Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold860
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: 102834
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Found at i:1604 original size:62 final size:61
Alignment explanation
Indices: 1529--1653 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 61
1519 AAATGTTTAG
*
1529 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTGAACTATCAATATG-TGTTATTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATA-GATGTT-TTATTA
* * *
1591 TGGTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
1652 TG
1 TG
1654 ATACTTGGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 9 0.16
62 49 0.84
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.40
Consensus pattern (61 bp):
TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
Found at i:9962 original size:15 final size:16
Alignment explanation
Indices: 9931--9963 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9921 GACAAAACCT
9931 AAAATAAAATCAAATC
1 AAAATAAAATCAAATC
*
9947 AAAATTAAAT-AAATC
1 AAAATAAAATCAAATC
9962 AA
1 AA
9964 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAAATCAAATC
Found at i:9994 original size:13 final size:14
Alignment explanation
Indices: 9930--9994 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
9920 TGACAAAACC
9930 TAAAATAAAATCAAA
1 TAAAATAAAAT-AAA
*
9945 TCAAAATTAAATAAA
1 T-AAAATAAAATAAA
* *
9960 TCAATTAAAATAAA
1 TAAAATAAAATAAA
*
9974 T-AACTAAAATAAA
1 TAAAATAAAATAAA
9987 -AAAATAAA
1 TAAAATAAA
9995 TCAAAGATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.40
14 11 0.26
15 5 0.12
16 9 0.21
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:12908 original size:15 final size:16
Alignment explanation
Indices: 12888--12924 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
12878 ACCCATAGAA
*
12888 TATTTTTTT-ATTTTT
1 TATTTTTTTCATATTT
12903 TATTTTTTTCATATTT
1 TATTTTTTTCATATTT
12919 TATTTT
1 TATTTT
12925 ATTTTTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTTTTCATATTT
Found at i:12911 original size:16 final size:16
Alignment explanation
Indices: 12890--12929 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
12880 CCATAGAATA
*
12890 TTTTTTTATTTTTTAT
1 TTTTTTTATATTTTAT
*
12906 TTTTTTCATATTTTAT
1 TTTTTTTATATTTTAT
12922 TTTATTTT
1 TTT-TTTT
12930 TTCACTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTATATTTTAT
Found at i:14832 original size:86 final size:88
Alignment explanation
Indices: 14737--14926 Score: 201
Period size: 90 Copynumber: 2.2 Consensus size: 88
14727 AAACTTTTTA
* * * *
14737 AATGTATCAAAAATATCTT-TACACTTCTT-AAAAAAAGCAATTAAATTCC-TA-TTTTTTT-CT
1 AATGCATCAAAAAGATCTTATACACTTCTTCAAAAAAA-CAATT-AA-GCCTTATTTTTTTTCCC
*
14797 GCTCAATTGGGTACTTGAACTTTCAT
63 ACTCAATTGGGTACTTGAACTTTCAT
**** * *
14823 AATGCATCAAAAAGATCTTAATTTTTTTTTTCAAAGAAACAATTAAGCCTTTATTTTTTTTCCCA
1 AATGCATCAAAAAGATCTT-ATACACTTCTTCAAAAAAACAATTAAGCC-TTATTTTTTTTCCCA
14888 CTCAATTGGGTACTTGAACTTTCAT
64 CTCAATTGGGTACTTGAACTTTCAT
14913 AATGCATCAAAAAG
1 AATGCATCAAAAAG
14927 GCCTTAAATT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
86 19 0.22
87 2 0.02
88 12 0.14
89 13 0.15
90 40 0.47
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (88 bp):
AATGCATCAAAAAGATCTTATACACTTCTTCAAAAAAACAATTAAGCCTTATTTTTTTTCCCACT
CAATTGGGTACTTGAACTTTCAT
Found at i:15401 original size:29 final size:29
Alignment explanation
Indices: 15368--15464 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
15358 TTACATTTTG
*
15368 TATAATTTTCTTATGACTT-TATAAAATTT
1 TATAATTTTCTTAT-AATTCTATAAAATTT
* * *
15397 TATAATTTTTTTATAATTCTATATATTTT
1 TATAATTTTCTTATAATTCTATAAAATTT
* * *
15426 TATAATTTTTTTAAAATTTTTATAAAATTT
1 TATAATTTTCTTATAA-TTCTATAAAATTT
* *
15456 CACAATTTT
1 TATAATTTT
15465 TATAAATTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
28 3 0.05
29 36 0.64
30 17 0.30
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (29 bp):
TATAATTTTCTTATAATTCTATAAAATTT
Found at i:15410 original size:11 final size:11
Alignment explanation
Indices: 15394--15446 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
15384 CTTTATAAAA
15394 TTTTATAATTT
1 TTTTATAATTT
15405 TTTTATAA---
1 TTTTATAATTT
* *
15413 TTCTAT-ATAT
1 TTTTATAATTT
15423 TTTTATAATTT
1 TTTTATAATTT
*
15434 TTTTAAAATTT
1 TTTTATAATTT
15445 TT
1 TT
15447 ATAAAATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
7 1 0.03
8 5 0.15
10 5 0.15
11 23 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:15451 original size:11 final size:11
Alignment explanation
Indices: 15385--15488 Score: 50
Period size: 11 Copynumber: 10.4 Consensus size: 11
15375 TTCTTATGAC
15385 TTTATAAAA-T
1 TTTATAAAATT
15395 TTTAT--AATT
1 TTTATAAAATT
* *
15404 TTTTTATAA-T
1 TTTATAAAATT
* *
15414 TCTAT-ATATT
1 TTTATAAAATT
15424 TTTAT--AATT
1 TTTATAAAATT
*
15433 TTTTTAAAATT
1 TTTATAAAATT
15444 TTTATAAAA--
1 TTTATAAAATT
* *
15453 TTT-CACAATT
1 TTTATAAAATT
*
15463 TTTATAAATTT
1 TTTATAAAATT
15474 TTTA-ATAAATT
1 TTTATA-AAATT
15485 TTTA
1 TTTA
15489 ATATTTGAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 19
0.67 0.15 0.18
Matches are distributed among these distances:
8 5 0.07
9 16 0.23
10 18 0.26
11 30 0.43
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATAAAATT
Found at i:15474 original size:10 final size:10
Alignment explanation
Indices: 15385--15488 Score: 72
Period size: 10 Copynumber: 10.4 Consensus size: 10
15375 TTCTTATGAC
*
15385 TTTATAAAAT
1 TTTATAAATT
15395 TTTAT-AATT
1 TTTATAAATT
*
15404 TTTTTATAA-T
1 TTTATA-AATT
* *
15414 TCTATATATT
1 TTTATAAATT
15424 TTTAT-AATT
1 TTTATAAATT
*
15433 TTTTTAAAATT
1 TTTAT-AAATT
*
15444 TTTATAAAAT
1 TTTATAAATT
* *
15454 TTCA-CAATT
1 TTTATAAATT
15463 TTTATAAATTT
1 TTTATAAA-TT
15474 TTTAATAAATT
1 TTT-ATAAATT
15485 TTTA
1 TTTA
15489 ATATTTGAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
9 21 0.30
10 25 0.35
11 20 0.28
12 5 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTATAAATT
Found at i:15485 original size:30 final size:30
Alignment explanation
Indices: 15385--15482 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
15375 TTCTTATGAC
* * * *
15385 TTTATAAAATTTTATAATTTTTTTATAA-T
1 TTTATAAAATTTCACAATTTTTATAAAATT
* * * * * *
15414 TCTATATATTTTTATAATTTTTTTAAAATT
1 TTTATAAAATTTCACAATTTTTATAAAATT
*
15444 TTTATAAAATTTCACAATTTTTATAAATTT
1 TTTATAAAATTTCACAATTTTTATAAAATT
15474 TTTAATAAA
1 TTT-ATAAA
15483 TTTTTAATAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 24 0.43
30 27 0.48
31 5 0.09
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTATAAAATTTCACAATTTTTATAAAATT
Found at i:20575 original size:19 final size:19
Alignment explanation
Indices: 20531--20594 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
20521 GAAAAAAATC
* *
20531 ATAAAAATAATAAATTTTA
1 ATAAAATTATTAAATTTTA
*
20550 GAAAAAATTATTAAATTTTA
1 -ATAAAATTATTAAATTTTA
*
20570 ATAAAAATT-TAAAATTTTA
1 AT-AAAATTATTAAATTTTA
*
20589 TTAAAA
1 ATAAAA
20595 ATTAGAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 22 0.59
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAAAATTATTAAATTTTA
Found at i:20594 original size:18 final size:19
Alignment explanation
Indices: 20542--20605 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
20532 TAAAAATAAT
*
20542 AAATTTT-AGAAAAAATTA
1 AAATTTTAATAAAAAATTA
*
20560 TTAAATTTTAATAAAAATTTA
1 --AAATTTTAATAAAAAATTA
*
20581 AAATTTT-ATTAAAAATTA
1 AAATTTTAATAAAAAATTA
*
20599 GAATTTT
1 AAATTTT
20606 TTTTAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 15 0.39
19 7 0.18
20 7 0.18
21 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATTTTAATAAAAAATTA
Found at i:20595 original size:19 final size:20
Alignment explanation
Indices: 20531--20598 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
20521 GAAAAAAATC
*
20531 ATAAAAATAAT-AAATTTTA
1 ATAAAAATTATAAAATTTTA
*
20550 GA-AAAAATTATTAAATTTTA
1 -ATAAAAATTATAAAATTTTA
20570 ATAAAAATT-TAAAATTTTA
1 ATAAAAATTATAAAATTTTA
*
20589 TTAAAAATTA
1 ATAAAAATTA
20599 GAATTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 26 0.62
20 16 0.38
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
ATAAAAATTATAAAATTTTA
Found at i:20906 original size:9 final size:9
Alignment explanation
Indices: 20886--20983 Score: 65
Period size: 10 Copynumber: 10.3 Consensus size: 9
20876 TTCTTATAAC
20886 TTTATAAAAT
1 TTTAT-AAAT
20896 TTTATAAAT
1 TTTATAAAT
*
20905 TTT-TATAT
1 TTTATAAAT
*
20913 TTCTATATAT
1 TT-TATAAAT
20923 TTTA-AAAT
1 TTTATAAAT
*
20931 TTTTTAAAATT
1 TTTAT-AAA-T
20942 TTTATAAAAT
1 TTTAT-AAAT
* *
20952 TTTACAATT
1 TTTATAAAT
*
20961 TTTATATATT
1 TTTATA-AAT
20971 TTTAATAAAT
1 TTT-ATAAAT
20981 TTT
1 TTT
20984 TAATATTTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
8 12 0.16
9 18 0.25
10 31 0.42
11 12 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTATAAAT
Found at i:20951 original size:21 final size:21
Alignment explanation
Indices: 20925--20985 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
20915 CTATATATTT
20925 TAAAATTTTTTAAAATTTTTA
1 TAAAATTTTTTAAAATTTTTA
*
20946 TAAAA--TTTTACAATTTTTA
1 TAAAATTTTTTAAAATTTTTA
* *
20965 T-ATATTTTTAATAAATTTTTA
1 TAAAATTTTTTA-AAATTTTTA
20986 ATATTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 4 0.12
21 13 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAATTTTTTAAAATTTTTA
Found at i:20969 original size:47 final size:48
Alignment explanation
Indices: 20859--20991 Score: 130
Period size: 47 Copynumber: 2.8 Consensus size: 48
20849 TTTATATTTC
* * * * * *
20859 TTTACATTTGTATA-ATTTTCTTATAACTTTATAAAA-TTTTATAAATT
1 TTTAAATTTCTATATATTTT-TAATAAATTTTTAAAATTTTTATAAAAT
* *
20906 TTTATATTTCTATATA-TTTTAA-AATTTTTTAAAATTTTTATAAAAT
1 TTTAAATTTCTATATATTTTTAATAAATTTTTAAAATTTTTATAAAAT
* *
20952 TTTACAATTTTTATATATTTTTAATAAATTTTTAATATTT
1 TTTA-AATTTCTATATATTTTTAATAAATTTTTAAAATTT
20992 GATTTTTTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
45 10 0.14
46 16 0.23
47 25 0.35
48 7 0.10
49 13 0.18
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (48 bp):
TTTAAATTTCTATATATTTTTAATAAATTTTTAAAATTTTTATAAAAT
Found at i:20971 original size:10 final size:10
Alignment explanation
Indices: 20895--20991 Score: 62
Period size: 9 Copynumber: 10.2 Consensus size: 10
20885 CTTTATAAAA
*
20895 TTTTATA-AA
1 TTTTATATAT
20904 TTTT-TATAT
1 TTTTATATAT
*
20913 TTCTATATAT
1 TTTTATATAT
* *
20923 TTTAAAAT-T
1 TTTTATATAT
*
20932 TTTTA-AAAT
1 TTTTATATAT
* *
20941 TTTTATAAAA
1 TTTTATATAT
*
20951 TTTTACA-AT
1 TTTTATATAT
