:101928931 original size:50 final size:50
Alignment explanation
Indices: 101928818--101928931 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 50
101928808 CTTTCTTAAA
* **
101928818 CTTCCTGATAAATGGCTCGTAAGAGCTTCCCGTTAAACAGCTCATATGAG
1 CTTCCTGATATATGGCTCAAAAGAGCTTCCCGTTAAACAGCTCATATGAG
* *
101928868 CTTCCT-ATTATATGGCTCAAAAGAGCTTCCCGTT-TACATGCTCGTATGAG
1 CTTCCTGA-TATATGGCTCAAAAGAGCTTCCCGTTAAACA-GCTCATATGAG
101928918 CATTCCTGA-ATATG
1 C-TTCCTGATATATG
101928932 ACAAATTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
49 4 0.07
50 45 0.82
51 5 0.09
52 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (50 bp):
CTTCCTGATATATGGCTCAAAAGAGCTTCCCGTTAAACAGCTCATATGAG
Found at i:101929201 original size:41 final size:41
Alignment explanation
Indices: 101929144--101929226 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
101929134 GGTGATTATG
101929144 TTCACCCATGTTTATGGAATATTACATGAGAATCACTTGGC
1 TTCACCCATGTTTATGGAATATTACATGAGAATCACTTGGC
101929185 TTCACCCATGTTTATGGAATATTACATGAGAATCACTTGGC
1 TTCACCCATGTTTATGGAATATTACATGAGAATCACTTGGC
101929226 T
1 T
101929227 AACATGTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (41 bp):
TTCACCCATGTTTATGGAATATTACATGAGAATCACTTGGC
Found at i:101931039 original size:18 final size:18
Alignment explanation
Indices: 101931012--101931046 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101931002 ACTTTGAAAT
* *
101931012 TCACTTCACTTCAATATA
1 TCACTACACTTAAATATA
101931030 TCACTACACTTAAATAT
1 TCACTACACTTAAATAT
101931047 GTTATTTCAA
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:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (18 bp):
TCACTACACTTAAATATA
Found at i:101932493 original size:18 final size:18
Alignment explanation
Indices: 101932461--101932503 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
101932451 GTTTAGCAAT
101932461 TATTTTTATCATAA-TAA
1 TATTTTTATCATAATTAA
101932478 TAATTTTTAT-AGTAATTAA
1 T-ATTTTTATCA-TAATTAA
101932497 TATTTTT
1 TATTTTT
101932504 TTAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTTATCATAATTAA
Found at i:101934710 original size:25 final size:25
Alignment explanation
Indices: 101934657--101934719 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
101934647 ACTAATTTTC
*
101934657 TCAAAATTTTATCGAGGGTAAAATCG
1 TCAAAATTTTA-CCAGGGTAAAATCG
* * *
101934683 TCAAAAATTTACCAGGGTAGAATTG
1 TCAAAATTTTACCAGGGTAAAATCG
101934708 TCAAAATTTTAC
1 TCAAAATTTTAC
101934720 TTGGTGAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACCAGGGTAAAATCG
Found at i:101941550 original size:17 final size:18
Alignment explanation
Indices: 101941528--101941571 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
101941518 GTTTGATATT
101941528 GAAATGGAAAAG-GATGA
1 GAAATGGAAAAGAGATGA
*
101941545 GAAATGGAAAAGAGATGT
1 GAAATGGAAAAGAGATGA
101941563 GAAATGGAA
1 GAAATGGAA
101941572 TATGAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (18 bp):
GAAATGGAAAAGAGATGA
Found at i:101945134 original size:34 final size:34
Alignment explanation
Indices: 101945091--101945159 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
101945081 TTATGACAGG
*
101945091 CTCCTTTAGTTACCATAGCCAAGCTATGGTTTTA
1 CTCCTTTAGTTACCATAGCCAAGCTATGGTCTTA
** *
101945125 CTCCTTTAGTTGTCATAGCCGAGCTATGGTCTTA
1 CTCCTTTAGTTACCATAGCCAAGCTATGGTCTTA
101945159 C
1 C
101945160 AGGTTAGACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (34 bp):
CTCCTTTAGTTACCATAGCCAAGCTATGGTCTTA
Found at i:101948689 original size:19 final size:19
Alignment explanation
Indices: 101948650--101948689 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
101948640 AAAACCCCAG
** *
101948650 TTTACCTAGGGTGTCGGAC
1 TTTACCTAGGGCATCGAAC
101948669 TTTACCTAGGGCATCGAAC
1 TTTACCTAGGGCATCGAAC
101948688 TT
1 TT
101948690 CAATTCCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (19 bp):
TTTACCTAGGGCATCGAAC
Found at i:101954965 original size:18 final size:16
Alignment explanation
Indices: 101954942--101954984 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 16
101954932 AATGACTCAA
101954942 AAATTAATTTATATATG
1 AAATTAATTTA-ATATG
101954959 TAAATTATTATTTAATATG
1 -AAATTA--ATTTAATATG
101954978 AAATTAA
1 AAATTAA
101954985 ATAATTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
18 12 0.52
19 5 0.22
20 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
AAATTAATTTAATATG
Found at i:101956425 original size:15 final size:16
Alignment explanation
Indices: 101956394--101956431 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
101956384 ATAGTGAGAG
101956394 AAAATATTTTATATTA
1 AAAATATTTTATATTA
101956410 AAAATATATTT-T-TTA
1 AAAATAT-TTTATATTA
101956425 AAAATAT
1 AAAATAT
101956432 CTAATAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 8 0.38
17 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATATTTTATATTA
Found at i:101958802 original size:12 final size:12
Alignment explanation
Indices: 101958773--101958806 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
101958763 TTATATACAT
101958773 AAAAAA-TATTA
1 AAAAAATTATTA
101958784 AATAAAATTATTA
1 AA-AAAATTATTA
101958797 AAAAAATTAT
1 AAAAAATTAT
101958807 ATTGTCAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 12 0.57
13 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:101963879 original size:99 final size:99
Alignment explanation
Indices: 101963707--101963904 Score: 360
Period size: 99 Copynumber: 2.0 Consensus size: 99
101963697 AGAGAAATGT
*
101963707 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGGCTAACTCAGTAATTCTGAACCTATTTC
1 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
101963772 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
66 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
* *
101963806 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCGGTAATTGTGAACCTATTTC
1 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
*
101963871 CTCTTAGGTTTGATTTGGAAAAGAAATAAATAGC
66 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
101963905 TAACCCTTTA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (99 bp):
GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
Found at i:101965012 original size:39 final size:39
Alignment explanation
Indices: 101964957--101965036 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
101964947 AGTTCAAACC
*
101964957 AAACCAAAAAGTTAGATGAAGTGCTTTTGGCTTTTGGGT
1 AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
101964996 AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
1 AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
101965035 AA
1 AA
101965037 CTAGTTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (39 bp):
AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
Found at i:101966342 original size:2 final size:2
Alignment explanation
Indices: 101966335--101966360 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
101966325 AGTAAACACA
101966335 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
101966361 CTTTATGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101971355 original size:93 final size:92
Alignment explanation
Indices: 101971191--101971419 Score: 289
Period size: 93 Copynumber: 2.5 Consensus size: 92
101971181 TTATCTTCGA
* * * * * * *
101971191 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATATTGCCATGTTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCACATTGCCATGGTATCT
** * *
101971255 TTCAACCATGGTCTTATTCATTTTCCCGT
65 TTCAACCATGGTCTTACACA-TTTCACAT
* * *
