Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 105 of 141
Found at i:29975690 original size:21 final size:21
Alignment explanation
Indices: 29975664--29975707 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
29975654 AAAGGAAAGA
*
29975664 TGGTATCTTGCGATTGTGTAT
1 TGGTATCTTGAGATTGTGTAT
29975685 TGGTATCTTGAGATTGTGTAT
1 TGGTATCTTGAGATTGTGTAT
29975706 TG
1 TG
29975708 ATTATCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.07, G:0.30, T:0.48
Consensus pattern (21 bp):
TGGTATCTTGAGATTGTGTAT
Found at i:29994372 original size:21 final size:21
Alignment explanation
Indices: 29994334--29994373 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29994324 TATACACTCG
*
29994334 CAAAAAAAAAACTCTAAGAGA
1 CAAAAAAAAAAATCTAAGAGA
29994355 CAAAAAAAAGAAAT-TAAGA
1 CAAAAAAAA-AAATCTAAGA
29994374 TTTTCTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (21 bp):
CAAAAAAAAAAATCTAAGAGA
Found at i:29998127 original size:27 final size:27
Alignment explanation
Indices: 29998095--29998148 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
29998085 TGTTGGTAAA
* * *
29998095 TATTTGATTCTTATGTTAATAAAATCT
1 TATTTGATTCTAACGTTAAGAAAATCT
29998122 TATTTGATTCTAACGTTAAGAAAATCT
1 TATTTGATTCTAACGTTAAGAAAATCT
29998149 AAGAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (27 bp):
TATTTGATTCTAACGTTAAGAAAATCT
Found at i:30004891 original size:123 final size:124
Alignment explanation
Indices: 30004667--30004898 Score: 335
Period size: 123 Copynumber: 1.9 Consensus size: 124
30004657 TTAATTTAAA
* * *
30004667 CAAATTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCATCGGCACATAGCTTGC
1 CAAATTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACATAGCCTGC
* *
30004732 TAGGCTTATAATATGATTCAGTTCACTGACACTTAGCATGCTAGAATTATAGCCTGATT
66 TAGGCTTATAACATGATTCAGATCACTGACACTTAGCATGCTAGAATTATAGCCTGATT
*
30004791 CAAA-TCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA-ATTCACCGGCACTTAGCCTG
1 CAAATTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA-TCACCGGCACATAGCCTG
* * * *
30004854 CTAGGCTTATAGCCTGATTCAGATCA-TCGGCACTTAGCCTGCTAG
65 CTAGGCTTATAACATGATTCAGATCACT-GACACTTAGCATGCTAG
30004899 GCGCTAAGCC
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
122 2 0.02
123 90 0.94
124 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (124 bp):
CAAATTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACATAGCCTGC
TAGGCTTATAACATGATTCAGATCACTGACACTTAGCATGCTAGAATTATAGCCTGATT
Found at i:30004911 original size:41 final size:40
Alignment explanation
Indices: 30004672--30004900 Score: 271
Period size: 41 Copynumber: 5.6 Consensus size: 40
30004662 TTAAACAAAT
*
30004672 TCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGA
1 TCAC-GGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * ** *
30004713 TCATCGGCACATAGCTTGCTAGGCTTATAATATGATTCAGT
1 TCA-CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * ** * *
30004754 TCACTGACACTTAGCATGCTAGAATTATAGCCTGATTCAAA
1 TCAC-GGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
30004795 TCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA-A
1 TCAC-GGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
30004835 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 -TCA-CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
30004877 TCATCGGCACTTAGCCTGCTAGGC
1 TCA-CGGCACTTAGCCTGCTAGGC
30004901 GCTAAGCCTG
Statistics
Matches: 160, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 155 0.97
42 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (40 bp):
TCACGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:30004911 original size:82 final size:82
Alignment explanation
Indices: 30004669--30004900 Score: 331
Period size: 82 Copynumber: 2.8 Consensus size: 82
30004659 AATTTAAACA
* * * *
30004669 AATTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCATCGGCACATAGCTTGCTA
1 AATTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCGGCACTTAGCCTGCTA
**
30004734 GGCTTATAATATGATTC
66 GGCTTATAACCTGATTC
* * * ** *
30004751 AGTTCACTGACACTTAGCATGCTAGAATTATAGCCTGATTCAAATCA-CTGGCACTTAGCCTGCT
1 AATTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATC-GGCACTTAGCCTGCT
30004815 AGGCTTATAACCTGATTC
65 AGGCTTATAACCTGATTC
*
30004833 AATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCGGCACTTAGCCTGCTA
1 AATTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCGGCACTTAGCCTGCTA
30004898 GGC
66 GGC
30004901 GCTAAGCCTG
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 1 0.01
82 127 0.98
83 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (82 bp):
AATTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCGGCACTTAGCCTGCTA
GGCTTATAACCTGATTC
Found at i:30012766 original size:41 final size:41
Alignment explanation
Indices: 30012709--30012929 Score: 325
Period size: 41 Copynumber: 5.4 Consensus size: 41
30012699 ATTCACCTGT
* * *
30012709 ACTTAGCTTGCTAGGCTGATAACCTGATTCAGATCACTGGC
1 ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGC
* *
30012750 ACTTAGCCTGCTAGGCTTATAACCTGACTCAGTTCACCGGC
1 ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGC
* *
30012791 ACTTAGCCTGCTAGGCTTATAGCTTGATTCAGATCACCGGC
1 ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGC
* * *
30012832 ACTTATCCTGCTAGGCTTATAACCTAATTCAGTTCACCGGC
1 ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGC
* * *
30012873 ACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATTACCGAC
1 ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGC
30012914 ACTTAGCCTGCTAGGC
1 ACTTAGCCTGCTAGGC
30012930 GCTAAGCCTG
Statistics
Matches: 160, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGC
Found at i:30013039 original size:67 final size:66
Alignment explanation
Indices: 30012931--30013064 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 66
30012921 CTGCTAGGCG
* *
30012931 CTAAGCCTGAAAACCTCAATTTATATCAGTTCTAACTCATATCCGAACTATTTTCGTATATGAAA
1 CTAAGCCTGAAAACCTCAATTTATATAAGTTCTAACTCATATCCGAACTATTTACGTATATGAAA
30012996 T
66 T
*
30012997 NCTAAGCCTGAAAACCTCAATTTATATAAGTTGTAACTCATATCCGAACTATTTACGTATATGAA
1 -CTAAGCCTGAAAACCTCAATTTATATAAGTTCTAACTCATATCCGAACTATTTACGTATATGAA
30013062 AT
65 AT
30013064 C
1 C
30013065 CATACATCAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 1 0.02
67 63 0.98
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (66 bp):
CTAAGCCTGAAAACCTCAATTTATATAAGTTCTAACTCATATCCGAACTATTTACGTATATGAAA
T
Found at i:30013511 original size:78 final size:78
Alignment explanation
Indices: 30013427--30013570 Score: 186
Period size: 78 Copynumber: 1.8 Consensus size: 78
30013417 TCGAACCTCA
* * * *
30013427 CATATACATATATAAATT-CATA-TC-TAATTTCAATACAAGAATTTATACATGTATATTTATAT
1 CATATACATATAT-AATTACATACTCATAA--TCAAAACAAGAACTTATACATGTATACTCATAT
30013489 ATATATTCGAGTTTAT
63 ATATATTCGAGTTTAT
* *
30013505 CATATACATATATAATTACATACTCATAATCAAAACATGAACTTATACTTGTATACTCATATATA
1 CATATACATATATAATTACATACTCATAATCAAAACAAGAACTTATACATGTATACTCATATATA
30013570 T
66 T
30013571 TCGAATCTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
77 4 0.07
78 48 0.84
79 2 0.04
80 3 0.05
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (78 bp):
CATATACATATATAATTACATACTCATAATCAAAACAAGAACTTATACATGTATACTCATATATA
TATTCGAGTTTAT
Found at i:30014838 original size:66 final size:65
Alignment explanation
Indices: 30014755--30014884 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
30014745 GGTTAGTCTT
*
30014755 GTCTTCAACCGTCCACTATCTATATAGTGGTTAAATTTCACTTTTAAATCTCCCATTTAAAAAGA
1 GTCTTCAACCGTCCACTATCTATATAGTGGTT-AATTTCACTTTTAAACCTCCCATTTAAAAAGA
30014820 G
65 G
* *
30014821 GTCTTTAACCGTCCACTATTTATATAGTGGTTAATTTCACTTTTAAACCTCCCATTTAAAAAGA
