Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, 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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 32
Found at i:2861435 original size:30 final size:31
Alignment explanation
Indices: 2861365--2861437 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
2861355 TATTTTAAAT
* *
2861365 TTAAGATAAAAATATAATACATTTTGTGTAG
1 TTAAGATAAAAATAAAATAAATTTTGTGTAG
2861396 TTAAGATAAAAATAAAATATAATTTTGT-T-G
1 TTAAGATAAAAATAAAATA-AATTTTGTGTAG
*
2861426 TTAAAATAAAAA
1 TTAAGATAAAAA
2861438 AATATTTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 12 0.32
31 19 0.50
32 7 0.18
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (31 bp):
TTAAGATAAAAATAAAATAAATTTTGTGTAG
Found at i:2861464 original size:30 final size:30
Alignment explanation
Indices: 2861434--2861492 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2861424 TGTTAAAATA
* *
2861434 AAAAAATAT-TTCTAAGTTAAGATAAGAAT
1 AAAAAATATGTTCTAACTTAAAATAAGAAT
* *
2861463 AAAAGATATGTTTTAACTTAAAATAAGAAT
1 AAAAAATATGTTCTAACTTAAAATAAGAAT
2861493 TAATTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.32
Consensus pattern (30 bp):
AAAAAATATGTTCTAACTTAAAATAAGAAT
Found at i:2861527 original size:35 final size:34
Alignment explanation
Indices: 2861488--2861558 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 34
2861478 ACTTAAAATA
*
2861488 AGAATTAATTATATTTAATAATTTAAGGTAATAAT
1 AGAATTAA-TATATTTAATAATTTAAGGTAAGAAT
*
2861523 AG----AATATATTTAATAATTTAAGTTAAGAAT
1 AGAATTAATATATTTAATAATTTAAGGTAAGAAT
*
2861553 ATAATT
1 AGAATT
2861559 TATGTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
30 25 0.86
31 2 0.07
35 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (34 bp):
AGAATTAATATATTTAATAATTTAAGGTAAGAAT
Found at i:2861531 original size:30 final size:30
Alignment explanation
Indices: 2861497--2861567 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
2861487 AAGAATTAAT
*
2861497 TATATTTAATAATTTAAGGTAATAATAGAA
1 TATATTTAATAATTTAAGGTAAGAATAGAA
* *
2861527 TATATTTAATAATTTAAGTTAAGAATATAA
1 TATATTTAATAATTTAAGGTAAGAATAGAA
* *
2861557 TTTATGTAATA
1 TATATTTAATA
2861568 TATTGTAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (30 bp):
TATATTTAATAATTTAAGGTAAGAATAGAA
Found at i:2862701 original size:20 final size:20
Alignment explanation
Indices: 2862665--2862706 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2862655 GGGTGAGTAG
2862665 ATTCTGAAACTCACCTTGGAA
1 ATTCTGAAACTCACCTT-GAA
2862686 ATTCTG-AACT-AGCCTTGAA
1 ATTCTGAAACTCA-CCTTGAA
2862705 AT
1 AT
2862707 CTTCAAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (20 bp):
ATTCTGAAACTCACCTTGAA
Found at i:2863138 original size:30 final size:30
Alignment explanation
Indices: 2863098--2863187 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
2863088 CTTTTAAAAA
2863098 AAAGAATAAAATATATTTTTAAGTTAAGAT
1 AAAGAATAAAATATATTTTTAAGTTAAGAT
* *
2863128 AAAGACTAAAATATATTTTTAAGTTAAAAT
1 AAAGAATAAAATATATTTTTAAGTTAAGAT
2863158 -AAGAATAAAATATATTTTTAATGTTAAGAT
1 AAAGAATAAAATATATTTTTAA-GTTAAGAT
2863188 GTAAAATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.36
30 35 0.64
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (30 bp):
AAAGAATAAAATATATTTTTAAGTTAAGAT
Found at i:2863215 original size:18 final size:18
Alignment explanation
Indices: 2863174--2863221 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
2863164 AAAATATATT
2863174 TTTAATGTTAAGATGTAAA
1 TTTAAT-TTAAGATGTAAA
* * *
2863193 ATTAATTTAATATGTGAA
1 TTTAATTTAAGATGTAAA
*
2863211 TTTAAGTTAAG
1 TTTAATTTAAG
2863222 TTCTACAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (18 bp):
TTTAATTTAAGATGTAAA
Found at i:2863443 original size:16 final size:16
Alignment explanation
Indices: 2863422--2863456 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2863412 GATTGGTGAG
* *
2863422 AAAAATATATTAAATT
1 AAAAATAAATTAAAAT
2863438 AAAAATAAATTAAAAT
1 AAAAATAAATTAAAAT
2863454 AAA
1 AAA
2863457 TTTAATCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAATTAAAAT
Found at i:2863807 original size:17 final size:17
Alignment explanation
Indices: 2863785--2863818 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2863775 TTACTATATA
2863785 TTAAATCTTTTA-AAATT
1 TTAAAT-TTTTATAAATT
2863802 TTAAATTTTTATAAATT
1 TTAAATTTTTATAAATT
2863819 AAATTAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTTTTATAAATT
Found at i:2868794 original size:48 final size:51
Alignment explanation
Indices: 2868722--2868849 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 51
2868712 AAAAAAATGC
* *
2868722 ATGCATTCCATTTCCATCAGTGGAACAT-GTG-GGGTCCAGC-ATGATGAT
1 ATGCATGCCATTTCCATCAGTGGAACATGGGGTGGGTCCAGCAATGATGAT
* *
2868770 ATGCATGCCATTTCCATCAATGGAACTATATGGGGTGGGTCCATCAATGATGAT
1 ATGCATGCCATTTCCATCAGTGGAAC---ATGGGGTGGGTCCAGCAATGATGAT
*
2868824 ATGCATGTCATTTCCA-CAGTGGAACA
1 ATGCATGCCATTTCCATCAGTGGAACA
2868850 ATGCAATGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
48 24 0.35
50 1 0.01
51 2 0.03
52 2 0.03
53 16 0.24
54 23 0.34
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (51 bp):
ATGCATGCCATTTCCATCAGTGGAACATGGGGTGGGTCCAGCAATGATGAT
Found at i:2871512 original size:19 final size:19
Alignment explanation
Indices: 2871468--2871514 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2871458 TATTTTTTTT
*
2871468 CAAAAAAACAAAAAAAAGG
1 CAAAAAAACAAAAAAAAAG
2871487 CAAAAAAACAAAAAAAAAAG
1 CAAAAAAAC-AAAAAAAAAG
*
2871507 CTAAAAAA
1 CAAAAAAA
2871515 GCCAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (19 bp):
CAAAAAAACAAAAAAAAAG
Found at i:2871521 original size:21 final size:20
Alignment explanation
Indices: 2871468--2871521 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
2871458 TATTTTTTTT
*
2871468 CAAAAAAA-CAAAAAAAAGG
1 CAAAAAAACCAAAAAAAAAG
*
2871487 CAAAAAAACAAAAAAAAAAG
1 CAAAAAAACCAAAAAAAAAG
*
2871507 CTAAAAAAGCCAAAA
1 C-AAAAAAACCAAAA
2871522 TTTCAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 8 0.28
20 10 0.34
21 11 0.38
ACGTcount: A:0.78, C:0.13, G:0.07, T:0.02
Consensus pattern (20 bp):
CAAAAAAACCAAAAAAAAAG
Found at i:2877711 original size:15 final size:16
Alignment explanation
Indices: 2877686--2877722 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2877676 TCTTATTATC
2877686 TTATTTCATCTTTCGT
1 TTATTTCATCTTTCGT
*
2877702 TTATTT-ATCTTTTGT
1 TTATTTCATCTTTCGT
2877717 TTATTT
1 TTATTT
2877723 TATTCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTTCGT
Found at i:2879767 original size:19 final size:19
Alignment explanation
Indices: 2879729--2879767 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2879719 ACAAACCAAA
* *
2879729 TAAATAAAAAGTTCATAAT
1 TAAATAAAAACTTCACAAT
*
2879748 TAAATAAAAACTTTACAAT
1 TAAATAAAAACTTCACAAT
2879767 T
1 T
2879768 GCTGGTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAATAAAAACTTCACAAT
Found at i:2882633 original size:14 final size:14
Alignment explanation
Indices: 2882614--2882667 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
2882604 CCCAATTAAT
*
2882614 TTTATGTTTGTTCG
1 TTTATGTTCGTTCG
2882628 TTTATGTTCGTTCG
1 TTTATGTTCGTTCG
*
2882642 TTTATGTTCGTTCA
1 TTTATGTTCGTTCG
*
2882656 TTTGTGTTCGTT
1 TTTATGTTCGTT
2882668 TATGATTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.07, C:0.11, G:0.20, T:0.61
Consensus pattern (14 bp):
TTTATGTTCGTTCG
Found at i:2882649 original size:24 final size:24
Alignment explanation
Indices: 2882622--2882671 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2882612 ATTTTATGTT
*
2882622 TGTTCGTTTATGTT-CGTTCGTTTA
1 TGTTCGTTCAT-TTGCGTTCGTTTA
*
2882646 TGTTCGTTCATTTGTGTTCGTTTA
1 TGTTCGTTCATTTGCGTTCGTTTA
2882670 TG
1 TG
2882672 ATTTGAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (24 bp):
TGTTCGTTCATTTGCGTTCGTTTA
Found at i:2883159 original size:20 final size:20
Alignment explanation
Indices: 2883134--2883176 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2883124 TAATTGAAAT
* *
2883134 ATTTTATATTATATCAATAA
1 ATTTTATAATATATCAAGAA
*
2883154 ATTTTATAATCTATCAAGAA
1 ATTTTATAATATATCAAGAA
2883174 ATT
1 ATT
2883177 ATGCATCCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTTTATAATATATCAAGAA
Found at i:2887629 original size:35 final size:35
Alignment explanation
Indices: 2887553--2887630 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 35
2887543 TTAAATACAT
*