101971284 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACATTGCCATGGTATCTT
*
101971349 TCAACCATGGTCTTACACATTTCATAT
66 TCAACCATGGTCTTACACATTTCACAT
*
101971376 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
101971420 ATCAAAAACA
Statistics
Matches: 117, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
92 50 0.43
93 67 0.57
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACATTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCACAT
Found at i:101971423 original size:46 final size:46
Alignment explanation
Indices: 101971191--101971419 Score: 289
Period size: 46 Copynumber: 5.0 Consensus size: 46
101971181 TTATCTTCGA
* * * * *
101971191 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATGT
* * * **
101971237 CATATTGCCATGTTATCTTTCAACCATGGTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
101971284 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
101971330 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
101971376 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
101971420 ATCAAAAACA
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
46 124 0.77
47 37 0.23
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:101973052 original size:18 final size:19
Alignment explanation
Indices: 101973003--101973052 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
101972993 TATAATATAA
101973003 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
101973023 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
101973043 TTATTTAATA
1 TTATTTAATA
101973053 TCTAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:101973468 original size:13 final size:13
Alignment explanation
Indices: 101973450--101973549 Score: 91
Period size: 13 Copynumber: 8.6 Consensus size: 13
101973440 AAATATCTTT
101973450 ACTCCACTAAACC
1 ACTCCACTAAACC
101973463 ACT-C-C--AACC
1 ACTCCACTAAACC
*
101973472 ACTACACTAAACC
1 ACTCCACTAAACC
101973485 ACTCCACTAAACC
1 ACTCCACTAAACC
101973498 AC-CC-C--AACC
1 ACTCCACTAAACC
101973507 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
101973520 ACTCCACTAAACC
1 ACTCCACTAAACC
101973533 AC-CC-C--AACC
1 ACTCCACTAAACC
101973542 ACTCCACT
1 ACTCCACT
101973550 TGCCTACAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 25
0.74 0.01 0.25
Matches are distributed among these distances:
9 21 0.28
10 3 0.04
11 6 0.08
12 5 0.07
13 37 0.50
14 2 0.03
ACGTcount: A:0.37, C:0.50, G:0.00, T:0.13
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:101973496 original size:35 final size:35
Alignment explanation
Indices: 101973450--101973549 Score: 166
Period size: 35 Copynumber: 2.9 Consensus size: 35
101973440 AAATATCTTT
* *
101973450 ACTCCACTAAACCACTCCAACCACTACACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCCACTAAACC
101973485 ACTCCACTAAACCACCCCAACCAC-CCTACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCC-ACTAAACC
101973520 ACTCCACTAAACCACCCCAACCACTCCACT
1 ACTCCACTAAACCACCCCAACCACTCCACT
101973550 TGCCTACAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.02
35 58 0.95
36 2 0.03
ACGTcount: A:0.37, C:0.50, G:0.00, T:0.13
Consensus pattern (35 bp):
ACTCCACTAAACCACCCCAACCACTCCACTAAACC
Found at i:101973541 original size:22 final size:24
Alignment explanation
Indices: 101973450--101973549 Score: 90
Period size: 22 Copynumber: 4.3 Consensus size: 24
101973440 AAATATCTTT
*
101973450 ACTCCACTAAACCACTC-C-AACC
1 ACTCCACTAAACCACCCACAAACC
*
101973472 ACTACACTAAACCACTCCACTAAACC
1 ACTCCACTAAACCAC-CCAC-AAACC
101973498 AC-CC-C--AACCACCCTACTAAACC
1 ACTCCACTAAACCACCC-AC-AAACC
101973520 ACTCCACTAAACCACCC-C-AACC
1 ACTCCACTAAACCACCCACAAACC
101973542 ACTCCACT
1 ACTCCACT
101973550 TGCCTACAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.03
22 42 0.64
23 3 0.05
24 4 0.06
25 1 0.02
26 14 0.21
ACGTcount: A:0.37, C:0.50, G:0.00, T:0.13
Consensus pattern (24 bp):
ACTCCACTAAACCACCCACAAACC
Found at i:101973837 original size:3 final size:3
Alignment explanation
Indices: 101973812--101973886 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
101973802 GTTTTATTTT
* *
101973812 TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA TGTA TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A T-TA T-TA
101973860 TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
101973887 ATATGCCCTC
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
2 5 0.09
3 44 0.76
4 7 0.12
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:101973843 original size:18 final size:18
Alignment explanation
Indices: 101973805--101973890 Score: 88
Period size: 18 Copynumber: 4.7 Consensus size: 18
101973795 GAGCTTTGTT
*
101973805 TTATT-TTT-TATTTTTA
1 TTATTATTTATATTATTA
*
101973821 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
101973839 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
101973860 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
101973878 TTA-TATTATATAT
1 TTATTATT-TATAT
101973891 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 26 0.44
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:101974008 original size:12 final size:13
Alignment explanation
Indices: 101973961--101974013 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
101973951 TTCTGACTAC
*
101973961 TATTATTATATA-
1 TATTATTATGTAT
101973973 TA-TA-TATGTAT
1 TATTATTATGTAT
*
101973984 TATTGTT-TGTAT
1 TATTATTATGTAT
101973996 TATTATTAT-TAT
1 TATTATTATGTAT
101974008 TATTAT
1 TATTAT
101974014 CACCCCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.68
13 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:101976722 original size:19 final size:19
Alignment explanation
Indices: 101976700--101976746 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
101976690 CTTCCTTTCT
101976700 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
101976719 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
101976738 TTTGCATTA
1 TTTGCATTA
101976747 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:101981680 original size:88 final size:87
Alignment explanation
Indices: 101981545--101982929 Score: 1134
Period size: 88 Copynumber: 15.8 Consensus size: 87
101981535 TAGCGGCGAA
* * * * *
101981545 GAACAGATCGAAGATTGCAGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGTACA
1 GAACAGATCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGA
* * * *
101981610 TCTGACATTCCTGTGCTTACAGT
65 TCTGGCATCCCTGTGCTTATAGG
** * * * *
101981633 GAAGCAGATCGAAGATTTCAGCA-TGGCATCCTTGTGCTTATAGGGAACA-AGTTGAAAACAGCA
1 GAA-CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCA
* * *
101981696 GATTTGGCATCCCTGTGCTTACAGT
63 GATCTGGCATCCCTGTGCTTATAGG
** * * * *
101981721 GAAGCAGATCGAAGATTTCAGCA-TGACATCCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCA
1 GAA-CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCA
*
101981784 GATTTGGCATCCCTGTGCTTATAGG
63 GATCTGGCATCCCTGTGCTTATAGG
* * * * **
101981809 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
1 GAACAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG
101981874 --CATGGCATCCCTGTGCTTATAGG
64 ATC-TGGCATCCCTGTGCTTATAGG
* * *
101981897 GAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTAT-GGGAACAGATCGAAGATAGCAG
1 GAACAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
* * * *
101981960 ATCTGACATTCCTGTGCTTACAGT
64 ATCTGGCATCCCTGTGCTTATAGG
*** * * *
101981984 GAAGCAGATCGAAGATTTTAGCA-TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCA
1 GAA-CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCA
* *
101982047 GATTTGGCATCCCTGTGCTTATGGG
63 GATCTGGCATCCCTGTGCTTATAGG
* ** * * * * **
101982072 GAACAGATCGAAGATAGTAGATCTGATATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAG
1 GAACAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG
101982137 --CATGGCATCCCTGTGCTTATAGG
64 ATC-TGGCATCCCTGTGCTTATAGG
* *
101982160 GAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAA
1 GAACAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
* * * *
101982224 ATCTGACATTCCTGTGCTTACAGT
64 ATCTGGCATCCCTGTGCTTATAGG
** * * **
101982248 GAAGCAGATCGAAGATTTCAGCA-TGGCATCCTTGTGTTTATAGGGAACA-AGTTAAAGATAGCA
1 GAA-CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCA
*
101982311 GATTTGGCATCCCTGTGCTTATAGG
63 GATCTGGCATCCCTGTGCTTATAGG
* * * * **
101982336 GAACAGATCGAAGACAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATCGAAGATTTCAG
1 GAACAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG
101982401 --CATGGCATCCCTGTGCTTATAGG
64 ATC-TGGCATCCCTGTGCTTATAGG
* * * * *
101982424 GAACA-AGTTGAAAACAGCAGATTTGGCATCCTTGTACTTATAGGGAACAGATCGAAGATAGCAG
1 GAACAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
* * * *
101982488 ATCTGACATTCCTGTGCTTACAGT
64 ATCTGGCATCCCTGTGCTTATAGG
* ** * * * *
101982512 GAAGCAGATCAAAGATTTCAGCA-TGTCATCCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCA
1 GAA-CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCA
* *
101982575 GATTTGGCATCCCTGTGCTTATGGG
63 GATCTGGCATCCCTGTGCTTATAGG
* * * * ***
101982600 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTTAG
1 GAACAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG
101982665 --CATGGCATCCCTGTGCTTATAGG
64 ATC-TGGCATCCCTGTGCTTATAGG
* * *
101982688 GAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAGCAG
1 GAACAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
* * * *
101982752 ATCTGACATTCCTATGCTTA-CGG
64 ATCTGGCATCCCTGTGCTTATAGG
** * * * *
101982775 TGAAGCAGATCGAAGATTTCAGCA-TGGAATCCCTATGCTTATAGGGAACA-AGTTGAAGATTGC
1 -GAA-CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGC
* *
101982838 AGATTTGGCATCCCTGTGTTTATAGG
62 AGATCTGGCATCCCTGTGCTTATAGG
* * * *
101982864 GAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA-AGCAG
1 GAACAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
101982927 ATC
64 ATC
101982930 AACAACTCAA
Statistics
Matches: 1038, Mismatches: 197, Indels: 125
0.76 0.14 0.09
Matches are distributed among these distances:
86 21 0.02
87 170 0.16
88 736 0.71
89 100 0.10
90 11 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (87 bp):
GAACAGATCGAAGATAGCAGATTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGAT
CTGGCATCCCTGTGCTTATAGG
Found at i:101981749 original size:132 final size:131
Alignment explanation
Indices: 101981656--101982921 Score: 1975
Period size: 132 Copynumber: 9.6 Consensus size: 131
101981646 GATTTCAGCA
* * * * * * *
101981656 TGGCATCCTTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
*
101981720 TGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG
65 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG
101981785 ATT
130 A-T
101981788 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
101981853 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
101981918 TT
131 -T
101981920 TGGCATCCCTGTGCTTAT-GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
101981984 GAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
101982049 TT
131 -T
* * * *
101982051 TGGCATCCCTGTGCTTATGGGGAACAGATCGAAGATAGTAGATCTGATATTCCTATGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
101982116 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
101982181 TT
131 -T
*
101982183 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
101982248 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTT-AAAGATAGCAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACAGCAG
101982312 ATT
130 A-T
* *
101982315 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGACAGCAGATCTGACATTCCTGTGCTTATAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
101982380 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
101982445 TT
131 -T
* *
101982447 TGGCATCCTTGTACTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
101982512 GAAGCAGATCAAAGATTTCAGCATGTCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
101982577 TT
131 -T
*
101982579 TGGCATCCCTGTGCTTATGGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
101982644 GAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
101982709 TT
131 -T
* * *
101982711 TGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * * **
101982776 GAAGCAGATCGAAGATTTCAGCATGGAATCCCTATGCTTATAGGGAACAAGTTGAAGATTGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
101982841 TT
131 -T
* * * * * * * **
101982843 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATGG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
*
101982907 GGAA-CAGATCGAAGA
65 TGAAGCAGATCGAAGA
101982922 AGCAGATCAA
Statistics
Matches: 1067, Mismatches: 62, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
131 144 0.13
132 919 0.86
133 4 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (131 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
T
Found at i:101983208 original size:9 final size:9
Alignment explanation
Indices: 101983194--101983274 Score: 72
Period size: 9 Copynumber: 8.1 Consensus size: 9
101983184 TACTCCACTA
101983194 AACCACTCC
1 AACCACTCC
101983203 AACCACTCC
1 AACCACTCC
*
101983212 AACAACTCCAC
1 AACCACT-C-C
101983223 TAAACCACTCC
1 --AACCACTCC
101983234 AACCACTCC
1 AACCACTCC
*
101983243 AACAACTCCAC
1 AACCACT-C-C
101983254 TAAACCACTCC
1 --AACCACTCC
101983265 AACCACTCC
1 AACCACTCC
101983274 A
1 A
101983275 CTAAACCACT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
9 40 0.67
10 2 0.03
11 4 0.07
12 2 0.03
13 12 0.20
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.12
Consensus pattern (9 bp):
AACCACTCC
Found at i:101983210 original size:22 final size:22
Alignment explanation
Indices: 101983185--101983335 Score: 154
Period size: 22 Copynumber: 6.9 Consensus size: 22
101983175 AAATATCTTT
101983185 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
* *
101983207 ACTCCAAC-AACTCCACT-AAACC
1 ACTCC-ACTAA-ACCACTCCAACC
*
101983229 ACT-C-C--AACCACTCCAACA
1 ACTCCACTAAACCACTCCAACC
101983247 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
101983269 ACTCCACTAAACCACTCCACTAAACC
1 ACTCCACTAAACCACT-C-C--AACC
*
101983295 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
101983317 AC-CCTACTAAACCACTCCA
1 ACTCC-ACTAAACCACTCCA
101983336 CTAAACCACC
Statistics
Matches: 109, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
17 5 0.05
18 7 0.06
19 2 0.02
20 1 0.01
21 3 0.03
22 61 0.56
23 8 0.07
24 2 0.02
25 1 0.01
26 19 0.17
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:101983220 original size:31 final size:31
Alignment explanation
Indices: 101983185--101983335 Score: 187
Period size: 31 Copynumber: 4.6 Consensus size: 31
101983175 AAATATCTTT
101983185 ACTCCACTAAACCACTCCAACCACTCCAACA
1 ACTCCACTAAACCACTCCAACCACTCCAACA
101983216 ACTCCACTAAACCACTCCAACCACTCCAACA
1 ACTCCACTAAACCACTCCAACCACTCCAACA
*
101983247 ACTCCACTAAACCACTCCAACCACTCCACTAAACC
1 ACTCCACTAAACCACTCCAACCACT-C-C--AACA
* *
101983282 ACTCCACTAAACCACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACT-C-C--AACCACTCCAACA
101983317 AC-CCTACTAAACCACTCCA
1 ACTCC-ACTAAACCACTCCA
101983336 CTAAACCACC
