Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014850.1 Kokia drynarioides strain JFW-HI SEQ_129893, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 775807
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Warning! 814 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:11793 original size:6 final size:6
Alignment explanation
Indices: 11782--11821 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
11772 TTACTTAGTG
* *
11782 CTTCCT CTTCCT CTTCCT CTTCCT CTTCAT CTTCAT CTTC
1 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTC
11822 ATTTCAGTGT
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:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTCCT
Found at i:22857 original size:29 final size:30
Alignment explanation
Indices: 22749--23076 Score: 218
Period size: 30 Copynumber: 11.1 Consensus size: 30
22739 TTTGGGAAAA
* *
22749 TTCG-GGGTTAAAAT-GGATTTTTTGG-ACT
1 TTCGAGGGTAAAAATGGGA-TTTTTGGAAGT
** *
22777 TTCGAGGGT-AAAATGTTAATTTTAGGAAGT
1 TTCGAGGGTAAAAATG-GGATTTTTGGAAGT
* * * *
22807 TTCTA-AGTCAAAAATGGAATTTTGGGAAG-
1 TTCGAGGGT-AAAAATGGGATTTTTGGAAGT
* * *
22836 TTCGAGGCTAAAAATGGAATTTTTAGAAGT
1 TTCGAGGGTAAAAATGGGATTTTTGGAAGT
*
22866 TTCG-GGGTTAAAAACGGGATTTTTGGAAGT
1 TTCGAGGG-TAAAAATGGGATTTTTGGAAGT
* **
22896 TTCG-GGATCAAAAATGGGATTTTCAGAAG-
1 TTCGAGGGT-AAAAATGGGATTTTTGGAAGT
* * *
22925 TTC-AGGGGTAAGAATGGAATTTTTGGAGGT
1 TTCGA-GGGTAAAAATGGGATTTTTGGAAGT
*
22955 TTTG-GGGTCAAAAATGGGATTTTTGGAAGT
1 TTCGAGGGT-AAAAATGGGATTTTTGGAAGT
* * *
22985 TTC-AGGGTCAAAATGGGATTTTTAGAAGC
1 TTCGAGGGTAAAAATGGGATTTTTGGAAGT
**
23014 TTCGA-GGTCAAAAATGGGATTTTTAAAAG-
1 TTCGAGGGT-AAAAATGGGATTTTTGGAAGT
* * *
23043 TTC-AGGGGTAAAAACGAGATTATTGGAAGT
1 TTCGA-GGGTAAAAATGGGATTTTTGGAAGT
23073 TTCG
1 TTCG
23077 GGACCCTCGG
Statistics
Matches: 236, Mismatches: 42, Indels: 41
0.74 0.13 0.13
Matches are distributed among these distances:
28 10 0.04
29 101 0.43
30 119 0.50
31 6 0.03
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (30 bp):
TTCGAGGGTAAAAATGGGATTTTTGGAAGT
Found at i:22879 original size:59 final size:60
Alignment explanation
Indices: 22749--23076 Score: 273
Period size: 59 Copynumber: 5.5 Consensus size: 60
22739 TTTGGGAAAA
* * * ** *
22749 TTCGGGGTTAAAATGGATTTTTTGG-ACTTTCGAGGGT--AAAATGTTAATTTTAGGAAGT
1 TTCGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGGTCAAAAATGGGATTTTTA-GAAGT
*** * * *
22807 TTCTAAGTCAAAAATGGAATTTTGGGAAG-TTCGAGGCT-AAAAATGGAATTTTTAGAAGT
1 TTCGGGGT-AAAAATGGAATTTTTGGAAGTTTCGAGGGTCAAAAATGGGATTTTTAGAAGT
* * * *
22866 TTCGGGGTTAAAAACGGGATTTTTGGAAGTTTCG-GGATCAAAAATGGGATTTTCAGAAG-
1 TTCGGGG-TAAAAATGGAATTTTTGGAAGTTTCGAGGGTCAAAAATGGGATTTTTAGAAGT
* * * *
22925 TTCAGGGGTAAGAATGGAATTTTTGGAGGTTTTG-GGGTCAAAAATGGGATTTTTGGAAGT
1 TTC-GGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGGTCAAAAATGGGATTTTTAGAAGT
* * * * * *
22985 TTCAGGGTCAAAATGGGATTTTTAGAAGCTTCGA-GGTCAAAAATGGGATTTTTAAAAG-
1 TTCGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGGTCAAAAATGGGATTTTTAGAAGT
* *
23043 TTCAGGGGTAAAAA-CGAGATTATTGGAAGTTTCG
1 TTC-GGGGTAAAAATGGA-ATTTTTGGAAGTTTCG
23077 GGACCCTCGG
Statistics
Matches: 214, Mismatches: 45, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
58 9 0.04
59 162 0.76
60 43 0.20
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (60 bp):
TTCGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGGTCAAAAATGGGATTTTTAGAAGT
Found at i:22894 original size:89 final size:87
Alignment explanation
Indices: 22795--23075 Score: 307
Period size: 89 Copynumber: 3.2 Consensus size: 87
22785 TAAAATGTTA
* * * **
22795 ATTTTAGGAAGTTTCTAAGTCAAAAATGGAATTTTGGGAAGTTCGAGGCTAAAAATGGAATTTTT
1 ATTTTTGGAAGTTTC-AGGTCAAAAATGGGATTTTCAGAAGTTCGAGG-TAAAAATGGAATTTTT
22860 AGAAGTTTCGGGGTTAAAAACGGG
64 AGAAGTTTCGGGGTTAAAAACGGG
* * *
22884 ATTTTTGGAAGTTTCGGGATCAAAAATGGGATTTTCAGAAGTTCAGGGGTAAGAATGGAATTTTT
1 ATTTTTGGAAGTTTCAGG-TCAAAAATGGGATTTTCAGAAGTTC-GAGGTAAAAATGGAATTTTT
* * * * *
22949 GGAGGTTTTGGGGTCAAAAATGGG
64 AGAAGTTTCGGGGTTAAAAACGGG
* *
22973 ATTTTTGGAAGTTTCAGGGTC-AAAATGGGATTTTTAGAAGCTTCGAGGTCAAAAATGGGATTTT
1 ATTTTTGGAAGTTTCA-GGTCAAAAATGGGATTTTCAGAAG-TTCGAGGT-AAAAATGGAATTTT
* *
23037 TAAAAG-TTCAGGGG-TAAAAACGAG
63 TAGAAGTTTC-GGGGTTAAAAACGGG
*
23061 ATTATTGGAAGTTTC
1 ATTTTTGGAAGTTTC
23076 GGGACCCTCG
Statistics
Matches: 160, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
88 46 0.29
89 109 0.68
90 5 0.03
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.32
Consensus pattern (87 bp):
ATTTTTGGAAGTTTCAGGTCAAAAATGGGATTTTCAGAAGTTCGAGGTAAAAATGGAATTTTTAG
AAGTTTCGGGGTTAAAAACGGG
Found at i:24812 original size:11 final size:11
Alignment explanation
Indices: 24798--24860 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
24788 TGGACTTTTT
24798 AATTTAAATTA
1 AATTTAAATTA
* *
24809 AATTCAATTTA
1 AATTTAAATTA
*
24820 AATTT-AATATC
1 AATTTAAAT-TA
*
24831 AATTTAAATCA
1 AATTTAAATTA
*
24842 AATTTAAAATA
1 AATTTAAATTA
24853 AATTTAAA
1 AATTTAAA
24861 AAGGCCCAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
10 2 0.05
11 36 0.88
12 3 0.07
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:24832 original size:17 final size:16
Alignment explanation
Indices: 24798--24845 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
24788 TGGACTTTTT
24798 AATTTAAATTAAATTC
1 AATTTAAATTAAATTC
*
24814 AATTTAAATTTAATATC
1 AATTTAAATTAAAT-TC
*
24831 AATTTAAATCAAATT
1 AATTTAAATTAAATT
24846 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTAAATTAAATTC
Found at i:24856 original size:22 final size:22
Alignment explanation
Indices: 24798--24860 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
24788 TGGACTTTTT
* * * *
24798 AATTTAAATTAAATTCAATTTA
1 AATTTAAAATAAATTTAAATCA
* *
24820 AATTTAATATCAATTTAAATCA
1 AATTTAAAATAAATTTAAATCA
24842 AATTTAAAATAAATTTAAA
1 AATTTAAAATAAATTTAAA
24861 AAGGCCCAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTAAAATAAATTTAAATCA
Found at i:32183 original size:29 final size:29
Alignment explanation
Indices: 32151--32239 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 29
32141 TTGATTTAAT
*
32151 GTGTAATTATATACATGAAATTTAATTTG
1 GTGTAATTATATACGTGAAATTTAATTTG
* *
32180 GTGTAATTATACACGTAAAATTCTAATTGTG
1 GTGTAATTATATACGTGAAATT-TAATT-TG
* *
32211 GT-TCAAATCTATACGTGAAATTTTAATTT
1 GTGT-AATTATATACGTGAAA-TTTAATTT
32240 TGATTTAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 19 0.39
30 7 0.14
31 21 0.43
32 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (29 bp):
GTGTAATTATATACGTGAAATTTAATTTG
Found at i:39069 original size:29 final size:30
Alignment explanation
Indices: 39015--39071 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
39005 AATCTGAATC
*
39015 AAATTAAAATATTGTATATAAAATTATATA
1 AAATTAAAATATTATATATAAAATTATATA
*
39045 AAATTAAAAT-TTATATATAATATTATA
1 AAATTAAAATATTATATATAAAATTATA
39072 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (30 bp):
AAATTAAAATATTATATATAAAATTATATA
Found at i:39077 original size:19 final size:16
Alignment explanation
Indices: 39033--39077 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
39023 ATATTGTATA
39033 TAAAATTATATAAAAT
1 TAAAATTATATAAAAT
39049 TAAAATTTATATATAATAT
1 TAAAA-TTATATA-AA-AT
39068 TATAAATTAT
1 TA-AAATTAT
39078 TTATGTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.20
17 7 0.28
18 2 0.08
19 8 0.32
20 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAATTATATAAAAT
Found at i:42954 original size:20 final size:20
Alignment explanation
Indices: 42931--43065 Score: 73
Period size: 20 Copynumber: 6.8 Consensus size: 20
42921 AGCATAAATA
*
42931 TGCTATCAGGAGCAC-CATGG
1 TGCTATCAGGAGCACGAAT-G
42951 TGCT-TACAGGAGCACGAATG
1 TGCTAT-CAGGAGCACGAATG
* *
42971 TGCTATCAAGAGAACCGTAA--
1 TGCTATCAGGAGCA-CG-AATG
* * *
42991 TGCTAACAAGAGCATGAATG
1 TGCTATCAGGAGCACGAATG
* * *
43011 TGCTGTTAGGAGCACCGTA-G
1 TGCTATCAGGAGCA-CGAATG
* *
43031 TGCTAACAAGAGCACGAATG
1 TGCTATCAGGAGCACGAATG
* *
43051 TGCTGTCAAGAGCAC
1 TGCTATCAGGAGCAC
43066 CGTACTAATA
Statistics
Matches: 87, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.02
19 5 0.06
20 71 0.82
21 7 0.08
22 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (20 bp):
TGCTATCAGGAGCACGAATG
Found at i:42975 original size:40 final size:40
Alignment explanation
Indices: 42931--43069 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
42921 AGCATAAATA
* * * * *
42931 TGCTATCAGGAGCACCATGGTGCTTACAGGAGCACGAATG
1 TGCTATCAAGAGCACCGTAGTGCTAACAAGAGCACGAATG
* * *
42971 TGCTATCAAGAGAACCGTAATGCTAACAAGAGCATGAATG
1 TGCTATCAAGAGCACCGTAGTGCTAACAAGAGCACGAATG
* * *
