Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 89 of 144
Found at i:26963123 original size:26 final size:26
Alignment explanation
Indices: 26963087--26963136 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
26963077 TATTTGCAAA
*
26963087 AAAAAAAAAAGAACAAAGAAAAAAGG
1 AAAAAAAAAAGAAAAAAGAAAAAAGG
* *
26963113 AAAAAACAAAGAAAAAAGGAAAAA
1 AAAAAAAAAAGAAAAAAGAAAAAA
26963137 TTTTTATTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAGAAAAAAGAAAAAAGG
Found at i:26965260 original size:71 final size:73
Alignment explanation
Indices: 26965143--26965281 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 73
26965133 TATTTTGTTA
26965143 GTGTTTTGTGATTTTTTATTGATGTAAATTTATTTTGTTAATTATTTTGTTAGTAATTTATG-TT
1 GTGTTTTGTGATTTTTTATTGATGTAAATTTATTTTGTTAATTATTTTGTTAGTAATTTATGATT
26965207 AGTGTTTT
66 AGTGTTTT
*
26965215 GTGTTTTGTGA-TTTTT-TT-A-GTAATATATATATTTT-TATAGTTATTTTGTTAGTAATTTAT
1 GTGTTTTGTGATTTTTTATTGATGTAA-AT-T-TATTTTGT-TAATTATTTTGTTAGTAATTTAT
26965275 GATTAGT
62 GATTAGT
26965282 TTATAAATTG
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
68 4 0.07
69 3 0.05
70 4 0.07
71 34 0.56
72 16 0.26
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (73 bp):
GTGTTTTGTGATTTTTTATTGATGTAAATTTATTTTGTTAATTATTTTGTTAGTAATTTATGATT
AGTGTTTT
Found at i:26970464 original size:23 final size:26
Alignment explanation
Indices: 26970408--26970481 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 26
26970398 TTTGACTTCT
* *
26970408 TAACATGAATTAATTATGTCTGAAAA
1 TAACATGAATTAATTAGGTCAGAAAA
26970434 TGAACATG-ATTAA-TAGGTCAG-AAA
1 T-AACATGAATTAATTAGGTCAGAAAA
* * *
26970458 TAACATGTATGAATTAGGGCAGAA
1 TAACATGAATTAATTAGGTCAGAA
26970482 TTAATGAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.15
24 8 0.20
25 13 0.32
26 7 0.17
27 6 0.15
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (26 bp):
TAACATGAATTAATTAGGTCAGAAAA
Found at i:26980988 original size:9 final size:8
Alignment explanation
Indices: 26980963--26980987 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26980953 ACTATCTCTC
26980963 TCTTTTTT
1 TCTTTTTT
26980971 TCTTTTTT
1 TCTTTTTT
26980979 TCTTTTTT
1 TCTTTTTT
26980987 T
1 T
26980988 TTTACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:26983635 original size:5 final size:5
Alignment explanation
Indices: 26983625--26983652 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
26983615 TATTCACGCC
26983625 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
26983653 TTATGTGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:26986842 original size:2 final size:2
Alignment explanation
Indices: 26986835--26986878 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
26986825 TTATTTCATG
*
26986835 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CG CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
26986877 CT
1 CT
26986879 ACATATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.02, T:0.48
Consensus pattern (2 bp):
CT
Found at i:26996203 original size:114 final size:111
Alignment explanation
Indices: 26996038--26996333 Score: 312
Period size: 114 Copynumber: 2.6 Consensus size: 111
26996028 GAAAACGCAT
* * *
26996038 CAAAAAATTAACCAAAACGCTACG-CTTTGGTCTTGATGTATAGTAGCATTAGTGGCGCTTATGT
1 CAAAATATTAACCAAAACGC-A-GAGTTTGGTCTTGATGTATATTAG-ATTAGTGGCGCTTAT-T
*
26996102 T-AAAACACCGATAAAGTATAATATTAGCGGCGAGT-TCTG-AAAGGCGCCG
62 TGAAAACACCGATAAAGCATAATATTAGCGGCGAGTAT-TGTAAA-GCGCCG
** * * *
26996151 CAATCTTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGTGGCGCTTATTT
1 CAA--AATATTAACCAAAACGCAGAGTTTGGTCTTGATGTATATTA-GATTAGTGGCGCTTATTT
* * * *
26996216 GAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTATTGTAAAGCGCCG
63 GAAAACACCGATAAAGCATAATATTAGCGGCGAGTATTGTAAAGCGCCG
* * * * *
26996265 CAAAATATTAACCACAACGCAGAGTTTGGTCTTGCTATATTTTAGGATTAGTGGCGCTTATTGGA
1 CAAAATATTAACCAAAACGCAGAGTTTGGTCTTGATGTATATTA-GATTAGTGGCGCTTATTTGA
26996330 AAAC
65 AAAC
26996334 GCAGCAAAAT
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
112 55 0.36
113 6 0.04
114 73 0.48
115 18 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (111 bp):
CAAAATATTAACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGATTAGTGGCGCTTATTTGAA
AACACCGATAAAGCATAATATTAGCGGCGAGTATTGTAAAGCGCCG
Found at i:26996204 original size:188 final size:186
Alignment explanation
Indices: 26995859--26996223 Score: 523
Period size: 188 Copynumber: 2.0 Consensus size: 186
26995849 ACAATACATC
26995859 TTAACCAAAACGCAAAGTTTGGTCTTAAGGTACACTAGCATTAGTGGCGCTTATACGAAAACACC
1 TTAACCAAAACGCAAAGTTTGGTCTTAAGGTACACTAGCATTAGTGGCGCTTATACGAAAACACC
* * * *
26995924 GCTAAAGCATAGTATTAGCGATGAGTAGAGAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAG
66 GATAAAGCATAATATTAGCGACGAGTACAGAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAG
* *
26995989 TTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGCATCAAAAAA
131 TTTGGTCTTGAGGTACATTACGATTAGTGGCGCTTATTGGAAAACGCATCAAAAAA
* * * * * * ***
26996045 TTAACCAAAACGCTACGCTTTGGTCTTGATGTATAGTAGCATTAGTGGCGCTTATGTTAAAACAC
1 TTAACCAAAACGCAAAG-TTTGGTCTTAAGGTACACTAGCATTAGTGGCGCTTATACGAAAACAC
* * * * *
26996110 CGATAAAGTATAATATTAGCGGCGAGTTCTGAAAGGCGCCGCAATCTTTCTTAACCAAAACGCAG
65 CGATAAAGCATAATATTAGCGACGAGTACAGAAA-GCGCCGCAATATTTCTTAACCAAAACGCAG
*
26996175 AGTTTGGTCTTGAGGTACATTACGATTAGTGGCGCTTATTTGAAAACGC
129 AGTTTGGTCTTGAGGTACATTACGATTAGTGGCGCTTATTGGAAAACGC
26996224 CGCTAAAGCA
Statistics
Matches: 156, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
186 15 0.10
187 66 0.42
188 75 0.48
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (186 bp):
TTAACCAAAACGCAAAGTTTGGTCTTAAGGTACACTAGCATTAGTGGCGCTTATACGAAAACACC
GATAAAGCATAATATTAGCGACGAGTACAGAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAG
TTTGGTCTTGAGGTACATTACGATTAGTGGCGCTTATTGGAAAACGCATCAAAAAA
Found at i:26996332 original size:112 final size:113
Alignment explanation
Indices: 26996085--26996335 Score: 285
Period size: 112 Copynumber: 2.2 Consensus size: 113
26996075 GTATAGTAGC
* * *
26996085 ATTAGTGGCGCTTA-TGTTAAAACACCGATAAAGTATAATATTAGCGGCGAGTTCTGAAAGGCGC
1 ATTAGTGGCGCTTATTG-GAAAACGCCGATAAAGCATAATATTAGCGGCGAGTTCTGAAAGGCGC
** * *
26996149 CGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACG
65 CGCAA-CAATATTAACCAAAACGCAGAGTTTGGTCTTGAGATACATTACG
* * * *
26996199 ATTAGTGGCGCTTATTTGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTAT-TGTAAA-GCG
1 ATTAGTGGCGCTTATTGGAAAACGCCGATAAAGCATAATATTAGCGGCGAGT-TCTG-AAAGGCG
* ** ** *
26996262 CCGCAA-AATATTAACCACAACGCAGAGTTTGGTCTTGCTATATTTTAGG
64 CCGCAACAATATTAACCAAAACGCAGAGTTTGGTCTTGAGATACATTACG
26996311 ATTAGTGGCGCTTATTGGAAAACGC
1 ATTAGTGGCGCTTATTGGAAAACGC
26996336 AGCAAAATAT
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
112 57 0.49
114 54 0.47
115 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (113 bp):
ATTAGTGGCGCTTATTGGAAAACGCCGATAAAGCATAATATTAGCGGCGAGTTCTGAAAGGCGCC
GCAACAATATTAACCAAAACGCAGAGTTTGGTCTTGAGATACATTACG
Found at i:26996376 original size:300 final size:299
Alignment explanation
Indices: 26995857--26996634 Score: 1108
Period size: 300 Copynumber: 2.6 Consensus size: 299
26995847 TCACAATACA
* * * ** *
26995857 TCTTAACCAAAACGCAAAGTTTGGTCTTAAGGTACACTAGCATTAGTGGCGCTTATACGAAAACA
1 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTAG-ATTAGTGGCGCTTATTTGAAAACG
** * **
26995922 CCGCTAAAGCATAGTATTAGCGATGAGTAGAGAAAGCGCCGCAATATTTCTTAACCAAAACGCAG
65 CCGCTAAAGCATAGTATTAGCGGCGCGTACTGAAAGCGCCGCAATA-TTCTTAACCAAAACGCAG
*
26995987 AGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGCATCAAAAAATTAACCA
129 AGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGCAGCAAAAAATTAACCA
* *
26996052 AAACGCTACGCTTTGGTCTTGATGTATAGTAGCATTAGTGGCGCTTATGTTAAAACACCGATAAA
194 AAACGCTACACTTTGGTATTGATGTATAGTAGCATTAGTGGCGCTTATGTTAAAACACCGATAAA
* * *
26996117 GTATAATATTAGCGGCGAGTTCTGAAAGGCGCCGCAATCTT
259 GTATAATATTAGCGGCAAGTACTGAAAAGCGCCGCAATCTT
26996158 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGTGGCGCTTATTTGAAAACG
1 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTA-GATTAGTGGCGCTTATTTGAAAACG
* * * *
26996223 CCGCTAAAGCATAGTATTAGCGGCGCGTATTGTAAAGCGCCGCAA-AATATTAACCACAACGCAG
65 CCGCTAAAGCATAGTATTAGCGGCGCGTACTG-AAAGCGCCGCAATATTCTTAACCAAAACGCAG
*** * *
26996287 AGTTTGGTCTTGCTATATTTTAGGATTAGTGGCGCTTATTGGAAAACGCAGCAAAATATTAACCA
129 AGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGCAGCAAAAAATTAACCA
* * * *
26996352 AAACGCTGCACTTTGGTATTGATGTGTAGTAGCATTAGTGGCGCTTATGTTAAAACGCCGCTAAA
194 AAACGCTACACTTTGGTATTGATGTATAGTAGCATTAGTGGCGCTTATGTTAAAACACCGATAAA
*
26996417 GTATAGTATTAGCGGCAAGTACTGAAAAGCGCCGCAATCTT
259 GTATAATATTAGCGGCAAGTACTGAAAAGCGCCGCAATCTT
* * * * * *
26996458 TTTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACGTTAGGATTTGTAGTGCTTATTTGAAAACG
1 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTA-GATTAGTGGCGCTTATTTGAAAACG
*
26996523 CCGCTAAAGCATAGTATTAGCGGCGCGTACTGAAAAGCGCCGCAATCTTTCTTAACCAAAACGCA
65 CCGCTAAAGCATAGTATTAGCGGCGCGTACTG-AAAGCGCCGCAAT-ATTCTTAACCAAAACGCA
* ** *
26996588 GAGTTTGGTGTTGAGGTACGTTAGGATTAGTGGCGCTTATTTGAAAA
128 GAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAA
26996635 TGCCGCTAAA
Statistics
Matches: 423, Mismatches: 50, Indels: 7
0.88 0.10 0.01
Matches are distributed among these distances:
300 271 0.64
301 85 0.20
302 67 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (299 bp):
TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTAGATTAGTGGCGCTTATTTGAAAACGC
CGCTAAAGCATAGTATTAGCGGCGCGTACTGAAAGCGCCGCAATATTCTTAACCAAAACGCAGAG
TTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGCAGCAAAAAATTAACCAAA
ACGCTACACTTTGGTATTGATGTATAGTAGCATTAGTGGCGCTTATGTTAAAACACCGATAAAGT
ATAATATTAGCGGCAAGTACTGAAAAGCGCCGCAATCTT
Found at i:26996563 original size:114 final size:114