20960 TTTTATATAT
1 TTTTATATAT
*
20970 TTTTAATAAAT
1 TTTT-ATATAT
20981 TTTTA-ATAT
1 TTTTATATAT
20990 TT
1 TT
20992 GATTTTTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
8 3 0.04
9 31 0.45
10 26 0.38
11 9 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTATATAT
Found at i:21172 original size:97 final size:99
Alignment explanation
Indices: 21059--21241 Score: 273
Period size: 99 Copynumber: 1.9 Consensus size: 99
21049 AATTTTTAAT
* * **
21059 AAAATTAGGGGGTTAATTGCTTTTTTT-TTAA-GTTTGAGGG-TCTTTTTGATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCT-TTTTTGATGCATTTTGAAAG
*
21121 TTCAAGTACCCAATTGACTGCAAAACAAAAAGAAA
65 TTCAAGTACCCAAATGACTGCAAAACAAAAAGAAA
*
21156 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGTATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGCATTTTGAAAGT
*
21221 TCAAGTACCCAAATGAGTGCA
66 TCAAGTACCCAAATGACTGCA
21242 TAAAAAGAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
97 25 0.33
98 2 0.03
99 48 0.63
100 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (99 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGCATTTTGAAAGT
TCAAGTACCCAAATGACTGCAAAACAAAAAGAAA
Found at i:23669 original size:2 final size:2
Alignment explanation
Indices: 23662--23691 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23652 AATCAAAATT
23662 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
23692 AAAGAAAACA
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:23746 original size:54 final size:54
Alignment explanation
Indices: 23687--23796 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
23677 ATATATATAT
* * *
23687 ATATAAAAGAAAACACATTTTTATGAAATATAAGATTTTGTTAAAAGAAAGAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
* * *
23741 ATATAAAAGCATACACGTTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
23795 AT
1 AT
23797 CCAATTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (54 bp):
ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
Found at i:28028 original size:68 final size:68
Alignment explanation
Indices: 27904--28046 Score: 171
Period size: 68 Copynumber: 2.1 Consensus size: 68
27894 TTTGAGGGTC
* * **
27904 TTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAGAAGAAAGTAGGGGCTTAATTG
1 TTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAACAGGGGCTTAATTG
*
27969 CTT
66 CTA
* * * * * *
27972 TTTTTTATGTATTTTGAACGTTCATGTACCCAAATGAGTGCATA-AAAAAAACAGGGGTTTAGTT
1 TTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCA-AGAAAAAAACAGGGGCTTAATT
28036 GCTA
65 GCTA
28040 TTTTTGA
1 TTTTTGA
28047 AAAGGGTTTG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
68 61 0.98
69 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (68 bp):
TTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAACAGGGGCTTAATTG
CTA
Found at i:28398 original size:2 final size:2
Alignment explanation
Indices: 28393--28425 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
28383 CTTAGGGACC
28393 AT AT AT AT AT AT AT CAT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
28426 TCCATTCTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29396 original size:233 final size:236
Alignment explanation
Indices: 28973--29451 Score: 793
Period size: 233 Copynumber: 2.0 Consensus size: 236
28963 AAATTTTTGG
*
28973 TAAATCAACTCTTCATTTTTATGAATAAAAATTATATGGTAGAAAGGAAGTGGTGTTAATAATAA
1 TAAATCAACTCTTCATTTTTATGAATAAAAATTATATGGTAAAAAGGAAGTGGTG---AT-ATAA
* *
29038 TAATAATAATAAAAAGATTAACAATAGAACACTAATAAAGCAATTTAGTCTATGATCTGCACAAT
62 TAATAATAAT-AAAAGATCAACAATAGAAAACTAATAAAGCAATTTAGTCTATGATCTGCACAAT
* *
29103 ATATTACTACAAATGTACCGTACAGAATATTGAAAGAAAACTAATAAAGAAGTTCGAAATTTAAA
126 ATATTACTACAAATGTACCGTACAGAATATTGAAAGAAAACTAATAAAGAAATCCGAAATTTAAA
* * *
29168 CAATGTTCCGCAAATTATGTTTATGATCTGCTGTAAATTGATATGT
191 CAAGGTTCCGCAAATTATGTTTATGATATGATGTAAATTGATATGT
29214 TAAATCAACTCTTCATTTTTATGAATAAAAATTATATGGTAAAAAGGAAGTGGTG-T-TAATAAT
1 TAAATCAACTCTTCATTTTTATGAATAAAAATTATATGGTAAAAAGGAAGTGGTGATATAATAAT
*
29277 AATAAT-AAAGATCAACAATAGAAAACTAATAAAGCAATTTAGTCTATGATCTGCATAATATATT
66 AATAATAAAAGATCAACAATAGAAAACTAATAAAGCAATTTAGTCTATGATCTGCACAATATATT
*
29341 ACTACAAATGTACCGTACAGAATATTGAAAGAAAACTAATAAAGAAATCCGAAATTTTAACAAGG
131 ACTACAAATGTACCGTACAGAATATTGAAAGAAAACTAATAAAGAAATCCGAAATTTAAACAAGG
29406 TTCCGCAAATTATGTTTATGATATGATGTAAATTGATATGT
196 TTCCGCAAATTATGTTTATGATATGATGTAAATTGATATGT
*
29447 CAAAT
1 TAAAT
29452 TTTGTGGCAA
Statistics
Matches: 227, Mismatches: 11, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
233 159 0.70
235 13 0.06
237 1 0.00
241 54 0.24
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (236 bp):
TAAATCAACTCTTCATTTTTATGAATAAAAATTATATGGTAAAAAGGAAGTGGTGATATAATAAT
AATAATAAAAGATCAACAATAGAAAACTAATAAAGCAATTTAGTCTATGATCTGCACAATATATT
ACTACAAATGTACCGTACAGAATATTGAAAGAAAACTAATAAAGAAATCCGAAATTTAAACAAGG
TTCCGCAAATTATGTTTATGATATGATGTAAATTGATATGT
Found at i:29766 original size:14 final size:14
Alignment explanation
Indices: 29727--29766 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
29717 TTCAGAAACC
*
29727 AAAATTATTTTCTA
1 AAAATTATTTTTTA
29741 AAAATTATTTTTTA
1 AAAATTATTTTTTA
*
29755 AAAACTATTTTT
1 AAAATTATTTTT
29767 AGTGAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