1 GTCTTCAACCGTCCACTATCTATATAGTGGTTAATTTCACTTTTAAACCTCCCATTTAAAAAGA
30014885 CATAAACTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
65 31 0.51
66 30 0.49
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (65 bp):
GTCTTCAACCGTCCACTATCTATATAGTGGTTAATTTCACTTTTAAACCTCCCATTTAAAAAGAG
Found at i:30015762 original size:17 final size:18
Alignment explanation
Indices: 30015733--30015781 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
30015723 CTTTAGTATG
**
30015733 AAAAATATAAAAATTAAA
1 AAAAATATAAAAACGAAA
30015751 AAAAATA-AAAAACGAAA
1 AAAAATATAAAAACGAAA
30015768 AAAAATATGAAAAA
1 AAAAATAT-AAAAA
30015782 AAATATTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 15 0.56
18 7 0.26
19 5 0.19
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (18 bp):
AAAAATATAAAAACGAAA
Found at i:30016086 original size:60 final size:60
Alignment explanation
Indices: 30015988--30016113 Score: 191
Period size: 60 Copynumber: 2.1 Consensus size: 60
30015978 CTTAAAATAC
* *
30015988 AGAAAACTTAAAAGTCACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAGGA
1 AGAAAACTTAAAAGTCACTAATTATCAATCAGATGAAGAAAAAACTTCAACAGATCAGGA
* * *
30016048 AGAAGACTTAAAAGTCACTAATTAT-AATTCAGATGAAGATAAAACTTCAACAGATGAGGA
1 AGAAAACTTAAAAGTCACTAATTATCAA-TCAGATGAAGAAAAAACTTCAACAGATCAGGA
30016108 AGAAAA
1 AGAAAA
30016114 TATTCCAGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 2 0.03
60 57 0.97
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (60 bp):
AGAAAACTTAAAAGTCACTAATTATCAATCAGATGAAGAAAAAACTTCAACAGATCAGGA
Found at i:30024285 original size:23 final size:23
Alignment explanation
Indices: 30024235--30024286 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
30024225 TTCATAATTG
*
30024235 TTGTCTTTACATTTTATTTCTAT
1 TTGTCTTTACATTTTATTTATAT
* * * *
30024258 ATGTCTTTGCATTTTTTTTATTT
1 TTGTCTTTACATTTTATTTATAT
30024281 TTGTCT
1 TTGTCT
30024287 ATTCATGCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.12, G:0.08, T:0.67
Consensus pattern (23 bp):
TTGTCTTTACATTTTATTTATAT
Found at i:30024693 original size:30 final size:30
Alignment explanation
Indices: 30024657--30024717 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
30024647 AAGAAACATA
30024657 AACTAAATAAATGCCATAAAGAACTCCAAT
1 AACTAAATAAATGCCATAAAGAACTCCAAT
*
30024687 AACTAAATAAATGCCATAAAGTACTCCAAT
1 AACTAAATAAATGCCATAAAGAACTCCAAT
30024717 A
1 A
30024718 CTTAAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.21
Consensus pattern (30 bp):
AACTAAATAAATGCCATAAAGAACTCCAAT
Found at i:30029193 original size:208 final size:211
Alignment explanation
Indices: 30028596--30029220 Score: 927
Period size: 218 Copynumber: 2.9 Consensus size: 211
30028586 CCCCTCCCCG
* *
30028596 CTCCCCCTTCCGGCTCAATTTTAAAGTATCAGTTTTAAAAAATAGCAGAACAAGAGAGGGAGAAG
1 CTCCCCCATCCGGCTCAATTTTAAAGTATCAG-TTAAAAAAATAGCAGAACAAGAGAGGGAGAAG
* * * *
30028661 AGAAGAAAGAAAGAATATGTATTATTATTTATATTGTTATTTTCAAATAGAATAGATTGCT-ATA
65 AGAAGAAAGAAAAAAAAGGTATTATTATTT-TATTGTTATTTTCAAATAGAATAGATT-ATGATA
*
30028725 AGAAAATTTTATTTTGTTAGTATTATATAGTTTGTTTTGTGTTATTTTTATGTTTTGTTTTAAAG
128 AGAAAAATTTATTTTGTTAGTATTATATAGTTTGTTTTGTGTTATTTTTATGTTTTGTTTTAAAG
*
30028790 TTATTCCCCCCCCCCGGCCG
193 TTATT-CCCCCCCCCGGCCA
* *
30028810 CTCCCCCATCCGGCTCAATTTTAAAGTATCAATTAAAAAAATAGTAGAACAAGAGAGGGAGAAGA
1 CTCCCCCATCCGGCTCAATTTTAAAGTATCAGTTAAAAAAATAGCAGAACAAGAGAGGGAGAAGA
* *
30028875 GAAGAGAAGAAAGAAAGAGAAGGTATTATTATCTTTATTATTATTTTCAAATAGAATATATTATT
66 GAAGA-AAG-AA-AAA-A-AAGGTATTATTAT-TTTATTGTTATTTTCAAATAGAATAGATTA-T
* *
30028940 G-TAAGAAAAATTTATTTTGTTAGTATTATATAATTTGTTTTGTGTTTTTTTTATGTTTTGTTTT
124 GATAAGAAAAATTTATTTTGTTAGTATTATATAGTTTGTTTTGTGTTATTTTTATGTTTTGTTTT
*
30029004 AAAGTTATT-CCCCCCTCGGCCA
189 AAAGTTATTCCCCCCCCCGGCCA
* * *
30029026 CTCCCCCATCCAGCTCAATTTTAAAATATCAGTTAAAAAAATAGCAGAATAAGAGAGGGAGAAGA
1 CTCCCCCATCCGGCTCAATTTTAAAGTATCAGTTAAAAAAATAGCAGAACAAGAGAGGGAGAAGA
* * *
30029091 GAAGAAAGAAATAAAAGGTATTATT-TTTT-TTGTTATTCTCAAATAGAATAGGTTATGATAAGA
66 GAAGAAAGAAAAAAAAGGTATTATTATTTTATTGTTATTTTCAAATAGAATAGATTATGATAAGA
30029154 AAAATTTATTTTGTTAGTATTATATAGTTTGTTTTGTGTTATTTTTATGTTTTGTTTTAAAGTTA
131 AAAATTTATTTTGTTAGTATTATATAGTTTGTTTTGTGTTATTTTTATGTTTTGTTTTAAAGTTA
30029219 TT
196 TT
30029221 TTATATATTG
Statistics
Matches: 375, Mismatches: 27, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
207 2 0.01
208 92 0.25
209 3 0.01
210 1 0.00
211 11 0.03
212 1 0.00
213 38 0.10
214 35 0.09
215 5 0.01
216 78 0.21
217 1 0.00
218 106 0.28
219 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (211 bp):
CTCCCCCATCCGGCTCAATTTTAAAGTATCAGTTAAAAAAATAGCAGAACAAGAGAGGGAGAAGA
GAAGAAAGAAAAAAAAGGTATTATTATTTTATTGTTATTTTCAAATAGAATAGATTATGATAAGA
AAAATTTATTTTGTTAGTATTATATAGTTTGTTTTGTGTTATTTTTATGTTTTGTTTTAAAGTTA
TTCCCCCCCCCGGCCA
Found at i:30032314 original size:62 final size:62
Alignment explanation
Indices: 30032238--30032405 Score: 309
Period size: 62 Copynumber: 2.7 Consensus size: 62
30032228 CAATGTACCT
30032238 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * *
30032300 AATTTATATTACAAAGTTAGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATAACAA
30032362 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT
30032406 TGTAATGTTG
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 101 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATAACAA
Found at i:30032367 original size:14 final size:14
Alignment explanation
Indices: 30032348--30032376 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30032338 TAATGTATTT
30032348 AATTTATATTACAA
1 AATTTATATTACAA
30032362 AATTTATATTACAA
1 AATTTATATTACAA
30032376 A
1 A
30032377 GTTTGTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:30032731 original size:33 final size:33
Alignment explanation
Indices: 30032685--30032778 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
30032675 GATGAACTTG
30032685 AGCC-AGGAGGAGTGCAGTACTGCGGTGGATAC
1 AGCCTAGGAGGAGTGCAGTACTGCGGTGGATAC
*
30032717 -GACCTAGGAGGAGTGCAGTAATGCGGTGGATAC
1 AG-CCTAGGAGGAGTGCAGTACTGCGGTGGATAC
* **
30032750 AGGCTAGGAGGAGTGTTGTACTGCGGTGG
1 AGCCTAGGAGGAGTGCAGTACTGCGGTGG
30032779 TACTGAACTA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 1 0.02
32 2 0.04
33 50 0.93
34 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.43, T:0.19
Consensus pattern (33 bp):
AGCCTAGGAGGAGTGCAGTACTGCGGTGGATAC
Found at i:30032935 original size:12 final size:12
Alignment explanation
Indices: 30032899--30032928 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
30032889 CTCTACCTGA
30032899 CGGGCTCAGGCT
1 CGGGCTCAGGCT
30032911 CGGGCTCAGGCT
1 CGGGCTCAGGCT
30032923 CGGGCT
1 CGGGCT
30032929 TTGGCTCCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.33, G:0.43, T:0.17
Consensus pattern (12 bp):
CGGGCTCAGGCT
Found at i:30033596 original size:14 final size:14
Alignment explanation
Indices: 30033577--30033607 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30033567 AAATTACATG
*
30033577 TTAGAATAGTATCA
1 TTAGAATAATATCA
30033591 TTAGAATAATATCA
1 TTAGAATAATATCA
30033605 TTA
1 TTA
30033608 AAAAATGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (14 bp):
TTAGAATAATATCA
Found at i:30037264 original size:7 final size:7
Alignment explanation
Indices: 30037254--30037315 Score: 63
Period size: 7 Copynumber: 9.0 Consensus size: 7
30037244 AACCCATAAT
30037254 CTTAAAC
1 CTTAAAC
30037261 CTTAAAC
1 CTTAAAC
30037268 CTTAAA-
1 CTTAAAC
*
30037274 CTCAAAC
1 CTTAAAC
**
30037281 CCCAAAC
1 CTTAAAC
*
30037288 CTCAAAC
1 CTTAAAC
*
30037295 CATAAAC
1 CTTAAAC
*
30037302 CATAAAC
1 CTTAAAC
30037309 CTTAAAC
1 CTTAAAC
30037316 TCGAATCCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
6 5 0.10
7 43 0.90