Alignment explanation
Indices: 26996345--26996681 Score: 473
Period size: 114 Copynumber: 2.9 Consensus size: 114
26996335 CAGCAAAATA
* * * * *
26996345 TTAACCAAAACGCTGCACTTTGGTATTGATGTGTA-G-TAGCATTAGTGGCGCTTATGTT-AAAA
1 TTAACCAAAACGCAG-AGTTTGGTGTTGA-G-GTACGTTAGGATTAGTAGCGCTTAT-TTGAAAA
** *
26996407 CGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGAAAAGCGCCGCAATCTTTT
62 CGCCGCTAAAGTATAGTATTAGCGGCGCGTACTGAAAAGCGCCGCAATCTTTC
* *
26996460 TTAACCAAAACGCAGAGTTTGGTGTTGAGGTACGTTAGGATTTGTAGTGCTTATTTGAAAACGCC
1 TTAACCAAAACGCAGAGTTTGGTGTTGAGGTACGTTAGGATTAGTAGCGCTTATTTGAAAACGCC
*
26996525 GCTAAAGCATAGTATTAGCGGCGCGTACTGAAAAGCGCCGCAATCTTTC
66 GCTAAAGTATAGTATTAGCGGCGCGTACTGAAAAGCGCCGCAATCTTTC
* *
26996574 TTAACCAAAACGCAGAGTTTGGTGTTGAGGTACGTTAGGATTAGTGGCGCTTATTTGAAAATGCC
1 TTAACCAAAACGCAGAGTTTGGTGTTGAGGTACGTTAGGATTAGTAGCGCTTATTTGAAAACGCC
* * *
26996639 GCTAAAGTATAGTATTAGCGGTGCGTATTGTAAAGCGCCGCAA
66 GCTAAAGTATAGTATTAGCGGCGCGTACTGAAAAGCGCCGCAA
26996682 AATATTAACC
Statistics
Matches: 200, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
112 3 0.01
113 4 0.02
114 179 0.89
115 14 0.07
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (114 bp):
TTAACCAAAACGCAGAGTTTGGTGTTGAGGTACGTTAGGATTAGTAGCGCTTATTTGAAAACGCC
GCTAAAGTATAGTATTAGCGGCGCGTACTGAAAAGCGCCGCAATCTTTC
Found at i:26996831 original size:16 final size:17
Alignment explanation
Indices: 26996797--26996871 Score: 127
Period size: 16 Copynumber: 4.5 Consensus size: 17
26996787 CGCCGCTAGA
26996797 TTATTATATAATGTAGT
1 TTATTATATAATGTAGT
*
26996814 TTATTATAT-ATTTAGT
1 TTATTATATAATGTAGT
26996830 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGT
26996846 TTATTATATAATGTAGT
1 TTATTATATAATGTAGT
26996863 TTATTATAT
1 TTATTATAT
26996872 TATATAATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
16 30 0.55
17 25 0.45
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.57
Consensus pattern (17 bp):
TTATTATATAATGTAGT
Found at i:26996836 original size:33 final size:33
Alignment explanation
Indices: 26996797--26996871 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
26996787 CGCCGCTAGA
*
26996797 TTATTATATAATGTAGTTTATTATAT-ATTTAGT
1 TTATTATAT-ATGTAGTTTATTATATAATGTAGT
26996830 TTATTATATATGTAGTTTATTATATAATGTAGT
1 TTATTATATATGTAGTTTATTATATAATGTAGT
26996863 TTATTATAT
1 TTATTATAT
26996872 TATATAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 16 0.40
33 24 0.60
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.57
Consensus pattern (33 bp):
TTATTATATATGTAGTTTATTATATAATGTAGT
Found at i:27000190 original size:246 final size:247
Alignment explanation
Indices: 26999588--27000252 Score: 1192
Period size: 246 Copynumber: 2.7 Consensus size: 247
26999578 TTAAATCGAC
* *
26999588 ATAACTAAAACACATGATTAATAAAAATAAAGTAAATACTATACTCACATAAGTAAAACCGTTAA
1 ATAACTAAAACATATGATTAATAAAAATAAAGTAAATACTATACTTACATAAGTAAAACCGTTAA
26999653 CATCATCATAAAGTAGATATGATTAATTAAGGAAATATAACATCAATTTGAGCAAATGGTCATCT
66 CATCATCATAAAGTAGATATGATTAATTAAGGAAATATAACATCAATTTGAGCAAATGGTCATCT
26999718 TTTTAAAGTGTTTATTTCTTTTCATTAATCATATGTAAATTTTTTTCAAAACTTTAAATCGACAT
131 TTTTAAAGTGTTTATTTCTTTTCATTAATCATATGTAAATTTTTTTCAAAACTTTAAATCGACAT
26999783 AACATTACGTGAAAAAATTATATAAAACAAAAAACAATTAAATTAAATTAAATAA
196 AACATTACGTGAAAAAATTATATAAAAC--AAAACAA-TAAATTAAATTAAATAA
* **
26999838 ATAAATAAAACATATGATTAATAAAAATAAAGTAAATACTATACTTACATAAGTAAAATGGTTAA
1 ATAACTAAAACATATGATTAATAAAAATAAAGTAAATACTATACTTACATAAGTAAAACCGTTAA
26999903 CATCATCATAAAGTAGATATGATTAATTAAGGAAATATAACATCAATTTGAGCAAATGGTCATCT
66 CATCATCATAAAGTAGATATGATTAATTAAGGAAATATAACATCAATTTGAGCAAATGGTCATCT
*
26999968 TTTTAAAGTGTTTATTTCTTTTCATTAATCATATGTAAATTGTTTTTTCTAAACTTTAAATCGAC
131 TTTTAAAGTGTTTATTTCTTTTCATTAATCATATGTAAA-T-TTTTTTCAAAACTTTAAATCGAC
27000033 ATAACATTACGTGAAAAAATTATATAAAAC-AAA-AA-AAATTAAATTAAATAA
194 ATAACATTACGTGAAAAAATTATATAAAACAAAACAATAAATTAAATTAAATAA
*
27000084 ATAACTAAAACATATGATTAATAAAAATAAAGTGAATACTATACTTACATAAGTAAAACCGTTAA
1 ATAACTAAAACATATGATTAATAAAAATAAAGTAAATACTATACTTACATAAGTAAAACCGTTAA
*
27000149 CATCATCATAAAGTAGATATGATTAATTAAGAAAATATAACATCAATTTGAGCAAATGGTCATCT
66 CATCATCATAAAGTAGATATGATTAATTAAGGAAATATAACATCAATTTGAGCAAATGGTCATCT
27000214 TTTTAAAGTGTTTATTTCTTTTCATTAATCATATGTAAA
131 TTTTAAAGTGTTTATTTCTTTTCATTAATCATATGTAAA
27000253 CTTGCGTAAC
Statistics
Matches: 402, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
246 180 0.45
248 2 0.00
249 3 0.01
250 164 0.41
251 1 0.00
252 52 0.13
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (247 bp):
ATAACTAAAACATATGATTAATAAAAATAAAGTAAATACTATACTTACATAAGTAAAACCGTTAA
CATCATCATAAAGTAGATATGATTAATTAAGGAAATATAACATCAATTTGAGCAAATGGTCATCT
TTTTAAAGTGTTTATTTCTTTTCATTAATCATATGTAAATTTTTTTCAAAACTTTAAATCGACAT
AACATTACGTGAAAAAATTATATAAAACAAAACAATAAATTAAATTAAATAA
Found at i:27000291 original size:9 final size:9
Alignment explanation
Indices: 27000274--27000431 Score: 123
Period size: 9 Copynumber: 17.8 Consensus size: 9
27000264 TACGAAATAT
*
27000274 CTTAGATAA
1 CTTACATAA
27000283 CTTACATAA
1 CTTACATAA
*
27000292 --TACATAG
1 CTTACATAA
*
27000299 CATACATAA
1 CTTACATAA
27000308 CTTACATAA
1 CTTACATAA
*
27000317 --TACAAAA
1 CTTACATAA
27000324 CTTACATAA
1 CTTACATAA
* *
27000333 CTTAAATAT
1 CTTACATAA
*
27000342 CTTACACAA
1 CTTACATAA
27000351 CTTACATAA
1 CTTACATAA
*
27000360 CCTACATAA
1 CTTACATAA
27000369 --TACATTTAA
1 CTTACA--TAA
27000378 CTTACATAA
1 CTTACATAA
*
27000387 CTTACCTAA
1 CTTACATAA
27000396 CTTACATAA
1 CTTACATAA
*
27000405 -TAACTTATACA
1 CTTAC--ATA-A
*
27000416 CGTACATAA
1 CTTACATAA
27000425 CTTACAT
1 CTTACAT
27000432 TTAACTTACC
Statistics
Matches: 118, Mismatches: 19, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
7 16 0.14
8 3 0.03
9 86 0.73
10 6 0.05
11 5 0.04
12 2 0.02
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.32
Consensus pattern (9 bp):
CTTACATAA
Found at i:27000313 original size:25 final size:25
Alignment explanation
Indices: 27000274--27000391 Score: 128
Period size: 25 Copynumber: 4.6 Consensus size: 25
27000264 TACGAAATAT
* *
27000274 CTTAGATAACTTACATAATACATAG
1 CTTACATAACTTACATAATACATAA
* *
27000299 CATACATAACTTACATAATACAAAA
1 CTTACATAACTTACATAATACATAA
* * *
27000324 CTTACATAACTTAAATATCTTACACAA
1 CTTACATAACTTACATA--ATACATAA
*
27000351 CTTACATAACCTACATAATACATTTAA
1 CTTACATAACTTACATAATACA--TAA
27000378 CTTACATAACTTAC
1 CTTACATAACTTAC
27000392 CTAACTTACA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
25 40 0.53
27 36 0.47
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
CTTACATAACTTACATAATACATAA
Found at i:27004762 original size:28 final size:29
Alignment explanation
Indices: 27004731--27004785 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
27004721 CTTTTTACTT
*
27004731 TTCCCCCAAAATTTTTACTCCT-TCCCAC
1 TTCCCCCAAAACTTTTACTCCTCTCCCAC
*
27004759 TTCCCCCGAAACTTTTACTCCTCTCCC
1 TTCCCCCAAAACTTTTACTCCTCTCCC
27004786 CTCCCAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.18, C:0.45, G:0.02, T:0.35
Consensus pattern (29 bp):
TTCCCCCAAAACTTTTACTCCTCTCCCAC
Found at i:27008064 original size:43 final size:43
Alignment explanation
Indices: 27007950--27008174 Score: 294
Period size: 43 Copynumber: 5.3 Consensus size: 43
27007940 GATATGTTTT
*
27007950 TAGCGGCGTTT-TTGTGAAAAGCGCCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTTG-GAAAAGCGCCGCTAAAGGTCTTGATCTA
* * **
27007992 TAGCGGCGTTCGTATGAAAAAATGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGT-TGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
27008036 TAACGGCGTTTGTTGGAAAAGCGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * *
27008079 TAGCGGCGTTTGTAGAAAAAGCGCCGTTAAAGATCTTGAACTA
1 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
27008122 TAGCGGCGTTTG-TGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCTTGATCTA
27008164 TAGCGGCGTTT
1 TAGCGGCGTTT
27008175 ATTCAAATGT
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 45 0.29
43 92 0.59
44 19 0.12
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:27009495 original size:49 final size:52
Alignment explanation
Indices: 27009409--27009505 Score: 148
Period size: 49 Copynumber: 1.9 Consensus size: 52
27009399 AATAATTATA
27009409 GTTTTCTCCAAAATGAAAATGGAGAAAATGAAATCA-TTTGAACATGAATGTG
1 GTTTTCTCCAAAATGAAAATGGAGAAAATGAAATCATTTTGAA-ATGAATGTG
*
27009461 GTTTTCT-CAAAATGAAAAT-GA-AAAATGAATTCATTTTGAAATGAA
1 GTTTTCTCCAAAATGAAAATGGAGAAAATGAAATCATTTTGAAATGAA
27009506 CAAGGATTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
49 16 0.37
50 8 0.19
51 12 0.28
52 7 0.16
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.31
Consensus pattern (52 bp):
GTTTTCTCCAAAATGAAAATGGAGAAAATGAAATCATTTTGAAATGAATGTG
Found at i:27009516 original size:49 final size:51
Alignment explanation
Indices: 27009411--27009521 Score: 129
Period size: 49 Copynumber: 2.2 Consensus size: 51
27009401 TAATTATAGT
*** *
27009411 TTTCTCCAAAATGAAAATGGAGAAAATGAAATCATTTGAACATGAATGTGGT
1 TTTCT-CAAAATGAAAATGGAGAAAATGAAATCATTTGAACATGAACAAGGA
*
27009463 TTTCTCAAAATGAAAAT-GA-AAAATGAATTCATTTTGAA-ATGAACAAGGA
1 TTTCTCAAAATGAAAATGGAGAAAATGAAATCA-TTTGAACATGAACAAGGA
*
27009512 TTTCTTAAAA
1 TTTCTCAAAA
27009522 ATGATCGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
49 27 0.52
50 8 0.15
51 12 0.23
52 5 0.10
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (51 bp):
TTTCTCAAAATGAAAATGGAGAAAATGAAATCATTTGAACATGAACAAGGA
Found at i:27010502 original size:38 final size:39
Alignment explanation
Indices: 27010460--27010534 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 39
27010450 TGATGACTAC
*
27010460 AATATTGTCCAAGTGTATTA-AGTACTACACCACATAAT
1 AATATTGTCCAAGTGCATTACAGTACTACACCACATAAT
*
27010498 AATATTGTCCAAGTGCATTACTAGTATTACACCACAT
