Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 90 of 211
Found at i:28010027 original size:15 final size:15
Alignment explanation
Indices: 28010018--28010050 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
28010008 CAAATGCTAT
28010018 AATAATAAATACAAC
1 AATAATAAATACAAC
*
28010033 AATAATAAATACATC
1 AATAATAAATACAAC
28010048 AAT
1 AAT
28010051 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:28010264 original size:39 final size:39
Alignment explanation
Indices: 28010214--28010296 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
28010204 TTATGAAGAT
28010214 TAAAAATATAC-ATAAAATTTACAAATAAATTTTGAGTTA
1 TAAAAATATACAAT-AAATTTACAAATAAATTTTGAGTTA
* * *
28010253 TAAATATATACAATACATTTACAAATAAATTTTGGGTTA
1 TAAAAATATACAATAAATTTACAAATAAATTTTGAGTTA
28010292 TAAAA
1 TAAAA
28010297 TTTATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.95
40 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (39 bp):
TAAAAATATACAATAAATTTACAAATAAATTTTGAGTTA
Found at i:28012076 original size:43 final size:43
Alignment explanation
Indices: 28012010--28012269 Score: 389
Period size: 43 Copynumber: 6.1 Consensus size: 43
28012000 TTTTATAAAT
* *
28012010 GCCGCTAAAGGTCATGACTTTTAGCGGCGCTTCTACCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAC
*
28012053 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTC-CCCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAC
*
28012095 GCCGCTAAAGAAT-ATGACCTTTAGCTGCGCTTCTACCACAAAC
1 GCCGCTAAAG-ATCATGACCTTTAGCGGCGCTTCTACCACAAAC
* * * *
28012138 GCCACGAAAGAACATGACCTTTAGCGGCGATTCTACCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAC
*
28012181 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTACCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAC
* * *
28012224 GCCGCTAAAGATCATGGCCTTTAGCGGCACTTATACCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAC
28012267 GCC
1 GCC
28012270 ACTATAATGA
Statistics
Matches: 197, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
42 38 0.19
43 159 0.81
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAC
Found at i:28012291 original size:128 final size:128
Alignment explanation
Indices: 28012022--28012271 Score: 403
Period size: 128 Copynumber: 1.9 Consensus size: 128
28012012 CGCTAAAGGT
* * *
28012022 CATGACTTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCC
1 CATGACTTTTAGCGGCGATTCTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCA
* * *
28012087 CCACAAACGCCGCTAAAGAATATGACCTTTAGCTGCGCTTCTACCACAAACGCCACGAAAGAA
66 CCACAAACGCCGCTAAAGAATATGACCTTTAGCGGCACTTATACCACAAACGCCACGAAAGAA
*
28012150 CATGACCTTTAGCGGCGATTCTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCT
1 CATGACTTTTAGCGGCGATTCTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTC-
*
28012215 ACCACAAACGCCGCTAAAG-ATCATGGCCTTTAGCGGCACTTATACCACAAACGCCAC
65 ACCACAAACGCCGCTAAAGAAT-ATGACCTTTAGCGGCACTTATACCACAAACGCCAC
28012272 TATAATGATG
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
128 63 0.56
129 49 0.44
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (128 bp):
CATGACTTTTAGCGGCGATTCTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCA
CCACAAACGCCGCTAAAGAATATGACCTTTAGCGGCACTTATACCACAAACGCCACGAAAGAA
Found at i:28013680 original size:27 final size:27
Alignment explanation
Indices: 28013650--28013705 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
28013640 ATTAATAACC
28013650 TGGGTATATATATAATTTATATTTACA
1 TGGGTATATATATAATTTATATTTACA
28013677 TGGGTATATATATAATTTATATTTACA
1 TGGGTATATATATAATTTATATTTACA
28013704 TG
1 TG
28013706 AAATTAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (27 bp):
TGGGTATATATATAATTTATATTTACA
Found at i:28015126 original size:15 final size:16
Alignment explanation
Indices: 28015106--28015135 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28015096 AAAAAAAGAA
28015106 AAGC-AATTATAAAAG
1 AAGCAAATTATAAAAG
28015121 AAGCAAATTATAAAA
1 AAGCAAATTATAAAA
28015136 CCCAGAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (16 bp):
AAGCAAATTATAAAAG
Found at i:28016366 original size:73 final size:72
Alignment explanation
Indices: 28016223--28016379 Score: 224
Period size: 73 Copynumber: 2.2 Consensus size: 72
28016213 AATAAGCATA
* * *
28016223 AGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTG
1 AGCGGCGTTTTTGAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTTTCG
*
28016288 GGGATTT
66 AGGATTT
* * * *
28016295 AGCGGCGTTTTTGAGAAAGGGCCGCAAAAAACCTAAGCCAAAACGACGTCGTTTTGTGAGCTTTC
1 AGCGGCGTTTTTGAAAAAGCGCCGCAAAAAACCTAAGCC-AAACGACGCCGTTTTCTGAGCTTTC
28016360 GAGGATTT
65 GAGGATTT
*
28016368 AGCAGCGTTTTT
1 AGCGGCGTTTTT
28016380 AAGGAAGTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 36 0.48
73 39 0.52
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (72 bp):
AGCGGCGTTTTTGAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTTTCG
AGGATTT
Found at i:28016588 original size:115 final size:114
Alignment explanation
Indices: 28016292--28016789 Score: 798
Period size: 114 Copynumber: 4.4 Consensus size: 114
28016282 CTTTTGGGGA
* * *
28016292 TTTAGCGGCGTTTTTGAGAAAGGGCCGCAAAAAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGCT
* ** *
28016357 TTCGAGGATTTAGCAGCGTTTTTAAGGAAGTGCTGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCAGCGTTTTTAAGGAAGCACCGCTAATGCTCAGGGC
* *
28016406 TTTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGCT
** *
28016471 TTCGGGGATTTAGTGGCGTTTTTAAGGAAGCACCGCTAATGCTCAAGGC
66 TTCGGGGATTTAGCAGCGTTTTTAAGGAAGCACCGCTAATGCTCAGGGC
*
28016520 TTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACACCGTTTTGTGAGC
1 -TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGC
* * *
28016585 TTTCGGGGATTTAGCGGCGTTTTTAAGCAAGCGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCAGCGTTTTTAAGGAAGCACCGCTAATGCTCAGGGC
* **
28016635 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGTTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGCT
*
28016700 TTCGGGGATTTAGCAGCATTTTTAAGGAAGCACCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCAGCGTTTTTAAGGAAGCACCGCTAATGCTCAGGGC
*
28016749 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGC
28016790 GCTTTCGGGG
Statistics
Matches: 354, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
114 247 0.70
115 107 0.30
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCAGCGTTTTTAAGGAAGCACCGCTAATGCTCAGGGC
Found at i:28016694 original size:229 final size:228
Alignment explanation
Indices: 28016292--28016789 Score: 816
Period size: 229 Copynumber: 2.2 Consensus size: 228
28016282 CTTTTGGGGA
* **
28016292 TTTAGCGGCGTTTTTGAGAAAGGGCCGCAAAAAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
* * * *
28016357 TTCGAGGATTTAGCAGCGTTTTTAAGGAAGTGCTGCTAATGCTCAGGGCTTTAACGGCGTTTTTG
66 TTCGAGGATTTAGCAGCGTTTTTAAGCAAGCGCCGCTAATGCTCAGGGCTTTAACGGCATTTTTG
* **
28016422 AGAAAGCGCCGCAAAAAACCTAAGCCAAAATGATGCCGTTTTGTGAGCTTTCGGGGATTTAGTGG
131 AGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCAG
*
28016487 CGTTTTTAAGGAAGCACCGCTAATGCTCAAGGC
196 CATTTTTAAGGAAGCACCGCTAATGCTCAAGGC
*
28016520 TTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACACCGTTTTGTGAGC
1 -TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGC
* * *
28016585 TTTCGGGGATTTAGCGGCGTTTTTAAGCAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTT
65 TTTCGAGGATTTAGCAGCGTTTTTAAGCAAGCGCCGCTAATGCTCAGGGCTTTAACGGCATTTTT
**
28016650 GAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGTTGTTTTGTGAGCTTTCGGGGATTTAGCA
130 GAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCA
*
28016715 GCATTTTTAAGGAAGCACCGCTAATGCTCAGGGC
195 GCATTTTTAAGGAAGCACCGCTAATGCTCAAGGC
*
28016749 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGC
28016790 GCTTTCGGGG
Statistics
Matches: 250, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
228 40 0.16
229 210 0.84
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (228 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGAGGATTTAGCAGCGTTTTTAAGCAAGCGCCGCTAATGCTCAGGGCTTTAACGGCATTTTTG
AGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCAG
CATTTTTAAGGAAGCACCGCTAATGCTCAAGGC
Found at i:28017163 original size:16 final size:17
Alignment explanation
Indices: 28017142--28017175 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
28017132 AGGTTACGAG
28017142 TTAAGGG-TTTAGGGTT
1 TTAAGGGTTTTAGGGTT
28017158 TTAAGGGTTTTAGGGTT
1 TTAAGGGTTTTAGGGTT
28017175 T
1 T
28017176 ACGTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (17 bp):
TTAAGGGTTTTAGGGTT
Found at i:28017820 original size:14 final size:14
Alignment explanation
Indices: 28017801--28017827 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28017791 TTGCTTTAAA
28017801 AATAAATAATTTTG
1 AATAAATAATTTTG
28017815 AATAAATAATTTT
1 AATAAATAATTTT
28017828 ACGGCGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
AATAAATAATTTTG
Found at i:28020214 original size:3 final size:3
Alignment explanation
Indices: 28020206--28020241 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
28020196 GGTACACTAG
28020206 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
28020242 GATTCTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:28021619 original size:43 final size:43
Alignment explanation
Indices: 28021568--28021772 Score: 277
Period size: 43 Copynumber: 4.8 Consensus size: 43
28021558 TTACCAAAAA
* * *
28021568 CGCCGCTAAAGGTCATGTCCTTTAGCGGCGTTTGTAGAG-AAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GGGTAAAG
* ** * *
28021611 TGTTGCTAAAGATTATGTTTTTTAGCGGCGTTTGTGGGTAAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
*
28021654 CGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGTAAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
*** *
28021697 CGCCGCTAAAGATCATGTTCTTTAGCGTTATTTGTAGGTAAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
28021740 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
28021773 TTTATCATAA
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
42 2 0.01
43 137 0.99
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAG
Found at i:28022109 original size:117 final size:117
Alignment explanation
Indices: 28021914--28022130 Score: 323
Period size: 116 Copynumber: 1.9 Consensus size: 117
28021904 CGGCGTTTTT
* *
28021914 ATTTTATTTGGAATAAAACGACACTATTTTGCCATATAAAATGGTGCTAATTTTTTAAACTAAAA
