Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 241 of 335
Found at i:73060669 original size:43 final size:43
Alignment explanation
Indices: 73060549--73060671 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
73060539 AGCTCATACA
* *
73060549 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAAATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACAAATCG
* * * * * * *
73060591 ATGCCACTATCCCAGACAGGGTTTTATACGAAATCATATAA-CG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACA-AATCG
*
73060634 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACA
73060672 TCTTGATAAT
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
42 5 0.08
43 55 0.89
44 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCACAAATCG
Found at i:73071230 original size:66 final size:66
Alignment explanation
Indices: 73071124--73071256 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
73071114 TTTTCTGCCG
73071124 GCTAAAACAACTAAATCGAGGAATGATATCTCTTCTTTTGTGCAGATGGATCTAGAGACACTCTA
1 GCTAAAACAACTAAATCGAGGAATGATATCTCTTCTTTTGTGCAGATGGATCTAGAGACACTCTA
73071189 T
66 T
**
73071190 GCTAAAACGGCTAAATCGAGGAATGATATCTCTTCTTTTGTGCAGATGGATCTAGAGACACTCTA
1 GCTAAAACAACTAAATCGAGGAATGATATCTCTTCTTTTGTGCAGATGGATCTAGAGACACTCTA
73071255 T
66 T
73071256 G
1 G
73071257 ATGCATGGGA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (66 bp):
GCTAAAACAACTAAATCGAGGAATGATATCTCTTCTTTTGTGCAGATGGATCTAGAGACACTCTA
T
Found at i:73074350 original size:68 final size:68
Alignment explanation
Indices: 73074203--73074358 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
73074193 AGCCGATTTG
* * * * *
73074203 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
73074268 TATC
65 TATA
* *
73074272 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
73074334 ATATAGTA
62 ATATA-TA
73074342 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
73074359 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:73081251 original size:13 final size:13
Alignment explanation
Indices: 73081233--73081272 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
73081223 GAAGAAATCA
73081233 CACACGAGCGTGT
1 CACACGAGCGTGT
73081246 CACACG-GACGTGT
1 CACACGAG-CGTGT
73081259 CACACGAGCGTGT
1 CACACGAGCGTGT
73081272 C
1 C
73081273 CTTGTCGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGAGCGTGT
Found at i:73091314 original size:20 final size:21
Alignment explanation
Indices: 73091289--73091327 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
73091279 CTCGTCTCAG
73091289 ATTTTAGCTTTC-TTCTATCT
1 ATTTTAGCTTTCTTTCTATCT
*
73091309 ATTTTATCTTTCTTTCTAT
1 ATTTTAGCTTTCTTTCTAT
73091328 ATCAAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (21 bp):
ATTTTAGCTTTCTTTCTATCT
Found at i:73091425 original size:16 final size:16
Alignment explanation
Indices: 73091404--73091436 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
73091394 CGTACTTCAA
*
73091404 TGGTCTTTGTAGAGGC
1 TGGTCTCTGTAGAGGC
73091420 TGGTCTCTGTAGAGGC
1 TGGTCTCTGTAGAGGC
73091436 T
1 T
73091437 AACTTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.36, T:0.36
Consensus pattern (16 bp):
TGGTCTCTGTAGAGGC
Found at i:73093789 original size:17 final size:17
Alignment explanation
Indices: 73093769--73093858 Score: 83
Period size: 17 Copynumber: 5.3 Consensus size: 17
73093759 TCAAATCTTG
* *
73093769 AACTTAAGCATATTTTA
1 AACTTAAGAAAATTTTA
*
73093786 AACTTAAGAAAATTTTG
1 AACTTAAGAAAATTTTA
* *
73093803 AACTTAAGTAAATTTTGG
1 AACTTAAGAAAATTTT-A
* **
73093821 GA-TTAAGTGAATTTTA
1 AACTTAAGAAAATTTTA
*
73093837 AACTTAAGAAAATTCTA
1 AACTTAAGAAAATTTTA
73093854 AACTT
1 AACTT
73093859 TCTCAAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
16 1 0.02
17 57 0.95
18 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (17 bp):
AACTTAAGAAAATTTTA
Found at i:73093802 original size:51 final size:51
Alignment explanation
Indices: 73093735--73093850 Score: 123
Period size: 51 Copynumber: 2.3 Consensus size: 51
73093725 TCTTTCTATG
* *
73093735 AACTTAAGCAATTTTTGAA-TTCAA-TCAAATCTT-GAACTTAAG-CATATTTTA
1 AACTTAAGAAAATTTTGAACTT-AAGT-AAATCTTGGAA-TTAAGTCA-ATTTTA
* * *
73093786 AACTTAAGAAAATTTTGAACTTAAGTAAATTTTGGGATTAAGTGAATTTTA
1 AACTTAAGAAAATTTTGAACTTAAGTAAATCTTGGAATTAAGTCAATTTTA
73093837 AACTTAAGAAAATT
1 AACTTAAGAAAATT
73093851 CTAAACTTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
51 50 0.89
52 6 0.11
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (51 bp):
AACTTAAGAAAATTTTGAACTTAAGTAAATCTTGGAATTAAGTCAATTTTA
Found at i:73094389 original size:138 final size:137
Alignment explanation
Indices: 73094117--73094438 Score: 358
Period size: 138 Copynumber: 2.3 Consensus size: 137
73094107 TATGTTGGAG
* * * *
73094117 CTACGAGCTCTTTGAATGTCAACTAGGAGTATAGGTCTACTAGCTATTTTTGAAGGTTCCTATCA
1 CTACGAGCTCTTTGAATATCAACTAGGAGCATAGGTCCACTAGCTATTTTTGAAGGTTCCGATCA
* * * * ** * * **
73094182 TAAACTAGAAATCTTTATAACATTAGCTAGGAGCGTAGGTCTTCTAGTTGTGTTGGAGTTGTAAG
66 TAAACTAGAAACCTTTATAACATCAACTAGGAGCATAGGTCCGCTAGCTGTGTTGGAGCTACAAG
73094247 CTTAACT
131 CTTAACT
* * * ** * *
73094254 CTGCGAGCTTTTTGAATATCAACTGGGAGCATAGGTCCGTTAGTTATTTTTTG-AGGTTGCGATC
1 CTACGAGCTCTTTGAATATCAACTAGGAGCATAGGTCCACTAGCTA-TTTTTGAAGGTTCCGATC
*
73094318 ATAAACTAGTAAACCTTTATAACATCAACTAGGAGCATAGGTCCGCTGGCTGTGTTGGAGCTACA
65 ATAAACTAG-AAACCTTTATAACATCAACTAGGAGCATAGGTCCGCTAGCTGTGTTGGAGCTACA
73094383 AGCTTAACT
129 AGCTTAACT
* * * * * **
73094392 CTACAAGCTCTTAGAATATCATCTAGAAGCGTAGGTCTGCTAGCTAT
1 CTACGAGCTCTTTGAATATCAACTAGGAGCATAGGTCCACTAGCTAT
73094439 GTTAGAGTTA
Statistics
Matches: 150, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
137 56 0.37
138 94 0.63
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (137 bp):
CTACGAGCTCTTTGAATATCAACTAGGAGCATAGGTCCACTAGCTATTTTTGAAGGTTCCGATCA
TAAACTAGAAACCTTTATAACATCAACTAGGAGCATAGGTCCGCTAGCTGTGTTGGAGCTACAAG
CTTAACT
Found at i:73094861 original size:36 final size:36
Alignment explanation
Indices: 73094811--73094882 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
73094801 GCTTATTATT
*
73094811 GACCTTAGAGTTGTAGTAACGAGCTACTTGTTGAGC
1 GACCTTAGAATTGTAGTAACGAGCTACTTGTTGAGC
73094847 GACCTTAGAATTGTAGTAACGAGCTACTTGTTGAGC
1 GACCTTAGAATTGTAGTAACGAGCTACTTGTTGAGC
73094883 ACACATCAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (36 bp):
GACCTTAGAATTGTAGTAACGAGCTACTTGTTGAGC
Found at i:73101316 original size:35 final size:35
Alignment explanation
Indices: 73101207--73101323 Score: 121
Period size: 35 Copynumber: 3.3 Consensus size: 35
73101197 AATCCAACCA
*
73101207 AAACACACCAGATGCTCACAAGAGCAAATC-CATCCG
1 AAACACACCA-ATGCTCATAAGAGCAAATCTC-TCCG
* * *
73101243 AAACACACCAATGCTCATAAAAACGAATACT-TCCG
1 AAACACACCAATGCTCATAAGAGCAAAT-CTCTCCG
* * * *
73101278 AAACACACCAATTCTCGTAAGAGCTAATCTCTCTG
1 AAACACACCAATGCTCATAAGAGCAAATCTCTCCG
73101313 AAACACACCAA
1 AAACACACCAA
73101324 AACAGAGAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
34 2 0.03
35 55 0.81
36 11 0.16
ACGTcount: A:0.43, C:0.31, G:0.10, T:0.16
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCAAATCTCTCCG
Found at i:73110757 original size:40 final size:40
Alignment explanation
Indices: 73110712--73110841 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
73110702 CGGAATATAA
73110712 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
73110752 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
73110792 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
73110832 CCGGATATAA
1 CCGGATATAA
73110842 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:73110856 original size:40 final size:39
Alignment explanation
Indices: 73110728--73110878 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
73110718 ATAACCATGT
* * *
73110728 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
73110768 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
73110808 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
73110847 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
73110879 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:73110862 original size:80 final size:79
Alignment explanation
Indices: 73110712--73110878 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
73110702 CGGAATATAA
*
73110712 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
73110777 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
73110792 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
73110854 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
73110871 CCGGATAT
1 CCGGATAT
73110879 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:73118300 original size:54 final size:54
Alignment explanation
Indices: 73118218--73118338 Score: 206
Period size: 54 Copynumber: 2.2 Consensus size: 54
73118208 CAAGTCAAGT
* * *
73118218 AGTTACACGGCCTAGCACATGGCTTGACACACTAGTATGTGAGGCCATTTTGAA
1 AGTTACACGGCCTAGCACATAGCTTGACACACTAGTATGTAAGGCCATTTCGAA
*
73118272 AGTTACACGGCCTAGCACATAGCTTGACACACTGGTATGTAAGGCCATTTCGAA
1 AGTTACACGGCCTAGCACATAGCTTGACACACTAGTATGTAAGGCCATTTCGAA
73118326 AGTTACACGGCCT
1 AGTTACACGGCCT
73118339 GGTACATGGG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (54 bp):
AGTTACACGGCCTAGCACATAGCTTGACACACTAGTATGTAAGGCCATTTCGAA
Found at i:73123740 original size:18 final size:18
Alignment explanation