1 AATATTGTCCAAGTGCATTAC-AGTACTACACCACAT
27010535 TAAAACAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 19 0.58
40 14 0.42
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (39 bp):
AATATTGTCCAAGTGCATTACAGTACTACACCACATAAT
Found at i:27014735 original size:18 final size:19
Alignment explanation
Indices: 27014698--27014736 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
27014688 ATCCAAGTTG
27014698 AAGCTCATATTAAAATGCA
1 AAGCTCATATTAAAATGCA
27014717 AAGCTC-TA-TAAAGATGCA
1 AAGCTCATATTAAA-ATGCA
27014735 AA
1 AA
27014737 AATTGAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 9 0.47
19 6 0.32
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (19 bp):
AAGCTCATATTAAAATGCA
Found at i:27026939 original size:17 final size:17
Alignment explanation
Indices: 27026895--27026950 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
27026885 AGTAAATAAT
*
27026895 TATTCAACACTATATTGTA
1 TATTCAACACTA-ATAG-A
*
27026914 TATTTAACACTAATAGA
1 TATTCAACACTAATAGA
*
27026931 TATTCAACACTAATAAA
1 TATTCAACACTAATAGA
27026948 TAT
1 TAT
27026951 AAACTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 19 0.58
18 3 0.09
19 11 0.33
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (17 bp):
TATTCAACACTAATAGA
Found at i:27028048 original size:16 final size:16
Alignment explanation
Indices: 27028022--27028066 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
27028012 ATCCTTTTAA
27028022 AAACT-ATTATAATAT
1 AAACTAATTATAATAT
27028037 AAACTAATTATAATAT
1 AAACTAATTATAATAT
27028053 AAACTAA-TATAATA
1 AAACTAATTATAATA
27028067 AAAAATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (16 bp):
AAACTAATTATAATAT
Found at i:27034223 original size:35 final size:36
Alignment explanation
Indices: 27034184--27034253 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
27034174 AATCCTTGCT
*
27034184 GTTTAC-TTATTTGAAGTGTGTCAAGAATCTTTATG
1 GTTTACTTTATTTGAAGGGTGTCAAGAATCTTTATG
*
27034219 GTTTACTTTATTTGAAGGGTGTCAAGAATTTTTAT
1 GTTTACTTTATTTGAAGGGTGTCAAGAATCTTTAT
27034254 TGTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (36 bp):
GTTTACTTTATTTGAAGGGTGTCAAGAATCTTTATG
Found at i:27034357 original size:20 final size:20
Alignment explanation
Indices: 27034334--27034372 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
27034324 CAGAAATTTC
27034334 TAAGCTTGAACGAAAATTCG
1 TAAGCTTGAACGAAAATTCG
27034354 TAAGCTTGAACGAAAATTC
1 TAAGCTTGAACGAAAATTC
27034373 TTGAAGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (20 bp):
TAAGCTTGAACGAAAATTCG
Found at i:27040677 original size:131 final size:131
Alignment explanation
Indices: 27040476--27040750 Score: 523
Period size: 131 Copynumber: 2.1 Consensus size: 131
27040466 TAAAACTCAC
27040476 TTTCCTTTCCTTAGCTTTTCCCTCAAATTGGGGTAAATAAAAACTAAGTAATTCAGGGAAAGTAA
1 TTTCCTTTCCTTAGCTTTTCCCTCAAATTGGGGTAAATAAAAACTAAGTAATTCAGGGAAAGTAA
27040541 GGGATATTCAACTACCATTACTTTCCCTTGCTTAAATAAAATAAGTTATCCAAACAAGGGATAGG
66 GGGATATTCAACTACCATTACTTTCCCTTGCTTAAATAAAATAAGTTATCCAAACAAGGGATAGG
27040606 A
131 A
*
27040607 TTTCCTTTCGTTAGCTTTTCCCTCAAATTGGGGTAAATAAAAACTAAGTAATTCAGGGAAAGTAA
1 TTTCCTTTCCTTAGCTTTTCCCTCAAATTGGGGTAAATAAAAACTAAGTAATTCAGGGAAAGTAA
27040672 GGGATATTCAACTACCATTACTTTCCCTTGCTTAAATAAAATAAGTTATCCAAACAAGGGATAGG
66 GGGATATTCAACTACCATTACTTTCCCTTGCTTAAATAAAATAAGTTATCCAAACAAGGGATAGG
27040737 A
131 A
*
27040738 TGTTACTTTCCTT
1 T-TTCCTTTCCTT
27040751 TCCTTTCCCT
Statistics
Matches: 140, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
131 131 0.94
132 9 0.06
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (131 bp):
TTTCCTTTCCTTAGCTTTTCCCTCAAATTGGGGTAAATAAAAACTAAGTAATTCAGGGAAAGTAA
GGGATATTCAACTACCATTACTTTCCCTTGCTTAAATAAAATAAGTTATCCAAACAAGGGATAGG
A
Found at i:27043078 original size:28 final size:28
Alignment explanation
Indices: 27043043--27043103 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
27043033 GATTGGCAGG
27043043 AGGATATGGTGAAGTCAGAGGAGAGGAA
1 AGGATATGGTGAAGTCAGAGGAGAGGAA
27043071 AGGATATGGTGAAGTCAGAGGAGAGGAA
1 AGGATATGGTGAAGTCAGAGGAGAGGAA
27043099 AGGAT
1 AGGAT
27043104 CAGAGATGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.43, T:0.15
Consensus pattern (28 bp):
AGGATATGGTGAAGTCAGAGGAGAGGAA
Found at i:27044967 original size:45 final size:45
Alignment explanation
Indices: 27044902--27045005 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
27044892 ACGGTAGCAG
* * *
27044902 TAACAGTAACAGTAATAGTATTCAACACACAAAGTGTTGAATCTA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGA
* ** *
27044947 TAACAGTAACGGTAACAGTATTTGACACACAAAGTGTCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGA
27044992 TAACAGTAACAGTA
1 TAACAGTAACAGTA
27045006 GTCGGCATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGA
Found at i:27045249 original size:40 final size:41
Alignment explanation
Indices: 27045205--27045292 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 41
27045195 AATTCATTAC
* * *
27045205 TTCAGTAATTTCACAGTTCAATGCAGTACAC-ATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
* *
27045245 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
27045286 TTCAGTA
1 TTCAGTA
27045293 TTCCTTAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 27 0.64
41 15 0.36
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (41 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
Found at i:27045270 original size:21 final size:21
Alignment explanation
Indices: 27045205--27045272 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
27045195 AATTCATTAC
* *
27045205 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
27045226 TGCAGTACACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
27045245 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
27045266 TTCAGTA
1 TTCAGTA
27045273 CTCAAAAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Found at i:27045570 original size:13 final size:13
Alignment explanation
Indices: 27045554--27045580 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27045544 TAATTTTCCC
27045554 TTTCTTCTTTCTT
1 TTTCTTCTTTCTT
27045567 TTTCTTCTTTCTT
1 TTTCTTCTTTCTT
27045580 T
1 T
27045581 CTCCTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCTTCTTTCTT
Found at i:27045613 original size:4 final size:4
Alignment explanation
Indices: 27045604--27045639 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
27045594 AAAGTCTCTA
27045604 TTCT TTCT TTCT TTCT TTCT TTCTGT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTC--T TTCT TTCT TT
27045640 TGCTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 26 0.87
6 4 0.13
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:27046544 original size:3 final size:3
Alignment explanation
Indices: 27046536--27046619 Score: 143
Period size: 3 Copynumber: 28.3 Consensus size: 3
27046526 TTTCAAAACT
* *
27046536 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTT TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
27046584 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
27046620 CCTTTCAATT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 2 0.03
3 74 0.97
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:27048280 original size:21 final size:21
Alignment explanation
Indices: 27048224--27048313 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
27048214 TGATCAGTAG
*
27048224 ACGACACAT-AAGTGCCTGAA
1 ACGACACATAAAGTGCCTGAT
** *
27048244 ACGACACACGAGGTGCCTGAT
1 ACGACACATAAAGTGCCTGAT
*
27048265 ACGACACATAAAGTGCTTGGGAT
1 ACGACACATAAAGTGCCT--GAT
27048288 ACGACACATAAAGTGCCTGAT
1 ACGACACATAAAGTGCCTGAT
27048309 -CGACA
1 ACGACA
27048314 AAGCCGATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 13 0.22
21 26 0.44
23 20 0.34
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTGAT
Found at i:27049452 original size:13 final size:13
Alignment explanation
Indices: 27049436--27049461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27049426 TTGCTTTTTC
27049436 TAATAATATAATA
1 TAATAATATAATA
27049449 TAATAATATAATA
1 TAATAATATAATA
27049462 GTTTTACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:27051882 original size:20 final size:19
Alignment explanation
Indices: 27051859--27051923 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
27051849 AAGCTCAAAC
27051859 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
27051879 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
27051899 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
27051919 GAGCT
1 GAGCT
27051924 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:27052162 original size:38 final size:38
Alignment explanation
Indices: 27052110--27052269 Score: 230
Period size: 38 Copynumber: 4.2 Consensus size: 38
27052100 AACCATACTA
* * *
27052110 TTATTTAGGTTTAGTGCCTAGCAGGCTTAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTG
* *
27052148 TTATTCAGGCTTAGTGCCTAGCAGACTCAGTGCCAGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTG
* * *
27052186 TTATTCAGGATTAGTGCGTAGCAGGCTTAGTGCCAATG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTG
* *
27052224 TTATTTAGGCTTAGTGCCTAGCAGGCTTAGTACCAGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTG
27052262 TTATTCAG
1 TTATTCAG
27052270 ATTTATTGCC
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 106 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.34
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTG
Found at i:27054662 original size:12 final size:12
Alignment explanation
Indices: 27054642--27054674 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
27054632 GATGCCACAC
27054642 GGCCATGTGTCA
1 GGCCATGTGTCA
*
27054654 GGCCGTGTGTCA
1 GGCCATGTGTCA
27054666 GGCCATGTG
1 GGCCATGTG
27054675 AGGCACCGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.39, T:0.24
Consensus pattern (12 bp):
