Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 304 of 345
Found at i:102990845 original size:44 final size:44
Alignment explanation
Indices: 102990792--102990883 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
102990782 CTGAAGTAAT
* * *
102990792 AGTAGCAGTACAACACACGTGGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTC-AAGGTCGA
* **
102990836 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGA
102990880 AGTA
1 AGTA
102990884 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:102995076 original size:10 final size:9
Alignment explanation
Indices: 102995053--102995077 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
102995043 AATACGAGCC
102995053 TAAAAACAT
1 TAAAAACAT
102995062 TAAAAACAT
1 TAAAAACAT
102995071 TAAAAAC
1 TAAAAAC
102995078 GGGTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (9 bp):
TAAAAACAT
Found at i:102997527 original size:23 final size:25
Alignment explanation
Indices: 102997501--102997547 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
102997491 TATCATTCAT
*
102997501 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
102997524 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
102997548 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:102997864 original size:46 final size:46
Alignment explanation
Indices: 102997804--102998153 Score: 437
Period size: 46 Copynumber: 8.0 Consensus size: 46
102997794 TTTGACGTGA
* * * ** * *
102997804 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
102997850 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
102997896 TGCCATGGTATCTTTCAACGATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
102997942 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
102997988 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
102998026 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
102998072 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
102998110 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
102998154 AGAGCACACT
Statistics
Matches: 273, Mismatches: 14, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
38 65 0.24
39 3 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 7 0.03
46 182 0.67
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:102997920 original size:92 final size:85
Alignment explanation
Indices: 102997848--102998153 Score: 472
Period size: 84 Copynumber: 3.5 Consensus size: 85
102997838 TTTCTGTCAT
** * * *
102997848 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAAGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
*
102997913 ACGATGGTCTTACACATCTCATATCAG
66 ACCATGGTCTT--ACA---C--ATCAG
102997940 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
102998005 ACCATGGTCTTACACAT-AG
66 ACCATGGTCTTACACATCAG
*
102998024 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCTATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
102998089 ACCATGGTCTTACACA-CAG
66 ACCATGGTCTTACACATCAG
102998108 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
102998154 AGAGCACACT
Statistics
Matches: 205, Mismatches: 8, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
84 129 0.63
85 2 0.01
87 1 0.00
90 3 0.01
92 70 0.34
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (85 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATCAG
Found at i:102998035 original size:38 final size:38
Alignment explanation
Indices: 102997984--102998143 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
102997974 ATTTCATATC
102997984 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
102998022 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCTAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA----C-AT
*
102998067 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 -AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
102998106 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
102998144 TTCATATCAG
Statistics
Matches: 112, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 1 0.01
40 4 0.04
44 4 0.04
45 2 0.02
46 32 0.29
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:102998254 original size:54 final size:54
Alignment explanation
Indices: 102998187--102998322 Score: 254
Period size: 54 Copynumber: 2.5 Consensus size: 54
102998177 TCCTTACAGT
* *
102998187 GGGATTACTAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTTTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
102998241 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
102998295 GGGATTACCAGTCCAGGCTAAATCCCCT
1 GGGATTACCAGTCCAGGCTAAATCCCCT
102998323 ACAACGACAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
Found at i:103008077 original size:32 final size:32
Alignment explanation
Indices: 103008036--103008101 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
103008026 ATGGACATGT
103008036 TTTAATTATTTTTATAAGTTATATAGTAAAGG
1 TTTAATTATTTTTATAAGTTATATAGTAAAGG
103008068 TTTAATTATTTTTATAAGTTATATAGTAAAGG
1 TTTAATTATTTTTATAAGTTATATAGTAAAGG
103008100 TT
1 TT
103008102 AAAAGTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TTTAATTATTTTTATAAGTTATATAGTAAAGG
Found at i:103009030 original size:10 final size:10
Alignment explanation
Indices: 103009015--103009043 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
103009005 GAAATGTTTG
103009015 ATGATATAAT
1 ATGATATAAT
103009025 ATGATATAAT
1 ATGATATAAT
103009035 A-GATATAAT
1 ATGATATAAT
103009044 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:103012472 original size:17 final size:18
Alignment explanation
Indices: 103012446--103012479 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
103012436 TAATTTTACA
103012446 TAAATATGAATTATAGAT
1 TAAATATGAATTATAGAT
*
103012464 TAAAT-TGAATTTTAGA
1 TAAATATGAATTATAGA
103012480 AGTACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TAAATATGAATTATAGAT
Found at i:103013088 original size:30 final size:30
Alignment explanation
Indices: 103013054--103013115 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
103013044 ACTTCATGAA
103013054 AAGTTTGGTGCATATGTAATGTATCTTATG
1 AAGTTTGGTGCATATGTAATGTATCTTATG
103013084 AAGTTTGGTGCATATGTAATGTATCTTATG
1 AAGTTTGGTGCATATGTAATGTATCTTATG
103013114 AA
1 AA
103013116 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (30 bp):
AAGTTTGGTGCATATGTAATGTATCTTATG
Found at i:103013866 original size:42 final size:42
Alignment explanation
Indices: 103013819--103013898 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
103013809 CAAGTTAGAC
* * * * * *
103013819 TTACACGGCCTGGCACACGGGCGTGTGTGGCAACTCAAAGAG
1 TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAAAGAG
103013861 TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAA
1 TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAA
103013899 TGAGCTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (42 bp):
TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAAAGAG
Found at i:103017228 original size:39 final size:39
Alignment explanation
Indices: 103017185--103017262 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
103017175 TAATTCGTCT
103017185 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
1 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
103017224 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
1 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
103017263 CTTAGTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.18
Consensus pattern (39 bp):
AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
Found at i:103020075 original size:60 final size:59
Alignment explanation
Indices: 103020000--103020111 Score: 170
Period size: 60 Copynumber: 1.9 Consensus size: 59
103019990 TTGTTATTAA
* *
103020000 ATTTTAATAAGATTATTATTAAATATAATTTCATAAAATAATAATAAATAATTTAATCAT
1 ATTTTAATAAGATTATTATTAAATATAATATAATAAAAT-ATAATAAATAATTTAATCAT
* * *
103020060 ATTTTAATAATATTATTATTAAATATAATATAATATAATATAATAACTAATT
1 ATTTTAATAAGATTATTATTAAATATAATATAATAAAATATAATAAATAATT
103020112 ATTATTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 12 0.26
60 35 0.74
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.45
Consensus pattern (59 bp):
ATTTTAATAAGATTATTATTAAATATAATATAATAAAATATAATAAATAATTTAATCAT
Found at i:103021486 original size:84 final size:83
Alignment explanation
Indices: 103021398--103021970 Score: 316
Period size: 84 Copynumber: 6.8 Consensus size: 83
103021388 TACGTCTTTG
* * * * *
103021398 TTTGGAAACAAAACAATATCGAATAAAATCTTTTTAAACAACGGGAATAAATCCTAAAATAGATT
1 TTTGGAAACAAAACAA-ATCAAATAAAATCTTGTTAAACAGCAGGAATAAATCCTGAAATAGATT
103021463 TTATTTAATTTAATTCTAA
65 TTATTTAATTTAATTCTAA
* * * *
103021482 TTTGGAAACAAAATAAAATCAAATAAAATATTGTTAAACGGCAGGAATAAATCTTGAAATAGATT
1 TTTGGAAACAAAA-CAAATCAAATAAAATCTTGTTAAACAGCAGGAATAAATCCTGAAATAGATT
*
103021547 TTATTTAATTTAACTCTAA
65 TTATTTAATTTAATTCTAA
* * * * * *
103021566 TTTGGAAATAAAATGAAATCAAATAAAATCTTGTTAAACAGTAGGAATAAATCCCGAAACAAATT
1 TTTGGAAACAAAA-CAAATCAAATAAAATCTTGTTAAACAGCAGGAATAAATCCTGAAATAGATT
* **
103021631 TAATTTAATTTAATTTCTCGT
65 TTATTTAATTTAA-TTCT-AA
* ** ** * * * * *
103021652 TTTTGACAACAAAATCAAAATGTAAT-AAATC-CATTGAACGGCAGAAATAAATCCCGAAACAGA
1 TTTGGA-AACAAAA-C-AAATCAAATAAAATCTTGTTAAACAGCAGGAATAAATCCTGAAATAGA
**
103021715 TTTTATTTTAATTTTAATACTCGTTTT
63 TTTTA-TTTAA-TTTAAT--TC--TAA
* * ** * * * * *
103021742 TTTGGAAATAAAATGAAAATTGGAATAAAATAC--ATTAAACGGCTGGAGTAAAT-CTCGAAACA
1 TTTGGAAACAAAA--CAAA-TCAAATAAAAT-CTTGTTAAACAGCAGGAATAAATCCT-GAAATA
**
103021804 GATTTTATTTAACTTTAATTTCCCA
61 GATTTTATTTAA-TTTAA-TTCTAA
* * ** * *
103021829 TTTGGAAATAAAATAAAAAATGAATAAAATC-TGTTAAACAGCGGGAATAAAT-CTAGAAATGGA
1 TTTGGAAACAAAACAAATCA--AATAAAATCTTGTTAAACAGCAGGAATAAATCCT-GAAATAGA
*
103021892 TTTTATTT-A-CT--TT-TAA
63 TTTTATTTAATTTAATTCTAA