2887553 CAAACTTACAATAAGTATTAAATGGTAACTAATAA
1 CAAAATTACAATAAGTATTAAATGGTAACTAATAA
*
2887588 CCAAATTACAATAAATGATATTAAATGGTAA-T-A-AA
1 CAAAATTACAAT-AA-G-TATTAAATGGTAACTAATAA
2887623 CAAAATTA
1 CAAAATTA
2887631 ACAAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
35 19 0.51
36 3 0.08
37 2 0.05
38 13 0.35
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (35 bp):
CAAAATTACAATAAGTATTAAATGGTAACTAATAA
Found at i:2889965 original size:12 final size:12
Alignment explanation
Indices: 2889943--2889990 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
2889933 ATAACTACAA
2889943 AAAATTATTAAAT
1 AAAA-TATTAAAT
2889956 AAAATATT-AA-
1 AAAATATTAAAT
*
2889966 AATA-ATTAAAT
1 AAAATATTAAAT
2889977 AAAATATTAAAT
1 AAAATATTAAAT
2889989 AA
1 AA
2889991 TATAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 3 0.10
10 5 0.17
11 5 0.17
12 13 0.43
13 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATATTAAAT
Found at i:2889967 original size:21 final size:21
Alignment explanation
Indices: 2889943--2889996 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
2889933 ATAACTACAA
*
2889943 AAAATTATTAAATAAAATATT
1 AAAATAATTAAATAAAATATT
2889964 AAAATAATTAAATAAAATATT
1 AAAATAATTAAATAAAATATT
2889985 -AAATAATATAAA
1 AAAATAAT-TAAA
2889997 ATATACCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAATAAAATATT
Found at i:2891607 original size:14 final size:15
Alignment explanation
Indices: 2891545--2891610 Score: 75
Period size: 14 Copynumber: 4.5 Consensus size: 15
2891535 TAATTAAAGC
2891545 AAATAAATAATAATA
1 AAATAAATAATAATA
*
2891560 AAATAAATATTGAAT-
1 AAATAAATAAT-AATA
* *
2891575 AAA-AAATAATGAGA
1 AAATAAATAATAATA
2891589 AAATAAATAA-AATA
1 AAATAAATAATAATA
2891603 AAATAAAT
1 AAATAAAT
2891611 CAATTAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 19 0.45
15 19 0.45
16 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAATA
Found at i:2891610 original size:29 final size:29
Alignment explanation
Indices: 2891545--2891619 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 29
2891535 TAATTAAAGC
* *
2891545 AAATAAATAATAATAAAATAAATATTGAAT
1 AAATAAATAATAAGAAAATAAATA-TAAAT
*
2891575 AAA-AAATAATGAGAAAATAAATA-AAAT
1 AAATAAATAATAAGAAAATAAATATAAAT
2891602 AAAATAAATCAATTAAGA
1 -AAATAAAT-AA-TAAGA
2891620 TGACATGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 3 0.08
28 3 0.08
29 22 0.59
30 5 0.14
31 4 0.11
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.24
Consensus pattern (29 bp):
AAATAAATAATAAGAAAATAAATATAAAT
Found at i:2895027 original size:110 final size:108
Alignment explanation
Indices: 2894902--2895123 Score: 308
Period size: 112 Copynumber: 2.0 Consensus size: 108
2894892 TTATGAAACT
2894902 ATGGGAATGCTCGGCGTCTTCAAGCAATT-GG-C-CT-GTGGGATATCTCGGCGTCTTCTGCATG
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGACTCTGGTGGGATATCTCGGCGTCTTCTGCA--
2894963 CTACAAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
64 -T---AGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
*
2895012 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGATCTCTCGGAGTGGGATCTCTCGGCGTCTTCTG
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGA-CTCT--G-GTGGGATATCTCGGCGTCTTCTG
*
2895077 CATAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTTGTCTG
62 CATAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
2895124 GCGGAATCTC
Statistics
Matches: 102, Mismatches: 2, Indels: 14
0.86 0.02 0.12
Matches are distributed among these distances:
110 29 0.28
111 2 0.02
112 43 0.42
113 1 0.01
114 2 0.02
115 1 0.01
118 24 0.24
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.29
Consensus pattern (108 bp):
ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGACTCTGGTGGGATATCTCGGCGTCTTCTGCATA
GGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
Found at i:2895410 original size:18 final size:18
Alignment explanation
Indices: 2895387--2895433 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
2895377 CTTTGTGTCC
2895387 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
2895405 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
2895423 GAAGCGTGAGA
1 GAAGCGTGAGA
2895434 CTAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:2898782 original size:14 final size:14
Alignment explanation
Indices: 2898763--2898827 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
2898753 CTCGAGTACA
2898763 TATTTAATAATAAT
1 TATTTAATAATAAT
*
2898777 TATTTAA-ATTTAAT
1 TATTTAATA-ATAAT
*
2898791 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
2898805 GATTTAATAATAAT
1 TATTTAATAATAAT
2898819 TACTTTAAT
1 TA-TTTAAT
2898828 GATCTTGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
13 2 0.05
14 34 0.81
15 6 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (14 bp):
TATTTAATAATAAT
Found at i:2900948 original size:171 final size:173
Alignment explanation
Indices: 2900654--2901011 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
2900644 CATCAAATAT
*
2900654 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
2900719 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* *
2900784 TTTT-ATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* * *
2900826 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
2900890 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
2900954 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
2900998 AAAATGGTCCCTAA
1 AAAATGATCCCTAA
2901012 AACTTTACAA
Statistics
Matches: 170, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
171 64 0.38
172 106 0.62
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:2901078 original size:31 final size:29
Alignment explanation
Indices: 2901043--2901100 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
2901033 GGTCCCAACC
2901043 TTATTTCAAATTATGTAACAACATATAATTA
1 TTATTTCAAA--ATGTAACAACATATAATTA
* *
2901074 TTATTTCAGAGTGTAACAACATATAAT
1 TTATTTCAAAATGTAACAACATATAAT
2901101 CACAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
31 9 0.36
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (29 bp):
TTATTTCAAAATGTAACAACATATAATTA
Found at i:2901489 original size:23 final size:23
Alignment explanation
Indices: 2901463--2901506 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2901453 AGTTGCATGC
2901463 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
2901486 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
2901507 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:2901551 original size:22 final size:22
Alignment explanation
Indices: 2901523--2901576 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
2901513 AGGACCCAGG
2901523 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
2901545 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
2901567 ACCCGTGATT
1 ACCCGTGATT
2901577 CCCATCAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:2915467 original size:35 final size:35
Alignment explanation
Indices: 2915394--2915467 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
2915384 TATCAAGTCC
* **
2915394 AGTAAGGCCCTGAGCACACAACCGAGGAGCCGGTA
1 AGTAAGGCCCTGAGAACACAACCGAGGAGCCGCCA
**
2915429 AGTAAGGCCCTGAGAACACAACCGAGGAGCTTCCA
1 AGTAAGGCCCTGAGAACACAACCGAGGAGCCGCCA
2915464 AGTA
1 AGTA
2915468 TACTTCCTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.27, G:0.28, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGAACACAACCGAGGAGCCGCCA
Found at i:2920672 original size:19 final size:19
Alignment explanation
Indices: 2920648--2920703 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2920638 GAACGCTGGA
2920648 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
2920667 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
2920688 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
2920704 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:2920683 original size:11 final size:11
Alignment explanation
Indices: 2920648--2920696 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
2920638 GAACGCTGGA
2920648 AACCGGTTTTG
1 AACCGGTTTTG
2920659 -ACCGG-TTT-
1 AACCGGTTTTG
2920667 AACCGGTTTTG
1 AACCGGTTTTG
2920678 AACCGGTTTTG
1 AACCGGTTTTG
2920689 -ACCGGTTT
1 AACCGGTTT
2920697 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:2920699 original size:9 final size:10
Alignment explanation
Indices: 2920649--2920703 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
2920639 AACGCTGGAA