43011 TGCTGTTAGGAGCACCGTAGTGCTAACAAGAGCACGAATG
1 TGCTATCAAGAGCACCGTAGTGCTAACAAGAGCACGAATG
*
43051 TGCTGTCAAGAGCACCGTA
1 TGCTATCAAGAGCACCGTA
43070 CTAATAACAG
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (40 bp):
TGCTATCAAGAGCACCGTAGTGCTAACAAGAGCACGAATG
Found at i:43022 original size:80 final size:80
Alignment explanation
Indices: 42906--43069 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 80
42896 GTTAGGGCAT
* * * *
42906 CGTAATGCAAACATGAGCATAAATATGCTATCAGGAGCACCATGGTGCTTACAGGAGCACGAATG
1 CGTAATGCAAACAAGAGCATAAATATGCTATCAGGAGCACCATAGTGCTAACAAGAGCACGAATG
42971 TGCTATCAAGAGAAC
66 TGCTATCAAGAGAAC
* * * * * *
42986 CGTAATGCTAACAAGAGCATGAATGTGCTGTTAGGAGCACCGTAGTGCTAACAAGAGCACGAATG
1 CGTAATGCAAACAAGAGCATAAATATGCTATCAGGAGCACCATAGTGCTAACAAGAGCACGAATG
* *
43051 TGCTGTCAAGAGCAC
66 TGCTATCAAGAGAAC
43066 CGTA
1 CGTA
43070 CTAATAACAG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (80 bp):
CGTAATGCAAACAAGAGCATAAATATGCTATCAGGAGCACCATAGTGCTAACAAGAGCACGAATG
TGCTATCAAGAGAAC
Found at i:43078 original size:40 final size:40
Alignment explanation
Indices: 42906--43069 Score: 166
Period size: 40 Copynumber: 4.1 Consensus size: 40
42896 GTTAGGGCAT
* * ** * * *
42906 CGTAATGCAAACATGAGCATAAATATGCTATCAGGAGCAC
1 CGTAATGCTAACAAGAGCACGAATGTGCTGTCAAGAGCAC
* ** * * * *
42946 CATGGTGCTTACAGGAGCACGAATGTGCTATCAAGAGAAC
1 CGTAATGCTAACAAGAGCACGAATGTGCTGTCAAGAGCAC
* * *
42986 CGTAATGCTAACAAGAGCATGAATGTGCTGTTAGGAGCAC
1 CGTAATGCTAACAAGAGCACGAATGTGCTGTCAAGAGCAC
*
43026 CGTAGTGCTAACAAGAGCACGAATGTGCTGTCAAGAGCAC
1 CGTAATGCTAACAAGAGCACGAATGTGCTGTCAAGAGCAC
43066 CGTA
1 CGTA
43070 CTAATAACAG
Statistics
Matches: 99, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (40 bp):
CGTAATGCTAACAAGAGCACGAATGTGCTGTCAAGAGCAC
Found at i:43475 original size:70 final size:67
Alignment explanation
Indices: 43355--43487 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
43345 ATAAAAAATA
* ** *
43355 TAATGGTTTTGCCTTTTAATTTAATGAGCAAATATTTATTAAAACAACATAGTTTTACCTTTTAA
1 TAATGGTTTTGACTTTTAATTTAAAAAGCAAATATTTATCAAAACAACATAGTTTTACCTTTTAA
43420 CT
66 CT
* * *
43422 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAATATTTATCAAAACGACATAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAA-TTTA-AAAA-GCAAATATTTATCAAAACAACATAGTTTTACCTTT
43487 T
63 T
43488 CTTATTTGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 18 0.32
68 4 0.07
69 2 0.04
70 32 0.57
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAATTTAAAAAGCAAATATTTATCAAAACAACATAGTTTTACCTTTTAA
CT
Found at i:62299 original size:3 final size:3
Alignment explanation
Indices: 62253--62281 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
62243 ATAAATGAGA
62253 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
62282 ATAAAGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:68776 original size:16 final size:17
Alignment explanation
Indices: 68751--68784 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
68741 ATATCGGAGC
68751 ACATAAATTT-AAAAAA
1 ACATAAATTTGAAAAAA
*
68767 ACATATATTTGAAAAAA
1 ACATAAATTTGAAAAAA
68784 A
1 A
68785 TTTCAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (17 bp):
ACATAAATTTGAAAAAA
Found at i:68951 original size:19 final size:19
Alignment explanation
Indices: 68913--68971 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
68903 TTATTTATTC
68913 TTTAT-AAT-TTTTGAAATT
1 TTTATAAATATTTTG-AATT
68931 TTTATAAATATTTTGAA-T
1 TTTATAAATATTTTGAATT
*
68949 TTTAAAAATTATTTTGAATT
1 TTTATAAA-TATTTTGAATT
68969 TTT
1 TTT
68972 TTTTTTGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 13 0.36
19 14 0.39
20 9 0.25
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTATAAATATTTTGAATT
Found at i:74704 original size:5 final size:5
Alignment explanation
Indices: 74694--74720 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
74684 TCCTCAAAGA
74694 TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TT
74721 ATTTCTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:81939 original size:20 final size:20
Alignment explanation
Indices: 81914--81956 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
81904 TGTCCGATTT
*
81914 ATGATTTTTGTTCAATGTTC
1 ATGATTTTTGTTCAAGGTTC
81934 ATGATTTTTGTTCAAGGTTC
1 ATGATTTTTGTTCAAGGTTC
81954 ATG
1 ATG
81957 GCTGCCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (20 bp):
ATGATTTTTGTTCAAGGTTC
Found at i:91420 original size:24 final size:24
Alignment explanation
Indices: 91387--91438 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
91377 TTCGTAGATC
* *
91387 AAATAAATTATAGTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
91411 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
91435 AAAT
1 AAAT
91439 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:98640 original size:23 final size:22
Alignment explanation
Indices: 98609--98652 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
98599 GAAAAAAACT
*
98609 AACATATAAATAATACATGTTAG
1 AACACATAAA-AATACATGTTAG
*
98632 AACACATAAAACTACATGTTA
1 AACACATAAAAATACATGTTA
98653 AAATCATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (22 bp):
AACACATAAAAATACATGTTAG
Found at i:113347 original size:24 final size:24
Alignment explanation
Indices: 113320--113382 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
113310 AGAAATAATC
*
113320 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTAGTTG
* *
113344 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAGTTAAACTCTATTTAGTTG
* *
113368 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
113383 TATCAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTAGTTG
Found at i:133739 original size:21 final size:22
Alignment explanation
Indices: 133699--133739 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
133689 TTTTTAAAAA
**
133699 TTATAAAACATTATCTATATTT
1 TTATAAAACATTATAAATATTT
133721 TTATAAAA-ATTATAAATAT
1 TTATAAAACATTATAAATAT
133740 CAACAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATAAAACATTATAAATATTT
Found at i:137021 original size:24 final size:24
Alignment explanation
Indices: 136989--137047 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
136979 AACTATATAT
136989 TAATAAAAAATATATTAATTAAAG
1 TAATAAAAAATATATTAATTAAAG
137013 TAATAAAAAATATATTAATTAAAG
1 TAATAAAAAATATATTAATTAAAG
137037 TAATAAAAAAT
1 TAATAAAAAAT
137048 GTTTTATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (24 bp):
TAATAAAAAATATATTAATTAAAG
Found at i:141583 original size:25 final size:24
Alignment explanation
Indices: 141533--141585 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
141523 AATACTCCTT
141533 AAAAATAATCAAAATTTAAATGAA
1 AAAAATAATCAAAATTTAAATGAA
*
141557 AAAAGATAA-CAAAATTTAACTGAA
1 AAAA-ATAATCAAAATTTAAATGAA
141581 AAAAA
1 AAAAA
141586 ATACGAGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 22 0.81
25 4 0.15
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (24 bp):
AAAAATAATCAAAATTTAAATGAA
Found at i:141786 original size:14 final size:15
Alignment explanation
Indices: 141757--141795 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
141747 TCTTTTTGTT
141757 TTATATGTTATATTTA
1 TTATAT-TTATATTTA
*
141773 TT-TATTTATTTTTA
1 TTATATTTATATTTA
141787 TTATATTTA
1 TTATATTTA
141796 AATAGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.48
15 9 0.43
16 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:143404 original size:62 final size:59
Alignment explanation
Indices: 143300--143419 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 59
143290 ATCACTTTAA
* * *
143300 TATTAAATTAATATAATACTTATTAAAATAAATATTAGATTAAATTTAATATTAAATTT
1 TATTAAATTAATAGAATACTTATTAAAATAAACATTAAATTAAATTTAATATTAAATTT
* *
143359 TATTAAATTAATAGATTATTTATCTACAAAATAAACATTAAATTAAATTTAATATTAAATT
1 TATTAAATTAATAGAATACTTAT-T--AAAATAAACATTAAATTAAATTTAATATTAAATT
143420 AATAAAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 20 0.38
60 1 0.02
62 32 0.60
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATTAAAATAAACATTAAATTAAATTTAATATTAAATTT
Found at i:152689 original size:21 final size:20
Alignment explanation
Indices: 152660--152699 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
152650 CCATTTGCTT
*
152660 CTCCTTCTCCCTCTATTTTC
1 CTCCTTCTCCATCTATTTTC
*
152680 CTCCATTCTCCATCTCTTTT
1 CTCC-TTCTCCATCTATTTT
152700 AACGTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.50
Consensus pattern (20 bp):
CTCCTTCTCCATCTATTTTC
Found at i:153437 original size:21 final size:21
Alignment explanation
Indices: 153403--153443 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
153393 TTATATTCAA
*
153403 ATCGAGATTTGATTTAGAATG