Statistics
Matches: 109, Mismatches: 2, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
31 57 0.52
32 1 0.01
33 2 0.02
34 3 0.03
35 36 0.33
36 1 0.01
37 2 0.02
38 1 0.01
39 6 0.06
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (31 bp):
ACTCCACTAAACCACTCCAACCACTCCAACA
Found at i:101983265 original size:13 final size:13
Alignment explanation
Indices: 101983247--101983359 Score: 126
Period size: 13 Copynumber: 9.6 Consensus size: 13
101983237 CACTCCAACA
101983247 ACTCCACTAAACC
1 ACTCCACTAAACC
101983260 ACT-C-C--AACC
1 ACTCCACTAAACC
101983269 ACTCCACTAAACC
1 ACTCCACTAAACC
101983282 ACTCCACTAAACC
1 ACTCCACTAAACC
101983295 ACTCCACTAAACC
1 ACTCCACTAAACC
101983308 AC-CC-C--AACC
1 ACTCCACTAAACC
101983317 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
101983330 ACTCCACTAAACC
1 ACTCCACTAAACC
101983343 AC-CC-C--AACC
1 ACTCCACTAAACC
101983352 ACTCCACT
1 ACTCCACT
101983360 TGCCAACAAA
Statistics
Matches: 88, Mismatches: 0, Indels: 25
0.78 0.00 0.22
Matches are distributed among these distances:
9 21 0.24
10 3 0.03
11 6 0.07
12 5 0.06
13 51 0.58
14 2 0.02
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.13
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:101983303 original size:48 final size:48
Alignment explanation
Indices: 101983247--101983344 Score: 171
Period size: 48 Copynumber: 2.0 Consensus size: 48
101983237 CACTCCAACA
*
101983247 ACTCCACTAAACCACTCCAACCACTCC-ACTAAACCACTCCACTAAACC
1 ACTCCACTAAACCACCCCAACCAC-CCTACTAAACCACTCCACTAAACC
101983295 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACC
1 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACC
101983343 AC
1 AC
101983345 CCCAACCACT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 2 0.04
48 46 0.96
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (48 bp):
ACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACC
Found at i:101983636 original size:3 final size:3
Alignment explanation
Indices: 101983625--101983707 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
101983615 TTTTATTTTT
* *
101983625 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
101983668 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
101983708 ATATACCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:101983682 original size:21 final size:18
Alignment explanation
Indices: 101983629--101983711 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
101983619 ATTTTTTTAT
* *
101983629 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
101983648 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
101983666 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
101983687 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
101983704 TTATATAT
1 TT-TATAT
101983712 ACCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:101983788 original size:3 final size:3
Alignment explanation
Indices: 101983782--101983832 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
101983772 TTCTGACTAC
*
101983782 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
101983830 TAT
1 TAT
101983833 CACTCCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:101991879 original size:52 final size:51
Alignment explanation
Indices: 101991779--101991974 Score: 250
Period size: 51 Copynumber: 3.8 Consensus size: 51
101991769 ACGGATACCG
* * **
101991779 GTGGCCTGCACATAGTACCACCCTTGTAGT-CAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTCTTCACAAA
* * * * *
101991830 GTCGCCTTCACATAGTATCACACTTTTGACCAAAACTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTAT-TTTCTTCACAAA
* * *
101991882 GTGGCCTTCACATAGAACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTCTTCACAAA
*
101991933 GTGGCTTTCACATAGTACCACACTTGTGTCCAAAGCTATTTT
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTT
101991975 ATTCCTAAGG
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
50 1 0.01
51 78 0.63
52 44 0.36
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTCTTCACAAA
Found at i:101991966 original size:103 final size:103
Alignment explanation
Indices: 101991779--101991971 Score: 255
Period size: 103 Copynumber: 1.9 Consensus size: 103
101991769 ACGGATACCG
* * *
101991779 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAAGTCGCCTTCACATA
1 GTGGCCTGCACATAGAACCACACTTGTAGTCAAAGCTACCTTATTCACAAAGTCGCCTTCACATA
* *
101991844 GTATCACACTTTTGACCAAAACTATCTTTCTTCACAAA
66 GTACCACACTTGTGACCAAAACTATCTTTCTTCACAAA
* * * *
101991882 GTGGCCTTCACATAGAACCACACTTGT-GTCCAAAGCTA-TTATATTCACAAAGTGGCTTTCACA
1 GTGGCCTGCACATAGAACCACACTTGTAGT-CAAAGCTACCT-TATTCACAAAGTCGCCTTCACA
* *
101991945 TAGTACCACACTTGTGTCCAAAGCTAT
64 TAGTACCACACTTGTGACCAAAACTAT
101991972 TTTATTCCTA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
102 3 0.04
103 74 0.96
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (103 bp):
GTGGCCTGCACATAGAACCACACTTGTAGTCAAAGCTACCTTATTCACAAAGTCGCCTTCACATA
GTACCACACTTGTGACCAAAACTATCTTTCTTCACAAA
Found at i:101994286 original size:3 final size:3
Alignment explanation
Indices: 101994278--101994321 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
101994268 AAACTAACCA
101994278 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
101994322 CATTTTGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:101994780 original size:26 final size:26
Alignment explanation
Indices: 101994744--101994795 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
101994734 CACACAGCCG
101994744 TGCCCTTGTCGAGCCCAAGTCTAATT
1 TGCCCTTGTCGAGCCCAAGTCTAATT
101994770 TGCCCTTGTCGAGCCCAAGTCTAATT
1 TGCCCTTGTCGAGCCCAAGTCTAATT
101994796 CTACTCGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (26 bp):
TGCCCTTGTCGAGCCCAAGTCTAATT
Found at i:101999567 original size:20 final size:21
Alignment explanation
Indices: 101999529--101999567 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
101999519 CTGTTTATCT
*
101999529 TTTATTAATTCTTTATTTGTG
1 TTTATTAATTCTATATTTGTG
*
101999550 TTTATT-ATTCTATGTTTG
1 TTTATTAATTCTATATTTG
101999568 ACTTAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (21 bp):
TTTATTAATTCTATATTTGTG
Found at i:102006599 original size:25 final size:25
Alignment explanation
Indices: 102006561--102006608 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
102006551 TTGTAAATTA
102006561 GAAAAATATCTCTAGA-AATTTTTT
1 GAAAAATATCTCTAGAGAATTTTTT
*
102006585 GAAATAATCTCTCTAGAGAATTTT
1 GAAA-AATATCTCTAGAGAATTTT
102006609 CTCTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (25 bp):
GAAAAATATCTCTAGAGAATTTTTT
Found at i:102007399 original size:18 final size:19
Alignment explanation
Indices: 102007363--102007401 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
102007353 AATTTAAAAG
102007363 ATTAATTTTCCCAAAATTA
1 ATTAATTTTCCCAAAATTA
102007382 ATTAGATTTT-CC-AAATTA
1 ATTA-ATTTTCCCAAAATTA
102007400 AT
1 AT
102007402 ATTTCAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 6 0.32
20 5 0.26
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTAATTTTCCCAAAATTA
Found at i:102010516 original size:25 final size:25
Alignment explanation
Indices: 102010487--102010534 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
102010477 TTATAATATG
* * *
102010487 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
102010512 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
102010535 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:102010603 original size:20 final size:20
Alignment explanation