** * * * *
103021908 TTTGGAAAC---A-AAATGGAATAAAATC-TGTTAAACGGCGGGAATAAATCCTGAAACAAATTT
1 TTTGGAAACAAAACAAATCAAATAAAATCTTGTTAAACAGCAGGAATAAATCCTGAAATAGATTT
103021968 TAT
66 TAT
103021971 ATAGTTTTAA
Statistics
Matches: 395, Mismatches: 73, Indels: 53
0.76 0.14 0.10
Matches are distributed among these distances:
73 40 0.10
74 2 0.01
75 3 0.01
76 1 0.00
79 9 0.02
80 2 0.01
83 1 0.00
84 139 0.35
85 10 0.03
86 74 0.19
87 31 0.08
88 12 0.03
89 13 0.03
90 22 0.06
91 35 0.09
92 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (83 bp):
TTTGGAAACAAAACAAATCAAATAAAATCTTGTTAAACAGCAGGAATAAATCCTGAAATAGATTT
TATTTAATTTAATTCTAA
Found at i:103021880 original size:86 final size:84
Alignment explanation
Indices: 103021398--103021910 Score: 383
Period size: 84 Copynumber: 6.0 Consensus size: 84
103021388 TACGTCTTTG
* * * * * * * *
103021398 TTTGGAAACAAAACAATATCGAATAAAATCTTTTTAAACAACGGGAATAAATC-CTAAAATAGAT
1 TTTGGAAATAAAATAAAATCGAATAAAATC-TGTTAAACAGCAGGAATAAATCTC-GAAACAGAT
103021462 TTTATTTAATTTAA-TTCTAA
64 TTTATTTAATTTAATTTCTAA
* * * * * *
103021482 TTTGGAAACAAAATAAAATCAAATAAAATATTGTTAAACGGCAGGAATAAATCTTGAAATAGATT
1 TTTGGAAATAAAATAAAATCGAATAAAAT-CTGTTAAACAGCAGGAATAAATCTCGAAACAGATT
*
103021547 TTATTTAATTTAA-CTCTAA
65 TTATTTAATTTAATTTCTAA
* * * * *
103021566 TTTGGAAATAAAATGAAATCAAATAAAATCTTGTTAAACAGTAGGAATAAATCCCGAAACAAATT
1 TTTGGAAATAAAATAAAATCGAATAAAATC-TGTTAAACAGCAGGAATAAATCTCGAAACAGATT
* **
103021631 TAATTTAATTTAATTTCTCGT
65 TTATTTAATTTAATTTCT-AA
* * ** * * * *
103021652 TTTTGACAACAAAATCAAAAT-GTAAT-AAATCCATTGAACGGCAGAAATAAATCCCGAAACAGA
1 TTTGGA-AATAAAAT-AAAATCG-AATAAAATCTGTTAAACAGCAGGAATAAATCTCGAAACAGA
* **
103021715 TTTTATTTTAATTTTAATACTCGTTTT
63 TTTTA-TTTAA-TTTAAT-TTC--TAA
* * * * *
103021742 TTTGGAAATAAAATGAAAATTGGAATAAAATAC-ATTAAACGGCTGGAGTAAATCTCGAAACAGA
1 TTTGGAAATAAAAT-AAAA-TCGAATAAAAT-CTGTTAAACAGCAGGAATAAATCTCGAAACAGA
**
103021806 TTTTATTTAACTTTAATTTCCCA
63 TTTTATTTAA-TTTAATTTCTAA
* * **
103021829 TTTGGAAATAAAATAAAAAAT-GAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAATGGAT
1 TTTGGAAATAAAAT--AAAATCGAATAAAATCTGTTAAACAGCAGGAATAAATCTCGAAACAGAT
*
103021893 TTTATTTACTTTTAATTT
64 TTTATTTA-ATTTAATTT
103021911 GGAAACAAAA
Statistics
Matches: 349, Mismatches: 60, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
84 138 0.40
85 4 0.01
86 84 0.24
87 32 0.09
88 17 0.05
89 15 0.04
90 21 0.06
91 37 0.11
92 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (84 bp):
TTTGGAAATAAAATAAAATCGAATAAAATCTGTTAAACAGCAGGAATAAATCTCGAAACAGATTT
TATTTAATTTAATTTCTAA
Found at i:103021896 original size:177 final size:169
Alignment explanation
Indices: 103021441--103021908 Score: 437
Period size: 177 Copynumber: 2.7 Consensus size: 169
103021431 TTAAACAACG
** * * *
103021441 GGAATAAATCCTAAAATAGATTTTATTTAATTTAA-TTCTAATTTGGAAACAAAATAAAATCAAA
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCCAATTTGGAAACAAAATAAAAT-GAA
* *
103021505 TAAAATATTGTTAAACGGCAGGAATAAATCTTGAAATAGATTTTATTTAA-TTT-A-ACTCTAAT
65 TAAAAT-CTGTTAAACGGCAGGAATAAATCTAGAAATAGATTTTATTTAATTTTAATACTCTAAT
*
103021567 TTGGAAATAAAATGAAATCAAATAAAATCTTGTTAAACAGTA
129 TTGGAAATAAAATGAAATCAAATAAAATC-TATTAAACAGTA
* * ** *
103021609 GGAATAAATCCCGAAACAAATTTAATTTAATTTAATTTCTCGTTTTTGACAACAAAATCAAAATG
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTC-CAATTTGGA-AACAAAAT-AAAATG
** * * ** *
103021674 TAAT-AAATCCATTGAACGGCAGAAATAAATCCCGAAACAGATTTTATTTTAATTTTAATACTCG
63 -AATAAAATCTGTTAAACGGCAGGAATAAATCTAGAAATAGATTTTA-TTTAATTTTAATACTC-
** ** *
103021738 TTTTTTTGGAAATAAAATGAAAATTGGAATAAAATAC-ATTAAACGGCT-
125 -TAATTTGGAAATAAAATG-AAA-TCAAATAAAAT-CTATTAAACAG-TA
* * * *
103021786 GGAGTAAATCTCGAAACAGATTTTATTTAACTTTAATTTCCCATTTGGAAATAAAATAAAAAATG
1 GGAATAAATCCCGAAACAGATTTTATTTAA-TTTAATTTCCAATTTGGAAACAAAAT--AAAATG
* * * *
103021851 AATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAATGGATTTTATTTACTTTTAAT
63 AATAAAATCTGTTAAACGGCAGGAATAAATCTAGAAATAGATTTTATTTAATTTTAAT
103021909 TTGGAAACAA
Statistics
Matches: 238, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
168 30 0.13
169 3 0.01
170 35 0.15
171 17 0.07
172 11 0.05
173 1 0.00
174 4 0.02
176 37 0.16
177 80 0.34
178 19 0.08
179 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (169 bp):
GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCCAATTTGGAAACAAAATAAAATGAAT
AAAATCTGTTAAACGGCAGGAATAAATCTAGAAATAGATTTTATTTAATTTTAATACTCTAATTT
GGAAATAAAATGAAATCAAATAAAATCTATTAAACAGTA
Found at i:103021968 original size:73 final size:72
Alignment explanation
Indices: 103021845--103021981 Score: 195
Period size: 73 Copynumber: 1.9 Consensus size: 72
103021835 AATAAAATAA
*** *
103021845 AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAATGGATTTTATTTACTTTTAATT
1 AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAACAAATTTTATATACTTTTAATT
103021910 TGGAAAC
66 TGGAAAC
* *
103021917 AAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATCCT-GAAACAAATTTTATATAGTTTTAA
1 AAAAT-GAATAAAATCTGTTAAACAGCGGGAATAAAT-CTAGAAACAAATTTTATATACTTTTAA
103021981 T
64 T
103021982 ATTCGTTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
72 5 0.09
73 50 0.88
74 2 0.04
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (72 bp):
AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAACAAATTTTATATACTTTTAATT
TGGAAAC
Found at i:103032061 original size:25 final size:21
Alignment explanation
Indices: 103032029--103032085 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 21
103032019 GTAAAAATAG
103032029 TATA-TATATTATTTATCATATTA
1 TATATTATATTATTT-T-AT-TTA
103032052 TATTATTATA-TATTTTATTTA
1 TA-TATTATATTATTTTATTTA
*
103032073 TATATTTTATTAT
1 TATATTATATTAT
103032086 ATGTTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 6 0.20
21 8 0.27
22 2 0.07
23 3 0.10
24 7 0.23
25 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATTATATTATTTTATTTA
Found at i:103032061 original size:29 final size:28
Alignment explanation
Indices: 103032029--103032114 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 28
103032019 GTAAAAATAG
103032029 TATATATATTATTTATCATATTATATTAT
1 TATATATATTATTTAT-ATATTATATTAT
* *
103032058 TATATATTTTATTTATATATTTTATTA-
1 TATATATATTATTTATATATTATATTAT
*
103032085 TATGT-TATATATTT-TACTATATATATTAT
1 TATATATAT-TATTTATA-TAT-TATATTAT
103032114 T
1 T
103032115 CCTTACATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.08
27 12 0.25
28 16 0.33
29 16 0.33
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (28 bp):
TATATATATTATTTATATATTATATTAT
Found at i:103032062 original size:13 final size:13
Alignment explanation
Indices: 103032033--103032087 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
103032023 AAATAGTATA
103032033 TATATTA-TTTAT
1 TATATTATTTTAT
* *
103032045 CATATTATATTAT
1 TATATTATTTTAT
103032058 TATA-TATTTTAT
1 TATATTATTTTAT
103032070 T-TATATATTTTAT
1 TATAT-TATTTTAT
103032083 TATAT
1 TATAT
103032088 GTTATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 2 0.06
12 14 0.40
13 16 0.46
14 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATTATTTTAT
Found at i:103032073 original size:21 final size:21
Alignment explanation
Indices: 103032049--103032114 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
103032039 ATTTATCATA
*
103032049 TTATATTATTATATATTTTAT
1 TTATATTATTATATATATTAT
* *
103032070 TTATATATTTTATTATATGTTAT
1 TTATAT-TATTA-TATATATTAT
* * *
103032093 ATATTTTACTATATATATTAT
1 TTATATTATTATATATATTAT
103032114 T
1 T
103032115 CCTTACATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 15 0.43
22 7 0.20
23 13 0.37
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATATTATTATATATATTAT
Found at i:103032087 original size:25 final size:29
Alignment explanation
Indices: 103032029--103032085 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
103032019 GTAAAAATAG
103032029 TATATATATTATTTATCATATTATATTAT
1 TATATATATTATTTATCATATTATATTAT
* *
103032058 TATATATTTTATTTAT-ATATTTTATTAT
1 TATATATATTATTTATCATATTATATTAT
103032086 ATGTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATATATTATTTATCATATTATATTAT
Found at i:103032105 original size:12 final size:11
Alignment explanation
Indices: 103032029--103032111 Score: 53
Period size: 13 Copynumber: 6.9 Consensus size: 11
103032019 GTAAAAATAG
103032029 TATATATATTATT
1 TATATATA-T-TT
*
103032042 TATCATATTATAT
1 TAT-ATA-TATTT
103032055 TATTATATATTT
1 TA-TATATATTT
103032067 TATTTATATATTT
1 TA--TATATATTT
*
103032080 TAT-TATATGT
1 TATATATATTT
103032090 TATATAT-TTT
1 TATATATATTT
103032100 ACTATATATATT
1 --TATATATATT
103032112 ATTCCTTACA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
10 11 0.19
11 4 0.07
12 13 0.22
13 23 0.40
14 5 0.09
15 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (11 bp):
TATATATATTT
Found at i:103032108 original size:33 final size:33
Alignment explanation
Indices: 103032047--103032111 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
103032037 TTATTTATCA
*
103032047 TATTATATTATTATATATTTTATTTATATATTT
1 TATTATATTATTATATATTTTATATATATATTT
*
103032080 TATTATA-TGTTATATATTTTACTATATATATT
1 TATTATATTATTATATATTTTA-TATATATATT
103032112 ATTCCTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (33 bp):
TATTATATTATTATATATTTTATATATATATTT
Found at i:103036112 original size:8 final size:8
Alignment explanation
Indices: 103036093--103036146 Score: 65
Period size: 8 Copynumber: 6.9 Consensus size: 8
103036083 AAATTAACAA
*
103036093 AGAGAGAG
1 AGAGAAAG
*
103036101 AGAGAAAA
1 AGAGAAAG
103036109 AGAGAAAG
1 AGAGAAAG
103036117 AGAGAAAG
1 AGAGAAAG
**
103036125 AGAGAGTG
1 AGAGAAAG
103036133 AGAGAAAG
1 AGAGAAAG
103036141 AG-GAAA
1 AGAGAAA
103036147 TCTGGAAGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
7 4 0.10
8 35 0.90
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (8 bp):