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
CTTAAAC
Found at i:30037281 original size:41 final size:41
Alignment explanation
Indices: 30037256--30037333 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
30037246 CCCATAATCT
*
30037256 TAAACCTTAAACCTTAAACTCAAACCCCAAACCTCAAACCA
1 TAAACCATAAACCTTAAACTCAAACCCCAAACCTCAAACCA
* *
30037297 TAAACCATAAACCTTAAACTCGAA-TCCAAACC-CAAAC
1 TAAACCATAAACCTTAAACTCAAACCCCAAACCTCAAAC
30037334 TCTAAACTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 5 0.15
40 7 0.21
41 22 0.65
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (41 bp):
TAAACCATAAACCTTAAACTCAAACCCCAAACCTCAAACCA
Found at i:30037287 original size:20 final size:21
Alignment explanation
Indices: 30037264--30037347 Score: 61
Period size: 20 Copynumber: 4.2 Consensus size: 21
30037254 CTTAAACCTT
*
30037264 AAACCTTAAACTC-AAACCCC
1 AAACCTCAAACTCTAAACCCC
**
30037284 AAACCTCAAAC-CATAAACCAT
1 AAACCTCAAACTC-TAAACCCC
* * *
30037305 AAACCTTAAACTC-GAA-TCC
1 AAACCTCAAACTCTAAACCCC
*
30037324 AAACC-CAAACTCTAAACTCC
1 AAACCTCAAACTCTAAACCCC
30037344 AAAC
1 AAAC
30037348 TTGAAACATT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
18 6 0.12
19 8 0.16
20 19 0.39
21 15 0.31
22 1 0.02
ACGTcount: A:0.48, C:0.36, G:0.01, T:0.15
Consensus pattern (21 bp):
AAACCTCAAACTCTAAACCCC
Found at i:30037426 original size:21 final size:21
Alignment explanation
Indices: 30037400--30037467 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
30037390 TTTGGGTTTG
30037400 GGGTTTAGAATTCTATATTTA
1 GGGTTTAGAATTCTATATTTA
***
30037421 GGGTTTA-AAGTTC-GGGTTT-
1 GGGTTTAGAA-TTCTATATTTA
30037440 GGGATTTAGAATTCTATATTTA
1 GGG-TTTAGAATTCTATATTTA
30037462 GGGTTT
1 GGGTTT
30037468 TAGGTTCGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
21 18 0.50
22 3 0.08
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GGGTTTAGAATTCTATATTTA
Found at i:30037448 original size:41 final size:41
Alignment explanation
Indices: 30037393--30037477 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
30037383 GTTTGGGTTT
*
30037393 GGGTTTGGGGTTTAGAATTCTATATTTAGGGTTTAAAGTTC
1 GGGTTTGGGATTTAGAATTCTATATTTAGGGTTTAAAGTTC
* *
30037434 GGGTTTGGGATTTAGAATTCTATATTTAGGGTTTTAGGTTC
1 GGGTTTGGGATTTAGAATTCTATATTTAGGGTTTAAAGTTC
30037475 GGG
1 GGG
30037478 ATAAAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.44
Consensus pattern (41 bp):
GGGTTTGGGATTTAGAATTCTATATTTAGGGTTTAAAGTTC
Found at i:30042099 original size:9 final size:9
Alignment explanation
Indices: 30042067--30042109 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
30042057 TTCACATCCT
30042067 TCTCTCAAC
1 TCTCTCAAC
*
30042076 TCTTTCAAAC
1 TCTCTC-AAC
* *
30042086 CCTCTCAAG
1 TCTCTCAAC
30042095 TCTCTCAAC
1 TCTCTCAAC
30042104 TCTCTC
1 TCTCTC
30042110 GTTTTTAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.21, C:0.42, G:0.02, T:0.35
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:30048372 original size:10 final size:8
Alignment explanation
Indices: 30048341--30048373 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
30048331 CTAAATTTAT
30048341 CTATATAAC
1 CTATAT-AC
30048350 CTATATAC
1 CTATATAC
30048358 CTATATAC
1 CTATATAC
30048366 CTATATAC
1 CTATATAC
30048374 TAGTTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.75
9 6 0.25
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
CTATATAC
Found at i:30051085 original size:43 final size:43
Alignment explanation
Indices: 30051024--30051109 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
30051014 GATTACTACT
30051024 CAAGTAAACAACCTTGTTAAGAGTATATGTGTAATTAGGGAAA
1 CAAGTAAACAACCTTGTTAAGAGTATATGTGTAATTAGGGAAA
*
30051067 CAAGTAAACAACCTTGTTAAGAGTATATGTGTAATTAGTGAAA
1 CAAGTAAACAACCTTGTTAAGAGTATATGTGTAATTAGGGAAA
30051110 GAATAATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (43 bp):
CAAGTAAACAACCTTGTTAAGAGTATATGTGTAATTAGGGAAA
Found at i:30063104 original size:188 final size:188
Alignment explanation
Indices: 30062767--30063122 Score: 466
Period size: 188 Copynumber: 1.9 Consensus size: 188
30062757 ATAAGCTCTA
* * *** *
30062767 TTTTGAAATGTAAATGTAAAGCTAATTTTAATATATCTTCTCAAGTAGAAAATATGTGAACTAGT
1 TTTTGAAATGTAAATGTAAAGCTAATTTTAATATATCTTCCCAAGTAGAAAAGATACAAACTAGA
* * *
30062832 GAGATATAGATGGTATGCCATTAGGAAACATTCAACACGTTCTCTATTTTGTTAATGCACTTTAG
66 GAGATATAGATGGCATGCCATTAGGAAACATTCAACACGTGCTCTATTCTGTTAATGCACTTTAG
* * *
30062897 TGCCATTCTGTTATGATAAAGCAATTTGGTGTTATTCTGTTCCAATATTGCACTTTGG
131 TGCCACTCTATTATGATAAAGCAATTTGGTGCTATTCTGTTCCAATATTGCACTTTGG
* * ** * *
30062955 TTTTGAAATGTAAATGTGAAGCTAGTTTTGGTATA-CTTTCCCAAGTAGACAAGATACAAAGTAG
1 TTTTGAAATGTAAATGTAAAGCTAATTTTAATATATC-TTCCCAAGTAGAAAAGATACAAACTAG
* *
30063019 AGGGATATAGATGGCATGCCATTAGGAAACATTC-A-ATGTGCTCTCAGTTCTGTTAATGCACTT
65 AGAGATATAGATGGCATGCCATTAGGAAACATTCAACACGTGCTCT-A-TTCTGTTAATGCACTT
* *
30063082 TGGTGCCACTCTATTTTGATAAAGCAATTTGGTGCTATTCT
128 TAGTGCCACTCTATTATGATAAAGCAATTTGGTGCTATTCT
30063123 ATTATGATAT
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
186 7 0.05
187 3 0.02
188 133 0.93
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (188 bp):
TTTTGAAATGTAAATGTAAAGCTAATTTTAATATATCTTCCCAAGTAGAAAAGATACAAACTAGA
GAGATATAGATGGCATGCCATTAGGAAACATTCAACACGTGCTCTATTCTGTTAATGCACTTTAG
TGCCACTCTATTATGATAAAGCAATTTGGTGCTATTCTGTTCCAATATTGCACTTTGG
Found at i:30063113 original size:29 final size:29
Alignment explanation
Indices: 30063080--30063154 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
30063070 GTTAATGCAC
*
30063080 TTTGGTGCCACTCTATTTTGATAAAGCAA
1 TTTGGTGCCACTCTATTATGATAAAGCAA
* * *** **
30063109 TTTGGTGCTATTCTATTATGATATTTCCC
1 TTTGGTGCCACTCTATTATGATAAAGCAA
30063138 TTTGGTGCCACTCTATT
1 TTTGGTGCCACTCTATT
30063155 CTATTATTGT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (29 bp):
TTTGGTGCCACTCTATTATGATAAAGCAA
Found at i:30063973 original size:16 final size:17
Alignment explanation
Indices: 30063940--30063973 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30063930 ATTTAAAAAC
30063940 TAAAAATTAACTAAGTAA
1 TAAAAATTAAC-AAGTAA
30063958 TAAAAATTAA-AAGTAA
1 TAAAAATTAACAAGTAA
30063974 AAATTCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (17 bp):
TAAAAATTAACAAGTAA
Found at i:30065357 original size:81 final size:81
Alignment explanation
Indices: 30065216--30065379 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
30065206 ATAATTAATT
30065216 TTTAACCCAATTAATTTACAAAATATATTTAATACATATTTTTGGACCGTACATGATTGAAAAAG
1 TTTAACCCAATTAATTTACAAAATATATTTAATACATATTTTTGGACCGTACATGATTGAAAAAG
30065281 ATTATTATCCTTGCTC
66 ATTATTATCCTTGCTC
* *
30065297 TTTAACCCAATTAATTTACAAAATATATTTAATACATATTTTTGGACCGTCCATGGTTGAAAAAG
1 TTTAACCCAATTAATTTACAAAATATATTTAATACATATTTTTGGACCGTACATGATTGAAAAAG
30065362 ATTATTATCCTTGCTC
66 ATTATTATCCTTGCTC
30065378 TT
1 TT
30065380 GGTCACTTGA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (81 bp):
TTTAACCCAATTAATTTACAAAATATATTTAATACATATTTTTGGACCGTACATGATTGAAAAAG
ATTATTATCCTTGCTC
Found at i:30065766 original size:96 final size:96
Alignment explanation
Indices: 30065602--30065793 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
30065592 TACACGAATT
30065602 AGGGCTCAAAAGGTGCAGAAAAAGTCTATATTTTTGCATTTCGACACCCCCAAACTTAATTCTTT
1 AGGGCTCAAAAGGTGCAGAAAAAGTCTATATTTTTGCATTTCGACACCCCCAAACTTAATTCTTT
30065667 TCTCGTCCCGAGGAATGCACAATTTATAAAA
66 TCTCGTCCCGAGGAATGCACAATTTATAAAA
30065698 AGGGCTCAAAAGGTGCAGAAAAAGTCTATATTTTTGCATTTCGACACCCCCAAACTTAATTCTTT
1 AGGGCTCAAAAGGTGCAGAAAAAGTCTATATTTTTGCATTTCGACACCCCCAAACTTAATTCTTT
*
30065763 TCTCGTCCCGAGTAATGCACAATTTATAAAA
66 TCTCGTCCCGAGGAATGCACAATTTATAAAA
30065794 TAATTTCTCA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (96 bp):