AAAATTATTTTTTA
Found at i:34330 original size:61 final size:61
Alignment explanation
Indices: 34263--34385 Score: 149
Period size: 61 Copynumber: 2.0 Consensus size: 61
34253 AAAAATCAAC
* * * *
34263 AAATTTAGCCCTGAATGTTAACAAAACTT-GTCATTTTAGTTCAAATTCTAAAAAATTTAAT
1 AAATTTAACCCTGAATATTAACAAAAATTAG-CAATTTAGTTCAAATTCTAAAAAATTTAAT
* ** * *
34324 AAATTTAACCCTTAATATTTTCAAAAATTAGCAATTTAGTTCTAATTCTAAAAATTTTAAT
1 AAATTTAACCCTGAATATTAACAAAAATTAGCAATTTAGTTCAAATTCTAAAAAATTTAAT
34385 A
1 A
34386 TATATATTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 51 0.98
62 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (61 bp):
AAATTTAACCCTGAATATTAACAAAAATTAGCAATTTAGTTCAAATTCTAAAAAATTTAAT
Found at i:36064 original size:72 final size:71
Alignment explanation
Indices: 35755--36047 Score: 426
Period size: 72 Copynumber: 4.1 Consensus size: 71
35745 TCAGGACTGG
* * *
35755 TTCCAAGATCACTGGGGAATCTCTTGAAACTCACTCATTTAGACTTGTCGGAGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGT-GGAGAACCAATTGAGT
35820 GGACAAA
65 GGACAAA
** *
35827 TTCCAAGAAAATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGAAGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGT-GGAGAACCAATTGAGT
35892 GGACAAA
65 GGACAAA
* *
35899 TTCCAAGATCATTAGGGAACCTCTTGCAACTCACTCATTTAGACTTGTGGCTGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTGG-AGAACCAATTGAGT
*
35964 GGACAGA
65 GGACAAA
** *
35971 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTGTTTTAGACTTG-GGATGGAACAAATTGAG
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTGGA--GAACCAATTGAG
36035 TGGACAAA
64 TGGACAAA
36043 TTCCA
1 TTCCA
36048 TTGTCAATTC
Statistics
Matches: 200, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
71 3 0.01
72 197 0.99
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (71 bp):
TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTGGAGAACCAATTGAGTG
GACAAA
Found at i:43294 original size:19 final size:19
Alignment explanation
Indices: 43250--43313 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
43240 GAAAAAAATC
* *
43250 ATAAAAATAATAAATTTTA
1 ATAAAATTATTAAATTTTA
*
43269 GAAAAAATTATTAAATTTTA
1 -ATAAAATTATTAAATTTTA
*
43289 ATAAAAATT-TAAAATTTTA
1 AT-AAAATTATTAAATTTTA
*
43308 TTAAAA
1 ATAAAA
43314 ATTAGAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 22 0.59
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAAAATTATTAAATTTTA
Found at i:43313 original size:18 final size:19
Alignment explanation
Indices: 43261--43324 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
43251 TAAAAATAAT
*
43261 AAATTTT-AGAAAAAATTA
1 AAATTTTAATAAAAAATTA
*
43279 TTAAATTTTAATAAAAATTTA
1 --AAATTTTAATAAAAAATTA
*
43300 AAATTTT-ATTAAAAATTA
1 AAATTTTAATAAAAAATTA
*
43318 GAATTTT
1 AAATTTT
43325 TTTTTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 15 0.39
19 7 0.18
20 7 0.18
21 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATTTTAATAAAAAATTA
Found at i:43314 original size:19 final size:20
Alignment explanation
Indices: 43250--43317 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
43240 GAAAAAAATC
*
43250 ATAAAAATAAT-AAATTTTA
1 ATAAAAATTATAAAATTTTA
*
43269 GA-AAAAATTATTAAATTTTA
1 -ATAAAAATTATAAAATTTTA
43289 ATAAAAATT-TAAAATTTTA
1 ATAAAAATTATAAAATTTTA
*
43308 TTAAAAATTA
1 ATAAAAATTA
43318 GAATTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 26 0.62
20 16 0.38
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
ATAAAAATTATAAAATTTTA
Found at i:43627 original size:9 final size:9
Alignment explanation
Indices: 43607--43704 Score: 65
Period size: 10 Copynumber: 10.3 Consensus size: 9
43597 TTCTTATAAC
43607 TTTATAAAAT
1 TTTAT-AAAT
43617 TTTATAAAT
1 TTTATAAAT
*
43626 TTT-TATAT
1 TTTATAAAT
*
43634 TTCTATATAT
1 TT-TATAAAT
43644 TTTA-AAAT
1 TTTATAAAT
*
43652 TTTTTAAAATT
1 TTTAT-AAA-T
43663 TTTATAAAAT
1 TTTAT-AAAT
* *
43673 TTTACAATT
1 TTTATAAAT
*
43682 TTTATATATT
1 TTTATA-AAT
43692 TTTAATAAAT
1 TTT-ATAAAT
43702 TTT
1 TTT
43705 TAATATTTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
8 12 0.16
9 18 0.25
10 31 0.42
11 12 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTATAAAT
Found at i:43672 original size:21 final size:21
Alignment explanation
Indices: 43646--43706 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
43636 CTATATATTT
43646 TAAAATTTTTTAAAATTTTTA
1 TAAAATTTTTTAAAATTTTTA
*
43667 TAAAA--TTTTACAATTTTTA
1 TAAAATTTTTTAAAATTTTTA
* *
43686 T-ATATTTTTAATAAATTTTTA
1 TAAAATTTTTTA-AAATTTTTA
43707 ATATTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 4 0.12
21 13 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAATTTTTTAAAATTTTTA
Found at i:43690 original size:47 final size:48
Alignment explanation
Indices: 43602--43712 Score: 129
Period size: 46 Copynumber: 2.4 Consensus size: 48
43592 TAATTTTCTT
* * * *
43602 ATAACTTTATAAAA-TTTTATAAATTTTTATATTTCTATATA-TTTTA
1 ATAAATTTTTAAAATTTTTATAAAATTTTAAATTTCTATATATTTTTA
* *
43648 A-AATTTTTTAAAATTTTTATAAAATTTTACAATTTTTATATATTTTTA
1 ATAAATTTTTAAAATTTTTATAAAATTTTA-AATTTCTATATATTTTTA
*
43696 ATAAATTTTTAATATTT
1 ATAAATTTTTAAAATTT
43713 GATTTTTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 10 0.19
46 15 0.28
47 10 0.19
48 6 0.11
49 13 0.24