Indices: 73123708--73123749 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
73123698 TAGTGTCTTC
73123708 TTTGT-TTAGATATTGTA
1 TTTGTATTAGATATTGTA
*
73123725 TTTGTATTATATATTGTA
1 TTTGTATTAGATATTGTA
73123743 -TTGTATT
1 TTTGTATT
73123750 TTTTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (18 bp):
TTTGTATTAGATATTGTA
Found at i:73123923 original size:31 final size:31
Alignment explanation
Indices: 73123888--73123954 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
73123878 ATCACGTACA
*
73123888 TTATGATATATTAGTGTGTATATTATGTATG
1 TTATGATATATTAGTGTATATATTATGTATG
*
73123919 TTATGATATTTTAGTGTATATATTATGTATG
1 TTATGATATATTAGTGTATATATTATGTATG
73123950 TTATG
1 TTATG
73123955 TATCAGACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (31 bp):
TTATGATATATTAGTGTATATATTATGTATG
Found at i:73130290 original size:20 final size:21
Alignment explanation
Indices: 73130251--73130316 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
73130241 TGACAATGTT
*
73130251 ATGAACAAATAAAACGAAAGAG
1 ATGAA-AAAAAAAACGAAAGAG
*
73130273 AT-AAAAAAAAAACCAAAGAG
1 ATGAAAAAAAAAACGAAAGAG
* * *
73130293 GTGAAAGAGAAAACGAAAGAG
1 ATGAAAAAAAAAACGAAAGAG
73130314 ATG
1 ATG
73130317 GTGAACGGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 15 0.42
21 19 0.53
22 2 0.06
ACGTcount: A:0.64, C:0.08, G:0.21, T:0.08
Consensus pattern (21 bp):
ATGAAAAAAAAAACGAAAGAG
Found at i:73130924 original size:88 final size:86
Alignment explanation
Indices: 73130745--73130916 Score: 208
Period size: 88 Copynumber: 2.0 Consensus size: 86
73130735 TTCCTTTTTT
* *
73130745 TTTTTTTTGCACTCATTTGAGTACTTAAACTTTCAAAATACATCAAAAAAGCCCTCAAAACTTTT
1 TTTTTTTTGCACTCATTAGAGTACTTAAACTTTCAAAATACATCAAAAAAGCCCTCAAAAC--TC
*
73130810 TTAAAAACAAAGCAATTAAGCCC
64 TTAAAAAAAAAGCAATTAAGCCC
* * * *
73130833 TTTTTTTTGCACTCAATTAG-GTACTTCAACTTTCAAAATGCAT-TAAAAAGACCCT-TAAAC-C
1 TTTTTTTTGCACTC-ATTAGAGTACTTAAACTTTCAAAATACATCAAAAAAG-CCCTCAAAACTC
*
73130894 TTAAAAAAAAAGCTATTAAGCCC
64 TTAAAAAAAAAGCAATTAAGCCC
73130917 CTGCTTTTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
84 21 0.28
87 10 0.14
88 39 0.53
89 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (86 bp):
TTTTTTTTGCACTCATTAGAGTACTTAAACTTTCAAAATACATCAAAAAAGCCCTCAAAACTCTT
AAAAAAAAAGCAATTAAGCCC
Found at i:73131056 original size:19 final size:19
Alignment explanation
Indices: 73131034--73131182 Score: 81
Period size: 19 Copynumber: 7.8 Consensus size: 19
73131024 AAAAATTAGA
73131034 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAATCAT
*** **
73131053 AAAATTTTATAAAAATTGT
1 AAAAAAATATAAAAATCAT
73131072 AAAAAAAT-TATAAAAT-AT
1 AAAAAAATATA-AAAATCAT
* * *
73131090 ATAGAAATATAAAAATTAT
1 AAAAAAATATAAAAATCAT
*** *
73131109 AAAACTTTAT-AAAGTCAT
1 AAAAAAATATAAAAATCAT
* *
73131127 AAGAAAATTATACAAAAT-GT
1 AA-AAAAATATA-AAAATCAT
* **
73131147 AAAGAAATATAAATTTCAT
1 AAAAAAATATAAAAATCAT
73131166 AAAAAAATTATAAAAAT
1 AAAAAAA-TATAAAAAT
73131183 TATCGTAACA
Statistics
Matches: 92, Mismatches: 30, Indels: 15
0.67 0.22 0.11
Matches are distributed among these distances:
18 25 0.27
19 53 0.58
20 10 0.11
21 4 0.04
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAAAATATAAAAATCAT
Found at i:73131343 original size:19 final size:19
Alignment explanation
Indices: 73131319--73131397 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
73131309 ATCATTATTT
73131319 TTTTATAATTTTTATAAAA
1 TTTTATAATTTTTATAAAA
***
73131338 TTTTATAATTTTT-TATTT
1 TTTTATAATTTTTATAAAA
73131356 TTTTA-AGATTTTTATAAAA
1 TTTTATA-ATTTTTATAAAA
** *
73131375 AATTCTAATTTTTA-ATAAA
1 TTTTATAATTTTTATA-AAA
73131394 TTTT
1 TTTT
73131398 TTTTTTTTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
17 1 0.02
18 14 0.31
19 29 0.64
20 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTATAAAA
Found at i:73131351 original size:10 final size:10
Alignment explanation
Indices: 73131317--73131477 Score: 60
Period size: 10 Copynumber: 17.0 Consensus size: 10
73131307 AGATCATTAT
73131317 TTTTTTATAA
1 TTTTTTATAA
73131327 -TTTTTATAA
1 TTTTTTATAA
**
73131336 AATTTTATAA
1 TTTTTTATAA
73131346 TTTTTTAT--
1 TTTTTTATAA
73131354 TTTTTTA-AGA
1 TTTTTTATA-A
73131364 -TTTTTATAA
1 TTTTTTATAA
**** *
73131373 AAAATTCTAA
1 TTTTTTATAA
*
73131383 TTTTTAATAA
1 TTTTTTATAA
*
73131393 ATTTTT-T--
1 TTTTTTATAA
73131400 TTTTTTAT-A
1 TTTTTTATAA
73131409 -TTTTTATTAA
1 TTTTTTA-TAA
** *
73131419 AATTTAATAA
1 TTTTTTATAA
73131429 TTTTTCTA-AA
1 TTTTT-TATAA
**
73131439 --TTTTATTG
1 TTTTTTATAA
73131447 TTTTTTATAA
1 TTTTTTATAA
73131457 TTTTTTTATAA
1 -TTTTTTATAA
*
73131468 TTTTTAATAA
1 TTTTTTATAA
73131478 GAGCATGGGT
Statistics
Matches: 109, Mismatches: 26, Indels: 32
0.65 0.16 0.19
Matches are distributed among these distances:
7 7 0.06
8 17 0.16
9 18 0.17
10 52 0.48
11 15 0.14
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:73131384 original size:37 final size:37
Alignment explanation
Indices: 73131313--73131387 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
73131303 CTAGAGATCA
**
73131313 TTATTTTTTTATAATTTTTATAAAATTTTATAATTTT
1 TTATTTTTTTATAATTTTTATAAAAAATTATAATTTT
*
73131350 TTATTTTTTTA-AGATTTTTATAAAAAATTCTAATTTT
1 TTATTTTTTTATA-ATTTTTATAAAAAATTATAATTTT
73131387 T
1 T
73131388 AATAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (37 bp):
TTATTTTTTTATAATTTTTATAAAAAATTATAATTTT
Found at i:73131388 original size:46 final size:46
Alignment explanation
Indices: 73131338--73131467 Score: 129
Period size: 46 Copynumber: 2.7 Consensus size: 46
73131328 TTTTATAAAA
* *
73131338 TTTTATAATTTTTTATTTTTTTAAGATTTTTATAAAAAATT-CTAAT
1 TTTTATAATTTTTT-TTTTTTTAATATTTTTATAAAAAATTAATAAT
* * *
73131384 TTTTAATAAATTTTTTTTTTTT-ATATTTTTATTAAAATTTAATAAT
1 TTTT-ATAATTTTTTTTTTTTTAATATTTTTATAAAAAATTAATAAT
* *
73131430 TTTTCTAAATTTTATTGTTTTTTATAATTTTTTTATAA
1 TTTTAT-AATTTT-TT-TTTTTT-TAATATTTTTATAA
73131468 TTTTTAATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
45 16 0.24
46 24 0.35
47 11 0.16
48 6 0.09
49 1 0.01
50 10 0.15
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (46 bp):
TTTTATAATTTTTTTTTTTTTAATATTTTTATAAAAAATTAATAAT
Found at i:73131403 original size:45 final size:46
Alignment explanation
Indices: 73131338--73131451 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 46
73131328 TTTTATAAAA
* *
73131338 TTTTATAATTTTTTATTTTTTTAAGATTTTTATAAAAAATT-CTAAT
1 TTTTATAA-ATTTTATTTTTTTAAGATTTTTATAAAAAATTAATAAT
* * * *
73131384 TTTTAATAAATTTT-TTTTTTTTATATTTTTATTAAAATTTAATAAT
1 TTTT-ATAAATTTTATTTTTTTAAGATTTTTATAAAAAATTAATAAT
*
73131430 TTTTCTAAATTTTATTGTTTTT
1 TTTTATAAATTTTATT-TTTTT
73131452 TATAATTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
45 30 0.53
46 18 0.32
47 9 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (46 bp):
TTTTATAAATTTTATTTTTTTAAGATTTTTATAAAAAATTAATAAT
Found at i:73131463 original size:11 final size:11
Alignment explanation
Indices: 73131447--73131472 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
73131437 AATTTTATTG
73131447 TTTTTTATAAT
1 TTTTTTATAAT
73131458 TTTTTTATAAT
1 TTTTTTATAAT
73131469 TTTT
1 TTTT
73131473 AATAAGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:73132038 original size:9 final size:10
Alignment explanation
Indices: 73131992--73132053 Score: 61
Period size: 11 Copynumber: 5.8 Consensus size: 10
73131982 CACAAAAGTC
73131992 CTCTCATAATT
1 CTCTCA-AATT
*
73132003 CTTTCTAAATT
1 CTCTC-AAATT
73132014 CTCTCCAAATT
1 CTCT-CAAATT
73132025 CTCTCAAATTT
1 CTCTCAAA-TT
*
73132036 CTCTCATATT
1 CTCTCAAATT
*
73132046 TTCTCAAA
1 CTCTCAAA
73132054 GCTCTCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
10 12 0.28
11 29 0.67
12 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:73132050 original size:21 final size:21
Alignment explanation
Indices: 73132004--73132053 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
73131994 CTCATAATTC
73132004 TTTCT-AAATTCTCTCCAAAT
1 TTTCTCAAATTCTCTCCAAAT
* *
73132024 TCTCTCAAATT-TCTCTCATAT
1 TTTCTCAAATTCTCTC-CAAAT
73132045 TTTCTCAAA
1 TTTCTCAAA
73132054 GCTCTCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTCTCAAATTCTCTCCAAAT
Found at i:73133879 original size:18 final size:18
Alignment explanation
Indices: 73133856--73133898 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
73133846 TGCTAGGTGC
* *
73133856 GTATCCTAGCTCTTATAT
1 GTATCCTAACCCTTATAT
73133874 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
73133892 GTTTCCT
1 GTATCCT
73133899 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:73134423 original size:9 final size:9
Alignment explanation
Indices: 73134409--73134439 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
73134399 TGAATAAGGC
73134409 AATATTTTT
1 AATATTTTT
73134418 AATATTTTT
1 AATATTTTT
*
73134427 TATATTTTT
1 AATATTTTT
73134436 AATA
1 AATA
73134440 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATATTTTT
Found at i:73137649 original size:125 final size:126
Alignment explanation
Indices: 73137425--73137992 Score: 843
Period size: 126 Copynumber: 4.5 Consensus size: 126
73137415 CCAAATAGGA
* * * *
73137425 ACTACTGTAGCAAAAAAACATCCACGTGGGAGCTTTTTTCAGTAATTCTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
73137490 GCTTGAAGCGTTTTAGACACTTTTTGTTCAGAAACGTTTTCTCAAAATTA-TTTTTCAGAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