AGGGCTCAAAAGGTGCAGAAAAAGTCTATATTTTTGCATTTCGACACCCCCAAACTTAATTCTTT
TCTCGTCCCGAGGAATGCACAATTTATAAAA
Found at i:30066315 original size:6 final size:6
Alignment explanation
Indices: 30066300--30066340 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
30066290 ACATATGCTC
*
30066300 TTTC-T TTTCTT TTTCTT TTTCTT TTT-TT TCTCTT TTT-TT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
30066341 CGAGCATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 12 0.38
6 20 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:30066322 original size:17 final size:18
Alignment explanation
Indices: 30066300--30066341 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
30066290 ACATATGCTC
30066300 TTTCTTTTCTTTT-TCTT
1 TTTCTTTTCTTTTCTCTT
30066317 TTTCTTTT-TTTTCTCTT
1 TTTCTTTTCTTTTCTCTT
30066334 TTT-TTTTC
1 TTTCTTTTC
30066342 GAGCATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTCTTTTCTTTTCTCTT
Found at i:30066328 original size:21 final size:21
Alignment explanation
Indices: 30066298--30066341 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30066288 GTACATATGC
30066298 TCTTTCTTTTCT-TTTTCTTTT
1 TCTTTCTTTTCTCTTTT-TTTT
*
30066319 TCTTTTTTTTCTCTTTTTTTT
1 TCTTTCTTTTCTCTTTTTTTT
30066340 TC
1 TC
30066342 GAGCATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
TCTTTCTTTTCTCTTTTTTTT
Found at i:30067637 original size:28 final size:28
Alignment explanation
Indices: 30067605--30067688 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
30067595 TAGTAATAGT
30067605 ATAGTGTGGGCCTTAGCCCAATACAATA
1 ATAGTGTGGGCCTTAGCCCAATACAATA
* *
30067633 ATAGTGAGGGCCTTAGCCCAATACAGTA
1 ATAGTGTGGGCCTTAGCCCAATACAATA
* *
30067661 ACAGTGTGTGCCTTAGCCCAATACAATA
1 ATAGTGTGGGCCTTAGCCCAATACAATA
30067689 TCAATATAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (28 bp):
ATAGTGTGGGCCTTAGCCCAATACAATA
Found at i:30067826 original size:26 final size:26
Alignment explanation
Indices: 30067797--30067867 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
30067787 ACACACCAAT
30067797 ATCGTAGCAAAGCTGCCAGTAGT-AGC
1 ATCGTAGCAAAGCTGCCAGTA-TCAGC
* * * **
30067823 ATCGCAGCAGAGTTGCCAGTATCATT
1 ATCGTAGCAAAGCTGCCAGTATCAGC
*
30067849 ATAGTAGCAAAGCTGCCAG
1 ATCGTAGCAAAGCTGCCAG
30067868 AAACAGTATA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (26 bp):
ATCGTAGCAAAGCTGCCAGTATCAGC
Found at i:30067949 original size:20 final size:21
Alignment explanation
Indices: 30067912--30067951 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30067902 CCCATGAAAT
30067912 ATGTCATGTCAAAAATCATAC
1 ATGTCATGTCAAAAATCATAC
30067933 ATGT-ATGT-AAAATATCATA
1 ATGTCATGTCAAAA-ATCATA
30067952 TTTGAACGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
ATGTCATGTCAAAAATCATAC
Found at i:30068101 original size:27 final size:27
Alignment explanation
Indices: 30068071--30068199 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
30068061 TTTATGTCAT
*
30068071 TTTACCCTTTGAGGGTATTTCGATCCA
1 TTTACCCTTCGAGGGTATTTCGATCCA
* *
30068098 TTTACCCTTCGGGGGTATTTCGATCAA
1 TTTACCCTTCGAGGGTATTTCGATCCA
*
30068125 TTTACCCTTCGGGGGTATTTCGAT-CA
1 TTTACCCTTCGAGGGTATTTCGATCCA
* *
30068151 TTTCACCCTTTGAGGGTATTTCGGT-CA
1 TTT-ACCCTTCGAGGGTATTTCGATCCA
** *
30068178 TTTTACCCCCCGACGGTATTTC
1 -TTTACCCTTCGAGGGTATTTC
30068200 AATTATTTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
26 4 0.04
27 82 0.92
28 3 0.03
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (27 bp):
TTTACCCTTCGAGGGTATTTCGATCCA
Found at i:30068102 original size:54 final size:52
Alignment explanation
Indices: 30068039--30068213 Score: 170
Period size: 54 Copynumber: 3.2 Consensus size: 52
30068029 GGGTATAACA
* * * *
30068039 ATCATTTTACCCTTCGTGGGTCTTTATGTCATTTTACCCTTTGAGGGTATTTCG
1 ATCA-TTTACCCTTCGAGGGTATTT-CGTCATTTTACCCTTCGAGGGTATTTCG
* * *
30068093 ATCCATTTACCCTTCGGGGGTATTTCGATCAATTTACCCTTCGGGGGTATTTCG
1 AT-CATTTACCCTTCGAGGGTATTTCG-TCATTTTACCCTTCGAGGGTATTTCG
* ** * *
30068147 ATCATTTCACCCTTTGAGGGTATTTCGGTCATTTTACCCCCCGACGGTATTTCA
1 ATCATTT-ACCCTTCGAGGGTATTTC-GTCATTTTACCCTTCGAGGGTATTTCG
*
30068201 ATTATTTTACCCT
1 ATCA-TTTACCCT
30068214 CTAGGGGTAT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
53 6 0.06
54 89 0.88
55 6 0.06
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (52 bp):
ATCATTTACCCTTCGAGGGTATTTCGTCATTTTACCCTTCGAGGGTATTTCG
Found at i:30068196 original size:81 final size:81
Alignment explanation
Indices: 30068037--30068234 Score: 215
Period size: 81 Copynumber: 2.4 Consensus size: 81
30068027 AGGGGTATAA
* * * *
30068037 CAATCATTTTACCCTTCGTGGGTCTTTATGTCATTTTACCCTTTGAGGGTATTTCGATCCATTTA
1 CAATCATTTTACCCTTCGGGGGTATTTACGTCATTTCACCCTTTGAGGGTATTTCGATCCATTTA
** **
30068102 CCCTTCGGGGGTATTT
66 CCCCCCGACGGTATTT
* * *
30068118 CGATCAATTTACCCTTCGGGGGTATTT-CGATCATTTCACCCTTTGAGGGTATTTCGGT-CATTT
1 CAATCATTTTACCCTTCGGGGGTATTTACG-TCATTTCACCCTTTGAGGGTATTTCGATCCA-TT
30068181 TACCCCCCGACGGTATTT
64 TACCCCCCGACGGTATTT
* *
30068199 CAATTATTTTACCC-TCTAGGGGTA-TTACAGTCATTT
1 CAATCATTTTACCCTTC-GGGGGTATTTAC-GTCATTT
30068235 GCCCACGAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
80 7 0.07
81 89 0.92
82 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (81 bp):
CAATCATTTTACCCTTCGGGGGTATTTACGTCATTTCACCCTTTGAGGGTATTTCGATCCATTTA
CCCCCCGACGGTATTT
Found at i:30068222 original size:54 final size:53
Alignment explanation
Indices: 30068037--30068234 Score: 137
Period size: 54 Copynumber: 3.7 Consensus size: 53
30068027 AGGGGTATAA
* * * ** *** *
30068037 CAATCATTTTACCCTTCGTGGGTCTTTATGTCATTTTACCCTTTGAGGGTATTT
1 CAATCATTTCACCCTTAG-GGGTATTTCGGTCATTTTACCCCCCGACGGTATTT
* * * * ** **
30068091 CGATCCATTT-ACCCTTCGGGGGTATTTCGATCAATTTACCCTTCGGGGGTATTT
1 CAAT-CATTTCACCCTT-AGGGGTATTTCGGTCATTTTACCCCCCGACGGTATTT
* *
30068145 CGATCATTTCACCCTTTGAGGGTATTTCGGTCATTTTACCCCCCGACGGTATTT
1 CAATCATTTCACCCTTAG-GGGTATTTCGGTCATTTTACCCCCCGACGGTATTT
* * * *
30068199 CAATTATTTTACCCTCTAGGGGTATTACAGTCATTT
1 CAATCATTTCACCCT-TAGGGGTATTTCGGTCATTT
30068235 GCCCACGAAT
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
53 6 0.05
54 103 0.88
55 8 0.07
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (53 bp):
CAATCATTTCACCCTTAGGGGTATTTCGGTCATTTTACCCCCCGACGGTATTT
Found at i:30077319 original size:24 final size:24
Alignment explanation
Indices: 30077274--30077321 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30077264 GAAAGTAACT
**
30077274 GTAAAAGAAGATGAAACGATTAGG
1 GTAAAAGAAGATGAAAAAATTAGG
30077298 GTAAAAGAAAGA-GAAAAAATTAGG
1 GTAAAAG-AAGATGAAAAAATTAGG
30077322 TTGTGACGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.27, T:0.15
Consensus pattern (24 bp):
GTAAAAGAAGATGAAAAAATTAGG
Found at i:30083993 original size:12 final size:12
Alignment explanation
Indices: 30083976--30084009 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
30083966 TCAAACACTT
30083976 GTGTGCTAGGTC
1 GTGTGCTAGGTC
30083988 GTGTGCTAGGTC
1 GTGTGCTAGGTC
*
30084000 GTGCGCTAGG
1 GTGTGCTAGG
30084010 CCAGTAACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.18, G:0.44, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGTC
Found at i:30085144 original size:21 final size:20
Alignment explanation
Indices: 30085098--30085145 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
30085088 CCAAATGAAT
* *
30085098 AAATTCAATCAATTTAATAG
1 AAATTCAATCAATTCAATAC
* *
30085118 ACATTCAATTCAATTCAATCC
1 AAATTCAA-TCAATTCAATAC
30085139 AAATTCA
1 AAATTCA
30085146 TATTTTTGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATTCAATCAATTCAATAC
Found at i:30092062 original size:74 final size:74
Alignment explanation
Indices: 30091941--30092088 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 74