Indices: 102010578--102010636 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
102010568 TAAATATGGT
*
102010578 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
102010598 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
102010618 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
102010637 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:102010743 original size:24 final size:24
Alignment explanation
Indices: 102010687--102010862 Score: 266
Period size: 24 Copynumber: 7.4 Consensus size: 24
102010677 GAGGAAGTGA
102010687 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
102010710 TAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
102010734 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
102010758 AAAAGGGCTTATGCCCCATTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
102010782 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
102010805 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
102010829 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
102010853 AAAAGAGGCT
1 AAAAG-GGCT
102010863 AGGCCTCTAG
Statistics
Matches: 141, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
23 44 0.31
24 93 0.66
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:102010756 original size:47 final size:47
Alignment explanation
Indices: 102010687--102010862 Score: 271
Period size: 47 Copynumber: 3.7 Consensus size: 47
102010677 GAGGAAGTGA
* *
102010687 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
*
102010734 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCATTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
102010782 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
102010829 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
102010863 AGGCCTCTAG
Statistics
Matches: 119, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 65 0.55
48 50 0.42
49 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:102010809 original size:71 final size:71
Alignment explanation
Indices: 102010687--102010862 Score: 264
Period size: 71 Copynumber: 2.5 Consensus size: 71
102010677 GAGGAAGTGA
* *
102010687 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
102010752 GTTATC
66 GTTATC
*
102010758 AAAAGGGCTTATGCCCCATTTATCAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
*
102010822 AGTTATT
65 AGTTATC
* *
102010829 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
102010863 AGGCCTCTAG
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
71 69 0.73
72 26 0.27
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:102011103 original size:31 final size:31
Alignment explanation
Indices: 102011068--102011131 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
102011058 CGGTTACAGT
102011068 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
102011099 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
102011130 AA
1 AA
102011132 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:102012215 original size:20 final size:20
Alignment explanation
Indices: 102012160--102012216 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
102012150 AAAAAAAAAA
*
102012160 ATTGTTTCT-GTGTTTTGCT
1 ATTGTTTCTACTGTTTTGCT
* *
102012179 ATTGTTTCCACTATTTTGCT
1 ATTGTTTCTACTGTTTTGCT
* *
102012199 GTTGTTTCTATTGTTTTG
1 ATTGTTTCTACTGTTTTG
102012217 TTGCTGTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.61
Consensus pattern (20 bp):
ATTGTTTCTACTGTTTTGCT
Found at i:102012237 original size:22 final size:23
Alignment explanation
Indices: 102012194--102012238 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
102012184 TTCCACTATT
*
102012194 TTGCTGTTGTTTCTATTGTTTTG
1 TTGCTGTTGTTTCTATTATTTTG
* *
102012217 TTGCTG-TGTTTTTTTTATTTTG
1 TTGCTGTTGTTTCTATTATTTTG
102012239 CTGTCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.04, C:0.07, G:0.20, T:0.69
Consensus pattern (23 bp):
TTGCTGTTGTTTCTATTATTTTG
Found at i:102012484 original size:17 final size:19
Alignment explanation
Indices: 102012442--102012485 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
102012432 TCATATTTTT
*
102012442 TAAATTTATATTTATATAA
1 TAAATTAATATTTATATAA
102012461 -AAA-TAATA-TTATA-AA
1 TAAATTAATATTTATATAA
102012476 TAAATTAATA
1 TAAATTAATA
102012486 CGGGCGGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.09
16 8 0.36
17 9 0.41
18 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATTAATATTTATATAA
Found at i:102019892 original size:6 final size:6
Alignment explanation
Indices: 102019881--102019908 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
102019871 AATCATTTAA
102019881 CAATAT CAATAT CAATAT CAATAT CAAT
1 CAATAT CAATAT CAATAT CAATAT CAAT
102019909 TTCATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
CAATAT
Found at i:102027698 original size:26 final size:26
Alignment explanation
Indices: 102027661--102027744 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
102027651 TGATACAAAT
* *
102027661 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
102027687 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
102027713 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
102027739 TGATAA
1 TGATAA
102027745 GAATTTCATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:102031536 original size:18 final size:18
Alignment explanation
Indices: 102031485--102031537 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
102031475 CCGGCACTCT
* *
102031485 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* *
102031503 GTAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
102031521 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
102031538 CGTAGCAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:102031736 original size:48 final size:48
Alignment explanation
Indices: 102031675--102031783 Score: 173
Period size: 48 Copynumber: 2.3 Consensus size: 48
102031665 CCGTAACGGT
** * *
102031675 AACAGTCTTAGTCATGGTACACAAAGTACCTCATCGGAACTAATCTGA
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGA
*
102031723 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGGAACGAATCTGA
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGA
102031771 AACAGTCACAGTC
1 AACAGTCACAGTC
102031784 TGGCGACACT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGA
Found at i:102032064 original size:3 final size:3
Alignment explanation
Indices: 102032056--102032121 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
102032046 ATTCAATACC
102032056 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
102032104 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
102032122 CTTACCATTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:102032851 original size:3 final size:3
Alignment explanation
Indices: 102032811--102032838 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
102032801 TTATATATAT
102032811 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
102032839 CAACTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:102032971 original size:57 final size:57
Alignment explanation
Indices: 102032902--102033016 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
102032892 TACATATACT
102032902 AATATTACACATGTCACTATACATACCATACATTTGTCAACTTTTTATTTATTTTCC
1 AATATTACACATGTCACTATACATACCATACATTTGTCAACTTTTTATTTATTTTCC
*
102032959 AATATTATACATGTCACTATACATACCATACATTTGTCAACTTTTTATTTATTTTCC
1 AATATTACACATGTCACTATACATACCATACATTTGTCAACTTTTTATTTATTTTCC
102033016 A
1 A
102033017 CATAAAAATC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.44