73137550 ATTACTGTAGCATAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
73137615 GCTTGAAGCGTTTTGGACTCTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *
73137676 ACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCAT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
*
73137741 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * * *
73137802 ACTAATGTAGCAAAAGAGTGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGATAGTACATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * *
73137867 GCTTAAAAGCGTTTAGGATACTATTTGTTCAGAAACGTTTTCTTAAAATTATTTTTT-AGAT
66 GCTT-GAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * * *
73137928 ACTACTGTAGCAAAAGAACGTTCACGTGGAAGCTTTTTTCAATAATTTTGCTGACAGTTCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
73137993 AATTTAATTA
Statistics
Matches: 399, Mismatches: 42, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
125 103 0.26
126 249 0.62
127 47 0.12
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:73138200 original size:158 final size:161
Alignment explanation
Indices: 73137990--73138298 Score: 437
Period size: 159 Copynumber: 1.9 Consensus size: 161
73137980 GACAGTTCAT
**
73137990 CCTAATTTAATTAATTAACCCTAAAAACTCTAAATTCTAATTTAATTAA-TTTTTTAAAATTAAT
1 CCTAATTTAATTAATTAACCCTAAAAACTCTAAACCCTAATTTAATTAATTTTTTTAAAATTAAT
* * *
73138054 AGTTAATTTAATTAATTAACCTTAAACCCTAATTTAATTAACTCTAAAAGCAT-AACATAATAAA
66 AGTTAATTTAATTAATTAACCCTAAACCCTAATTTAATTAACCCTAAAAGCATAAACACAATAAA
*
73138118 ACCCTAAAC-CCTAAAACCCTGACATTAAAC
131 AACCTAAACTCCTAAAACCCTGACATTAAAC
** * *
73138148 CCTAATTTAATTAATTAATTCTAAAAA-TCTTAAACCCTAATTTAATTGATTTTTTTTAAATTAA
1 CCTAATTTAATTAATTAACCCTAAAAACTC-TAAACCCTAATTTAATTAATTTTTTTAAAATTAA
* * * *
73138212 TAGTTAATTTAATTAGTTAACCCTAAATCTTAATTTAATTAACCCTAAAAGCCTAAACACAATAA
65 TAGTTAATTTAATTAATTAACCCTAAACCCTAATTTAATTAACCCTAAAAGCATAAACACAATAA
* *
73138277 AAATCTAAACTCTTAAAACCCT
130 AAACCTAAACTCCTAAAACCCT
73138299 AACCCTAAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
157 2 0.02
158 41 0.31
159 61 0.47
160 17 0.13
161 10 0.08
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (161 bp):
CCTAATTTAATTAATTAACCCTAAAAACTCTAAACCCTAATTTAATTAATTTTTTTAAAATTAAT
AGTTAATTTAATTAATTAACCCTAAACCCTAATTTAATTAACCCTAAAAGCATAAACACAATAAA
AACCTAAACTCCTAAAACCCTGACATTAAAC
Found at i:73138244 original size:21 final size:22
Alignment explanation
Indices: 73138220--73138260 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
73138210 AATAGTTAAT
*
73138220 TTAA-TTAGTTAACCCTAAATC
1 TTAATTTAATTAACCCTAAATC
73138241 TTAATTTAATTAACCCTAAA
1 TTAATTTAATTAACCCTAAA
73138261 AGCCTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (22 bp):
TTAATTTAATTAACCCTAAATC
Found at i:73148528 original size:46 final size:46
Alignment explanation
Indices: 73148472--73148647 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
73148462 TGGTTGAGCA
73148472 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73148518 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
73148563 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73148611 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73148648 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73148628 original size:93 final size:93
Alignment explanation
Indices: 73148469--73148640 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
73148459 GGATGGTTGA
* * *
73148469 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
73148534 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
73148562 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGCGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
73148627 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73148641 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73152593 original size:18 final size:18
Alignment explanation
Indices: 73152567--73152601 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
73152557 AAAATTGACG
* *
73152567 CTTCTTCTTCCCTTTCCC
1 CTTCCTCTTCCCCTTCCC
73152585 CTTCCTCTTCCCCTTCC
1 CTTCCTCTTCCCCTTCC
73152602 TCTTGGGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (18 bp):
CTTCCTCTTCCCCTTCCC
Found at i:73152595 original size:12 final size:12
Alignment explanation
Indices: 73152580--73152605 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
73152570 CTTCTTCCCT
73152580 TTCCCCTTCCTC
1 TTCCCCTTCCTC
73152592 TTCCCCTTCCTC
1 TTCCCCTTCCTC
73152604 TT
1 TT
73152606 GGGTTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (12 bp):
TTCCCCTTCCTC
Found at i:73155459 original size:20 final size:20
Alignment explanation
Indices: 73155434--73155480 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
73155424 ATCCAAAACA
*
73155434 CCAGAAAAGTAAATTAATTT
1 CCAGAAAAGTAAATCAATTT
*
73155454 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCAATTT
73155474 CCAGAAA
1 CCAGAAA
73155481 TTATTTTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCAATTT
Found at i:73160459 original size:12 final size:12
Alignment explanation
Indices: 73160439--73160468 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
73160429 GTTCTAAAGC
73160439 TAAAAAAATAAA
1 TAAAAAAATAAA
*
73160451 TAAATAAATAAA
1 TAAAAAAATAAA
73160463 TAAAAA
1 TAAAAA
73160469 GAAGTTACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:73167178 original size:17 final size:16
Alignment explanation
Indices: 73167156--73167190 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
73167146 ACACAACCTA
73167156 TCACACACTCATGTAGG
1 TCACACACTCATGT-GG
*
73167173 TCACACAGTCATGTGG
1 TCACACACTCATGTGG
73167189 TC
1 TC
73167191 TGGCCATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (16 bp):
TCACACACTCATGTGG
Found at i:73173255 original size:44 final size:44
Alignment explanation
Indices: 73173192--73173281 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
73173182 GTTTTTGATG
73173192 ATTTCTATGTTTTTGTGATCGTTGCTTCGTGTTCTAGCTAGCCC
1 ATTTCTATGTTTTTGTGATCGTTGCTTCGTGTTCTAGCTAGCCC
73173236 ATTTCTATGTTTTTGTGATCGTTGCTTCGTGTTCTAGCTAGCCC
1 ATTTCTATGTTTTTGTGATCGTTGCTTCGTGTTCTAGCTAGCCC
73173280 AT
1 AT
73173282 ACTTTAATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (44 bp):
ATTTCTATGTTTTTGTGATCGTTGCTTCGTGTTCTAGCTAGCCC
Found at i:73183670 original size:43 final size:43
Alignment explanation
Indices: 73183622--73183784 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 43
73183612 ACCGAGATGT
* * * * * *
73183622 GATTACATGTAAGAAAATGTCTGGGGCATTGGCATTGTATTGG
1 GATTACGTGTAAGAACATGTCTGGGACATTGGCATCGTAATAG
* * *
73183665 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTAATAT
1 GATTACGTGTAAGAACATGTCTGGGACATTGGCATCGTAATAG
** *
73183708 GATTTTGTGTAAGAACATGTCTGGGACATTGGCATCGTAATAC
1 GATTACGTGTAAGAACATGTCTGGGACATTGGCATCGTAATAG
** *
73183751 GATTTTGTGTAAGACCATGTCTGGGACATTGGCA
1 GATTACGTGTAAGAACATGTCTGGGACATTGGCA
73183785 CCGATATGTG
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGAACATGTCTGGGACATTGGCATCGTAATAG
Found at i:73183805 original size:43 final size:42
Alignment explanation
Indices: 73183618--73183811 Score: 181
Period size: 43 Copynumber: 4.5 Consensus size: 42
73183608 GATTACCGAG
* ** * *
73183618 ATGTGATTACATGTAAGAAAATGTCTGGGGCATTGGCATTGT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
* *
73183660 ATTGGGATTACGTGTAAGACCATGTCTGAGACATTGGCATCGT
1 A-TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
* ** *
73183703 AATATGATTTTGTGTAAGAACATGTCTGGGACATTGGCATCGT
1 -ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
** ** *
73183746 AATACGATTTTGTGTAAGACCATGTCTGGGACATTGGCACCGAT
1 -ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T
* * *
73183790 ATGTGATAACATGTAAAACCAT
1 ATGTGATTACGTGTAAGACCAT
73183812 ATCTAGGATA
Statistics
Matches: 126, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 123 0.98
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:73183805 original size:86 final size:86
Alignment explanation
Indices: 73183612--73183805 Score: 228
Period size: 86 Copynumber: 2.3 Consensus size: 86
73183602 CATTAGGATT
* * * * **
73183612 ACCGAGATGTGATTACATGTAAGAAAATGTCTGGGGCATTGGCATTGTATTGGGATTACGTGTAA
1 ACCGATATGTGATTACATGTAAGAAAATGTCTGGGACATTGGCATCGTAATACGATTACGTGTAA
73183677 GACCATGTCTGAGACATTGGC
66 GACCATGTCTGAGACATTGGC
* * *** * **
73183698 ATCG-TAATATGATTTTGTGTAAGAACATGTCTGGGACATTGGCATCGTAATACGATTTTGTGTA
1 ACCGAT-ATGTGATTACATGTAAGAAAATGTCTGGGACATTGGCATCGTAATACGATTACGTGTA
*
73183762 AGACCATGTCTGGGACATTGGC
65 AGACCATGTCTGAGACATTGGC
*
73183784 ACCGATATGTGATAACATGTAA
1 ACCGATATGTGATTACATGTAA
73183806 AACCATATCT
Statistics
Matches: 85, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
86 84 0.99
87 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (86 bp):
ACCGATATGTGATTACATGTAAGAAAATGTCTGGGACATTGGCATCGTAATACGATTACGTGTAA
GACCATGTCTGAGACATTGGC
Found at i:73187874 original size:49 final size:49
Alignment explanation
Indices: 73187748--73188005 Score: 407
Period size: 49 Copynumber: 5.3 Consensus size: 49
73187738 CCCTTCGGGA
* * * * * *
73187748 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
73187795 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
73187842 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