AGAGAAAG
Found at i:103036135 original size:14 final size:14
Alignment explanation
Indices: 103036095--103036142 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
103036085 ATTAACAAAG
*
103036095 AGAGAGAGAGAAAA
1 AGAGAGAGAGAGAA
*
103036109 AGAGAAAGAGAGAA
1 AGAGAGAGAGAGAA
103036123 AGAGAGAGTGAGAGAA
1 AGAGAGA--GAGAGAA
103036139 AGAG
1 AGAG
103036143 GAAATCTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.62
16 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (14 bp):
AGAGAGAGAGAGAA
Found at i:103036140 original size:16 final size:16
Alignment explanation
Indices: 103036093--103036142 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
103036083 AAATTAACAA
*
103036093 AGAGAGAGAGAGAAAA
1 AGAGAGAGAGAGAAAG
*
103036109 AGAGAAAGAGAGAAAG
1 AGAGAGAGAGAGAAAG
*
103036125 AGAGAGTGAGAGAAAG
1 AGAGAGAGAGAGAAAG
103036141 AG
1 AG
103036143 GAAATCTGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (16 bp):
AGAGAGAGAGAGAAAG
Found at i:103041842 original size:30 final size:31
Alignment explanation
Indices: 103041770--103041842 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 31
103041760 CGGCCCGAAA
103041770 ATATATATATAT-TATGTTATAAAAAACATT
1 ATATATATATATATATGTTATAAAAAACATT
*
103041800 ATAT-TA-ACTATATATGTTA-AATAATA-ATT
1 ATATATATA-TATATATGTTATAA-AAAACATT
*
103041829 ATATATATTTATAT
1 ATATATATATATAT
103041843 TAAATCACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
28 1 0.03
29 14 0.39
30 21 0.58
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATATATATATATATGTTATAAAAAACATT
Found at i:103042025 original size:40 final size:40
Alignment explanation
Indices: 103041948--103042036 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
103041938 AATTTATATT
* *
103041948 TAATACAAGAAAATATTTATTATATTTTC-CTGTGTTTTTG
1 TAATATAAGAAAATATTTATTATATTTTCGGTGT-TTTTTG
* *
103041988 TAATATAATAAAATATTTATTATATTTAT-GGTAGTTTTTTT
1 TAATATAAGAAAATATTTATTATATTT-TCGGT-GTTTTTTG
103042029 TAATATAA
1 TAATATAA
103042037 ATATTTATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 25 0.60
41 15 0.36
42 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (40 bp):
TAATATAAGAAAATATTTATTATATTTTCGGTGTTTTTTG
Found at i:103052147 original size:40 final size:40
Alignment explanation
Indices: 103052036--103052252 Score: 237
Period size: 40 Copynumber: 5.5 Consensus size: 40
103052026 CGGATGATAA
* * *
103052036 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* * *
103052076 CCGGGCTAAG-CCCGAAGGCAATT-GTGTGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * * *
103052115 CCGGGCTAATTCCCGAAGGCAATCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
103052155 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
103052195 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
103052235 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
103052253 TACTTGGCTT
Statistics
Matches: 151, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 44 0.29
40 107 0.71
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:103052238 original size:80 final size:80
Alignment explanation
Indices: 103052036--103052252 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 80
103052026 CGGATGATAA
* * *
103052036 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCCGAAGGCAAT
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGGCAAT
* *
103052098 TGTGTGAGTTATTATAC
64 TGTGCGAGTTACTATAC
* * *
103052115 CCGGGCTAAT-TCCCGAAGGCAATCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-AT
1 CCGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCAAT
*
103052177 TGGTGCGAGTTACTATAT
64 T-GTGCGAGTTACTATAC
* * *
103052195 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
103052253 TACTTGGCTT
Statistics
Matches: 115, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
79 59 0.51
80 56 0.49
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCAATTG
TGCGAGTTACTATAC
Found at i:103052249 original size:119 final size:119
Alignment explanation
Indices: 103052036--103052252 Score: 280
Period size: 119 Copynumber: 1.8 Consensus size: 119
103052026 CGGATGATAA
* * *
103052036 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
* * *
103052101 GTGAGTTATTATACCCGGGCTAATTCCCGAAGGCAATCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCAATCGTGCGAGTTATTATGT
* *
103052155 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGCAATT
* *
103052218 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
103052253 TACTTGGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 62 0.74
120 20 0.24
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCAATCGTGCGAGTTATTATGT
Found at i:103059931 original size:6 final size:6
Alignment explanation
Indices: 103059920--103059971 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
103059910 GAAGATTACC
103059920 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
103059968 ATAT
1 ATAT
103059972 CGGGAATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:103060113 original size:22 final size:21
Alignment explanation
Indices: 103060088--103060144 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
103060078 CATTTATATC
*
103060088 TAATATCTTTTTTTACA-AATTT
1 TAATAT-TTTTTTTACATAA-GT
*
103060110 TAATCATTTTTTTTTCATAAGT
1 TAAT-ATTTTTTTTACATAAGT
103060132 TAATATTTTTTTT
1 TAATATTTTTTTT
103060145 TATTTTGTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 9 0.29
22 18 0.58
23 4 0.13
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TAATATTTTTTTTACATAAGT
Found at i:103065866 original size:82 final size:82
Alignment explanation
Indices: 103065727--103065881 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 82
103065717 TCATATTAGT
* * ** *
103065727 TGCTGATTGTTCATGCATTTAAGGATTCAATGGATGGCATTAAAGGGGAAACATGCATTTGGGAC
1 TGCTGATTGTTCATGCACTTAAAGATTCAATGGACCGCATTAAAGGAGAAACATGCA-TTGGGAC
103065792 GTTCATGCAAGAGGGAGC
65 GTTCATGCAAGAGGGAGC
* * *
103065810 TGCTGATTGTTCATGTACTTAAAGATTC-ATGGACCGCATTTATGGAGAAACATGCATTGGGACG
1 TGCTGATTGTTCATGCACTTAAAGATTCAATGGACCGCATTAAAGGAGAAACATGCATTGGGACG
*
103065874 TTCGTGCA
66 TTCATGCA
103065882 TGTGGAAGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 15 0.24
82 23 0.37
83 25 0.40
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
TGCTGATTGTTCATGCACTTAAAGATTCAATGGACCGCATTAAAGGAGAAACATGCATTGGGACG
TTCATGCAAGAGGGAGC
Found at i:103067297 original size:15 final size:15
Alignment explanation
Indices: 103067265--103067293 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
103067255 AATTTCTATG
103067265 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
103067280 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
103067294 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:103071826 original size:33 final size:33
Alignment explanation
Indices: 103071784--103071849 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
103071774 TTCTTATGTG
*
103071784 TGTGAGACTTTAGTATTTAGTAAGACTATGCCT
1 TGTGAGACTTTAGTATTCAGTAAGACTATGCCT
*
103071817 TGTGAGACTTTAGTATTCAGTAAGACTTTGCCT
1 TGTGAGACTTTAGTATTCAGTAAGACTATGCCT
103071850 GTTGTGTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (33 bp):
TGTGAGACTTTAGTATTCAGTAAGACTATGCCT
Found at i:103074319 original size:72 final size:72
Alignment explanation
Indices: 103074232--103074372 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
103074222 AATCCAAGTC
* * *
103074232 AGAATTGCACAAGGTTTGAGCACTTGCACTTGGGCGTGGCATATGGCCGTGTCCCTGTCGAGCCC
1 AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGGCCGTGTCCCTGTCGAGCCC
103074297 AAGTGTT
66 AAGTGTT
* * *
103074304 AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGGCGGTGTCCCTGTTGATCCC
1 AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGGCCGTGTCCCTGTCGAGCCC
103074369 AAGT
66 AAGT
103074373 CTAGTTTTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (72 bp):
AGAATTGCACAAGGTTTGAGCACTTGCACATGGGCGTGGCACACGGCCGTGTCCCTGTCGAGCCC
AAGTGTT
Found at i:103077809 original size:43 final size:43
Alignment explanation
Indices: 103077761--103077915 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
103077751 TGTGTCCTCG
* *
103077761 TGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTCGGCATCAATATTTGATTACA
* * * * * *
103077804 TGTAAGACCATGTTTGGGACATCGGTATC-GTATTTGATT-CG
1 TGTAAGACCACGTCTGGGACGTCGGCATCAATATTTGATTACA
*
103077845 TGTAAGACC-CTGTCTGGGACAG-CGGTATCAAT-TTTAGA-TAGCA
1 TGTAAGACCAC-GTCTGGGAC-GTCGGCATCAATATTT-GATTA-CA
*
103077888 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTCGGCAT
103077916 TATACGATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
41 29 0.33
42 12 0.13
43 47 0.53
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTCGGCATCAATATTTGATTACA
Found at i:103077863 original size:41 final size:42
Alignment explanation
Indices: 103077758--103077876 Score: 125
Period size: 41 Copynumber: 2.8 Consensus size: 42
103077748 ATATGTGTCC
* * *
103077758 TCGTGTAAGACCAC-GTCTGGGACGTTGGCATCAATATGTGAT
1 TCGTGTAAGACC-CTGTCTGGGACATCGGTATCAATATGTGAT
* * * * *
103077800 TACATGTAAGACCATGTTTGGGACATCGGTATC-GTATTTGAT
1 T-CGTGTAAGACCCTGTCTGGGACATCGGTATCAATATGTGAT
*
103077842 TCGTGTAAGACCCTGTCTGGGACAGCGGTATCAAT
1 TCGTGTAAGACCCTGTCTGGGACATCGGTATCAAT
103077877 TTTAGATAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 27 0.44
42 10 0.16
43 24 0.39
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCCTGTCTGGGACATCGGTATCAATATGTGAT
Found at i:103081666 original size:21 final size:20
Alignment explanation
Indices: 103081640--103081697 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
103081630 TTAAATAATC
103081640 ATAATAATTTAATATAAAACT
1 ATAATAATTTAATATAAAA-T
*
103081661 ATAATAA--TAATCATTATAAT
1 ATAATAATTTAAT-A-TAAAAT
103081681 ATATATAATTTAATATA
1 ATA-ATAATTTAATATA