2920649 ACCGGTTTTG
1 ACCGGTTTTG
*
2920659 ACCGG-TTTA
1 ACCGGTTTTG
2920668 ACCGGTTTTG
1 ACCGGTTTTG
2920678 AACCGGTTTTG
1 -ACCGGTTTTG
2920689 ACCGG-TTTG
1 ACCGGTTTTG
2920698 ACCGGT
1 ACCGGT
2920704 CACGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:2920742 original size:18 final size:18
Alignment explanation
Indices: 2920719--2920767 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
2920709 CCCGTTTACT
2920719 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
*
2920737 CGACCCATTGACCCGACC
1 CGACCCGTTGACCCGACC
2920755 CGACCCGTTGACC
1 CGACCCGTTGACC
2920768 GTTGACCGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.49, G:0.20, T:0.12
Consensus pattern (18 bp):
CGACCCGTTGACCCGACC
Found at i:2920836 original size:29 final size:28
Alignment explanation
Indices: 2920775--2920871 Score: 95
Period size: 29 Copynumber: 3.4 Consensus size: 28
2920765 ACCGTTGACC
* ** *
2920775 GGTGCTATTCTGGGAATTAATTCAGTTTT
1 GGTGCTATTTTGGGAATTAATTCA-AATG
2920804 GGTGCTATTTTGGGAATTAATTCGAAATG
1 GGTGCTATTTTGGGAATTAATTC-AAATG
* * * *
2920833 GGTGCTATTTTGGTAATTTATTTTAAAAG
1 GGTGCTATTTTGGGAA-TTAATTCAAATG
2920862 GGTGCTATTT
1 GGTGCTATTT
2920872 GTGTAAAATG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 52 0.90
30 6 0.10
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.44
Consensus pattern (28 bp):
GGTGCTATTTTGGGAATTAATTCAAATG
Found at i:2927521 original size:10 final size:10
Alignment explanation
Indices: 2927479--2927530 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
2927469 GCTGGAAACT
2927479 GGTTTTGACC
1 GGTTTTGACC
*
2927489 GG-TTTAACC
1 GGTTTTGACC
2927498 GGTTTTGAACC
1 GGTTTTG-ACC
2927509 GGTTTTGACC
1 GGTTTTGACC
2927519 GG-TTTGACC
1 GGTTTTGACC
2927528 GGT
1 GGT
2927531 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:2927551 original size:13 final size:13
Alignment explanation
Indices: 2927533--2927565 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2927523 TGACCGGTCA
*
2927533 CGACCCGTTTACC
1 CGACCCGTTGACC
2927546 CGACCCGTTGACC
1 CGACCCGTTGACC
2927559 CGACCCG
1 CGACCCG
2927566 ACCCGTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.48, G:0.21, T:0.15
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:2931908 original size:17 final size:17
Alignment explanation
Indices: 2931878--2931911 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2931868 GGTCAACAGT
*
2931878 GGTCAACGCCGGTCAAC
1 GGTCAACGCAGGTCAAC
*
2931895 GGTCAACGTAGGTCAAC
1 GGTCAACGCAGGTCAAC
2931912 AGTCGACCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.15
Consensus pattern (17 bp):
GGTCAACGCAGGTCAAC
Found at i:2937927 original size:18 final size:18
Alignment explanation
Indices: 2937904--2937944 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
2937894 AAGGATGCAA
2937904 AAAACTGACCAGACTTGC
1 AAAACTGACCAGACTTGC
*
2937922 AAAACTGACCCGACTTGC
1 AAAACTGACCAGACTTGC
2937940 AAAAC
1 AAAAC
2937945 AGACTGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.29, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAACTGACCAGACTTGC
Found at i:2938554 original size:19 final size:19
Alignment explanation
Indices: 2938527--2938563 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2938517 TCATCATTAT
2938527 ATTACTAAATTTACTTTAA
1 ATTACTAAATTTACTTTAA
*
2938546 ATTATTAAATTTACTTTA
1 ATTACTAAATTTACTTTA
2938564 TATATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTACTAAATTTACTTTAA
Found at i:2939173 original size:22 final size:22
Alignment explanation
Indices: 2939148--2939238 Score: 85
Period size: 22 Copynumber: 4.2 Consensus size: 22
2939138 ACCAAAACTT
* *
2939148 ATCAGCATTCAAACGATTTCTA
1 ATCAGCATTCAAACGAATTCCA
*
2939170 ATCAGCATTCAGACGAATTCCA
1 ATCAGCATTCAAACGAATTCCA
* * * *
2939192 ATAAGCATTCAGACCAAGTCCA
1 ATCAGCATTCAAACGAATTCCA
* * *
2939214 GTCAGCATTCATACCAATT-CA
1 ATCAGCATTCAAACGAATTCCA
2939235 ATCA
1 ATCA
2939239 ATGGTAAAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
21 5 0.09
22 53 0.91
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.25
Consensus pattern (22 bp):
ATCAGCATTCAAACGAATTCCA
Found at i:2940222 original size:2 final size:2
Alignment explanation
Indices: 2940215--2940247 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2940205 ATTTTGAATA
2940215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2940248 AATTAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2941860 original size:64 final size:65
Alignment explanation
Indices: 2941782--2941907 Score: 166
Period size: 65 Copynumber: 2.0 Consensus size: 65
2941772 TTTTGAATGA
* * *
2941782 ATTTTATGCACTGATGCACAA-CCATGCATCGATGCACTCAGAAT-TTTATTGAAACATCGAATT
1 ATTTTATGCACTGATACACAAGCCATACATCGATGCACCCAGAATATTT-TTGAAACATCGAATT
2941845 G
65 G
* * * *
2941846 ATTTTGTGTACTGATACACAAGCCATACATCGATGCACCCTGACTATTTTTGAAACATCGAA
1 ATTTTATGCACTGATACACAAGCCATACATCGATGCACCCAGAATATTTTTGAAACATCGAA
2941908 GCAAACTTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 18 0.34
65 32 0.60
66 3 0.06
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (65 bp):
ATTTTATGCACTGATACACAAGCCATACATCGATGCACCCAGAATATTTTTGAAACATCGAATTG
Found at i:2942788 original size:23 final size:23
Alignment explanation
Indices: 2942715--2942791 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
2942705 CACAGCAGAG
* *
2942715 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGTACATTCAAGGGA
* *
2942738 TGCATC-A-GTGCATCTTC-ATGG-
1 TGCATCGATGTACA--TTCAAGGGA
*
2942759 TGAATCGATGTACATTCAAGGGA
1 TGCATCGATGTACATTCAAGGGA
2942782 TGCATCGATG
1 TGCATCGATG
2942792 CACTAACTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
21 11 0.28
22 7 0.17
23 22 0.55
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (23 bp):
TGCATCGATGTACATTCAAGGGA
Found at i:2946278 original size:28 final size:28
Alignment explanation
Indices: 2946238--2946293 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
2946228 AAGGATAGCA
2946238 TTAGTACCTTACCATCTCATCACGATCG
1 TTAGTACCTTACCATCTCATCACGATCG
*
2946266 TTAGTACCTTACCATCTCATTACGATCG
1 TTAGTACCTTACCATCTCATCACGATCG
2946294 ATTCCTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (28 bp):
TTAGTACCTTACCATCTCATCACGATCG
Found at i:2947901 original size:65 final size:65
Alignment explanation
Indices: 2947758--2947914 Score: 156
Period size: 65 Copynumber: 2.4 Consensus size: 65
2947748 CACACCCATT
* * * * * *
2947758 TCGAATGAATTTTATGCACCGATGCAC-AGTCATGCATCGATGCACTCAGAATTTTATTGAAACA
1 TCGAATAAAATTTGTGCACCGATGCACAAGCCATGCATCGATACACCCAGAATTTTATTGAAACA
* ** * * * **
2947822 TTGAATTGATTTTGTGTACCGATGCACAAGCCATGCATCGATACACCCTGGCTATTT-TTGAAAC
1 TCGAATAAAATTTGTGCACCGATGCACAAGCCATGCATCGATACACCCAGAAT-TTTATTGAAAC
2947886 A
65 A
*
2947887 TCGAATAAAATTTGTGCACTGATGCACA
1 TCGAATAAAATTTGTGCACCGATGCACA
2947915 CCCTAGTGTT
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
64 22 0.30
65 49 0.66
66 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (65 bp):
TCGAATAAAATTTGTGCACCGATGCACAAGCCATGCATCGATACACCCAGAATTTTATTGAAACA
Found at i:2949493 original size:30 final size:31
Alignment explanation
Indices: 2949459--2949520 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
2949449 ACCTATTCAG
* * *
2949459 AGGTCATAAAGAACCTCGG-CAACTATCCAT
1 AGGTCACAAAGAACCTAGGTAAACTATCCAT
*
2949489 AGGTCCCAAAGAACCTAGGTAAACTATCCAT
1 AGGTCACAAAGAACCTAGGTAAACTATCCAT
2949520 A
1 A
2949521 TGTTCATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (31 bp):
AGGTCACAAAGAACCTAGGTAAACTATCCAT
Found at i:2949930 original size:2 final size:2
Alignment explanation
Indices: 2949923--2949951 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2949913 ATCACACTAG
2949923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2949952 TCATACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2950155 original size:2 final size:2
Alignment explanation
Indices: 2950148--2950183 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2950138 TTCTATGGTC
2950148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2950184 CACATAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2954560 original size:31 final size:31
Alignment explanation
Indices: 2954477--2954566 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
2954467 TCGACAACTA
* * *
2954477 TCCATAGGTCTCAAAGAACCTAAGTAAATTG
1 TCCATATGTCTCAAAGAACATAGGTAAATTG
**
2954508 TCCATATGT-TCCTTAGAACATAGGTAAATTG