73187891 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
73187940 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
73187989 CTTATCACATATATATA
1 CTTATCACATATATATA
73188006 TCTCATACAT
Statistics
Matches: 197, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.01
47 44 0.22
49 152 0.77
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:73194917 original size:43 final size:43
Alignment explanation
Indices: 73194856--73194960 Score: 192
Period size: 43 Copynumber: 2.4 Consensus size: 43
73194846 TAAAGACAAA
* *
73194856 ATTTAGCCTGTACTAGTAATTCTGATCTTACATTGAAATTAAG
1 ATTTAGCCTGGACTAGTAATTCTAATCTTACATTGAAATTAAG
73194899 ATTTAGCCTGGACTAGTAATTCTAATCTTACATTGAAATTAAG
1 ATTTAGCCTGGACTAGTAATTCTAATCTTACATTGAAATTAAG
73194942 ATTTAGCCTGGACTAGTAA
1 ATTTAGCCTGGACTAGTAA
73194961 CCTTGATTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (43 bp):
ATTTAGCCTGGACTAGTAATTCTAATCTTACATTGAAATTAAG
Found at i:73196647 original size:7 final size:7
Alignment explanation
Indices: 73196635--73196661 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
73196625 CATTAAGGAT
73196635 AAAATTG
1 AAAATTG
73196642 AAAATTG
1 AAAATTG
73196649 AAAATTG
1 AAAATTG
73196656 AAAATT
1 AAAATT
73196662 ATGTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
AAAATTG
Found at i:73197168 original size:42 final size:42
Alignment explanation
Indices: 73197057--73197219 Score: 168
Period size: 43 Copynumber: 3.9 Consensus size: 42
73197047 TTCCGAGATG
* * *
73197057 TGATATCGTGTAAGACCATGTCTGAGACATTGGCATC-AATA
1 TGATAACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
* * *
73197098 TGAGATTACGTGTAAGGCCATGTATGGGACATTGGCATCGTATA
1 T--GATAACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
** * * *
73197142 TGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATT
1 TGATAACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATA
* *
73197185 TGATAACATGTAAGACCATGTCTGGGATA-TGGCAT
1 TGATAACGTGTAAGACCATGTCTGGGACATTGGCAT
73197220 TGTACGAGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 38 0.38
43 58 0.57
44 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGATAACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:73197205 original size:85 final size:84
Alignment explanation
Indices: 73197057--73197219 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 84
73197047 TTCCGAGATG
* * * *
73197057 TGATATCGTGTAAGACCATGTCTGAGACATTGGCATCAATATGAGATTACGTGTAAGGCCATGTA
1 TGATATCGTGTAAGACCATGTCTGAGACAATGGCATCAATATGAGATAACATGTAAGACCATGTA
73197122 TGGGACATTGGCATCGTATA
66 TGGGACA-TGGCATCGTATA
* * * * ** *
73197142 TGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATAACATGTAAGACCATGTC
1 TGATATCGTGTAAGACCATGTCTGAGACAATGGCATCAATATGAGATAACATGTAAGACCATGTA
*
73197207 TGGGATATGGCAT
66 TGGGACATGGCAT
73197220 TGTACGAGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 6 0.09
85 60 0.91
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (84 bp):
TGATATCGTGTAAGACCATGTCTGAGACAATGGCATCAATATGAGATAACATGTAAGACCATGTA
TGGGACATGGCATCGTATA
Found at i:73200623 original size:5 final size:5
Alignment explanation
Indices: 73200613--73200639 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
73200603 TGAGCGTTCG
73200613 ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA AT
73200640 GAAAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:73201721 original size:9 final size:9
Alignment explanation
Indices: 73201707--73201741 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
73201697 AAAATCGAGT
*
73201707 TAACTCAAA
1 TAACTCGAA
*
73201716 TAACTCGAT
1 TAACTCGAA
73201725 TAACTCGAA
1 TAACTCGAA
73201734 TAACTCGA
1 TAACTCGA
73201742 TTCGTTTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (9 bp):
TAACTCGAA
Found at i:73201729 original size:18 final size:18
Alignment explanation
Indices: 73201701--73201743 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
73201691 CTAAAAAAAA
73201701 TCGAGTTAACTCAAATAAC
1 TCGA-TTAACTCAAATAAC
*
73201720 TCGATTAACTCGAATAAC
1 TCGATTAACTCAAATAAC
73201738 TCGATT
1 TCGATT
73201744 CGTTTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (18 bp):
TCGATTAACTCAAATAAC
Found at i:73210046 original size:6 final size:6
Alignment explanation
Indices: 73210035--73210068 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
73210025 CCGAGTAGGC
*
73210035 CAAGCT CAAGCT CAAGCA CAAGCT CAAGCT CAAG
1 CAAGCT CAAGCT CAAGCT CAAGCT CAAGCT CAAG
73210069 GCTAAGGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.12
Consensus pattern (6 bp):
CAAGCT
Found at i:73220504 original size:21 final size:22
Alignment explanation
Indices: 73220463--73220510 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
73220453 AAAAAAGTTA
* *
73220463 TTATTGTTTTGCTACTGTTTT-
1 TTATTGTTTTACTACTATTTTG
73220484 TTATTGTTTTACTA-TCATTTTG
1 TTATTGTTTTACTACT-ATTTTG
73220506 TTATT
1 TTATT
73220511 ATATTGTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (22 bp):
TTATTGTTTTACTACTATTTTG
Found at i:73223004 original size:21 final size:22
Alignment explanation
Indices: 73222962--73223016 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
73222952 GTGATTTTAC
*
73222962 AAAAAAAATATAAATTTAAAGATT
1 AAAAAAAAT-TAAA-TTAAAGACT
*
73222986 AAAAAAAATTAAA-TCAAGACT
1 AAAAAAAATTAAATTAAAGACT
*
73223007 AAAATAAATT
1 AAAAAAAATT
73223017 TTTTTAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.54
23 4 0.14
24 9 0.32
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAAAAAATTAAATTAAAGACT
Found at i:73231850 original size:2 final size:2
Alignment explanation
Indices: 73231843--73231872 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
73231833 TTGTGGTAAG
73231843 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
73231873 GAAGAATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73250446 original size:96 final size:96
Alignment explanation
Indices: 73250294--73250727 Score: 730
Period size: 96 Copynumber: 4.5 Consensus size: 96
73250284 ATGTACAAGA
*
73250294 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
73250359 CCGAATGGCCAATGTGATGAATGTGAAGGTG
66 CCGAATGGCCAATGTGATGAATGTGAAGGTG
*
73250390 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
73250455 CCGAATGGCCAATGTGATGAATGTGAAGGTG
66 CCGAATGGCCAATGTGATGAATGTGAAGGTG
* * *
73250486 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
*
73250551 CCGAATGGCCAATGTGATGAATGTGATGGTG
66 CCGAATGGCCAATGTGATGAATGTGAAGGTG
*
73250582 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
*
73250647 CCGAATGGCCAATGTGATGAATGTGAA--AG
66 CCGAATGGCCAATGTGATGAATGTGAAGGTG
* * * *
73250676 TATATATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
73250728 AACTGTGATA
Statistics
Matches: 322, Mismatches: 15, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
94 45 0.14
95 3 0.01
96 274 0.85
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (96 bp):
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAGGTG
Found at i:73250737 original size:47 final size:47
Alignment explanation
Indices: 73250298--73250739 Score: 654
Period size: 47 Copynumber: 9.3 Consensus size: 47
73250288 ACAAGATATG
*
73250298 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
73250345 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
73250392 TGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
1 --TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
73250441 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
73250488 TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 --TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* **
73250537 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGATGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
73250584 TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGCAAGTGTA
1 --TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
73250633 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
73250680 TATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTA
73250727 TA-ACTGTGATAAG
1 TATA-TGTGATAAG
73250740 TCCCGAAGGA
Statistics
Matches: 358, Mismatches: 29, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.00
47 223 0.62
48 3 0.01
49 131 0.37
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:73252158 original size:45 final size:48
Alignment explanation
Indices: 73252066--73252160 Score: 115
Period size: 51 Copynumber: 2.0 Consensus size: 48
73252056 TACATTTTAT
*
73252066 TGGTAGCCTTAGCTACACTTATTTGATCAGTGACAAGTTACAAGTGATAAG
1 TGGTAGCCTTAGCTACACTTATCTGATCAGTG--AAGTTA-AAGTGATAAG
* *
73252117 TGGTAGCTTTAGCTACATTTATCTGATCAGTG-A-TT-AAGTGATAA
1 TGGTAGCCTTAGCTACACTTATCTGATCAGTGAAGTTAAAGTGATAA
73252161 ATGTGATCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 9 0.22
47 2 0.05
48 1 0.02
51 29 0.71
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (48 bp):
TGGTAGCCTTAGCTACACTTATCTGATCAGTGAAGTTAAAGTGATAAG
Found at i:73252924 original size:15 final size:15
Alignment explanation
Indices: 73252904--73252934 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
73252894 CTTTGAAGGC
73252904 CCATCTAAAAGACGT
1 CCATCTAAAAGACGT
73252919 CCATCTAAAAGACGT
1 CCATCTAAAAGACGT
73252934 C
1 C
73252935 ATGACATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (15 bp):
CCATCTAAAAGACGT