GGCCATGTGTCA
Found at i:27056362 original size:26 final size:26
Alignment explanation
Indices: 27056326--27056375 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
27056316 GAGTAAGTTT
*
27056326 GTAAATATTATTATTTAATATTTATC
1 GTAAATATTATTATTCAATATTTATC
27056352 GTAAATATTATTATTCAATATTTA
1 GTAAATATTATTATTCAATATTTA
27056376 CGAGTCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (26 bp):
GTAAATATTATTATTCAATATTTATC
Found at i:27057646 original size:18 final size:18
Alignment explanation
Indices: 27057623--27057657 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27057613 GAGTTAAACG
27057623 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
27057641 AATCGAGTTATTCGAAT
1 AATCGAGTTATTCGAAT
27057658 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:27057741 original size:9 final size:9
Alignment explanation
Indices: 27057709--27057745 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
27057699 TGAGTTTTCG
27057709 AATTCGAAT
1 AATTCGAAT
*
27057718 AACTCGAAT
1 AATTCGAAT
27057727 AATTCGAAT
1 AATTCGAAT
*
27057736 AGTTCGAAT
1 AATTCGAAT
27057745 A
1 A
27057746 TCAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:27060272 original size:15 final size:16
Alignment explanation
Indices: 27060252--27060281 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27060242 TGGTGCCTTG
27060252 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
27060267 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
27060282 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:27065100 original size:16 final size:16
Alignment explanation
Indices: 27065062--27065102 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
27065052 TAGATTTAAA
27065062 CCTTAAAACTAAATAC
1 CCTTAAAACTAAATAC
*
27065078 CCTTTAAAACTTAATAC
1 CC-TTAAAACTAAATAC
*
27065095 TCTTAAAA
1 CCTTAAAA
27065103 GCCAAAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (16 bp):
CCTTAAAACTAAATAC
Found at i:27067249 original size:27 final size:27
Alignment explanation
Indices: 27067214--27067266 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
27067204 GACTGAAACT
27067214 ATAGCATATTCTGTGCTTTCTATTCAA
1 ATAGCATATTCTGTGCTTTCTATTCAA
*
27067241 ATAGGATATTCTGTGCTTTCTATTCA
1 ATAGCATATTCTGTGCTTTCTATTCA
27067267 CTTCTCAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (27 bp):
ATAGCATATTCTGTGCTTTCTATTCAA
Found at i:27068655 original size:21 final size:21
Alignment explanation
Indices: 27068631--27068683 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
27068621 CATTGTTTCT
* *
27068631 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAATAACC
*
27068652 AATCTCACCGCTACAATAACT
1 AATCTCACCGCTACAATAACC
27068673 AATCTCACCGC
1 AATCTCACCGC
27068684 CACCACTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:27070318 original size:19 final size:19
Alignment explanation
Indices: 27070296--27070340 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
27070286 AGGGAGAAGC
*
27070296 AAAAAAGAATAGAAAATAA
1 AAAAAAGAAAAGAAAATAA
* *
27070315 AAAAAATAAAAGAACATAA
1 AAAAAAGAAAAGAAAATAA
27070334 AACAAAA
1 AA-AAAA
27070341 AATTATGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAAAGAAAAGAAAATAA
Found at i:27074576 original size:224 final size:224
Alignment explanation
Indices: 27074186--27074632 Score: 867
Period size: 224 Copynumber: 2.0 Consensus size: 224
27074176 CTAATTGTTG
27074186 GAAAGTTGTTATCTCATTACACAACTTTACGTTCCTACTTGGTGGAAAATACTTAACAAAAAATC
1 GAAAGTTGTTATCTCATTACACAACTTTACGTTCCTACTTGGTGGAAAATACTTAACAAAAAATC
* *
27074251 TTTCTGCTAATTCTTTCCAAGTAGATATTGAACTTGGTGGCAATGAATTTAGTCATGCTTGTGCA
66 TTTCTGCTAATTCTTTCCAAGTAGATATTGAACTTGGTGGCAATGAATTCAGTCATGCTCGTGCA
27074316 TGATCTCGCAACGAGTATGGAAATAGTTTCAACCTTAGTGCGTCTTCAGTCACACCAACTAACTT
131 TGATCTCGCAACGAGTATGGAAATAGTTTCAACCTTAGTGCGTCTTCAGTCACACCAACTAACTT
27074381 AAATGAATCACTAACCTCCATGAATAATC
196 AAATGAATCACTAACCTCCATGAATAATC
*
27074410 GAAAGTTGTTATCTCATTACACAACTTTACGTTCCTACTTGGTGGAAAATACTTAACCAAAAATC
1 GAAAGTTGTTATCTCATTACACAACTTTACGTTCCTACTTGGTGGAAAATACTTAACAAAAAATC
27074475 TTTCTGCTAATTCTTTCCAAGTAGATATTGAACTTGGTGGCAATGAATTCAGTCATGCTCGTGCA
66 TTTCTGCTAATTCTTTCCAAGTAGATATTGAACTTGGTGGCAATGAATTCAGTCATGCTCGTGCA
27074540 TGATCTCGCAACGAGTATGGAAATAGTTTCAACCTTAGTGCGTCTTCAGTCACACCAACTAACTT
131 TGATCTCGCAACGAGTATGGAAATAGTTTCAACCTTAGTGCGTCTTCAGTCACACCAACTAACTT
27074605 AAATGAATCACTAACCTCCATGAATAAT
196 AAATGAATCACTAACCTCCATGAATAAT
27074633 TGAAGGTGTA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
224 220 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (224 bp):
GAAAGTTGTTATCTCATTACACAACTTTACGTTCCTACTTGGTGGAAAATACTTAACAAAAAATC
TTTCTGCTAATTCTTTCCAAGTAGATATTGAACTTGGTGGCAATGAATTCAGTCATGCTCGTGCA
TGATCTCGCAACGAGTATGGAAATAGTTTCAACCTTAGTGCGTCTTCAGTCACACCAACTAACTT
AAATGAATCACTAACCTCCATGAATAATC
Found at i:27077556 original size:27 final size:27
Alignment explanation
Indices: 27077526--27077584 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 27
27077516 TTAAGAAACC
27077526 TTAGTGCGCTCTCTAATTATTAGCACA
1 TTAGTGCGCTCTCTAATTATTAGCACA
*
27077553 TTAGT--GCTCTCTGATTATTAGCACA
1 TTAGTGCGCTCTCTAATTATTAGCACA
*
27077578 TCAGTGC
1 TTAGTGC
27077585 TCTCCGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 23 0.82
27 5 0.18
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (27 bp):
TTAGTGCGCTCTCTAATTATTAGCACA
Found at i:27077564 original size:25 final size:25
Alignment explanation
Indices: 27077533--27077588 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
27077523 ACCTTAGTGC
*
27077533 GCTCTCTAATTATTAGCACATTAGT
1 GCTCTCTAATTATTAGCACATCAGT
*
27077558 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTAATTATTAGCACATCAGT
27077583 GCTCTC
1 GCTCTC
27077589 CGATTAGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (25 bp):
GCTCTCTAATTATTAGCACATCAGT
Found at i:27077593 original size:25 final size:25
Alignment explanation
Indices: 27077541--27077594 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
27077531 GCGCTCTCTA
* *
27077541 ATTATTAGCACATTAGTGCTCTCTG
1 ATTATTAGCACATCAGTGCTCTCCG
27077566 ATTATTAGCACATCAGTGCTCTCCG
1 ATTATTAGCACATCAGTGCTCTCCG
27077591 ATTA
1 ATTA
27077595 GCACATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (25 bp):
ATTATTAGCACATCAGTGCTCTCCG
Found at i:27077597 original size:22 final size:23
Alignment explanation
Indices: 27077543--27077610 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 23
27077533 GCTCTCTAAT
*
27077543 TATTAGCACATTAGTGCTCTCTG
1 TATTAGCACATTAGTGCTCTCCG
*
27077566 ATTATTAGCACATCAGTGCTCTCCG
1 --TATTAGCACATTAGTGCTCTCCG
*
27077591 -ATTAGCACATTTGTGCTCTC
1 TATTAGCACATTAGTGCTCTC
27077611 TGTTTATCTG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
22 18 0.46
25 21 0.54
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (23 bp):
TATTAGCACATTAGTGCTCTCCG
Found at i:27082411 original size:38 final size:38
Alignment explanation
Indices: 27082365--27082466 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
27082355 ACCGAAATCC
*
27082365 TTATTATAATTATTGTAATTATAATTTACGAT-AGAATA
1 TTATTATAATTATTGTAATTATAATTTACGATCA-AACA
* * *
27082403 TTATTATAATTATTGTAATTGTAATTTTCGGTCAAACA
1 TTATTATAATTATTGTAATTATAATTTACGATCAAACA
* *
27082441 TTACTATAATTATGGTAATTATAATT
1 TTATTATAATTATTGTAATTATAATT
27082467 ATTATATTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 55 0.98
39 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (38 bp):
TTATTATAATTATTGTAATTATAATTTACGATCAAACA
Found at i:27082942 original size:17 final size:18
Alignment explanation
Indices: 27082900--27082942 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27082890 GTCACAAGAT
27082900 CTCACACATGCCTGTGTGG
1 CTCACACA-GCCTGTGTGG
27082919 C-CTACACA-CCTGTGTGG
1 CTC-ACACAGCCTGTGTGG
27082936 CTCACAC
1 CTCACAC
27082943 GACCCAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 14 0.64
18 2 0.09
19 6 0.27
ACGTcount: A:0.19, C:0.37, G:0.21, T:0.23
Consensus pattern (18 bp):
CTCACACAGCCTGTGTGG
Found at i:27103438 original size:55 final size:55
Alignment explanation
Indices: 27103373--27103482 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
27103363 TTGTTACTCT
27103373 TTCCCTATCAAAATATTTCTTCTTTGACTCCCTTTTGACCTACTCTTGGAACATG
1 TTCCCTATCAAAATATTTCTTCTTTGACTCCCTTTTGACCTACTCTTGGAACATG
*
27103428 TTCCCTATCAAAATCTTTCTTCTTTGACTCCCTTTTGACCTACTCTTGGAACATG
1 TTCCCTATCAAAATATTTCTTCTTTGACTCCCTTTTGACCTACTCTTGGAACATG
27103483 CATGAACTCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (55 bp):
TTCCCTATCAAAATATTTCTTCTTTGACTCCCTTTTGACCTACTCTTGGAACATG
Found at i:27106445 original size:11 final size:12
Alignment explanation
Indices: 27106418--27106500 Score: 51
Period size: 11 Copynumber: 7.8 Consensus size: 12
27106408 ATAAATTCTT
*
27106418 TCTCTAATTTCC
1 TCTCAAATTTCC
27106430 TCTCAAATTT-C
1 TCTCAAATTTCC
27106441 TCTCAAA--TCC
1 TCTCAAATTTCC
**
27106451 -CT---ATTTAA
1 TCTCAAATTTCC
*
27106459 TCTC-AATTTGC
1 TCTCAAATTTCC
27106470 TCTC-AATTTCC
1 TCTCAAATTTCC
*
27106481 TTTCAAATTT-C
1 TCTCAAATTTCC
27106492 TCTCAAATT
1 TCTCAAATT
27106501 CCTATTTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
6 1 0.02
8 1 0.02
9 5 0.09
10 1 0.02
11 34 0.61
12 14 0.25
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:27106692 original size:18 final size:18
Alignment explanation
Indices: 27106669--27106731 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
27106659 TAAGTATTAA
27106669 ATTTAATTTTTAAATATT
1 ATTTAATTTTTAAATATT
**
27106687 ATTTAAGATTTTTTTAT-TT
1 ATTT-A-ATTTTTAAATATT
*
27106706 ATGTAA-TTTTAAATAATT
1 ATTTAATTTTTAAAT-ATT
27106724 A-TTAATTT
1 ATTTAATTT
27106732 ATTATTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
16 6 0.18
17 4 0.12
18 10 0.29
19 6 0.18
20 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTAATTTTTAAATATT
Found at i:27108364 original size:18 final size:18
Alignment explanation
Indices: 27108341--27108383 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27108331 TGCCAGGTGC
* *
27108341 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
27108359 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
27108377 GTTTCCT
1 GTATCCT
27108384 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:27112119 original size:126 final size:126
Alignment explanation
Indices: 27111894--27112195 Score: 478
Period size: 126 Copynumber: 2.4 Consensus size: 126
27111884 ACGTGGGAGC
* * * * *
27111894 TTTTTTTAGGAGCTACTGTAGCAAAAGCACGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTAATTCTGCTGA
27111959 CAAAACATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
66 CAAAACATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * * *
27112020 TTTTTTCAGGAGCTACTATAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTAATTCTGTTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTAATTCTGCTGA
* *
27112085 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTTTACTCGAAATTA
66 CAAAACATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
** *
27112146 TTTTTTCAATAGCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
27112196 AAATTAACAA
Statistics
Matches: 159, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 159 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (126 bp):
TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTAATTCTGCTGA
CAAAACATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
Found at i:27121157 original size:110 final size:109
Alignment explanation
Indices: 27120925--27121322 Score: 575
Period size: 109 Copynumber: 3.7 Consensus size: 109
27120915 GTCAATCGAG
*
27120925 AAATCGAAACCCAGCACATT-GGGACACG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGAAACCCAGCACATTAGGG-CACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTAT
*
27120988 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
65 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
* * * *
27121033 AAATCGACAGCCAGCACTTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
27121098 TTAAAATTTTTGAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTT-AAAAGGATATTTAGCCATTTGGTTGAACGAGAA
* * * *
27121143 AAATCGACACCCAGCACCTTAGGGCACATTTTCTCGAATTTCCAAACGCAAAACATTACCTTATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
27121208 TTGAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGTA
66 TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
* * * * * *
27121252 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTTCAAAAGCTAAATATTGCCTCATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
27121317 TAGAAA
66 TTGAAA
27121323 AAATTTCCCT
Statistics
Matches: 259, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
108 20 0.08
109 138 0.53
110 101 0.39
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (109 bp):
AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
Found at i:27121393 original size:20 final size:20
Alignment explanation
Indices: 27121357--27121394 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27121347 GTTAATATAC
*
27121357 ATAATGGAATAATAAATATG
1 ATAATGGAACAATAAATATG
27121377 ATAATGTGAACAA-AAATA
1 ATAATG-GAACAATAAATA
27121395 ATATGAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (20 bp):
ATAATGGAACAATAAATATG
Found at i:27121660 original size:17 final size:18
Alignment explanation
Indices: 27121640--27121673 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27121630 TATATGTTTT
27121640 AAGGATAT-TAAATATAA
1 AAGGATATGTAAATATAA
*
27121657 AAGGTTATGTAAATATA
1 AAGGATATGTAAATATA
27121674 TACTATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (18 bp):
AAGGATATGTAAATATAA
Found at i:27123889 original size:21 final size:21
Alignment explanation
Indices: 27123861--27123905 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
27123851 AATAATCTAT
*
27123861 TTAAATCTT-AATAACATATA
1 TTAAATCTTAAAAAACATATA
27123881 TTAATATCTTAAAAAACATATA
1 TTAA-ATCTTAAAAAACATATA
27123903 TTA
1 TTA
27123906 TAATAACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 5 0.23
22 13 0.59
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATCTTAAAAAACATATA
Found at i:27125871 original size:23 final size:23
Alignment explanation
Indices: 27125841--27125891 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
27125831 TCTGATTATA
*
27125841 TGTAGGGTCGGACAGAGATGGCG
1 TGTAGGGTCGAACAGAGATGGCG
* *
27125864 TGTAGGGTCGAACGGAGATGGTG
1 TGTAGGGTCGAACAGAGATGGCG
27125887 TGTAG
1 TGTAG
27125892 AGGCTGGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.47, T:0.22
Consensus pattern (23 bp):
TGTAGGGTCGAACAGAGATGGCG
Found at i:27140161 original size:33 final size:32
Alignment explanation
Indices: 27140119--27140190 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 32
27140109 TAGAAAAACT
27140119 AATATTTTCTGGTGTTTGG-ATGAATTTGTATAA
1 AATATTTTCTGGTGTTTGGCA-GAATTTGTA-AA
* *
27140152 AATATTTTCTGTTGTTTGGCAGATTTTGTAAA
1 AATATTTTCTGGTGTTTGGCAGAATTTGTAAA
27140184 AATATTT
1 AATATTT
27140191 CATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 9 0.25
33 26 0.72
34 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.50
Consensus pattern (32 bp):
AATATTTTCTGGTGTTTGGCAGAATTTGTAAA
Found at i:27147127 original size:27 final size:27
Alignment explanation
Indices: 27147024--27147141 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
27147014 GGTATAACAA
27147024 TCATTTTACCCTAT-AGGGGTATTTCAG
1 TCATTTTACCCTATGA-GGGTATTTCAG
* * **
27147051 TCATTTTACCTTATAAGGGTATTTTTG
1 TCATTTTACCCTATGAGGGTATTTCAG
27147078 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
* **
27147105 TCATTTTACCATATGAGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCAG
27147132 TCATTTTACC
1 TCATTTTACC
27147142 TATTTTAGGG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 79 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCAG
Found at i:27147127 original size:54 final size:54
Alignment explanation
Indices: 27147024--27147141 Score: 193
Period size: 54 Copynumber: 2.2 Consensus size: 54
27147014 GGTATAACAA
* *
27147024 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCTTATAAGGGTATTTTTG
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCATATAAGGGTATTTTGG
*
27147078 TCATTTTACCCTAT-GAGGGTATTTCAGTCATTTTACCATATGAGGGTATTTTGG
1 TCATTTTACCCTATAG-GGGTATTTCAGTCATTTTACCATATAAGGGTATTTTGG
27147132 TCATTTTACC
1 TCATTTTACC
27147142 TATTTTAGGG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCATATAAGGGTATTTTGG
Found at i:27151736 original size:25 final size:24
Alignment explanation
Indices: 27151677--27151743 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 24
27151667 TTTATTGGGC
27151677 TGCTAACACTAGCTTTGAATTAGGAT
1 TGCTAACACTAGC-TT-AATTAGGAT
*
27151703 TGCTAACACTAGCTTAATT-TGATGT
1 TGCTAACACTAGCTTAATTAGGA--T
27151728 TGCTAACACTAGCTTA
1 TGCTAACACTAGCTTA
27151744 TTGTATGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
23 2 0.05
24 4 0.11
25 19 0.50
26 13 0.34
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (24 bp):
TGCTAACACTAGCTTAATTAGGAT
Found at i:27153072 original size:5 final size:5
Alignment explanation
Indices: 27153027--27153065 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
27153017 CTATATTATG
27153027 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT
27153066 ATGATATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:27153465 original size:24 final size:24
Alignment explanation
Indices: 27153421--27153472 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
27153411 AATCAACGTC
* *
27153421 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
27153445 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
27153469 AAAT
1 AAAT
27153473 TTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:27160346 original size:24 final size:24
Alignment explanation
Indices: 27160314--27160369 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
27160304 AAAACCTAAT
*
27160314 TAATCAATGTCAAATATATTATGC
1 TAATAAATGTCAAATATATTATGC
*
27160338 TAATAAATGTTAAATATATTATGC
1 TAATAAATGTCAAATATATTATGC
27160362 TAATAAAT
1 TAATAAAT
27160370 ATTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGC
Found at i:27160374 original size:24 final size:24
Alignment explanation
Indices: 27160325--27160376 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
27160315 AATCAATGTC
*
27160325 AAATATATTATGCTAATAAATGTT
1 AAATATATTATGCTAATAAATATT
27160349 AAATATATTATGCTAATAAATATT
1 AAATATATTATGCTAATAAATATT
27160373 AAAT
1 AAAT
27160377 TTTCTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATATT
Found at i:27160759 original size:6 final size:6
Alignment explanation
Indices: 27160696--27160740 Score: 81
Period size: 6 Copynumber: 7.3 Consensus size: 6
27160686 GTATATATTT
27160696 AAACCC TAAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AA
1 AAACCC -AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AA
27160741 TGCCAATCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 32 0.84
7 6 0.16
ACGTcount: A:0.51, C:0.47, G:0.00, T:0.02
Consensus pattern (6 bp):
AAACCC
Found at i:27161223 original size:20 final size:21
Alignment explanation
Indices: 27161182--27161232 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
27161172 ATATTATTAA
*
27161182 ATTAATTT-ATTATAGATATT
1 ATTAATTTAATTATAAATATT
*
27161202 ATTAATTTAATT-TAAATTTT
1 ATTAATTTAATTATAAATATT
27161222 A-TAGATTTAAT
1 ATTA-ATTTAAT
27161233 AATTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTAATTTAATTATAAATATT
Found at i:27176586 original size:28 final size:27
Alignment explanation
Indices: 27176554--27176630 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 27
27176544 TAAAAAAAAT