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (48 bp):
ATAAATTTTTAAAATTTTTATAAAATTTTAAATTTCTATATATTTTTA
Found at i:43692 original size:10 final size:10
Alignment explanation
Indices: 43616--43712 Score: 62
Period size: 9 Copynumber: 10.2 Consensus size: 10
43606 CTTTATAAAA
*
43616 TTTTATA-AA
1 TTTTATATAT
43625 TTTT-TATAT
1 TTTTATATAT
*
43634 TTCTATATAT
1 TTTTATATAT
* *
43644 TTTAAAAT-T
1 TTTTATATAT
*
43653 TTTTA-AAAT
1 TTTTATATAT
* *
43662 TTTTATAAAA
1 TTTTATATAT
*
43672 TTTTACA-AT
1 TTTTATATAT
43681 TTTTATATAT
1 TTTTATATAT
*
43691 TTTTAATAAAT
1 TTTT-ATATAT
43702 TTTTA-ATAT
1 TTTTATATAT
43711 TT
1 TT
43713 GATTTTTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
8 3 0.04
9 31 0.45
10 26 0.38
11 9 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTATATAT
Found at i:43893 original size:97 final size:99
Alignment explanation
Indices: 43780--43962 Score: 273
Period size: 99 Copynumber: 1.9 Consensus size: 99
43770 AATTTTTAAT
* * **
43780 AAAATTAGGGGGTTAATTGCTTTTTTT-TTAA-GTTTGAGGG-TCTTTTTGATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCT-TTTTTGATGCATTTTGAAAG
*
43842 TTCAAGTACCCAATTGACTGCAAAACAAAAAGAAA
65 TTCAAGTACCCAAATGACTGCAAAACAAAAAGAAA
*
43877 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGTATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGCATTTTGAAAGT
*
43942 TCAAGTACCCAAATGAGTGCA
66 TCAAGTACCCAAATGACTGCA
43963 TAAAAAGAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
97 25 0.33
98 2 0.03
99 48 0.63
100 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (99 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGCATTTTGAAAGT
TCAAGTACCCAAATGACTGCAAAACAAAAAGAAA
Found at i:46452 original size:54 final size:54
Alignment explanation
Indices: 46394--46503 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
46384 ATATATATAT
* * *
46394 ATATAAAAGAAAACACATTTTTATGAAATATAAGATTTTGTTAAAAGAAAGAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
* * *
46448 ATATAAAAGCATACACGTTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
46502 AT
1 AT
46504 CCAATTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (54 bp):
ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
Found at i:50675 original size:87 final size:86
Alignment explanation
Indices: 50510--50715 Score: 209
Period size: 87 Copynumber: 2.4 Consensus size: 86
50500 AGTCCCTCTT
* * * * *
50510 TTTTTTTTACACTCAATTGAGTACTTAAACTTTTAAAATGTATCAAAAATATCTTAACACTTCTT
1 TTTTTTTTCCACTCAATTGGGTACTTGAACTTTTAAAATGCATCAAAAATACCTTAACACTTCTT
50575 CAAAAAAAGCAATTAAACCCCC
66 CAAAAAAAGCAATT-AACCCCC
* * *** *
50597 TTTTTTTTCCGCTCAATTGGGTACTTGAA-TTTTCATAATGCATCAAAAATACCTTAATTTTTTT
1 TTTTTTTTCCACTCAATTGGGTACTTGAACTTTT-AAAATGCATCAAAAATACCTTAA-CACTTC
* * *
50661 TTCAAAGAAA-CAATTAAGCCTC
64 TTCAAAAAAAGCAATTAACCCCC
* *
50683 TATTTTTTTCCTACTCAACTAGGTACTTGAACT
1 T-TTTTTTTCC-ACTCAATTGGGTACTTGAACT
50716 GTCAAAAAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
86 10 0.10
87 59 0.61
88 27 0.28
89 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (86 bp):
TTTTTTTTCCACTCAATTGGGTACTTGAACTTTTAAAATGCATCAAAAATACCTTAACACTTCTT
CAAAAAAAGCAATTAACCCCC
Found at i:50840 original size:20 final size:20
Alignment explanation
Indices: 50742--50841 Score: 60
Period size: 20 Copynumber: 5.0 Consensus size: 20
50732 AGCACCTACT
50742 CTTATTAAAAATTAGAAAAA
1 CTTATTAAAAATTAGAAAAA
** *
50762 -AAATCATAAAAATAAGAAAAA
1 CTTAT--TAAAAATTAGAAAAA
* ** ** *
50783 TTTAGAAAAAATTATTAAAT
1 CTTATTAAAAATTAGAAAAA
* * *
50803 TTTAATAAAAATT-TAAAAA
1 CTTATTAAAAATTAGAAAAA
50822 CTTATTAAAAATTAGAAAAA
1 CTTATTAAAAATTAGAAAAA
50842 ATTTTAGAAA
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 14 0.24
22 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (20 bp):
CTTATTAAAAATTAGAAAAA
Found at i:50877 original size:10 final size:10
Alignment explanation
Indices: 50759--50879 Score: 63
Period size: 10 Copynumber: 12.4 Consensus size: 10
50749 AAAATTAGAA
*
50759 AAAAAATCAT
1 AAAAAATTAT
* *
50769 -AAAAATAAG
1 AAAAAATTAT
* *
50778 AAAAATTTAG
1 AAAAAATTAT
50788 AAAAAATTAT
1 AAAAAATTAT
* **
50798 TAAATTTTA-
1 AAAAAATTAT
50807 ATAAAAATT-T
1 A-AAAAATTAT
*
50817 AAAAACTTAT
1 AAAAAATTAT
* *
50827 TAAAAATTAG
1 AAAAAATTAT
*
50837 AAAAAATTTT
1 AAAAAATTAT
*
50847 AGAAAAATTGT
1 A-AAAAATTAT
*
50858 CAAAAA--AT
1 AAAAAATTAT
50866 AAAAAATTAT
1 AAAAAATTAT
50876 AAAA
1 AAAA
50880 TTTTATAATT
Statistics
Matches: 81, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
8 6 0.07
9 13 0.16
10 54 0.67
11 8 0.10
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:53595 original size:36 final size:34
Alignment explanation
Indices: 53555--53635 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 34
53545 AATTTAATTT
53555 ATATTTTATTATTTGATTCA-AATATAATCTGTAAAA
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAA
*
53591 ATATTTTGA-TATTTTATTATGAATATAATTTAAAA
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAA
53626 ATATTTTATT
1 ATATTTTATT
53636 GTATATTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
34 1 0.03
35 14 0.35
36 16 0.40
37 9 0.22
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAA
Found at i:53802 original size:19 final size:18
Alignment explanation