Found at i:73266452 original size:40 final size:40
Alignment explanation
Indices: 73266387--73266481 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
73266377 ATGATGTTTG
* **
73266387 GCACTTAGTGTGCGTATCGTGATAGCTTCGGCTATATATA
1 GCACTTAGTGTGCGAATCGAAATAGCTTCGGCTATATATA
* * * * * *
73266427 GCACTTAGTGTGCGAATTGAAATAGCTTTGGTTTTATGTG
1 GCACTTAGTGTGCGAATCGAAATAGCTTCGGCTATATATA
*
73266467 GCACTAAGTGTGCGA
1 GCACTTAGTGTGCGA
73266482 TACCGAGATA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATCGAAATAGCTTCGGCTATATATA
Found at i:73269962 original size:20 final size:20
Alignment explanation
Indices: 73269937--73269980 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
73269927 TATGTCCAAG
73269937 AAAACCAACTTCCCATAACC
1 AAAACCAACTTCCCATAACC
*
73269957 AAAACCAACTTCCCGTAACC
1 AAAACCAACTTCCCATAACC
73269977 AAAA
1 AAAA
73269981 TTCACATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAACCAACTTCCCATAACC
Found at i:73289849 original size:17 final size:16
Alignment explanation
Indices: 73289810--73289849 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
73289800 CCCACATATC
*
73289810 TCACCAAAACACGTAT
1 TCACCAAAACACGGAT
*
73289826 TCGCCAAAACACAGGAT
1 TCACCAAAACAC-GGAT
73289843 TCACCAA
1 TCACCAA
73289850 TTGATGCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.42, C:0.33, G:0.10, T:0.15
Consensus pattern (16 bp):
TCACCAAAACACGGAT
Found at i:73292661 original size:30 final size:30
Alignment explanation
Indices: 73292627--73292686 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
73292617 ATTTTTGAGC
* *
73292627 CTAGGGGCAAAATAATCATTTTATCAAAGA
1 CTAGGGGAAAAATAATCATTTTACCAAAGA
* *
73292657 CTAGGGGAAAAATAGTCGTTTTACCAAAGA
1 CTAGGGGAAAAATAATCATTTTACCAAAGA
73292687 TATGAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (30 bp):
CTAGGGGAAAAATAATCATTTTACCAAAGA
Found at i:73293136 original size:47 final size:46
Alignment explanation
Indices: 73293024--73293297 Score: 140
Period size: 46 Copynumber: 5.8 Consensus size: 46
73293014 TCACTTGTGT
73293024 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CACATTATGA
* * *
73293070 GAGCCAATGTAAGACCATGTCTGTGACATGGCATC-G-ACATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACATT-ATGA
* *
73293115 CGAGTGCTAGTGTAAGACATGTCTGGGACAT-GCTTCGGC-C-TCGA-GA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCACAT-TATGA
* * * * * *
73293161 CGTAAGCCAGTGTAAGACACGTCTAGGACAT-GCATCAGCTACGA-GATGT
1 -G--AGCTAGTGTAAGACATGTCTGGGACATGGCATCGGC-AC-ATTATGA
* * * *
73293210 G-TC-AGTATAAGACCATGTCTGGGACATGGCATTGGCACAGATATGCTA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACA-TTATG--A
* * * *
73293258 GAACTTGTGTAATACCATGTCTGGAACATGGCATCGGCAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC
73293298 TTGACCCTAT
Statistics
Matches: 176, Mismatches: 28, Indels: 44
0.71 0.11 0.18
Matches are distributed among these distances:
44 9 0.05
45 22 0.12
46 63 0.36
47 29 0.16
48 21 0.12
49 2 0.01
50 30 0.17
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCACATTATGA
Found at i:73293176 original size:46 final size:46
Alignment explanation
Indices: 73293024--73293196 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
73293014 TCACTTGTGT
* * * *
73293024 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * * * *
73293070 GAGCCAATGTAAGACCATGTCTGTGACATGGCATCGACATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * *
73293118 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
73293165 -AGCCAGTGTAAGACACGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
73293197 AGCTACGAGA
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 52 0.51
47 27 0.27
48 21 0.21
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:73294208 original size:27 final size:27
Alignment explanation
Indices: 73294172--73294226 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
73294162 GGACATGTTG
* *
73294172 AATTCTAGCATGCATTCGGACACTTAAA
1 AATTCTAGCATACATTCGAACA-TTAAA
73294200 AATTC-AGCATACATTCGAACATTAAA
1 AATTCTAGCATACATTCGAACATTAAA
73294226 A
1 A
73294227 TTTTACTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.24
27 14 0.56
28 5 0.20
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (27 bp):
AATTCTAGCATACATTCGAACATTAAA
Found at i:73299518 original size:42 final size:43
Alignment explanation
Indices: 73299456--73299550 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 43
73299446 CTGTTTTATG
* * * *
73299456 TGTAAGACCATGTTTGGGACA-TCGGCATCG-TATCTGATTTCA
1 TGTAAGACCATGTCTAGGACAGT-GGCAACGATATCTGATTACA
* * *
73299498 TGTAAGACCCTGTCTAGGACAGTGGCAACGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCAACGATATCTGATTACA
73299541 TGTAAGACCA
1 TGTAAGACCA
73299551 CTTCTGGGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 24 0.56
43 19 0.44
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCAACGATATCTGATTACA
Found at i:73300409 original size:13 final size:13
Alignment explanation
Indices: 73300393--73300417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73300383 ATTGGAGTGA
73300393 CAAGTTGGCTATT
1 CAAGTTGGCTATT
73300406 CAAGTTGGCTAT
1 CAAGTTGGCTAT
73300418 GTTGCACGGC
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:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (13 bp):
CAAGTTGGCTATT
Found at i:73301902 original size:16 final size:16
Alignment explanation
Indices: 73301881--73301926 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
73301871 CAAGGTAGCT
73301881 AAAAATAAAATAAAAG
1 AAAAATAAAATAAAAG
*
73301897 AAAAATAATGA-AAAAG
1 AAAAATAA-AATAAAAG
73301913 AAATAA-AAAATAAA
1 AAA-AATAAAATAAA
73301927 GTTAATACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.04
16 21 0.84
17 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:73302088 original size:2 final size:2
Alignment explanation
Indices: 73302081--73302106 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
73302071 AATCATGCAA
73302081 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
73302107 CTAAATTAAG
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:73306399 original size:20 final size:20
Alignment explanation
Indices: 73306374--73306414 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
73306364 GTCACACACG
73306374 GTCTAAACACACGCCCGTGT
1 GTCTAAACACACGCCCGTGT
73306394 GTCTAAACACACGCCCGTGT
1 GTCTAAACACACGCCCGTGT
73306414 G
1 G
73306415 GACAAAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.20
Consensus pattern (20 bp):
GTCTAAACACACGCCCGTGT
Found at i:73310409 original size:40 final size:40
Alignment explanation
Indices: 73310364--73310530 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
73310354 CGGAATATAA
73310364 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
73310404 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
73310444 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
73310484 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
73310523 CCGGATAT
1 CCGGATAT
73310531 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:73310514 original size:80 final size:79
Alignment explanation
Indices: 73310364--73310530 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
73310354 CGGAATATAA
* *
73310364 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
73310429 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
73310444 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
73310506 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
73310523 CCGGATAT
1 CCGGATAT
73310531 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:73311379 original size:17 final size:19
Alignment explanation
Indices: 73311356--73311401 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
73311346 AAGAAGCATG
73311356 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
73311374 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
73311392 AATCATGCTC
1 AATCATGCTC
73311402 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:73320491 original size:49 final size:47
Alignment explanation
Indices: 73320419--73320547 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 47
73320409 ATATCGAGGC
* * * *
73320419 CGATGCCACGTCGCAGATAGGTCTTACGCTGGCTTTCATCAATC-AGTGT
1 CGATGCCATGTCTCAGACAGGTCTTACGCTGGCTTACA-CAA-CAAGT-T
* *
73320468 CGATGCCATGTCTCAGACAGGTCTTACACTGAC--ACACAACAAGTT
1 CGATGCCATGTCTCAGACAGGTCTTACGCTGGCTTACACAACAAGTT
* *
73320513 -GATGCCATGTCTCAGACAAGTCTTACGCTAGCTTA
1 CGATGCCATGTCTCAGACAGGTCTTACGCTGGCTTA
73320548 TATATCTCGA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
44 28 0.42
45 2 0.03
46 7 0.10
47 2 0.03
49 28 0.42
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCTCAGACAGGTCTTACGCTGGCTTACACAACAAGTT
Found at i:73320577 original size:48 final size:46
Alignment explanation
Indices: 73320513--73320635 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 46
73320503 ACAACAAGTT
* * * *
73320513 GATGCCATGTCTCAGACAAGTCTTACGCTAGCTTAT-ATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTT-TCATA-AT-GAGGCC
*
73320562 GATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATGAGGCC
*
73320608 GATGCATGTCCCAGATATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
73320636 GGCTCACATA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 32 0.48
47 2 0.03
48 29 0.43