Consensus pattern (57 bp):
AATATTACACATGTCACTATACATACCATACATTTGTCAACTTTTTATTTATTTTCC
Found at i:102033207 original size:30 final size:31
Alignment explanation
Indices: 102033171--102033228 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
102033161 TACTTTTATT
*
102033171 TATTTACTTAAATAATAA-TAAATACATTAA
1 TATTTACTTAAATAATAAGCAAATACATTAA
102033201 TATTTACTTAAATAATAAGCAAATACAT
1 TATTTACTTAAATAATAAGCAAATACAT
102033229 ACATGTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (31 bp):
TATTTACTTAAATAATAAGCAAATACATTAA
Found at i:102034395 original size:20 final size:20
Alignment explanation
Indices: 102034370--102034407 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
102034360 CTTTGTAACT
102034370 CAAAATTTATAT-TTTTGACC
1 CAAAATTT-TATGTTTTGACC
102034390 CAAAATTTTATGTTTTGA
1 CAAAATTTTATGTTTTGA
102034408 TCATATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (20 bp):
CAAAATTTTATGTTTTGACC
Found at i:102037644 original size:15 final size:15
Alignment explanation
Indices: 102037616--102037656 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
102037606 ATAAGTCTTA
*
102037616 AGAAAAAA-ATAAAT
1 AGAAAAAATAAAAAT
102037630 AGAAAAAATAAAAAT
1 AGAAAAAATAAAAAT
102037645 A-AATAAAATAAA
1 AGAA-AAAATAAA
102037657 TGGACTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (15 bp):
AGAAAAAATAAAAAT
Found at i:102039209 original size:3 final size:3
Alignment explanation
Indices: 102039201--102039255 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
102039191 AATGCATAAC
102039201 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
102039249 ATA ATA A
1 ATA ATA A
102039256 CAAAACAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:102045561 original size:19 final size:19
Alignment explanation
Indices: 102045537--102045580 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
102045527 GTACTTGTGT
102045537 CTTTAAGTGACATTTATGC
1 CTTTAAGTGACATTTATGC
* *
102045556 CTTTAAGTGACTTTTATGT
1 CTTTAAGTGACATTTATGC
102045575 CTTTAA
1 CTTTAA
102045581 ATGTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (19 bp):
CTTTAAGTGACATTTATGC
Found at i:102047211 original size:30 final size:29
Alignment explanation
Indices: 102047177--102047236 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
102047167 GATAATAATT
*
102047177 AAATAAGTA-TTCAAATTTTTTAAAATTTAA
1 AAATAAGTACTT--AATATTTTAAAATTTAA
*
102047207 AAATAATTACTTAATATTTTAAAATTTAA
1 AAATAAGTACTTAATATTTTAAAATTTAA
102047236 A
1 A
102047237 TTTTGATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 17 0.63
30 8 0.30
31 2 0.07
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
AAATAAGTACTTAATATTTTAAAATTTAA
Found at i:102049235 original size:74 final size:74
Alignment explanation
Indices: 102049114--102049262 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
102049104 TGAAGAAAAA
102049114 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
1 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
102049179 ATAAAAATT
66 ATAAAAATT
102049188 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
1 TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
102049253 ATAAAAATT
66 ATAAAAATT
102049262 T
1 T
102049263 CAACACACGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (74 bp):
TATTTTGATTTAAGGAGGTGATTAAAAACTAAGATTTTCAACTAAGTAAAATAAATAAATAAATA
ATAAAAATT
Found at i:102050687 original size:21 final size:22
Alignment explanation
Indices: 102050661--102050717 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
102050651 TTGTAAAGAG
*
102050661 AGGCACATGGCCGTGT-GACTA
1 AGGCACATGGCCGTGTGGACCA
*
102050682 AGGCACA-CGCCTGTGTGGACCA
1 AGGCACATGGCC-GTGTGGACCA
102050704 AGG-ACATGGCCGTG
1 AGGCACATGGCCGTG
102050718 GGAACAGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 17 0.57
22 10 0.33
ACGTcount: A:0.23, C:0.26, G:0.35, T:0.16
Consensus pattern (22 bp):
AGGCACATGGCCGTGTGGACCA
Found at i:102052969 original size:22 final size:22
Alignment explanation
Indices: 102052941--102052983 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
102052931 TATTTAACCC
102052941 AAATTAAATTAGATTA-AAATTA
1 AAATT-AATTAGATTATAAATTA
*
102052963 AAATTAATTATATTATAAATT
1 AAATTAATTAGATTATAAATT
102052984 GATACACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATTAATTAGATTATAAATTA
Found at i:102053147 original size:22 final size:22
Alignment explanation
Indices: 102053121--102053164 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
102053111 GAAAATAATC
102053121 AAAATGAA-TCAAAATTTATTAT
1 AAAATGAAGT-AAAATTTATTAT
*
102053143 AAAATTAAGTAAAATTTATTAT
1 AAAATGAAGTAAAATTTATTAT
102053165 GTTAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
AAAATGAAGTAAAATTTATTAT
Found at i:102053177 original size:27 final size:27
Alignment explanation
Indices: 102053147--102053200 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
102053137 TATTATAAAA
102053147 TTAAGTAAAATTT-ATTATGTTAATAAT
1 TTAAGTAAAATTTAATTAT-TTAATAAT
* *
102053174 TTAAGTACAATTTAATTATTTTATAAT
1 TTAAGTAAAATTTAATTATTTAATAAT
102053201 AATTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (27 bp):
TTAAGTAAAATTTAATTATTTAATAAT
Found at i:102056850 original size:21 final size:21
Alignment explanation
Indices: 102056818--102056872 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
102056808 AAAATAAGGC
* *
102056818 CACACAGC-CGTGTAGAAGTGG
1 CACAC-GCTCGTGTAGAAGAGA
* *
102056839 CACACGGTCGTGTAGAGGAGA
1 CACACGCTCGTGTAGAAGAGA
102056860 CACACGCTCGTGT
1 CACACGCTCGTGT
102056873 GTTAGATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.16
Consensus pattern (21 bp):
CACACGCTCGTGTAGAAGAGA
Found at i:102060431 original size:2 final size:2
Alignment explanation
Indices: 102060424--102060451 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
102060414 ACGTGTGAAA
102060424 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
102060452 TGTGTGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:102060456 original size:2 final size:2
Alignment explanation
Indices: 102060451--102060485 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
102060441 GAGAGAGAGA
102060451 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
102060486 AGTGAGAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:102060494 original size:2 final size:2
Alignment explanation
Indices: 102060489--102060523 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
102060479 GTGTGTGAGT
102060489 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
102060524 TGGGTGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:102060567 original size:16 final size:16
Alignment explanation
Indices: 102060527--102060575 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
102060517 GAGAGAGTGG
*
102060527 GTGTGTGTGTGTGTGT
1 GTGTGTGTATGTGTGT
102060543 GTGTGTGTATGTGTGT
1 GTGTGTGTATGTGTGT
*
102060559 GTGTGTGTATATGTGT
1 GTGTGTGTATGTGTGT
102060575 G
1 G
102060576 GTGAGACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.06, C:0.00, G:0.45, T:0.49
Consensus pattern (16 bp):
GTGTGTGTATGTGTGT
Found at i:102060571 original size:18 final size:18
Alignment explanation
Indices: 102060534--102060575 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
102060524 TGGGTGTGTG
*
102060534 TGTGTGTGTGTGTGTGTA
1 TGTGTGTGTGTGTGTATA
102060552 TGTGTGTGTGTGTGTATA
1 TGTGTGTGTGTGTGTATA
102060570 TGTGTG
1 TGTGTG
102060576 GTGAGACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (18 bp):
TGTGTGTGTGTGTGTATA