103081698 TAAAACCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 17 0.55
22 1 0.03
23 4 0.13
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAATAATTTAATATAAAAT
Found at i:103085394 original size:27 final size:28
Alignment explanation
Indices: 103085357--103085496 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
103085347 AGCATGGCTG
* *
103085357 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
103085383 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
103085411 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
103085438 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
103085465 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
103085492 CCAGA
1 CCAGA
103085497 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:103087152 original size:26 final size:25
Alignment explanation
Indices: 103087116--103087199 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 25
103087106 CATGAAATTC
103087116 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAAC-CA
103087142 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
103087168 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACC-A
103087194 TTATCA
1 TTATCA
103087200 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
25 2 0.04
26 50 0.91
27 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:103087664 original size:16 final size:15
Alignment explanation
Indices: 103087645--103087691 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
103087635 AAAAGAGTGA
103087645 AAATGGAAAAGAAAAG
1 AAATGGAAAA-AAAAG
*
103087661 AAATTAGAAAAAAAAG
1 AAA-TGGAAAAAAAAG
*
103087677 AAA-GGAAAAACAAG
1 AAATGGAAAAAAAAG
103087691 A
1 A
103087692 GAAAAGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.37
16 11 0.41
17 6 0.22
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.06
Consensus pattern (15 bp):
AAATGGAAAAAAAAG
Found at i:103092456 original size:43 final size:42
Alignment explanation
Indices: 103092408--103092570 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 42
103092398 ATCAAGATGT
* *
103092408 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTG
* *
103092450 AGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTAATT-
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T-ATTG
* * * *
103092494 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TG
* * *
103092536 TGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCAT
103092571 TGTACGAGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 6 0.06
43 90 0.87
44 1 0.01
45 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTG
Found at i:103100077 original size:267 final size:267
Alignment explanation
Indices: 103099597--103100130 Score: 1005
Period size: 267 Copynumber: 2.0 Consensus size: 267
103099587 AAGGGAGTGT
103099597 GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
1 GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
* *
103099662 AGGAAAGAAAAGAGTGCATGATCTCGCGAATTACTTTTGAATAAAATTTTAAAATCATATTATAG
66 AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
* *
103099727 GACCATAGCATTTCATGATTCATTGATACATCGACTTTTATTCTTTATTAACTAATAATTTGGGA
131 GACCATAGCATTTCATGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
103099792 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
196 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
103099857 ATTTTGA
261 ATTTTGA
*
103099864 GTGCTACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
1 GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
103099929 AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
66 AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
*
103099994 GACCATAGCATTTCGTGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
131 GACCATAGCATTTCATGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
*
103100059 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATTTTGAATAAAAATTTCAAA
196 CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
103100124 ATTTTGA
261 ATTTTGA
103100131 CTAGATCCTC
Statistics
Matches: 260, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
267 260 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (267 bp):
GTGCGACTTGTTTATTTCAAGAATAGGCTGGATTCACCCAGTTGTACTTATATTTAATTATAACT
AGGAAAGAAAAGAGTGCATGATCCCGCGAATTACTTCTGAATAAAATTTTAAAATCATATTATAG
GACCATAGCATTTCATGATTCATTGATACATCGACTTTGATTCTTTATTAACCAATAATTTGGGA
CCATTAACATGGTTAAGGCCAAACCTGTTTGATTAGTTATAACTATATTGAATAAAAATTTCAAA
ATTTTGA
Found at i:103101306 original size:306 final size:303
Alignment explanation
Indices: 103100468--103101382 Score: 1511
Period size: 307 Copynumber: 3.0 Consensus size: 303
103100458 TGCCTACATG
* *
103100468 AAAAGATTTCTTATCTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
1 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
* *
103100533 TTGATAAAACTCCAATCAGTATACAATTCATCATAAAACAATTTTTCTGGTGTG-A-A-TTTTTT
66 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAATATTTTTTT
* * *
103100595 TTTGTATTATTTCCCCCAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTTTCC
131 TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTTTCC
103100660 ATCACTTTGACATGTAT-AAAAAAA-ATTGTGACATTTCATTTTTTATAGCATTTTCAACCCTGT
196 ATCACTTTGACATGTATAAAAAAAATATTGTGACATTTCA-TTTTTATAGCATTTTCAACCCTGT
* * *
103100723 C-TTTTTTATATATTGCAAAGGTCGATTCCATCGTCTAGAGTAA
260 CATTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
* *
103100766 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAATTCCTTACTAAAATTTATTCAGTTCA
1 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
*
103100831 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAATGTTTTTTT
66 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAA---TATTTT
103100896 TTTTTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTT
128 TTTTTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTT
*
103100961 TCCATCACTTTGACATGAATAAAAAAAATATTGTGACATTTCATTTCTTATAGCATTTTCAACCC
193 TCCATCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTT-TTATAGCATTTTCAACCC
*
103101026 TGTCATTTTTTATTTATCGCAAAGGTCGATTCCATCGTTTAGAATAA
257 TGTCATTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
103101073 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
1 AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
* *
103101138 TTGATAAAACTCCAATTATTATACAATTCATCATAAAACAATTTCTCTAGTGTGAATATTTTTTT
66 TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAATATTTTTTT
103101203 TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTTTCTTTT
131 TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATA--TTTTTTTCTTTT
*
103101268 CCATCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTTTTATAGCATTTTCAA-TCTG
194 CCATCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTTTTATAGCATTTTCAACCCT-
* * *
103101332 GTAATTTTTTTATATATCGCAAAGGCCTATTCCATCGTTTAGAATAA
258 GTCA-TTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
103101379 AAAA
1 AAAA
103101383 TAAGTGTCAC
Statistics
Matches: 577, Mismatches: 26, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
298 113 0.20
299 1 0.00
304 145 0.25
305 28 0.05
306 135 0.23
307 155 0.27
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (303 bp):
AAAAGATTCCTTATTTAAAGATTTGACTCTTTTTATAAACTCCTTACTAAAATTTCTTCAGTTCA
TTGATAAAACTCCAATCATTATACAATTCATCATAAAACAATTTCTCTGGTGTGAATATTTTTTT
TTTGTATCATTTTCCCAAAAGTTGCTAAACTAGGTGGATACGTAAAAGATATTTTTTTCTTTTCC
ATCACTTTGACATGTATAAAAAAAATATTGTGACATTTCATTTTTATAGCATTTTCAACCCTGTC
ATTTTTTATATATCGCAAAGGTCGATTCCATCGTTTAGAATAA
Found at i:103112725 original size:49 final size:49
Alignment explanation
Indices: 103112666--103112812 Score: 168
Period size: 51 Copynumber: 3.0 Consensus size: 49
103112656 GTAGACAAGG
* * * *
103112666 TTATCTGGTACGCATAGTAGCTTGCACATACTACTACACATGTGACCAA
1 TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * * **
103112715 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAA
1 TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA--CCAA
** *
103112766 TTATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
103112813 TCACAATAGA
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
49 38 0.48
51 41 0.52
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (49 bp):
TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:103112784 original size:51 final size:49
Alignment explanation
Indices: 103112666--103112805 Score: 163
Period size: 49 Copynumber: 2.8 Consensus size: 49
103112656 GTAGACAAGG
* * * * * *
103112666 TTATCTGGTACGCATAGTAGCTTGCACATACTACTACACATGTGACCAA
1 TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACAAA
* * *
103112715 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAA
1 TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA--CAAA
**
103112766 TTATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACA
103112806 TGCGACCTCA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 38 0.50
51 38 0.50
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (49 bp):
TTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACAAA
Found at i:103116392 original size:20 final size:20
Alignment explanation
Indices: 103116367--103116416 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
103116357 GCTTGTACGA
*
103116367 TTCGGTGCCCTTGTTTACAC
1 TTCGGTGCCCTTGTTCACAC
* *
103116387 TTCGGTGTCCTTGTTCGCAC
1 TTCGGTGCCCTTGTTCACAC
*
103116407 TACGGTGCCC
1 TTCGGTGCCC
103116417 CTGTATGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.32, G:0.24, T:0.36
Consensus pattern (20 bp):
TTCGGTGCCCTTGTTCACAC
Found at i:103117726 original size:29 final size:29
Alignment explanation
Indices: 103117683--103117741 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
103117673 TACAAGTCAG
103117683 GCTGTTACACAACCTAGAACATGACCTAA
1 GCTGTTACACAACCTAGAACATGACCTAA
*
103117712 GCTGTTACACGACCTAGAACATGACCTAA