49 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATGAGGCC
Found at i:73323428 original size:18 final size:18
Alignment explanation
Indices: 73323405--73323440 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73323395 TCCCCGAGTG
73323405 ATAGTCGATTATCAACTT
1 ATAGTCGATTATCAACTT
**
73323423 ATAGTCTTTTATCAACTT
1 ATAGTCGATTATCAACTT
73323441 TGACCGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (18 bp):
ATAGTCGATTATCAACTT
Found at i:73326858 original size:20 final size:21
Alignment explanation
Indices: 73326833--73326872 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73326823 CTTTTGAAAT
73326833 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
73326853 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
73326873 CCACTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:73328219 original size:49 final size:50
Alignment explanation
Indices: 73328109--73328386 Score: 172
Period size: 48 Copynumber: 5.8 Consensus size: 50
73328099 ATAAAATACA
* *** * * *
73328109 GATGCCATGTCCTAGACATGGTCTTACACTG-GCCAGCACAT-T-AAAGTC
1 GATGCCATGTCCCAGACA-GGTCTTACACTGAGCTTTCATATATCAAGGCC
* * *
73328157 GATGCCGTATCCCAGACAAGTCTTACACTGA-CTTTCATATATCAAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCAAGGCC
* * * *
73328206 GATGCCATGTCCCAGACAGGTCTTACACTG-GCTCTCAT-CATC-GGTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCAAG-GCC
** * * * *
73328254 GATGCCATGTCTTAGACAGGTCTTAC-GTTAGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGAGCTT-TCATATATCAAGGCC
* * * * * *
73328303 GATG-CGTGTCCCAGACATGTCTTACA-TTAGCTCTCGT-T-TCAATGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCAAGGCC
* *
73328349 GATG-CATGTCCCAAACATGTCTTACACT-AGCTTTCATA
1 GATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATA
73328387 ATGTGGTCGA
Statistics
Matches: 179, Mismatches: 38, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
46 37 0.21
47 21 0.12
48 74 0.41
49 46 0.26
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCAAGGCC
Found at i:73328255 original size:97 final size:96
Alignment explanation
Indices: 73328109--73328337 Score: 214
Period size: 97 Copynumber: 2.4 Consensus size: 96
73328099 ATAAAATACA
* * * *
73328109 GATGCCATGTCCTAGACATGGTCTTACACTGGC-CAGCACATTAAAGTCGATGCCGTATCCCAGA
1 GATGCCATGTCCCAGACA-GGTCTTACACTGGCTC-TCACATCAAAGTCGATGCCATATCCCAGA
73328173 CAAGTCTTACACTGA-CTT-TCATATATCAAGGCC
64 CAAGTCTTAC-CTGAGCTTGT-ATATATCAAGGCC
*** * **
73328206 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCATCGGTGTCGATGCCATGTCTTAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-CATCAAAGTCGATGCCATATCCCAGAC
* * * * *
73328271 AGGTCTTACGTTAGCTTGTATATCTCGAGGCC
65 AAGTCTTACCTGAGCTTGTATATATCAAGGCC
* * * *
73328303 GATG-CGTGTCCCAGACATGTCTTACATTAGCTCTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTC
73328338 GTTTCAATGC
Statistics
Matches: 109, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
96 45 0.41
97 63 0.58
98 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATCAAAGTCGATGCCATATCCCAGACA
AGTCTTACCTGAGCTTGTATATATCAAGGCC
Found at i:73329249 original size:5 final size:5
Alignment explanation
Indices: 73329239--73329272 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
73329229 ATCATCTTTC
* *
73329239 TTTTA TTTTA TTTTC TTTTA TTTTA TTTTC TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
73329273 TGGCCAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:73329255 original size:15 final size:15
Alignment explanation
Indices: 73329235--73329272 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
73329225 TGATATCATC
73329235 TTTCTTTTATTTTAT
1 TTTCTTTTATTTTAT
73329250 TTTCTTTTATTTTAT
1 TTTCTTTTATTTTAT
73329265 TTTCTTTT
1 TTTCTTTT
73329273 TGGCCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTATTTTAT
Found at i:73331494 original size:23 final size:23
Alignment explanation
Indices: 73331468--73331513 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
73331458 TTAAAACATT
73331468 ATTTTATTTTCT-ATCGTTTTTTA
1 ATTTTATTTTCTAAT-GTTTTTTA
*
73331491 ATTTTATTTTTTAATGTTTTTTA
1 ATTTTATTTTCTAATGTTTTTTA
73331514 TCTTGATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (23 bp):
ATTTTATTTTCTAATGTTTTTTA
Found at i:73335378 original size:6 final size:7
Alignment explanation
Indices: 73335361--73335386 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
73335351 AGAAACGAAA
73335361 AAAAATT
1 AAAAATT
73335368 AAAAATT
1 AAAAATT
73335375 AAAAATT
1 AAAAATT
73335382 AAAAA
1 AAAAA
73335387 AGCTGGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:73337183 original size:30 final size:31
Alignment explanation
Indices: 73337133--73337193 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
73337123 GGTATGTGTA
73337133 AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
1 AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
73337164 AGTTTAGGAGAGG-AAAAAAATATTTCTCTG
1 AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
73337194 TATTGAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (31 bp):
AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
Found at i:73338605 original size:84 final size:85
Alignment explanation
Indices: 73338456--73338674 Score: 379
Period size: 84 Copynumber: 2.6 Consensus size: 85
73338446 GAACCACACT
* * * *
73338456 GTTTAGGAAAGCATTCTTTACA-CTTAACTACTGGAGAGACCAATCCAAGTGATAGGTCCATATA
1 GTTTAGGAAAGCATTCTTTACATC-CAAATGCTGGAGAGGCCAATCCAAGTGATAGGTCCATATA
73338520 AACTTCCTCTAGTAGATTGTA
65 AACTTCCTCTAGTAGATTGTA
73338541 GTTTAGG-AAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGTGATAGGTCCATATAA
1 GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGTGATAGGTCCATATAA
73338605 ACTTCCTCTAGTAGATTGTA
66 ACTTCCTCTAGTAGATTGTA
73338625 GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGT
1 GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGT
73338675 AAGCTGTAAT
Statistics
Matches: 128, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
84 78 0.61
85 50 0.39
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (85 bp):
GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGTGATAGGTCCATATAA
ACTTCCTCTAGTAGATTGTA
Found at i:73338918 original size:42 final size:42
Alignment explanation
Indices: 73338859--73338947 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
73338849 TCCTAATTGG
* *
73338859 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
73338901 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
73338943 TAAAA
1 GAAAA
73338948 ATACTCCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:73338994 original size:19 final size:18
Alignment explanation
Indices: 73338972--73339011 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
73338962 TGAATAAAAC
73338972 TTATCTACCTAA-ATAAGAT
1 TTATCTACC-AATATAA-AT
73338991 TTATCTACCAATATAAAT
1 TTATCTACCAATATAAAT
73339009 TTA
1 TTA
73339012 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCAATATAAAT
Found at i:73342855 original size:42 final size:42
Alignment explanation
Indices: 73342808--73342896 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
73342798 TCCTAATTTG
*
73342808 GAAAATAGTTCACTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCACTTATTCTAATAAACTACTAAAAGATAAAA
*
73342850 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCACTTATTCTAATAAACTACTAAAAGATAAAA
*
73342892 TAAAA
1 GAAAA
73342897 ATATTCCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCACTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:73342917 original size:43 final size:42
Alignment explanation
Indices: 73342809--73342918 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 42
73342799 CCTAATTTGG
* * * * * *
73342809 AAAATAGTTCACTTATTCTAATAAACTACTAAAATATAAAAG
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAAGATAAAAA
* * *
73342851 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAAGATAAAA-A
73342894 AAAATA-TT-CCTAGAATATGAATAAA
1 AAAATAGTTCCCT-GAATAT-AATAAA
73342919 ACTTATCTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.05
42 44 0.75
43 12 0.20
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (42 bp):
AAAATAGTTCCCTGAATATAATAAACTACTAAAAGATAAAAA
Found at i:73342943 original size:19 final size:18
Alignment explanation
Indices: 73342921--73342960 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
73342911 TGAATAAAAC
73342921 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
73342940 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
73342958 TTA
1 TTA
73342961 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:73352276 original size:46 final size:48
Alignment explanation
Indices: 73352172--73352291 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
73352162 TGTCTTCGAC
** * *
73352172 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
73352220 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
73352266 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
73352292 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:73354862 original size:68 final size:67
Alignment explanation
Indices: 73354790--73354939 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
73354780 CATCATGTGT
* * * *
73354790 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
73354852 ATGTAG
62 ATGTAG