1 ATCGAGATTCGATTTAGAATG
* *
153424 ATCGATATTCGATTTTGAAT
1 ATCGAGATTCGATTTAGAAT
153444 TAAATTCAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (21 bp):
ATCGAGATTCGATTTAGAATG
Found at i:153556 original size:23 final size:24
Alignment explanation
Indices: 153529--153573 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
153519 TGAAGAATAT
*
153529 AAGAAG-AGAGAAAAATAAAGAGG
1 AAGAAGAAAAGAAAAATAAAGAGG
*
153552 AAGAAGAAAAGGAAAATAAAGA
1 AAGAAGAAAAGAAAAATAAAGA
153574 AATAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (24 bp):
AAGAAGAAAAGAAAAATAAAGAGG
Found at i:158371 original size:21 final size:22
Alignment explanation
Indices: 158334--158375 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
158324 TTTTATTGTT
158334 TTGCTATCATTTCGTTATTATA
1 TTGCTATCATTTCGTTATTATA
*
158356 TTGCTAT-ATTTTGTTATTAT
1 TTGCTATCATTTCGTTATTAT
158376 TGCTTGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.60
Consensus pattern (22 bp):
TTGCTATCATTTCGTTATTATA
Found at i:162641 original size:26 final size:24
Alignment explanation
Indices: 162600--162657 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 24
162590 CTTATGATGG
*
162600 TAAAAATATAATTTTA-ATATTTTT
1 TAAAAATTTAATTTTATA-ATTTTT
162624 TAAAAATTTATATCTTTATAATTTTT
1 TAAAAATTTA-AT-TTTATAATTTTT
162650 TAAAAATT
1 TAAAAATT
162658 AAATCAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 9 0.30
25 2 0.07
26 18 0.60
27 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAAAATTTAATTTTATAATTTTT
Found at i:164357 original size:29 final size:28
Alignment explanation
Indices: 164304--164362 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
164294 TTCTTGTCGA
* *
164304 TTTTTTTTTTACATTTAAAATTTAGTTT
1 TTTTTTTTTTACATTTAAAACTTAGATT
164332 TTTTTTTTTTAC-TTTAAGAAACTTAGATT
1 TTTTTTTTTTACATTT-A-AAACTTAGATT
164361 TT
1 TT
164363 AACATTTCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 3 0.11
28 13 0.48
29 11 0.41
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (28 bp):
TTTTTTTTTTACATTTAAAACTTAGATT
Found at i:168068 original size:34 final size:34
Alignment explanation
Indices: 168029--168095 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
168019 AACCCTGAAT
168029 CTAAACCTTAAACCTCAAACCCAAAATTAGAACC
1 CTAAACCTTAAACCTCAAACCCAAAATTAGAACC
* *
168063 CTAAACCTTAAATCTCAAACCCAAAATTTGAAC
1 CTAAACCTTAAACCTCAAACCCAAAATTAGAAC
168096 ATTAGGATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.21
Consensus pattern (34 bp):
CTAAACCTTAAACCTCAAACCCAAAATTAGAACC
Found at i:178289 original size:7 final size:7
Alignment explanation
Indices: 178273--178309 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
178263 GATTTAAAGT
178273 TTTG-AA
1 TTTGAAA
178279 TTTGAAA
1 TTTGAAA
178286 TTTGAAA
1 TTTGAAA
178293 TTTGAAA
1 TTTGAAA
178300 TTTGAAA
1 TTTGAAA
178307 TTT
1 TTT
178310 AAGGTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (7 bp):
TTTGAAA
Found at i:178685 original size:2 final size:2
Alignment explanation
Indices: 178678--178726 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
178668 CTTAATTAAT
178678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
178720 TA TA TA T
1 TA TA TA T
178727 TATTGTACAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:191908 original size:142 final size:141
Alignment explanation
Indices: 191693--191967 Score: 401
Period size: 142 Copynumber: 1.9 Consensus size: 141
191683 TGATACCTTC
* * ** *
191693 AGCTAAGTTCATTAGAACTAGCCTAGAATTTCAAAATTTAGGCACGACATAGCCAACAAATCAGT
1 AGCTAAGTTCATTAAAACTAGCCCAGAATTTCAAAAAATAGGCACGACATAGCCAAAAAATCAGT
** *
191758 TCTTAACCTCTCACTTGCCATGACTT-A-ATTAGATACCTTAAGCTAAGTTCAATCAGTTCAAGT
66 TCTTAACCTCTCACCCGCCATGA-TTCATATTA-ATACCTTAAGCTAAGTTCAATCAGTTCAACT
191821 TCAATAAACTTTA
129 TCAATAAACTTTA
* *
191834 AGCTAAGTTCAGTTAAAACTAGCCCAGAGTTTCAAAAAATAGGCACTACATAGCCAAAAAATCAG
1 AGCTAAGTTCA-TTAAAACTAGCCCAGAATTTCAAAAAATAGGCACGACATAGCCAAAAAATCAG
* *
191899 TTCTTAACCTCTCACCCGCCATGATTCATTTTAATACCTTAAGCTAAGTTCAATTAGTTCAACTT
65 TTCTTAACCTCTCACCCGCCATGATTCATATTAATACCTTAAGCTAAGTTCAATCAGTTCAACTT
191964 CAAT
130 CAAT
191968 TAAAGCTAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
141 13 0.11
142 103 0.87
143 3 0.03
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (141 bp):
AGCTAAGTTCATTAAAACTAGCCCAGAATTTCAAAAAATAGGCACGACATAGCCAAAAAATCAGT
TCTTAACCTCTCACCCGCCATGATTCATATTAATACCTTAAGCTAAGTTCAATCAGTTCAACTTC
AATAAACTTTA
Found at i:194708 original size:27 final size:27
Alignment explanation
Indices: 194667--194753 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
194657 TTTTAGGTCT
* *
194667 TTAAAAGTTGGTAAAAAAATTGGACCC
1 TTAAAAGTTGATAAAAAAATTAGACCC
* *
194694 TTAAAAGTTGATAAAAAATTTTA-ACCT
1 TTAAAAGTTGATAAAAAA-ATTAGACCC
*
194721 TTAAAAGTT-TTAAAAAAATTAGATCCC
1 TTAAAAGTTGATAAAAAAATTAGA-CCC
194748 TTAAAA
1 TTAAAA
194754 ATTAAAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.06
26 8 0.16
27 37 0.74
28 2 0.04
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.32
Consensus pattern (27 bp):
TTAAAAGTTGATAAAAAAATTAGACCC
Found at i:194762 original size:27 final size:26
Alignment explanation
Indices: 194679--194765 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
194669 AAAAGTTGGT
*
194679 AAAAAAATTGGACCCTTAAAAGTTGATA
1 AAAAAAATTAGACCCTTAAAAGTT-A-A
** * **
194707 AAAAATTTTA-ACCTTTAAAAGTTTT
1 AAAAAAATTAGACCCTTAAAAGTTAA
*
194732 AAAAAAATTAGATCCCTTAAAAATTAA
1 AAAAAAATTAGA-CCCTTAAAAGTTAA
194759 AAAAAAA
1 AAAAAAA
194766 AATTGATCTC
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
25 8 0.18
26 1 0.02
27 29 0.64
28 7 0.16
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (26 bp):
AAAAAAATTAGACCCTTAAAAGTTAA
Found at i:198602 original size:110 final size:110
Alignment explanation
Indices: 198408--198616 Score: 328
Period size: 110 Copynumber: 1.9 Consensus size: 110
198398 ACTCTTGATA
* *
198408 TTATAACTTCTCCTATAGAATCCGGAAAGAAGCATGCATAATCAACCTTATTGATATTCAAACTG
1 TTATAACTTCTCCTATAGAATCCGGAAACAAGCATGCATAATCAACCTTATTGATATTCAAACTA
198473 CTCTAAACGATACACATACATATACACGAAGGCATTGATGTCGTG
66 CTCTAAACGATACACATACATATACACGAAGGCATTGATGTCGTG
* * *
198518 TTATAGCTTCTTCTATAGAATCCGGAAACAGGCATGCATAATCAACCTTATTGATATTCAAACTA
1 TTATAACTTCTCCTATAGAATCCGGAAACAAGCATGCATAATCAACCTTATTGATATTCAAACTA
** * * *
198583 CTCTAAATTATACATATACATGTACATGAAGGCA
66 CTCTAAACGATACACATACATATACACGAAGGCA
198617 AAGTTCTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 89 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (110 bp):
TTATAACTTCTCCTATAGAATCCGGAAACAAGCATGCATAATCAACCTTATTGATATTCAAACTA
CTCTAAACGATACACATACATATACACGAAGGCATTGATGTCGTG
Found at i:201521 original size:26 final size:26
Alignment explanation
Indices: 201483--201534 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
201473 TTACTATGAA
201483 AATAATAAAGGTTAAAATACAAACACT
1 AATAATAAAGGTTAAAAT-CAAACACT
* *
201510 AATAA-AAAGGTTGAAATCTAACACT
1 AATAATAAAGGTTAAAATCAAACACT
201535 TGGTAGTACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.23
Consensus pattern (26 bp):
AATAATAAAGGTTAAAATCAAACACT
Found at i:207613 original size:7 final size:7
Alignment explanation
Indices: 207601--207640 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
207591 CACACATGTC
207601 TCAACAT
1 TCAACAT
207608 TCAACAT
1 TCAACAT
207615 TCAACAT
1 TCAACAT
207622 TCAACAT
1 TCAACAT
207629 TCAACAT
1 TCAACAT
207636 TCAAC
1 TCAAC
207641 CACCTTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (7 bp):
TCAACAT
Found at i:216874 original size:128 final size:129
Alignment explanation
Indices: 216645--216901 Score: 335
Period size: 128 Copynumber: 2.0 Consensus size: 129
216635 AAAATCAAAC
* * * *
216645 CTTAGACAAAAGATTTTTTAATTTGAGTCAGATCGAACTGACTTAAATTCGAATTAATCATTTCT
1 CTTAGACAAAAGATTTTTGAATTTGAATCAGATCAAACTGACTTAAATTCGAATTAAACATTTCT
*
216710 CATTGATTGGAATACTTTTCTAACTCTTTAATCCC-TTGAAATCT-AATCCAAACCCATAAAAAT
66 CATTGATTGGAATACTTTTCTAACTCTTTAAACCCTTTGAAATCTGAA-CCAAACCCATAAAAAT
** * *
216773 CTTAGACAATGGATTTTTGAATTTGAATC-GATTCAAACTGGCTTGAATTCGAATTAAACATTTC
1 CTTAGACAAAAGATTTTTGAATTTGAATCAGA-TCAAACTGACTTAAATTCGAATTAAACATTTC
* * *
216837 TCTTTGATTGGAATACTCTTT-TAA-TCCTTTAAACCCTTTTAAGTCTGAACCAAACCCATAAAA
65 TCATTGATTGGAATACT-TTTCTAACT-CTTTAAACCCTTTGAAATCTGAACCAAACCCATAAAA
216900 AT
128 AT
216902 TACATCTTGA
Statistics
Matches: 112, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
127 3 0.03
128 81 0.72
129 26 0.23
130 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (129 bp):
CTTAGACAAAAGATTTTTGAATTTGAATCAGATCAAACTGACTTAAATTCGAATTAAACATTTCT
CATTGATTGGAATACTTTTCTAACTCTTTAAACCCTTTGAAATCTGAACCAAACCCATAAAAAT