1 GCTGTTACACAACCTAGAACATGACCTAA
103117741 G
1 G
103117742 ACAATGGCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (29 bp):
GCTGTTACACAACCTAGAACATGACCTAA
Found at i:103119680 original size:29 final size:29
Alignment explanation
Indices: 103119648--103119767 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 29
103119638 TCACTTAACT
*
103119648 AAGATAGCCACAAGGGTATCCTTTTAATA
1 AAGATAGCCACAAAGGTATCCTTTTAATA
* * * *
103119677 AAGACAGCCATAAAGGTGTCCTTTTAACA
1 AAGATAGCCACAAAGGTATCCTTTTAATA
* *
103119706 AAGATAGCTACAAAGG-CTCC-TTTAATA
1 AAGATAGCCACAAAGGTATCCTTTTAATA
* *
103119733 GAGATTAGCCACAAAGG-ATTTCTTTTAATA
1 AAGA-TAGCCACAAAGGTA-TCCTTTTAATA
*
103119763 GAGAT
1 AAGAT
103119768 CACTGTAAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
27 9 0.12
28 14 0.19
29 40 0.54
30 11 0.15
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGATAGCCACAAAGGTATCCTTTTAATA
Found at i:103119749 original size:57 final size:57
Alignment explanation
Indices: 103119642--103119826 Score: 153
Period size: 58 Copynumber: 3.2 Consensus size: 57
103119632 AGACATTCAC
* * * * * *
103119642 TTAACTAAGATAGCCACAAGGGTATCCTTTTAATAAAGA-CAGCCATAAAGG-TGTCCTT
1 TTAACAAAGATAGCTACAAAGG-CTCC-TTTAATAGAGATCAGCCACAAAGGAT-TCCTT
* *
103119700 TTAACAAAGATAGCTACAAAGGCTCCTTTAATAGAGATTAGCCACAAAGGATTTCTT
1 TTAACAAAGATAGCTACAAAGGCTCCTTTAATAGAGATCAGCCACAAAGGATTCCTT
* * ** *
103119757 TTAATAGAGATCA-CTGTAAAGGCTTCCTTATAATAGAGATCA-CCACAAAGGCTTCCGTT
1 TTAACAAAGAT-AGCTACAAAGGC-TCCTT-TAATAGAGATCAGCCACAAAGGATTCC-TT
*
103119816 TTAACATAGAT
1 TTAACAAAGAT
103119827 TGCCATAAAG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
56 10 0.10
57 34 0.33
58 38 0.37
59 22 0.21
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (57 bp):
TTAACAAAGATAGCTACAAAGGCTCCTTTAATAGAGATCAGCCACAAAGGATTCCTT
Found at i:103119806 original size:29 final size:28
Alignment explanation
Indices: 103119715--103119812 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 28
103119705 AAAGATAGCT
*
103119715 ACAAAGGC-TCCTTTAATAGAGATTAGCC
1 ACAAAGGCTTCCTTTAATAGAGATCA-CC
* * *
103119743 ACAAAGGATTTCTTTTAATAGAGATCACT
1 ACAAAGG-CTTCCTTTAATAGAGATCACC
**
103119772 GTAAAGGCTTCCTTATAATAGAGATCACC
1 ACAAAGGCTTCCTT-TAATAGAGATCACC
103119801 ACAAAGGCTTCC
1 ACAAAGGCTTCC
103119813 GTTTTAACAT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 12 0.21
29 29 0.52
30 15 0.27
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (28 bp):
ACAAAGGCTTCCTTTAATAGAGATCACC
Found at i:103119836 original size:59 final size:59
Alignment explanation
Indices: 103119666--103119845 Score: 165
Period size: 57 Copynumber: 3.1 Consensus size: 59
103119656 CACAAGGGTA
* * * *
103119666 TCCTTTTAATAAAGA-CAGCCATAAAGG-TGTCCTTTTAACAAAGATAGCTACAAAGGC-
1 TCCTTATAATAGAGATCAGCCACAAAGGAT-TCCTTTTAACAAAGATAGCTATAAAGGCT
* * * * *
103119723 TCCTT-TAATAGAGATTAGCCACAAAGGATTTCTTTTAATAGAGATCA-CTGTAAAGGCT
1 TCCTTATAATAGAGATCAGCCACAAAGGATTCCTTTTAACAAAGAT-AGCTATAAAGGCT
* * * *
103119781 TCCTTATAATAGAGATCA-CCACAAAGGCTTCCGTTTTAACATAGATTGCCATAAAGGCT
1 TCCTTATAATAGAGATCAGCCACAAAGGATTCC-TTTTAACAAAGATAGCTATAAAGGCT
*
103119840 TACTTA
1 TCCTTA
103119846 CAGAAACTAC
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
56 8 0.08
57 36 0.36
58 19 0.19
59 36 0.36
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (59 bp):
TCCTTATAATAGAGATCAGCCACAAAGGATTCCTTTTAACAAAGATAGCTATAAAGGCT
Found at i:103123448 original size:43 final size:43
Alignment explanation
Indices: 103123381--103123490 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
103123371 GCATTATAGG
* * * *
103123381 ATGCTAGGCTCAAAGGCCCAAATACACATCACCGGCACGAAGC
1 ATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
*
103123424 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
1 ATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
103123467 ATGCTAGGCACGAAGGCCCGAATA
1 ATGCTAGGCACGAAGGCCCGAATA
103123491 TAATTCCAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.34, C:0.32, G:0.24, T:0.11
Consensus pattern (43 bp):
ATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
Found at i:103124257 original size:18 final size:18
Alignment explanation
Indices: 103124234--103124269 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
103124224 ATTAGCCCAT
103124234 AGTCTTATAGCACTACAC
1 AGTCTTATAGCACTACAC
103124252 AGTCTTATAGCACTACAC
1 AGTCTTATAGCACTACAC
103124270 TTTTAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (18 bp):
AGTCTTATAGCACTACAC
Found at i:103129350 original size:22 final size:21
Alignment explanation
Indices: 103129320--103129366 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
103129310 TACAAATTAA
103129320 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
103129342 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
103129363 ATCT
1 ATCT
103129367 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:103129360 original size:16 final size:16
Alignment explanation
Indices: 103129339--103129389 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
103129329 ATTACAAGAT
103129339 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
103129355 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
103129374 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
103129390 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:103129372 original size:19 final size:21
Alignment explanation
Indices: 103129337--103129379 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
103129327 AGATTACAAG
103129337 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
103129358 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
103129377 ATC
1 ATC
103129380 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:103132616 original size:46 final size:46
Alignment explanation
Indices: 103132566--103132658 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
103132556 ATCTTAATTA
* * * *
103132566 GAAAATTTGTTTTCAATAAATTACATTAAATTAATTCCCAGGAAAG
1 GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAAGAAAG
103132612 GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAAGAAAG
1 GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAAGAAAG
103132658 G
1 G
103132659 TTGGAGGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (46 bp):
GAAAATTTCTTCTCAAAAAATTACATTAAATTAATTCCCAAGAAAG
Found at i:103148885 original size:23 final size:23
Alignment explanation
Indices: 103148842--103148886 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
103148832 GATCTGCTAA
**
103148842 GCCTTTGTGGCATTTTATGTTTG
1 GCCTTTGTGGCAAATTATGTTTG
*
103148865 GCCTTTGTGGCAAATTCTGTTT
1 GCCTTTGTGGCAAATTATGTTT
103148887 CATCTCATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (23 bp):
GCCTTTGTGGCAAATTATGTTTG
Found at i:103159951 original size:20 final size:20
Alignment explanation
Indices: 103159926--103159971 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
103159916 ATTGGGCCTT
103159926 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
103159946 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
103159965 GCCCATA
1 GCCCATA
103159972 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:103159980 original size:19 final size:20
Alignment explanation
Indices: 103159938--103159981 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
103159928 CCATATTAAC
** *
103159938 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
103159958 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
103159977 ACAGT
1 ACAGT
103159982 CTTATACGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:103162462 original size:19 final size:19
Alignment explanation
Indices: 103162438--103162476 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
103162428 TCTAGGATGC
*
103162438 ACATATAATTGGAGCCAAT
1 ACATATAATTAGAGCCAAT
103162457 ACATATAATTAGAGCCAAT
1 ACATATAATTAGAGCCAAT
103162476 A
1 A
103162477 TAAGAGAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
ACATATAATTAGAGCCAAT
Found at i:103166873 original size:30 final size:30
Alignment explanation
Indices: 103166817--103166873 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
103166807 GGTGGCATGA
**
103166817 GTGTGACCGTGTGGGCCACATGGGCTAGCC
1 GTGTGACCGTGTGGGCCACACAGGCTAGCC
103166847 GTGTGACCGTGTGGGCCACACAGGCTA
1 GTGTGACCGTGTGGGCCACACAGGCTA
103166874 ACCACACGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.39, T:0.19
Consensus pattern (30 bp):
GTGTGACCGTGTGGGCCACACAGGCTAGCC
Found at i:103169197 original size:24 final size:23
Alignment explanation
Indices: 103169135--103169294 Score: 82
Period size: 22 Copynumber: 6.9 Consensus size: 23
103169125 GACTCACCAC
* *
103169135 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCATATGAGCTTACTG-T-T-TT
* *
103169161 AGCCCATAAGAGCTTACTGTTTT
1 AGCTCATATGAGCTTACTGTTTT
103169184 CAGCTCAT-TGGAGCTTACTGTTTT
1 -AGCTCATAT-GAGCTTACTGTTTT
** *
103169208 AGCTGGTATGAGCTTACTG-TTC
1 AGCTCATATGAGCTTACTGTTTT
* *
103169230 AGCTGA-ATAGATCTTACTG-TTT
1 AGCTCATAT-GAGCTTACTGTTTT
* * * *
103169252 AGCTTGATA-GAGTTTACCG-TTC
1 AGC-TCATATGAGCTTACTGTTTT
103169274 AGCTCAT-TAGAGCTTACTGTT
1 AGCTCATAT-GAGCTTACTGTT
103169295 CATCAGCTCA
Statistics
Matches: 106, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
21 5 0.05
22 41 0.39
23 20 0.19
24 23 0.22
25 1 0.01
26 16 0.15
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (23 bp):
AGCTCATATGAGCTTACTGTTTT
Found at i:103169220 original size:23 final size:24
Alignment explanation
Indices: 103169170--103169228 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
103169160 CAGCCCATAA
103169170 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACTGTTTTCAGCTCATTG
**
103169194 GAGCTTACTGTTTT-AGCTGGTAT-
1 GAGCTTACTGTTTTCAGCTCAT-TG
103169217 GAGCTTACTGTT
1 GAGCTTACTGTT