** * *
73354858 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
73354923 AG
66 AG
73354925 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
73354940 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:73354895 original size:64 final size:64
Alignment explanation
Indices: 73354814--73354997 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
73354804 AGACATTATG
* *
73354814 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
73354878 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
73354943 AA
63 AA
* * * *
73354945 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
73354998 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:73366499 original size:46 final size:46
Alignment explanation
Indices: 73366268--73366495 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
73366258 AGTTAAATAT
73366268 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
73366314 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
73366360 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
73366406 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
73366452 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
73366496 AGATGTATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:73366553 original size:47 final size:47
Alignment explanation
Indices: 73366499--73366609 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
73366489 ATGTATGAGA
* * *
73366499 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
73366546 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
73366593 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
73366610 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:73368824 original size:53 final size:54
Alignment explanation
Indices: 73368755--73368961 Score: 190
Period size: 53 Copynumber: 3.8 Consensus size: 54
73368745 TTCCTTTTTA
* * * *
73368755 AACTTACCATTTCCATGTCTT-GACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTAG-CATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
73368808 AACTCACCATTGCCATGCCTTAGCATGGTCTTACAAGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTAGCATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * *
73368862 TAGTTTATCAATGCCATGTCTT-G-ATAGGATCTTACATGACT-TCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTAGCAT-GG-TCTTACATG-GTATCCTTGCCTTATAG
*
73368917 AACTTACCAATGCCATGCCTTAGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTAGCATGGTCTTACATGGTATCCTT
73368962 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 38 0.31
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTAGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:73380392 original size:56 final size:56
Alignment explanation
Indices: 73380265--73380468 Score: 261
Period size: 56 Copynumber: 3.6 Consensus size: 56
73380255 ACATGTAATT
** * * *
73380265 ACATATCGATGCC-AC-TATTTCAAACCAGGTCTTACTCGTAAACACATATTGGAAATC
1 ACATATCGATGCCAACGTA-TT-AAACGTGGTCTTACTCGCACACACATA-TCGAAATC
* *
73380322 ACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACACATATCGAAATC
1 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
* *
73380378 ACATATCGATGCCAACGTATTAAACGTGGTCTTTCTCGCACACACATATC-AGAATA
1 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGA-AATC
*
73380434 ACATATCGATGCCAATGTATTAAACGTGGTCTTAC
1 ACATATCGATGCCAACGTATTAAACGTGGTCTTAC
73380469 ACGAATCAAA
Statistics
Matches: 131, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
55 1 0.01
56 90 0.69
57 34 0.26
58 4 0.03
59 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
Found at i:73380463 original size:112 final size:113
Alignment explanation
Indices: 73380265--73380468 Score: 279
Period size: 113 Copynumber: 1.8 Consensus size: 113
73380255 ACATGTAATT
* ** *
73380265 ACATATCGATGCCACTATTTCAAACCAGGTCTTACTCGTAAACACATATTGGAAATCACATATCG
1 ACATATCGATGCCACTATTTCAAACCAGGTCTTACTCGCAAACACATATCAGAAATAACATATCG
*
73380330 ATGCCAACGTATTAAATGTGGTCTTACTTGCACACACATATCGAAATC
66 ATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATCGAAATC
** * *
73380378 ACATATCGATGCCAACGTA-TT-AAACGTGGTCTTTCTCGCACACACATATCAG-AATAACATAT
1 ACATATCGATGCC-AC-TATTTCAAACCAGGTCTTACTCGCAAACACATATCAGAAATAACATAT
*
73380440 CGATGCCAATGTATTAAACGTGGTCTTAC
64 CGATGCCAACGTATTAAACGTGGTCTTAC
73380469 ACGAATCAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
112 36 0.46
113 37 0.47
114 4 0.05
115 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (113 bp):
ACATATCGATGCCACTATTTCAAACCAGGTCTTACTCGCAAACACATATCAGAAATAACATATCG
ATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATCGAAATC
Found at i:73380549 original size:43 final size:43
Alignment explanation
Indices: 73380434--73380655 Score: 270
Period size: 43 Copynumber: 5.2 Consensus size: 43
73380424 TATCAGAATA
*** *
73380434 ACATATCGATGCCAATGTATTAAACGTGGTCTTACACG-AATC
1 ACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATC
* * * *
73380476 AAATA-CAATGCCGATGTCCCAGACATGGTCTTACACGTAATC
1 ACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATC
* * *
73380518 ACATATCGATGCTAATGTCCTAGACGTGGTCTTACACGTAACC
1 ACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATC
* * *
73380561 ATATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAATC
1 ACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATC
* *
73380604 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG-AGAAC
1 ACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTA-ATC
73380647 ACATATCGA
1 ACATATCGA
73380656 AAATCCTATG
Statistics
Matches: 153, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
41 25 0.16
42 13 0.08
43 115 0.75
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATC
Found at i:73380653 original size:86 final size:85
Alignment explanation
Indices: 73380434--73380655 Score: 302
Period size: 86 Copynumber: 2.6 Consensus size: 85
73380424 TATCAGAATA
** * * * * *
73380434 ACATATCGATGCCAATGTATTAAACGTGGTCTTACACGAATCAAATA-CAATGCCGATGTCCCAG
1 ACATATCGATGCCAATGTCCTAGACGTGGTCTTACACGAAACAAATATCGATGCCAACGTCCCAG
73380498 ACATGGTCTTACACGTAATC
66 ACATGGTCTTACACGTAATC
* * *
73380518 ACATATCGATGCTAATGTCCTAGACGTGGTCTTACACGTAACCATATATCGATGCCAACGTCCCA
1 ACATATCGATGCCAATGTCCTAGACGTGGTCTTACACG-AAACAAATATCGATGCCAACGTCCCA
73380583 GACATGGTCTTACACGTAATC
65 GACATGGTCTTACACGTAATC
* * *
73380604 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAGAACACATATCGA
1 ACATATCGATGCCAATGTCCTAGACGTGGTCTTACACGA-AACAAATATCGA
73380656 AAATCCTATG
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 34 0.28
85 8 0.07
86 79 0.65
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ACATATCGATGCCAATGTCCTAGACGTGGTCTTACACGAAACAAATATCGATGCCAACGTCCCAG
ACATGGTCTTACACGTAATC
Found at i:73387071 original size:18 final size:17
Alignment explanation
Indices: 73387048--73387083 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
73387038 CAAGTGGCTT
73387048 GCCCGTGAGGGCCCACAC
1 GCCCGTG-GGGCCCACAC
*
73387066 GCCCGTGTGGCCCACAC
1 GCCCGTGGGGCCCACAC
73387083 G
1 G
73387084 GCCTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.44, G:0.33, T:0.08
Consensus pattern (17 bp):
GCCCGTGGGGCCCACAC
Found at i:73388536 original size:24 final size:23
Alignment explanation
Indices: 73388490--73388583 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 23
73388480 ATTCCTTTGC
* *
73388490 TATCCTTTTCGACCTTTTCATTGT
1 TATCCTTTTC-AACATTTCATTGT
* *
73388514 CATCATTTTCAACATTTCTATTGT
1 TATCCTTTTCAACATTTC-ATTGT
* * *
73388538 TATCCTTTTTATCATTTCCATTAT
1 TATCCTTTTCAACATTT-CATTGT
*
73388562 TATCCTTTTCAACCTTCTCATT
1 TATCCTTTTCAACATT-TCATT
73388584 TTTTTGGGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
23 6 0.11
24 47 0.85
25 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.03, T:0.53
Consensus pattern (23 bp):
TATCCTTTTCAACATTTCATTGT
Found at i:73388972 original size:31 final size:31
Alignment explanation
Indices: 73388937--73389007 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
73388927 TTATATACTT
73388937 TCCCTAAACTTTTACATTTCTTTCAATTTAG
1 TCCCTAAACTTTTACATTTCTTTCAATTTAG
73388968 TCCCTAAACTTTTACATTTCTTTCAATTTAG
1 TCCCTAAACTTTTACATTTCTTTCAATTTAG
73388999 TCCCTAAAC
1 TCCCTAAAC
73389008 CCGAAATTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.45
Consensus pattern (31 bp):
TCCCTAAACTTTTACATTTCTTTCAATTTAG
Found at i:73390323 original size:2 final size:2
Alignment explanation
Indices: 73390316--73390349 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
73390306 ACTAGAACAG
73390316 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
73390350 GTGGCGAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73390428 original size:27 final size:26
Alignment explanation
Indices: 73390382--73390433 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
73390372 GCGAGGCTGC
73390382 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
* *
73390408 CAGATATATGTGGCGAGGTCACCAGA
1 CAGATAT-TGTGACGAAGTCACCAGA
73390434 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:73391088 original size:27 final size:26
Alignment explanation
Indices: 73391057--73391417 Score: 340
Period size: 27 Copynumber: 13.4 Consensus size: 26
73391047 GGGGCAAAAT
* *
73391057 GGTAATTTTACCCCACGAGGGTATCTC
1 GGTAATTTTACCCTAC-AGGGTATTTC
* *
73391084 AGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTTTACCCTACAGGG-TATTTC