1 TCCATATGTCT-CAAAGAACATAGGTAAATTG
2954539 TCCATATGTCTCGAAAG-ACATAGGTAAA
1 TCCATATGTCTC-AAAGAACATAGGTAAA
2954567 GTAACCCTCG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
30 1 0.02
31 45 0.92
32 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (31 bp):
TCCATATGTCTCAAAGAACATAGGTAAATTG
Found at i:2954876 original size:2 final size:2
Alignment explanation
Indices: 2954869--2954899 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2954859 TTATGTAAAC
2954869 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
2954900 AATCGTTTAT
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:2956699 original size:22 final size:22
Alignment explanation
Indices: 2956674--2956734 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
2956664 ATACTACTAA
2956674 AAAATAGAAAACAAAAATAAAT
1 AAAATAGAAAACAAAAATAAAT
2956696 -AAA-AG--AACAAATAATAAAT
1 AAAATAGAAAACAAA-AATAAAT
* *
2956715 AATATA-AAAACAAATATAAA
1 AAAATAGAAAACAAAAATAAA
2956735 ATAGAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 4 0.12
21 9 0.28
22 6 0.19
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAATAGAAAACAAAAATAAAT
Found at i:2956742 original size:24 final size:22
Alignment explanation
Indices: 2956686--2956748 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
2956676 AATAGAAAAC
2956686 AAAAATAAATA-AAAGAACAAAT
1 AAAAATAAATATAAA-AACAAAT
2956708 AATAAAT-AATATAAAAACAAAT
1 AA-AAATAAATATAAAAACAAAT
2956730 ATAAAATAGAATATAAAAA
1 A-AAAATA-AATATAAAAA
2956749 TAAAAAGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
22 18 0.50
23 8 0.22
24 10 0.28
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (22 bp):
AAAAATAAATATAAAAACAAAT
Found at i:2957179 original size:16 final size:16
Alignment explanation
Indices: 2957143--2957195 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
2957133 AATGGAACTA
2957143 TAGAAGATGAGGAATC
1 TAGAAGATGAGGAATC
* *
2957159 AAGAAGATGAGGAGTC
1 TAGAAGATGAGGAATC
* *
2957175 TAGAAGGTGGAGGATTC
1 TAGAAGAT-GAGGAATC
2957192 TAGA
1 TAGA
2957196 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.40, C:0.06, G:0.36, T:0.19
Consensus pattern (16 bp):
TAGAAGATGAGGAATC
Found at i:2957392 original size:117 final size:117
Alignment explanation
Indices: 2957161--2957381 Score: 313
Period size: 117 Copynumber: 1.9 Consensus size: 117
2957151 GAGGAATCAA
* * *
2957161 GAAGATGAGGAGTCTAGAAGGTGGAGGATTCTAGAGAATTTTTTTTCTCGGATGAACAATGCTTA
1 GAAGATGAGGAGTCGAGAAGGTGGAGGATTCTAGAGAATTTGTTTTCTCGAATGAACAATGCTTA
* *
2957226 TTTTATGGGTTAGATCTAAAAATAAGAAAATAACGATTTTTGATTATTTTTC
66 TTTTATAGGTTAGATCTAAAAATAAGAAAAGAACGATTTTTGATTATTTTTC
* *
2957278 GAAGATGGGGAGTCGAGAAGGTGGAGGATTCTAGAG-A-TTGTTTTC-CGAATGGACAATGCTTA
1 GAAGATGAGGAGTCGAGAAGGTGGAGGATTCTAGAGAATTTGTTTTCTCGAATGAACAATGCTTA
* * * *
2957340 TTTTCTAGGTTAGATTTAAAAAATATGAAAGGAACGATTTTT
66 TTTTATAGGTTAGATCT-AAAAATAAGAAAAGAACGATTTTT
2957382 TATATTATTT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
114 29 0.32
115 28 0.30
116 1 0.01
117 34 0.37
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (117 bp):
GAAGATGAGGAGTCGAGAAGGTGGAGGATTCTAGAGAATTTGTTTTCTCGAATGAACAATGCTTA
TTTTATAGGTTAGATCTAAAAATAAGAAAAGAACGATTTTTGATTATTTTTC
Found at i:2957873 original size:2 final size:2
Alignment explanation
Indices: 2957868--2958453 Score: 120
Period size: 2 Copynumber: 289.5 Consensus size: 2
2957858 ACTTTATACT
*
2957868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
2957910 TT TA AA CTA TA -A TA TA TA -A TT TA TA TA TA AA GTA TA GTT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA
* * * *
2957951 TA TA TA TA GT- TCA TA TG TA AA CTA TA TA GTA TA TA TA GTT TA CA
1 TA TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA
* * * *
2957995 TA TA GTA TA TA TGG TT TA TA TA TA GTT TA TA T- TA -A TA AA CTA
1 TA TA -TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * *
2958037 TA TA -A TT TA TA CA TA GTA TA TA TA -A TT TA TA -A T- 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
* * * *
2958076 TA GTA TA TA AA TA TA AA T- TT TA TA GTT TA TA TA TA GT- TCA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA T-A TA
* * *
2958118 TA TA -A TT TA TA TA GTT TA T- TA GTT TA TA TA TA TA GT- TCA TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA T-A TA
* * * * * *
2958159 TG TA AA CTA TA TA -A TT TA TT TA GTT TA TA TA TA GTT TA TA T-
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* * * * *
2958200 TA -A TA AA CTA TA CA -A TT TA TA CA TA GTA TA TA TA -A TT TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
2958241 -A T- TA TA CA TA GTA TA TA TA TA TA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * * *
2958284 TA TA TA TA AA CTA TA TA TA T- TA TA AA CTA TA AA TA GA -A CTA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* * *
2958325 TA TA TA AA CTA TA TA GTT TA TA TT TA TA TA TA TA CTA GT- TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA -TA TA TA
* ** *
2958368 -A T- TA TA AA T- TA TA TA TA CTA GG TA TA AA T- 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
* * * *
2958407 T- TA TG TA TA AA T- TA TA TA GTT TA TA T- TA T- TA TA TA GTG TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
2958447 TA TA TA T
1 TA TA TA T
2958454 TAATTTATTA
Statistics
Matches: 411, Mismatches: 103, Indels: 140
0.63 0.16 0.21
Matches are distributed among these distances:
1 32 0.08
2 332 0.81
3 47 0.11
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2957985 original size:9 final size:9
Alignment explanation
Indices: 2957973--2958084 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
2957963 ATATGTAAAC
2957973 TATATAGTA
1 TATATAGTA
2957982 TATATAGTTTA
1 TATATAG--TA
*
2957993 CATATAGTA
1 TATATAGTA
*
2958002 TATATGGTTTA
1 TATATAG--TA
2958013 TATATAGT-
1 TATATAGTA
*
2958021 T-TATATTA
1 TATATAGTA
* *
2958029 -ATAAACTA
1 TATATAGTA
*
2958037 TATA-ATTTA
1 TATATA-GTA
*
2958046 TACATAGTA
1 TATATAGTA
* *
2958055 TATATAATT
1 TATATAGTA
*
2958064 TATA-ATTA
1 TATATAGTA
2958072 TATATAGTA
1 TATATAGTA
2958081 TATA
1 TATA
2958085 AATATAAATT
Statistics
Matches: 77, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
7 5 0.06
8 13 0.17
9 42 0.55
10 1 0.01
11 16 0.21
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (9 bp):
TATATAGTA
Found at i:2958105 original size:59 final size:59
Alignment explanation
Indices: 2958010--2958128 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 59
2958000 TATATATGGT
* *
2958010 TTATATATAGTTTAT-ATTAATAAACTATATAATTTATACATAGTATATATAATTTATAA
1 TTATATATAGTATATAAAT-ATAAACTATATAATTTATACATAGTATATATAATTTATAA
* * * *
2958069 TTATATATAGTATATAAATATAAATTTTATAGTTTATATATAGTTCATATATAATTTATA
1 TTATATATAGTATATAAATATAAACTATATAATTTATACATAG-T-ATATATAATTTATA
2958129 TAGTTTATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
59 34 0.67
60 3 0.06
61 14 0.27
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (59 bp):
TTATATATAGTATATAAATATAAACTATATAATTTATACATAGTATATATAATTTATAA
Found at i:2958108 original size:9 final size:9
Alignment explanation
Indices: 2958105--2958147 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
2958095 TTATAGTTTA
2958105 TATATAGTT
1 TATATAGTT
*
2958114 CATATATAATT
1 --TATATAGTT
2958125 TATATAGTT
1 TATATAGTT
2958134 TAT-TAGTT
1 TATATAGTT
2958142 TATATA
1 TATATA
2958148 TATAGTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
11 8 0.28
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (9 bp):
TATATAGTT
Found at i:2958129 original size:70 final size:78
Alignment explanation
Indices: 2958055--2958203 Score: 172
Period size: 81 Copynumber: 2.0 Consensus size: 78
2958045 ATACATAGTA
2958055 TATATAATTTA-TA-AT-TATATATAG-T-ATA-TAAA-TATA-AATTT-TATAGTTTATATATA
1 TATATAATTTATTAGATATATATATAGTTCATAGTAAACTATATAATTTATATAGTTTATATATA
2958111 GTTCATATATAATT
66 GTTCATAT-TAATT
* * *
2958125 TATATAGTTTATTAGTTTATATATATAGTTCATATGTAAACTATATAATTTATTTAGTTTATATA
1 TATATAATTTATTAG-ATATATATATAGTTCATA-GTAAACTATATAATTTATATAGTTTATATA
*
2958190 TAGTTTATATTAAT
64 TAGTTCATATTAAT
2958204 AAACTATACA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
70 10 0.16
71 2 0.03
73 1 0.02
74 9 0.14
75 1 0.02
76 3 0.05
78 4 0.06
79 4 0.06
80 9 0.14
81 21 0.33
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (78 bp):
TATATAATTTATTAGATATATATATAGTTCATAGTAAACTATATAATTTATATAGTTTATATATA
GTTCATATTAATT
