Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 122 of 203
Found at i:38672783 original size:9 final size:9
Alignment explanation
Indices: 38672769--38672888 Score: 112
Period size: 9 Copynumber: 14.2 Consensus size: 9
38672759 GAAGGGATAT
38672769 TTATGTAAG
1 TTATGTAAG
38672778 TTATGTAAG
1 TTATGTAAG
38672787 TTATGT-A-
1 TTATGTAAG
* *
38672794 TTAAGTAAA
1 TTATGTAAG
38672803 TTATGTAAG
1 TTATGTAAG
38672812 TTATGT-A-
1 TTATGTAAG
*
38672819 TTATGTAAA
1 TTATGTAAG
38672828 TTATGTAAG
1 TTATGTAAG
*
38672837 TTATAT-A-
1 TTATGTAAG
* *
38672844 TTAAGTAGG
1 TTATGTAAG
*
38672853 TTATGTAAT
1 TTATGTAAG
*
38672862 TTATGT--C
1 TTATGTAAG
38672869 TTATGTAAG
1 TTATGTAAG
38672878 TTATGTAAG
1 TTATGTAAG
38672887 TT
1 TT
38672889 TTTGTTTTTG
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
7 21 0.23
8 5 0.06
9 64 0.71
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:38672801 original size:25 final size:25
Alignment explanation
Indices: 38672773--38672888 Score: 160
Period size: 25 Copynumber: 4.6 Consensus size: 25
38672763 GGATATTTAT
38672773 GTAAGTTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* *
38672798 GTAAATTATGTAAGTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTATTAA
* *
38672823 GTAAATTATGTAAGTTATATATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* * * *
38672848 GTAGGTTATGTAATTTATGTCTTAT
1 GTAAGTTATGTAAGTTATGTATTAA
38672873 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
38672889 TTTGTTTTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (25 bp):
GTAAGTTATGTAAGTTATGTATTAA
Found at i:38672846 original size:50 final size:50
Alignment explanation
Indices: 38672769--38672888 Score: 186
Period size: 50 Copynumber: 2.4 Consensus size: 50
38672759 GAAGGGATAT
*
38672769 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATATATTAAGTAAATTATGTAAGTTATGTA
* ** * *
38672819 TTATGTAAATTATGTAAGTTATATATTAAGTAGGTTATGTAATTTATGTC
1 TTATGTAAGTTATGTAAGTTATATATTAAGTAAATTATGTAAGTTATGTA
38672869 TTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTT
38672889 TTTGTTTTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (50 bp):
TTATGTAAGTTATGTAAGTTATATATTAAGTAAATTATGTAAGTTATGTA
Found at i:38672907 original size:50 final size:49
Alignment explanation
Indices: 38672769--38672915 Score: 145
Period size: 50 Copynumber: 2.9 Consensus size: 49
38672759 GAAGGGATAT
* *
38672769 TTATGTAAGTTATGTAAG-TTATGTATTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTTATGT-TTAAGT-GATTATGTAACTTATGTA
* * * * *
38672819 TTATGTAAATTATGTAAGTTATAT-ATTAAGTAGGTTATGTAATTTATGTC
1 TTATGTAAGTTATGTAAGTT-TATGTTTAAGT-GATTATGTAACTTATGTA
* **
38672869 TTATGTAAGTTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTAT
1 TTATGTAAGTTATGTAAGTTTATGTTTAAGTG-ATTATGTAACTTAT
38672916 TTAATTTGAT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.04
50 73 0.91
51 1 0.01
52 3 0.04
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.50
Consensus pattern (49 bp):
TTATGTAAGTTATGTAAGTTTATGTTTAAGTGATTATGTAACTTATGTA
Found at i:38672954 original size:12 final size:12
Alignment explanation
Indices: 38672937--38672981 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
38672927 TGGTTATGTA
38672937 TTATTATGTAAG
1 TTATTATGTAAG
* *
38672949 TTATTATTTAGG
1 TTATTATGTAAG
38672961 TTATTATGTAAG
1 TTATTATGTAAG
*
38672973 TCATTATGT
1 TTATTATGT
38672982 TGGTTATGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:38672965 original size:24 final size:24
Alignment explanation
Indices: 38672937--38672988 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
38672927 TGGTTATGTA
*
38672937 TTATTATGTAAGTTATTAT-TTAGG
1 TTATTATGTAAGTCATTATGTT-GG
38672961 TTATTATGTAAGTCATTATGTTGG
1 TTATTATGTAAGTCATTATGTTGG
38672985 TTAT
1 TTAT
38672989 GTAAGTTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (24 bp):
TTATTATGTAAGTCATTATGTTGG
Found at i:38673200 original size:29 final size:29
Alignment explanation
Indices: 38673167--38673241 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
38673157 ACGTAGGCTA
38673167 TGTATTATGCAAGTTATTTATGTAAGTGG
1 TGTATTATGCAAGTTATTTATGTAAGTGG
38673196 TGTATTATGCAAGTTATTTATGTAAGTGG
1 TGTATTATGCAAGTTATTTATGTAAGTGG
*
38673225 TGTATTATGTAAGTTAT
1 TGTATTATGCAAGTTAT
38673242 GTACGCTATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.47
Consensus pattern (29 bp):
TGTATTATGCAAGTTATTTATGTAAGTGG
Found at i:38673244 original size:16 final size:16
Alignment explanation
Indices: 38673135--38673244 Score: 70
Period size: 16 Copynumber: 7.1 Consensus size: 16
38673125 GTAAGTGGTA
*
38673135 TATTATGTAAGTTAAG
1 TATTATGTAAGTTATG
* * *
38673151 TAAGTTACGTAGGCTATG
1 T-A-TTATGTAAGTTATG
*
38673169 TATTATGCAAGTTA--
1 TATTATGTAAGTTATG
**
38673183 T-TTATGTAAGTGGTG
1 TATTATGTAAGTTATG
*
38673198 TATTATGCAAGTTA--
1 TATTATGTAAGTTATG
**
38673212 T-TTATGTAAGTGGTG
1 TATTATGTAAGTTATG
38673227 TATTATGTAAGTTATG
1 TATTATGTAAGTTATG
38673243 TA
1 TA
38673245 CGCTATGTAT
Statistics
Matches: 67, Mismatches: 19, Indels: 16
0.66 0.19 0.16
Matches are distributed among these distances:
13 18 0.27
14 2 0.03
15 2 0.03
16 32 0.48
17 2 0.03
18 11 0.16
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (16 bp):
TATTATGTAAGTTATG
Found at i:38675648 original size:22 final size:23
Alignment explanation
Indices: 38675623--38675666 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
38675613 ATTTTTAGTG
38675623 TTTTAATT-TCATTTT-TTTTCTA
1 TTTTAATTATC-TTTTATTTTCTA
38675645 TTTTAATTATCTTTTATTTTCT
1 TTTTAATTATCTTTTATTTTCT
38675667 TCCACATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTAATTATCTTTTATTTTCTA
Found at i:38676091 original size:83 final size:83
Alignment explanation
Indices: 38675997--38676648 Score: 1288
Period size: 83 Copynumber: 7.9 Consensus size: 83
38675987 ATTAGAAAAA
38675997 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676062 AATTACATAAAGAATTAT
66 AATTACATAAAGAATTAT
38676080 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676145 AATTACATAAAGAATTAT
66 AATTACATAAAGAATTAT
38676163 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676228 AATTACATAAAGAATTAT
66 AATTACATAAAGAATTAT
38676246 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676311 AATTACATAAAGAATTAT
66 AATTACATAAAGAATTAT
38676329 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676394 AATTACATAAAGAATTAT
66 AATTACATAAAGAATTAT
38676412 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676477 AATTACATAAAGAATTAT
66 AATTACATAAAGAATTAT
38676495 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676560 AATTACATAAAGAATTAT
66 AATTACATAAAGAATTAT
38676578 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTA-AA
1 TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
38676642 TAATTAC
66 -AATTAC
38676649 CTATCTATCC
Statistics
Matches: 568, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
82 2 0.00
83 566 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (83 bp):
TTTTTATTTCATTTTTATTTTTGTATTTTATTTTTTCTTATAATTTGGTCCTATCCAAATTATAA
AATTACATAAAGAATTAT
Found at i:38676106 original size:19 final size:18
Alignment explanation
Indices: 38676076--38676114 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
38676066 ACATAAAGAA
38676076 TTATTTTTTATTTCATTT
1 TTATTTTTTATTTCATTT
*
38676094 TTATTTTTGTATTTTATTT
1 TTATTTTT-TATTTCATTT
38676113 TT
1 TT
38676115 TCTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTATTTCATTT
Found at i:38676189 original size:19 final size:18
Alignment explanation
Indices: 38676159--38676197 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
38676149 ACATAAAGAA
38676159 TTATTTTTTATTTCATTT
1 TTATTTTTTATTTCATTT
*
38676177 TTATTTTTGTATTTTATTT
1 TTATTTTT-TATTTCATTT
38676196 TT
1 TT
38676198 TCTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTATTTCATTT
Found at i:38676272 original size:19 final size:18
Alignment explanation
Indices: 38676242--38676280 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
38676232 ACATAAAGAA
38676242 TTATTTTTTATTTCATTT
1 TTATTTTTTATTTCATTT
*
38676260 TTATTTTTGTATTTTATTT
1 TTATTTTT-TATTTCATTT
38676279 TT
1 TT
38676281 TCTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTATTTCATTT
Found at i:38676355 original size:19 final size:18
Alignment explanation
Indices: 38676325--38676363 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
38676315 ACATAAAGAA
38676325 TTATTTTTTATTTCATTT
1 TTATTTTTTATTTCATTT
*
38676343 TTATTTTTGTATTTTATTT
1 TTATTTTT-TATTTCATTT
38676362 TT
1 TT
38676364 TCTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTATTTCATTT
Found at i:38676438 original size:19 final size:18
Alignment explanation
Indices: 38676408--38676446 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
38676398 ACATAAAGAA
38676408 TTATTTTTTATTTCATTT
1 TTATTTTTTATTTCATTT
*
38676426 TTATTTTTGTATTTTATTT
1 TTATTTTT-TATTTCATTT
38676445 TT
1 TT
38676447 TCTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTATTTCATTT
Found at i:38676521 original size:19 final size:18
Alignment explanation
Indices: 38676491--38676529 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
38676481 ACATAAAGAA
38676491 TTATTTTTTATTTCATTT
1 TTATTTTTTATTTCATTT
*
38676509 TTATTTTTGTATTTTATTT
1 TTATTTTT-TATTTCATTT