* *
73391111 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACA-GGGTATTTC
73391138 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTAC-AGGGTATTTC
73391165 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTAC-AGGGTATTTC
*
73391192 GGT-ATTTCTACCTTACAAGGGT-TTTC
1 GGTAATTT-TACCCTAC-AGGGTATTTC
*
73391218 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACA-GGGTATTTC
* * *
73391245 AGTAATTCTACCCTACAGGGGTGTTTC
1 GGTAATTTTACCCTACA-GGGTATTTC
73391272 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTAC-AGGGTATTTC
** *
73391299 ACTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACA-GGGTATTTC
* *
73391326 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACA-GGGTATTTC
*
73391353 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTAC-AGGGTATTTC
*
73391380 GGT-ATTTCTACCTTACAAGGGTATTTC
1 GGTAATTT-TACCCTAC-AGGGTATTTC
73391407 GGTAATTTTAC
1 GGTAATTTTAC
73391418 AAATCGGGAG
Statistics
Matches: 299, Mismatches: 21, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
25 1 0.00
26 32 0.11
27 253 0.85
28 13 0.04
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GGTAATTTTACCCTACAGGGTATTTC
Found at i:73391147 original size:54 final size:54
Alignment explanation
Indices: 73391057--73391413 Score: 468
Period size: 54 Copynumber: 6.6 Consensus size: 54
73391047 GGGGCAAAAT
* * *
73391057 GGTAATTTTACCCCAC-GAGGGTATCTCAGTAATTCTACCCTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAG-GGGTATTTCAGTAATTCTACCCTACAAGGG-TATTTC
* * *
73391111 AGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* * * * *
73391165 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCTTACAAGGGT-TTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* *
73391218 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* * * *
73391272 GGTATTTCTACCCTACAAGGGTATTTCACTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* *
73391326 AGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* * * *
73391380 GGTATTTCTACCTTACAAGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATT
73391414 TTACAAATCG
Statistics
Matches: 268, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
53 47 0.18
54 216 0.81
55 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
Found at i:73391432 original size:81 final size:81
Alignment explanation
Indices: 73391057--73391413 Score: 509
Period size: 81 Copynumber: 4.4 Consensus size: 81
73391047 GGGGCAAAAT
* * * * * *
73391057 GGTAATTTTACCCCACGAGGGTATCTCAGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
*
73391122 CCTACAGGGGTATTTC
66 CCTACAAGGGTATTTC
* * * * *
73391138 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
*
73391203 CTTACAAGGGT-TTTC
66 CCTACAAGGGTATTTC
* * *
73391218 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTGTTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
73391283 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
** *
73391299 ACTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
73391364 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * *
73391380 GGTATTTCTACCTTACAAGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
73391414 TTACAAATCG
Statistics
Matches: 245, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 73 0.30
81 172 0.70
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
CCTACAAGGGTATTTC
Found at i:73391457 original size:27 final size:26
Alignment explanation
Indices: 73391396--73391465 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
73391386 TCTACCTTAC
*
73391396 AAGGGTATTTCGGTAATTTTACAAAT
1 AAGGGTATTTTGGTAATTTTACAAAT
** * *
73391422 CGGGAGTATTTTGGTAATTTTGCTAATT
1 AAGG-GTATTTTGGTAATTTTAC-AAAT
73391450 AAGGGTATTTTGGTAA
1 AAGGGTATTTTGGTAA
73391466 ATTGGTAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 2 0.06
27 28 0.80
28 5 0.14
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (26 bp):
AAGGGTATTTTGGTAATTTTACAAAT
Found at i:73409449 original size:40 final size:39
Alignment explanation
Indices: 73409404--73409611 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
73409394 CGGAATACAA
*
73409404 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
73409444 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
73409484 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
73409524 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
73409564 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
73409604 CCGGATAT
1 CCGGATAT
73409612 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:73409544 original size:80 final size:81
Alignment explanation
Indices: 73409404--73409609 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
73409394 CGGAATACAA
* * *
73409404 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
73409468 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
73409484 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
73409547 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
73409564 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
73409610 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:73417599 original size:40 final size:39
Alignment explanation
Indices: 73417554--73417760 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
73417544 CGGAATACAA
*
73417554 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
73417594 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
73417634 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
73417673 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
73417713 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
73417753 CCGGATAT
1 CCGGATAT
73417761 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 30 0.21
40 109 0.78
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:73417743 original size:79 final size:81
Alignment explanation
Indices: 73417554--73417758 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 81
73417544 CGGAATACAA
* * *
73417554 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
73417617 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* * * * *
73417634 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-CCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
73417696 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * * *
73417713 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT
73417759 ATCATTCAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
79 60 0.57
80 42 0.40
81 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:73423386 original size:13 final size:14
Alignment explanation
Indices: 73423368--73423396 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
73423358 TCAATAGCAT
73423368 TTCAAATCTAA-AA
1 TTCAAATCTAAGAA
73423381 TTCAAATCTAAGAA
1 TTCAAATCTAAGAA
73423395 TT
1 TT
73423397 TTTCAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (14 bp):
TTCAAATCTAAGAA
Found at i:73423679 original size:32 final size:32
Alignment explanation
Indices: 73423638--73423704 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
73423628 TACTCAATTG
73423638 AATTTTCGTACATACCCGTACCATATCGTACC
1 AATTTTCGTACATACCCGTACCATATCGTACC
* * *
73423670 AATTTTCGTACATACCTGTATCATCTCGTACC
1 AATTTTCGTACATACCCGTACCATATCGTACC
73423702 AAT
1 AAT
73423705 CTTATACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (32 bp):
AATTTTCGTACATACCCGTACCATATCGTACC
Found at i:73423827 original size:56 final size:56
Alignment explanation
Indices: 73423755--73423873 Score: 202
Period size: 56 Copynumber: 2.1 Consensus size: 56
73423745 CAATGTCTCA
* *
73423755 CACACTAGATGCCATACCCGATACTTTGCAAACTAAGTGCCGTTCTGGATGTTTCG
1 CACACTAGATGACATACCCGATACCTTGCAAACTAAGTGCCGTTCTGGATGTTTCG
* *
73423811 CACACTAGATGACATACCCGATACCTTGCACACTAAGTGTCGTTCTGGATGTTTCG
1 CACACTAGATGACATACCCGATACCTTGCAAACTAAGTGCCGTTCTGGATGTTTCG
73423867 CACACTA
1 CACACTA
73423874 AGTGCCATTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (56 bp):
CACACTAGATGACATACCCGATACCTTGCAAACTAAGTGCCGTTCTGGATGTTTCG
Found at i:73423869 original size:28 final size:28
Alignment explanation
Indices: 73423786--73423909 Score: 117
Period size: 28 Copynumber: 4.4 Consensus size: 28
73423776 TACTTTGCAA
*
73423786 ACTAAGTGCCGTTCTGGATGTTTCGCAC
1 ACTAAGTGCCATTCTGGATGTTTCGCAC
* * ** **
73423814 ACT-AGATGACATACCCGATACCTT-GCAC
1 ACTAAG-TGCCATTCTGGAT-GTTTCGCAC
* *
73423842 ACTAAGTGTCGTTCTGGATGTTTCGCAC
1 ACTAAGTGCCATTCTGGATGTTTCGCAC
*
73423870 ACTAAGTGCCATTCTGGATGTATCGCAC
1 ACTAAGTGCCATTCTGGATGTTTCGCAC
*
73423898 ACTAAGCGCCAT
1 ACTAAGTGCCAT
73423910 CCCCGATACT
Statistics
Matches: 74, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
27 4 0.05
28 66 0.89
29 4 0.05
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (28 bp):
ACTAAGTGCCATTCTGGATGTTTCGCAC
Found at i:73427289 original size:28 final size:28
Alignment explanation
Indices: 73427224--73427324 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
73427214 ATAGTGAATC
*
73427224 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
73427253 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
73427281 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
73427311 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73427325 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.