103169229 CAGCTGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.42
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCATTG
Found at i:103169274 original size:44 final size:44
Alignment explanation
Indices: 103169182--103169294 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
103169172 GCTTACTGTT
* * * *
103169182 TTCAGCTCATTGGAGCTTACTGTTTTAGCTGGTATGAGCTTACTG
1 TTCAGCTCAATAGAGCTTACTG-TTTAGCTGATATGAGCTTACCG
* * *
103169227 TTCAGCTGAATAGATCTTACTGTTTAGCTTGATA-GAGTTTACCG
1 TTCAGCTCAATAGAGCTTACTGTTTAGC-TGATATGAGCTTACCG
*
103169271 TTCAGCTCATTAGAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACTGTT
103169295 CATCAGCTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.61
45 22 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (44 bp):
TTCAGCTCAATAGAGCTTACTGTTTAGCTGATATGAGCTTACCG
Found at i:103173453 original size:43 final size:42
Alignment explanation
Indices: 103173351--103173501 Score: 196
Period size: 43 Copynumber: 3.5 Consensus size: 42
103173341 AAAACGCCAC
* **
103173351 AAAAGATCATGACTTTTAGCATCGTTTGTGGGAAAGCG-CGCT
1 AAAAG-TCATGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCT
103173393 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGG-AAAGCGCCGCT
* * * *
103173436 AAAAGTCATGGCCTTTAGTGGCATTTGTGGGGGAAGCGCCGCT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGT-GGGAAAGCGCCGCT
*
103173479 AAAAGTCACGGCTTTTAGCGGCG
1 AAAAGTCATGGCTTTTAGCGGCG
103173502 CTTTTGTTAC
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
41 23 0.24
42 11 0.12
43 58 0.61
44 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (42 bp):
AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCT
Found at i:103174359 original size:13 final size:14
Alignment explanation
Indices: 103174333--103174361 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
103174323 ACTAACGATG
103174333 AATTAAACCATTAT
1 AATTAAACCATTAT
103174347 AATTAAA-CATTAT
1 AATTAAACCATTAT
103174360 AA
1 AA
103174362 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:103179480 original size:9 final size:9
Alignment explanation
Indices: 103179463--103179601 Score: 110
Period size: 9 Copynumber: 15.7 Consensus size: 9
103179453 ATATTTATGT
103179463 GTTATGTAA
1 GTTATGTAA
*
103179472 GTTAAGTAA
1 GTTATGTAA
*
103179481 GTTTTGTAA
1 GTTATGTAA
103179490 GTTATGTAA
1 GTTATGTAA
*
103179499 GATATG--A
1 GTTATGTAA
103179506 --TATGATAA
1 GTTATG-TAA
* *
103179514 -ATATTTAA
1 GTTATGTAA
*
103179522 GTATTATCTAA
1 G--TTATGTAA
103179533 GTTATGTAA
1 GTTATGTAA
103179542 GTTATGTAA
1 GTTATGTAA
103179551 GTTATGTAA
1 GTTATGTAA
*
103179560 GTTATGATAT
1 GTTATG-TAA
* *
103179570 GATATAT-A
1 GTTATGTAA
*
103179578 TTTATGTAA
1 GTTATGTAA
103179587 GTTATGTAA
1 GTTATGTAA
103179596 GTTATG
1 GTTATG
103179602 ATATGATATA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
5 4 0.04
7 1 0.01
8 8 0.08
9 78 0.75
10 6 0.06
11 7 0.07
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
GTTATGTAA
Found at i:103179550 original size:61 final size:61
Alignment explanation
Indices: 103179453--103179601 Score: 217
Period size: 61 Copynumber: 2.4 Consensus size: 61
103179443 TTTCAAGTAT
* * *
103179453 ATATTTATGTGTTATGTAAGTTAAGTAAGTTTTGTAAGTTATGTAAGATATGATATGATAA
1 ATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGATATGATATGATAA
* * * *
103179514 ATATTTAAGTATTATCTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATAT
1 ATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGATATGATATGATAA
103179575 ATATTTATGTAAGTTATGTAAGTTATG
1 ATATTTATGT-A-TTATGTAAGTTATG
103179602 ATATGATATA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
61 63 0.82
62 1 0.01
63 13 0.17
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.46
Consensus pattern (61 bp):
ATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGATATGATATGATAA
Found at i:103179583 original size:36 final size:36
Alignment explanation
Indices: 103179543--103179617 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
103179533 GTTATGTAAG
103179543 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
103179579 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
103179615 TTA
1 TTA
103179618 ATATTAAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:103182446 original size:26 final size:26
Alignment explanation
Indices: 103182417--103182469 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
103182407 TCAAACATGC
103182417 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
103182443 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
103182469 A
1 A
103182470 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:103183982 original size:26 final size:26
Alignment explanation
Indices: 103183951--103184058 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
103183941 TGAAATGCCC
*
103183951 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
103183977 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
103184003 ATCATGGAATATTTTCCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
103184029 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103184055 ATCA
1 ATCA
103184059 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:103185407 original size:19 final size:19
Alignment explanation
Indices: 103185366--103185410 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
103185356 TTATATTTCA
*
103185366 TTTTTATTTGTTATCCATG
1 TTTTTATTTGTTATCAATG
* *
103185385 TTTTTATTTATTTATCAATT
1 TTTTTATTT-GTTATCAATG
103185405 TTTTTA
1 TTTTTA
103185411 AATCTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTTATTTGTTATCAATG
Found at i:103185771 original size:21 final size:21
Alignment explanation
Indices: 103185741--103185795 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
103185731 ACCCTTAAAC
*
103185741 CATAATCCTTAAAATATAACT
1 CATAAACCTTAAAATATAACT
103185762 CATAAACCTTAAAATATAACT
1 CATAAACCTTAAAATATAACT
103185783 CATAAACCTTAAA
1 CATAAACCTTAAA
103185796 CCATTAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (21 bp):
CATAAACCTTAAAATATAACT
Found at i:103185816 original size:21 final size:21
Alignment explanation
Indices: 103185757--103185831 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
103185747 CCTTAAAATA
*
103185757 TAACTCATAAACCTTAAA--AT
1 TAAC-CATAAACCCTAAACCAT
*
103185777 ATAACTCATAAACCTTAAACCAT
1 -TAAC-CATAAACCCTAAACCAT
* *
103185800 TAACCATATACCCTAAATCAT
1 TAACCATAAACCCTAAACCAT
* *
103185821 AAACCCTAAAC
1 TAACCATAAAC
103185832 TATAATGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 40 0.87
22 4 0.09
23 2 0.04
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACCATAAACCCTAAACCAT
Found at i:103196269 original size:11 final size:10
Alignment explanation
Indices: 103196237--103196290 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
103196227 CATGAGATTT
103196237 TGATAT-ACA
1 TGATATGACA
*
103196246 TGATTTGACA
1 TGATATGACA
103196256 TGATATGCACA
1 TGATATG-ACA
*
103196267 TGATATG-TA
1 TGATATGACA
103196276 TGATATGTACA
1 TGATATG-ACA
103196287 TGAT
1 TGAT
103196291 GTATTCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:103196365 original size:25 final size:25
Alignment explanation
Indices: 103196337--103196406 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
103196327 GAGGAAGTGT
* *
103196337 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
103196362 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
103196387 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
103196407 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:103196419 original size:24 final size:24
Alignment explanation
Indices: 103196336--103196419 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
103196326 GGAGGAAGTG
* *
103196336 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
103196361 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
103196385 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
103196409 TAAAAGAGGCT
1 TAAAAG-GGCT
103196420 AGGCCTCCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:103207525 original size:54 final size:54
Alignment explanation
Indices: 103207461--103207618 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
103207451 ATTACCAAAG
* * * *
103207461 TACCCCCGATTTACATAATTACCGTTTTATCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAAAATTACCGTTT
* * * * *
103207515 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAAAATTACCGTTT
* * *** *
103207569 TACCCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAAAATTACC
103207619 AAAATACCCT
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAAAATTACCGTTT
Found at i:103207591 original size:27 final size:27
Alignment explanation
Indices: 103207461--103207591 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
103207451 ATTACCAAAG
* * *
103207461 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
103207488 TATCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
103207515 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
103207542 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
103207569 TACCCTCAATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
103207592 AAAATACCCT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:103207627 original size:81 final size:81
Alignment explanation
Indices: 103207442--103207629 Score: 178
Period size: 81 Copynumber: 2.3 Consensus size: 81
103207432 GAATACTTTA
* * * * * **
103207442 GTTTACCAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTATCCTTGATTTACAAAAT
1 GTTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAAT
****
103207507 TACCGTTTTACCCTCG
66 TACCAAAATACCCTCG
* * * * *** * *
103207523 ATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAAT
1 GTTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAAT
* *