Found at i:2958156 original size:41 final size:42
Alignment explanation
Indices: 2958079--2958219 Score: 145
Period size: 41 Copynumber: 3.5 Consensus size: 42
2958069 TTATATATAG
*
2958079 TATATAAA-TATA-AATTT-TATAG-TT-TATATATAGTTCA
1 TATATAAACTATATAATTTATTTAGTTTATATATATAGTTCA
** *
2958116 TATATAATTTATATAGTTTA-TTAGTTTATATATATAGTTCA
1 TATATAAACTATATAATTTATTTAGTTTATATATATAGTTCA
* *
2958157 TATGTAAACTATATAATTTATTTAG-TT-TATATATAGTTTA
1 TATATAAACTATATAATTTATTTAGTTTATATATATAGTTCA
*
2958197 TATTAATAAACTATACAATTTAT
1 TA-T-ATAAACTATATAATTTAT
2958220 ACATAGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
37 7 0.08
38 4 0.05
39 7 0.08
40 16 0.19
41 32 0.37
42 20 0.23
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (42 bp):
TATATAAACTATATAATTTATTTAGTTTATATATATAGTTCA
Found at i:2958327 original size:39 final size:37
Alignment explanation
Indices: 2958258--2958339 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 37
2958248 ATAGTATATA
**
2958258 TATATATATATATAAACTATATAGTTTATATATAAAC
1 TATATATATATATAAACTATATAGACTATATATAAAC
2958295 TATATATAT-TATAAACTATAAATAGAACTATATATAAAC
1 TATATATATATATAAACTAT--ATAG-ACTATATATAAAC
2958334 TATATA
1 TATATA
2958340 GTTTATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 10 0.25
37 9 0.22
38 4 0.10
39 17 0.43
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (37 bp):
TATATATATATATAAACTATATAGACTATATATAAAC
Found at i:2958404 original size:11 final size:11
Alignment explanation
Indices: 2958390--2958424 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2958380 ATATACTAGG
2958390 TATAAATTATA
1 TATAAATTATA
* *
2958401 TATATATTATG
1 TATAAATTATA
2958412 TATAAATTATA
1 TATAAATTATA
2958423 TA
1 TA
2958425 GTTTATATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
TATAAATTATA
Found at i:2958439 original size:17 final size:18
Alignment explanation
Indices: 2958397--2958455 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 18
2958387 AGGTATAAAT
2958397 TATATATA-TAT-TA-TG
1 TATATATATTATATAGTG
*
2958412 TATA-A-ATTATATAGTT
1 TATATATATTATATAGTG
2958428 TATAT-TATTATATAGTG
1 TATATATATTATATAGTG
2958445 TATATATATTA
1 TATATATATTA
2958456 ATTTATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 1 0.03
14 4 0.11
15 6 0.17
16 5 0.14
17 15 0.42
18 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
TATATATATTATATAGTG
Found at i:2968819 original size:31 final size:31
Alignment explanation
Indices: 2968784--2968848 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
2968774 TGACCACGTT
* *
2968784 TTAATTAAATAAAAATGAAAGTGATCATATC
1 TTAATTAAATAAAAACGAAAGTGATAATATC
2968815 TTAATTAAATAAAAACGAAAGTGATAATATC
1 TTAATTAAATAAAAACGAAAGTGATAATATC
2968846 TTA
1 TTA
2968849 TATTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.32
Consensus pattern (31 bp):
TTAATTAAATAAAAACGAAAGTGATAATATC
Found at i:2972042 original size:99 final size:99
Alignment explanation
Indices: 2971871--2972069 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
2971861 AAGTCTTGTT
2971871 GAGTTGTGAAGAAGCAGATGGCTTATATTCTTTTGTGAAAGACTGTGCAGCAGTGAAGGGAGATG
1 GAGTTGTGAAGAAGCAGATGGCTTATATTCTTTTGTGAAAGACTGTGCAGCAGTGAAGGGAGATG
2971936 TCAATATTGCTTTGAAGTCTTTGCCAGTTGATGA
66 TCAATATTGCTTTGAAGTCTTTGCCAGTTGATGA
2971970 GAGTTGTGAAGAAGCAGATGGCTTATATTCTTTTGTGAAAGACTGTGCAGCAGTGAAGGGAGATG
1 GAGTTGTGAAGAAGCAGATGGCTTATATTCTTTTGTGAAAGACTGTGCAGCAGTGAAGGGAGATG
2972035 TCAATATTGCTTTGAAGTCTTTGCCAGTTGATGA
66 TCAATATTGCTTTGAAGTCTTTGCCAGTTGATGA
2972069 G
1 G
2972070 TTATGGCATA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (99 bp):
GAGTTGTGAAGAAGCAGATGGCTTATATTCTTTTGTGAAAGACTGTGCAGCAGTGAAGGGAGATG
TCAATATTGCTTTGAAGTCTTTGCCAGTTGATGA
Found at i:2974996 original size:19 final size:19
Alignment explanation
Indices: 2974972--2975029 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
2974962 TATGCATGTA
*
2974972 AGCTGAGTAAGCAGCAGTT
1 AGCTGAGTCAGCAGCAGTT
2974991 AGCTGAGTCAGCAGCAGTT
1 AGCTGAGTCAGCAGCAGTT
2975010 AGCTGAGTCAGCAGCAGTT
1 AGCTGAGTCAGCAGCAGTT
2975029 A
1 A
2975030 AGAGGTTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (19 bp):
AGCTGAGTCAGCAGCAGTT
Found at i:2978465 original size:28 final size:27
Alignment explanation
Indices: 2978418--2978475 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
2978408 TGGATTAAAA
* ** *
2978418 TTAAGGTTTTCAAAGTTTTGGGTGTTTT
1 TTAAGATTTTCAAAAATTTGGG-GATTT
2978446 TTAAGATTTTCAAAAATTTGGGGATTT
1 TTAAGATTTTCAAAAATTTGGGGATTT
2978473 TTA
1 TTA
2978476 GAAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
TTAAGATTTTCAAAAATTTGGGGATTT
Found at i:2978533 original size:19 final size:20
Alignment explanation
Indices: 2978496--2978535 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2978486 AATTTTAAGT
*
2978496 TTTTTTAAATTTTAAATAAA
1 TTTTTTAAATATTAAATAAA
*
2978516 TTTTTTAAA-ATTACATAAA
1 TTTTTTAAATATTAAATAAA
2978535 T
1 T
2978536 ATGACATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTTAAATATTAAATAAA
Found at i:2979657 original size:14 final size:14
Alignment explanation
Indices: 2979635--2979664 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2979625 TTTCAAATAT
2979635 AATAAATAATTATA
1 AATAAATAATTATA
*
2979649 AATATATAATTATA
1 AATAAATAATTATA
2979663 AA
1 AA
2979665 ATACATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAATAATTATA
Found at i:2983503 original size:21 final size:21
Alignment explanation
Indices: 2983479--2983518 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2983469 ACCGTTATAC
*
2983479 AGGGGGGAATTGGTACCCTAT
1 AGGGGGGAATCGGTACCCTAT
*
2983500 AGGGGGGAATCGGTTCCCT
1 AGGGGGGAATCGGTACCCT
2983519 CTGAGTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (21 bp):
AGGGGGGAATCGGTACCCTAT
Found at i:2992114 original size:25 final size:25
Alignment explanation
Indices: 2992064--2992115 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
2992054 CTTAATTATC
**
2992064 CAAAAAATAGTTTTCTAAATTGAGT
1 CAAAAAATAGTTTTCTAAATCAAGT
*
2992089 CAAAAAATTAGTTTTC-GAATCAAGT
1 CAAAAAA-TAGTTTTCTAAATCAAGT
2992114 CA
1 CA
2992116 TTAAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (25 bp):
CAAAAAATAGTTTTCTAAATCAAGT
Found at i:2992570 original size:51 final size:50
Alignment explanation
Indices: 2992494--2992730 Score: 254
Period size: 51 Copynumber: 4.8 Consensus size: 50
2992484 TCAATGTACA
* *** * *
2992494 AAAAAATGTAGCACTTAATGTATACTTACACCGATGTACGTCAATAAAAT
1 AAAAAATATAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* * * *
2992544 AAACAAGTGTATCACTTAACACATACTTACACC-AGTGTAAGTGAATAAAAC
1 AAA-AAATATAGCACTTAACACATACTTACACCGA-TGTAAGTGAATAAAAT
* *
2992595 AAAAAATATAGAACTTAACACATA-TTACACCGGTGTAAGTG-----AAT
1 AAAAAATATAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* * *
2992639 AAAAAATGTAGCACTTAACACATACTTACAACGATGTAAGTAAATAAAAT
1 AAAAAATATAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
*
2992689 AATAAAATATAACACTTAACACATACTTACACCGATGTAAGT
1 AA-AAAATATAGCACTTAACACATACTTACACCGATGTAAGT
2992731 ATGCACATTG
Statistics
Matches: 155, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
44 24 0.15
45 14 0.09
49 15 0.10
50 26 0.17
51 76 0.49
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (50 bp):
AAAAAATATAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
Found at i:2992677 original size:94 final size:97
Alignment explanation
Indices: 2992541--2992730 Score: 273
Period size: 94 Copynumber: 2.0 Consensus size: 97
2992531 ACGTCAATAA
* * *
2992541 AATAAACAAGTGTATCACTTAACACATACTTACACCAGTGTAAGTGAATAAAACAA-AAAATATA
1 AATAAACAAATGTAGCACTTAACACATACTTACACCAGTGTAAGTAAATAAAACAATAAAATATA
*
2992605 GA-ACTTAACACATA-TTACACCGGTGTAAGTG
66 -ACACTTAACACATACTTACACCGATGTAAGTG
* *
2992636 AATAAA-AAATGTAGCACTTAACACATACTTACAAC-GATGTAAGTAAATAAAATAATAAAATAT
1 AATAAACAAATGTAGCACTTAACACATACTTACACCAG-TGTAAGTAAATAAAACAATAAAATAT
2992699 AACACTTAACACATACTTACACCGATGTAAGT
65 AACACTTAACACATACTTACACCGATGTAAGT
2992731 ATGCACATTG
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
93 1 0.01
94 43 0.51
95 26 0.31
96 15 0.18
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (97 bp):
AATAAACAAATGTAGCACTTAACACATACTTACACCAGTGTAAGTAAATAAAACAATAAAATATA
ACACTTAACACATACTTACACCGATGTAAGTG
Found at i:2995597 original size:46 final size:46
Alignment explanation
Indices: 2995539--2995637 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 46
2995529 CAAATAACCT