1 ATTTCATTTGGAATAAAACGACACTATTTTGCCATATAAAATGCTGCTAATTTTTTAAACTAAAA
28021979 TTATTTTTGGTGGCG-TTTTTTATAAAAACGCCGCTAACGCCGCAAAAAATA
66 TTATTTTTGGTGGCGTTTTTTTATAAAAACGCCGCTAACGCCGCAAAAAATA
* * * *
28022030 ATTTCATTTGGAATAAAACGACACTGTTTTGCTATGCTAAAAAT-CTCGCT-ATTTTTTAAAGTA
1 ATTTCATTTGGAATAAAACGACACTATTTTGCCAT-AT-AAAATGCT-GCTAATTTTTTAAACTA
*
28022093 AAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGC
63 AAATTATTTTTGGTGGCGTTTTTTTATAAAAACGCCGC
28022131 AAAAAATTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
116 32 0.36
117 31 0.34
118 27 0.30
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (117 bp):
ATTTCATTTGGAATAAAACGACACTATTTTGCCATATAAAATGCTGCTAATTTTTTAAACTAAAA
TTATTTTTGGTGGCGTTTTTTTATAAAAACGCCGCTAACGCCGCAAAAAATA
Found at i:28022636 original size:14 final size:14
Alignment explanation
Indices: 28022617--28022679 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
28022607 CCTTTGAATA
28022617 CCTAAATCCTAACC
1 CCTAAATCCTAACC
*
28022631 CCTAAATCACTAACT
1 CCTAAATC-CTAACC
* **
28022646 CTTAACCCCTAACC
1 CCTAAATCCTAACC
* *
28022660 CCTAACTACTAACC
1 CCTAAATCCTAACC
28022674 CCTAAA
1 CCTAAA
28022680 CCTTAAATCA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 29 0.74
15 10 0.26
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTAAATCCTAACC
Found at i:28022666 original size:21 final size:20
Alignment explanation
Indices: 28022625--28022678 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
28022615 TACCTAAATC
* *
28022625 CTAACCCCTAAATCACTAACT
1 CTAACCCCT-AACCCCTAACT
28022646 CTTAACCCCTAACCCCTAACT
1 C-TAACCCCTAACCCCTAACT
28022667 ACTAACCCCTAA
1 -CTAACCCCTAA
28022679 ACCTTAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (20 bp):
CTAACCCCTAACCCCTAACT
Found at i:28028434 original size:3 final size:3
Alignment explanation
Indices: 28028428--28028475 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
28028418 AAAATACTAC
* * *
28028428 TAA TAA TAA TAG TAG TAA AAA TAA TAA TAA TAA TAA TAA -AGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
28028473 TAA
1 TAA
28028476 ACCGGTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:28030518 original size:131 final size:131
Alignment explanation
Indices: 28030221--28030518 Score: 463
Period size: 131 Copynumber: 2.3 Consensus size: 131
28030211 TCAGCTCCAG
* *
28030221 TACTGCTTAGGGAGATAAGA-CTTGTAATTTCCAACCTATTCCACTGCTAGTCAGGGAGATAGGA
1 TACTGCTTAGGGAGATAAGATC-TGTAATTTCTAACCTATTCCACTGCTAGTCAGGGACATAGGA
** *
28030285 CTTGTGGCTTAAATCCGTTTCCCTACTTTTAAGGAAGATAAGATTCGCCATCTTCGATCTGCTCC
65 CTTGTGGCTTAAATCCGTTTCCCTACTCCTAAGGAAGATAAGATTCGCCATCCTCGATCTGCTCC
28030350 GC
130 GC
*
28030352 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGGTCAGGGACATAGGAC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTAGTCAGGGACATAGGAC
* ** *
28030417 TTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCATCCTCGATCTGCTTCG
66 TTGTGGCTTAAATCCGTTTCCCTACTCCTAAGGAAGATAAGATTCGCCATCCTCGATCTGCTCCG
28030482 C
131 C
** *
28030483 TACTGCTTAGGGAGACCAGATCTGTAATTTTTAACC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAACC
28030519 AGCTCTACTG
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 152 0.99
132 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (131 bp):
TACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTAGTCAGGGACATAGGAC
TTGTGGCTTAAATCCGTTTCCCTACTCCTAAGGAAGATAAGATTCGCCATCCTCGATCTGCTCCG
C
Found at i:28030616 original size:87 final size:86
Alignment explanation
Indices: 28030516--28030901 Score: 510
Period size: 84 Copynumber: 4.5 Consensus size: 86
28030506 GTAATTTTTA
* ** *
28030516 ACCAGCTCTACTGCAATTGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGG
1 ACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-TTTTCGATCTGCTTCGCTGTTAACGCAGG
*
28030581 AAGGCAAGATCTGCTATCTTTG
65 AAGGCAAAATCTGCTATCTTTG
* * * * *
28030603 ACGAGCTCCACTGCAACCGGTGGAGGCAAGAC-TTTTTT-GATCTGCTTCGCTGTTAATGCAAGA
1 ACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTTTTTCGATCTGCTTCGCTGTTAACGCAGGA
28030666 AGGCAAAATCTGCTATCTTTG
66 AGGCAAAATCTGCTATCTTTG
* *
28030687 ACCAGCTCCACTGCAACCGATGGAGGCAAGGC--TTTTTCAATCTGCTTCGCTGTTAATGCAGGA
1 ACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTTTTTCGATCTGCTTCGCTGTTAACGCAGGA
28030750 AGGCAAAATCTGCTATCTTTG
66 AGGCAAAATCTGCTATCTTTG
* * * *
28030771 ACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTATTTTGGATTTGCTTTGCTGTTAACGCAGG
1 ACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-TTTTCGATCTGCTTCGCTGTTAACGCAGG
* **
28030836 AAGGCAAGATCTGCTATCTTCA
65 AAGGCAAAATCTGCTATCTTTG
* * * *
28030858 ACCAGCTCCATTACAACCAATGGAGGCAAGACTTTGTTTTCGAT
1 ACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-TTTTCGAT
28030902 TTTCACTGAT
Statistics
Matches: 264, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
83 5 0.02
84 147 0.56
85 4 0.02
86 3 0.01
87 105 0.40
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (86 bp):
ACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTTTTTCGATCTGCTTCGCTGTTAACGCAGGA
AGGCAAAATCTGCTATCTTTG
Found at i:28030850 original size:171 final size:168
Alignment explanation
Indices: 28030515--28030892 Score: 506
Period size: 171 Copynumber: 2.2 Consensus size: 168
28030505 TGTAATTTTT
* ** * *
28030515 AACCAGCTCTACTGCAATTGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 AACCAGCTCCACTGCAACCGATGGAGGCAAGG--CT-TTTTCAATCTGCTTCGCTGTTAACGCAG
* * *
28030580 GAAGGCAAGATCTGCTATCTTTGACGAGCTCCACTGCAACCGGTGGAGGCAAGACTTTTTTGATC
63 GAAGGCAAAATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTTTTGATC
* *
28030645 TGCTTCGCTGTTAATGCAAGAAGGCAAAATCTGCTATCTTT
128 TGCTTCGCTGTTAACGCAAGAAGGCAAAATCTGCTATCTTC
* *
28030686 GACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTTTCAATCTGCTTCGCTGTTAATGCAGGAA
1 AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTTTCAATCTGCTTCGCTGTTAACGCAGGAA
28030751 GGCAAAATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAATG-CTTTATTTTGGAT
66 GGCAAAATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAA-GAC-TT-TTTT-GAT
* * * *
28030815 TTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTC
127 CTGCTTCGCTGTTAACGCAAGAAGGCAAAATCTGCTATCTTC
* * * *
28030857 AACCAGCTCCATTACAACCAATGGAGGCAAGACTTT
1 AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT
28030893 GTTTTCGATT
Statistics
Matches: 182, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
168 76 0.42
169 4 0.02
170 4 0.02
171 98 0.54
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (168 bp):
AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTTTCAATCTGCTTCGCTGTTAACGCAGGAA
GGCAAAATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTTTTGATCTGC
TTCGCTGTTAACGCAAGAAGGCAAAATCTGCTATCTTC
Found at i:28032118 original size:7 final size:7
Alignment explanation
Indices: 28032106--28032143 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
28032096 CATTTTACTC
28032106 TTTCATT
1 TTTCATT
28032113 TTTCA-T
1 TTTCATT
*
28032119 TTTCACT
1 TTTCATT
28032126 TTTCATT
1 TTTCATT
28032133 TTTCATCT
1 TTTCAT-T
28032141 TTT
1 TTT
28032144 TTTTACATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 6 0.21
7 18 0.64
8 4 0.14
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTCATT
Found at i:28032119 original size:20 final size:20
Alignment explanation
Indices: 28032096--28032138 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
28032086 TTAGCCTCTC
28032096 CATTTT-ACTCTTTCATTTTT
1 CATTTTCACT-TTTCATTTTT
28032116 CATTTTCACTTTTCATTTTT
1 CATTTTCACTTTTCATTTTT
28032136 CAT
1 CAT
28032139 CTTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (20 bp):
CATTTTCACTTTTCATTTTT
Found at i:28041720 original size:7 final size:7
Alignment explanation
Indices: 28041708--28041847 Score: 56
Period size: 7 Copynumber: 19.6 Consensus size: 7
28041698 CTAGTTAATC
28041708 TAAACCT
1 TAAACCT
*
28041715 TAAACCA
1 TAAACCT
28041722 TAAA-CT
1 TAAACCT
28041728 TAAACCCT
1 TAAA-CCT
*
28041736 ATAATCC-
1 -TAAACCT
*
28041743 TAAACCCC
1 TAAA-CCT
28041751 TAAACCCT
1 TAAA-CCT
*
28041759 T-AACACA
1 TAAAC-CT
28041766 T-AACCTT
1 TAAACC-T
28041773 TAAACCT
1 TAAACCT
*
28041780 TAAACCC
1 TAAACCT
*
28041787 T-AGCCTT
1 TAAACC-T
*
28041794 TAAACCA
1 TAAACCT
*
28041801 TAAACCA
1 TAAACCT
*
28041808 TAAACCA
1 TAAACCT
* *
28041815 TAACCCC
1 TAAACCT
28041822 TAAACCT
1 TAAACCT
* *
28041829 ATAATCCA
1 -TAAACCT
28041837 TAAACCT
1 TAAACCT
28041844 TAAA
1 TAAA
28041848 ATGGTTACAC
Statistics
Matches: 102, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
6 13 0.13
7 62 0.61
8 24 0.24
9 3 0.03
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:28041731 original size:13 final size:14
Alignment explanation
Indices: 28041708--28041847 Score: 74
Period size: 14 Copynumber: 9.8 Consensus size: 14
28041698 CTAGTTAATC
28041708 TAAACCTTAAACCA
1 TAAACCTTAAACCA
28041722 TAAA-CTTAAACCCTA
1 TAAACCTTAAA-CC-A
* *
28041737 TAATCC-TAAACCCC
1 TAAACCTTAAA-CCA
28041751 TAAACCCTT-AACACA
1 TAAA-CCTTAAAC-CA
*
28041766 T-AACCTTTAAACCT
1 TAAACC-TTAAACCA
* * *
28041780 TAAACCCT-AGCCTT
1 TAAACCTTAAACC-A
*
28041794 TAAACCATAAACCA
1 TAAACCTTAAACCA
* * *
28041808 TAAACCATAACCCC
1 TAAACCTTAAACCA
*
28041822 TAAACCTATAATCCA
1 TAAACCT-TAAACCA
28041837 TAAACCTTAAA
1 TAAACCTTAAA
28041848 ATGGTTACAC
Statistics
Matches: 98, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
13 11 0.11
14 46 0.47
15 39 0.40
16 2 0.02
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:28041782 original size:21 final size:21
Alignment explanation
Indices: 28041708--28041810 Score: 77
Period size: 21 Copynumber: 4.8 Consensus size: 21
28041698 CTAGTTAATC
*
28041708 TAAACCTTAAACCATAAAC-T
1 TAAACCTTAAACCATAACCTT
* **
28041728 TAAACCCTATAATCC-TAAACCCC
1 TAAA-CCT-TAAACCAT-AACCTT
28041751 TAAACCCTT-AACACATAACCTT
1 TAAA-CCTTAAAC-CATAACCTT
* *
28041773 TAAACCTTAAACCCTAGCCTT
1 TAAACCTTAAACCATAACCTT
*
28041794 TAAACCATAAACCATAA
1 TAAACCTTAAACCATAA
28041811 ACCATAACCC
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.06
21 31 0.48
22 21 0.32
23 9 0.14
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (21 bp):
TAAACCTTAAACCATAACCTT
Found at i:28042415 original size:114 final size:114
Alignment explanation
Indices: 28042072--28042962 Score: 1318
Period size: 114 Copynumber: 7.8 Consensus size: 114