103207588 TACTAAAATACCCTTG
66 TACCAAAATACCCTCG
103207604 GTTTACAAAATTACCAAAATACCCTC
1 GTTTACAAAATTACCAAAATACCCTC
103207630 TATCAGTAAA
Statistics
Matches: 78, Mismatches: 29, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.37
Consensus pattern (81 bp):
GTTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAAT
TACCAAAATACCCTCG
Found at i:103207654 original size:81 final size:81
Alignment explanation
Indices: 103207571--103207845 Score: 322
Period size: 81 Copynumber: 3.4 Consensus size: 81
103207561 TACTGTTTTA
** * * **
103207571 CCCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCTATCAG
1 CCCT-AATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTG
103207636 TAAAATTACCAAAATA-
65 TAAAATTACCAAAATAC
* * ** * * *
103207652 CCCTAGTCTGTAAAATTGCTAAAATACCCCTGGTTTGTAAAATTACTGAAATACCCTCAATTTGT
1 CCCTAATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGT
103207717 AAAATTACCAAAATAC
66 AAAATTACCAAAATAC
* ** * *
103207733 CCCTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 CCCTAATTTACAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTG
103207797 TAAAATTACCAAAATAC
65 TAAAATTACCAAAATAC
* *
103207814 CCCTGATTTACAAAGTTAC-AGAAATACCCTTG
1 CCCTAATTTACAAAATTACTA-AAATACCCTTG
103207846 ACTTTCTAAA
Statistics
Matches: 167, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
80 65 0.39
81 101 0.60
82 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
CCCTAATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGT
AAAATTACCAAAATAC
Found at i:103207822 original size:27 final size:27
Alignment explanation
Indices: 103207583--103207925 Score: 223
Period size: 27 Copynumber: 12.7 Consensus size: 27
103207573 CTCAATTTAC
* * * **
103207583 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**
103207610 AAAATTACCAAAATACCCTCT-ATCAGT
1 AAAATTACCAAAATACCC-CTGATTTGT
*
103207637 AAAATTACCAAAATA-CCCT-AGTCTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * *
103207663 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
** *
103207690 AAAATTACTGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
103207717 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
103207744 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
103207771 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
**
103207798 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
103207825 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCCTGA-TTTGT
*** ** * **
103207853 AAAAATTATGGAAATACCATTGGTTTAC
1 -AAAATTACCAAAATACCCCTGATTTGT
* * *
103207881 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
103207908 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
103207926 TTGTAAGATG
Statistics
Matches: 251, Mismatches: 51, Indels: 28
0.76 0.15 0.08
Matches are distributed among these distances:
25 3 0.01
26 29 0.12
27 188 0.75
28 15 0.06
29 16 0.06
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:103207980 original size:27 final size:27
Alignment explanation
Indices: 103207959--103208046 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
103207949 ACCCCTATTA
*
103207959 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
**
103207986 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** * *
103208013 GGTAAAGTGACTGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
103208040 GGTAAAA
1 GGTAAAA
103208047 TGACGAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:103208050 original size:27 final size:27
Alignment explanation
Indices: 103207970--103208050 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
103207960 GTAAAAAGAT
103207970 CGTAAAGCCCCTGTAGGGTAAAGTGAC
1 CGTAAAGCCCCTGTAGGGTAAAGTGAC
103207997 CGTAAAGCCCCTGTAGGGTAAAGTGAC
1 CGTAAAGCCCCTGTAGGGTAAAGTGAC
* * *
103208024 TGTAATA-CCCCTGTATGGTAAAATGAC
1 CGTAA-AGCCCCTGTAGGGTAAAGTGAC
103208051 GAATATGCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (27 bp):
CGTAAAGCCCCTGTAGGGTAAAGTGAC
Found at i:103208883 original size:26 final size:26
Alignment explanation
Indices: 103208853--103208950 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
103208843 GAGGAAGTGC
* *
103208853 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
103208879 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
103208905 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
103208931 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
103208951 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:103209154 original size:42 final size:42
Alignment explanation
Indices: 103209095--103209186 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
103209085 TAGTCTCCCC
* ** * *
103209095 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
103209137 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
103209179 AAATGGGC
1 AAATGGGC
103209187 CTAAGGGCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:103211659 original size:23 final size:25
Alignment explanation
Indices: 103211633--103211687 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
103211623 ATTGAAACGA
*
103211633 TAAGCTCTA-ACGAGCTAA-ATCAG
1 TAAGCTCTATACGAGCTAAGAACAG
*
103211656 TAAGCTC-ATACGAGTTAAGAACAG
1 TAAGCTCTATACGAGCTAAGAACAG
103211680 TAAGCTCT
1 TAAGCTCT
103211688 TTTGATCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 15 0.56
24 11 0.41
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (25 bp):
TAAGCTCTATACGAGCTAAGAACAG
Found at i:103214496 original size:20 final size:20
Alignment explanation
Indices: 103214473--103214639 Score: 127
Period size: 20 Copynumber: 8.8 Consensus size: 20
103214463 GTGGACCTAC
103214473 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* *
103214493 TGATGG-TTCAGTGCCACTAT
1 TGATGGCTT-TGTGCCGCTAT
* * *
103214513 TGACGGCTTTATGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
* *
103214533 TGATAGCTTTGTGCTGC---
1 TGATGGCTTTGTGCCGCTAT
103214550 T-A----TTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
*
103214565 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
* *
103214585 TGATGTCTTTGTACCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* * * *
103214605 TAAAGGCTTCGTGCCGCTAC
1 TGATGGCTTTGTGCCGCTAT
*
103214625 TCATGGCTTTGTGCC
1 TGATGGCTTTGTGCC
103214640 ATATACTGAT
Statistics
Matches: 113, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
12 9 0.08
15 1 0.01
16 2 0.02
17 1 0.01
19 2 0.02
20 96 0.85
21 2 0.02
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:103214581 original size:52 final size:52
Alignment explanation
Indices: 103214503--103214605 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
103214493 TGATGGTTCA
* *
103214503 GTGCCACTATTGACGGCTTTATGCCACTATTGATAG-CTTTGTGCTGCTATTT
1 GTGCCACTATTGACGGCTTTATGCCACTATTGAT-GTCTTTGTACCGCTATTT
* * *
103214555 GTGCCGCTATTGATGGCTTTGTGCCACTATTGATGTCTTTGTACCGCTATT
1 GTGCCACTATTGACGGCTTTATGCCACTATTGATGTCTTTGTACCGCTATT
103214606 AAAGGCTTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 44 0.98
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (52 bp):
GTGCCACTATTGACGGCTTTATGCCACTATTGATGTCTTTGTACCGCTATTT
Found at i:103214585 original size:32 final size:32
Alignment explanation
Indices: 103214524--103214585 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
103214514 GACGGCTTTA
**
103214524 TGCCACTATTGATAGCTTTGTGCTGCTATTTG
1 TGCCACTATTGATAGCTTTGTGCCACTATTTG
* *
103214556 TGCCGCTATTGATGGCTTTGTGCCACTATT
1 TGCCACTATTGATAGCTTTGTGCCACTATT
103214586 GATGTCTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (32 bp):
TGCCACTATTGATAGCTTTGTGCCACTATTTG
Found at i:103239775 original size:33 final size:33
Alignment explanation
Indices: 103239711--103239780 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
103239701 TCTAGGACAA
* * ** *
103239711 TAAACATGGAATAGAGTAAGTCTGTTAGGATAG
1 TAAACATGGAATAAAGTAAGCCCATCAGGATAG
*
103239744 TAAACATGGAATAAAGTAAGCCCATCGGGATAG
1 TAAACATGGAATAAAGTAAGCCCATCAGGATAG
103239777 TAAA
1 TAAA
103239781 TATGAAACAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.23
Consensus pattern (33 bp):
TAAACATGGAATAAAGTAAGCCCATCAGGATAG
Found at i:103242190 original size:32 final size:32
Alignment explanation
Indices: 103242149--103242210 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
103242139 TGGCTCTTTA
103242149 GTACCAAAATTTTCATTATCACACACACTATG
1 GTACCAAAATTTTCATTATCACACACACTATG
*
103242181 GTACCAAAATTTTCATTATCACACATACTA
1 GTACCAAAATTTTCATTATCACACACACTA
103242211 ACATTTAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (32 bp):
GTACCAAAATTTTCATTATCACACACACTATG
Found at i:103243919 original size:22 final size:22
Alignment explanation
Indices: 103243880--103243938 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
103243870 GTTTTAAGAA
*
103243880 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
103243901 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
103243923 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
103243939 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:103243955 original size:26 final size:24
Alignment explanation
Indices: 103243909--103243957 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
103243899 ATTTGTTTTA
*
103243909 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
103243933 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
103243958 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:103243968 original size:25 final size:26
Alignment explanation
Indices: 103243912--103243969 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
103243902 TGTTTTAATA
*
103243912 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
103243937 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
103243962 TTTATTTA
1 TTTATTTA
103243970 ATGAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:103258236 original size:12 final size:13