*
2995539 AAAACATGTCATAAAGACAAAGAAAAATGTACCACAAAGGTAGAAG
1 AAAACATGTCATAAAGACAAAGAAAAACGTACCACAAAGGTAGAAG
* ** * * * *
2995585 AAAACGTGTCATAAAGGTATAGAAAAACGTACTATAAATGTAGAAG
1 AAAACATGTCATAAAGACAAAGAAAAACGTACCACAAAGGTAGAAG
*
2995631 AAGACAT
1 AAAACAT
2995638 CCTATAAAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.54, C:0.11, G:0.18, T:0.17
Consensus pattern (46 bp):
AAAACATGTCATAAAGACAAAGAAAAACGTACCACAAAGGTAGAAG
Found at i:2995988 original size:37 final size:41
Alignment explanation
Indices: 2995911--2995988 Score: 92
Period size: 42 Copynumber: 2.0 Consensus size: 41
2995901 ATTAATTTTC
* *
2995911 TTTATATTTATATAATATATTTAAGATTTTAAGGATTTTTATT
1 TTTATATTTATATAATATATTT-A-ATTTTAAGAAATTTTATT
2995954 TTTATA-TTATATAATATA-TT-ATTTTAA-AAATTTTA
1 TTTATATTTATATAATATATTTAATTTTAAGAAATTTTA
2995989 AATATAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
37 6 0.18
38 7 0.21
41 2 0.06
42 12 0.36
43 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (41 bp):
TTTATATTTATATAATATATTTAATTTTAAGAAATTTTATT
Found at i:2996016 original size:14 final size:14
Alignment explanation
Indices: 2995994--2996023 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2995984 TTTTAAATAT
2995994 AATAAATAATTATA
1 AATAAATAATTATA
*
2996008 AATATATAATTATA
1 AATAAATAATTATA
2996022 AA
1 AA
2996024 ATACATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAATAATTATA
Found at i:2996016 original size:18 final size:18
Alignment explanation
Indices: 2995978--2996013 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2995968 TATATTATTT
*
2995978 TAAAAATTTTAAATATAA
1 TAAAAATTATAAATATAA
2995996 TAAATAATTATAAATATA
1 TAAA-AATTATAAATATA
2996014 TAATTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAATTATAAATATAA
Found at i:2996689 original size:10 final size:10
Alignment explanation
Indices: 2996674--2996698 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2996664 ATCATCTATC
2996674 TTTAACTACT
1 TTTAACTACT
2996684 TTTAACTACT
1 TTTAACTACT
2996694 TTTAA
1 TTTAA
2996699 AGAAAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAACTACT
Found at i:3000731 original size:21 final size:21
Alignment explanation
Indices: 3000701--3000748 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3000691 TAATTTTCAA
3000701 ACATTATTGCACCTAATTTTG
1 ACATTATTGCACCTAATTTTG
* *
3000722 ACATTGTTGCATCTAATTTTG
1 ACATTATTGCACCTAATTTTG
*
3000743 ATATTA
1 ACATTA
3000749 CAGTATTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (21 bp):
ACATTATTGCACCTAATTTTG
Found at i:3005381 original size:21 final size:21
Alignment explanation
Indices: 3005351--3005398 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
3005341 TAATTTTCAA
*
3005351 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
3005372 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
3005393 ACATTG
1 ACATTG
3005399 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:3008869 original size:18 final size:17
Alignment explanation
Indices: 3008830--3008872 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
3008820 ATTATATGGA
3008830 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
3008846 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
3008864 TATTATTAT
1 TATTATTAT
3008873 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:3009165 original size:24 final size:26
Alignment explanation
Indices: 3009125--3009194 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 26
3009115 TCTTATAACT
* *
3009125 TTATATATTTATATTATTTTTTATTA
1 TTATACATTTATTTTATTTTTTATTA
* * **
3009151 TT-TTCGTTT-TTTTATTCATTATTA
1 TTATACATTTATTTTATTTTTTATTA
3009175 TTATACATTTATTTTATTTT
1 TTATACATTTATTTTATTTT
3009195 ATTTTTAAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
24 14 0.44
25 9 0.28
26 9 0.28
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (26 bp):
TTATACATTTATTTTATTTTTTATTA
Found at i:3009393 original size:2 final size:2
Alignment explanation
Indices: 3009386--3009428 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
3009376 TAATACTTTG
3009386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3009427 AT
1 AT
3009429 TTTTTTTCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3011489 original size:18 final size:18
Alignment explanation
Indices: 3011466--3011505 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
3011456 TTCCTTCAAG
3011466 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
3011484 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
3011502 TCTG
1 TCTG
3011506 AAAGACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTGGATTCACATCCACT
Found at i:3012039 original size:8 final size:8
Alignment explanation
Indices: 3012026--3012065 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
3012016 GAACATTTCG
*
3012026 TGCATTCT
1 TGCATTTT
3012034 TGCA-TTT
1 TGCATTTT
3012041 TGCATTTT
1 TGCATTTT
*
3012049 TGCCTTTT
1 TGCATTTT
3012057 TGCATTTT
1 TGCATTTT
3012065 T
1 T
3012066 ATCTACATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.60
Consensus pattern (8 bp):
TGCATTTT
Found at i:3013259 original size:9 final size:9
Alignment explanation
Indices: 3013247--3013308 Score: 61
Period size: 9 Copynumber: 6.4 Consensus size: 9
3013237 ATAAAAAGGG
3013247 AAAAAAGAAA
1 AAAAAAG-AA
3013257 AAAAAAGCAAA
1 AAAAAAG--AA
*
3013268 AAATAAAGCA
1 AAA-AAAGAA
3013278 AAAAAAGAA
1 AAAAAAGAA
*
3013287 CAAAAAGAA
1 AAAAAAGAA
*
3013296 CAAAAAGAA
1 AAAAAAGAA
3013305 AAAA
1 AAAA
3013309 GAAAAAGGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 25 0.54
10 11 0.24
11 6 0.13
12 4 0.09
ACGTcount: A:0.82, C:0.06, G:0.10, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:3013269 original size:12 final size:12
Alignment explanation
Indices: 3013254--3013292 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
3013244 GGGAAAAAAG
3013254 AAAAAAAAAGCA
1 AAAAAAAAAGCA
*
3013266 AAAAATAAAGCA
1 AAAAAAAAAGCA
*
3013278 AAAAAAGAA-CA
1 AAAAAAAAAGCA
3013289 AAAA
1 AAAA
3013293 GAACAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAGCA
Found at i:3013281 original size:13 final size:11
Alignment explanation
Indices: 3013247--3013292 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
3013237 ATAAAAAGGG
3013247 AAAAAAG-AAA
1 AAAAAAGCAAA
3013257 AAAAAAGCAAA
1 AAAAAAGCAAA
3013268 AAATAAAGCAAA
1 AAA-AAAGCAAA
3013280 AAAAGAA-CAAA
1 AAAA-AAGCAAA
3013291 AA
1 AA
3013293 GAACAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.21
11 13 0.39
12 13 0.39
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.02
Consensus pattern (11 bp):
AAAAAAGCAAA
Found at i:3013306 original size:23 final size:23
Alignment explanation
Indices: 3013280--3013324 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3013270 ATAAAGCAAA
3013280 AAAAGAACAAAAA-GAACAAAAAG
1 AAAA-AACAAAAAGGAACAAAAAG
* *
3013303 AAAAAAGAAAAAGGGACAAAAA
1 AAAAAACAAAAAGGAACAAAAA
3013325 ACACATGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.78, C:0.07, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAACAAAAAGGAACAAAAAG
Found at i:3013323 original size:16 final size:17
Alignment explanation
Indices: 3013279--3013324 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
3013269 AATAAAGCAA
3013279 AAAAAGAACAAAAAGAAC
1 AAAAAG-ACAAAAAGAAC
3013297 AAAAAGA-AAAAAGAA-
1 AAAAAGACAAAAAGAAC
**
3013312 AAAGGGACAAAAA
1 AAAAAGACAAAAA
3013325 ACACATGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.20
16 13 0.52
17 1 0.04
18 6 0.24
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGACAAAAAGAAC
Found at i:3013941 original size:22 final size:22
Alignment explanation
Indices: 3013913--3013956 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3013903 AGCTACCCCA
3013913 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
3013935 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
3013957 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:3014895 original size:36 final size:35
Alignment explanation
Indices: 3014855--3015050 Score: 178
Period size: 36 Copynumber: 5.5 Consensus size: 35
3014845 ACTCATGATT
* * *
3014855 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTCTCTTAAAACAA-ATTTGTCTCTCTTGAGACA
* * * **
3014891 GTTT-TCACTAGAAGAGTTTTGTCTCTCTTGAGACA
1 GTTTCTC-TTAAAACAAATTTGTCTCTCTTGAGACA
* *
3014926 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* *