38676528 TT
1 TT
38676530 TCTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTATTTCATTT
Found at i:38676604 original size:19 final size:18
Alignment explanation
Indices: 38676574--38676612 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
38676564 ACATAAAGAA
38676574 TTATTTTTTATTTCATTT
1 TTATTTTTTATTTCATTT
*
38676592 TTATTTTTGTATTTTATTT
1 TTATTTTT-TATTTCATTT
38676611 TT
1 TT
38676613 TCTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTATTTCATTT
Found at i:38677111 original size:42 final size:40
Alignment explanation
Indices: 38677027--38677200 Score: 204
Period size: 41 Copynumber: 4.2 Consensus size: 40
38677017 ATAAAAAAAT
* * **
38677027 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTTAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAG-GCAGAGC
* *
38677068 ATTAGCGGCGCTTATTCAAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTC-AAAAACGCCGCTAAAGG-CAGAGC
* ** *
38677110 ATTACCGGCGCTTCTTCAAAAACGTTGCTAAAGGATAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGG-CAGAGC
* *
38677151 ATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGGTAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCAGAGC
38677191 ATTAGCGGCG
1 ATTAGCGGCG
38677201 TTTTCTGAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 15 0.13
41 65 0.57
42 34 0.30
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (40 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCAGAGC
Found at i:38677171 original size:83 final size:81
Alignment explanation
Indices: 38677027--38677200 Score: 224
Period size: 83 Copynumber: 2.1 Consensus size: 81
38677017 ATAAAAAAAT
* ** * *
38677027 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTTAGCATTAGCGGCGCTTATTCAAAAAAT
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCAGAGCATTAGCGACGCTTATTC-AAAAAC
38677092 GCCGCTAAAGGCCAGAGC
65 GCCGCTAAAGG-CAGAGC
* ** *
38677110 ATTACCGGCGCTTCTTCAAAAACGTTGCTAAAGGAT-AGAGCATTAGCGACGCTTCTTCAAAAAC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAA-GATCAGAGCATTAGCGACGCTTATTCAAAAAC
*
38677174 GCCGCTAAAGGTAGAGC
65 GCCGCTAAAGGCAGAGC
38677191 ATTAGCGGCG
1 ATTAGCGGCG
38677201 TTTTCTGAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 14 0.18
82 16 0.20
83 46 0.58
84 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (81 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCAGAGCATTAGCGACGCTTATTCAAAAACG
CCGCTAAAGGCAGAGC
Found at i:38678677 original size:23 final size:24
Alignment explanation
Indices: 38678620--38678685 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
38678610 TTTTATCATT
38678620 TTAATTATTTGTTAATATTTAAAATA
1 TTAATTA-TT-TTAATATTTAAAATA
*
38678646 TT--TTAATTTTAATTTTTAAAA-A
1 TTAATT-ATTTTAATATTTAAAATA
*
38678668 TTAATTATTTTAAAATTT
1 TTAATTATTTTAATATTT
38678686 CCACAAAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 22 0.65
24 6 0.18
25 1 0.03
26 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTAATTATTTTAATATTTAAAATA
Found at i:38681811 original size:25 final size:26
Alignment explanation
Indices: 38681757--38681824 Score: 120
Period size: 25 Copynumber: 2.6 Consensus size: 26
38681747 AAAAATAAAA
38681757 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATA-TATAACTTTTTTT
38681784 ATTTACCAAAATATATAA-TTTTTTT
1 ATTTACCAAAATATATAACTTTTTTT
38681809 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
38681825 CAAAAAAACC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 23 0.56
26 5 0.12
27 13 0.32
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTACCAAAATATATAACTTTTTTT
Found at i:38681954 original size:4 final size:4
Alignment explanation
Indices: 38681947--38682096 Score: 105
Period size: 4 Copynumber: 37.0 Consensus size: 4
38681937 GAAGGGGAGG
* * * *
38681947 GAAA GAAA GAAA GAAA GAGA GAAA GAAA GGAA GAAA TGAGAG GGAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA
* * *
38681997 G-AA -AAA GAAG GAAA GAAA GGGAAA G-GA GAAGA GAAA AAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA --GAAA GAAA GAA-A GAAA GAAA GAAA GAAA
* *
38682045 G-AA G-AA GAAGA GAAG GAAAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA
1 GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
38682093 GAAA
1 GAAA
38682097 AGGAAAGGAG
Statistics
Matches: 115, Mismatches: 18, Indels: 26
0.72 0.11 0.16
Matches are distributed among these distances:
3 15 0.13
4 77 0.67
5 18 0.16
6 5 0.04
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:38682039 original size:44 final size:43
Alignment explanation
Indices: 38681991--38682143 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
38681981 AATGAGAGGG
38681991 AAGAAAGAAAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
1 AAGAAAGAAAAAGAAGGAAAGAAA-GGAAAGGAGAAGAGAAAAA
*
38682035 AAGAAAGAAAGAAGAA-G-AAGAGAAGGAAAAGAG-A-AG-AAAA
1 AAGAAAGAAA-AAGAAGGAAAGA-AAGGAAAGGAGAAGAGAAAAA
38682075 AAGAAAG--AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAA
1 AAGAAAGAAAAAGAAGGAAAG-AAAGGAAAGGAGAAGAGAAAAA
* * *
38682117 AAG-AAGAAGAAG-AGGGAAGGAAGGAAA
1 AAGAAAGAAAAAGAAGGAAAGAAAGGAAA
38682144 AAAAAAGAAA
Statistics
Matches: 94, Mismatches: 5, Indels: 23
0.77 0.04 0.19
Matches are distributed among these distances:
37 5 0.05
38 2 0.02
39 13 0.14
40 13 0.14
41 14 0.15
42 14 0.15
43 15 0.16
44 13 0.14
45 5 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (43 bp):
AAGAAAGAAAAAGAAGGAAAGAAAGGAAAGGAGAAGAGAAAAA
Found at i:38682043 original size:48 final size:45
Alignment explanation
Indices: 38681948--38682121 Score: 155
Period size: 44 Copynumber: 4.1 Consensus size: 45
38681938 AAGGGGAGGG
**
38681948 AAAGAAAGAAAGAAAG-AGAGAAAGAAAGG-AA-GA-AATGAG-AGG
1 AAAGAAAGAAAGAAAGAAG-GAAAGAAAGGAAAGGAGAA-GAGAAAA
*
38681990 GAAGAAAG-AA-AAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAGAAAGAAGGAAAGAAA-GGAAAGGAGAAGAGAAAA
* *
38682034 AAAGAAAGAAAG-AAGAA-G-AAG--A-G-AAGGAAAAGAG-AAG
1 AAAGAAAGAAAGAAAGAAGGAAAGAAAGGAAAGGAGAAGAGAAAA
38682071 AAA-AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAGAAAGAAGGAAAG-AAAGGAAAGGAGAAGAGAAAA
38682116 AAAGAA
1 AAAGAA
38682122 GAAGAAGAGG
Statistics
Matches: 106, Mismatches: 8, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
36 8 0.08
37 10 0.09
38 11 0.10
39 4 0.04
40 12 0.11
41 7 0.07
42 10 0.09
43 9 0.08
44 21 0.20
45 12 0.11
46 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (45 bp):
AAAGAAAGAAAGAAAGAAGGAAAGAAAGGAAAGGAGAAGAGAAAA
Found at i:38682072 original size:29 final size:29
Alignment explanation
Indices: 38682023--38682153 Score: 97
Period size: 29 Copynumber: 4.8 Consensus size: 29
38682013 AAGGGAAAGG
*
38682023 AGAAGAGAA-AAAAAG-AAAGAAAGAAGA
1 AGAAGAGAAGGAAAAGAAAAGAAAGAAGA
* *
38682050 AGAAGAGAAGGAAAAGAGAAGAAAAAAGAA
1 AGAAGAGAAGGAAAAGAAAAGAAAGAAG-A
38682080 AGAA-AGAAGG-AAAGAAAAGGAAAG--G-
1 AGAAGAGAAGGAAAAGAAAA-GAAAGAAGA
*
38682105 AGAAGAGAA--AAAA-AGAAG-AAGAAGA
1 AGAAGAGAAGGAAAAGAAAAGAAAGAAGA
* *
38682130 GGGAAG-GAAGGAAAAAAAAAGAAA
1 -AGAAGAGAAGGAAAAGAAAAGAAA
38682154 AAAAAGGTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
22 3 0.04
23 1 0.01
24 4 0.05
25 10 0.12
26 8 0.10
27 14 0.17
28 16 0.20
29 21 0.26
30 5 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
AGAAGAGAAGGAAAAGAAAAGAAAGAAGA
Found at i:38682088 original size:82 final size:80
Alignment explanation
Indices: 38681947--38682156 Score: 250
Period size: 82 Copynumber: 2.6 Consensus size: 80
38681937 GAAGGGGAGG
* * * *
38681947 GAAAGAAAGAAAGAAAGAGAGAAAGAA-AGGAA-GAAATGAGAGGGAAGAAAGAAAAAGAAGGAA
1 GAAAAAAAGAAAGAAAGA-AG-AAGAAGA-GAAGGAAAAGAGA-AGAAAAAAGAAAAAGAAGGAA
*
38682010 AGAAAGGGAAAGGAGAAGA
62 AGAAAAGGAAAGGAGAAGA
38682029 GAAAAAAAGAAAGAAAGAAGAAGAAGAGAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAG
1 GAAAAAAAGAAAGAAAGAAGAAGAAGAGAAGGAAAAGAGAAGAAAAAAG-AA-AAAGAAGGAAAG
38682094 AAAAGGAAAGGAGAAGA
64 AAAAGGAAAGGAGAAGA
* * *
38682111 GAAAAAAAG-AAG-AAGAAGAGGGAAG-GAAGGAAAAAAAAAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAGA-AGAAGAGAAGGAAAAGAGAAGAAAAAA
38682157 AAGGTAATTT
Statistics
Matches: 115, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
80 41 0.36
81 20 0.17
82 54 0.47
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (80 bp):
GAAAAAAAGAAAGAAAGAAGAAGAAGAGAAGGAAAAGAGAAGAAAAAAGAAAAAGAAGGAAAGAA
AAGGAAAGGAGAAGA
Found at i:38682888 original size:22 final size:21
Alignment explanation
Indices: 38682860--38682911 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
38682850 AAATAATAGA
*
38682860 GGAAAAAAAAGGGTGATGTAGG
1 GGAAAAAAAA-GGTGATGGAGG
38682882 GGAAAAAAAAGGTGATGGAGG
1 GGAAAAAAAAGGTGATGGAGG
38682903 GGAAAAAAA
1 GGAAAAAAA
38682912 GGCGGCACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.52, C:0.00, G:0.38, T:0.10
Consensus pattern (21 bp):
GGAAAAAAAAGGTGATGGAGG
Found at i:38688579 original size:15 final size:12
Alignment explanation
Indices: 38688542--38688572 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38688532 AAAAAAATTT
*
38688542 ATACTCAAAATA
1 ATACACAAAATA
38688554 ATACACAAAATA
1 ATACACAAAATA
38688566 ATACACA
1 ATACACA
38688573 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:38689104 original size:22 final size:21
Alignment explanation
Indices: 38689086--38689129 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