30091931 AGTTCCGACC
* *** *
30091941 CTTCTTCACTAAAACTTAATTATCTCCTTGTACAAAATTTTTATGATATCCCCATTTTTTTATAT
1 CTTCTTCACTAAAACTTAATTATCTCCTTGTAAAAAATTCAGATGATATCCCCATTTATTTATAT
30092006 TAAAAATAT
66 TAAAAATAT
* **
30092015 CTTCTTCACTAAAATTTAATTATCTCCTTGTAAAAAATTCAGATGATATCCCTGTTTATTTATAT
1 CTTCTTCACTAAAACTTAATTATCTCCTTGTAAAAAATTCAGATGATATCCCCATTTATTTATAT
*
30092080 TGAAAATAT
66 TAAAAATAT
30092089 AATATTTTAG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (74 bp):
CTTCTTCACTAAAACTTAATTATCTCCTTGTAAAAAATTCAGATGATATCCCCATTTATTTATAT
TAAAAATAT
Found at i:30098131 original size:23 final size:23
Alignment explanation
Indices: 30098088--30098133 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30098078 AATAAAATAC
*
30098088 AAGTAAAATTCATGTACAACTAT
1 AAGTAAAATTCATATACAACTAT
* *
30098111 AAGTAAAATTCCTATAGAACTAT
1 AAGTAAAATTCATATACAACTAT
30098134 GCTTCTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (23 bp):
AAGTAAAATTCATATACAACTAT
Found at i:30100654 original size:15 final size:17
Alignment explanation
Indices: 30100634--30100674 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
30100624 AGAATGTTAG
30100634 AATATTT-AT-TAAATA
1 AATATTTAATATAAATA
30100649 AATATTTTACATATAAATA
1 AATA-TTTA-ATATAAATA
30100668 AATATTT
1 AATATTT
30100675 TACATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 3 0.14
18 5 0.23
19 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATTTAATATAAATA
Found at i:30100667 original size:19 final size:19
Alignment explanation
Indices: 30100643--30100682 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30100633 GAATATTTAT
30100643 TAAATAAATATTTTACATA
1 TAAATAAATATTTTACATA
30100662 TAAATAAATATTTTACATA
1 TAAATAAATATTTTACATA
30100681 TA
1 TA
30100683 TTAGTGGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATAAATATTTTACATA
Found at i:30108929 original size:26 final size:26
Alignment explanation
Indices: 30108893--30108954 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
30108883 CCTGTAAGTG
*
30108893 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTAAGATA
* *
30108919 TTCTGAAACTGATATATGTTAAGATA
1 TTCTGAAACTGATACATGCTAAGATA
*
30108945 TTTTGAAACT
1 TTCTGAAACT
30108955 ACTGTAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTAAGATA
Found at i:30115958 original size:34 final size:35
Alignment explanation
Indices: 30115920--30115986 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
30115910 GATGGGCTAG
30115920 GGCCCAA-ACTGTCACTGATATTGAAAAGGGCTTA
1 GGCCCAAGACTGTCACTGATATTGAAAAGGGCTTA
30115954 GGCCCAAGACTGTCACTGATATTGAAAAGGGCT
1 GGCCCAAGACTGTCACTGATATTGAAAAGGGCT
30115987 AAATCCCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 7 0.22
35 25 0.78
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (35 bp):
GGCCCAAGACTGTCACTGATATTGAAAAGGGCTTA
Found at i:30115995 original size:35 final size:34
Alignment explanation
Indices: 30115921--30115995 Score: 114
Period size: 35 Copynumber: 2.2 Consensus size: 34
30115911 ATGGGCTAGG
* *
30115921 GCCCAAACTGTCACTGATATTGAAAAGGGCTTAG
1 GCCCAAACTGTCACTGATATTGAAAAGGGCTAAA
30115955 GCCCAAGACTGTCACTGATATTGAAAAGGGCTAAA
1 GCCCAA-ACTGTCACTGATATTGAAAAGGGCTAAA
*
30115990 TCCCAA
1 GCCCAA
30115996 TGACGTATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 6 0.16
35 31 0.84
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (34 bp):
GCCCAAACTGTCACTGATATTGAAAAGGGCTAAA
Found at i:30118915 original size:40 final size:41
Alignment explanation
Indices: 30118824--30118928 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 41
30118814 CAAACCTTGA
* * *
30118824 GCCTAACAGGGTTTGTGTCGGTGTATCTATTGGGCTTAGTT
1 GCCTTACAGGCTTTGTGCCGGTGTATCTATTGGGCTTAGTT
* *
30118865 -CC-TAGAAGGCTTTGTGCCGGTGTATCTATTTGGCTTA-TT
1 GCCTTA-CAGGCTTTGTGCCGGTGTATCTATTGGGCTTAGTT
* *
30118904 GCCTTACAGGCTTAGTGCCAGTGTA
1 GCCTTACAGGCTTTGTGCCGGTGTA
30118929 ATTAGCAGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.06
40 48 0.91
41 2 0.04
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (41 bp):
GCCTTACAGGCTTTGTGCCGGTGTATCTATTGGGCTTAGTT
Found at i:30122974 original size:21 final size:21
Alignment explanation
Indices: 30122941--30122980 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30122931 TAGCAGGGAG
*
30122941 GACATAGCCGTGTGGCTAAAT
1 GACATAGCCGTGTGACTAAAT
30122962 GACAT-GCCTGTGTGACTAA
1 GACATAGCC-GTGTGACTAA
30122981 GATACACGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (21 bp):
GACATAGCCGTGTGACTAAAT
Found at i:30126915 original size:23 final size:24
Alignment explanation
Indices: 30126865--30126915 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
30126855 TTGGTGCCCT
*
30126865 TGATATTCATGCTATATACACCCA
1 TGATAATCATGCTATATACACCCA
* * *
30126889 TGATAATCGTGCT-TATGCACCCC
1 TGATAATCATGCTATATACACCCA
30126912 TGAT
1 TGAT
30126916 CACTACACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (24 bp):
TGATAATCATGCTATATACACCCA
Found at i:30141392 original size:113 final size:113
Alignment explanation
Indices: 30141264--30141490 Score: 445
Period size: 113 Copynumber: 2.0 Consensus size: 113
30141254 TATAGAGCTA
30141264 GCACGTGACAAAAAATAAGTTATCCACATGTTAACTAAGTAACAGGTCCAACTGGGGTTTTAAAC
1 GCACGTGACAAAAAATAAGTTATCCACATGTTAACTAAGTAACAGGTCCAACTGGGGTTTTAAAC
30141329 CTTGTAATATATATATATGATTTGGATCTCCCTCCTCAAATGAAAAAT
66 CTTGTAATATATATATATGATTTGGATCTCCCTCCTCAAATGAAAAAT
*
30141377 GCACGTGGCAAAAAATAAGTTATCCACATGTTAACTAAGTAACAGGTCCAACTGGGGTTTTAAAC
1 GCACGTGACAAAAAATAAGTTATCCACATGTTAACTAAGTAACAGGTCCAACTGGGGTTTTAAAC
30141442 CTTGTAATATATATATATGATTTGGATCTCCCTCCTCAAATGAAAAAT
66 CTTGTAATATATATATATGATTTGGATCTCCCTCCTCAAATGAAAAAT
30141490 G
1 G
30141491 GTTAAATTCT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (113 bp):
GCACGTGACAAAAAATAAGTTATCCACATGTTAACTAAGTAACAGGTCCAACTGGGGTTTTAAAC
CTTGTAATATATATATATGATTTGGATCTCCCTCCTCAAATGAAAAAT
Found at i:30152270 original size:23 final size:23
Alignment explanation
Indices: 30152239--30152289 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
30152229 ACCTACTTTC
*
30152239 TTACTGTAGTAATTTTCGG-AGTA
1 TTACAGTAGTAATTTTCGGCA-TA
30152262 TTACAGTAGTAATTTTCGGCATA
1 TTACAGTAGTAATTTTCGGCATA
30152285 TTACA
1 TTACA
30152290 TTGGATGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGCATA
Found at i:30152788 original size:141 final size:141
Alignment explanation
Indices: 30152534--30152807 Score: 530
Period size: 141 Copynumber: 1.9 Consensus size: 141
30152524 TGGCCGTGTG
*
30152534 ACCCAAGTCAGAGAGTTACACGGGCACGGACACGGGCTGGGACACGGCCGTCTGTCCCTACTTCG
1 ACCCAAGTCAGAGAGTTACACGGGCACGGACACGGGCTGGGACACGGCCGTCTGGCCCTACTTCG
*
30152599 AATGTCCACATGGCCTAAGACAGGGGCATGTGTCTCAGCTGTGTGATCTCTACAGTTTGAAAAAA
66 AATGTCCACATGGCCTAAGACAGGGGCATGTGTCTCAGCTATGTGATCTCTACAGTTTGAAAAAA
30152664 ATTCAACTTTT
131 ATTCAACTTTT
30152675 ACCCAAGTCAGAGAGTTACACGGGCACGGACACGGGCTGGGACACGGCCGTCTGGCCCTACTTCG
1 ACCCAAGTCAGAGAGTTACACGGGCACGGACACGGGCTGGGACACGGCCGTCTGGCCCTACTTCG
30152740 AATGTCCACATGGCCTAAGACAGGGGCATGTGTCTCAGCTATGTGATCTCTACAGTTTGAAAAAA
66 AATGTCCACATGGCCTAAGACAGGGGCATGTGTCTCAGCTATGTGATCTCTACAGTTTGAAAAAA
30152805 ATT
131 ATT
30152808 TTATACTTTT
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 131 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (141 bp):
ACCCAAGTCAGAGAGTTACACGGGCACGGACACGGGCTGGGACACGGCCGTCTGGCCCTACTTCG
AATGTCCACATGGCCTAAGACAGGGGCATGTGTCTCAGCTATGTGATCTCTACAGTTTGAAAAAA
ATTCAACTTTT
Found at i:30173132 original size:28 final size:30
Alignment explanation
Indices: 30173101--30173177 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
30173091 AATAAAAAAT
* *
30173101 TATTAAAATTTTATAAAAAA-TATT-TATA