Found at i:102060573 original size:8 final size:8
Alignment explanation
Indices: 102060528--102060574 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
102060518 AGAGAGTGGG
*
102060528 TGTGTGTG
1 TGTGTGTA
*
102060536 TGTGTGTG
1 TGTGTGTA
102060544 TGTGTGTA
1 TGTGTGTA
*
102060552 TGTGTGTG
1 TGTGTGTA
102060560 TGTGTGTA
1 TGTGTGTA
*
102060568 TATGTGT
1 TGTGTGT
102060575 GGTGAGACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.06, C:0.00, G:0.43, T:0.51
Consensus pattern (8 bp):
TGTGTGTA
Found at i:102060575 original size:2 final size:2
Alignment explanation
Indices: 102060527--102060566 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
102060517 GAGAGAGTGG
*
102060527 GT GT GT GT GT GT GT GT GT GT GT GT AT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
102060567 ATATGTGTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
GT
Found at i:102063571 original size:17 final size:17
Alignment explanation
Indices: 102063551--102063586 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
102063541 CTAATTTAGT
*
102063551 AATTGAACTTACGATAC
1 AATTGAACCTACGATAC
102063568 AATTGAACCTACGATAC
1 AATTGAACCTACGATAC
102063585 AA
1 AA
102063587 AATAAGTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (17 bp):
AATTGAACCTACGATAC
Found at i:102063616 original size:17 final size:17
Alignment explanation
Indices: 102063594--102063627 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
102063584 CAAAATAAGT
102063594 CGTAGTGGTGAAGTTTA
1 CGTAGTGGTGAAGTTTA
102063611 CGTAGTGGTGAAGTTTA
1 CGTAGTGGTGAAGTTTA
102063628 TCTTTAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.35, T:0.35
Consensus pattern (17 bp):
CGTAGTGGTGAAGTTTA
Found at i:102066244 original size:68 final size:68
Alignment explanation
Indices: 102066171--102066298 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
102066161 TAGCTAAGCT
* * * *
102066171 ATGGTCTTAAACAATATGGTCCCATGTTTAATGTCCTGGC-GAACTCCCTTTATTACCATATCCG
1 ATGGTCTTAAACAATATGGTCCCATATTGAACGTCCTGACAG-ACTCCCTTTATTACCATATCCG
102066235 AGTA
65 AGTA
* * * *
102066239 ATGGTCTTACATATTATGGTCCCATATTGAACGTCCTGACAGACTCCCTTTGTTACCATA
1 ATGGTCTTAAACAATATGGTCCCATATTGAACGTCCTGACAGACTCCCTTTATTACCATA
102066299 GTCGAACTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 50 0.98
69 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (68 bp):
ATGGTCTTAAACAATATGGTCCCATATTGAACGTCCTGACAGACTCCCTTTATTACCATATCCGA
GTA
Found at i:102072310 original size:42 final size:42
Alignment explanation
Indices: 102072263--102072344 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
102072253 ATATATTTTT
* *
102072263 AAATTTTATAATAATTTATTTTCATAAATGAAACAACTATTG
1 AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTATTG
102072305 AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTAT
1 AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTAT
102072345 ATAATTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (42 bp):
AAATTTTATAATAATTTATTTTCAAAAATAAAACAACTATTG
Found at i:102075350 original size:17 final size:18
Alignment explanation
Indices: 102075318--102075351 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102075308 CGTGTGCCTT
*
102075318 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGAGCCCACAC
102075336 GCCCGTGT-AGCCCACA
1 GCCCGTGTGAGCCCACA
102075352 TGACCCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGAGCCCACAC
Found at i:102075609 original size:146 final size:145
Alignment explanation
Indices: 102075358--102075630 Score: 465
Period size: 146 Copynumber: 1.9 Consensus size: 145
102075348 CACATGACCC
* * * *
102075358 AACTTGTCTTTGCCCGTGTGGATCACACGGTTTGGACCAAAGTCCTACACGCCCGTGTGGCTTAC
1 AACTTGCCTTTGCCCGTGTGGATCACACGGTCTGGACCAAAGTCCCACACACCCGTGTGGCTTAC
* * * *
102075423 CCACATGCCCGTGCGGCCTACACGGCCCAATTGTTCGAGCCTGTGCCTAGCACATGGCCTCGTGT
66 CCACATGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCACACGGCCTCGTGT
102075488 GGGCCCACACGGCCG
131 GGGCCCACACGGCCG
102075503 AACTTGCCTTTGCCCGTGTGGATCACACGGTCTGGACCAAAGTCCCACCACACCCGTGTGGCTTA
1 AACTTGCCTTTGCCCGTGTGGATCACACGGTCTGGACCAAAGTCCCA-CACACCCGTGTGGCTTA
102075568 CCCACATGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCACACGGCCTCG
65 CCCACATGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCACACGGCCTCG
102075631 CCAGCCTCAC
Statistics
Matches: 119, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
145 44 0.37
146 75 0.63
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.21
Consensus pattern (145 bp):
AACTTGCCTTTGCCCGTGTGGATCACACGGTCTGGACCAAAGTCCCACACACCCGTGTGGCTTAC
CCACATGCCCGTACGGCCTACACGGCCCAATTGGTAGAGCCTGTGCCTAGCACACGGCCTCGTGT
GGGCCCACACGGCCG
Found at i:102082228 original size:38 final size:40
Alignment explanation
Indices: 102082177--102082271 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
102082167 CTATTTCCGA
* *
102082177 CCAACCCAACACACCATGTA-GG-GATAGAATCGACCCAC
1 CCAACCCAACACACCAAGTATGGAGATAGAATCAACCCAC
* * *
102082215 CCAACCCTACACACCAAGTATGGAGATATAATCAACCCAT
1 CCAACCCAACACACCAAGTATGGAGATAGAATCAACCCAC
* *
102082255 CTAACCCCACACACCAA
1 CCAACCCAACACACCAA
102082272 AAGGTATCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 18 0.38
39 2 0.04
40 28 0.58
ACGTcount: A:0.39, C:0.38, G:0.11, T:0.13
Consensus pattern (40 bp):
CCAACCCAACACACCAAGTATGGAGATAGAATCAACCCAC
Found at i:102082657 original size:18 final size:18
Alignment explanation
Indices: 102082634--102082678 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
102082624 ATGTACCCTG
102082634 CCCGTGTGGGTCCACACA
1 CCCGTGTGGGTCCACACA
102082652 CCCGTGTGGGTCCACACA
1 CCCGTGTGGGTCCACACA
*
102082670 CTCGTGTGG
1 CCCGTGTGG
102082679 CACATACGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.36, G:0.31, T:0.20
Consensus pattern (18 bp):
CCCGTGTGGGTCCACACA
Found at i:102082768 original size:21 final size:21
Alignment explanation
Indices: 102082744--102082786 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
102082734 CTCACACACC
*
102082744 CATGTGGCTAACCCACACGCT
1 CATGCGGCTAACCCACACGCT
*
102082765 CATGCGGCTCACCCACACGCT
1 CATGCGGCTAACCCACACGCT
102082786 C
1 C
102082787 GTACGACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.44, G:0.19, T:0.16
Consensus pattern (21 bp):
CATGCGGCTAACCCACACGCT
Found at i:102090815 original size:17 final size:18
Alignment explanation
Indices: 102090793--102090832 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
102090783 AAACCCTAAA
*
102090793 CTAAAAAA-TCATAAACC
1 CTAAAAAATTCAAAAACC
*
102090810 CTAAAAAATTTAAAAACC
1 CTAAAAAATTCAAAAACC
102090828 CTAAA
1 CTAAA
102090833 CCTAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (18 bp):
CTAAAAAATTCAAAAACC
Found at i:102090822 original size:40 final size:42
Alignment explanation
Indices: 102090778--102090855 Score: 124
Period size: 40 Copynumber: 1.9 Consensus size: 42
102090768 CCTGAACTCG
*
102090778 TTTAAAAACCCTAAA-CTAAAAA-ATCATAAACCCTAAAAAA
1 TTTAAAAACCCTAAACCTAAAAATATCAAAAACCCTAAAAAA
*
102090818 TTTAAAAACCCTAAACCTAAAAATATTAAAAACCCTAA
1 TTTAAAAACCCTAAACCTAAAAATATCAAAAACCCTAA
102090856 CCTTGGGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 15 0.44
41 7 0.21
42 12 0.35
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.22
Consensus pattern (42 bp):
TTTAAAAACCCTAAACCTAAAAATATCAAAAACCCTAAAAAA
Found at i:102090836 original size:24 final size:25
Alignment explanation
Indices: 102090804--102090855 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
102090794 TAAAAAATCA