28042062 ATTTTAAATC
* * *
28042072 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGACATC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* *
28042137 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * *
28042186 CCTGAGCATTAGCGGTGCTTTCTTAAAAACGCTGCTAAATCCCCGAAAGCTCA-AAAAAGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
*
28042250 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAGGA
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * *
28042299 CCTGAACATTAGCTGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGTT
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * * *
28042364 GTTGGCCTTAGTTTTTTTTGCGGTGCTTTCCCAAAAATGCCGCTAAAGA
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * *
28042413 CCTGGGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* *
28042478 GTTGGCCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCACTAAAGA
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * * * *
28042527 CTTGAGCATTACCGGCGCTTTCTTAAAAACACCGCTAAATCTCCAAAAGTTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* *
28042592 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * *
28042641 CCTGAGCAGTAGTGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* *
28042706 GTTGGCCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCACTAAAGA
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * * * *
28042755 CTTGAGCATTACCGGCGCTTTCTTAAAAACACCGCTAAATCTCCAAAAGTTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* *
28042820 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * * *
28042869 CCTGAGCAGTAGTGGCGCTTTTTTAAAAACGCCGCTAAATCACCGAAATCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
*
28042934 GTTGGGCTTAGG-TTTTTTGCGGTGCTTTC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
28042963 TGGAAAACGC
Statistics
Matches: 692, Mismatches: 84, Indels: 3
0.89 0.11 0.00
Matches are distributed among these distances:
113 118 0.17
114 574 0.83
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (114 bp):
CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:28043063 original size:12 final size:12
Alignment explanation
Indices: 28043046--28043071 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28043036 CTTTTTATCC
28043046 AAACGCCGCTAA
1 AAACGCCGCTAA
28043058 AAACGCCGCTAA
1 AAACGCCGCTAA
28043070 AA
1 AA
28043072 GCCTATTTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:28049988 original size:18 final size:18
Alignment explanation
Indices: 28049934--28049991 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
28049924 TTCCCGGCCC
*
28049934 AAAAAAAAATAAAATAAAT
1 AAAAAATAA-AAAATAAAT
* * **
28049953 CAAATATAAAAACCAAAT
1 AAAAAATAAAAAATAAAT
28049971 AAAAAATAAAAAATAAAT
1 AAAAAATAAAAAATAAAT
28049989 AAA
1 AAA
28049992 TGTCCATTGT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 24 0.80
19 6 0.20
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAAATAAAAAATAAAT
Found at i:28059026 original size:46 final size:44
Alignment explanation
Indices: 28058974--28059091 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 44
28058964 CCAACCATTA
*
28058974 ATTAACTAAAATGAGTTGAATGAAAATAAAGTCCAACAACTCAATT
1 ATTAACTAAGATGAGTT-AAT-AAAATAAAGTCCAACAACTCAATT
* **
28059020 ATTAACTAAGATGAGTT--T--AATATAGTCCAGTAACTCAATT
1 ATTAACTAAGATGAGTTAATAAAATAAAGTCCAACAACTCAATT
*
28059060 ATTAACTAAGATGAGTTTAATTAAATTAAAGT
1 ATTAACTAAGATGAG-TTAA-TAAAATAAAGT
28059092 TCAGCTTGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
40 34 0.57
41 2 0.03
43 1 0.02
44 1 0.02
46 22 0.37
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (44 bp):
ATTAACTAAGATGAGTTAATAAAATAAAGTCCAACAACTCAATT
Found at i:28059048 original size:40 final size:40
Alignment explanation
Indices: 28058998--28059080 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
28058988 GTTGAATGAA
28058998 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
* **
28059038 AATATAGTCCAGTAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
28059078 AAT
1 AAT
28059081 TAAATTAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:28059934 original size:21 final size:21
Alignment explanation
Indices: 28059881--28059935 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
28059871 CCTGCTCCAG
28059881 GTCTTGAGACAAT-AGCCTCTT
1 GTCTTGAGAC-ATGAGCCTCTT
28059902 GTCTTGAGACATGAGCCTCTT
1 GTCTTGAGACATGAGCCTCTT
28059923 GTCTTGAGACATG
1 GTCTTGAGACATG
28059936 CAAACATCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (21 bp):
GTCTTGAGACATGAGCCTCTT
Found at i:28065835 original size:46 final size:46
Alignment explanation
Indices: 28065785--28065879 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 46
28065775 CTTGAGTTCA
*
28065785 CAATACATGCAAGAGCTCAAAACCTAAACCTGTATTCTCAAGTCTG
1 CAATACATGCAAGAGCTCAAAACCTAAACCTATATTCTCAAGTCTG
* *** ** *
28065831 CAATACATGCATGAGCTTGGAACCTATTCCTATATTCTCAAGTTTG
1 CAATACATGCAAGAGCTCAAAACCTAAACCTATATTCTCAAGTCTG
28065877 CAA
1 CAA
28065880 CATATGTAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (46 bp):
CAATACATGCAAGAGCTCAAAACCTAAACCTATATTCTCAAGTCTG
Found at i:28065893 original size:46 final size:46
Alignment explanation
Indices: 28065817--28065947 Score: 181
Period size: 46 Copynumber: 2.8 Consensus size: 46
28065807 CCTAAACCTG
* * *
28065817 TATTCTCAAGTCTGCAATACATGCATGAGCTTGGAACCTATTCCTA
1 TATTCTCAAGTCTGCAACATATGCAGGAGCTTGGAACCTATTCCTA
* * * *
28065863 TATTCTCAAGTTTGCAACATATGTAGGAGCTTGGAACCTATTCTTG
1 TATTCTCAAGTCTGCAACATATGCAGGAGCTTGGAACCTATTCCTA
* *
28065909 TATTCTCGAGTCTGCAACATATGCAGGAGCTCGGAACCT
1 TATTCTCAAGTCTGCAACATATGCAGGAGCTTGGAACCT
28065948 GGGCAAAACT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (46 bp):
TATTCTCAAGTCTGCAACATATGCAGGAGCTTGGAACCTATTCCTA
Found at i:28075507 original size:30 final size:30
Alignment explanation
Indices: 28075473--28075532 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
28075463 TAATTCAAGA
*
28075473 TAGGCCCGTGGCGGGCTTTGGAAAAGATGG
1 TAGGCCCGTGGCGGGATTTGGAAAAGATGG
* **
28075503 TAGGCCTGTGGCGGGATTTGGCGAAGATGG
1 TAGGCCCGTGGCGGGATTTGGAAAAGATGG
28075533 CGTTGTAATA
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:0.18, C:0.15, G:0.45, T:0.22
Consensus pattern (30 bp):
TAGGCCCGTGGCGGGATTTGGAAAAGATGG
Found at i:28078455 original size:51 final size:50
Alignment explanation
Indices: 28078325--28078509 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
28078315 AAAGTGATGG
* ** *
28078325 TCACATGTGTAGTACTATGTGCAGGCTACTACGTTTACCGAAAAG-ATAGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAT-GA
* * *
28078375 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAG-TAT-GA
* * * * *
28078426 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCGAATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGT-ATGA
*
28078477 TCACATGTGTAGTACTATGTGTAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
28078510 TGAACTGGTA
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
50 39 0.35
51 71 0.64
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTATGA
Found at i:28081573 original size:20 final size:20
Alignment explanation
Indices: 28081538--28081575 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28081528 AAAAGGATCT
**
28081538 TTGACCATTAGCTTTAACAG
1 TTGACCATTAAATTTAACAG
28081558 TTGACCATTAAATTTAAC
1 TTGACCATTAAATTTAAC
28081576 TGCCCTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
TTGACCATTAAATTTAACAG
Found at i:28081889 original size:14 final size:14
Alignment explanation
Indices: 28081870--28081909 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
28081860 TTGATTGCCA
28081870 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
28081884 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
28081898 GAAAAATGTTTT
1 GTAAAATGTTTT
28081910 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:28081918 original size:20 final size:20
Alignment explanation
Indices: 28081893--28081932 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
28081883 CGTAAAATGA
*
28081893 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
28081913 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
28081933 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:28081922 original size:34 final size:35
Alignment explanation
Indices: 28081878--28081944 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
28081868 CAGTAAAATG
*
28081878 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
28081912 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
28081945 CCGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:28085071 original size:16 final size:16
Alignment explanation
Indices: 28085050--28085104 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
28085040 TTCTTAGTGT
28085050 TTGTAAAAGGTTTTCC
1 TTGTAAAAGGTTTTCC
**
28085066 TTGTAAAATTCATTTTCC
1 TTGTAAAA--GGTTTTCC
*
28085084 TTGTAAAAGGTTTTCA
1 TTGTAAAAGGTTTTCC
28085100 TTGTA
1 TTGTA
28085105 GAATTCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 18 0.56
18 14 0.44
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (16 bp):
TTGTAAAAGGTTTTCC
Found at i:28085083 original size:18 final size:18
Alignment explanation
Indices: 28085060--28085117 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
28085050 TTGTAAAAGG
28085060 TTTTCCTTGTAAAATTCA
1 TTTTCCTTGTAAAATTCA
**
28085078 TTTTCCTTGTAAAA--GG
1 TTTTCCTTGTAAAATTCA
* *
28085094 TTTTCATTGTAGAATTCA
1 TTTTCCTTGTAAAATTCA
28085112 TTTTCC
1 TTTTCC
28085118 ACCAAAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 12 0.39
18 19 0.61
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.50
Consensus pattern (18 bp):
TTTTCCTTGTAAAATTCA
Found at i:28085093 original size:34 final size:34
Alignment explanation
Indices: 28085050--28085117 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
28085040 TTCTTAGTGT
*
28085050 TTGTAAAAGGTTTTCCTTGTAAAATTCATTTTCC
1 TTGTAAAAGGTTTTCATTGTAAAATTCATTTTCC
*
28085084 TTGTAAAAGGTTTTCATTGTAGAATTCATTTTCC
1 TTGTAAAAGGTTTTCATTGTAAAATTCATTTTCC
28085118 ACCAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (34 bp):
TTGTAAAAGGTTTTCATTGTAAAATTCATTTTCC
Found at i:28085303 original size:20 final size:19
Alignment explanation
Indices: 28085280--28085334 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
28085270 TTTTTATAAC
28085280 TTTTTTTCTAATTTTTAATA