1 TATTAAAATTTTATAAAAAATTATTAGAAA
30173129 TATTAAAAATTTT-TAAAAAATTATTAGAAA
1 TATT-AAAATTTTATAAAAAATTATTAGAAA
*
30173159 TATAAAAATTATTATAAAA
1 TATTAAAATT-TTATAAAA
30173178 TATAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 11 0.27
29 18 0.44
30 7 0.17
31 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (30 bp):
TATTAAAATTTTATAAAAAATTATTAGAAA
Found at i:30173172 original size:21 final size:19
Alignment explanation
Indices: 30173144--30173187 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
30173134 AAAATTTTTA
*
30173144 AAAAATTATTA-GAAATAT
1 AAAAATTATTATAAAATAT
30173162 AAAAATTATTATAAAATAT
1 AAAAATTATTATAAAATAT
30173181 AAAAATT
1 AAAAATT
30173188 TTAAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATTATTATAAAATAT
Found at i:30173186 original size:19 final size:18
Alignment explanation
Indices: 30173144--30173192 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
30173134 AAAATTTTTA
*
30173144 AAAAATTATTAGAAATAT
1 AAAAATTATTAAAAATAT
30173162 AAAAATTATTATAAAATAT
1 AAAAATTATTA-AAAATAT
30173181 AAAAATT-TTAAA
1 AAAAATTATTAAA
30173193 GTTATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
19 13 0.45
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATTATTAAAAATAT
Found at i:30173852 original size:10 final size:10
Alignment explanation
Indices: 30173837--30173870 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
30173827 TCTTTCCTGG
30173837 TTTTCTTTTT
1 TTTTCTTTTT
30173847 TTTTCTTTTT
1 TTTTCTTTTT
30173857 CTTTTCATTTTT
1 -TTTTC-TTTTT
30173869 TT
1 TT
30173871 CGGTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 7 0.32
12 5 0.23
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:30173869 original size:20 final size:21
Alignment explanation
Indices: 30173844--30173883 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30173834 TGGTTTTCTT
*
30173844 TTTTTTTC-TTTTTCTTTTCA
1 TTTTTTTCGGTTTTCTTTTCA
30173864 TTTTTTTCGGTTTTCTTTTC
1 TTTTTTTCGGTTTTCTTTTC
30173884 TGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTTTTCGGTTTTCTTTTCA
Found at i:30179748 original size:33 final size:32
Alignment explanation
Indices: 30179707--30179813 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 32
30179697 GTTCAGATTC
*
30179707 AAAA-AAAAAATCAAAATCAGAAACAAAAAAAG
1 AAAAGAAAAAATCAAAGTCA-AAACAAAAAAAG
*
30179739 AAAAGAAAAAATCAATGTCAAAAACAAAAAAAG
1 AAAAGAAAAAATCAAAGTC-AAAACAAAAAAAG
* * *
30179772 ---AGAAATCAATCAAAGTCAAAACAAAATATG
1 AAAAGAAA-AAATCAAAGTCAAAACAAAAAAAG
30179802 AAAAGAGAAAAA
1 AAAAGA-AAAAA
30179814 GAAAAGAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
30 16 0.26
31 9 0.15
32 4 0.07
33 29 0.48
34 3 0.05
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.09
Consensus pattern (32 bp):
AAAAGAAAAAATCAAAGTCAAAACAAAAAAAG
Found at i:30180211 original size:20 final size:20
Alignment explanation
Indices: 30180173--30180225 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
30180163 TGGATTTCAA
30180173 AAAAAATGAAAA--AAA--T
1 AAAAAATGAAAATGAAATGT
*
30180189 AAAAAATGAGAATGAAATGT
1 AAAAAATGAAAATGAAATGT
30180209 AAAAAATGAAAATGAAA
1 AAAAAATGAAAATGAAA
30180226 AATAGAGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 11 0.35
18 3 0.10
20 17 0.55
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (20 bp):
AAAAAATGAAAATGAAATGT
Found at i:30182209 original size:87 final size:87
Alignment explanation
Indices: 30181441--30182207 Score: 1165
Period size: 87 Copynumber: 8.8 Consensus size: 87
30181431 ATATCAGTGA
* * *
30181441 AGATCGAAAACAAAGCCTTACCTCTACCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
30181506 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * * *
30181528 AGATCGAAAACAAAGTCTTGCCTCCATCAGTTACAGTGAAGCTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
30181593 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
30181615 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTGTAGTGGAGTTGGTTAAAGATAGCAGATCTTGT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
30181680 CTTCCTGCGTTAACAGCAAAAC
66 CTTCCTGCATTAACAGCGAAGC
*
30181702 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
30181767 CTTCCTGCGTTAACGGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
30181789 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
30181854 CTTCCTGTATTAACGGTGAAGC
66 CTTCCTGCATTAACAGCGAAGC
*
30181876 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTAC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
30181941 CTTCCTGCGTTAACGGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
30181963 AGATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATTGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
30182028 CTTCCTGCGTTAACGGTGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
30182050 AGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCGGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
**
30182115 CTTCCTATATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* ** *
30182137 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTTTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
30182202 CCTCCT
66 CTTCCT
30182208 ATGTCGACAG
Statistics
Matches: 620, Mismatches: 60, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 620 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:30182337 original size:43 final size:43
Alignment explanation
Indices: 30182288--30182403 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 43
30182278 TTACAAGTCT
30182288 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGA-AATCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCA-AA-ACAAT-AGATCC
** ** * * *
30182331 TATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAACAATAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAACAATAGATCC
30182375 TATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC
30182404 GCATCGGGTC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
43 25 0.45
44 30 0.54
45 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAACAATAGATCC
Found at i:30182559 original size:44 final size:44
Alignment explanation
Indices: 30182492--30182720 Score: 167
Period size: 44 Copynumber: 5.0 Consensus size: 44
30182482 AGATCGCAGC
* *
30182492 AGATTGAAGCCAGAAATATTATCTCCCTGAGATTACAGCGGAGT
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGT
* * * *
30182536 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACTGTGGAGT
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGT
* ** * *
30182580 GGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCAT
1 AGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T
* *
30182633 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 -AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGT
* * * *
30182678 AGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAG
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
30182721 CGGATTAAAA
Statistics
Matches: 143, Mismatches: 26, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 97 0.68
47 3 0.02
49 4 0.03
51 4 0.03
53 1 0.01
54 22 0.15
55 4 0.03
56 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGT
Found at i:30182669 original size:142 final size:142
Alignment explanation
Indices: 30182448--30182770 Score: 574
Period size: 142 Copynumber: 2.3 Consensus size: 142
30182438 GGAGACTGAG
*
30182448 AAAGGATCTTATCTCTCTGAAGTTACGGTAGAGTAGATCGCAGCAGATTGAAGCCAGAAATATTA
1 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAGCAGATTGAAGCCAGAAATATTA
* *
30182513 TCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACTGTGGA
66 TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
*
30182578 GTGGATTAAAAT
131 GCGGATTAAAAT
* *