102090804 TAAACCCTAAAAA-ATTTAAAAACCC
1 TAAACCCTAAAAATA-TTAAAAACCC
102090829 TAAA-CCTAAAAATATTAAAAACCC
1 TAAACCCTAAAAATATTAAAAACCC
102090853 TAA
1 TAA
102090856 CCTTGGGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (25 bp):
TAAACCCTAAAAATATTAAAAACCC
Found at i:102102911 original size:38 final size:38
Alignment explanation
Indices: 102102860--102102935 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
102102850 TTAAGGGGTT
102102860 TTATGGAAGAGGTGGAGAACTTGTTCGTTGAGAGTTCG
1 TTATGGAAGAGGTGGAGAACTTGTTCGTTGAGAGTTCG
102102898 TTATGGAAGAGGTGGAGAACTTGTTCGTTGAGAGTTCG
1 TTATGGAAGAGGTGGAGAACTTGTTCGTTGAGAGTTCG
102102936 CAATGAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.08, G:0.37, T:0.32
Consensus pattern (38 bp):
TTATGGAAGAGGTGGAGAACTTGTTCGTTGAGAGTTCG
Found at i:102104752 original size:43 final size:41
Alignment explanation
Indices: 102104689--102104810 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 41
102104679 TACTATACTA
**
102104689 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGA-ATGGTCTTACATGAAATCTCATATCG
*
102104731 ATGCCAATAGCCCAGCAATGGTCTTACATGAAATCTCATATCG
1 ATGCC-ATATCCCAG-AATGGTCTTACATGAAATCTCATATCG
* *
102104774 ATGCCATATCCCAGAAATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAG-AATGGTCTTACATGAAATCTCA
102104811 ACTAACCCTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
42 33 0.46
43 37 0.52
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (41 bp):
ATGCCATATCCCAGAATGGTCTTACATGAAATCTCATATCG
Found at i:102123780 original size:25 final size:25
Alignment explanation
Indices: 102123719--102123782 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
102123709 TATTTTAAGT
* * *
102123719 AATTAATATATGATTTAAATTATTA
1 AATTATTATATTATTTAAATAATTA
* *
102123744 AA-TATAATTATTATTTTAATAATTA
1 AATTATTA-TATTATTTAAATAATTA
102123769 AATTATTATATTAT
1 AATTATTATATTAT
102123783 ATTCCATGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 3 0.10
25 24 0.77
26 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
AATTATTATATTATTTAAATAATTA
Found at i:102124666 original size:2 final size:2
Alignment explanation
Indices: 102124659--102124691 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
102124649 TTTTTATTAA
102124659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102124692 AACGAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102126292 original size:60 final size:62
Alignment explanation
Indices: 102126198--102126316 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 62
102126188 TAGGTAAAAT
*
102126198 AACAAATTTAGCTCTCTAATATTTACAAATTCTATCAATTTGGTCATGATACTAAAAAGTTC
1 AACAAATTTAGCTCTCTAATATTTACAAATTCTATCAATTTAGTCATGATACTAAAAAGTTC
* * * ** *
102126260 AACAAATTTAGCTTTC-AA-CTTTACACATTCTATCAATTTAGTTTTGATTCTAAAAAG
1 AACAAATTTAGCTCTCTAATATTTACAAATTCTATCAATTTAGTCATGATACTAAAAAG
102126317 GTTTAATACA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 33 0.66
61 2 0.04
62 15 0.30
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (62 bp):
AACAAATTTAGCTCTCTAATATTTACAAATTCTATCAATTTAGTCATGATACTAAAAAGTTC
Found at i:102127810 original size:28 final size:28
Alignment explanation
Indices: 102127779--102127834 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
102127769 AAAAAAATAA
*
102127779 TTTTATAATTCTTTTTAAAACTTTTATTT
1 TTTTATAAAT-TTTTTAAAACTTTTATTT
* *
102127808 TTTTATAAATTTTTTAATATTTTTATT
1 TTTTATAAATTTTTTAAAACTTTTATT
102127835 GATGAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTATAAATTTTTTAAAACTTTTATTT
Found at i:102127847 original size:24 final size:23
Alignment explanation
Indices: 102127803--102127856 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
102127793 TTAAAACTTT
102127803 TATTTTT-TTATAAATTTTTTAA
1 TATTTTTATTATAAATTTTTTAA
* *
102127825 TATTTTTATTGATGAATTTTTTAT
1 TATTTTTATT-ATAAATTTTTTAA
*
102127849 TTTTTTTA
1 TATTTTTA
102127857 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 7 0.26
23 2 0.07
24 18 0.67
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (23 bp):
TATTTTTATTATAAATTTTTTAA
Found at i:102128019 original size:6 final size:6
Alignment explanation
Indices: 102128009--102128048 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
102127999 CCCATAAAAA
* *
102128009 CACATA CACATA CACATG CACATG CACATG CACATG CACA
1 CACATG CACATG CACATG CACATG CACATG CACATG CACA
102128049 CAACGCACAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (6 bp):
CACATG
Found at i:102130744 original size:237 final size:237
Alignment explanation
Indices: 102130329--102130805 Score: 918
Period size: 237 Copynumber: 2.0 Consensus size: 237
102130319 AACCATCCAT
102130329 AAATGTGCTAAGCATGGGATAAAAATATGTATAAATTACGGTTTATCAAATACGCCCACACTTAA
1 AAATGTGCTAAGCATGGGATAAAAATATGTATAAATTACGGTTTATCAAATACGCCCACACTTAA
* *
102130394 GCATTTGTTTGTCTTCAAGCAAAAATCCTCAACTCATAATCAAAATAAATTCTTCTCAATTCATA
66 GCATTTGCTTGTCCTCAAGCAAAAATCCTCAACTCATAATCAAAATAAATTCTTCTCAATTCATA
102130459 ATCCCTATCATAATATCTCAAAATAATCCATAAGTACTCATACATTGAAAATTCAACTAAAAGTA
131 ATCCCTATCATAATATCTCAAAATAATCCATAAGTACTCATACATTGAAAATTCAACTAAAAGTA
102130524 CATCAGAGTTTCAAACATTCCAAGTTGAGCATTTTATCACGA
196 CATCAGAGTTTCAAACATTCCAAGTTGAGCATTTTATCACGA
102130566 AAATGTGCTAAGCATGGGATAAAAATATGTATAAATTACGGTTTATCAAATACGCCCACACTTAA
1 AAATGTGCTAAGCATGGGATAAAAATATGTATAAATTACGGTTTATCAAATACGCCCACACTTAA
102130631 GCATTTGCTTGTCCTCAAGCAAAAATCCTCAACTCATAATCAAAATAAATTCTTCTCAATTCATA
66 GCATTTGCTTGTCCTCAAGCAAAAATCCTCAACTCATAATCAAAATAAATTCTTCTCAATTCATA
*
102130696 ATCCTTATCATAATATCTCAAAATAATCCATAAGTACTCATACATTGAAAATTCAACTAAAAGTA
131 ATCCCTATCATAATATCTCAAAATAATCCATAAGTACTCATACATTGAAAATTCAACTAAAAGTA
*
102130761 TATCAGAGTTTCAAACATTCCAAGTTGAGCATTTTATCACGA
196 CATCAGAGTTTCAAACATTCCAAGTTGAGCATTTTATCACGA
102130803 AAA
1 AAA
102130806 CATAGGTGTC
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
237 236 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (237 bp):
AAATGTGCTAAGCATGGGATAAAAATATGTATAAATTACGGTTTATCAAATACGCCCACACTTAA
GCATTTGCTTGTCCTCAAGCAAAAATCCTCAACTCATAATCAAAATAAATTCTTCTCAATTCATA
ATCCCTATCATAATATCTCAAAATAATCCATAAGTACTCATACATTGAAAATTCAACTAAAAGTA
CATCAGAGTTTCAAACATTCCAAGTTGAGCATTTTATCACGA
Found at i:102132369 original size:23 final size:22
Alignment explanation
Indices: 102132331--102132386 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
102132321 TATAAAACCT
102132331 AATAAAAATAAGCTTAAAGA-AA
1 AATAAAAATAAGCTTAAA-ATAA
102132353 AATAAAAAGT-AGTCTTAAAATAA
1 AATAAAAA-TAAG-CTTAAAATAA
102132376 AATAAAAATAA
1 AATAAAAATAA
102132387 CAACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAAAAATAAGCTTAAAATAA
Found at i:102153315 original size:24 final size:26
Alignment explanation
Indices: 102153265--102153317 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
102153255 TTTTTAGAGA
*
102153265 AAAAAGGAGAGAGATTCGAATACAAG
1 AAAAAGGAGAGACATTCGAATACAAG
*
102153291 AAAAA-GAGAGACTTTC-AATACAAG
1 AAAAAGGAGAGACATTCGAATACAAG
102153315 AAA
1 AAA
102153318 TACACGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 9 0.36
26 5 0.20
ACGTcount: A:0.57, C:0.09, G:0.21, T:0.13
Consensus pattern (26 bp):
AAAAAGGAGAGACATTCGAATACAAG
Found at i:102153623 original size:3 final size:3
Alignment explanation
Indices: 102153615--102153649 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
102153605 AATATAGTTG
* *
102153615 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
102153650 TTTGTTACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Done.