Indices: 53760--53805 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
53750 ATATAATTGT
*
53760 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
53778 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
53797 AATAATTTT
1 AATAATTTT
53806 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:53945 original size:21 final size:21
Alignment explanation
Indices: 53917--53971 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
53907 ACCGCTGTTT
53917 CTAATCTCACCGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
53939 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
53959 CTAATCTCACCGC
1 CTAATCTCACCGC
53972 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.27, C:0.40, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:54425 original size:29 final size:29
Alignment explanation
Indices: 54383--54441 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
54373 GGCGGTAGTA
*
54383 ACTTGGGAAAAAAAAGT-AGTTTATGTACC
1 ACTTGGGAAAAAAAA-TAAGTTTAGGTACC
* *
54412 ACTTGTGAACAAAAATAAGTTTAGGTACC
1 ACTTGGGAAAAAAAATAAGTTTAGGTACC
54441 A
1 A
54442 ACATCGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (29 bp):
ACTTGGGAAAAAAAATAAGTTTAGGTACC
Found at i:60320 original size:90 final size:93
Alignment explanation
Indices: 60138--60329 Score: 241
Period size: 93 Copynumber: 2.1 Consensus size: 93
60128 AAGCAATTAA
* * * *
60138 GGCCTTTTTCATGCATTATGAAAGTTCAAGTACCGAATTGAGTGCAAGAAAAAAAAAGTAGGGGC
1 GGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
** *
60203 TTAATTGCTTTTTTTGAAAATGTTTGAG
66 TTAATTGCCATTTTTGAAAAAGTTTGAG
* * * *
60231 GGCCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAAATGAGTGC-A-TAAAAAGAA-CAGGGG-
1 GGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
60292 TTCAATTGCCATTTTTGAAAAAGTTTGAG
66 TT-AATTGCCATTTTTGAAAAAGTTTGAG
60321 GG-CTTTTTG
1 GGCCTTTTTG
60330 CACCCTTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
89 9 0.10
90 30 0.34
91 7 0.08
92 1 0.01
93 40 0.46
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (93 bp):
GGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
TTAATTGCCATTTTTGAAAAAGTTTGAG
Found at i:65862 original size:62 final size:61
Alignment explanation
Indices: 65787--65911 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 61
65777 AAATGTCTAG
* * *
65787 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTGAACTATCAATATGTGTTATTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATATATATT-TTATTA
* * *
65849 TGGTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATATATATTTTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATATATATTTTATTA
65910 TG
1 TG
65912 ATACTTGATA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 8 0.14
62 49 0.86
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (61 bp):
TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATATATATTTTATTA
Found at i:66077 original size:30 final size:30
Alignment explanation
Indices: 66010--66123 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 30
66000 TTTCCTTTAA
* **
66010 AATTTTTAGAAAA-TTTCAATTAAGCCCTCAA
1 AATTTTT-GAAAATTTTC-ATTAAGCACTCTT
*
66041 AATTTTTGAAAATTTTCATTATA-C-CTTTT
1 AATTTTTGAAAATTTTCATTA-AGCACTCTT
* *
66070 AATTTTTTAAAAAATTTTAATTAAGCACTCTT
1 AA-TTTTT-GAAAATTTTCATTAAGCACTCTT
* *
66102 AAATTTTGAAAATTCTCATTAA
1 AATTTTTGAAAATTTTCATTAA
66124 TCTCACAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
29 4 0.06
30 28 0.42
31 29 0.43
32 6 0.09
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.45
Consensus pattern (30 bp):
AATTTTTGAAAATTTTCATTAAGCACTCTT
Found at i:66077 original size:61 final size:61
Alignment explanation
Indices: 66003--66122 Score: 161
Period size: 61 Copynumber: 2.0 Consensus size: 61
65993 TTTGTTTTTT
* * *
66003 CCTTTAAAATTTTTAGAAAATTTCAATTAAGCCCTC-AAAATTTTTGAAAATTTTCATTATA
1 CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAA-TTTTGAAAATTCTCATTATA
* * * *
66064 CCTTTTAATTTTTTAAAAAATTTTAATTAAGCACTCTTAAATTTTGAAAATTCTCATTA
1 CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTA
66123 ATCTCACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 48 0.94
62 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.45
Consensus pattern (61 bp):
CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTATA
Found at i:69521 original size:19 final size:20
Alignment explanation
Indices: 69492--69530 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
69482 TGTGTTGTAA
69492 AAAAGAAGAAA-AATGAGAAG
1 AAAAGAAGAAATAA-GAGAAG
69512 AAAA-AAGAAATAAGAGAAG
1 AAAAGAAGAAATAAGAGAAG
69531 CAACGTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (20 bp):
AAAAGAAGAAATAAGAGAAG
Found at i:74125 original size:19 final size:20
Alignment explanation
Indices: 74096--74134 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
74086 TGTGTTGTAA
74096 AAAAGAAGAAA-AATGAGAAG
1 AAAAGAAGAAATAA-GAGAAG
74116 AAAA-AAGAAATAAGAGAAG
1 AAAAGAAGAAATAAGAGAAG
74135 CAACGTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (20 bp):
AAAAGAAGAAATAAGAGAAG
Found at i:77805 original size:61 final size:61
Alignment explanation
Indices: 77738--77869 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 61
77728 GTCTAATAAC
* * * *
77738 AAATTTAGCCCTAAATGTTAACAAAACTT-GTCATTTTAGTTCAAATTCTAAAAATTTTAAT