30182590 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTA
1 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAGCAGATTGAAGCCAGAAATATTA
*
30182655 TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGA
66 TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
30182720 GCGGATTAAAAT
131 GCGGATTAAAAT
*
30182732 AAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATC
1 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
30182771 ATATTAGGTC
Statistics
Matches: 173, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 173 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (142 bp):
AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAGCAGATTGAAGCCAGAAATATTA
TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
GCGGATTAAAAT
Found at i:30182746 original size:44 final size:44
Alignment explanation
Indices: 30182648--30182732 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
30182638 TGAAGCCAGA
**
30182648 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * * *
30182692 AATCCTATCTCCTTGAGATTACAGTGGAGCGGATT-AAAATA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATA
30182733 AAGGATCTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 4 0.11
44 31 0.89
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
Found at i:30183028 original size:101 final size:101
Alignment explanation
Indices: 30182843--30183029 Score: 248
Period size: 101 Copynumber: 1.9 Consensus size: 101
30182833 TCCCAAGCAG
* * * * * *
30182843 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATATTGCTTTCCCGACTTTGCAGTTAAAAGGAT
1 TGCAGTCGAACAGATTAAAGCCACAACGGTGAATATTACTTTCCCGACATTCCAGCTAAAAAGAT
* *
30182908 TAAAGTCACAATGATGAATCTCACTCTCTCATCCAA
66 TAAAGCCACAATGACGAATCTCACTCTCTCATCCAA
* * * **
30182944 TGCAGTCGAGCAGGTTAAAGCCACAACGGTGAATCTTACTTTTTCGACATTCCAGCTAAAAAGAT
1 TGCAGTCGAACAGATTAAAGCCACAACGGTGAATATTACTTTCCCGACATTCCAGCTAAAAAGAT
*
30183009 TAAAGCCACAATGGCGAATCT
66 TAAAGCCACAATGACGAATCT
30183030 TACTTTCCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (101 bp):
TGCAGTCGAACAGATTAAAGCCACAACGGTGAATATTACTTTCCCGACATTCCAGCTAAAAAGAT
TAAAGCCACAATGACGAATCTCACTCTCTCATCCAA
Found at i:30183794 original size:20 final size:20
Alignment explanation
Indices: 30183769--30183825 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 20
30183759 TGGTTTTAAA
30183769 TCTTTCCTGGTTTTCTTTTT
1 TCTTTCCTGGTTTTCTTTTT
30183789 TCTTT-CT--TTTTCTTTTT
1 TCTTTCCTGGTTTTCTTTTT
*
30183806 T-TTTCTTTCGGTTTTCTTTT
1 TCTTTC-CT-GGTTTTCTTTT
30183826 CTGTGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
16 3 0.10
17 11 0.35
18 1 0.03
19 2 0.06
20 5 0.16
21 9 0.29
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.75
Consensus pattern (20 bp):
TCTTTCCTGGTTTTCTTTTT
Found at i:30183796 original size:11 final size:11
Alignment explanation
Indices: 30183780--30183824 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
30183770 CTTTCCTGGT
30183780 TTTCTTTTTTC
1 TTTCTTTTTTC
30183791 TTTC-TTTTTC
1 TTTCTTTTTTC
30183801 TTT-TTTTTTC
1 TTTCTTTTTTC
**
30183811 TTTCGGTTTTC
1 TTTCTTTTTTC
30183822 TTT
1 TTT
30183825 TCTGTGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 18 0.60
11 12 0.40
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:30183799 original size:17 final size:16
Alignment explanation
Indices: 30183779--30183813 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
30183769 TCTTTCCTGG
30183779 TTTTCTTTTTTCTTTCT
1 TTTTCTTTTTT-TTTCT
30183796 TTTTCTTTTTTTTTCT
1 TTTTCTTTTTTTTTCT
30183812 TT
1 TT
30183814 CGGTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTTTTTTCT
Found at i:30192861 original size:20 final size:20
Alignment explanation
Indices: 30192832--30192869 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30192822 GTTTCAAAAT
*
30192832 ATTTTTATTATTATTTATTG
1 ATTTTAATTATTATTTATTG
*
30192852 ATTTTAATTATTTTTTAT
1 ATTTTAATTATTATTTAT
30192870 CATGTTGTCA
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:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
ATTTTAATTATTATTTATTG
Found at i:30192998 original size:20 final size:19
Alignment explanation
Indices: 30192939--30193010 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 19
30192929 AATTTATATA
*
30192939 TATATTTTTAA-ATTTTCC
1 TATATTTTTAATATTTTTC
30192957 TATATTTTTAAGATAATTTTTC
1 TATATTTTT-A-AT-ATTTTTC
30192979 TATATTTTTAATAGTTTTTC
1 TATATTTTTAATA-TTTTTC
30192999 TAT-TTTTTAATA
1 TATATTTTTAATA
30193011 AAACTCAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
18 9 0.19
19 11 0.23
20 12 0.25
21 1 0.02
22 15 0.31
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (19 bp):
TATATTTTTAATATTTTTC
Found at i:30193057 original size:11 final size:11
Alignment explanation
Indices: 30193022--30193058 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
30193012 AACTCAAATA
30193022 TATATAAATTTC
1 TATAT-AATTTC
30193034 TA-ATAATTT-
1 TATATAATTTC
30193043 TATATAATTTC
1 TATATAATTTC
30193054 TATAT
1 TATAT
30193059 TTTTATGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.09
10 12 0.52
11 7 0.30
12 2 0.09
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATAATTTC
Found at i:30193062 original size:19 final size:21
Alignment explanation
Indices: 30193022--30193064 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
30193012 AACTCAAATA
30193022 TATATAAATTTCTAATAATTT
1 TATATAAATTTCTAATAATTT
*
30193043 TATAT-AATTTCT-ATATTTT
1 TATATAAATTTCTAATAATTT
30193062 TAT
1 TAT
30193065 GGTCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 7 0.33
21 5 0.24
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATAAATTTCTAATAATTT
Found at i:30200524 original size:35 final size:35
Alignment explanation
Indices: 30200465--30200705 Score: 268
Period size: 35 Copynumber: 6.7 Consensus size: 35
30200455 AGACTTAGTC
*
30200465 AAGGCATACCTTTAAAAAATGTTGGGATAGACCTGTCT
1 AAGGCA-ACC-TT-AAAAAGGTTGGGATAGACCTGTCT
*
30200503 AAGGTAACCTTAAAAAGGTTGGGATAGACCTTGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACC-TGTCT
* * *
30200539 GAGGCAACCTTTAAAAAAGGTTGGTATAGAGCTGTCT
1 AAGGCAACC-TT-AAAAAGGTTGGGATAGACCTGTCT
* *
30200576 AAGGTAACCTTAAAAAGGTTGGGATAGACCTTTTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACC-TGTCT
* **
30200612 AAGGCAACCTTTAAAAAAAGTTGGGATAGACCCATCT
1 AAGGCAACC-TT-AAAAAGGTTGGGATAGACCTGTCT
* *
30200649 AAGGCAACCTTAAAAAGGCTGGGATAGACCCGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACCTGTCT
* *
30200684 ACGGTAACCTT-AAAAGGTTGGG
1 AAGGCAACCTTAAAAAGGTTGGG
30200706 GTAAACACGC
Statistics
Matches: 176, Mismatches: 21, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
34 10 0.06
35 65 0.37
36 30 0.17
37 31 0.18
38 40 0.23
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (35 bp):
AAGGCAACCTTAAAAAGGTTGGGATAGACCTGTCT
Found at i:30200549 original size:73 final size:73
Alignment explanation
Indices: 30200465--30200678 Score: 329
Period size: 73 Copynumber: 2.9 Consensus size: 73
30200455 AGACTTAGTC
*
30200465 AAGGCATACCTTTAAAAAATGTTGGGATAGACCTGTCTAAGGTAACCTTAAAAAGGTTGGGATAG
1 AAGGCA-ACCTTTAAAAAAAGTTGGGATAGACCTGTCTAAGGTAACCTTAAAAAGGTTGGGATAG
30200530 ACCTTGTCT
65 ACCTTGTCT
* * * *
30200539 GAGGCAACCTTTAAAAAAGGTTGGTATAGAGCTGTCTAAGGTAACCTTAAAAAGGTTGGGATAGA
1 AAGGCAACCTTTAAAAAAAGTTGGGATAGACCTGTCTAAGGTAACCTTAAAAAGGTTGGGATAGA
*
30200604 CCTTTTCT
66 CCTTGTCT
** * *
30200612 AAGGCAACCTTTAAAAAAAGTTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGCTGGGATAGA
1 AAGGCAACCTTTAAAAAAAGTTGGGATAGACCTGTCTAAGGTAACCTTAAAAAGGTTGGGATAGA
30200677 CC
66 CC
30200679 CGTCTACGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 122 0.96
74 5 0.04
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (73 bp):