*
27176554 GATTGAGAATTGAGAATTGAGAATTGAG
1 GATTGAG-ATTGAGAATTGAGAATTGAA
*
27176582 GATTGAGGATTGAGAATTGAGAATTTAA
1 GATTGA-GATTGAGAATTGAGAATTGAA
*
27176610 GATTGACGATTGAGTATTGAG
1 GATTGA-GATTGAGAATTGAG
27176631 TTAAAAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 43 0.98
29 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.31, T:0.31
Consensus pattern (27 bp):
GATTGAGATTGAGAATTGAGAATTGAA
Found at i:27176613 original size:21 final size:21
Alignment explanation
Indices: 27176555--27176623 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
27176545 AAAAAAAATG
*
27176555 ATTGAGAA-TTGAGAATTGAGA
1 ATTGAGAATTTAAG-ATTGAGA
* * *
27176576 ATTGAGGATTGAGGATTGAGA
1 ATTGAGAATTTAAGATTGAGA
27176597 ATTGAGAATTTAAGATTGACG-
1 ATTGAGAATTTAAGATTGA-GA
27176618 ATTGAG
1 ATTGAG
27176624 TATTGAGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 36 0.92
22 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.30, T:0.30
Consensus pattern (21 bp):
ATTGAGAATTTAAGATTGAGA
Found at i:27176614 original size:14 final size:13
Alignment explanation
Indices: 27176554--27176615 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
27176544 TAAAAAAAAT
*
27176554 GATTGAGAATTGA
1 GATTGAGAATTAA
*
27176567 GAATTGAGAATTGAG
1 G-ATTGAGAATT-AA
* *
27176582 GATTGAGGATTGA
1 GATTGAGAATTAA
27176595 GAATTGAGAATTTAA
1 G-ATTGAGAA-TTAA
27176610 GATTGA
1 GATTGA
27176616 CGATTGAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
13 2 0.05
14 31 0.82
15 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
GATTGAGAATTAA
Found at i:27176631 original size:7 final size:7
Alignment explanation
Indices: 27176555--27176606 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
27176545 AAAAAAAATG
27176555 ATTGAGA
1 ATTGAGA
27176562 ATTGAGA
1 ATTGAGA
27176569 ATTGAGA
1 ATTGAGA
*
27176576 ATTGAGG
1 ATTGAGA
*
27176583 ATTGAGG
1 ATTGAGA
27176590 ATTGAGA
1 ATTGAGA
27176597 ATTGAGA
1 ATTGAGA
27176604 ATT
1 ATT
27176607 TAAGATTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (7 bp):
ATTGAGA
Found at i:27182963 original size:21 final size:24
Alignment explanation
Indices: 27182925--27182969 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
27182915 CTCACCCCAA
27182925 TCTACTTAGAATAGAATATTATTT
1 TCTACTTAGAATAGAATATTATTT
27182949 TCTA-TTA-AATA-AATATTATTT
1 TCTACTTAGAATAGAATATTATTT
27182970 GTGTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 3 0.14
24 4 0.19
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (24 bp):
TCTACTTAGAATAGAATATTATTT
Found at i:27183125 original size:20 final size:18
Alignment explanation
Indices: 27183100--27183136 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
27183090 AGTGAGAACT
27183100 TATTTTCTTAGAATAAATTC
1 TATTTTC-TAGAA-AAATTC
27183120 TATTTTCTAGAAAAATT
1 TATTTTCTAGAAAAATT
27183137 ACAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (18 bp):
TATTTTCTAGAAAAATTC
Found at i:27188194 original size:23 final size:23
Alignment explanation
Indices: 27188155--27188199 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27188145 AACGAATAAG
27188155 TAATTTAATATATATTTTTTAAA
1 TAATTTAATATATATTTTTTAAA
*
27188178 TAATATTAATTTA-ATTTTTTAA
1 TAAT-TTAATATATATTTTTTAA
27188200 TTTAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TAATTTAATATATATTTTTTAAA
Found at i:27191419 original size:5 final size:5
Alignment explanation
Indices: 27191394--27191441 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
27191384 AACCAAAACT
*
27191394 AGAAA TGAAA AGAATA A-AAA AGAAAA AGGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAA-A AGAAA AG-AAA A-GAAA AGAAA AGAAA AGAAA
27191441 A
1 A
27191442 ACCTTAACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 2 0.05
5 24 0.65
6 10 0.27
7 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (5 bp):
AGAAA
Found at i:27191425 original size:22 final size:22
Alignment explanation
Indices: 27191400--27191442 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27191390 AACTAGAAAT
27191400 GAAAAGAATAA-AAAAGAAAAAG
1 GAAAAGAA-AAGAAAAGAAAAAG
27191422 GAAAAGAAAAGAAAAGAAAAA
1 GAAAAGAAAAGAAAAGAAAAA
27191443 CCTTAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (22 bp):
GAAAAGAAAAGAAAAGAAAAAG
Found at i:27202000 original size:17 final size:17
Alignment explanation
Indices: 27201937--27202000 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
27201927 CCCCTCCTCC
27201937 CTCTTTCTC-CCATTTCT
1 CTCTTTCTCTCCATTT-T
27201954 CTCTTT-T-T-C-TTATT
1 CTCTTTCTCTCCATT-TT
*
27201968 CT-TTTCTCATCTATTTT
1 CTCTTTCTC-TCCATTTT
27201985 CTCTTTCTCTCCATTT
1 CTCTTTCTCTCCATTT
27202001 ATAAAAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
13 3 0.08
14 6 0.16
15 2 0.05
16 2 0.05
17 16 0.43
18 8 0.22
ACGTcount: A:0.08, C:0.31, G:0.00, T:0.61
Consensus pattern (17 bp):
CTCTTTCTCTCCATTTT
Found at i:27202127 original size:22 final size:22
Alignment explanation
Indices: 27202097--27202145 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
27202087 GCCCATCGCA
* *
27202097 CCTCCTCTCCTTTTTTTTTTCT
1 CCTCTTCTCCTTTTTATTTTCT
27202119 CCTCTTCTCCTTTTTATTTTCT
1 CCTCTTCTCCTTTTTATTTTCT
*
27202141 TCTCT
1 CCTCT
27202146 AAACTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (22 bp):
CCTCTTCTCCTTTTTATTTTCT
Found at i:27203403 original size:50 final size:50
Alignment explanation
Indices: 27203331--27203488 Score: 219
Period size: 50 Copynumber: 3.2 Consensus size: 50
27203321 TGCTTAGCAA
* * **
27203331 TGGTGGCTAGTCCACAAAGTGTTATCAGTGGCAATTTATTTGCAAATTGG
1 TGGTGGCTTGTCCACAAAGTGTTATCAGTGGCAATTTATCTGCAAATCAG
* * *
27203381 TGGTAGCTTGTCCACAAAGTGTTATCAGTGGTAGTTTATCTGCAAATCAG
1 TGGTGGCTTGTCCACAAAGTGTTATCAGTGGCAATTTATCTGCAAATCAG
* *
27203431 TGGTGGCTTGTCCACAAAGTGTTTTCAGTGGCAATTTATCTGTAAATC-G
1 TGGTGGCTTGTCCACAAAGTGTTATCAGTGGCAATTTATCTGCAAATCAG
27203480 ATGGTGGCT
1 -TGGTGGCT
27203489 AGTCAATTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 94 0.99
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (50 bp):
TGGTGGCTTGTCCACAAAGTGTTATCAGTGGCAATTTATCTGCAAATCAG
Found at i:27204424 original size:16 final size:16
Alignment explanation
Indices: 27204376--27204412 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
27204366 TTTAGATTCG
27204376 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
27204392 AAACTATAGACTTTGA
1 AAACTATAGACTGTGA
27204408 AAACT
1 AAACT
27204413 CTATTCTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:27209396 original size:20 final size:22
Alignment explanation
Indices: 27209371--27209422 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
27209361 CCCCTCCTCC
27209371 CTTTTTCTCCATC-GTTCTC-T
1 CTTTTTCTCCATCTGTTCTCAT
* *
27209391 CTTTTTCTTCTTCTGTTCTCAT
1 CTTTTTCTCCATCTGTTCTCAT
27209413 CTATTTTCTC
1 CT-TTTTCTC
27209423 TCTATTTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
21 6 0.23
22 3 0.12
23 6 0.23
ACGTcount: A:0.06, C:0.31, G:0.04, T:0.60
Consensus pattern (22 bp):
CTTTTTCTCCATCTGTTCTCAT
Found at i:27210813 original size:50 final size:50
Alignment explanation
Indices: 27210715--27210942 Score: 287
Period size: 50 Copynumber: 4.6 Consensus size: 50
27210705 TTAGTATATA
* * * * *
27210715 TGCATATCAGTGGTGGCTAGTCCACAAAGTGTTATTAGTGGCAATTTATC
1 TGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTTTATC
* * * *
27210765 TGCAAATC-GATGGTGGCTTGTCCATAAAGTGTTGTCAGTGATAGTTTATT
1 TGCAAATCAG-TGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTTTATC
* * * *
27210815 TGCAAATCAGTGGTAGCTTGTCCACAAATTTTTATCAGTGATAGTTTATC
1 TGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTTTATC
* * * *
27210865 TGTAAATCAGTGGTGGCTTGTCCACAAAGTGTTATTAGTGGCAGTTTATT
1 TGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTTTATC
27210915 TGCAAATCAGTGGTGGCTTGTCCACAAA
1 TGCAAATCAGTGGTGGCTTGTCCACAAA
27210943 TGATGATTCG
Statistics
Matches: 152, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
49 1 0.01
50 150 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (50 bp):
TGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTTTATC
Found at i:27211143 original size:16 final size:16
Alignment explanation
Indices: 27211122--27211153 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27211112 TATATTTTGG
27211122 TATGTATGTAAATATA
1 TATGTATGTAAATATA
*
27211138 TATGTATGTGAATATA
1 TATGTATGTAAATATA
27211154 CTTGTGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (16 bp):
TATGTATGTAAATATA
Found at i:27213605 original size:18 final size:18
Alignment explanation
Indices: 27213570--27213623 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
27213560 CTTACTTCTA
*
27213570 AGGTTTGCA-AACATCAT
1 AGGTTTGCATAACAACAT
*
27213587 AGGTTTACATAACAACAT
1 AGGTTTGCATAACAACAT
*
27213605 AGGTTCGCATAACAACAT
1 AGGTTTGCATAACAACAT
27213623 A
1 A
27213624 TAAGGGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 8 0.25
18 24 0.75
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (18 bp):
AGGTTTGCATAACAACAT
Found at i:27213665 original size:18 final size:18
Alignment explanation
Indices: 27213642--27213676 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27213632 CTATTTACAA
* *
27213642 ATGGTTCGCATACATATC
1 ATGGTTAGCAAACATATC
27213660 ATGGTTAGCAAACATAT
1 ATGGTTAGCAAACATAT
27213677 AGAGGGTCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (18 bp):
ATGGTTAGCAAACATATC
Found at i:27214609 original size:15 final size:16
Alignment explanation
Indices: 27214582--27214612 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
27214572 ATTTTATTTT
27214582 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
27214598 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
27214613 TAATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:27214670 original size:15 final size:15
Alignment explanation