1 AAATTTAACCCTAAATATTAACAAAAATTAG-CAATTTAGTTCAAATTCTAAAAATTTTAAT
* ** *
77799 AAATTTAACCCTTAATATTTTCAAAAATTAGCAATTTAGTTCTAATTCTAAAAATTTTAAT
1 AAATTTAACCCTAAATATTAACAAAAATTAGCAATTTAGTTCAAATTCTAAAAATTTTAAT
77860 ATATATTTAA
1 A-A-ATTTAA
77870 AAAAATATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
61 52 0.87
62 2 0.03
63 6 0.10
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (61 bp):
AAATTTAACCCTAAATATTAACAAAAATTAGCAATTTAGTTCAAATTCTAAAAATTTTAAT
Found at i:81162 original size:79 final size:79
Alignment explanation
Indices: 81031--81190 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
81021 CAATGTTTCT
81031 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTAAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTAAACACATTTGGAAATGATTCATA
81096 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
*
81110 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTAAACACATTTGGAAATGATTCATA
81175 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
81189 GA
1 GA
81191 TTATGTGGAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (79 bp):
GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTAAACACATTTGGAAATGATTCATA
TGAAGGAAACAAGG
Found at i:81784 original size:26 final size:26
Alignment explanation
Indices: 81755--81807 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
81745 GGTAAAAATT
81755 ATATGAATAAACTTTTATAAATATAA
1 ATATGAATAAACTTTTATAAATATAA
81781 ATATGAATAAACTTTTATAAATATAA
1 ATATGAATAAACTTTTATAAATATAA
81807 A
1 A
81808 GTGTAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
ATATGAATAAACTTTTATAAATATAA
Found at i:84078 original size:21 final size:21
Alignment explanation
Indices: 84052--84091 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
84042 AAAGAGGAAG
84052 TAGTTGTTAACCTTTTCGATT
1 TAGTTGTTAACCTTTTCGATT
84073 TAGTTGTTAACCTTTTCGA
1 TAGTTGTTAACCTTTTCGA
84092 AAGTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (21 bp):
TAGTTGTTAACCTTTTCGATT
Found at i:85825 original size:31 final size:33
Alignment explanation
Indices: 85790--85869 Score: 83
Period size: 38 Copynumber: 2.3 Consensus size: 33
85780 AACTTCTACT
85790 TTGTA-TCAA-AATCGGTACATAAACTTGAAAA
1 TTGTAGTCAAGAATCGGTACATAAACTTGAAAA
*
85821 TTGTAAGTCAACTTGGTATCGGTACATAAACTTGAAAA
1 TTGT-AGTCAA----GAATCGGTACATAAACTTGAAAA
85859 TTGTAAGTCAA
1 TTGT-AGTCAA
85870 CTTGGTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
31 4 0.10
32 1 0.02
33 4 0.10
38 32 0.78
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (33 bp):
TTGTAGTCAAGAATCGGTACATAAACTTGAAAA
Found at i:85835 original size:19 final size:19
Alignment explanation
Indices: 85811--85873 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
85801 TCGGTACATA
85811 AACTTGAAAATTGTAAGTC
1 AACTTGAAAATTGTAAGTC
** * *
85830 AACTTG-GTATCGGTACA-TA
1 AACTTGAAAAT-TGTA-AGTC
85849 AACTTGAAAATTGTAAGTC
1 AACTTGAAAATTGTAAGTC
85868 AACTTG
1 AACTTG
85874 GTATTTTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 3 0.09
19 26 0.81
20 3 0.09
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (19 bp):
AACTTGAAAATTGTAAGTC
Found at i:85851 original size:38 final size:38
Alignment explanation
Indices: 85800--85877 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
85790 TTGTATCAAA
85800 ATCGGTACATAAACTTGAAAATTGTAAGTCAACTTGGT
1 ATCGGTACATAAACTTGAAAATTGTAAGTCAACTTGGT
85838 ATCGGTACATAAACTTGAAAATTGTAAGTCAACTTGGT
1 ATCGGTACATAAACTTGAAAATTGTAAGTCAACTTGGT
85876 AT
1 AT
85878 TTTTATAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (38 bp):
ATCGGTACATAAACTTGAAAATTGTAAGTCAACTTGGT
Found at i:88205 original size:14 final size:15
Alignment explanation
Indices: 88179--88207 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88169 GTAAAAAGGG
88179 TTAAAAATAATTTTT
1 TTAAAAATAATTTTT
88194 TTAAAAAT-ATTTTT
1 TTAAAAATAATTTTT
88208 ATTTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAAATAATTTTT
Found at i:89138 original size:54 final size:54
Alignment explanation
Indices: 89057--89165 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
89047 CACGTGAATT
* *
89057 TATATAAGTATACACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
1 TATAAAAGTATAAACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
* *
89111 TATAAAAGTATAAACGTTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGCA
1 TATAAAAGTATAAACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
89165 T
1 T
89166 CCAATTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (54 bp):
TATAAAAGTATAAACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
Found at i:93491 original size:87 final size:87
Alignment explanation
Indices: 93357--93618 Score: 240
Period size: 87 Copynumber: 3.0 Consensus size: 87
93347 ATTTAAGTCC
* * * * * * * * * *
93357 TTTTTTTCTACTCAATTGAGCACTTAAACTTTTAAAATGTATCAAAAATATCTTTACA-CTTCTT
1 TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAA-AACCTTAAATCTTCTT
93421 CAAAAAAAGCAATTAAACCCCT-T
65 CAAAAAAA-CAATTAAACCCCTAT
* * * *
93444 TTTTTTTCCGCTCAATTGGGTACTTGAACTTTCATAATGCATAAAAAAAACCTTAAATTTTTTTT
1 TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAAACCTTAAA--TCTTCT
* * *
93509 TCAAAGAAACAATTAAGCCTCTAT
64 TCAAAAAAACAATTAAACCCCTAT
* ** * * * *