Found at i:219228 original size:35 final size:35
Alignment explanation
Indices: 219189--219281 Score: 186
Period size: 35 Copynumber: 2.7 Consensus size: 35
219179 AATTAATCAA
219189 TTAATCTATTTCCCGTACAATTTCCATTTTAATAT
1 TTAATCTATTTCCCGTACAATTTCCATTTTAATAT
219224 TTAATCTATTTCCCGTACAATTTCCATTTTAATAT
1 TTAATCTATTTCCCGTACAATTTCCATTTTAATAT
219259 TTAATCTATTTCCCGTACAATTT
1 TTAATCTATTTCCCGTACAATTT
219282 TCATAATGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.28, C:0.20, G:0.03, T:0.48
Consensus pattern (35 bp):
TTAATCTATTTCCCGTACAATTTCCATTTTAATAT
Found at i:220804 original size:29 final size:29
Alignment explanation
Indices: 220772--220827 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
220762 TTGAATAATT
* *
220772 ATTTTGTAATTTTTTATAGTTGAGTGATC
1 ATTTTGTAATTTTCTATAATTGAGTGATC
220801 ATTTTGTAATTTTCTATAATTGAGTGA
1 ATTTTGTAATTTTCTATAATTGAGTGA
220828 CCAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.54
Consensus pattern (29 bp):
ATTTTGTAATTTTCTATAATTGAGTGATC
Found at i:221445 original size:27 final size:26
Alignment explanation
Indices: 221397--221448 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
221387 AGAATATTTT
221397 TAAAAAATATTTTTAACTATAAATAAA
1 TAAAAAATATTTTTAAC-ATAAATAAA
221424 TAAAAAATAGTTTTTGAA-ATAAATA
1 TAAAAAATA-TTTTT-AACATAAATA
221449 GAATGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 16 0.70
28 5 0.22
29 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (26 bp):
TAAAAAATATTTTTAACATAAATAAA
Found at i:226624 original size:17 final size:17
Alignment explanation
Indices: 226604--226638 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
226594 TTGATCCGAT
226604 ATATATATATATTTAAA
1 ATATATATATATTTAAA
* *
226621 ATATATTTTTATTTAAA
1 ATATATATATATTTAAA
226638 A
1 A
226639 CATGAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATATATATTTAAA
Found at i:227471 original size:22 final size:22
Alignment explanation
Indices: 227425--227464 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
227415 ACCATGGCTT
227425 CCCCAACGCTACCAACCCCTAC
1 CCCCAACGCTACCAACCCCTAC
227447 CCCCAA-GCT-CCAACCCCT
1 CCCCAACGCTACCAACCCCT
227465 CCTCCCCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.25, C:0.60, G:0.05, T:0.10
Consensus pattern (22 bp):
CCCCAACGCTACCAACCCCTAC
Found at i:227477 original size:20 final size:20
Alignment explanation
Indices: 227425--227477 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
227415 ACCATGGCTT
227425 CCCCAACGCTACCAACCCCTAC
1 CCCCAAC-CT-CCAACCCCTAC
*
227447 CCCCAAGCTCCAACCCCT-C
1 CCCCAACCTCCAACCCCTAC
*
227466 CTCCCCACCTCC
1 C-CCCAACCTCC
227478 GCCGCCCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 2 0.07
22 6 0.22
ACGTcount: A:0.21, C:0.64, G:0.04, T:0.11
Consensus pattern (20 bp):
CCCCAACCTCCAACCCCTAC
Found at i:230746 original size:55 final size:55
Alignment explanation
Indices: 230662--230772 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
230652 ATACATAAAA
230662 AAGAAAAATATTAAGACCCTTTCCATAATAATATTTATTTTATTTTAGATATTTC
1 AAGAAAAATATTAAGACCCTTTCCATAATAATATTTATTTTATTTTAGATATTTC
*
230717 AAGAAAAATATTAAGACTCTTTCCATAATAATATTTATTTTATTTTAGATATTTC
1 AAGAAAAATATTAAGACCCTTTCCATAATAATATTTATTTTATTTTAGATATTTC
230772 A
1 A
230773 CCATAATACC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (55 bp):
AAGAAAAATATTAAGACCCTTTCCATAATAATATTTATTTTATTTTAGATATTTC
Found at i:235526 original size:22 final size:22
Alignment explanation
Indices: 235500--235546 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
235490 TGACTAAATT
235500 TTAAAATTAAAAAATACAAAAA
1 TTAAAATTAAAAAATACAAAAA
* **
235522 TTAAAATTGACCAATACAAAAA
1 TTAAAATTAAAAAATACAAAAA
235544 TTA
1 TTA
235547 CAAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (22 bp):
TTAAAATTAAAAAATACAAAAA
Found at i:236689 original size:22 final size:23
Alignment explanation
Indices: 236642--236689 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
236632 AAATGTATAG
* * *
236642 ATACTAAAAATACCAAATTACTA
1 ATACAAAAAATACAAAATTACAA
236665 ATACAAAAAATACAAAATTA-AA
1 ATACAAAAAATACAAAATTACAA
236687 ATA
1 ATA
236690 AGGGACTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (23 bp):
ATACAAAAAATACAAAATTACAA
Found at i:244243 original size:4 final size:4
Alignment explanation
Indices: 244234--244263 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
244224 ATTAGAAATT
244234 TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
244264 TAAAGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:248350 original size:16 final size:16
Alignment explanation
Indices: 248329--248362 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
248319 CCAACTAAAC
* *
248329 CCCTCTCTCTCTCTCT
1 CCCTCTCCCTCTCCCT
248345 CCCTCTCCCTCTCCCT
1 CCCTCTCCCTCTCCCT
248361 CC
1 CC
248363 ATATATATTG
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:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (16 bp):
CCCTCTCCCTCTCCCT
Found at i:251057 original size:15 final size:16
Alignment explanation
Indices: 251033--251067 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
251023 TTCCAATTGT
*
251033 TTTTATATTTA-ATTA
1 TTTTAGATTTAGATTA
251048 TTTTAGATTTAGATTA
1 TTTTAGATTTAGATTA
251064 TTTT
1 TTTT
251068 GAGTACAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTTAGATTTAGATTA
Found at i:268384 original size:30 final size:34
Alignment explanation
Indices: 268331--268402 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 34
268321 ATTTTAAATT
268331 AATAAAAATAAAATTATATTTTAA-CCCCTTAAA
1 AATAAAAATAAAATTATATTTTAATCCCCTTAAA
* **
268364 AATAATAA-AAAATTA-A-TTTAATCCTTTTAAA
1 AATAAAAATAAAATTATATTTTAATCCCCTTAAA
268395 AATAAAAA
1 AATAAAAA
268403 GCATACGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 5 0.15
31 15 0.44
32 7 0.21
33 7 0.21
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (34 bp):
AATAAAAATAAAATTATATTTTAATCCCCTTAAA
Found at i:269448 original size:132 final size:132
Alignment explanation
Indices: 269291--269677 Score: 546
Period size: 132 Copynumber: 2.9 Consensus size: 132
269281 AGAGCAAACA
* * * *
269291 AAAACCGAAGATTAGCAGAGAAGAGAGAACAACTTCGAACGCTGGTAATCACTTCAAAGTTATTG
1 AAAAGCGAAGATTAGCAGAGAAGAGAGAACAATTTCG-ACGCTCGTAATCACTACAAAGTTATTG
* *
269356 AAATAAGATCAAACGAACTT-CATAATTCGACTATAAAACAACCATCCATCACCAAAAAAAAAAA
65 AAATTAGATCAAACGAACTTGCATAATTCGACTATAAAACAACGATCCATCACCAAAAAAAAAAA
269420 CTC
130 CTC
* * * * * *
269423 AAAGGCGAAGATTAGCAGAGAAGAGAGAACGATTTCGACGCTCGTAATCTCTCCGAAGCTATTGA
1 AAAAGCGAAGATTAGCAGAGAAGAGAGAACAATTTCGACGCTCGTAATCACTACAAAGTTATTGA
* * *
269488 AATTCGATCAAACGAACTTGCATAATTCGACTATAAAACAACGATCCATCACAAAAAAAAAAAAT
66 AATTAGATCAAACGAACTTGCATAATTCGACTATAAAACAACGATCCATCACCAAAAAAAAAAAC
269553 TC
131 TC
*
269555 AAAAGCGAAGATTAGCAGAGCAGAGAGAACAATTTCGACGCTCGTAATCACTACAAA-TCTATCT
1 AAAAGCGAAGATTAGCAGAGAAGAGAGAACAATTTCGACGCTCGTAATCACTACAAAGT-TAT-T
* * * *
269619 -AAATTTGATCAAATGAACTTGCATAATCCGACTATAAAACAACGATTCATCACCAAAAA
64 GAAATTAGATCAAACGAACTTGCATAATTCGACTATAAAACAACGATCCATCACCAAAAA
269678 GATTCGAAAA
Statistics
Matches: 226, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
131 40 0.18
132 185 0.82
133 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (132 bp):
AAAAGCGAAGATTAGCAGAGAAGAGAGAACAATTTCGACGCTCGTAATCACTACAAAGTTATTGA
AATTAGATCAAACGAACTTGCATAATTCGACTATAAAACAACGATCCATCACCAAAAAAAAAAAC
TC
Found at i:271843 original size:30 final size:30
Alignment explanation
Indices: 271802--271869 Score: 127
Period size: 30 Copynumber: 2.2 Consensus size: 30
271792 CTTAGAGTCC
271802 ACAAGTTCTAGAATTCCTCATGAATTGGATA
1 ACAA-TTCTAGAATTCCTCATGAATTGGATA
271833 ACAATTCTAGAATTCCTCATGAATTGGATA
1 ACAATTCTAGAATTCCTCATGAATTGGATA
271863 ACAATTC
1 ACAATTC
271870 AATTTTTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (30 bp):
ACAATTCTAGAATTCCTCATGAATTGGATA
Found at i:274102 original size:18 final size:18
Alignment explanation
Indices: 274075--274113 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
274065 TATCATTTGC
*
274075 AGCCATGCATTTAGTCGT
1 AGCCAAGCATTTAGTCGT
*
274093 AGCCAAGCATTTTGTCGT
1 AGCCAAGCATTTAGTCGT
274111 AGC
1 AGC
274114 TCAAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (18 bp):
AGCCAAGCATTTAGTCGT
Found at i:281304 original size:17 final size:17
Alignment explanation
Indices: 281282--281315 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
281272 TGACTCTGGG
281282 GCAATGAAATATTTTAT
1 GCAATGAAATATTTTAT
281299 GCAATGAAATATTTTAT
1 GCAATGAAATATTTTAT
281316 CTCACAATTA
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:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