1 TTTTTTT-TAATTTTTAATA
**
28085300 TTTTTTATTAAAATTTAATA
1 TTTTTT-TTAATTTTTAATA
*
28085320 TTTTTTATAATTTTT
1 TTTTTTTTAATTTTT
28085335 TGCAATATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.21
20 22 0.76
21 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTTAATTTTTAATA
Found at i:28085546 original size:93 final size:89
Alignment explanation
Indices: 28085440--28085665 Score: 240
Period size: 93 Copynumber: 2.5 Consensus size: 89
28085430 CAAATGACTT
* * *
28085440 TTTTAATGCATTTTAACAGTTCAAGTACTCAATTGAGTAAAAAAAAATAAAG-CAGGAGTTTAAT
1 TTTTGATGCATTTTAA-AGTTCAAGTACTCAATTGAGTAAAAAAAAA-AAAGTAAGG-GCTTAAT
* * *
28085504 TACTTTTTTTGAAAAAGTTTTGAGGGTCT
63 TACTTTTTTGGAAAAAG-TTTGAGAG-CC
* * ** *
28085533 TTTTGGTTCATTTTAAAAGTTCAAGTACTCAATTGAGT-GCAAAAAAAAAGTAATGGCTTAATTA
1 TTTTGATGCATTTT-AAAGTTCAAGTACTCAATTGAGTAAAAAAAAAAAAGTAAGGGCTTAATTA
*
28085597 CTTTTTTGGAAATAGTTTGAGAGCC
65 CTTTTTTGGAAAAAGTTTGAGAGCC
* * *
28085622 TTTTGATGCATTTTTAAAGTTAAAGTACCCAATTGAATAAAAAA
1 TTTTGATGCA-TTTTAAAGTTCAAGTACTCAATTGAGTAAAAAA
28085666 TAACGACTTA
Statistics
Matches: 110, Mismatches: 19, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
89 29 0.26
90 14 0.13
91 25 0.23
92 8 0.07
93 32 0.29
94 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (89 bp):
TTTTGATGCATTTTAAAGTTCAAGTACTCAATTGAGTAAAAAAAAAAAAGTAAGGGCTTAATTAC
TTTTTTGGAAAAAGTTTGAGAGCC
Found at i:28085649 original size:89 final size:93
Alignment explanation
Indices: 28085440--28085665 Score: 248
Period size: 89 Copynumber: 2.5 Consensus size: 93
28085430 CAAATGACTT
* * *
28085440 TTTTAATGCA-TTTTAACAGTTCAAGTACTCAATTGAGTAAAAAAAAATAAAGCAGGAGTTTAAT
1 TTTTGATGCATTTTTAA-AGTTCAAGTACTCAATTGAGTAAAAAAAAATAAAGAAGGAGCTTAAT
* * *
28085504 TACTTTTTTTGAAAAAGTTTTGAGGGTCT
65 TACTTTTTTGGAAAAAGTTTTGAGAGTCC
* * * ** *
28085533 TTTTGGTTCATTTTAAAAGTTCAAGTACTCAATTGAGT-GCAAAAAA-AAAGTAATG-GCTTAAT
1 TTTTGATGCATTTTTAAAGTTCAAGTACTCAATTGAGTAAAAAAAAATAAAG-AAGGAGCTTAAT
*
28085595 TACTTTTTTGGAAATAG-TTTGAGAG-CC
65 TACTTTTTTGGAAAAAGTTTTGAGAGTCC
* * *
28085622 TTTTGATGCATTTTTAAAGTTAAAGTACCCAATTGAATAAAAAA
1 TTTTGATGCATTTTTAAAGTTCAAGTACTCAATTGAGTAAAAAA
28085666 TAACGACTTA
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
89 33 0.30
90 10 0.09
91 25 0.23
92 8 0.07
93 28 0.26
94 5 0.05
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (93 bp):
TTTTGATGCATTTTTAAAGTTCAAGTACTCAATTGAGTAAAAAAAAATAAAGAAGGAGCTTAATT
ACTTTTTTGGAAAAAGTTTTGAGAGTCC
Found at i:28086258 original size:20 final size:19
Alignment explanation
Indices: 28086231--28086271 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
28086221 TATTTTTTGA
28086231 ATTTTATATTATTTA-AAAT
1 ATTTTATATT-TTTACAAAT
28086250 ATTTATATATTTTTACAAAT
1 ATTT-TATATTTTTACAAAT
28086270 AT
1 AT
28086272 AATGATATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATATTTTTACAAAT
Found at i:28089252 original size:14 final size:14
Alignment explanation
Indices: 28089235--28089262 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
28089225 CTCACATTTC
28089235 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
28089249 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
28089263 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:28089253 original size:19 final size:18
Alignment explanation
Indices: 28089215--28089259 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
28089205 TACGGTACGC
28089215 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
28089232 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
28089251 TTCTTTTCT
1 TTCTTTTCT
28089260 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:28092111 original size:39 final size:40
Alignment explanation
Indices: 28092055--28092159 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 40
28092045 TTCCCTTATG
* *
28092055 CTATTACACCTCCATTCCATTCAACCAAACACA-AGAA-TA
1 CTATTACGCCTCTATTCCATTCAACCAAACA-ATAGAATTA
* *
28092094 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTG
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAATAGAATTA
28092139 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
28092160 ACGCCTCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 14 0.25
40 5 0.09
43 1 0.02
44 18 0.33
45 17 0.31
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.31
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAATAGAATTA
Found at i:28092128 original size:44 final size:45
Alignment explanation
Indices: 28092065--28092161 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
28092055 CTATTACACC
*
28092065 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
28092109 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
28092154 TCCATTAC
1 TCCATTAC
28092162 GCCTCTATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.48
45 24 0.50
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:28092162 original size:16 final size:16
Alignment explanation
Indices: 28092141--28092193 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
28092131 TTGAATTGCT
28092141 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
28092157 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
28092173 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
28092189 ATTAC
1 ATTAC
28092194 AGCGAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:28099136 original size:30 final size:31
Alignment explanation
Indices: 28099086--28099144 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
28099076 ATCCTAATTC
28099086 TAAAAATTTCAAAATAATATATAAAAATACA
1 TAAAAATTTCAAAATAATATATAAAAATACA
* * *
28099117 TAAATATTTTAAAA-AATATATAATAATA
1 TAAAAATTTCAAAATAATATATAAAAATA
28099145 AATTTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (31 bp):
TAAAAATTTCAAAATAATATATAAAAATACA
Found at i:28101852 original size:34 final size:34
Alignment explanation
Indices: 28101809--28101876 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
28101799 GCATTTTTGA
* *
28101809 CACTGTACTGAGATGGGCTAAGGCACAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCACAAGACTGT
* *
28101842 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCACAAGACTGT
28101877 TCAACTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCACAAGACTGT
Found at i:28104554 original size:17 final size:17
Alignment explanation
Indices: 28104534--28104566 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28104524 TAATATTTTG
28104534 TATTAATTAAATTCATA
1 TATTAATTAAATTCATA
*
28104551 TATTAATTATATTCAT
1 TATTAATTAAATTCAT
28104567 TCCAAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAATTAAATTCATA
Found at i:28104784 original size:135 final size:138
Alignment explanation
Indices: 28104470--28104974 Score: 791
Period size: 138 Copynumber: 3.7 Consensus size: 138
28104460 ATAGAGAAGT
*
28104470 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACTATTAATATTTTGT
1 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGT
* * * * *
28104535 ATTAATTAAATTCATATATTAATTATATTCATTCCAAAAGAATATTAATTTTCATATCTTTTATA
66 ATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA
**
28104600 TTTTGTCC
131 TTTTAACC
*
28104608 GAAATTAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGT
1 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGT
*
28104673 ATGAATCAAATTCATATATTAATTATATTCTTTCC-AAA-AA-ATTAATTTCCACGTCTTTTATA
66 ATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA
28104735 TTTTAACC
131 TTTTAACC
* * *
28104743 GAAATTAATTAATATAATTGTTTATATTAATAAATTTGGTAATATATATACAGTTAATATTTTGT
1 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGT
* **
28104808 ACGAATCAAAGCCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA
66 ATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA
28104873 TTTTAACC
131 TTTTAACC
* * *
28104881 GAAATTAATTAATTTAACTGTTTACATTAATAAATTTGGTAAAATATATACGATTAATATTTTGT
1 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGT
* * *
28104946 ATGAATAAAATTCTTATATTAATTTTATT
66 ATGAATCAAATTCATATATTAATTATATT
28104975 TATGTTCTCT
Statistics
Matches: 334, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
135 118 0.35
136 5 0.01
137 5 0.01
138 206 0.62
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGT
ATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA
TTTTAACC
Found at i:28104966 original size:273 final size:273
Alignment explanation
Indices: 28104470--28104974 Score: 823
Period size: 273 Copynumber: 1.8 Consensus size: 273
28104460 ATAGAGAAGT
28104470 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACTATTAATATTTTGT
1 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACTATTAATATTTTGT
** * ** *
28104535 ATTAATTAAATTCATATATTAATTATATTCATTCCAAAAGAATATTAATTTTCATATCTTTTATA
66 ACGAATCAAAGCCATATATTAATTATATTCATTCCAAAAGAATATTAATTTCCATATCTTTTATA
** *
28104600 TTTTGTCCGAAATTAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAA
131 TTTTAACCGAAATTAATTAATATAACTGTTTACATTAATAAATTCGGTAAAATATATACAATTAA
*
28104665 TATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAAATTAATTTCCACGTCTT
196 TATTTTGTATGAATAAAATTCATATATTAATTATATTCTTTCCAAAAAATTAATTTCCACGTCTT
28104730 TTATATTTTAACC
261 TTATATTTTAACC
* *
28104743 GAAATTAATTAATATAATTGTTTATATTAATAAATTTGGTAATATATATAC-AGTTAATATTTTG
1 GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACTA-TTAATATTTTG
* *
28104807 TACGAATCAAAGCCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTAT
65 TACGAATCAAAGCCATATATTAATTATATTCATTCCAAAAGAATATTAATTTCCATATCTTTTAT
* * *
28104872 ATTTTAACCGAAATTAATTAATTTAACTGTTTACATTAATAAATTTGGTAAAATATATACGATTA
130 ATTTTAACCGAAATTAATTAATATAACTGTTTACATTAATAAATTCGGTAAAATATATACAATTA
* *
28104937 ATATTTTGTATGAATAAAATTCTTATATTAATTTTATT
195 ATATTTTGTATGAATAAAATTCATATATTAATTATATT
28104975 TATGTTCTCT
Statistics
Matches: 212, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
272 1 0.00
273 211 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (273 bp):
GAAATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACTATTAATATTTTGT
ACGAATCAAAGCCATATATTAATTATATTCATTCCAAAAGAATATTAATTTCCATATCTTTTATA
TTTTAACCGAAATTAATTAATATAACTGTTTACATTAATAAATTCGGTAAAATATATACAATTAA
TATTTTGTATGAATAAAATTCATATATTAATTATATTCTTTCCAAAAAATTAATTTCCACGTCTT
TTATATTTTAACC
Found at i:28122243 original size:103 final size:104
Alignment explanation
Indices: 28121999--28122264 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