38689076 ATTTTTTATT
38689086 GATGTAATATAAAAATTTTAAA
1 GATGTAAT-TAAAAATTTTAAA
*
38689108 GATGTAATTAAAGTATTTTAAA
1 GATGTAATTAAA-AATTTTAAA
38689130 AATTCACCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (21 bp):
GATGTAATTAAAAATTTTAAA
Found at i:38689154 original size:16 final size:16
Alignment explanation
Indices: 38689130--38689187 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
38689120 GTATTTTAAA
*
38689130 AATTCACCTCTAATAC
1 AATTTACCTCTAATAC
* *
38689146 AATTTACCTTTAAAATTAAA
1 AATTTACCTCT--AA-T-AC
38689166 AATTTACCTCTAATAC
1 AATTTACCTCTAATAC
38689182 AATTTA
1 AATTTA
38689188 AAGTATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 16 0.48
17 1 0.03
18 4 0.12
19 1 0.03
20 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTTACCTCTAATAC
Found at i:38691508 original size:21 final size:20
Alignment explanation
Indices: 38691469--38691512 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
38691459 GTCATTTTAA
38691469 AAATATATTAATATATATAC
1 AAATATATTAATATATATAC
38691489 AAATATATCTCAAT-TATATAC
1 AAATATAT-T-AATATATATAC
38691510 AAA
1 AAA
38691513 GAAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 11 0.50
22 3 0.14
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATATTAATATATATAC
Found at i:38696680 original size:21 final size:21
Alignment explanation
Indices: 38696654--38696696 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
38696644 ATGAAGTAAA
38696654 AAAACAAAGAA-ACAAAGAAAC
1 AAAACAAAGAAGA-AAAGAAAC
38696675 AAAACAAAGAAGAAAAGAAAC
1 AAAACAAAGAAGAAAAGAAAC
38696696 A
1 A
38696697 GAGAGCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.77, C:0.12, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAACAAAGAAGAAAAGAAAC
Found at i:38697705 original size:23 final size:23
Alignment explanation
Indices: 38697678--38697742 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
38697668 GCTTTGTCGA
*
38697678 TCAGGTACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
*
38697701 TCAGGCACTTTGTGTGTCG--TT
1 TCAGGCACTTTATGTGTCGTATT
*
38697722 CCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
38697743 ATTGATCAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 9 0.25
21 9 0.25
22 1 0.03
23 17 0.47
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:38707032 original size:19 final size:20
Alignment explanation
Indices: 38706995--38707035 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
38706985 TACCACACAA
*
38706995 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
38707015 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
38707034 TT
1 TT
38707036 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:38707349 original size:13 final size:13
Alignment explanation
Indices: 38707331--38707356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38707321 AGTAGTACTT
38707331 AACACTGGGATTC
1 AACACTGGGATTC
38707344 AACACTGGGATTC
1 AACACTGGGATTC
38707357 CAAAAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
AACACTGGGATTC
Found at i:38707576 original size:26 final size:25
Alignment explanation
Indices: 38707529--38707577 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
38707519 ATTCATTCTT
* *
38707529 TTATTATACTTACTTTATTATTATA
1 TTATTATACTTACTTAAATATTATA
*
38707554 TTATATATATTTACTTAAATATTA
1 TTAT-TATACTTACTTAAATATTA
38707578 AGTAAAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTATACTTACTTAAATATTATA
Found at i:38709744 original size:18 final size:18
Alignment explanation
Indices: 38709721--38709756 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
38709711 CAAGGACTCA
38709721 TCAGTTT-ATTTTTCTAGT
1 TCAGTTTAATTTTT-TAGT
38709739 TCAGTTTAATTTTTTAGT
1 TCAGTTTAATTTTTTAGT
38709757 ACAACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.61
Consensus pattern (18 bp):
TCAGTTTAATTTTTTAGT
Found at i:38739828 original size:25 final size:25
Alignment explanation
Indices: 38739799--38739858 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
38739789 GAATAAACTA
38739799 CTAAACTAAATTTTACACAGAGAAC
1 CTAAACTAAATTTTACACAGAGAAC
38739824 CTAAACTAAATTTTACACAGAGAAC
1 CTAAACTAAATTTTACACAGAGAAC
*
38739849 CTAGACTAAA
1 CTAAACTAAA
38739859 GGAATGGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.23
Consensus pattern (25 bp):
CTAAACTAAATTTTACACAGAGAAC
Found at i:38749207 original size:20 final size:20
Alignment explanation
Indices: 38749129--38749209 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
38749119 TGCACCACAC
*
38749129 CAGAGGCATCAAAGATGCATAA
1 CAGAGGCACCAAAG-TGCA-AA
*
38749151 TAGAGGCACCAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
* *
38749171 CAAAGACA-CAAATGTGCAAA
1 CAGAGGCACCAAA-GTGCAAA
*
38749191 CAGAGGCACCGAAGTGCAA
1 CAGAGGCACCAAAGTGCAA
38749210 TCCCGTACAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 4 0.08
20 26 0.53
21 7 0.14
22 12 0.24
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAA
Found at i:38753275 original size:26 final size:27
Alignment explanation
Indices: 38753246--38753305 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
38753236 TACCCCCAGT
*
38753246 AAATTTTGGATAATTTTACCC-TGGTA
1 AAATTTTGGACAATTTTACCCTTGGTA
* *
38753272 AAATTTT-GACGATTTTGCCCTTGGTA
1 AAATTTTGGACAATTTTACCCTTGGTA
38753298 AAATTTTG
1 AAATTTTG
38753306 AGAAAATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (27 bp):
AAATTTTGGACAATTTTACCCTTGGTA
Found at i:38753286 original size:25 final size:26
Alignment explanation
Indices: 38753258--38753306 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
38753248 ATTTTGGATA
38753258 ATTTTACCC-TGGTAAAATTTTGACG
1 ATTTTACCCTTGGTAAAATTTTGACG
*
38753283 ATTTTGCCCTTGGTAAAATTTTGA
1 ATTTTACCCTTGGTAAAATTTTGA
38753307 GAAAATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (26 bp):
ATTTTACCCTTGGTAAAATTTTGACG
Found at i:38757650 original size:131 final size:131
Alignment explanation
Indices: 38757494--38757731 Score: 361
Period size: 131 Copynumber: 1.8 Consensus size: 131
38757484 TCCGTGCCCT
* * * * *
38757494 TGTAACTCTTTGACATGGGTTACACAACCAAGCCAGATGCTCGTGTGCTAGGCTGTGTAACACTT
1 TGTAACTCTTTGACATGGGTCACACAACCAAGCCAGACGCCCATGTGCTAGGCCGTGTAACACTT
*
38757559 GAAATGCAACCTTTAAAACCTACAGGGGACACACGGCCATGTGTCATGTGTCCCAGCCCGTGTTC
66 GAAATGCAACCTTTAAAACCTACAGGGGACAAACGGCCATGTGTCATGTGTCCCAGCCCGTGTTC
38757624 G
131 G
* * *
38757625 TGTAACTCTCTT-ACTTGGGTCACACAGCCAAGCCAGACGCCCATGTGCTAGGCCGTGTAACCCT
1 TGTAACTCT-TTGACATGGGTCACACAACCAAGCCAGACGCCCATGTGCTAGGCCGTGTAACACT
* *
38757689 TGAAATGCAGCCTTTCAAACCTACAGGGGACAAACGGCCATGT
65 TGAAATGCAACCTTTAAAACCTACAGGGGACAAACGGCCATGT
38757732 CGCATTGCCG
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 93 0.98
132 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (131 bp):
TGTAACTCTTTGACATGGGTCACACAACCAAGCCAGACGCCCATGTGCTAGGCCGTGTAACACTT
GAAATGCAACCTTTAAAACCTACAGGGGACAAACGGCCATGTGTCATGTGTCCCAGCCCGTGTTC
G
Found at i:38759224 original size:41 final size:40
Alignment explanation
Indices: 38759179--38759296 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 40
38759169 CAAGATCGAG
38759179 GCCTGATATAATACACCGGCATGAAGCCTGCTAGGCATCA-A
1 GCCTGATAT-ATACACCGGCATGAAGCCTGCTAGGCA-CAGA
* * *
38759220 GCCTGATCTCATACACCAGCATGAAACCTGCTAGGCACAGA
1 GCCTGATAT-ATACACCGGCATGAAGCCTGCTAGGCACAGA
**
38759261 G-CTCGA-ATAT-CACCGGCACAAAGCCTGCTAGGCACA
1 GCCT-GATATATACACCGGCATGAAGCCTGCTAGGCACA
38759297 AAGCTCGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 22 0.33
39 2 0.03
40 5 0.08
41 37 0.56
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (40 bp):
GCCTGATATATACACCGGCATGAAGCCTGCTAGGCACAGA
Found at i:38763685 original size:6 final size:6
Alignment explanation
Indices: 38763674--38763698 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38763664 TACAAATGGA
38763674 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
38763699 TGGAAACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:38765533 original size:11 final size:11
Alignment explanation
Indices: 38765519--38765545 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38765509 AGGTATAGGG
38765519 AAACATTTCCT
1 AAACATTTCCT
38765530 AAACATTTCCT
1 AAACATTTCCT
38765541 AAACA
1 AAACA
38765546 GAACATTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (11 bp):
AAACATTTCCT
Found at i:38765629 original size:32 final size:32
Alignment explanation
Indices: 38765593--38765653 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
38765583 AGGCATAGAG
*
38765593 TAGTAACAAGGATTAAACTAGCTTCAAGTTCT
1 TAGTAACAAGGACTAAACTAGCTTCAAGTTCT
38765625 TAGTAACAAGGACTAAACTAGCTTCAAGT
1 TAGTAACAAGGACTAAACTAGCTTCAAGT
38765654 CCTTGACACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (32 bp):
TAGTAACAAGGACTAAACTAGCTTCAAGTTCT
Found at i:38769266 original size:21 final size:21
Alignment explanation
Indices: 38769242--38769281 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38769232 GTAAAAGTTG
38769242 GAAAAACAACAGCAAAACATA
1 GAAAAACAACAGCAAAACATA
* *
38769263 GAAAAATAGCAGCAAAACA
1 GAAAAACAACAGCAAAACA
38769282 GCAAGGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.17, G:0.12, T:0.05
Consensus pattern (21 bp):
GAAAAACAACAGCAAAACATA
Found at i:38769743 original size:18 final size:18
Alignment explanation