GCAATGAAATATTTTAT
Found at i:281423 original size:5 final size:5
Alignment explanation
Indices: 281413--281441 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
281403 GTCGGATCAT
281413 TCGAC TCGAC TCGAC TCGAC TCGAC TCGA
1 TCGAC TCGAC TCGAC TCGAC TCGAC TCGA
281442 AAGCCCGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.21
Consensus pattern (5 bp):
TCGAC
Found at i:281662 original size:22 final size:21
Alignment explanation
Indices: 281634--281685 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
281624 TGGTGCTATT
281634 TTTTTTACTGTATTGGTTGATG
1 TTTTTTACTGTATTGG-TGATG
* * *
281656 TTTTTTACTGTTTTTGTGTTG
1 TTTTTTACTGTATTGGTGATG
281677 TTTTTTACT
1 TTTTTTACT
281686 ATTTTGAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.10, C:0.06, G:0.17, T:0.67
Consensus pattern (21 bp):
TTTTTTACTGTATTGGTGATG
Found at i:281678 original size:21 final size:22
Alignment explanation
Indices: 281634--281722 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 22
281624 TGGTGCTATT
*
281634 TTTTTTACTGTATTGGTTGATG
1 TTTTTTACTGTTTTGGTTGATG
* *
281656 TTTTTTACTGTTTTTG-TGTTG
1 TTTTTTACTGTTTTGGTTGATG
* **
281677 TTTTTTACTATTTT-G-AAACT-
1 TTTTTTACTGTTTTGGTTGA-TG
*
281697 TTTTTTACTGTTTTGGTTGCTG
1 TTTTTTACTGTTTTGGTTGATG
281719 TTTT
1 TTTT
281723 CGTGTTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
20 14 0.27
21 20 0.38
22 18 0.35
ACGTcount: A:0.11, C:0.07, G:0.17, T:0.65
Consensus pattern (22 bp):
TTTTTTACTGTTTTGGTTGATG
Found at i:281757 original size:12 final size:12
Alignment explanation
Indices: 281705--281831 Score: 59
Period size: 12 Copynumber: 11.1 Consensus size: 12
281695 CTTTTTTTAC
* *
281705 TGTTTTGGTTGC
1 TGTTTTTGTTGT
*
281717 TGTTTTCG-TGT
1 TGTTTTTGTTGT
***
281728 TGTTTTTACAGT
1 TGTTTTTGTTGT
*
281740 TATTTTTGTTGT
1 TGTTTTTGTTGT
281752 TGTTTTTGTTG-
1 TGTTTTTGTTGT
* * *
281763 -CTATTT-TTAT
1 TGTTTTTGTTGT
**
281773 TGTTTTTAATGT
1 TGTTTTTGTTGT
*
281785 TG-TTTTGCTGT
1 TGTTTTTGTTGT
* *
281796 TATTTTTGCTGT
1 TGTTTTTGTTGT
**
281808 TGTTTTTAATGT
1 TGTTTTTGTTGT
281820 TG-TTTTGTTGT
1 TGTTTTTGTTGT
281831 T
1 T
281832 TGAATGTTAT
Statistics
Matches: 85, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
9 2 0.02
10 4 0.05
11 28 0.33
12 51 0.60
ACGTcount: A:0.08, C:0.05, G:0.20, T:0.67
Consensus pattern (12 bp):
TGTTTTTGTTGT
Found at i:281767 original size:24 final size:24
Alignment explanation
Indices: 281705--281776 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
281695 CTTTTTTTAC
* * *
281705 TGTTTTGGTTGCTGTTTTCG-TGT
1 TGTTTTTGTTGCTATTTTTGTTGT
*** *
281728 TGTTTTTACAGTTATTTTTGTTGT
1 TGTTTTTGTTGCTATTTTTGTTGT
*
281752 TGTTTTTGTTGCTATTTTTATTGT
1 TGTTTTTGTTGCTATTTTTGTTGT
281776 T
1 T
281777 TTTAATGTTG
Statistics
Matches: 36, Mismatches: 12, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
23 13 0.36
24 23 0.64
ACGTcount: A:0.07, C:0.06, G:0.21, T:0.67
Consensus pattern (24 bp):
TGTTTTTGTTGCTATTTTTGTTGT
Found at i:281800 original size:32 final size:34
Alignment explanation
Indices: 281749--281831 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 34
281739 TTATTTTTGT
*
281749 TGTTGTTTTTGTTGCTA-TTTT-TATTGTTTTTAA
1 TGTTG-TTTTGTTGTTATTTTTCTATTGTTTTTAA
* *
281782 TGTTGTTTTGCTGTTATTTTTGCTGTTGTTTTTAA
1 TGTTGTTTTGTTGTTATTTTT-CTATTGTTTTTAA
281817 TGTTGTTTTGTTGTT
1 TGTTGTTTTGTTGTT
281832 TGAATGTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 9 0.21
33 9 0.21
35 25 0.58
ACGTcount: A:0.08, C:0.04, G:0.19, T:0.69
Consensus pattern (34 bp):
TGTTGTTTTGTTGTTATTTTTCTATTGTTTTTAA
Found at i:281839 original size:19 final size:20
Alignment explanation
Indices: 281805--281844 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
281795 TTATTTTTGC
* *
281805 TGTTGTTTTTAATGTTGTTT
1 TGTTGTTTTGAATGTTATTT
281825 TGTTG-TTTGAATGTTATTT
1 TGTTGTTTTGAATGTTATTT
281844 T
1 T
281845 TTATGCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (20 bp):
TGTTGTTTTGAATGTTATTT
Found at i:285484 original size:26 final size:24
Alignment explanation
Indices: 285445--285493 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
285435 TGAAATTAAA
285445 ATAAAGTAAATTAAAAAAGTATGAG
1 ATAAAGTAAATTAAAAAA-TATGAG
*
285470 ATAAATTAAGATTAAAAAATATGA
1 ATAAAGTAA-ATTAAAAAATATGA
285494 TGTGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (24 bp):
ATAAAGTAAATTAAAAAATATGAG
Found at i:286420 original size:28 final size:28
Alignment explanation
Indices: 286389--286446 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
286379 ACTTTAATTT
*
286389 TTAAATTTAAA-AGGATTAAAT-TTTAAAA
1 TTAAAATTAAAGA-GATT-AATCTTTAAAA
286417 TTAAAATTAAAGAGATTAATCTTTAAAA
1 TTAAAATTAAAGAGATTAATCTTTAAAA
286445 TT
1 TT
286447 TCAAAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 3 0.11
28 23 0.85
29 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (28 bp):
TTAAAATTAAAGAGATTAATCTTTAAAA
Found at i:291988 original size:1 final size:1
Alignment explanation
Indices: 291982--292007 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
291972 TGAATTTCGA
291982 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
292008 GTTATGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:293152 original size:31 final size:31
Alignment explanation
Indices: 293117--293177 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
293107 CAACCTAATA
*
293117 ACTTAAATAAAAAATTTT-GAATAGTTCAGTG
1 ACTTAAAT-AAAAATTTTCGAATAATTCAGTG
* *
293148 ACTTAGATAAAATTTTTCGAATAATTCAGT
1 ACTTAAATAAAAATTTTCGAATAATTCAGT
293178 AACCATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (31 bp):
ACTTAAATAAAAATTTTCGAATAATTCAGTG
Found at i:293869 original size:18 final size:19
Alignment explanation
Indices: 293825--293870 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
293815 TTAAAATATA
* *
293825 TAAATTAA-ATATCAAATT
1 TAAATTAATAAATCAAATC
293843 TAAACTTAATAAAT-AAATC
1 TAAA-TTAATAAATCAAATC
293862 TAAATTAAT
1 TAAATTAAT
293871 TTCATTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 9 0.38
19 12 0.50
20 3 0.12
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATTAATAAATCAAATC
Found at i:305137 original size:10 final size:10
Alignment explanation
Indices: 305122--305153 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
305112 TTGTGTATTT
305122 GAGAGTTTGA
1 GAGAGTTTGA
305132 GAGAGTTTGA
1 GAGAGTTTGA
305142 GAGAG-TTGA
1 GAGAGTTTGA
305151 GAG
1 GAG
305154 TGATTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (10 bp):
GAGAGTTTGA
Found at i:307056 original size:18 final size:18
Alignment explanation
Indices: 307008--307060 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
306998 AATCTCGACC
307008 GATTGAATATAATGCATAT
1 GATTGAATATAATGCA-AT
**
307027 -AGTT-AAGGTAATGCAAT
1 GA-TTGAATATAATGCAAT
307044 GATTGAATATAATGCAA
1 GATTGAATATAATGCAA
307061 CCCCTTAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
17 4 0.15
18 21 0.78
19 2 0.07
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (18 bp):
GATTGAATATAATGCAAT
Found at i:308399 original size:12 final size:12
Alignment explanation
Indices: 308379--308497 Score: 81
Period size: 12 Copynumber: 10.4 Consensus size: 12
308369 AACATCCAAA
308379 CAACAAAAATAG
1 CAACAAAAATAG
*
308391 CAGCAAAAATAG
1 CAACAAAAATAG
308403 CAACAAAACA-A-
1 CAACAAAA-ATAG
*
308414 CAATAAAAAT--
1 CAACAAAAATAG
*
308424 -AATAAAAATAG
1 CAACAAAAATAG
* *
308435 TAACAAAAACAG
1 CAACAAAAATAG
*
308447 CAACAAAAA-AA
1 CAACAAAAATAG
* * *
308458 TAGCAAAAATAA
1 CAACAAAAATAG
308470 CAA-AAAAATAG
1 CAACAAAAATAG
* *
308481 CAATAAAAATAA
1 CAACAAAAATAG
308493 CAACA
1 CAACA
308498 TCAAAACAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
9 9 0.10
10 1 0.01
11 25 0.29
12 50 0.58
13 1 0.01
ACGTcount: A:0.70, C:0.14, G:0.06, T:0.10
Consensus pattern (12 bp):
CAACAAAAATAG
Found at i:308421 original size:23 final size:23
Alignment explanation
Indices: 308395--308527 Score: 67
Period size: 23 Copynumber: 5.9 Consensus size: 23
308385 AAATAGCAGC
308395 AAAAATAGCAACAAAACAACAAT
1 AAAAATAGCAACAAAACAACAAT
* ** *
308418 AAAAATA--ATA-AAAATAGTAAC
1 AAAAATAGCA-ACAAAACAACAAT
* * * **
308439 AAAAACAGCAACAAAAAAATAGC
1 AAAAATAGCAACAAAACAACAAT
* * * *
308462 AAAAATAACAAAAAAATAGCAAT
1 AAAAATAGCAACAAAACAACAAT
* *
308485 AAAAATAACAACATCAA-AACAAT
1 AAAAATAGCAACA-AAACAACAAT
* *
308508 AAAAAAAGAAACAAAACAAC
1 AAAAATAGCAACAAAACAAC
308528 CAAAACAGTA
Statistics
Matches: 81, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
21 14 0.17
22 4 0.05
23 61 0.75
24 2 0.02
ACGTcount: A:0.72, C:0.14, G:0.05, T:0.10
Consensus pattern (23 bp):
AAAAATAGCAACAAAACAACAAT