Alignment explanation
Indices: 103258219--103258255 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
103258209 GAACCGGACA
103258219 CGAACCGAA-CTC
1 CGAACCGAAGCTC
103258231 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
103258243 CGAACCGTAGCTC
1 CGAACCGAAGCTC
103258256 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:103265343 original size:13 final size:13
Alignment explanation
Indices: 103265325--103265349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103265315 TTGAAACCGA
103265325 AATTAACTAAATC
1 AATTAACTAAATC
103265338 AATTAACTAAAT
1 AATTAACTAAAT
103265350 AACACGACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTAACTAAATC
Found at i:103266866 original size:17 final size:17
Alignment explanation
Indices: 103266843--103266884 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
103266833 AAAGTTGCAC
103266843 ATATTTTAT-TTTCTAGT
1 ATATTTTATATTT-TAGT
*
103266860 TTATTTTATATTTTAGT
1 ATATTTTATATTTTAGT
103266877 ATATTTTA
1 ATATTTTA
103266885 CATCTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (17 bp):
ATATTTTATATTTTAGT
Found at i:103267080 original size:48 final size:48
Alignment explanation
Indices: 103267013--103267105 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
103267003 TCTTAATATC
*
103267013 TATATATAAAATATTATGTGTTACTATATGTGTAAGTTTGCCTTTATA
1 TATATATAAAATATTATGTGTTACTATATGTGCAAGTTTGCCTTTATA
*
103267061 TATATATATAATATTATGTGTTACTATATGTGCAAGTTTGCCTTT
1 TATATATAAAATATTATGTGTTACTATATGTGCAAGTTTGCCTTT
103267106 CTTTTTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (48 bp):
TATATATAAAATATTATGTGTTACTATATGTGCAAGTTTGCCTTTATA
Found at i:103267088 original size:24 final size:24
Alignment explanation
Indices: 103267012--103267089 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
103267002 ATCTTAATAT
*
103267012 CTATATATAAAATATTATGTGTTA
1 CTATATATATAATATTATGTGTTA
* * *
103267036 CTATATGTGTAA-GTT-TGCCT-TTA
1 CTATATATATAATATTATG--TGTTA
*
103267059 TATATATATATAATATTATGTGTTA
1 -CTATATATATAATATTATGTGTTA
103267084 CTATAT
1 CTATAT
103267090 GTGCAAGTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
22 2 0.05
23 5 0.13
24 25 0.64
25 5 0.13
26 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (24 bp):
CTATATATATAATATTATGTGTTA
Found at i:103268206 original size:13 final size:13
Alignment explanation
Indices: 103268188--103268212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103268178 GTTTCAAGTT
103268188 TTTTTAATTAATG
1 TTTTTAATTAATG
103268201 TTTTTAATTAAT
1 TTTTTAATTAAT
103268213 AAATATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:103268785 original size:44 final size:45
Alignment explanation
Indices: 103268736--103268827 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
103268726 ATAAGCCAAA
* *
103268736 TAATATT-AAAATAACCTACACTAATCA-ATGTTTAAGTGAGGAAC
1 TAATATTAAAAAAAACCTACACTAATCAGA-GTTTAAATGAGGAAC
*
103268780 TAATATTAAAAAAAACCTACACTAATCAGAGTTTAAATGGGGAAC
1 TAATATTAAAAAAAACCTACACTAATCAGAGTTTAAATGAGGAAC
103268825 TAA
1 TAA
103268828 AAATAGAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 7 0.16
45 35 0.81
46 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (45 bp):
TAATATTAAAAAAAACCTACACTAATCAGAGTTTAAATGAGGAAC
Found at i:103270966 original size:13 final size:13
Alignment explanation
Indices: 103270948--103270972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103270938 AAAATATATT
103270948 ATTAATTAAAAAC
1 ATTAATTAAAAAC
103270961 ATTAATTAAAAA
1 ATTAATTAAAAA
103270973 AAACTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:103272686 original size:26 final size:26
Alignment explanation
Indices: 103272657--103272738 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
103272647 TGATACAAAT
103272657 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103272683 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103272709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103272735 TGAT
1 TGAT
103272739 TGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:103275825 original size:65 final size:63
Alignment explanation
Indices: 103275743--103275863 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 63
103275733 GAGAATCATT
* * *
103275743 AGAAAAGTTGGTGTTATTTT-AGCA-TTTTATGTTGTTTTTAAGTATGTTTCATTTTCTGTCATA
1 AGAAAAGTTAGTGTTATTTTGA-CATTTTTATGTT-ATTTTAAGTATATTT-ATTTTCTGTCATA
103275806 A
63 A
103275807 AGAATAAGTTAGTGTTATTTTGACATTTTTATGTTATTTTAAGTATATTTATTTTCT
1 AGAA-AAGTTAGTGTTATTTTGACATTTTTATGTTATTTTAAGTATATTTATTTTCT
103275864 TGATTAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
64 11 0.22
65 30 0.59
66 10 0.20
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (63 bp):
AGAAAAGTTAGTGTTATTTTGACATTTTTATGTTATTTTAAGTATATTTATTTTCTGTCATAA
Found at i:103278999 original size:58 final size:59
Alignment explanation
Indices: 103278901--103279019 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
103278891 ACGATGGGGG
103278901 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
1 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
103278960 AAAACATCTCAAAATTGGGAAAACAAC-AAACATAAAGAAACCCAAAAACTTCGGTAGA
1 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
103279018 AA
1 AA
103279020 CTGAATGGAG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 33 0.55
59 27 0.45
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.13
Consensus pattern (59 bp):
AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
Found at i:103281729 original size:7 final size:7
Alignment explanation
Indices: 103281717--103281751 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
103281707 ACATAGAAAG
103281717 AAAAATA
1 AAAAATA
103281724 AAAAATA
1 AAAAATA
103281731 AAAAAT-
1 AAAAATA
103281737 AAAAAT-
1 AAAAATA
103281743 AAAAATA
1 AAAAATA
103281750 AA
1 AA
103281752 CATAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:103281733 original size:6 final size:6
Alignment explanation
Indices: 103281700--103281763 Score: 65
Period size: 6 Copynumber: 10.3 Consensus size: 6
103281690 ACAGGAAAAC
* * *
103281700 AAAATA AACATA GAAAGA AAAATAA AAAATAA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAAT-A AAAAT-A AAAATA AAAATA AAAATA
* *
103281750 AACATA AAGATA AA
1 AAAATA AAAATA AA
103281764 TAGACTCAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
6 36 0.73
7 13 0.27
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:103284010 original size:20 final size:19
Alignment explanation
Indices: 103283969--103284020 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
103283959 TCACTTCTCT
**
103283969 CACGCCCGTGTGGTCTCCCA
1 CACGCCCGTGT-GTCTAACA
103283989 CACGCCCGTGTGTCTGAACA
1 CACGCCCGTGTGTCT-AACA
*
103284009 CACGCCTGTGTG
1 CACGCCCGTGTG
103284021 CCTTGCCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.13, C:0.38, G:0.27, T:0.21
Consensus pattern (19 bp):
CACGCCCGTGTGTCTAACA
Found at i:103285137 original size:46 final size:48
Alignment explanation
Indices: 103285070--103285169 Score: 150
Period size: 46 Copynumber: 2.1 Consensus size: 48
103285060 AAATGGCCGA
*
103285070 CCTAGAATTAAAGGTAAGTCACTATC-CTC-ATCCATGAAACCTCAAG
1 CCTAGAATTAAAGGTAAGTCACTATCTCTCAATCCAAGAAACCTCAAG
103285116 CCTAGAATTAAAGGTAAGTCACTATCTCTCAAGAATCCAAGAAACCTCAAG
1 CCTAGAATTAAAGGTAAGTCACTATCTCTC---AATCCAAGAAACCTCAAG
103285167 CCT
1 CCT
103285170 TACTTACAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
46 26 0.54
47 3 0.06
51 19 0.40
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (48 bp):
CCTAGAATTAAAGGTAAGTCACTATCTCTCAATCCAAGAAACCTCAAG
Found at i:103285275 original size:31 final size:33
Alignment explanation
Indices: 103285220--103285281 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
103285210 TCAAATCTCT
*
103285220 TATATCAAAATCTATTGATCCAAATACATTTCA
1 TATATCAAAATCTATTGATCCAAATAAATTTCA
103285253 TATATC-AAATAC-ATT-ATCCAAATAAATTT
1 TATATCAAAAT-CTATTGATCCAAATAAATTT
103285282 TTTTTCCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 13 0.48
32 7 0.26
33 7 0.26
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (33 bp):
TATATCAAAATCTATTGATCCAAATAAATTTCA
Found at i:103285714 original size:15 final size:15
Alignment explanation
Indices: 103285694--103285722 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
103285684 TTGTTTGGCT
103285694 CAATTTCCAAATTTC
1 CAATTTCCAAATTTC
103285709 CAATTTCCAAATTT
1 CAATTTCCAAATTT
103285723 TCATGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (15 bp):
CAATTTCCAAATTTC
Found at i:103289121 original size:16 final size:16
Alignment explanation
Indices: 103289090--103289133 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
103289080 TTTAAAAATT
* *
103289090 ATAAAAATATTTAAAA
1 ATAAAAAAATTCAAAA
103289106 ATAAAAAAATTCAAAA
1 ATAAAAAAATTCAAAA
*
103289122 TTCAAAAAAATT
1 AT-AAAAAAATT
103289134 ATAAGAGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAAAAATTCAAAA
Found at i:103290128 original size:29 final size:29
Alignment explanation
Indices: 103290096--103290240 Score: 168
Period size: 29 Copynumber: 5.0 Consensus size: 29
103290086 TGCACCACTG
* *
103290096 TTTTACAGATTTTATAGTTTTGTCACTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* **
103290125 TTTTCCAGATTTTACAGTTTTGCCACTGG
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* * *
103290154 TTTTCCAGATTTTATAATTCTGCCATTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* * *
103290183 TTTT-CAGATATTACTA-TTTTGCTACTAG
1 TTTTCCAGATTTTA-TAGTTTTGCCACTAT
103290211 TTTTCCAGATTTTATAGTTTTGCCACTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
103290240 T
1 T
103290241 CTTAAAAAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
28 22 0.23
29 72 0.77
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (29 bp):
TTTTCCAGATTTTATAGTTTTGCCACTAT
Done.