28121989 GTTGTACATA
** *
28121999 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
28122064 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
28122103 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
28122167 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
28122206 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
28122265 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:28129660 original size:101 final size:104
Alignment explanation
Indices: 28129443--28129705 Score: 392
Period size: 101 Copynumber: 2.6 Consensus size: 104
28129433 GTTGTACATA
** *
28129443 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
28129508 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
28129547 GAGGGGTTGCTAAGTGCTGA-TCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
28129610 TCTG-AAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
28129648 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGT-GTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
28129706 AATAACGGTT
Statistics
Matches: 145, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
101 68 0.47
102 16 0.11
103 44 0.30
104 17 0.12
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:28134768 original size:19 final size:19
Alignment explanation
Indices: 28134740--28134781 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
28134730 TGAGAGCTAA
*
28134740 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
* *
28134759 GAGAGATGAGAGGGATGAT
1 GAGAGATGAGAGAGAGGAT
28134778 GAGA
1 GAGA
28134782 TGAGGGATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:28134781 original size:17 final size:16
Alignment explanation
Indices: 28134746--28134792 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
28134736 CTAAGAGAGT
28134746 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
28134761 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
28134777 TGAGATGAG-GGATGA
1 TGAGATGAGAGGATGA
28134792 T
1 T
28134793 TGAAAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.14
15 11 0.38
16 6 0.21
17 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:28139609 original size:39 final size:37
Alignment explanation
Indices: 28139513--28139612 Score: 123
Period size: 36 Copynumber: 2.7 Consensus size: 37
28139503 GGACTAAGAT
* *
28139513 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAC
*
28139550 CCGAA-GCATTTGTGCGAGTTACTAAATCC-GGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT-A--C
*
28139588 CCGAAGGCATTTGTGCAAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTA
28139613 TAACGGGCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
35 3 0.05
36 23 0.42
37 5 0.09
38 6 0.11
39 18 0.33
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (37 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAC
Found at i:28139628 original size:39 final size:38
Alignment explanation
Indices: 28139513--28139637 Score: 118
Period size: 39 Copynumber: 3.3 Consensus size: 38
28139503 GGACTAAGAT
* **
28139513 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTA--C
1 CCGAAGGCATTTGTGCGAGTTACT-ATAACGGGCTAGTC
* *
28139550 CCGAA-GCATTTGTGCGAGTTACTA-AATCCGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAA-CGGGCT-AGTC
*
28139588 CCGAAGGCATTTGTGCAAGTTACTATAACGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAACGGGCTA-GTC
28139627 CC-AAGG-ATTTG
1 CCGAAGGCATTTG
28139638 AACGAGTAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
35 5 0.07
36 18 0.25
37 10 0.14
38 11 0.15
39 27 0.37
40 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACGGGCTAGTC
Found at i:28141328 original size:21 final size:20
Alignment explanation
Indices: 28141297--28141348 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
28141287 AATGGCGCTG
28141297 TTAAAAGAATTAAA-TCAGAAT
1 TTAAAA-AATTAAAGTC-GAAT
28141318 TTAAATAAATTAAAGGTCGAAT
1 TTAAA-AAATTAAA-GTCGAAT
28141340 TTAAAAAAT
1 TTAAAAAAT
28141349 AGAAAACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 16 0.57
22 10 0.36
23 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.31
Consensus pattern (20 bp):
TTAAAAAATTAAAGTCGAAT
Found at i:28145663 original size:39 final size:39
Alignment explanation
Indices: 28145619--28145742 Score: 141
Period size: 39 Copynumber: 3.3 Consensus size: 39
28145609 TAAGATCCAA
* * * *
28145619 AAGGCAATTGTGCGAGATACTAATTTCGGGCTAAG-CCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGG-TAAGTCCCG
28145658 AAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCCG
* *
28145697 AA-GCATTTGTGCGAGTTACTATAA--CGGCTATGTCCCG
1 AAGGCATTTGTGCGAGTTACTA-AATCCGGGTAAGTCCCG
28145734 AAGGC-TTTG
1 AAGGCATTTG
28145743 AATGTAGTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
37 17 0.22
38 25 0.33
39 34 0.45
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCCG
Found at i:28153632 original size:79 final size:81
Alignment explanation
Indices: 28153494--28153678 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
28153484 TCGAATGATG
* *
28153494 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
28153558 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
28153573 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
28153635 TTTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
28153653 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28153679 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:28153685 original size:40 final size:40
Alignment explanation
Indices: 28153494--28153678 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
28153484 TCGAATGATG
* * * * *
28153494 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
28153534 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
28153574 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28153613 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28153654 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28153679 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28153700 original size:79 final size:79
Alignment explanation
Indices: 28153547--28153711 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
28153537 GGACTAAGAT
* **
28153547 CCGAAGGCAATTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
28153612 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
28153626 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
28153689 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
28153705 CCGAAGG
1 CCGAAGG
28153712 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:28164782 original size:98 final size:98
Alignment explanation
Indices: 28164608--28164804 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
28164598 GTACAATAAA
* * *
28164608 ACTTTAAAAGAACATCCACTTATCTAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTGATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
28164673 CCTTTATAATCCCAAACTCAGAATATTTCATTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCATTT
28164706 ACTTTAAAAGAACATCCACTGATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTGATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
28164771 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCATTT
28164804 A
1 A
28164805 TTATTTTAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTGATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCAGAATATTTCATTT
Found at i:28174339 original size:12 final size:12
Alignment explanation
Indices: 28174318--28174358 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
28174308 AATCTTAAGG
*
28174318 GTAATGTTCAAT
1 GTAATATTCAAT
28174330 GTAATATTCAAT
1 GTAATATTCAAT
*
28174342 GTGATATTCAAT
1 GTAATATTCAAT
*
28174354 ATAAT
1 GTAAT
28174359 GTTTTTAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (12 bp):
GTAATATTCAAT
Found at i:28179393 original size:47 final size:47
Alignment explanation
Indices: 28179315--28179818 Score: 888
Period size: 47 Copynumber: 10.7 Consensus size: 47
28179305 ATAGGATTCT
*
28179315 ATGTGATG-ATGTGAAA-TG-ATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28179359 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28179406 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
28179455 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28179502 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28179549 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28179596 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28179643 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28179690 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
28179737 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
28179784 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
28179819 TCCCGAAGGG
Statistics
Matches: 444, Mismatches: 11, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
44 8 0.02
45 8 0.02
46 2 0.00
47 379 0.85
49 47 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:28179993 original size:37 final size:37
Alignment explanation
Indices: 28179937--28180015 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28179927 CCGAGCTCTA
* * *
28179937 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28179974 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28180011 AAGAC
1 AAGAC
28180016 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28181472 original size:40 final size:40
Alignment explanation
Indices: 28181229--28181458 Score: 338
Period size: 40 Copynumber: 5.8 Consensus size: 40
28181219 GAGAATTGAG
28181229 AGTGATATATCCGGGCTAAGTCCC-AAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAA-GAGCATTCGTGCT
*
28181269 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
28181309 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
28181349 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
28181389 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
28181429 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
28181459 TAATCATGCT
Statistics
Matches: 172, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 168 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:28184998 original size:47 final size:47
Alignment explanation
Indices: 28184947--28185216 Score: 416
Period size: 47 Copynumber: 5.7 Consensus size: 47
28184937 TTAGGATTCT
* * * *
28184947 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