93533 TTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGGCCTTTATTTTTTTTC
1 TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAAACCTTAAATCTTCTTC
* *
93598 AAAAAAGCAATTAAGCCCCTA
66 AAAAAAACAATTAAACCCCTA
93619 CTCTTATTAA
Statistics
Matches: 144, Mismatches: 27, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
86 6 0.04
87 65 0.45
88 11 0.08
89 62 0.43
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (87 bp):
TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAAACCTTAAATCTTCTTC
AAAAAAACAATTAAACCCCTAT
Found at i:93548 original size:89 final size:86
Alignment explanation
Indices: 93423--93617 Score: 275
Period size: 89 Copynumber: 2.2 Consensus size: 86
93413 CACTTCTTCA
* * *
93423 AAAAAAGCAATTAAACCCCTTTTTTTTTCCGCTCAATTGGGTACTTGAACTTTCATAATGCATAA
1 AAAAAAGCAATTAAGCCCCTTTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCATAA
93488 AAAAAACCTTAAATTTTTTTTTC
66 AAAAAACCTT-AA-TTTTTTTTC
*
93511 AAAGAAA-CAATTAAGCCTCTATTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCAT
1 AAA-AAAGCAATTAAGCCCCT-TTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCAT
* ** *
93575 CAAAAAGGCCTTTATTTTTTTTC
64 AAAAAAAACCTTAATTTTTTTTC
93598 AAAAAAGCAATTAAGCCCCT
1 AAAAAAGCAATTAAGCCCCT
93618 ACTCTTATTA
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
86 3 0.03
87 24 0.25
88 15 0.16
89 53 0.56
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (86 bp):
AAAAAAGCAATTAAGCCCCTTTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCATAA
AAAAAACCTTAATTTTTTTTC
Found at i:95459 original size:50 final size:50
Alignment explanation
Indices: 95390--95510 Score: 172
Period size: 50 Copynumber: 2.4 Consensus size: 50
95380 GCAAGTGTGA
* ** *
95390 AGTCAATAGACAACTGATAGTCTTAGTCTTTTTTTGTCGAGTT-AAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAG-CCCTTTTTGTCGAGTTAAAAGTAT
*
95440 AGTCAATAGACAATTGATAGTCTTAGCCCTTTTTGTGGAGTTAAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGCCCTTTTTGTCGAGTTAAAAGTAT
*
95490 AGTCAATAAACAATTGATAGT
1 AGTCAATAGACAATTGATAGT
95511 TAAATTTGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 13 0.20
50 51 0.80
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (50 bp):
AGTCAATAGACAATTGATAGTCTTAGCCCTTTTTGTCGAGTTAAAAGTAT
Found at i:99195 original size:30 final size:31
Alignment explanation
Indices: 99161--99241 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
99151 GCCCTCAAAA
*
99161 TTTTTGAAAATTTTCATTATA-C-CTTTTAATT
1 TTTTTGAAAATTTTCATTA-AGCACTCTTAA-T
*
99192 TTTTTGAAAATTTTAATTAAGCACTCTTAA-
1 TTTTTGAAAATTTTCATTAAGCACTCTTAAT
* *
99222 ATTTTGAAAATTCTCATTAA
1 TTTTTGAAAATTTTCATTAA
99242 TCTCACAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.42
31 19 0.44
32 6 0.14
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTTTGAAAATTTTCATTAAGCACTCTTAAT
Found at i:99195 original size:61 final size:61
Alignment explanation
Indices: 99121--99240 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
99111 TTTGTTTTTT
* * *
99121 CCTTTAAAATTTTTAGAAAATTTCAATTAGGCCCTC-AAAATTTTTGAAAATTTTCATTATA
1 CCTTTAAAATTTTTAGAAAATTTCAATTAAGCACTCTAAAA-TTTTGAAAATTCTCATTATA
* * * * *
99182 CCTTTTAATTTTTTTGAAAATTTTAATTAAGCACTCTTAAATTTTGAAAATTCTCATTA
1 CCTTTAAAATTTTTAGAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTA
99241 ATCTCACAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
61 47 0.94
62 3 0.06
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (61 bp):
CCTTTAAAATTTTTAGAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTATA
Found at i:100964 original size:5 final size:5
Alignment explanation
Indices: 100956--100981 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
100946 GAGATGGAAT
100956 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
100982 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:100981 original size:26 final size:26
Alignment explanation
Indices: 100930--100981 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
100920 TGAAGTTTTC
* * *
100930 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
100956 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
100982 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:101873 original size:9 final size:9
Alignment explanation
Indices: 101859--101895 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
101849 TATAGTTTGA
101859 TATTCGAAT
1 TATTCGAAT
101868 TATTCGAAT
1 TATTCGAAT
*
101877 TATTCGAGT
1 TATTCGAAT
101886 TATTCGAAT
1 TATTCGAAT
101895 T
1 T
101896 CGAAACTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:102168 original size:30 final size:29
Alignment explanation
Indices: 102096--102227 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 29
102086 TTTTGGGGCA
* * *
102096 AAAATGTAATTTTGAGAAAGTTT-AGGGTC
1 AAAATATAATTTT-AAAAAATTTAAGGGTC
*
102125 -AAATATAATTTTTAAAAAATATTAAGGGTT
1 AAAATATAA-TTTTAAAAAAT-TTAAGGGTC
102155 AAAATATAATTTTATAAAAATTTAAGGGTC
1 AAAATATAATTTTA-AAAAATTTAAGGGTC
* * *
102185 AAAATGA-AATTTTAGAAAAGTTCAGAGGTC
1 AAAAT-ATAATTTTAAAAAATTTAAG-GGTC
*
102215 AAAATACAATTTT
1 AAAATATAATTTT
102228 TAAATTTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
28 12 0.14
29 15 0.17
30 45 0.52
31 15 0.17
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (29 bp):
AAAATATAATTTTAAAAAATTTAAGGGTC
Done.