3014962 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAAATTT-GTCTCTCTTGAGACA
* * * *
3014998 GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* *
3015034 GTTTCCCTTGAAACAAA
1 GTTTCTCTTAAAACAAA
3015051 ATATTTGAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
35 29 0.21
36 104 0.76
37 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (35 bp):
GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
Found at i:3014950 original size:71 final size:73
Alignment explanation
Indices: 3014865--3015050 Score: 220
Period size: 72 Copynumber: 2.6 Consensus size: 73
3014855 GTTTTTCTTA
* * * * * *
3014865 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
3014927 TTTCCCTTG
65 TTTCCCTTG
* *
3014936 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
3015000 TTCCCTTG
66 TTCCCTTG
* * * *
3015008 AAATAAATTTTGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
3015051 ATATTTGAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
70 8 0.08
71 25 0.25
72 68 0.67
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:3015109 original size:65 final size:65
Alignment explanation
Indices: 3015025--3015168 Score: 288
Period size: 65 Copynumber: 2.2 Consensus size: 65
3015015 TTTTGTCTAT
3015025 CTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTATTTGAAACAAATTCCGTCTCC
1 CTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTATTTGAAACAAATTCCGTCTCC
3015090 CTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTATTTGAAACAAATTCCGTCTCC
1 CTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTATTTGAAACAAATTCCGTCTCC
3015155 CTTGAGACAGTTTC
1 CTTGAGACAGTTTC
3015169 TTTTGGAACT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (65 bp):
CTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTATTTGAAACAAATTCCGTCTCC
Found at i:3015238 original size:36 final size:36
Alignment explanation
Indices: 3015135--3015252 Score: 148
Period size: 36 Copynumber: 3.2 Consensus size: 36
3015125 TATGTTTTAT
* * * *
3015135 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAATTTTCGTCTCTCTTGAGACAGTTTCTC
*
3015171 TTGGAACTAAGTTTT-GTCTCTCTTGAGACAGTTTCTC
1 TTGAAAC-AA-TTTTCGTCTCTCTTGAGACAGTTTCTC
* *
3015208 TTGAAACAATTTTCGTCTATCTTGAGACAGTTTCCC
1 TTGAAACAATTTTCGTCTCTCTTGAGACAGTTTCTC
3015244 TTGAAACAA
1 TTGAAACAA
3015253 AATCTTTGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.06
36 37 0.52
37 28 0.39
38 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
TTGAAACAATTTTCGTCTCTCTTGAGACAGTTTCTC
Found at i:3015282 original size:203 final size:202
Alignment explanation
Indices: 3014933--3015303 Score: 537
Period size: 203 Copynumber: 1.8 Consensus size: 202
3014923 ACAGTTTCCC
** *
3014933 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
3014998 GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
66 GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * ** *
3015063 GTTTTATTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
131 ATTTCACCTAAAACAAATTCCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
3015128 GTTTTAT
196 GTTTTAT
* * * * *
3015135 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCTTGAGAC
* * *
3015200 AGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAAT
65 AGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAAT
* * **
3015264 TTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGT
129 ATATTTCACCTAAAACAAATTCCGTCTCCCTTGAGACAGT
3015304 AACTCTTGAA
Statistics
Matches: 147, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
202 44 0.30
203 103 0.70
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (202 bp):
TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
ATTTCACCTAAAACAAATTCCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
GTTTTAT
Found at i:3015315 original size:65 final size:67
Alignment explanation
Indices: 3015211--3015368 Score: 187
Period size: 67 Copynumber: 2.4 Consensus size: 67
3015201 GTTTCTCTTG
** ** **
3015211 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAGTAACCCTTGAAACACAAAATCTTCAAATTTATTTCCC
3015273 CTA
65 CTA
* *
3015276 AAACAAATTTTGTCTCCCTTGAGACAGTAACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTAACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
3015341 TA
66 TA
* *
3015343 AAACATAAATTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
3015369 CGTTTCTCAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 24 0.30
66 8 0.10
67 29 0.37
68 18 0.23
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTAACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:3015345 original size:67 final size:65
Alignment explanation
Indices: 3015202--3015368 Score: 183
Period size: 65 Copynumber: 2.5 Consensus size: 65
3015192 CTTGAGACAG
* * ** ** **
3015202 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAGTAACCCTTGAAACAAAATCTTCAAATTT
3015266 A
65 A
* *
3015267 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTAACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTAACCCTTG-AA-ACAAAATCTTCAAATT
3015332 TA
64 TA
* *
3015334 TTTCCCTTAAAACATAAATTTGTTTCCCTTGAGAC
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGAC
3015369 CGTTTCTCAT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
65 30 0.35
66 8 0.09
67 29 0.34
68 18 0.21
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTAACCCTTGAAACAAAATCTTCAAATTTA
Found at i:3016150 original size:105 final size:105
Alignment explanation
Indices: 3015989--3016438 Score: 712
Period size: 105 Copynumber: 4.3 Consensus size: 105
3015979 GCCATCCGCG
* * * *
3015989 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
3016054 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
3016097 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3016162 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
3016202 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
3016267 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
3016307 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
3016372 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
3016407 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
3016439 TGAACAATGC
Statistics
Matches: 325, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
100 37 0.11
101 2 0.01
102 1 0.00
103 2 0.01
104 2 0.01
105 256 0.79
106 3 0.01
108 22 0.07
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:3017256 original size:19 final size:19
Alignment explanation
Indices: 3017232--3017270 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3017222 TAAAGATAGG
3017232 ATCCACAAGCACTATAAAT
1 ATCCACAAGCACTATAAAT
3017251 ATCCACAAGCACTATAAAT
1 ATCCACAAGCACTATAAAT
3017270 A
1 A
3017271 GCCATTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.05, T:0.21
Consensus pattern (19 bp):
ATCCACAAGCACTATAAAT
Found at i:3017635 original size:17 final size:18
Alignment explanation
Indices: 3017609--3017648 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3017599 ATTATATGGA
3017609 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
3017625 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
3017643 TATTAT
1 TATTAT
3017649 ATGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:3019252 original size:31 final size:30
Alignment explanation
Indices: 3019213--3019270 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
3019203 CGAACTAAAA
3019213 ATTATGAAACTC-AGCTCGAACTCGAAATAT
1 ATTATGAAACTCGA-CTCGAACTCGAAATAT
3019243 ATTATTGAAACTCGACTCGAACTCGAAA
1 ATTA-TGAAACTCGACTCGAACTCGAAA
3019271 AGGTTCGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 4 0.15
31 21 0.81
32 1 0.04
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (30 bp):
ATTATGAAACTCGACTCGAACTCGAAATAT
Found at i:3019357 original size:23 final size:23
Alignment explanation
Indices: 3019324--3019369 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3019314 AGAGTCGAGT
* *
3019324 TCGATTGAAGCTCGATTTTGAAC
1 TCGATTCAAGCTCGAATTTGAAC
3019347 TCGATTCAAGCTCGAATTTGAAC
1 TCGATTCAAGCTCGAATTTGAAC
3019370 CTACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (23 bp):
TCGATTCAAGCTCGAATTTGAAC
Found at i:3022452 original size:2 final size:2
Alignment explanation
Indices: 3022445--3022471 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3022435 ATTTTATCGT
3022445 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3022472 TAATGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3022853 original size:16 final size:18