Found at i:308431 original size:32 final size:32
Alignment explanation
Indices: 308394--308495 Score: 98
Period size: 32 Copynumber: 3.1 Consensus size: 32
308384 AAAATAGCAG
308394 CAAAAATAGCAACAAAACAACAATAAAAATAA
1 CAAAAATAGCAACAAAACAACAATAAAAATAA
* * *
308426 TAAAAATAGTAACAAAAACAGCAACAA-AAAAATAG
1 CAAAAATAGCAAC--AAA-A-CAACAATAAAAATAA
* * * *
308461 CAAAAATAACAAAAAAATAGCAATAAAAATAA
1 CAAAAATAGCAACAAAACAACAATAAAAATAA
308493 CAA
1 CAA
308496 CATCAAAACA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
31 4 0.07
32 22 0.40
33 3 0.05
34 3 0.05
35 17 0.31
36 6 0.11
ACGTcount: A:0.72, C:0.13, G:0.05, T:0.11
Consensus pattern (32 bp):
CAAAAATAGCAACAAAACAACAATAAAAATAA
Found at i:308514 original size:11 final size:12
Alignment explanation
Indices: 308462--308495 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
308452 AAAAAATAGC
308462 AAAAATAACAA-
1 AAAAATAACAAT
*
308473 AAAAATAGCAAT
1 AAAAATAACAAT
308485 AAAAATAACAA
1 AAAAATAACAA
308496 CATCAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAATAACAAT
Found at i:308532 original size:20 final size:20
Alignment explanation
Indices: 308499--308547 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
308489 ATAACAACAT
*
308499 CAAAACAATAAAAAAAGAAA
1 CAAAACAACAAAAAAAGAAA
* * *
308519 CAAAACAACCAAAACAGTAA
1 CAAAACAACAAAAAAAGAAA
308539 -AAAACAACA
1 CAAAACAACA
308548 CCAAAATAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.73, C:0.18, G:0.04, T:0.04
Consensus pattern (20 bp):
CAAAACAACAAAAAAAGAAA
Found at i:308550 original size:21 final size:21
Alignment explanation
Indices: 308526--308576 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
308516 AAACAAAACA
308526 ACCAAAACAGTAAAAAACAAC
1 ACCAAAACAGTAAAAAACAAC
* *
308547 ACCAAAATAGTAAAAAACAGC
1 ACCAAAACAGTAAAAAACAAC
308568 ACCAAAACA
1 ACCAAAACA
308577 ATAATATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.65, C:0.24, G:0.06, T:0.06
Consensus pattern (21 bp):
ACCAAAACAGTAAAAAACAAC
Found at i:320592 original size:39 final size:39
Alignment explanation
Indices: 320547--320627 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
320537 TTCTATGAAA
*
320547 AGCAGCTTTAGTCAGCTCATCTTCATCACCATCACTTTC
1 AGCAGCTTTAGTCAACTCATCTTCATCACCATCACTTTC
320586 AGCAGCTTTAGTCAACTCATCTTCATCACCATCACTTTC
1 AGCAGCTTTAGTCAACTCATCTTCATCACCATCACTTTC
320625 AGC
1 AGC
320628 TTCATTAGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.32
Consensus pattern (39 bp):
AGCAGCTTTAGTCAACTCATCTTCATCACCATCACTTTC
Found at i:320645 original size:39 final size:39
Alignment explanation
Indices: 320547--320651 Score: 140
Period size: 39 Copynumber: 2.7 Consensus size: 39
320537 TTCTATGAAA
* *
320547 AGCAGCTTTAGTCAGCTCATCTTCATCACCATCACTTTC
1 AGCAGCATTAGTCAACTCATCTTCATCACCATCACTTTC
*
320586 AGCAGCTTTAGTCAACTCATCTTCATCACCATCACTTTC
1 AGCAGCATTAGTCAACTCATCTTCATCACCATCACTTTC
** *
320625 AGCTTCATTAG-CATCTTCATCTTCATC
1 AGCAGCATTAGTCAAC-TCATCTTCATC
320652 CTCAAGATTC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 3 0.05
39 57 0.95
ACGTcount: A:0.24, C:0.32, G:0.09, T:0.35
Consensus pattern (39 bp):
AGCAGCATTAGTCAACTCATCTTCATCACCATCACTTTC
Found at i:323140 original size:5 final size:5
Alignment explanation
Indices: 323132--323177 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
323122 GGTTATTTAA
*
323132 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
323178 TACATGGTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:326936 original size:21 final size:22
Alignment explanation
Indices: 326912--326955 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
326902 CCCACCGTCC
*
326912 CTTTCCCCACC-CCTACAAACT
1 CTTTACCCACCTCCTACAAACT
*
326933 CTTTATCCACCTCCTACAAACT
1 CTTTACCCACCTCCTACAAACT
326955 C
1 C
326956 AAATCAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.25, C:0.48, G:0.00, T:0.27
Consensus pattern (22 bp):
CTTTACCCACCTCCTACAAACT
Found at i:328379 original size:3 final size:3
Alignment explanation
Indices: 328371--328395 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
328361 GGCAGTGGAC
328371 GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT G
328396 CGTAGCGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:328910 original size:12 final size:12
Alignment explanation
Indices: 328893--328931 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
328883 TTGCAATTAT
328893 TACAATTATAGA
1 TACAATTATAGA
328905 TACAATTAT---
1 TACAATTATAGA
328914 TACAATTATAGA
1 TACAATTATAGA
328926 TACAAT
1 TACAAT
328932 AAAAAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 9 0.38
12 15 0.62
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (12 bp):
TACAATTATAGA
Found at i:328912 original size:21 final size:21
Alignment explanation
Indices: 328886--328931 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
328876 GGAGCCTTTG
328886 CAATTATTACAATTATAGATA
1 CAATTATTACAATTATAGATA
328907 CAATTATTACAATTATAGATA
1 CAATTATTACAATTATAGATA
328928 CAAT
1 CAAT
328932 AAAAAGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (21 bp):
CAATTATTACAATTATAGATA
Found at i:331542 original size:6 final size:6
Alignment explanation
Indices: 331531--331575 Score: 72
Period size: 6 Copynumber: 7.2 Consensus size: 6
331521 AAGGATTTAA
331531 TATATG TATATGTG TATATG TATATG TATATG TATATG TATATG T
1 TATATG TATA--TG TATATG TATATG TATATG TATATG TATATG T
331576 GAATCTTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 31 0.84
8 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:346310 original size:70 final size:72
Alignment explanation
Indices: 346236--346394 Score: 171
Period size: 71 Copynumber: 2.2 Consensus size: 72
346226 AATTCAGTTG
* * * *
346236 AAACCCTGATATGATTATTGGATAT-CA-AAAAATTTCAAAATAATATATAGCTCAACTTTAAAT
1 AAACCCTGATATGATTATTAGATATACATAAAAATTTCAAAATAATACACAACTCAACTTTAAAT
346299 TCAATCA
66 TCAATCA
* * * * * * *
346306 AAACCCTGAAATGATT-CTAGATATACATAAGAATTTCGAAGTAATACACAACTCGATTTTAAAT
1 AAACCCTGATATGATTATTAGATATACATAAAAATTTCAAAATAATACACAACTCAACTTTAAAT
*
346370 TTAATCA
66 TCAATCA
* *
346377 AAACCCTAATATAATTAT
1 AAACCCTGATATGATTAT
346395 CAGAATAAGG
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
69 6 0.09
70 17 0.24
71 47 0.67
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (72 bp):
AAACCCTGATATGATTATTAGATATACATAAAAATTTCAAAATAATACACAACTCAACTTTAAAT
TCAATCA
Found at i:350116 original size:2 final size:2
Alignment explanation
Indices: 350109--350138 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
350099 ATTGTCGAAT
350109 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
350139 ATCTTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:354975 original size:23 final size:23
Alignment explanation
Indices: 354928--354972 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
354918 TTGAACCGGT
354928 TTTTTATTTTTTAAAATATTTTA
1 TTTTTATTTTTTAAAATATTTTA
* *
354951 TTTTTATGTTTTTTAATTATTT
1 TTTTTAT-TTTTTAAAATATTT
354973 ATTAATCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATTTTTTAAAATATTTTA
Found at i:367466 original size:37 final size:37
Alignment explanation
Indices: 367416--367491 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
367406 CAAAATAAGA
*
367416 GAAAATTAGCATCAAAGAAGCCTAATTTCTTTTTAGT
1 GAAAATTAACATCAAAGAAGCCTAATTTCTTTTTAGT
367453 GAAAATTAACATCAAAGAAGCCTAATTTCTTTTTAGT
1 GAAAATTAACATCAAAGAAGCCTAATTTCTTTTTAGT
367490 GA
1 GA
367492 TGGATTTGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (37 bp):
GAAAATTAACATCAAAGAAGCCTAATTTCTTTTTAGT
Found at i:367778 original size:17 final size:17
Alignment explanation
Indices: 367751--367783 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
367741 GTTTTCTTCT
367751 TCATCTTTCCTCTGATTA
1 TCATCTTTCCTC-GATTA
367769 TCAT-TTTCCTCGATT
1 TCATCTTTCCTCGATT
367784 TTTTCTCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.15, C:0.27, G:0.06, T:0.52
Consensus pattern (17 bp):
TCATCTTTCCTCGATTA
Found at i:368537 original size:36 final size:36
Alignment explanation
Indices: 368491--368562 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
368481 TTTTAAAACT
368491 CATGACTAACATTTACCTCTTAATAAACTTATAAAA
1 CATGACTAACATTTACCTCTTAATAAACTTATAAAA
368527 CATGACTAACATTTACCTCTTAATAAACTTATAAAA
1 CATGACTAACATTTACCTCTTAATAAACTTATAAAA
368563 TCCGAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (36 bp):
CATGACTAACATTTACCTCTTAATAAACTTATAAAA
Found at i:370147 original size:7 final size:7
Alignment explanation
Indices: 370135--370165 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
370125 TAATTATTGC
370135 AAAAAAG
1 AAAAAAG
370142 AAAAAAG