28184994 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28185041 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28185088 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
28185135 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
28185182 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
28185217 CCCCGAAGGG
Statistics
Matches: 208, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 207 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:28185391 original size:37 final size:37
Alignment explanation
Indices: 28185335--28185413 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28185325 CCGAGCTCTA
* * *
28185335 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28185372 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28185409 AAGAC
1 AAGAC
28185414 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28197384 original size:26 final size:23
Alignment explanation
Indices: 28197340--28197386 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 23
28197330 ATTGCAATGA
28197340 ATCAATTATAACTAATTAAAACT
1 ATCAATTATAACTAATTAAAACT
28197363 ATCAATTAATTAAGCTAATTAAAA
1 ATCAATT-A-TAA-CTAATTAAAA
28197387 GAAATGCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 3 0.14
26 10 0.48
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (23 bp):
ATCAATTATAACTAATTAAAACT
Found at i:28197527 original size:17 final size:18
Alignment explanation
Indices: 28197505--28197541 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
28197495 GTCTTGTGGA
28197505 TAATTA-TGATATTTA-TT
1 TAATTATTGA-ATTTACTT
28197522 TAATTATTGAATTTACTT
1 TAATTATTGAATTTACTT
28197540 TA
1 TA
28197542 CAAGTGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TAATTATTGAATTTACTT
Found at i:28197683 original size:16 final size:16
Alignment explanation
Indices: 28197664--28197696 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
28197654 TGACAAAGCC
28197664 CAAATTTGTTAAAATG
1 CAAATTTGTTAAAATG
28197680 CAAATTTGTTAAAATG
1 CAAATTTGTTAAAATG
28197696 C
1 C
28197697 TCTGAACCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (16 bp):
CAAATTTGTTAAAATG
Found at i:28198316 original size:16 final size:16
Alignment explanation
Indices: 28198297--28198327 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
28198287 CCTCGATCGA
28198297 GGATCTATTCGACTAT
1 GGATCTATTCGACTAT
28198313 GGATCTATTCGACTA
1 GGATCTATTCGACTA
28198328 CAGCATTGGG
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:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (16 bp):
GGATCTATTCGACTAT
Found at i:28200178 original size:15 final size:15
Alignment explanation
Indices: 28200158--28200224 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
28200148 CTTCGGCAAC
28200158 AAATAAAAGAAAAAT
1 AAATAAAAGAAAAAT
*
28200173 AAATAAAACTATAATAAT
1 AAATAAAA-GA-AA-AAT
*
28200191 AAAAAAAAGAAAAA-
1 AAATAAAAGAAAAAT
* *
28200205 AAGTAAAAGGAAAAT
1 AAATAAAAGAAAAAT
28200220 AAATA
1 AAATA
28200225 GATGAATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
14 11 0.27
15 14 0.34
16 3 0.07
17 3 0.07
18 10 0.24
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.15
Consensus pattern (15 bp):
AAATAAAAGAAAAAT
Found at i:28205410 original size:39 final size:39
Alignment explanation
Indices: 28205340--28205522 Score: 183
Period size: 39 Copynumber: 4.6 Consensus size: 39
28205330 GCTACTCGTT
* *
28205340 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGACCGGATT-TAGTAACTCGCA
28205379 CAAATGCCTTCAGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGACCGGATTTAGTAACTCGCA
* * * *
28205418 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGACCGGATTTAGTAACTCGCA
* * * * * *
28205457 CAAATGCCTTCAGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGACCGGATTTAGTAAC-TCGCA
*
28205498 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGACCGGA
28205523 CATCATTCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
38 6 0.05
39 66 0.55
40 39 0.32
41 10 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:28205438 original size:78 final size:79
Alignment explanation
Indices: 28205342--28205522 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 79
28205332 TACTCGTTCA
* * *
28205342 AATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTA-ACCGGA
1 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCA-GATCTTAGACCGGA
* *
28205404 TTTAGTAAC-TCGCACC
64 TATAGTAACTTAGCA-C
*
28205420 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAGACCGGATA
* *
28205485 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
28205499 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
28205523 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
77 2 0.02
78 48 0.54
79 24 0.27
80 15 0.17
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAGACCGGATA
TAGTAACTTAGCAC
Found at i:28206713 original size:56 final size:56
Alignment explanation
Indices: 28206646--28206765 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
28206636 TATTAGTTTA
28206646 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
28206702 TTGCCCATGCTTCTTATTTTGTTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
28206758 TTGCCCAT
1 TTGCCCAT
28206766 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:28208981 original size:13 final size:13
Alignment explanation
Indices: 28208963--28208991 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
28208953 CATTAAGTGG
28208963 AGACTTGAGTATT
1 AGACTTGAGTATT
28208976 AGACTTGAGTATT
1 AGACTTGAGTATT
28208989 AGA
1 AGA
28208992 ACGAGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (13 bp):
AGACTTGAGTATT
Found at i:28212010 original size:9 final size:10
Alignment explanation
Indices: 28211990--28212021 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
28211980 GATTACAAAT
28211990 AAAATAGAAA
1 AAAATAGAAA
28212000 AAAATAGAAAA
1 AAAATAG-AAA
28212011 AAAATAGAAA
1 AAAATAGAAA
28212021 A
1 A
28212022 GGGAACGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAATAGAAA
Found at i:28212013 original size:11 final size:11
Alignment explanation
Indices: 28211990--28212021 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
28211980 GATTACAAAT
28211990 AAAATAG-AAA
1 AAAATAGAAAA
28212000 AAAATAGAAAA
1 AAAATAGAAAA
28212011 AAAATAGAAAA
1 AAAATAGAAAA
28212022 GGGAACGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAATAGAAAA
Found at i:28214400 original size:17 final size:19
Alignment explanation
Indices: 28214378--28214413 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
28214368 TCACAAGTGG
28214378 TGTAA-TTAT-TATTTTTA
1 TGTAATTTATATATTTTTA
28214395 TGTAATTTATATATTTTTA
1 TGTAATTTATATATTTTTA
28214414 AAAGATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
TGTAATTTATATATTTTTA
Found at i:28216381 original size:37 final size:37
Alignment explanation
Indices: 28216331--28216409 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
28216321 TTATTACGAA
* *
28216331 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
28216368 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
28216405 GTCTT
1 GTCTT
28216410 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:28216599 original size:47 final size:47
Alignment explanation
Indices: 28216528--28217141 Score: 1032
Period size: 47 Copynumber: 13.1 Consensus size: 47
28216518 CCCTTCGGGA
* * * * * * *
28216528 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28216575 CCTATCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28216621 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28216668 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28216715 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28216762 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28216809 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28216856 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28216903 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28216950 CTTATCACACATATACACTTTCACATTCATCACATCCGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28216997 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28217044 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28217091 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28217138 CTTA
1 CTTA
28217142 CTATCATTTC
Statistics
Matches: 546, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
46 41 0.08
47 505 0.92
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28224152 original size:45 final size:45
Alignment explanation
Indices: 28223852--28224143 Score: 449
Period size: 45 Copynumber: 6.5 Consensus size: 45
28223842 ACTAGAAACG
28223852 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
* * * *
28223897 AGTAAGACCACGACTAAAAGAAGTTATGGCATCACTATTCTGTCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
28223942 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
* * * *
28223987 AGTAAGACCACGACTAAAAGAAGTTATGGCATCACTATTCTGTCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
* * *
28224032 AGTAAGACCATAACTGAAAGACGTTATGGCATTACTATTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
* *
28224077 AGTAAGACCATGATTGAAAGACGTTATGGCATCACTATTTTATCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
**
28224122 AGTAAGACCATGGTTGAAAGAC
1 AGTAAGACCATGACTGAAAGAC
28224144 ACCATGGCAC
Statistics
Matches: 222, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 222 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (45 bp):
AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
Found at i:28225045 original size:20 final size:20
Alignment explanation
Indices: 28225020--28225061 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
28225010 AAGCTAAAGT
28225020 TGCAATGAAAAGTAAGTAAA
1 TGCAATGAAAAGTAAGTAAA
*
28225040 TGCAATGGAAAGTAAGTAAA
1 TGCAATGAAAAGTAAGTAAA
28225060 TG
1 TG
28225062 GAAGGGTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (20 bp):
TGCAATGAAAAGTAAGTAAA
Found at i:28227005 original size:42 final size:42
Alignment explanation
Indices: 28226954--28227163 Score: 249
Period size: 42 Copynumber: 5.0 Consensus size: 42
28226944 AGAGCACAAC
* * ** *
28226954 CACTCAAGCTCACATGGGGAGCTTTACTGATACACAACTTGT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
* * * *
28226996 CACTTAAGCTCATTTGAGGAGCATCGCTGATACACAACTTGT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