Alignment explanation
Indices: 3022828--3022860 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3022818 TCCTGCTTCA
3022828 TTCAATTTGTG-CTTGTT
1 TTCAATTTGTGTCTTGTT
3022845 TTCAA-TTGTGTCTTGT
1 TTCAATTTGTGTCTTGT
3022861 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (18 bp):
TTCAATTTGTGTCTTGTT
Found at i:3023994 original size:11 final size:11
Alignment explanation
Indices: 3023980--3024042 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
3023970 GTATTAAAGA
3023980 ATTTTTAATAT
1 ATTTTTAATAT
3023991 ATTTTTAA-A-
1 ATTTTTAATAT
3024000 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
3024011 ATCAATAATGT
1 ATTTTTAATAT
3024022 ATTTTTAATAT
1 ATTTTTAATAT
3024033 ATTTTTAATA
1 ATTTTTAATA
3024043 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:3025179 original size:14 final size:16
Alignment explanation
Indices: 3025160--3025191 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3025150 CTCTTCACGA
3025160 TCTCTTTT-TTT-CTT
1 TCTCTTTTCTTTACTT
3025174 TCTCTTTTCTTTACTT
1 TCTCTTTTCTTTACTT
3025190 TC
1 TC
3025192 ATAACTTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTCTTTTCTTTACTT
Found at i:3027105 original size:120 final size:120
Alignment explanation
Indices: 3026975--3027214 Score: 480
Period size: 120 Copynumber: 2.0 Consensus size: 120
3026965 TAAATATATA
3026975 TATATAATGTATTATTCATAAAAAAATAAATAATGAATTATCATCTAATTAAAATTATTGAATAA
1 TATATAATGTATTATTCATAAAAAAATAAATAATGAATTATCATCTAATTAAAATTATTGAATAA
3027040 ATATAGGTTACAATCTACTTACACAATATAAAATATTTTAGTTTTACATAGATGT
66 ATATAGGTTACAATCTACTTACACAATATAAAATATTTTAGTTTTACATAGATGT
3027095 TATATAATGTATTATTCATAAAAAAATAAATAATGAATTATCATCTAATTAAAATTATTGAATAA
1 TATATAATGTATTATTCATAAAAAAATAAATAATGAATTATCATCTAATTAAAATTATTGAATAA
3027160 ATATAGGTTACAATCTACTTACACAATATAAAATATTTTAGTTTTACATAGATGT
66 ATATAGGTTACAATCTACTTACACAATATAAAATATTTTAGTTTTACATAGATGT
3027215 AAGATCGTTA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (120 bp):
TATATAATGTATTATTCATAAAAAAATAAATAATGAATTATCATCTAATTAAAATTATTGAATAA
ATATAGGTTACAATCTACTTACACAATATAAAATATTTTAGTTTTACATAGATGT
Found at i:3029811 original size:20 final size:21
Alignment explanation
Indices: 3029783--3029827 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
3029773 AAAAAATAAT
3029783 AAATGAATA-AGAATAATAAAA
1 AAATGAATATA-AATAATAAAA
*
3029804 AAAT-AATATAAATTATAAAA
1 AAATGAATATAAATAATAAAA
3029824 AAAT
1 AAAT
3029828 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATGAATATAAATAATAAAA
Found at i:3029836 original size:20 final size:20
Alignment explanation
Indices: 3029798--3029836 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3029788 AATAAGAATA
*
3029798 ATAAAAAAATAATATAAATT
1 ATAAAAAAATAATACAAATT
3029818 ATAAAAAAATTAA-ACAAAT
1 ATAAAAAAA-TAATACAAAT
3029837 ATATTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAAAAATAATACAAATT
Found at i:3029940 original size:2 final size:2
Alignment explanation
Indices: 3029935--3029960 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3029925 ACTAAAGTTA
3029935 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3029961 GAACGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3029997 original size:17 final size:17
Alignment explanation
Indices: 3029966--3030010 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
3029956 TATATGAACG
3029966 AAAAAAT-AT-AAAAAT
1 AAAAAATAATAAAAAAT
* *
3029981 AAATAGTAATAAAAAAT
1 AAAAAATAATAAAAAAT
3029998 AAAAAATAATAAA
1 AAAAAATAATAAA
3030011 TATATGTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 5 0.21
16 2 0.08
17 17 0.71
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAATAATAAAAAAT
Found at i:3030523 original size:12 final size:12
Alignment explanation
Indices: 3030506--3030535 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3030496 GTGGCATCTT
3030506 CACCGCGCCGAC
1 CACCGCGCCGAC
*
3030518 CACCGCGCCGGC
1 CACCGCGCCGAC
3030530 CACCGC
1 CACCGC
3030536 CAGCGGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.60, G:0.27, T:0.00
Consensus pattern (12 bp):
CACCGCGCCGAC
Found at i:3031267 original size:22 final size:22
Alignment explanation
Indices: 3031226--3031266 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3031216 CCTATAACAA
3031226 AATAAAAATGAAAAATAAAATT
1 AATAAAAATGAAAAATAAAATT
*
3031248 AATAATAAT-AAAAATAAAA
1 AATAAAAATGAAAAATAAAA
3031267 AAAAAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (22 bp):
AATAAAAATGAAAAATAAAATT
Found at i:3031335 original size:26 final size:26
Alignment explanation
Indices: 3031292--3031342 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
3031282 AACAATAATA
3031292 TATATATATAAATATTTTCCAAAAGTC
1 TATATATATAAATATTTT-CAAAAGTC
*
3031319 TATATA-ATATATATTTTCAAAAGT
1 TATATATATAAATATTTTCAAAAGT
3031343 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 10 0.43
27 6 0.26
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (26 bp):
TATATATATAAATATTTTCAAAAGTC
Found at i:3031359 original size:36 final size:33
Alignment explanation
Indices: 3031319--3031572 Score: 132
Period size: 39 Copynumber: 7.4 Consensus size: 33
3031309 TCCAAAAGTC
*
3031319 TATATAATATATATTTTCAAAAGTATTTTTAAAT
1 TATATAATATATATTTTCAAAA-TATTTTTAAAA
* *
3031353 TATAT-ATGATATATTTT-AAAAAATGTTTTCAAA
1 TATATAAT-ATATATTTTCAAAATAT-TTTTAAAA
*
3031386 -AT-T-ATATA-GTTTTCAAAAATATTTTTAAAA
1 TATATAATATATATTTTC-AAAATATTTTTAAAA
* *
3031416 CTATATACTATATAATTTTTCAAAATGA-TTTCAAAA
1 -TATATAATATAT-A-TTTTCAAAAT-ATTTTTAAAA
*
3031452 TTATATAATATATATATGTTTTCAAAATATTTTTTTAAA
1 -TATAT-A-ATATATA--TTTTCAAAATA-TTTTTAAAA
* * * *
3031491 -A-CT-ATATATATTTACAAAATGTTTTAAAAA
1 TATATAATATATATTTTCAAAATATTTTTAAAA
*
3031521 CTATATAATATATAAATGTTTTCAAACATATTTTCAAAA
1 -TATATAATATAT--A--TTTTCAAA-ATATTTTTAAAA
*
3031560 CTATATATTATAT
1 -TATATAATATAT
3031573 GTGTGTGTTT
Statistics
Matches: 170, Mismatches: 24, Indels: 47
0.71 0.10 0.20
Matches are distributed among these distances:
29 4 0.02
30 17 0.10
31 18 0.11
32 7 0.04
33 21 0.12
34 24 0.14
36 19 0.11
37 10 0.06
38 22 0.13
39 28 0.16
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (33 bp):
TATATAATATATATTTTCAAAATATTTTTAAAA
Found at i:3031404 original size:29 final size:28
Alignment explanation
Indices: 3031361--3031422 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
3031351 ATTATATATG
* *
3031361 ATATATTTTAAAAAATGTTTTCAAAATT
1 ATATATTTTAAAAAATATTTTCAAAACT
* *
3031389 ATATAGTTTTCAAAAATATTTTTAAAACT
1 ATATA-TTTTAAAAAATATTTTCAAAACT
3031418 ATATA
1 ATATA
3031423 CTATATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (28 bp):
ATATATTTTAAAAAATATTTTCAAAACT
Found at i:3031451 original size:65 final size:62
Alignment explanation
Indices: 3031326--3031458 Score: 178
Period size: 65 Copynumber: 2.1 Consensus size: 62
3031316 GTCTATATAA
* * *
3031326 TATATATTTTCAAAAGTATTTTTAAATTATATATGATATATTTTAAAAAATGTTTTCAAAAT
1 TATATATTTTCAAAAATATTTTTAAACTATATATGATATATTTTAAAAAATGATTTCAAAAT
**
3031388 TATATAGTTTTCAAAAATATTTTTAAAACTATATACT-ATATAATTTTTCAAAATGATTTCAAAA
1 TATATA-TTTTCAAAAATATTTTT-AAACTATATA-TGATAT-ATTTTAAAAAATGATTTCAAAA
3031452 T
62 T
3031453 TATATA
1 TATATA
3031459 ATATATATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
62 6 0.10
63 16 0.26
64 13 0.21
65 27 0.44
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (62 bp):
TATATATTTTCAAAAATATTTTTAAACTATATATGATATATTTTAAAAAATGATTTCAAAAT
Found at i:3031475 original size:38 final size:37
Alignment explanation
Indices: 3031388--3031572 Score: 138
Period size: 38 Copynumber: 5.1 Consensus size: 37
3031378 TTTTCAAAAT
* *
3031388 TATATA-GTTTTCAAAAATATTTTTAAAACTATATACTA
1 TATATATGTTTTC-AAAATA-TTTCAAAACTATATAATA
*
3031426 TATA-AT-TTTTCAAAATGATTTCAAAATTATATAATA
1 TATATATGTTTTCAAAAT-ATTTCAAAACTATATAATA
* *
3031462 TATATATGTTTTCAAAATATTT------T-TTTAAAA
1 TATATATGTTTTCAAAATATTTCAAAACTATATAATA
* * * *
3031492 CTATATATATTTACAAAATGTTTTAAAAACTATATAATA
1 -TATATATGTTTTCAAAAT-ATTTCAAAACTATATAATA
* *
3031531 TATAAATGTTTTCAAACATATTTTCAAAACTATATATTA
1 TATATATGTTTTCAAA-ATA-TTTCAAAACTATATAATA
3031570 TAT
1 TAT
3031573 GTGTGTGTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
30 5 0.04
31 17 0.15
32 3 0.03
36 24 0.21
37 13 0.11
38 28 0.24
39 26 0.22
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (37 bp):
TATATATGTTTTCAAAATATTTCAAAACTATATAATA
Done.