Indices: 38769722--38769758 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
38769712 TGAGTTTTTG
38769722 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
38769740 AATTCGAATAACTCGAAT
1 AATTCAAATAACTCGAAT
38769758 A
1 A
38769759 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:38769746 original size:9 final size:9
Alignment explanation
Indices: 38769728--38769758 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38769718 TTTGAATTCA
38769728 AATAACTCG
1 AATAACTCG
*
38769737 AATAATTCG
1 AATAACTCG
38769746 AATAACTCG
1 AATAACTCG
38769755 AATA
1 AATA
38769759 TCAAACTATA
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:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (9 bp):
AATAACTCG
Found at i:38773548 original size:14 final size:13
Alignment explanation
Indices: 38773524--38773553 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
38773514 GATTAAAGCT
38773524 TTTATTTAATTAG
1 TTTATTTAATTAG
38773537 TTTATATTAATTAG
1 TTTAT-TTAATTAG
38773551 TTT
1 TTT
38773554 TAAATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTATTTAATTAG
Found at i:38791197 original size:15 final size:15
Alignment explanation
Indices: 38791161--38791199 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
38791151 CTGCTTTCCC
38791161 AAATCCC-CTTCTAA
1 AAATCCCTCTTCTAA
*
38791175 AAAT-CCTCTTGTAA
1 AAATCCCTCTTCTAA
38791189 AAATCCCTCTT
1 AAATCCCTCTT
38791200 ACCCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 14 0.64
15 6 0.27
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATCCCTCTTCTAA
Found at i:38792660 original size:56 final size:56
Alignment explanation
Indices: 38792579--38792735 Score: 242
Period size: 56 Copynumber: 2.8 Consensus size: 56
38792569 TGTGCACTAT
* **
38792579 TAGGATATTATTATGAGACATTATCTTTTAGCAATTTGATTTGTAATAGGATATTA
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTA
* * *
38792635 TAGGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTA
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTA
* *
38792691 TAGGAGATTATTATGAGATATTATCTTTTAGCAATGTGATTCCTA
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTA
38792736 CGTAACTACT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 91 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (56 bp):
TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTA
Found at i:38794583 original size:12 final size:12
Alignment explanation
Indices: 38794566--38794596 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38794556 CCTCAGACAC
38794566 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
38794578 CCGTGTGCTAGG
1 CCGTGTGCCAGG
38794590 CCGTGTG
1 CCGTGTG
38794597 AAAACTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:38798434 original size:27 final size:27
Alignment explanation
Indices: 38798399--38798520 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
38798389 CAGAAAGGTT
* *
38798399 GTAAAATGATCGTAATACCCCTTTAAG
1 GTAAAATGACCGTAATACCCCTGTAAG
* *
38798426 GTAAAATGACCATAATGCCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTGTAAG
* *
38798453 GTAAAATGACCGTAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAAG
* *
38798480 GT-AAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAAG
38798506 GT-AAATGACCGTAAT
1 GTAAAATGACCGTAAT
38798521 GCCCTGGTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 37 0.44
27 48 0.56
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAAG
Found at i:38798485 original size:26 final size:26
Alignment explanation
Indices: 38798402--38798539 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
38798392 AAAGGTTGTA
* * *
38798402 AAATGATCGTAATACCCCTT-TAAGGT
1 AAATGACCGTAAT-GCCCTTGTAGGGT
* * *
38798428 AAAATGACCATAATGCCCCTGTAAGGT
1 -AAATGACCGTAATGCCCTTGTAGGGT
*
38798455 AAAATGACCGTAATACCCTTGTAGGGT
1 -AAATGACCGTAATGCCCTTGTAGGGT
*
38798482 AAATGACCGTAATGCCCCTGTAGGGT
1 AAATGACCGTAATGCCCTTGTAGGGT
*
38798508 AAATGACCGTAATGCCCTGGT-GGGT
1 AAATGACCGTAATGCCCTTGTAGGGT
38798533 AAATGAC
1 AAATGAC
38798540 TATTTTTCCC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
25 11 0.11
26 47 0.48
27 40 0.41
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (26 bp):
AAATGACCGTAATGCCCTTGTAGGGT
Found at i:38798497 original size:53 final size:53
Alignment explanation
Indices: 38798399--38798539 Score: 189
Period size: 53 Copynumber: 2.7 Consensus size: 53
38798389 CAGAAAGGTT
* *
38798399 GTAAAATGATCGTAATACCCCTT-TAAGGTAAAATGACCATAATGCCCCTGTAAG
1 GTAAAATGACCGTAATA-CCCTTGTAGGGT-AAATGACCATAATGCCCCTGTAAG
* *
38798453 GTAAAATGACCGTAATACCCTTGTAGGGTAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCTTGTAGGGTAAATGACCATAATGCCCCTGTAAG
* *
38798506 GT-AAATGACCGTAATGCCCTGGT-GGGTAAATGAC
1 GTAAAATGACCGTAATACCCTTGTAGGGTAAATGAC
38798540 TATTTTTCCC
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
51 11 0.14
52 19 0.24
53 29 0.36
54 21 0.26
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (53 bp):
GTAAAATGACCGTAATACCCTTGTAGGGTAAATGACCATAATGCCCCTGTAAG
Found at i:38798616 original size:24 final size:24
Alignment explanation
Indices: 38798583--38798641 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
38798573 TCTGTGGTTA
38798583 AATGACTGATTTGTCTAT-ATTTGG
1 AATGACTGATTTGTCTATAATTT-G
* *
38798607 TATGACTGATTTGTCTGTAATTTG
1 AATGACTGATTTGTCTATAATTTG
38798631 AATGACTGATT
1 AATGACTGATT
38798642 CTGAGCATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTGTCTATAATTTG
Found at i:38798766 original size:27 final size:27
Alignment explanation
Indices: 38798715--38798767 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38798705 TATTGTTCTG
* *
38798715 GTGGCTTTGCCACAATCACTGTTACTA
1 GTGGCTTGGCCACAATCACTATTACTA
38798742 GTGGCTTGGCCACATAT-ACTATTACT
1 GTGGCTTGGCCACA-ATCACTATTACT
38798768 GGCAGCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (27 bp):
GTGGCTTGGCCACAATCACTATTACTA
Found at i:38798831 original size:32 final size:32
Alignment explanation
Indices: 38798787--38799004 Score: 238
Period size: 32 Copynumber: 6.8 Consensus size: 32
38798777 GCTGCGATGC
* * *
38798787 TACTGATGGCTTTGTGCCGGTTATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* * * * *
38798819 TATTGATGGCTTTGTGCTGACCATAATAACAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* * * *
38798851 TACTAATGGCTTTATACCGATCATAATACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
38798883 TACTGATGGCTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* * **
38798915 TACTGATGGCTTTTTGCTGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* * * *
38798947 TGCTAATGGCTTTGTGTCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* *
38798979 TACTGATGGCTGTGTGCCAATCATAT
1 TACTGATGGCTTTGTGCCGATCATAT
38799005 CACTGCTACT
Statistics
Matches: 152, Mismatches: 34, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 152 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCAT
Found at i:38798953 original size:96 final size:96
Alignment explanation
Indices: 38798787--38799004 Score: 276
Period size: 96 Copynumber: 2.3 Consensus size: 96
38798777 GCTGCGATGC
* * * *
38798787 TACTGATGGCTTTGTGCCGGTTATATTACCGTTATTGATGGCTTTGTGCTGACCATAATAACATT
1 TACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCTGACCATAATAACATT
38798852 ACTAATGGCTTTATACCGATCATAATACCAT
66 ACTAATGGCTTTATACCGATCATAATACCAT
* * * *
38798883 TACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTTTTTGCTGATCAT-ATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCTGACCATAATAAC-AT
* * ** * *
38798947 TGCTAATGGCTTTGTGTCGATCATATTACCGT
65 TACTAATGGCTTTATACCGATCATAATACCAT
* *
38798979 TACTGATGGCTGTGTGCCAATCATAT
1 TACTGATGGCTTTGTGCCGATCATAT
38799005 CACTGCTACT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 4 0.04
96 101 0.96
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (96 bp):
TACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCTGACCATAATAACATT
ACTAATGGCTTTATACCGATCATAATACCAT
Found at i:38799020 original size:32 final size:32
Alignment explanation
Indices: 38798787--38799042 Score: 163
Period size: 32 Copynumber: 8.0 Consensus size: 32
38798777 GCTGCGATGC
* ** * *
38798787 TACTGATGGCTTTGTGCCGGTTATATTACCGT
1 TACTAATGGCTTTGTGCCAATCATATTACTGT
* * ** * * *
38798819 TATTGATGGCTTTGTGCTGACCATAATAAC-AT
1 TACTAATGGCTTTGTGCCAATCAT-ATTACTGT
* * * * **
38798851 TACTAATGGCTTTATACCGATCATAATACCAT
1 TACTAATGGCTTTGTGCCAATCATATTACTGT
* * **
38798883 TACTGATGGCTTTGTGCCGATCATATTACCAT
1 TACTAATGGCTTTGTGCCAATCATATTACTGT
* * **
38798915 TACTGATGGCTTTTTGCTGATCATATTACTGT
1 TACTAATGGCTTTGTGCCAATCATATTACTGT
* * * *
38798947 TGCTAATGGCTTTGTGTCGATCATATTACCGT
1 TACTAATGGCTTTGTGCCAATCATATTACTGT
* * * *
38798979 TACTGATGGCTGTGTGCCAATCATATCACTGC
1 TACTAATGGCTTTGTGCCAATCATATTACTGT
* * *
38799011 TACTAATGGCTTTTTTCCAATCATATAACTGT
1 TACTAATGGCTTTGTGCCAATCATATTACTGT
38799043 ACTTATAGCT
Statistics
Matches: 179, Mismatches: 43, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
31 3 0.02
32 172 0.96
33 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (32 bp):
TACTAATGGCTTTGTGCCAATCATATTACTGT
Found at i:38799034 original size:96 final size:96
Alignment explanation
Indices: 38798853--38799042 Score: 236
Period size: 96 Copynumber: 2.0 Consensus size: 96
38798843 AATAACATTA
* * * *