1 AAAAAAG
370149 AAAAAA-
1 AAAAAAG
370155 AAAAAAG
1 AAAAAAG
370162 AAAA
1 AAAA
370166 GGTTAGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:370152 original size:13 final size:13
Alignment explanation
Indices: 370135--370165 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
370125 TAATTATTGC
370135 AAAAAAGAAAAAAG
1 AAAAAA-AAAAAAG
370149 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
370162 AAAA
1 AAAA
370166 GGTTAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:371827 original size:18 final size:18
Alignment explanation
Indices: 371806--371855 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
371796 TTAATTTTTT
371806 AAATAAAATAAATTAAAA
1 AAATAAAATAAATTAAAA
* *
371824 AAATATAATACA-TAAAA
1 AAATAAAATAAATTAAAA
371841 AACATTAAAATAAAT
1 AA-A-TAAAATAAAT
371856 GTTTACCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 7 0.28
18 11 0.44
19 7 0.28
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAAATAAATTAAAA
Found at i:377006 original size:42 final size:42
Alignment explanation
Indices: 376943--377035 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
376933 TATCATAATC
*
376943 ACACATTAAGAGAGAGGAAGTGGATGAAGGGAACCGCCATTG
1 ACACATTAAGAGAGAGAAAGTGGATGAAGGGAACCGCCATTG
*
376985 ACACATTAAGAGAGAGAAAGTGGATGAAGGGAATCGCCATTG
1 ACACATTAAGAGAGAGAAAGTGGATGAAGGGAACCGCCATTG
377027 ACACATTAA
1 ACACATTAA
377036 CTGGTACCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.41, C:0.14, G:0.29, T:0.16
Consensus pattern (42 bp):
ACACATTAAGAGAGAGAAAGTGGATGAAGGGAACCGCCATTG
Found at i:384740 original size:18 final size:18
Alignment explanation
Indices: 384713--384748 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
384703 TAGTAATGTG
* *
384713 TTTATTTCAAAAGTGCTT
1 TTTATCTCAAAAATGCTT
384731 TTTATCTCAAAAATGCTT
1 TTTATCTCAAAAATGCTT
384749 ATGTAAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (18 bp):
TTTATCTCAAAAATGCTT
Found at i:395984 original size:25 final size:25
Alignment explanation
Indices: 395938--395985 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
395928 TAAAAAGTAT
* * **
395938 TTTTATATTTTTATAATCTTAATGA
1 TTTTAGATTTTTAAAAAATTAATGA
395963 TTTTAGATTTTTAAAAAATTAAT
1 TTTTAGATTTTTAAAAAATTAAT
395986 TAAATGTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTAGATTTTTAAAAAATTAATGA
Found at i:404460 original size:43 final size:44
Alignment explanation
Indices: 404370--404476 Score: 105
Period size: 43 Copynumber: 2.5 Consensus size: 44
404360 TTTAAATTAC
*** * *
404370 AGTAAAATGAAAGTAAAAATA-TTCTAAGCCATACATAAATTAC
1 AGTAAAATGAAAGTAAAAATATTTCTAAAAAATACATAAATAAA
*
404413 AGTAAAATGAAAGTAAAAATATTTTTAAAAAATA-A-AATATAAA
1 AGTAAAATGAAAGTAAAAATATTTCTAAAAAATACATAA-ATAAA
* *
404456 AGTAAAAAG-AATTAAAAATAT
1 AGTAAAATGAAAGTAAAAATAT
404477 AAAAATTTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 13 0.24
43 33 0.61
44 8 0.15
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (44 bp):
AGTAAAATGAAAGTAAAAATATTTCTAAAAAATACATAAATAAA
Found at i:408680 original size:31 final size:31
Alignment explanation
Indices: 408642--408739 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
408632 TTAATATAAC
*
408642 ATTTGGTACTTGAACTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
* * *
408673 ATTTGGTACCTAAACTT-----TTTTTGTCCA
1 ATTTGGTACTTAAACTTGACACTTTTTCT-TA
* *
408700 ATTTGGTACTCAAACTTGACACTTTTTCCTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
408731 ATTTGGTAC
1 ATTTGGTAC
408740 CTAATCTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
26 6 0.12
27 16 0.31
31 25 0.48
32 5 0.10
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTGACACTTTTTCTTA
Found at i:408702 original size:27 final size:27
Alignment explanation
Indices: 408664--408751 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 27
408654 AACTTGACAC
*
408664 TTTTTCTTAATTTGGTACCTAAACTTT
1 TTTTTCCTAATTTGGTACCTAAACTTT
*
408691 TTTTGTCC-AATTTGGTA-CTCAAACTTGACAC
1 TTTT-TCCTAATTTGGTACCT-AAACTT----T
*
408722 TTTTTCCTAATTTGGTACCTAATCTTT
1 TTTTTCCTAATTTGGTACCTAAACTTT
408749 TTT
1 TTT
408752 AATATTAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
26 2 0.04
27 22 0.45
28 2 0.04
30 3 0.06
31 18 0.37
32 2 0.04
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (27 bp):
TTTTTCCTAATTTGGTACCTAAACTTT
Found at i:408733 original size:58 final size:58
Alignment explanation
Indices: 408642--408751 Score: 184
Period size: 58 Copynumber: 1.9 Consensus size: 58
408632 TTAATATAAC
** *
408642 ATTTGGTACTTGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGTCCA
1 ATTTGGTACTCAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTGTCCA
*
408700 ATTTGGTACTCAAACTTGACACTTTTTCCTAATTTGGTACCTAATCTTTTTT
1 ATTTGGTACTCAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTT
408752 AATATTAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (58 bp):
ATTTGGTACTCAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTGTCCA
Found at i:411142 original size:15 final size:15
Alignment explanation
Indices: 411110--411162 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
411100 GAAAGATGAA
411110 TAATAATATTATTATTT
1 TAATAAT-TTA-TATTT
*
411127 TAATAGTTTATATTT
1 TAATAATTTATATTT
*
411142 TTATAATTTATATTT
1 TAATAATTTATATTT
*
411157 TTATAA
1 TAATAA
411163 ATTTTAAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 24 0.73
16 3 0.09
17 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TAATAATTTATATTT
Found at i:416913 original size:34 final size:34
Alignment explanation
Indices: 416870--416934 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
416860 GGTGGTTGGG
416870 AATTTTTAGGATTTGTGATAAAAATTAAATGGAA
1 AATTTTTAGGATTTGTGATAAAAATTAAATGGAA
416904 AATTTTTAGGATTTGTGATAAAAATTAAATG
1 AATTTTTAGGATTTGTGATAAAAATTAAATG
416935 AAATAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (34 bp):
AATTTTTAGGATTTGTGATAAAAATTAAATGGAA
Found at i:418412 original size:3 final size:3
Alignment explanation
Indices: 418398--418429 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
418388 ATATAGAAAC
418398 AAT AATT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A
418430 GCAAAACCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:430595 original size:36 final size:36
Alignment explanation
Indices: 430544--430616 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
430534 TACGATGTTG
* *
430544 GGTAATTATATTGATCTGGGGATCTGGAGTCGAATT
1 GGTAATTATAGTGATCTGGAGATCTGGAGTCGAATT
* *
430580 GGTAATTATAGTGATCTGGAGATTTGGAGTTGAATT
1 GGTAATTATAGTGATCTGGAGATCTGGAGTCGAATT
430616 G
1 G
430617 TGTTGGATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.05, G:0.32, T:0.37
Consensus pattern (36 bp):
GGTAATTATAGTGATCTGGAGATCTGGAGTCGAATT
Found at i:432043 original size:29 final size:29
Alignment explanation
Indices: 431993--432056 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
431983 CTAGTTTGAA
431993 TATATTATGTTATAAAAAAATTATAT-TAAT
1 TATA-TATGTTATAAAAAAATTATATAT-AT
*
432023 TATATATGTTA-AATAATAATTATATATAT
1 TATATATGTTATAA-AAAAATTATATATAT
432052 TATAT
1 TATAT
432057 TTATATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 2 0.06
29 24 0.77
30 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TATATATGTTATAAAAAAATTATATATAT
Found at i:432064 original size:20 final size:19
Alignment explanation
Indices: 432012--432064 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
432002 TTATAAAAAA
432012 ATTATATTA-ATTATATAT
1 ATTATATTATATTATATAT
* * *
432030 GTTAAATAATAATTATATAT
1 ATTATATTAT-ATTATATAT
432050 ATTATATTTATATTA
1 ATTATA-TTATATTA
432065 AATCACTAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 6 0.23
20 17 0.65
21 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTATATTATATTATATAT
Found at i:437045 original size:41 final size:41
Alignment explanation
Indices: 436967--437045 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 41
436957 TTGAGTTATT
* *
436967 TTATTTATTTATTTTTTGAATAATTTTATTGTATATTCTAA
1 TTATTTATTTATTTTTTGAATAATTATATTGAATATTCTAA
437008 TTATTT-TTT-TTTTTTGAGATAA-TATATTAGAATTATTC
1 TTATTTATTTATTTTTTGA-ATAATTATATT-GAA-TATTC
437046 CAAGTTCTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
39 13 0.39
40 9 0.27
41 11 0.33
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (41 bp):
TTATTTATTTATTTTTTGAATAATTATATTGAATATTCTAA
Found at i:437522 original size:3 final size:3
Alignment explanation
Indices: 437516--437547 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
437506 CCACAACAAC
437516 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
437548 ATCAAGATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:441536 original size:2 final size:2