Indices: 27214650--27214706 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
27214640 ATTCAATATT
27214650 AATATTTTAATAATA
1 AATATTTTAATAATA
*
27214665 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
27214684 AATATATTAATAATA
1 AATATTTTAATAATA
*
27214699 AATGTTTT
1 AATATTTT
27214707 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:27215786 original size:44 final size:44
Alignment explanation
Indices: 27215738--27215857 Score: 168
Period size: 44 Copynumber: 2.7 Consensus size: 44
27215728 ATCGCTTGCT
* * * *
27215738 AATATAAAGAGCTTGCAAAAAAAATTATTCATATAGAGCTCGCC
1 AATATGAAGAGCTCGCAAAAAAACTTGTTCATATAGAGCTCGCC
* * * *
27215782 AATATGAGGAGCTCGCAAAAACACTTGTTCATATAGAGCTTGCT
1 AATATGAAGAGCTCGCAAAAAAACTTGTTCATATAGAGCTCGCC
27215826 AATATGAAGAGCTCGCAAAAAAACTTGTTCAT
1 AATATGAAGAGCTCGCAAAAAAACTTGTTCAT
27215858 GTAAAGTGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (44 bp):
AATATGAAGAGCTCGCAAAAAAACTTGTTCATATAGAGCTCGCC
Found at i:27217150 original size:45 final size:45
Alignment explanation
Indices: 27217094--27217235 Score: 178
Period size: 45 Copynumber: 3.2 Consensus size: 45
27217084 AACACGCAGC
* * *
27217094 ACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCA
1 ACCACCTTTATAATCAATGGTACTCGGTGAAATCAGCACATAGCA
* * *
27217139 ACCACCTTTATACTCAATGGTACTGGGTGAAATCAGCACATCGCA
1 ACCACCTTTATAATCAATGGTACTCGGTGAAATCAGCACATAGCA
* * * *
27217184 ACCACCTATATAACCATTGGTA-TCCGGTGAAATCATCACATAGCA
1 ACCACCTTTATAATCAATGGTACT-CGGTGAAATCAGCACATAGCA
27217229 ACCACCT
1 ACCACCT
27217236 NTTTTTTTAC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 83 0.99
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (45 bp):
ACCACCTTTATAATCAATGGTACTCGGTGAAATCAGCACATAGCA
Found at i:27217695 original size:45 final size:44
Alignment explanation
Indices: 27217639--27217825 Score: 185
Period size: 45 Copynumber: 4.2 Consensus size: 44
27217629 AACACGCAGC
* *
27217639 ACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCA
1 ACCACCTTTATAATCAATAGTA-TCGGTGAAATCAGCACATAGCA
* * * *
27217684 ACCACCTTTATACTCAATGGTACTGGGTGAAATCAGCACATCGCA
1 ACCACCTTTATAATCAATAGTA-TCGGTGAAATCAGCACATAGCA
* * * * *
27217729 ACCACCTATATAACCATTGGTATCCGGTGAAATCATCACATAGCA
1 ACCACCTTTATAATCAATAGTAT-CGGTGAAATCAGCACATAGCA
** * * *
27217774 ACCACCTTTATTTTCATTAATATCGGGTGGAATCAGCACATAGCA
1 ACCACCTTTATAATCAATAGTATC-GGTGAAATCAGCACATAGCA
*
27217819 TCCACCT
1 ACCACCT
27217826 ATATTTCCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
44 2 0.02
45 117 0.98
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (44 bp):
ACCACCTTTATAATCAATAGTATCGGTGAAATCAGCACATAGCA
Found at i:27217721 original size:545 final size:544
Alignment explanation
Indices: 27216691--27217787 Score: 2176
Period size: 545 Copynumber: 2.0 Consensus size: 544
27216681 AAACCTTAAT
27216691 TTTTTTTTACAATTTTTAGTGATTTTCCAAAGTTGGAATAGGGGATTTCGAAATCATTCTGACCC
1 TTTTTTTTACAATTTTTAGTGATTTTCCAAAGTTGGAATAGGGGATTTCGAAATCATTCTGACCC
27216756 TGTCTCACTAAAATTCAAATATATCAAAATATTTAACTCTTTTGCTTACTCTGTTTCATTTATGT
66 TGTCTCACTAAAATTCAAATATATCAAAATATTTAACTCTTTTGCTTACTCTGTTTCATTTATGT
27216821 GAAAATAGACTCATTCATATTTAATTTCATATCTCATCAAACCTCTAATTCAATTTCCACCATTT
131 GAAAATAGACTCATTCATATTTAATTTCATATCTCATCAAACCTCTAATTCAATTTCCACCATTT
27216886 TTGATGATTTTTCAAAATCACACAACTGTTTCTGTCCTAAACTGTTTTGTCGTTAAATTTACTCT
196 TTGATGATTTTTCAAAATCACACAACTGTTTCTGTCCTAAACTGTTTTGTCGTTAAATTTACTCT
27216951 TTCTTAATTTCATTACTTCATTTCATCGTACCAAAGGGTCGATTAAAGATCAAACACATTGTTCA
261 TTCTTAATTTCATTACTTCATTTCATCGTACCAAAGGGTCGATTAAAGATCAAACACATTGTTCA
27217016 TCACATATATTTTCACTTAATCAATTTCCGATGAACACTTCAAAATAATCTCAGTTACACGGTGG
326 TCACATATATTTTCACTTAATCAATTTCCGATGAACACTTCAAAATAATCTCAGTTACACGGTGG
27217081 ATCAACACGCAGCACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCAACCACCT
391 ATCAACACGCAGCACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCAACCACCT
27217146 TTATACTCAATGGTACTGGGTGAAATCAGCACATCGCAACCACCTATATAACCATTGGTATCCGG
456 TTATACTCAATGGTACTGGGTGAAATCAGCACATCGCAACCACCTATATAACCATTGGTATCCGG
27217211 TGAAATCATCACATAGCAACCACC
521 TGAAATCATCACATAGCAACCACC
27217235 TNTTTTTTTACAATTTTTAGTGATTTTCCAAAGTTGGAATAGGGGATTTCGAAATCATTCTGACC
1 T-TTTTTTTACAATTTTTAGTGATTTTCCAAAGTTGGAATAGGGGATTTCGAAATCATTCTGACC
27217300 CTGTCTCACTAAAATTCAAATATATCAAAATATTTAACTCTTTTGCTTACTCTGTTTCATTTATG
65 CTGTCTCACTAAAATTCAAATATATCAAAATATTTAACTCTTTTGCTTACTCTGTTTCATTTATG
27217365 TGAAAATAGACTCATTCATATTTAATTTCATATCTCATCAAACCTCTAATTCAATTTCCACCATT
130 TGAAAATAGACTCATTCATATTTAATTTCATATCTCATCAAACCTCTAATTCAATTTCCACCATT
27217430 TTTGATGATTTTTCAAAATCACACAACTGTTTCTGTCCTAAACTGTTTTGTCGTTAAATTTACTC
195 TTTGATGATTTTTCAAAATCACACAACTGTTTCTGTCCTAAACTGTTTTGTCGTTAAATTTACTC
27217495 TTTCTTAATTTCATTACTTCATTTCATCGTACCAAAGGGTCGATTAAAGATCAAACACATTGTTC
260 TTTCTTAATTTCATTACTTCATTTCATCGTACCAAAGGGTCGATTAAAGATCAAACACATTGTTC
27217560 ATCACATATATTTTCACTTAATCAATTTCCGATGAACACTTCAAAATAATCTCAGTTACACGGTG
325 ATCACATATATTTTCACTTAATCAATTTCCGATGAACACTTCAAAATAATCTCAGTTACACGGTG
27217625 GATCAACACGCAGCACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCAACCACC
390 GATCAACACGCAGCACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCAACCACC
27217690 TTTATACTCAATGGTACTGGGTGAAATCAGCACATCGCAACCACCTATATAACCATTGGTATCCG
455 TTTATACTCAATGGTACTGGGTGAAATCAGCACATCGCAACCACCTATATAACCATTGGTATCCG
27217755 GTGAAATCATCACATAGCAACCACC
520 GTGAAATCATCACATAGCAACCACC
*
27217780 TTTATTTT
1 TTTTTTTT
27217788 CATTAATATC
Statistics
Matches: 551, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
544 7 0.01
545 544 0.99
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (544 bp):
TTTTTTTTACAATTTTTAGTGATTTTCCAAAGTTGGAATAGGGGATTTCGAAATCATTCTGACCC
TGTCTCACTAAAATTCAAATATATCAAAATATTTAACTCTTTTGCTTACTCTGTTTCATTTATGT
GAAAATAGACTCATTCATATTTAATTTCATATCTCATCAAACCTCTAATTCAATTTCCACCATTT
TTGATGATTTTTCAAAATCACACAACTGTTTCTGTCCTAAACTGTTTTGTCGTTAAATTTACTCT
TTCTTAATTTCATTACTTCATTTCATCGTACCAAAGGGTCGATTAAAGATCAAACACATTGTTCA
TCACATATATTTTCACTTAATCAATTTCCGATGAACACTTCAAAATAATCTCAGTTACACGGTGG
ATCAACACGCAGCACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCAACCACCT
TTATACTCAATGGTACTGGGTGAAATCAGCACATCGCAACCACCTATATAACCATTGGTATCCGG
TGAAATCATCACATAGCAACCACC
Found at i:27217802 original size:90 final size:90
Alignment explanation
Indices: 27217663--27217829 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 90
27217653 CAATAGTACT
** *
27217663 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATGGTACTGGGTGAAATCAGCACATCGC
1 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACTGGGTGAAATCAGCACATAGC
27217728 AACCACCTATATAACCATTGGTATC
66 AACCACCTATATAACCATTGGTATC
* ** * *
27217753 CGGTGAAATCATCACATAGCAACCACCTTTATTTTCATTAATA-TCGGGTGGAATCAGCACATAG
1 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACT-GGGTGAAATCAGCACATAG
*
27217817 CATCCACCTATAT
65 CAACCACCTATAT
27217830 TTCCAACAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
89 1 0.01
90 66 0.99
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (90 bp):
CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACTGGGTGAAATCAGCACATAGC
AACCACCTATATAACCATTGGTATC
Found at i:27217831 original size:45 final size:45
Alignment explanation
Indices: 27217664--27217829 Score: 190
Period size: 45 Copynumber: 3.7 Consensus size: 45
27217654 AATAGTACTC
* * *
27217664 GGTGAAATCAGCACATAGCAACCACCTTTATACTCAATGGTA-CTG
1 GGTGAAATCAGCACATAGCAACCACCTATATATTCATTGGTATC-G
* ** *
27217709 GGTGAAATCAGCACATCGCAACCACCTATATAACCATTGGTATCC
1 GGTGAAATCAGCACATAGCAACCACCTATATATTCATTGGTATCG
* * * **
27217754 GGTGAAATCATCACATAGCAACCACCTTTATTTTCATTAATATCG
1 GGTGAAATCAGCACATAGCAACCACCTATATATTCATTGGTATCG
* *
27217799 GGTGGAATCAGCACATAGCATCCACCTATAT
1 GGTGAAATCAGCACATAGCAACCACCTATAT
27217830 TTCCAACAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
45 100 0.99
46 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (45 bp):
GGTGAAATCAGCACATAGCAACCACCTATATATTCATTGGTATCG
Found at i:27219704 original size:27 final size:26
Alignment explanation
Indices: 27219637--27219704 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
27219627 TCATTTCACA
* * * *
27219637 AACCAACTAGTGAACTCTAGCTCGCC
1 AACCAAATGGTGAACCCCAGCTCGCC
*
27219663 AACCAAATGGCGAACCCCAGCTCGCC
1 AACCAAATGGTGAACCCCAGCTCGCC
**
27219689 AAACCACTTGGTGAAC
1 -AACCAAATGGTGAAC
27219705 TTAGGTCACT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.32, C:0.35, G:0.18, T:0.15
Consensus pattern (26 bp):
AACCAAATGGTGAACCCCAGCTCGCC
Found at i:27221616 original size:15 final size:15
Alignment explanation
Indices: 27221596--27221643 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
27221586 AATATTTATT
27221596 TTAAAATATAAAAAA
1 TTAAAATATAAAAAA
27221611 TTAAAATATTATAAAAA
1 TTAAAATA-TA-AAAAA
*
27221628 TCAAAATATAAAAAA
1 TTAAAATATAAAAAA
27221643 T
1 T
27221644 ATTTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 14 0.47
16 4 0.13
17 12 0.40
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
TTAAAATATAAAAAA
Found at i:27221625 original size:18 final size:17
Alignment explanation
Indices: 27221598--27221636 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
27221588 TATTTATTTT
*
27221598 AAAATA-TA-AAAAATT
1 AAAATATTATAAAAATC
27221613 AAAATATTATAAAAATC
1 AAAATATTATAAAAATC
27221630 AAAATAT
1 AAAATAT
27221637 AAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 2 0.10
17 13 0.62
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATATTATAAAAATC
Found at i:27221906 original size:18 final size:19
Alignment explanation
Indices: 27221882--27221926 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
27221872 TCTAAATATG
*
27221882 TATTTTTATTAATT-TT-A
1 TATTTTTATAAATTATTAA
27221899 TAATTTTTATAAATTATTAA
1 T-ATTTTTATAAATTATTAA
27221919 TATTTTTA
1 TATTTTTA