38798853 CTAATGGCTTTATACCGATCATAATACCATTACTGATGGCTTTGTGCCGATCATATTACCATTAC
1 CTAATGGCTTTATACCGATCATAATACCATTACTGATGGCTGTGTGCCAATCATATCACCACTAC
* ** *
38798918 TGATGGCTTTTTGCTGATCATATTACTGTTG
66 TAATGGCTTTTTGCCAATCATATAACTGTTG
* ** * * **
38798949 CTAATGGCTTTGTGTCGATCATATTACCGTTACTGATGGCTGTGTGCCAATCATATCACTGCTAC
1 CTAATGGCTTTATACCGATCATAATACCATTACTGATGGCTGTGTGCCAATCATATCACCACTAC
*
38799014 TAATGGCTTTTTTCCAATCATATAACTGT
66 TAATGGCTTTTTGCCAATCATATAACTGT
38799043 ACTTATAGCT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (96 bp):
CTAATGGCTTTATACCGATCATAATACCATTACTGATGGCTGTGTGCCAATCATATCACCACTAC
TAATGGCTTTTTGCCAATCATATAACTGTTG
Found at i:38807719 original size:12 final size:12
Alignment explanation
Indices: 38807694--38807732 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38807684 ACTCGCTTCA
* *
38807694 TTACTTACTCAC
1 TTACTTGCTTAC
*
38807706 TTACTTGTTTAC
1 TTACTTGCTTAC
38807718 TTACTTGCTTAC
1 TTACTTGCTTAC
38807730 TTA
1 TTA
38807733 AAAAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:38815899 original size:31 final size:31
Alignment explanation
Indices: 38815864--38815963 Score: 103
Period size: 31 Copynumber: 3.1 Consensus size: 31
38815854 TTCAATTGAG
38815864 TCTTAATTTAATAAAAAATTTATCAAAAGCT
1 TCTTAATTTAATAAAAAATTTATCAAAAGCT
* * ** **
38815895 TCTTATTTTTATAAAATATAAAATAT-AAAATATT
1 TCTTAATTTAAT-AAA-A-AATTTATCAAAA-GCT
38815929 TCTTAATTTAATAAAAAATTTATCAAAAGCT
1 TCTTAATTTAATAAAAAATTTATCAAAAGCT
38815960 TCTT
1 TCTT
38815964 GTTTTTATAA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
31 20 0.38
32 8 0.15
33 8 0.15
34 16 0.31
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (31 bp):
TCTTAATTTAATAAAAAATTTATCAAAAGCT
Found at i:38815937 original size:65 final size:65
Alignment explanation
Indices: 38815864--38815993 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
38815854 TTCAATTGAG
38815864 TCTTAATTTAATAAAAAATTTATCAAAAGCTTCTTATTTTTATAAAATATAAAATATAAAATATT
1 TCTTAATTTAATAAAAAATTTATCAAAAGCTTCTTATTTTTATAAAATATAAAATATAAAATATT
*
38815929 TCTTAATTTAATAAAAAATTTATCAAAAGCTTCTTGTTTTTATAAAATATAAAATATAAAATATT
1 TCTTAATTTAATAAAAAATTTATCAAAAGCTTCTTATTTTTATAAAATATAAAATATAAAATATT
38815994 ATTTTAAAAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (65 bp):
TCTTAATTTAATAAAAAATTTATCAAAAGCTTCTTATTTTTATAAAATATAAAATATAAAATATT
Found at i:38815974 original size:31 final size:31
Alignment explanation
Indices: 38815864--38815975 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
38815854 TTCAATTGAG
* *
38815864 TCTTAATTTAATAAAAAATTTATCAAAAGCT
1 TCTTATTTTTATAAAAAATTTATCAAAAGCT
** **
38815895 TCTTATTTTTATAAAATATAAAATAT-AAAATATT
1 TCTTATTTTTAT-AAA-A-AATTTATCAAAA-GCT
* *
38815929 TCTTAATTTAATAAAAAATTTATCAAAAGCT
1 TCTTATTTTTATAAAAAATTTATCAAAAGCT
*
38815960 TCTTGTTTTTATAAAA
1 TCTTATTTTTATAAAA
38815976 TATAAAATAT
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
31 29 0.48
32 8 0.13
33 8 0.13
34 16 0.26
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (31 bp):
TCTTATTTTTATAAAAAATTTATCAAAAGCT
Found at i:38816181 original size:3 final size:3
Alignment explanation
Indices: 38816173--38816202 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
38816163 GAAAAGCAAC
38816173 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38816203 ATTTTCAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:38818277 original size:19 final size:21
Alignment explanation
Indices: 38818232--38818278 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
38818222 GTTATTATAC
*
38818232 ATTTATAATAATATTTGAGAT
1 ATTTATAACAATATTTGAGAT
38818253 ATTTATAACAATATTTGA-A-
1 ATTTATAACAATATTTGAGAT
38818272 ATTTATA
1 ATTTATA
38818279 TTATACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 1 0.04
21 17 0.68
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (21 bp):
ATTTATAACAATATTTGAGAT
Found at i:38824483 original size:12 final size:12
Alignment explanation
Indices: 38824454--38824494 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
38824444 ATCATTAATA
38824454 AATAAACAAGTC
1 AATAAACAAGTC
*
38824466 -ATAAACGAGTC
1 AATAAACAAGTC
*
38824477 AATAAACAAGCC
1 AATAAACAAGTC
38824489 AATAAA
1 AATAAA
38824495 TGAGCTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.15
Consensus pattern (12 bp):
AATAAACAAGTC
Found at i:38842187 original size:21 final size:21
Alignment explanation
Indices: 38842161--38842206 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
38842151 AGAATTTGTC
38842161 GTGTAATGATTTGGTAAATAT
1 GTGTAATGATTTGGTAAATAT
38842182 GTGTAATGATTTGGTAAATAT
1 GTGTAATGATTTGGTAAATAT
38842203 GTGT
1 GTGT
38842207 TGAGCAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (21 bp):
GTGTAATGATTTGGTAAATAT
Found at i:38848919 original size:16 final size:16
Alignment explanation
Indices: 38848898--38848928 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38848888 CATTGGCTTG
38848898 ATTTCTGAATTTCTTC
1 ATTTCTGAATTTCTTC
38848914 ATTTCTGAATTTCTT
1 ATTTCTGAATTTCTT
38848929 TAACTTGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (16 bp):
ATTTCTGAATTTCTTC
Found at i:38859012 original size:21 final size:21
Alignment explanation
Indices: 38858987--38859028 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
38858977 CTACAACGAA
38858987 AGCAACAAAAATTTGATGATC
1 AGCAACAAAAATTTGATGATC
38859008 AGCAACAAAAATTTGATGATC
1 AGCAACAAAAATTTGATGATC
38859029 CTACTCTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (21 bp):
AGCAACAAAAATTTGATGATC
Found at i:38861915 original size:30 final size:31
Alignment explanation
Indices: 38861879--38861938 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
38861869 TGTTTATAAA
* *
38861879 TGGTACCTAAATTAAACTTCG-TACCCAAAG
1 TGGTACCAAAACTAAACTTCGTTACCCAAAG
*
38861909 TGGTACCAAAACTATACTTCGTTACCCAAA
1 TGGTACCAAAACTAAACTTCGTTACCCAAA
38861939 TTACCCTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (31 bp):
TGGTACCAAAACTAAACTTCGTTACCCAAAG
Found at i:38861922 original size:89 final size:94
Alignment explanation
Indices: 38861734--38861925 Score: 225
Period size: 89 Copynumber: 2.1 Consensus size: 94
38861724 AATAGTACTT
* ** *
38861734 AAACTATACCATTTTTTCCGAAGTTGGTATTTAAACTCTTTTTTTTTGTCACAAGTGGTACCAAA
1 AAACTATACCATTTTTTCCGAAGTTAGTACCTAAACTCTTTTTTTTTATCACAAGTGGTACCAAA
* *
38861799 ACTACACTTCGTTACCCAAAGTGATACCT
66 ACTAAACTTCGTTACCCAAAGTGATACCA
* * * *
38861828 CAACTATACC-TTTTTTCCTAGGTTAGTACCTAAA-TCTTTTTTGTTTAT-A-AA-TGGTACCTA
1 AAACTATACCATTTTTTCCGAAGTTAGTACCTAAACTCTTTTTT-TTTATCACAAGTGGTACCAA
* *
38861888 AATTAAACTTCG-TACCCAAAGTGGTACCA
65 AACTAAACTTCGTTACCCAAAGTGATACCA
38861917 AAACTATAC
1 AAACTATAC
38861926 TTCGTTACCC
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
89 23 0.27
90 18 0.21
91 2 0.02
92 9 0.11
93 23 0.27
94 9 0.11
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (94 bp):
AAACTATACCATTTTTTCCGAAGTTAGTACCTAAACTCTTTTTTTTTATCACAAGTGGTACCAAA
ACTAAACTTCGTTACCCAAAGTGATACCA
Found at i:38868843 original size:20 final size:22
Alignment explanation
Indices: 38868820--38868859 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
38868810 TGTTTTTGGT
38868820 ATCGATA-CTTT-TTAAAAATA
1 ATCGATATCTTTCTTAAAAATA
38868840 ATCGATATCTTTCTTAAAAA
1 ATCGATATCTTTCTTAAAAA
38868860 CGATAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
ATCGATATCTTTCTTAAAAATA
Found at i:38874273 original size:21 final size:22
Alignment explanation
Indices: 38874232--38874273 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
38874222 TTCATGCCAA
*
38874232 GCCATAACACAATTAACCATAT
1 GCCATAACACAATTAAACATAT
38874254 GCCA-AACAC-ATCTAAACATA
1 GCCATAACACAAT-TAAACATA
38874274 CCAATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.67
22 4 0.22
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.19
Consensus pattern (22 bp):
GCCATAACACAATTAAACATAT
Found at i:38876388 original size:31 final size:32
Alignment explanation
Indices: 38876316--38876411 Score: 158
Period size: 31 Copynumber: 3.0 Consensus size: 32
38876306 TATACACACC
* *
38876316 ACAAGCCTCACAAGGTTAGTAAATTTATAAAG
1 ACAAACCTCACAAGGTTAGTGAATTTATAAAG
*
38876348 ACAAACCTCACAAGGTTAGTGAATTTATACAG
1 ACAAACCTCACAAGGTTAGTGAATTTATAAAG
38876380 A-AAACCTCACAAGGTTAGTGAATTTATAAAG
1 ACAAACCTCACAAGGTTAGTGAATTTATAAAG
38876411 A
1 A
38876412 TAAGAGTATT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 30 0.50
32 30 0.50
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (32 bp):
ACAAACCTCACAAGGTTAGTGAATTTATAAAG
Found at i:38877518 original size:22 final size:20
Alignment explanation
Indices: 38877493--38877539 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
38877483 TTTTTTTAGA
38877493 ATATA-TAATTTTAAATTTTT
1 ATATATTAATTTT-AATTTTT
*
38877513 ATATATTTATTTCT-ATTTTT
1 ATATATTAATTT-TAATTTTT
38877533 ATATATT
1 ATATATT
38877540 TAATGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 18 0.75
21 5 0.21
22 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATATTAATTTTAATTTTT
Found at i:38877958 original size:31 final size:31
Alignment explanation
Indices: 38877922--38877983 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38877912 CCAAGAAGTC
38877922 AAGAAACAACATAGCAACTTCACCTCTACGA
1 AAGAAACAACATAGCAACTTCACCTCTACGA
38877953 AAGAAACAACATAGCAACTTCACCTCTACGA