Alignment explanation
Indices: 441487--441517 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
441477 TATTTTATGA
441487 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 A
441518 CGAACTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:443823 original size:138 final size:136
Alignment explanation
Indices: 443662--443927 Score: 331
Period size: 138 Copynumber: 1.9 Consensus size: 136
443652 TAAGGAATTT
**
443662 AATAATAAATAAACAAATACTGAAAATTTAAAAACCAGGTTATTGATTCAATA-CC-GTACAACT
1 AATAATAAATAAACAAATACTGAAAATCCAAAAACCAGGTTATTGATTCAATATCCTGT--AACT
* * * * *
443725 TCACAGCAGTTAGTAAAATAACAAAATCCTAGCATATCATAAGCTAACATCTCATTATATCAGGA
64 CCACAGAAATTA-AAAAATAACAAAAT-ATAGCATATCATAAGCTAACATCTCATTATATCAGGA
443790 AACTGAAATC
127 AACTGAAATC
* * * *
443800 AATAAT-AATCAAACAAATCCTGAAAATCCAAAAATCAGGTTATTGATTCTATATCCTGTATCTC
1 AATAATAAAT-AAACAAATACTGAAAATCCAAAAACCAGGTTATTGATTCAATATCCTGTAACTC
* * * *
443864 CGCAGAAATTAAAAAATAACAAAATATAGCATATCATAAGCTACCATCTCGTTCTATCAGGAAA
65 CACAGAAATTAAAAAATAACAAAATATAGCATATCATAAGCTAACATCTCATTATATCAGGAAA
443928 TCAGCTTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
136 35 0.32
137 16 0.15
138 55 0.50
139 2 0.02
140 2 0.02
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (136 bp):
AATAATAAATAAACAAATACTGAAAATCCAAAAACCAGGTTATTGATTCAATATCCTGTAACTCC
ACAGAAATTAAAAAATAACAAAATATAGCATATCATAAGCTAACATCTCATTATATCAGGAAACT
GAAATC
Found at i:444064 original size:163 final size:158
Alignment explanation
Indices: 443823--444224 Score: 540
Period size: 163 Copynumber: 2.5 Consensus size: 158
443813 CAAATCCTGA
* * * *
443823 AAATCC-AAAAATCAGGTTATTGATTCTATATCCTGTATCTCCGCAGAAATT--AAAAAATAACA
1 AAATCCAAAAAAACAGGTTATTGATTCTATATCCTGTAACTGCGCAGCAATTGAAAAAAATAACA
* *
443885 AAATATAGCATATCATAAGCTACCATCTCGTTCTATCAGGAAATCAGCTTCCGGATTTAATGAGG
66 AAATATAGCATATCATAAGCTACCATCTCGTTCTATCAGGAAATCAGCTTCCAGATTTAATAAGG
*
443950 ATTTTAATAATAAATAAACAAATACTGTAAAT
131 AATTTAATAATAAAT--A-AAA-ACTGTAAAT
* * **
443982 AAATCCAAAAAACCAGGTTATTGATTCAATAGACTGTAACTGCGCAGCAATTAGAAAAAAATAAC
1 AAATCCAAAAAAACAGGTTATTGATTCTATATCCTGTAACTGCGCAGCAATT-GAAAAAAATAAC
* * *
444047 AAAATTTAGCTTATCATAAGCTACCATCTCGTTCTATCTGGAAATCAGCTTCCAGATTTAATAAG
65 AAAATATAGCATATCATAAGCTACCATCTCGTTCTATCAGGAAATCAGCTTCCAGATTTAATAAG
444112 GAATTTAATAATAAATAAAAACTGTAAAT
130 GAATTTAATAATAAATAAAAACTGTAAAT
* * * * *
444141 AAATCTAAAAAAACAGGTTATTGATTCTATATCCTGCAACTGTGCAGCAATTGGAAAAAATGAAA
1 AAATCCAAAAAAACAGGTTATTGATTCTATATCCTGTAACTGCGCAGCAATTGAAAAAAAT-AAC
* *
444206 AAAATATAGCGTATAATAA
65 AAAATATAGCATATCATAA
444225 ATGATACTAT
Statistics
Matches: 213, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
158 8 0.04
159 78 0.37
160 41 0.19
161 1 0.00
163 85 0.40
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (158 bp):
AAATCCAAAAAAACAGGTTATTGATTCTATATCCTGTAACTGCGCAGCAATTGAAAAAAATAACA
AAATATAGCATATCATAAGCTACCATCTCGTTCTATCAGGAAATCAGCTTCCAGATTTAATAAGG
AATTTAATAATAAATAAAAACTGTAAAT
Found at i:447523 original size:82 final size:79
Alignment explanation
Indices: 447398--447638 Score: 259
Period size: 81 Copynumber: 3.0 Consensus size: 79
447388 GGTTTTTCTT
* * * * * *
447398 GAAAGTTTTCACAGATTCACTCAAAGGAAATATAGAAAGAGCAAAAGGGTATCAGAATTGGTTTC
1 GAAAATTTTCACAAATT-ACTC-AAGCAAATACAGCAAGAGCAAAAGGGTATCAAAATTGGTTTC
447463 CATTCATGCAAATTCCAA
64 C--TCATGCAAATTCCAA
* * * *
447481 GAAAATTTTCACAAATTACTCAA-CGAAATGCAGCATAGAGCAAAAGGGTGTGAAAATTGGATTC
1 GAAAATTTTCACAAATTACTCAAGC-AAATACAGCA-AGAGCAAAAGGGTATCAAAATTGGTTTC
* *
447545 CTCTTGCAAAATTCCCA
64 CTCATGC-AAATTCCAA
* * * *
447562 GAAATTTTTCACAAATTACTCAAGCAAATACAGCAAGAACAAAAGGGAATCAAAATTGTTTTCCC
1 GAAAATTTTCACAAATTACTCAAGCAAATACAGCAAGAGCAAAAGGGTATCAAAATTGGTTT-CC
447627 TCATGCAAATTC
65 TCATGCAAATTC
447639 ACAGAGAACT
Statistics
Matches: 132, Mismatches: 21, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
80 32 0.24
81 55 0.42
82 30 0.23
83 15 0.11
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (79 bp):
GAAAATTTTCACAAATTACTCAAGCAAATACAGCAAGAGCAAAAGGGTATCAAAATTGGTTTCCT
CATGCAAATTCCAA
Found at i:447738 original size:79 final size:79
Alignment explanation
Indices: 447649--447832 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 79
447639 ACAGAGAACT
447649 AAGGAAATACAGCAAAAGCAAAAGGACATCAAATTTG-GCCTCCTC-TTGCAAATTCCCAG-AAA
1 AAGGAAATACAGCAAAAGCAAAAGGACATCAAA-TTGAGCCTCC-CATT-CAAATTCCCAGAAAA
447711 ATTTTCACAAATTACTA
63 ATTTTCACAAATTACTA
* * ** **
447728 AAGGGAATACAGGAAAAGCAAAAGGGTATCAAATTGATTTCTCCCATTCAAATTCCCAGAAAAAT
1 AAGGAAATACAGCAAAAGCAAAAGGACATCAAATTGA-GCCTCCCATTCAAATTCCCAGAAAAAT
*
447793 TTTCACAAATTACTC
65 TTTCACAAATTACTA
* * *
447808 AAGCAAATACAACAAGAGCAAAAGG
1 AAGGAAATACAGCAAAAGCAAAAGG
447833 GTACCTAGCC
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 41 0.46
80 45 0.51
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (79 bp):
AAGGAAATACAGCAAAAGCAAAAGGACATCAAATTGAGCCTCCCATTCAAATTCCCAGAAAAATT
TTCACAAATTACTA
Found at i:447872 original size:80 final size:78
Alignment explanation
Indices: 447697--447910 Score: 218
Period size: 80 Copynumber: 2.7 Consensus size: 78
447687 CCTCCTCTTG
* * ** * * *
447697 CAAATTCCCAGAAAATTTTCACAAATTACTAAAGGGAATACAGGAAAAGCAAAAGGGTATCAAAT
1 CAAATTCCCAGAAAATTTTCACAAATTACTCAA-GAAATACAACAAGAGCAAAAGGGTACCAAAC
* *
447762 TGATTTCTCCCATT
65 AGATTTCTCCCACT
*
447776 CAAATTCCCAGAAAAATTTTCACAAATTACTCAAGCAAATACAACAAGAGCAAAAGGGTACCTAG
1 CAAATTCCCAG-AAAATTTTCACAAATTACTCAAG-AAATACAACAAGAGCAAAAGGGTACC-AA
*
447841 CCAG-TTT-TCCGTCACT
63 ACAGATTTCTCC--CACT
* *
447857 CAAATTCCCAGAAAA-TTTCACAAACTACTCAAGAAAAACACATCAAGAGCAAAA
1 CAAATTCCCAGAAAATTTTCACAAATTACTCAAGAAATACA-A-CAAGAGCAAAA
447911 AAGGGTATTG
Statistics
Matches: 115, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 6 0.05
79 33 0.29
80 60 0.52
81 16 0.14
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (78 bp):
CAAATTCCCAGAAAATTTTCACAAATTACTCAAGAAATACAACAAGAGCAAAAGGGTACCAAACA
GATTTCTCCCACT
Found at i:455733 original size:149 final size:149
Alignment explanation
Indices: 455547--456281 Score: 733
Period size: 154 Copynumber: 4.9 Consensus size: 149
455537 AGGAAGTGAC
*
455547 AAAAAACAAGGCAATTAGAGTAAAGGGTATCGAAATAAAATTGAAAAAAAAAAACACAAACCCAG
1 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAAATTGAAAAAAAAAAACACAAACCCAG
* * *
455612 AGTCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAACAGA-GATTTTCAGC
66 AGCCAAGAACACCATGAAAGATCAAATGCTCAAACGAACAACCAATAAAACA-ATGATTTTCAGC
455676 AAAATTAGAGATATGAAG-TT
130 AAAA-TAGAGATATGAAGTTT
* * * *
455696 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTG-AAAAAAAAAAC-CTAACTCAT
1 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAAATTGAAAAAAAAAAACACAAACCCAG
*
455759 AGCCAAGAACACCATGAAAGATCAAATGCTCAAACGAACAACCAATAAAACAATTATTTTCAGCA
66 AGCCAAGAACACCATGAAAGATCAAATGCTCAAACGAACAACCAATAAAACAATGATTTTCAGCA
* * *
455824 AAATCGAGCTAGGAAGTTTTTT
131 AAATAGAGATATGAAG---TTT
* * * * *
455846 AAAAATACAAGGCAATTAGACTAAAGAGTATTGAGATAAAATTGAAAAAAAATAAA-ACCTAATC
1 AAAAA-ACAAGGCAATTAGAGTAAAGGGTATTGAAATAAAATTGAAAAAAAA-AAACA-CAAACC
* * * * *
455910 CAGAGCCAAAAACACCATGAAAGATCAAATGTTCAAGCGAATAACCAATAAAACAATGGTTTTCA
63 CAGAGCCAAGAACACCATGAAAGATCAAATGCTCAAACGAACAACCAATAAAACAATGATTTTCA
* * * ***
455975 GCGAAATCGA-ACTAAGAAGAAA
128 GCAAAATAGAGA-TATGAAGTTT
*
455997 AAAAAACAAGGCAATTTGAGTAAAGGGTATTGAAAT-AAATTAGAAAAAAAAAAAACACAAAAAC
1 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAAATT-G-AAAAAAAAAAACAC--AAAC
* *** * *
456061 CCAGAGCCAAGAATC-TCACCCAAGCTCCAATGCTCAAACGAACAACCAATAAAACAATGATTTT
62 CCAGAGCCAAGAA-CACCATGAAAGATCAAATGCTCAAACGAACAACCAATAAAACAATGATTTT
* *
456125 CAGCAAATTCA-AGCTATG-AGTGTT
126 CAGCAAAAT-AGAGATATGAAGT-TT
* * * * *
456149 AAAAAAAACAAGGCAATTATACTAAAGGGAATTGAAATAAAATCG---AAAAAACACACTAAACC
1 --AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAAATTGAAAAAAAAAAACAC-AAACC
* * * ** * * *
456211 CAAAGTCAAGAATC-TCACCAAAGCTCAAATGCTCAAACAAACAACCAAAAACAACAATGATTTT
63 CAGAGCCAAGAA-CACCATGAAAGATCAAATGCTCAAACGAACAACCAATAA-AACAATGATTTT
456275 CAGCAAA
126 CAGCAAA
456282 TTCTAGCTGG
Statistics
Matches: 493, Mismatches: 69, Indels: 47
0.81 0.11 0.08
Matches are distributed among these distances:
146 11 0.02
147 68 0.14
148 11 0.02
149 96 0.19
150 68 0.14
151 50 0.10
152 71 0.14
153 4 0.01
154 110 0.22
155 4 0.01
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (149 bp):
AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAAATTGAAAAAAAAAAACACAAACCCAG
AGCCAAGAACACCATGAAAGATCAAATGCTCAAACGAACAACCAATAAAACAATGATTTTCAGCA
AAATAGAGATATGAAGTTT
Done.