27221927 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 12 0.50
19 9 0.38
20 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTATAAATTATTAA
Found at i:27221959 original size:17 final size:17
Alignment explanation
Indices: 27221882--27221960 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
27221872 TCTAAATATG
27221882 TATTTTTATT-AATTTTA
1 TATTTTT-TTAAATTTTA
*
27221899 TAATTTTTATAAATTATTA
1 T-ATTTTTTTAAATT-TTA
* *
27221918 -ATATTTTTAAATTTTTT
1 TATTTTTTTAAA-TTTTA
* *
27221935 TATCTTTTTAAAATTTA
1 TATTTTTTTAAATTTTA
27221952 TATTTTTTT
1 TATTTTTTT
27221961 CATATTTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
17 24 0.49
18 22 0.45
19 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTTTAAATTTTA
Found at i:27221975 original size:26 final size:25
Alignment explanation
Indices: 27221923--27221980 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
27221913 TATTAATATT
*
27221923 TTTAAATTTTTTTATCTTTTTAAAA
1 TTTAAATTTTTTTATATTTTTAAAA
* **
27221948 TTTATATTTTTTTCATATTTTTCGAA
1 TTTAAATTTTTTT-ATATTTTTAAAA
27221974 TTTAAAT
1 TTTAAAT
27221981 GAACTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTAAATTTTTTTATATTTTTAAAA
Found at i:27226546 original size:7 final size:7
Alignment explanation
Indices: 27226534--27226559 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27226524 CATCAATTCG
27226534 TATCACA
1 TATCACA
27226541 TATCACA
1 TATCACA
27226548 TATCACA
1 TATCACA
27226555 TATCA
1 TATCA
27226560 TATAACAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (7 bp):
TATCACA
Found at i:27229944 original size:19 final size:19
Alignment explanation
Indices: 27229920--27229980 Score: 81
Period size: 18 Copynumber: 3.3 Consensus size: 19
27229910 TCACTTATGT
*
27229920 ATAAGGGTTTGCATACATA
1 ATAAGGGTTTGCATTCATA
27229939 ATAA-GGTTTGCATTCATA
1 ATAAGGGTTTGCATTCATA
* *
27229957 AT-AGGGTATGTATTCATA
1 ATAAGGGTTTGCATTCATA
27229975 ATAAGG
1 ATAAGG
27229981 TTCGCATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.78
19 7 0.19
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (19 bp):
ATAAGGGTTTGCATTCATA
Found at i:27229946 original size:18 final size:18
Alignment explanation
Indices: 27229920--27229988 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
27229910 TCACTTATGT
27229920 ATAAGGGTTTGCATACATA
1 ATAA-GGTTTGCATACATA
*
27229939 ATAAGGTTTGCATTCATA
1 ATAAGGTTTGCATACATA
* * * *
27229957 ATAGGGTATGTATTCATA
1 ATAAGGTTTGCATACATA
*
27229975 ATAAGGTTCGCATA
1 ATAAGGTTTGCATA
27229989 TATGTAAGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 37 0.90
19 4 0.10
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (18 bp):
ATAAGGTTTGCATACATA
Found at i:27236221 original size:22 final size:24
Alignment explanation
Indices: 27236178--27236229 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
27236168 GCCATTCAAT
* *
27236178 TATATTCATACATGTACATTTTCA
1 TATATTCACACATATACATTTTCA
*
27236202 TATATTCACACATAT-CTTTTGTCA
1 TATATTCACACATATACATTT-TCA
27236226 TATA
1 TATA
27236230 CCATTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (24 bp):
TATATTCACACATATACATTTTCA
Found at i:27236688 original size:12 final size:12
Alignment explanation
Indices: 27236652--27236689 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27236642 TACACACAAA
*
27236652 TATTTTATAATT
1 TATTTCATAATT
27236664 TAATTTCAT-ATT
1 T-ATTTCATAATT
27236676 TATTTCATAATT
1 TATTTCATAATT
27236688 TA
1 TA
27236690 ATCAAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 7 0.30
12 10 0.43
13 6 0.26
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTTCATAATT
Found at i:27238794 original size:12 final size:12
Alignment explanation
Indices: 27238745--27238812 Score: 66
Period size: 12 Copynumber: 5.8 Consensus size: 12
27238735 TCTTATCTTC
*
27238745 ATTACTACTATT
1 ATTACTATTATT
* *
27238757 ATTATTATTAAT
1 ATTACTATTATT
27238769 ATTACTATTATT
1 ATTACTATTATT
* *
27238781 ATTACTGTTGTT
1 ATTACTATTATT
*
27238793 ATTA-TATTTTT
1 ATTACTATTATT
*
27238804 ATAACTATT
1 ATTACTATT
27238813 TATCTAACTT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
11 8 0.18
12 37 0.82
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:27245406 original size:55 final size:55
Alignment explanation
Indices: 27245333--27245436 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
27245323 CCATAGAAAA
* * *
27245333 TGAAGACCATATCGTGTAAAACCTAATCTGGGATTATGGCATCTTATGGTGCATG
1 TGAAGACCATATCATGTAAAACCTAATCTGGGACTATGGCATCATATGGTGCATG
* *
27245388 TGAAGACCATATCATGTAAGACCTAGTCTGGGACTATGGCATCATATGG
1 TGAAGACCATATCATGTAAAACCTAATCTGGGACTATGGCATCATATGG
27245437 AGTATTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (55 bp):
TGAAGACCATATCATGTAAAACCTAATCTGGGACTATGGCATCATATGGTGCATG
Found at i:27245461 original size:55 final size:55
Alignment explanation
Indices: 27245333--27245462 Score: 154
Period size: 55 Copynumber: 2.4 Consensus size: 55
27245323 CCATAGAAAA
* * * * *
27245333 TGAAGACCATATCGTGTAAAACCTAATCTGGGATTATGGCATCTTATGGTGCATG
1 TGAAGACCATATAGTGTAAGACCTAATCTGGGACTATGGCATCATATGGAGCATG
* * *
27245388 TGAAGACCATATCA-TGTAAGACCTAGTCTGGGACTATGGCATCATATGGAGTATT
1 TGAAGACCATAT-AGTGTAAGACCTAATCTGGGACTATGGCATCATATGGAGCATG
**
27245443 TGAATTCCATATAGTGTAAG
1 TGAAGACCATATAGTGTAAG
27245463 GCTTAGCCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 1 0.02
55 62 0.98
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (55 bp):
TGAAGACCATATAGTGTAAGACCTAATCTGGGACTATGGCATCATATGGAGCATG
Found at i:27246308 original size:16 final size:15
Alignment explanation
Indices: 27246287--27246317 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
27246277 TGCTTATTAT
27246287 ATGTATATATTGATGA
1 ATGTATATA-TGATGA
27246303 ATGTATATATGATGA
1 ATGTATATATGATGA
27246318 CGCCTCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (15 bp):
ATGTATATATGATGA
Found at i:27256578 original size:16 final size:15
Alignment explanation
Indices: 27256536--27256578 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
27256526 GATTAGAAAT
27256536 TATTAGAAATGTTAA
1 TATTAGAAATGTTAA
*
27256551 TA-TA-ATATGTTAA
1 TATTAGAAATGTTAA
27256564 TGATTAGAAATGTTA
1 T-ATTAGAAATGTTA
27256579 TATAAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 4 0.17
16 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (15 bp):
TATTAGAAATGTTAA
Found at i:27258637 original size:156 final size:153
Alignment explanation
Indices: 27258416--27259075 Score: 922
Period size: 152 Copynumber: 4.3 Consensus size: 153
27258406 TTTAGTGTAT
* *
27258416 TTTTTATTGAAAGTAATAAAATTCG-GGAAAAAAATACGAATAAAGGACCGAAATAAGGGTTTTT
1 TTTTTATTAAAAGTAATAAAA-TCGAGG-AAAAAATACGAATAAAGGACTGAAATAAGGGTTTTT
* *
27258480 TTAAAAAATTATTTAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
64 TT--AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
*
27258545 AAAATAATAAAATTAGAAAATAATATA
127 AAAATAATAAAATTAAAAAATAATATA
* *
27258572 TTTTTATTGAAAGTAATAAAATCTAGGAAAAAATACGAATAAAGGACTGAAATAAGGGTTTTTTT
1 TTTTTATTAAAAGTAATAAAATCGAGGAAAAAATACGAATAAAGGACTGAAATAAGGG--TTTTT
*
27258637 TTAAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTTCTAAAATAATGTA
64 TTAAATTTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
27258702 AAATAATAAAATTAAAAAATAATATA
128 AAATAATAAAATTAAAAAATAATATA
* * ** * *
27258728 -CTTT-TTAAAAGTAATAAAATCCGGGGAAAAAAATACGAACGAAGGGCGGAAATAAGGG-TTTT
1 TTTTTATTAAAAGTAATAAAAT-CGAGG-AAAAAATACGAATAAAGGACTGAAATAAGGGTTTTT
* * * * *
27258790 CTAAATTTATTTAAAAAACACAATTAATTAATACATTTCAAACATAATATACTAAAATAATGTAA
64 TTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
27258855 AATAATAAAA-TACGAAAATAATATA
129 AATAATAAAATTA-AAAAATAATATA
* * * *
27258880 TTTTTATTAAAAGTAATAAAATCCAGGAAAAAATAAGAAAAAAGGGCTGAAATAAGGGTTTTTTT
1 TTTTTATTAAAAGTAATAAAATCGAGGAAAAAATACGAATAAAGGACTGAAATAAGGGTTTTTTT
27258945 -AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
66 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
27259009 TAAGAAAATTAAAAAATAGTATA
131 TAATAAAATTAAAAAATAATATA
*
27259032 -TTTT-TTAAAAGTAATAAAATTCGAGAAAAAAATACGAATAAAGG
1 TTTTTATTAAAAGTAATAAAA-TCGAGGAAAAAATACGAATAAAGG
27259076 GCCAAAATAC
Statistics
Matches: 452, Mismatches: 40, Indels: 29
0.87 0.08 0.06
Matches are distributed among these distances:
150 15 0.03
151 26 0.06
152 173 0.38
153 28 0.06
154 31 0.07
155 47 0.10
156 125 0.28
157 7 0.02
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (153 bp):
TTTTTATTAAAAGTAATAAAATCGAGGAAAAAATACGAATAAAGGACTGAAATAAGGGTTTTTTT
AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAAAAAATAATATA
Found at i:27260659 original size:20 final size:19
Alignment explanation
Indices: 27260617--27260667 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
27260607 GCCAAGTGTC
* *
27260617 AAAGTCCAAAACCA-AAATT
1 AAAGTCCAAAA-GATAAATG
27260636 AAAGTCCATAAAGATAAATG
1 AAAGTCCA-AAAGATAAATG
27260656 AAAGTCCAAAAG
1 AAAGTCCAAAAG
27260668 CCCATACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.16
Consensus pattern (19 bp):
AAAGTCCAAAAGATAAATG
Found at i:27263017 original size:17 final size:18
Alignment explanation
Indices: 27262995--27263028 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27262985 GAAAACATCA
*
27262995 TAGAGGT-GGTCCAACTC
1 TAGAGGTAGCTCCAACTC
27263012 TAGAGGTAGCTCCAACT
1 TAGAGGTAGCTCCAACT
27263029 GATACGCGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (18 bp):
TAGAGGTAGCTCCAACTC
Found at i:27263798 original size:29 final size:31
Alignment explanation
Indices: 27263762--27263822 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
27263752 AAACCGTTTT
* *
27263762 ACTTTTCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
27263792 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
27263823 CTCCCAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
Done.