1 AAGAAACAACATAGCAACTTCACCTCTACGA
38877984 TGTCCTCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (31 bp):
AAGAAACAACATAGCAACTTCACCTCTACGA
Found at i:38883175 original size:46 final size:46
Alignment explanation
Indices: 38883108--38883199 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
38883098 CTGATCCCAA
38883108 GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTGTTTTGCCT
1 GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTGTTTTGCCT
*
38883154 GTTGTAACAGAACCCTATGGAAGTGAATTCAACCATTGTTTTGCCT
1 GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTGTTTTGCCT
38883200 TACTCCTCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (46 bp):
GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTGTTTTGCCT
Found at i:38884546 original size:2 final size:2
Alignment explanation
Indices: 38884539--38884568 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
38884529 GGGTTTTGAA
38884539 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
38884569 GTTTTCTCTG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38888315 original size:49 final size:49
Alignment explanation
Indices: 38888256--38888359 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
38888246 TCATGTGTTA
* * * * *
38888256 TAATTCTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
38888305 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
38888354 TAATTT
1 TAATTT
38888360 GTTTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.48
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
Found at i:38891361 original size:41 final size:41
Alignment explanation
Indices: 38891304--38892130 Score: 1582
Period size: 41 Copynumber: 20.1 Consensus size: 41
38891294 TATCTTATGC
38891304 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891345 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891386 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891427 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891468 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891509 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891550 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891591 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891632 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891673 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891714 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891755 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891796 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891837 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891878 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891919 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38891960 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* * *
38892001 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGTCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
** *
38892042 GATCTGAATCAGATTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
*
38892083 GATCTGAATCAGGCTATAAGCCTAGCAGGCTACGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
38892124 GAATCTG
1 G-ATCTG
38892131 TTAAATTAAG
Statistics
Matches: 776, Mismatches: 9, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
41 771 0.99
42 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
Found at i:38898690 original size:31 final size:31
Alignment explanation
Indices: 38898655--38898762 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
38898645 TTGGATTTAA
38898655 TTGAATGTTTTGATGAATAAAAAGGTTAAAT
1 TTGAATGTTTTGATGAATAAAAAGGTTAAAT
* * * *
38898686 TTGAATATGTTTAGATCAAGAAACGAAGAAAACGATTTAA-
1 TTG-A-ATGTTTTGAT---G-AA--TA-AAAA-GGTTAAAT
38898726 TTGAATGTTTTGATGAATAAAAAGGTTAAAT
1 TTGAATGTTTTGATGAATAAAAAGGTTAAAT
38898757 TTGAAT
1 TTGAAT
38898763 ATGTTTAGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 22
0.66 0.09 0.25
Matches are distributed among these distances:
30 5 0.09
31 13 0.22
32 2 0.03
33 9 0.16
34 2 0.03
35 1 0.02
36 1 0.02
37 2 0.03
38 9 0.16
39 2 0.03
40 7 0.12
41 5 0.09
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.35
Consensus pattern (31 bp):
TTGAATGTTTTGATGAATAAAAAGGTTAAAT
Found at i:38898697 original size:33 final size:33
Alignment explanation
Indices: 38898659--38898768 Score: 98
Period size: 33 Copynumber: 3.2 Consensus size: 33
38898649 ATTTAATTGA
38898659 ATGTTTTGATGAATAAAAAGGTTAAATTTGAAT
1 ATGTTTTGATGAATAAAAAGGTTAAATTTGAAT
* * * **
38898692 ATGTTTAGATCAAGAAACGAA-GAAAACGATTT-AATT
1 ATGTTTTGATGAATAAA--AAGGTTAA--ATTTGAA-T
38898728 GAATGTTTTGATGAATAAAAAGGTTAAATTTGAAT
1 --ATGTTTTGATGAATAAAAAGGTTAAATTTGAAT
38898763 ATGTTT
1 ATGTTT
38898769 AGATCAAGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
33 20 0.34
34 3 0.05
35 9 0.16
36 9 0.16
37 3 0.05
38 14 0.24
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (33 bp):
ATGTTTTGATGAATAAAAAGGTTAAATTTGAAT
Found at i:38898737 original size:71 final size:71
Alignment explanation
Indices: 38898648--38898789 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
38898638 TGTATTTTTG
38898648 GATTTAATTGAATGTTTTGATGAATAAAAAGGTTAAATTTGAATATGTTTAGATCAAGAAACGAA
1 GATTTAATTGAATGTTTTGATGAATAAAAAGGTTAAATTTGAATATGTTTAGATCAAGAAACGAA
38898713 GAAAAC
66 GAAAAC
*
38898719 GATTTAATTGAATGTTTTGATGAATAAAAAGGTTAAATTTGAATATGTTTAGATCAAGAAACGGA
1 GATTTAATTGAATGTTTTGATGAATAAAAAGGTTAAATTTGAATATGTTTAGATCAAGAAACGAA
38898784 GAAAAC
66 GAAAAC
38898790 AGAATTGGAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.32
Consensus pattern (71 bp):
GATTTAATTGAATGTTTTGATGAATAAAAAGGTTAAATTTGAATATGTTTAGATCAAGAAACGAA
GAAAAC
Found at i:38901184 original size:21 final size:21
Alignment explanation
Indices: 38901160--38901202 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
38901150 AATAAAGTAG
38901160 ATTATACATTAT-ATTTATAGT
1 ATTATACATTATGATTT-TAGT
*
38901181 ATTATATATTATGATTTTAGT
1 ATTATACATTATGATTTTAGT
38901202 A
1 A
38901203 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTATACATTATGATTTTAGT
Found at i:38901320 original size:10 final size:12
Alignment explanation
Indices: 38901294--38901325 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
38901284 TTATTATTTA
38901294 TATTAATAATCT
1 TATTAATAATCT
38901306 TATTAA-AAT-T
1 TATTAATAATCT
38901316 TATTAATAAT
1 TATTAATAAT
38901326 AACAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 7 0.37
11 6 0.32
12 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTAATAATCT
Found at i:38905798 original size:69 final size:69
Alignment explanation
Indices: 38905725--38905860 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
38905715 GCAAAATCGA
* *
38905725 TATAAATATATTATTTATATTATAAATTCACTTAATAATAATGTTAATTTCAGTTATAAAATAAA
1 TATAAATATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATATCAGTTATAAAATAAA
38905790 TGTG
66 TGTG
* * * * * *
38905794 TATAAGTATATTAGTTGTATTATAACTTCACTTAATGATACTGTTAATATCAGTTATGAAATAAA
1 TATAAATATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATATCAGTTATAAAATAAA
38905859 TG
66 TG
38905861 CTTATATATA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (69 bp):
TATAAATATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATATCAGTTATAAAATAAA
TGTG
Found at i:38911416 original size:54 final size:54
Alignment explanation
Indices: 38911318--38911429 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
38911308 TCCAAATGCC
* *
38911318 CAATAATTTTCTTTTGAACAATAGTCTCCCACTGATCAGCAGCTTCCCCTTGAA
1 CAATAATTTTCTTTTGAACAATAGTCTCCCACTGAACAGCAGCTTCCCCTTAAA
* * * ** *
38911372 CAATAGTTTT-TTTTGGAACAGTAGTTTCCCTTTGAACAGTAGCTTCCCCTTAAA
1 CAATAATTTTCTTTT-GAACAATAGTCTCCCACTGAACAGCAGCTTCCCCTTAAA
38911426 CAAT
1 CAAT
38911430 GGTGTTATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 4 0.08
54 45 0.92
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (54 bp):
CAATAATTTTCTTTTGAACAATAGTCTCCCACTGAACAGCAGCTTCCCCTTAAA
Found at i:38911421 original size:19 final size:18
Alignment explanation
Indices: 38911387--38911422 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38911377 GTTTTTTTTG
*
38911387 GAACAGTAGTTTCCCTTT
1 GAACAGTAGTTCCCCTTT
38911405 GAACAGTAGCTTCCCCTT
1 GAACAGTAG-TTCCCCTT
38911423 AAACAATGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
GAACAGTAGTTCCCCTTT
Found at i:38911427 original size:18 final size:18
Alignment explanation
Indices: 38911388--38911427 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38911378 TTTTTTTTGG
* * *
38911388 AACAGTAGTTTCCCTTTG
1 AACAGTAGCTTCCCCTTA
38911406 AACAGTAGCTTCCCCTTA
1 AACAGTAGCTTCCCCTTA
38911424 AACA
1 AACA
38911428 ATGGTGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (18 bp):
AACAGTAGCTTCCCCTTA
Found at i:38918650 original size:24 final size:24
Alignment explanation
Indices: 38918606--38918657 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
38918596 TTTCTAGAAA
* **
38918606 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAACATAATAT
*
38918630 ATTTAGCATTTATTAACATAATTT
1 ATTTAGCATTTATTAACATAATAT
38918654 ATTT
1 ATTT
38918658 GAATTATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:38920305 original size:19 final size:19
Alignment explanation
Indices: 38920277--38920325 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