* * *
28227038 CACTTAAGCTCATTTGAGGAGCATCGCTGATACACAACTTAT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
* * * *
28227080 CATTTAAGCTCATATGGGGAGTTTCACTAATACACAACTTAT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
* * *
28227122 CACTTCAGCTCATGTGGGGAGCTTCGTTGATACACAACTTAT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
28227164 AAAACTGTTT
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 146 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
Found at i:28238517 original size:20 final size:19
Alignment explanation
Indices: 28238495--28238570 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
28238485 TAACTTTTTA
28238495 AAAATCATTTTGA-TGTGTT
1 AAAATCATTTTGACT-TGTT
* *
28238514 AAAATGATTTTAACTTGATT
1 AAAATCATTTTGACTTG-TT
28238534 AAAATCATTTTGACTTGGTT
1 AAAATCATTTTGACTT-GTT
*
28238554 AAAATCATTTTCACTTG
1 AAAATCATTTTGACTTG
28238571 AATTTAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.29
20 34 0.69
21 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (19 bp):
AAAATCATTTTGACTTGTT
Found at i:28238537 original size:40 final size:41
Alignment explanation
Indices: 28238495--28238580 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
28238485 TAACTTTTTA
*
28238495 AAAATCATTTTGA--TGTGTTAAAATGATTTTAACTTG-ATT
1 AAAATCATTTTGACTTG-GTTAAAATCATTTTAACTTGAATT
*
28238534 AAAATCATTTTGACTTGGTTAAAATCATTTTCACTTGAATTT
1 AAAATCATTTTGACTTGGTTAAAATCATTTTAACTTGAA-TT
28238576 AAAAT
1 AAAAT
28238581 TGTTCCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
39 13 0.32
40 18 0.44
41 3 0.07
42 7 0.17
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (41 bp):
AAAATCATTTTGACTTGGTTAAAATCATTTTAACTTGAATT
Found at i:28240674 original size:20 final size:19
Alignment explanation
Indices: 28240646--28240693 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
28240636 TATTTACGAA
*
28240646 TATCAATATTGTTATAAAA-G
1 TATCGATATT-TT-TAAAAGG
28240666 TATCGATATTTTTAAAATGG
1 TATCGATATTTTTAAAA-GG
28240686 TATCGATA
1 TATCGATA
28240694 CCAATTTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 18 0.72
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
TATCGATATTTTTAAAAGG
Found at i:28257548 original size:79 final size:82
Alignment explanation
Indices: 28257431--28257615 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
28257421 GCTACTCGTT
* * *
28257431 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
28257494 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
28257511 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
28257574 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
28257591 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28257616 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:28257615 original size:40 final size:40
Alignment explanation
Indices: 28257412--28257615 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
28257402 CGGAATTTAA
** *
28257412 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
28257452 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
28257492 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28257531 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
28257571 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
28257611 CCGGA
1 CCGGA
28257616 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28268706 original size:38 final size:40
Alignment explanation
Indices: 28268664--28268792 Score: 151
Period size: 38 Copynumber: 3.3 Consensus size: 40
28268654 GCTACTCGTT
* *
28268664 CAAATGCGTTCGGGACAT-AGCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
28268702 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
28268742 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCG-A
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
28268780 CAAATGCCTTCGG
1 CAAATGCCTTCGG
28268793 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
38 30 0.37
39 23 0.28
40 27 0.33
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:28268744 original size:40 final size:40
Alignment explanation
Indices: 28268664--28268844 Score: 198
Period size: 39 Copynumber: 4.7 Consensus size: 40
28268654 GCTACTCGTT
* *
28268664 CAAATGCGTTCGGGACATAG-CC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
28268702 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
28268742 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
28268780 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
28268820 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28268845 CACATTCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.02
38 32 0.26
39 51 0.42
40 35 0.29
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:28273007 original size:8 final size:8
Alignment explanation
Indices: 28272983--28273013 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
28272973 GATTAAAATT
28272983 AATATATA
1 AATATATA
28272991 AAT-TATA
1 AATATATA
28272998 AATATATA
1 AATATATA
28273006 AATATATA
1 AATATATA
28273014 TATAAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATATATA
Found at i:28275115 original size:28 final size:28
Alignment explanation
Indices: 28275050--28275200 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
28275040 GAGATTGGCG
* * * *
28275050 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
28275079 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
28275107 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
28275135 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
28275163 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
28275190 CTGAGTGTGCG
1 CTAAGTGTGCG
28275201 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:28283670 original size:56 final size:59
Alignment explanation
Indices: 28283603--28283719 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 59
28283593 TTGGACCATC
28283603 TTAGGCTGGAAA-T-AAATTT-TCCTCGATTTTATTCTTGGAGCATTGTTTGCCAAATT
1 TTAGGCTGGAAATTCAAATTTCTCCTCGATTTTATTCTTGGAGCATTGTTTGCCAAATT
*
28283659 TTAGGCTGGAAATTTGCTTCAAATTTCTTCTCGATTTTATTCTTGGAGCATTGTTTGCCAA
1 TTAGGCTGGAAA-----TTCAAATTTCTCCTCGATTTTATTCTTGGAGCATTGTTTGCCAA
28283720 GCCAATTTTC
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
56 12 0.23
62 1 0.02
63 6 0.12
64 33 0.63
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (59 bp):
TTAGGCTGGAAATTCAAATTTCTCCTCGATTTTATTCTTGGAGCATTGTTTGCCAAATT
Found at i:28302303 original size:24 final size:24
Alignment explanation
Indices: 28302276--28302369 Score: 100
Period size: 24 Copynumber: 3.9 Consensus size: 24
28302266 TTTACTGCAA
* *
28302276 TATTGAGTGGTTTGTCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
* *
28302300 TATT-AGGTGGCTTGGCCACAAAGT
1 TATTGA-GTGGCTTGACCACAACGT
*
28302324 TATTGAGTGGCTTGACCACAACAT
1 TATTGAGTGGCTTGACCACAACGT
* **
28302348 TATTGAATTACTTGACCACAAC
1 TATTGAGTGGCTTGACCACAAC
28302370 ATGCAACTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 1 0.02
24 57 0.97
25 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:28302415 original size:24 final size:24
Alignment explanation
Indices: 28302384--28302481 Score: 92
Period size: 24 Copynumber: 4.1 Consensus size: 24
28302374 AACTTGTCTG
*
28302384 CATT-TTGAGTGGCTTGGCCACAA
1 CATTATTGAGTGGCTTGACCACAA
*
28302407 CATTATTGAATGGCTTGACCACAA
1 CATTATTGAGTGGCTTGACCACAA
* * * **
28302431 TGA-TATTGAGTGCCTTGGCCACTG
1 -CATTATTGAGTGGCTTGACCACAA
* *
28302455 CGTTATTGACTGGCTTGACCACAA
1 CATTATTGAGTGGCTTGACCACAA
28302479 CAT
1 CAT
28302482 ACAGCTTGTC
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
23 4 0.07
24 51 0.91
25 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
CATTATTGAGTGGCTTGACCACAA
Found at i:28302472 original size:110 final size:110
Alignment explanation
Indices: 28302278--28302492 Score: 261
Period size: 110 Copynumber: 2.0 Consensus size: 110
28302268 TACTGCAATA
* * * * * * *
28302278 TTGAGTGGTTTGTCCACAACGTTATTAGGTGGCTTGGCCACAAAGTTATTGAGTGGCTTGACCAC
1 TTGAGTGGCTTGGCCACAACATTATTAGATGGCTTGACCACAAAGATATTGAGTGCCTTGACCAC
* *
28302343 AACATTATTGAATTACTTGACCACAACATGCAACTTGTCTGCATT
66 AACATTATTGAATGACTTGACCACAACATACAACTTGTCTGCATT
* *
28302388 TTGAGTGGCTTGGCCACAACATTATT-GAATGGCTTGACCACAATGATATTGAGTGCCTTGGCCA
1 TTGAGTGGCTTGGCCACAACATTATTAG-ATGGCTTGACCACAAAGATATTGAGTGCCTTGACCA
** * * * *
28302452 CTGCGTTATTGACTGGCTTGACCACAACATACAGCTTGTCT
65 CAACATTATTGAATGACTTGACCACAACATACAACTTGTCT
28302493 ACAACATTGA
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
109 1 0.01
110 86 0.99
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (110 bp):
TTGAGTGGCTTGGCCACAACATTATTAGATGGCTTGACCACAAAGATATTGAGTGCCTTGACCAC
AACATTATTGAATGACTTGACCACAACATACAACTTGTCTGCATT
Found at i:28305941 original size:18 final size:18
Alignment explanation
Indices: 28305918--28305955 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
28305908 TAATTTAGAT
28305918 TCAAAATAATAAGTGAAG
1 TCAAAATAATAAGTGAAG
28305936 TCAAAATAATAAGTGAAG
1 TCAAAATAATAAGTGAAG
28305954 TC
1 TC
28305956 TAGGTGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.24
Consensus pattern (18 bp):
TCAAAATAATAAGTGAAG
Found at i:28317080 original size:45 final size:45
Alignment explanation
Indices: 28317031--28317245 Score: 306
Period size: 45 Copynumber: 4.8 Consensus size: 45
28317021 ACCAAAAACT
* * * *
28317031 AGTAAGACCATGACTGAAAGACGTTATGTCATCACGATTATATTG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
* * *
28317076 AGTAAGACCATGACTGAAAGACATTATGGCATCACGATTGTATCG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
** * * *
28317121 AGTAATTCCATGACTTAAAGACATTATGGCATCACGATTCTATCA
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
28317166 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
28317211 AGTAAGACCAT-AGCTAAAAGACGTTATGGCATCAC
1 AGTAAGACCATGA-CTAAAAGACGTTATGGCATCAC
28317246 AAATCAAATT
Statistics
Matches: 155, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 1 0.01
45 154 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (45 bp):
AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
Found at i:28317141 original size:90 final size:89
Alignment explanation
Indices: 28317031--28317289 Score: 304
Period size: 90 Copynumber: 2.9 Consensus size: 89
28317021 ACCAAAAACT
* *
28317031 AGTAAGACCATGACTGAAAGACGTTATGTCATCACGATTATATTGAGTAAGACCATGACTGAAAG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATT-AGTAAGACCATGACTGAAAG