38920267 TGCAGGTCTT
38920277 GAGTGGAGGCAACTCGTTG
1 GAGTGGAGGCAACTCGTTG
*
38920296 GAGTGAAGGCAACTCGTTG
1 GAGTGGAGGCAACTCGTTG
38920315 GAGTGGAGGCA
1 GAGTGGAGGCA
38920326 CTGTTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.14, G:0.43, T:0.18
Consensus pattern (19 bp):
GAGTGGAGGCAACTCGTTG
Found at i:38920764 original size:13 final size:12
Alignment explanation
Indices: 38920742--38920770 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38920732 TGCAAAATTA
38920742 AGAAAGAAAAAG
1 AGAAAGAAAAAG
38920754 AGAAAGAAAAA-
1 AGAAAGAAAAAG
38920765 AGAAAG
1 AGAAAG
38920771 GAGACGCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:38923250 original size:8 final size:8
Alignment explanation
Indices: 38923237--38923269 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
38923227 ATTTGTGTGT
38923237 TCAATTTC
1 TCAATTTC
38923245 TCAATTTC
1 TCAATTTC
38923253 TCAATTTC
1 TCAATTTC
38923261 TCAATTTC
1 TCAATTTC
38923269 T
1 T
38923270 TCCGTTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTC
Found at i:38927218 original size:50 final size:50
Alignment explanation
Indices: 38927101--38927347 Score: 235
Period size: 50 Copynumber: 4.8 Consensus size: 50
38927091 TGATAATAAA
* * ** * * * *
38927101 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* * * **
38927150 TGCCAATGCCATATCCCAGATATGGTTTTACATGAGAATTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* ** * * *
38927200 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* *
38927250 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--TC-A-G
*
38927305 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
38927348 TTACCCAAAT
Statistics
Matches: 160, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
49 37 0.23
50 81 0.51
53 2 0.01
55 1 0.01
56 39 0.24
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
Found at i:38927281 original size:100 final size:105
Alignment explanation
Indices: 38927100--38927336 Score: 263
Period size: 99 Copynumber: 2.3 Consensus size: 105
38927090 CTGATAATAA
* ** ** * * * *
38927100 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--TGCCAATGCCATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCT-CGGTGCCAACGCCATA
* * *
38927163 TCCCAGATATGGTTTTACATGAGAATTCTCAT-A-TC-A-G
65 TCCCAGACATGGTCTTACATGAGAACTCTCATAACTCAATG
* *
38927200 -TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATAT
* *
38927264 CCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
66 CCCAGACATGGTCTTACATGAGAACTCTCATAA-CTCAATG
38927305 ATGCCAATGCCATGTCCCAGACATGGTCTTAC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC
38927337 ATGAGATCTC
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
98 1 0.01
99 38 0.34
100 38 0.34
101 1 0.01
103 2 0.02
104 1 0.01
105 1 0.01
106 30 0.27
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (105 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATAT
CCCAGACATGGTCTTACATGAGAACTCTCATAACTCAATG
Found at i:38932965 original size:16 final size:17
Alignment explanation
Indices: 38932936--38932970 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
38932926 TTTCTAACCT
38932936 AAATTAAACTAAAATTAA
1 AAATTAAAC-AAAATTAA
38932954 AAATTAAA-AAAATTAA
1 AAATTAAACAAAATTAA
38932970 A
1 A
38932971 GTAAATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATTAAACAAAATTAA
Found at i:38947030 original size:7 final size:7
Alignment explanation
Indices: 38947015--38947047 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
38947005 CTTCAACTTA
38947015 TTTTGTT
1 TTTTGTT
*
38947022 TTTT-CT
1 TTTTGTT
38947028 TTTTGTT
1 TTTTGTT
38947035 TTTTGTT
1 TTTTGTT
38947042 TTTTGT
1 TTTTGT
38947048 AGTTAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (7 bp):
TTTTGTT
Found at i:38947033 original size:13 final size:13
Alignment explanation
Indices: 38947015--38947044 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
38947005 CTTCAACTTA
38947015 TTTTGTTTTTTCT
1 TTTTGTTTTTTCT
*
38947028 TTTTGTTTTTTGT
1 TTTTGTTTTTTCT
38947041 TTTT
1 TTTT
38947045 TGTAGTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (13 bp):
TTTTGTTTTTTCT
Found at i:38951045 original size:28 final size:28
Alignment explanation
Indices: 38951005--38951059 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
38950995 CGTTGCATTA
38951005 CTGTACCCTTGTTCCTAAGAAGTAATGC
1 CTGTACCCTTGTTCCTAAGAAGTAATGC
38951033 CTGTACCCTTGTTCCTAAGAAGTAATG
1 CTGTACCCTTGTTCCTAAGAAGTAATG
38951060 ATGGAATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (28 bp):
CTGTACCCTTGTTCCTAAGAAGTAATGC
Found at i:38963417 original size:43 final size:42
Alignment explanation
Indices: 38963370--38963509 Score: 120
Period size: 42 Copynumber: 3.3 Consensus size: 42
38963360 TCCCAGATGT
* *
38963370 GGTCTTACATGTAATCAAATAACGATGCCACTATCCCAGACAA
1 GGTCTTACATGTAATCAAAT-ACGATGCCAATATACCAGACAA
* * * * *
38963413 GGTCTTACATGAAATCATATATGATGCCAATGTACCAGACAT
1 GGTCTTACATGTAATCAAATACGATGCCAATATACCAGACAA
* ** * **
38963455 GGTCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCCAGACGT
1 GGTCTTACATGT-AA--TCAAATACGATGCCAATATACCAGACAA
38963499 GGTCTTACATG
1 GGTCTTACATG
38963510 AAATAATATA
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 27 0.34
43 20 0.25
44 27 0.34
45 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCCAATATACCAGACAA
Found at i:38967589 original size:13 final size:13
Alignment explanation
Indices: 38967571--38967602 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
38967561 GTAATAGGCT
38967571 TTTCCAGCAAGCC
1 TTTCCAGCAAGCC
38967584 TTTCCAGCAAGCC
1 TTTCCAGCAAGCC
38967597 TTTCCA
1 TTTCCA
38967603 ACATTTGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.38, G:0.12, T:0.28
Consensus pattern (13 bp):
TTTCCAGCAAGCC
Found at i:38971602 original size:21 final size:21
Alignment explanation
Indices: 38971562--38971603 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38971552 GGTTCTAGTA
*
38971562 TGGATGCATCTAGCTTTGTTG
1 TGGATGCATCTAGCTGTGTTG
38971583 TGGATGCATCTGAG-TGTGTTG
1 TGGATGCATCT-AGCTGTGTTG
38971604 ATTGTAGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.33, T:0.40
Consensus pattern (21 bp):
TGGATGCATCTAGCTGTGTTG
Found at i:38979777 original size:25 final size:24
Alignment explanation
Indices: 38979701--38979786 Score: 102
Period size: 24 Copynumber: 3.5 Consensus size: 24
38979691 CGGCTTGTAT
** *
38979701 GAGCTTACTAATTTTAGCTCGTGA
1 GAGCTTACCGATTTCAGCTCGTGA
*
38979725 GAGCTTACCGGTTTCAGCTCGT-A
1 GAGCTTACCGATTTCAGCTCGTGA
38979748 TGAGCTTACCGATTTCCAGCTCGTGA
1 -GAGCTTACCGATTT-CAGCTCGTGA
*
38979774 GAGCATACCGATT
1 GAGCTTACCGATT
38979787 CATAGCTCGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
23 1 0.02
24 31 0.58
25 20 0.38
26 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCGTGA
Found at i:38979793 original size:25 final size:24
Alignment explanation
Indices: 38979715--38979806 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
38979705 TTACTAATTT
* *
38979715 TAGCTCGTGAGAGCTTACCGGTT-
1 TAGCTCGTGAGAGCATACCGATTC
*
38979738 TCAGCTCGT-ATGAGCTTACCGATTTC
1 T-AGCTCGTGA-GAGCATACCGA-TTC
*
38979764 CAGCTCGTGAGAGCATACCGATTC
1 TAGCTCGTGAGAGCATACCGATTC
**
38979788 ATAGCTCGTTTGAGCATAC
1 -TAGCTCGTGAGAGCATAC
38979807 ATGTATAGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.04
24 20 0.35
25 34 0.60
26 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (24 bp):
TAGCTCGTGAGAGCATACCGATTC
Found at i:38987680 original size:8 final size:7
Alignment explanation
Indices: 38987640--38987679 Score: 71
Period size: 7 Copynumber: 5.6 Consensus size: 7
38987630 AATTATCATC
38987640 TTTTCTTT
1 TTTTC-TT
38987648 TTTTCTT
1 TTTTCTT
38987655 TTTTCTT
1 TTTTCTT
38987662 TTTTCTT
1 TTTTCTT
38987669 TTTTCTT
1 TTTTCTT
38987676 TTTT
1 TTTT
38987680 TTATTGAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:39008372 original size:36 final size:36
Alignment explanation
Indices: 39008325--39008411 Score: 174
Period size: 36 Copynumber: 2.4 Consensus size: 36
39008315 GAATACAATA
39008325 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
1 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
39008361 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
1 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
39008397 ATAAAGTACATTCTG
1 ATAAAGTACATTCTG
39008412 TATACTTTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (36 bp):
ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
Found at i:39009105 original size:49 final size:49
Alignment explanation
Indices: 39009033--39009139 Score: 214
Period size: 49 Copynumber: 2.2 Consensus size: 49
39009023 CTCACCAAAG
39009033 AAGTCGATCTCTTGCCGTTTCTGGAAACCAGCCCTTATGTTATACACAT
1 AAGTCGATCTCTTGCCGTTTCTGGAAACCAGCCCTTATGTTATACACAT
39009082 AAGTCGATCTCTTGCCGTTTCTGGAAACCAGCCCTTATGTTATACACAT
1 AAGTCGATCTCTTGCCGTTTCTGGAAACCAGCCCTTATGTTATACACAT
39009131 AAGTCGATC
1 AAGTCGATC
39009140 GGTTCAGCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
AAGTCGATCTCTTGCCGTTTCTGGAAACCAGCCCTTATGTTATACACAT
Found at i:39009647 original size:41 final size:42
Alignment explanation
Indices: 39009596--39009677 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 42
39009586 TTTAATATTA
*
39009596 AATATTAAATATAAAATATTTTCCAAATTACTAG-AATCTTT
1 AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTTT
**
39009637 AATATTAAATATAAAATACTTTGTAAATTACTAGAAATCTT
1 AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTT
39009678 ATCGCACGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 31 0.84
42 6 0.16
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (42 bp):
AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTTT
Found at i:39010456 original size:6 final size:6
Alignment explanation
Indices: 39010433--39010466 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
39010423 CTCCTTGCAT
* *
39010433 AAAATA AAATTT AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
39010467 AGCTTAAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:39024794 original size:96 final size:96
Alignment explanation
Indices: 39024670--39024860 Score: 364
Period size: 96 Copynumber: 2.0 Consensus size: 96
39024660 TAGTCAATTC
*
39024670 CCTCCTTCTGAGCGTAGCCTTTAGCTACCAATCTTGCATTGTAGCGAATATCCTTCTTGCTAGGA
1 CCTCCTTCTGAGCGTAGCCTTTAGCTACCAATCTTGCATTGTAGCGAATATCCTTCTTACTAGGA
39024735 GATCCATCTTTCTTTGCGAATACCCACTTGT
66 GATCCATCTTTCTTTGCGAATACCCACTTGT
*
39024766 CCTCCTTCTGAGCGTAGCCTTTAGCTACCAATCTTGCCTTGTAGCGAATATCCTTCTTACTAGGA
1 CCTCCTTCTGAGCGTAGCCTTTAGCTACCAATCTTGCATTGTAGCGAATATCCTTCTTACTAGGA
39024831 GATCCATCTTTCTTTGCGAATACCCACTTG
66 GATCCATCTTTCTTTGCGAATACCCACTTG
39024861 CATCCGATTG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (96 bp):
CCTCCTTCTGAGCGTAGCCTTTAGCTACCAATCTTGCATTGTAGCGAATATCCTTCTTACTAGGA
GATCCATCTTTCTTTGCGAATACCCACTTGT
Found at i:39025227 original size:21 final size:21
Alignment explanation
Indices: 39025201--39025241 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
39025191 ATCTGCTCAA
* *
39025201 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
39025222 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
39025242 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:39031821 original size:42 final size:42
Alignment explanation
Indices: 39031762--39031847 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
39031752 TCATATTCAT
*
39031762 TTAAAACGCTCCTCAAATAACCTATTTGAGTCCAACACTAAC
1 TTAAAACGCTCATCAAATAACCTATTTGAGTCCAACACTAAC
39031804 TTAAAACGCTCATCAAATAACCTATTTGAGTCCAACACTAAC
1 TTAAAACGCTCATCAAATAACCTATTTGAGTCCAACACTAAC
39031846 TT
1 TT
39031848 CTATTCCAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (42 bp):
TTAAAACGCTCATCAAATAACCTATTTGAGTCCAACACTAAC
Found at i:39051182 original size:500 final size:500
Alignment explanation
Indices: 39050241--39051220 Score: 1960
Period size: 500 Copynumber: 2.0 Consensus size: 500
39050231 AAAATAATAA
39050241 TTGCAACCATTTTAATTTCTAGGAGTCACAACTTTGGCAAAATTAATTTTTCATATAAATAATAA
1 TTGCAACCATTTTAATTTCTAGGAGTCACAACTTTGGCAAAATTAATTTTTCATATAAATAATAA
39050306 AATAATAGAAATACATTTATTCACATGCATAACCCAAAACATGCTAATAATTATAAGAATGTCAT
66 AATAATAGAAATACATTTATTCACATGCATAACCCAAAACATGCTAATAATTATAAGAATGTCAT
39050371 ATCTTATAAAAATTTAACCAAACATGAAAAAGAGAAATTTTCTGTAATAGTTCAATATCCAATGG
131 ATCTTATAAAAATTTAACCAAACATGAAAAAGAGAAATTTTCTGTAATAGTTCAATATCCAATGG
39050436 GACCAAAAAATGCAGTTTTCAAACCCTATTTTCGTAAATCGTGTTCATATATATATTAATAATAT
196 GACCAAAAAATGCAGTTTTCAAACCCTATTTTCGTAAATCGTGTTCATATATATATTAATAATAT
39050501 TTAATGTTTATGATGCTAGTATAGAAATATATTAAAGTTTGGTTGAGTAATTTTGTTTAATTGAT
261 TTAATGTTTATGATGCTAGTATAGAAATATATTAAAGTTTGGTTGAGTAATTTTGTTTAATTGAT
39050566 AGTTAATTAAGGTATAAGTGTAACGACCCTAAAGTTAGTAGTGTCGAAAAATCAAGTATCGAGAA
326 AGTTAATTAAGGTATAAGTGTAACGACCCTAAAGTTAGTAGTGTCGAAAAATCAAGTATCGAGAA
39050631 CTCTTTTCCATAAACCAAGCCTGTAATTATTTTTATTAAGTATTTACGAAGTTATTATATAGGTG
391 CTCTTTTCCATAAACCAAGCCTGTAATTATTTTTATTAAGTATTTACGAAGTTATTATATAGGTG
39050696 AATTGAATTTTGGATAGGTAATTTTCGTAAATCGTGTTCATATAG
456 AATTGAATTTTGGATAGGTAATTTTCGTAAATCGTGTTCATATAG
39050741 TTGCAACCATTTTAATTTCTAGGAGTCACAACTTTGGCAAAATTAATTTTTCATATAAATAATAA
1 TTGCAACCATTTTAATTTCTAGGAGTCACAACTTTGGCAAAATTAATTTTTCATATAAATAATAA
39050806 AATAATAGAAATACATTTATTCACATGCATAACCCAAAACATGCTAATAATTATAAGAATGTCAT
66 AATAATAGAAATACATTTATTCACATGCATAACCCAAAACATGCTAATAATTATAAGAATGTCAT
39050871 ATCTTATAAAAATTTAACCAAACATGAAAAAGAGAAATTTTCTGTAATAGTTCAATATCCAATGG
131 ATCTTATAAAAATTTAACCAAACATGAAAAAGAGAAATTTTCTGTAATAGTTCAATATCCAATGG
39050936 GACCAAAAAATGCAGTTTTCAAACCCTATTTTCGTAAATCGTGTTCATATATATATTAATAATAT
196 GACCAAAAAATGCAGTTTTCAAACCCTATTTTCGTAAATCGTGTTCATATATATATTAATAATAT
39051001 TTAATGTTTATGATGCTAGTATAGAAATATATTAAAGTTTGGTTGAGTAATTTTGTTTAATTGAT
261 TTAATGTTTATGATGCTAGTATAGAAATATATTAAAGTTTGGTTGAGTAATTTTGTTTAATTGAT
39051066 AGTTAATTAAGGTATAAGTGTAACGACCCTAAAGTTAGTAGTGTCGAAAAATCAAGTATCGAGAA
326 AGTTAATTAAGGTATAAGTGTAACGACCCTAAAGTTAGTAGTGTCGAAAAATCAAGTATCGAGAA
39051131 CTCTTTTCCATAAACCAAGCCTGTAATTATTTTTATTAAGTATTTACGAAGTTATTATATAGGTG
391 CTCTTTTCCATAAACCAAGCCTGTAATTATTTTTATTAAGTATTTACGAAGTTATTATATAGGTG
39051196 AATTGAATTTTGGATAGGTAATTTT
456 AATTGAATTTTGGATAGGTAATTTT
39051221 GTCGAATTAA
Statistics
Matches: 480, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
500 480 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (500 bp):
TTGCAACCATTTTAATTTCTAGGAGTCACAACTTTGGCAAAATTAATTTTTCATATAAATAATAA
AATAATAGAAATACATTTATTCACATGCATAACCCAAAACATGCTAATAATTATAAGAATGTCAT
ATCTTATAAAAATTTAACCAAACATGAAAAAGAGAAATTTTCTGTAATAGTTCAATATCCAATGG
GACCAAAAAATGCAGTTTTCAAACCCTATTTTCGTAAATCGTGTTCATATATATATTAATAATAT
TTAATGTTTATGATGCTAGTATAGAAATATATTAAAGTTTGGTTGAGTAATTTTGTTTAATTGAT
AGTTAATTAAGGTATAAGTGTAACGACCCTAAAGTTAGTAGTGTCGAAAAATCAAGTATCGAGAA
CTCTTTTCCATAAACCAAGCCTGTAATTATTTTTATTAAGTATTTACGAAGTTATTATATAGGTG
AATTGAATTTTGGATAGGTAATTTTCGTAAATCGTGTTCATATAG
Found at i:39059933 original size:32 final size:32
Alignment explanation
Indices: 39059889--39059950 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
39059879 TACCTATTTT
*
39059889 GCTATCTCTGAAAGGATGCCTTTATGGCTAAG
1 GCTATCTCTGAAAGGAAGCCTTTATGGCTAAG
*
39059921 GCTATC-CTTGAAAGGAAGCCTTTGTGGCTA
1 GCTATCTC-TGAAAGGAAGCCTTTATGGCTA
39059951 TCTCTGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (32 bp):
GCTATCTCTGAAAGGAAGCCTTTATGGCTAAG
Found at i:39070771 original size:10 final size:10
Alignment explanation
Indices: 39070756--39070780 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39070746 GTTCACTTAG
39070756 TTTCCTACAT
1 TTTCCTACAT
39070766 TTTCCTACAT
1 TTTCCTACAT
39070776 TTTCC
1 TTTCC
39070781 CGAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTCCTACAT
Found at i:39077934 original size:27 final size:27
Alignment explanation
Indices: 39077442--39077924 Score: 563
Period size: 27 Copynumber: 17.9 Consensus size: 27
39077432 CAAGACCCCA
*
39077442 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
39077469 AAATA-CCTCGTAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
** *
39077495 AAATACCCCTGTAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
39077522 AAATACCCTCATAGGGTAAAATAATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
39077549 AAATACCTCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
39077576 AAATAACCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
39077603 AAATACCCCCGTAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* ** ** *
39077630 AGATACCCCCGCAATGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
39077657 AAATACCCCTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
39077684 AAATACTCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
39077711 AAATACCCCCATAGGGTAAAAAGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
**
39077738 AAATACCCCCATAGGGTAAAATGACAA
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
39077765 AAATACCTTCGTAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
39077792 AAATACCCCTGTAAGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
**
39077819 AAATACCCCCATAGGGTAAAATGACAA
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
39077846 AAATACCTTCGTAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
39077873 AAATACCCCTGTAAGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
39077900 AAATACCCCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
39077925 TGTTATACCC
Statistics
Matches: 382, Mismatches: 73, Indels: 2
0.84 0.16 0.00
Matches are distributed among these distances:
26 23 0.06
27 359 0.94
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:39078314 original size:28 final size:28
Alignment explanation
Indices: 39078275--39078449 Score: 235
Period size: 28 Copynumber: 6.3 Consensus size: 28
39078265 CACTGTACTA
*
39078275 GTTACTGTATTGGGCTAAGGCCCACACA
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
39078303 GTTACTGTATTGGGCTAAGTCCGACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* * *
39078331 GATACTATATTGGGCTAAAGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
39078359 ATTACTGTATTGGGCTAAGGCTCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
39078387 GTTACTGCATCGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
39078415 GTTACTGCATCGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
39078443 G-TACTGT
1 GTTACTGT
39078450 TACTGAATAG
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 5 0.04
28 124 0.96
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (28 bp):
GTTACTGTATTGGGCTAAGGCCCACACT
Done.