*
28317096 ACATTATGGCATCACGATTGTATCG
65 ACATTATGGCATCACGATTCTATCG
** * * * * *
28317121 AGTAATTCCATGACTTAAAGACATTATGGCATCACGATTCTATCAAGTAAGACCATGACTAAAAG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATAT-TAGTAAGACCATGACTGAAAG
*
28317186 ACGTTATGGCATCACGATTCTATCG
65 ACATTATGGCATCACGATTCTATCG
* * * * * **
28317211 AGTAAGACCAT-AGCTAAAAGACGTTATGGCATCACAAATCAAATTAATAAGACTATGTTTGAAA
1 AGTAAGACCATGA-CTAAAAGACGTTATGGCATCAC-GATTATATTAGTAAGACCATGACTGAAA
*
28317275 GACACTATGGCATCA
64 GACATTATGGCATCA
28317290 AGACGAGAAT
Statistics
Matches: 140, Mismatches: 26, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
89 1 0.01
90 135 0.96
91 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (89 bp):
AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATTAGTAAGACCATGACTGAAAGA
CATTATGGCATCACGATTCTATCG
Found at i:28317276 original size:135 final size:135
Alignment explanation
Indices: 28317031--28317289 Score: 317
Period size: 135 Copynumber: 1.9 Consensus size: 135
28317021 ACCAAAAACT
* * * *
28317031 AGTAAGACCATGACTGAAAGACGTTATGTCATCACGATTATATTGAGTAAGACCATGACTGAAAG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATCGAGTAAGACCATGACTAAAAG
* *** * ** *
28317096 ACATTATGGCATCACGATTGTATCGAGTAATTCCATGACTTAAAGACATTATGGCATCACGATTC
66 ACATTATGGCATCACAATCAAATCGAATAAGACCATGACTTAAAGACACTATGGCATCACGATTC
28317161 TATCA
131 TATCA
*
28317166 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCAT-AGCTAAAA
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATCGAGTAAGACCATGA-CTAAAA
* * * *
28317230 GACGTTATGGCATCACAAATCAAAT-TAATAAGACTATG-TTTGAAAGACACTATGGCATCA
65 GACATTATGGCATCAC-AATCAAATCGAATAAGACCATGACTT-AAAGACACTATGGCATCA
28317290 AGACGAGAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
134 3 0.03
135 97 0.93
136 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (135 bp):
AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATCGAGTAAGACCATGACTAAAAG
ACATTATGGCATCACAATCAAATCGAATAAGACCATGACTTAAAGACACTATGGCATCACGATTC
TATCA
Found at i:28320660 original size:19 final size:18
Alignment explanation
Indices: 28320624--28320662 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
28320614 GGTGACCAAT
* *
28320624 TTTTTCCTTTTTGCTTCC
1 TTTTTCCTTTTCGATTCC
28320642 TTTTTCTCTTTTCGATTCC
1 TTTTTC-CTTTTCGATTCC
28320661 TT
1 TT
28320663 AGTGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.26, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTCCTTTTCGATTCC
Found at i:28320708 original size:21 final size:20
Alignment explanation
Indices: 28320673--28320713 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
28320663 AGTGATTAAA
* *
28320673 ACTTATTTTTTATTTCTTTC
1 ACTTATTTATTATTTATTTC
28320693 ACTTATTTGATTATTTATTTC
1 ACTTATTT-ATTATTTATTTC
28320714 TAGATCACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.66
Consensus pattern (20 bp):
ACTTATTTATTATTTATTTC
Found at i:28323357 original size:50 final size:50
Alignment explanation
Indices: 28323241--28323534 Score: 324
Period size: 50 Copynumber: 5.9 Consensus size: 50
28323231 GAATATAACA
* * * * * * *
28323241 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGCT-TCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTAGG
* * * * * ** *
28323290 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * ** *
28323340 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * *
28323390 TGCCAACGCCTTGTCTCAGACATGGTCTTACTTGGGACCTCTTATCTAGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
28323440 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGG
28323490 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
28323535 AATCTCAAAG
Statistics
Matches: 206, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
48 2 0.01
49 35 0.17
50 168 0.82
51 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:28323419 original size:100 final size:100
Alignment explanation
Indices: 28323240--28323577 Score: 329
Period size: 100 Copynumber: 3.3 Consensus size: 100
28323230 TGAATATAAC
* * * * * * * * * *
28323240 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGCT-TCTTGT-ACTGCCAATGCCATA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCAGTGCCAACGCCATG
* * **
28323303 TCCCAAATATGGTCTTACATGAGAGTTCTCATATAG
65 TCCCAGACATGGTCTTACATGAGACCTCTCATATAG
* * * * * *
28323339 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCTTGT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCCAACGCCATGT
* * * * *
28323404 CTCAGACATGGTCTTACTTGGGACCTCTTATCTAG
66 CCCAGACATGGTCTTACATGAGACCTCTCATATAG
*
28323439 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCCAACGCCATGT
*
28323504 CCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAAAG
66 CCCAGACATGGTCTTACATGAGACCTCTCAT-A--T---AG
* * *
28323545 ATGCCAATGCCATGTCCCAAACATGGTTTTACA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACA
28323578 TAGGATCTCT
Statistics
Matches: 193, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
98 2 0.01
99 35 0.18
100 123 0.64
103 1 0.01
106 32 0.17
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (100 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCCAACGCCATGT
CCCAGACATGGTCTTACATGAGACCTCTCATATAG
Found at i:28328387 original size:51 final size:51
Alignment explanation
Indices: 28328321--28328521 Score: 212
Period size: 51 Copynumber: 4.0 Consensus size: 51
28328311 ATTAATGATA
* * * *
28328321 CCGGTTCACATAGTAGCCTACACATGGTACTACACATGTGACCATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
28328372 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * *
28328423 CCGGTACGCACAGTAGCCCGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* ** *
28328473 CTGGTACATGTAGTAGCCTGCACCTAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
28328522 TTCAGTTTCA
Statistics
Matches: 122, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.03
50 38 0.31
51 77 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (51 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:28331181 original size:25 final size:25
Alignment explanation
Indices: 28331147--28331198 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
28331137 TATGTCACCC
28331147 ACAATTTTACACAATTAATTTACTT
1 ACAATTTTACACAATTAATTTACTT
28331172 ACAATTTTACACAATTAATTTACTT
1 ACAATTTTACACAATTAATTTACTT
28331197 AC
1 AC
28331199 TCGAGTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (25 bp):
ACAATTTTACACAATTAATTTACTT
Found at i:28331390 original size:42 final size:42
Alignment explanation
Indices: 28331307--28331393 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
28331297 CTTCGTTTTC
* **
28331307 TCAATGCCATAGTCCAACTATGGTCTTACACATATTTACATA
1 TCAATGCCATAGCCCAACTATGGTCTTACACATATGCACATA
*
28331349 TCAATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATA
1 TCAATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATA
28331391 TCA
1 TCA
28331394 CACTAATGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
TCAATGCCATAGCCCAACTATGGTCTTACACATATGCACATA
Found at i:28332444 original size:61 final size:61
Alignment explanation
Indices: 28332342--28332485 Score: 157
Period size: 61 Copynumber: 2.4 Consensus size: 61
28332332 TAAACAGAGG
* * ** *
28332342 TTGCCACAAAGGTTGTCATTTTCATTTAGTACTCTCCACAAAAGCTTTAC-TATCCAGAGTT
1 TTGCCACAAAGGTTGTCCTTTACATCCAGTACTCTCAAC-AAAGCTTTACATATCCAGAGTT
* * * *
28332403 TTGCCACAAAGGTTGTCCTTTACATCCAGTTCTCAT-AACAAAGGTTTTCATGTCCAGAGTT
1 TTGCCACAAAGGTTGTCCTTTACATCCAGTACTC-TCAACAAAGCTTTACATATCCAGAGTT
* *
28332464 TTTCCATAAAGGTTGTCCTTTA
1 TTGCCACAAAGGTTGTCCTTTA
28332486 ACTGGTGTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 8 0.11
61 61 0.87
62 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (61 bp):
TTGCCACAAAGGTTGTCCTTTACATCCAGTACTCTCAACAAAGCTTTACATATCCAGAGTT
Found at i:28332736 original size:94 final size:94
Alignment explanation
Indices: 28332564--28332741 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 94
28332554 GGACACCAGA
* * *
28332564 GAACCCCATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCGACCAATTACGG
1 GAACCACATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCCACCAATTACGA
* * *
28332629 TTTTACACGATATGGTCTTCTTTCCATAT
66 TCTTACACAATATGATCTTCTTTCCATAT
* *
28332658 GAACCACATTAGGTAATAACCTTCCTTAAATTTTCTCATATGATGTCATAACCCACCAATTGCGA
1 GAACCACATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCCACCAATTACGA
*
28332723 TCTTACATAATATGATCTT
66 TCTTACACAATATGATCTT
28332742 TAGCGCCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (94 bp):
GAACCACATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCCACCAATTACGA
TCTTACACAATATGATCTTCTTTCCATAT
Found at i:28344345 original size:50 final size:50
Alignment explanation
Indices: 28344243--28344435 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 50
28344233 GGTGATGAAA
* * *
28344243 TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
28344299 TCCCATGTAAGACCATGTCTTGGATATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * **
28344349 TCCC-TCGTAAGACCGTGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
28344399 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
28344436 GTACAAGAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 80 0.67
51 1 0.01
53 3 0.03
55 1 0.01
56 33 0.28
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:28361855 original size:14 final size:14
Alignment explanation
Indices: 28361800--28361859 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
28361790 AAAATGATTT
*
28361800 AATATATTTT-TTAA
1 AATATATTTTAAT-A
*
28361814 AATTTATTATTACATA
1 AATATATT-TTA-ATA
*
28361830 AAT-TAATTTAATA
1 AATATATTTTAATA
28361843 AATATATTTTAATA
1 AATATATTTTAATA
28361857 AAT
1 AAT
28361860 TGAGAATTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 6 0.16
14 22 0.58
15 5 0.13
16 4 0.11
17 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATATTTTAATA
Found at i:28362883 original size:13 final size:13
Alignment explanation
Indices: 28362845--28362891 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
28362835 TAAGAATATG
*
28362845 TTAACTTATTTTT
1 TTAATTTATTTTT
28362858 TTAATTTAGTTTTT
1 TTAATTTA-TTTTT
**
28362872 TTGTTTTATTTTT
1 TTAATTTATTTTT
28362885 TT-ATTTA
1 TTAATTTA
28362892 ATGTTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (13 bp):
TTAATTTATTTTT
Done.