AAGGCAACCTTTAAAAAAAGTTGGGATAGACCTGTCTAAGGTAACCTTAAAAAGGTTGGGATAGA
CCTTGTCT
Found at i:30201356 original size:21 final size:21
Alignment explanation
Indices: 30201330--30201379 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
30201320 AAGGTTCCTA
30201330 AGAAAATGTAAAACACAAACC
1 AGAAAATGTAAAACACAAACC
30201351 AGAAAATGTAAAACACAAACC
1 AGAAAATGTAAAACACAAACC
30201372 AGAAAATG
1 AGAAAATG
30201380 CTTAACGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.10
Consensus pattern (21 bp):
AGAAAATGTAAAACACAAACC
Found at i:30203582 original size:24 final size:24
Alignment explanation
Indices: 30203520--30203571 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
30203510 TTTCTAAAAG
* *
30203520 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
30203544 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
30203568 ATTT
1 ATTT
30203572 GACTTTGATT
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:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:30208958 original size:16 final size:16
Alignment explanation
Indices: 30208937--30208996 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
30208927 AAAAACTAAA
30208937 TGCATTAGGGATAATT
1 TGCATTAGGGATAATT
* *
30208953 TGCATTAGGGATCA-C
1 TGCATTAGGGATAATT
30208968 TGCATACTTA-GGATAATT
1 TGC--A-TTAGGGATAATT
30208986 TGCATTAGGGA
1 TGCATTAGGGA
30208997 AAATCGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
15 6 0.17
16 17 0.49
17 6 0.17
18 6 0.17
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (16 bp):
TGCATTAGGGATAATT
Found at i:30230429 original size:18 final size:19
Alignment explanation
Indices: 30230401--30230440 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
30230391 GACGGTTTTG
30230401 TAATATATTCAAATTAATA
1 TAATATATTCAAATTAATA
30230420 TAAT-TATTCAAATTAATA
1 TAATATATTCAAATTAATA
30230438 TAA
1 TAA
30230441 AATAAGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATATATTCAAATTAATA
Found at i:30247385 original size:30 final size:30
Alignment explanation
Indices: 30247349--30247409 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
30247339 GGGAAATTGA
30247349 TGGAAACTTATGAGGTTGCTGTATCAGAGT
1 TGGAAACTTATGAGGTTGCTGTATCAGAGT
30247379 TGGAAACTTATGAGGTTGCTGTATCAGAGT
1 TGGAAACTTATGAGGTTGCTGTATCAGAGT
30247409 T
1 T
30247410 CGGAGCAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (30 bp):
TGGAAACTTATGAGGTTGCTGTATCAGAGT
Found at i:30252136 original size:22 final size:21
Alignment explanation
Indices: 30252111--30252161 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
30252101 AAACTTAAAT
30252111 TTAAAAATTTAAAAAAAAAGAA
1 TTAAAAATTTAAAAAAAAA-AA
** *
30252133 TTAAATTTTTAAAAATAAAAA
1 TTAAAAATTTAAAAAAAAAAA
*
30252154 TAAAAAAT
1 TTAAAAAT
30252162 ATTATTTTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TTAAAAATTTAAAAAAAAAAA
Found at i:30267398 original size:20 final size:21
Alignment explanation
Indices: 30267365--30267403 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30267355 AATTTTCAAT
30267365 TCAATTCATAATTA-AATTCC
1 TCAATTCATAATTACAATTCC
30267385 TCAATTTCAT-ATTACAATT
1 TCAA-TTCATAATTACAATT
30267404 TTATTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTCATAATTACAATTCC
Found at i:30270808 original size:16 final size:15
Alignment explanation
Indices: 30270789--30270828 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
30270779 GGGTTTAGTA
30270789 TTGGGTTAGATTAGGT
1 TTGGGTTA-ATTAGGT
*
30270805 TTGGGCTTAATTGGGT
1 TTGGG-TTAATTAGGT
30270821 TTGGGTTA
1 TTGGGTTA
30270829 TAATTTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.15, C:0.03, G:0.38, T:0.45
Consensus pattern (15 bp):
TTGGGTTAATTAGGT
Found at i:30271664 original size:44 final size:44
Alignment explanation
Indices: 30271318--30271664 Score: 226
Period size: 44 Copynumber: 7.9 Consensus size: 44
30271308 GATCCTTTAT
* * * * *
30271318 TTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGC
*
30271362 TTCAATCTGCT-CAGCTGTAATCTCAGGGAGATAAGATTTCTGG-
1 TTTAATCTGCTCCA-CTGTAATCTCAGGGAGATAAGATTTCTGGC
* ******
30271405 TGTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATATGAAATT
1 T-TT-AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TTCTGGC
** ** * *
30271452 TTTCGGTCTATTCCACTGTAATC-CAAGGGAGATAAGA--CCT-GA
1 TTT-AATCTGCTCCACTGTAATCTC-AGGGAGATAAGATTTCTGGC
*** * * * * * **
30271494 TGCGATCTACTCTACTGTAATTTCAGAGAGACAAGATCCTT-T-AT
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT--TTCTGGC
* * * *
30271538 TTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGC
* * *
30271582 TTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTTCTGGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGC
30271626 TTTAATCTGCTCCACTGTAA-CTTCAGGGAGATAAGATTT
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTT
30271665 GAAATTTTTT
Statistics
Matches: 230, Mismatches: 58, Indels: 30
0.72 0.18 0.09
Matches are distributed among these distances:
41 25 0.11
42 3 0.01
43 5 0.02
44 133 0.58
45 31 0.13
46 32 0.14
47 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGC
Found at i:30271738 original size:219 final size:219
Alignment explanation
Indices: 30271185--30271838 Score: 1021
Period size: 219 Copynumber: 3.0 Consensus size: 219
30271175 CGTCATTGTA
* * * * *
30271185 GCTTTAATCTGTTCCACTG-CACCGCCAGGGA-AGTAAGATTTGAAATTCTTAT-GTCTATTCCC
1 GCTTTAATCTGCTCCACTGTAACC-TCAGGGAGA-TAAGATTTGAAATT-TTTTGGTCTATTCCA
*
30271247 CTGTAATCTC-AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTCAAAGAGATAAGAT
63 CTGTAATC-CAAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGAT
*
30271311 CCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGCTCAG
127 CCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGCTCCG
30271376 CTGTAATCTCAGGGAGATAAGATTTCTG
192 CTGTAATCTCAGGGAGATAAGATTTCTG
* *
30271404 G-TGTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATATGAAATTTTTCGGTCTATTCCAC
1 GCT-TT-AATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTTTGGTCTATTCCAC
*
30271468 TGTAATCCAAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGACAAGATCC
64 TGTAATCCAAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCC
*
30271533 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCT
129 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCT
*
30271598 GTAATCTCAAGGAGATAAGATTTCTG
194 GTAATCTCAGGGAGATAAGATTTCTG
* *
30271624 GCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGAAATTTTTTGGTATATTCCACTG
1 GCTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTTTGGTCTATTCCACTG
* * *
30271689 TAATCCAAGGGAGATAAGACCTGATGCGATCTATTCTACTGTAATTTCAGAGAGATAAAATCTTT
66 TAATCCAAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTT
* * * * *
30271754 TATTTTAATCTGTTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTCGCTGT
131 TATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTGT
30271819 AATCTCAGGGAGATAAGATT
196 AATCTCAGGGAGATAAGATT
30271839 CCATTTTCGA
Statistics
Matches: 401, Mismatches: 27, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
218 1 0.00
219 201 0.50
220 194 0.48
221 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (219 bp):
GCTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTTTGGTCTATTCCACTG
TAATCCAAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTT
TATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTGT
AATCTCAGGGAGATAAGATTTCTG
Found at i:30272185 original size:128 final size:128
Alignment explanation
Indices: 30271994--30272953 Score: 1418
Period size: 128 Copynumber: 7.5 Consensus size: 128
30271984 CACTACAACT
* * *
30271994 TTAGGGAGATAGGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
1 TTAGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTG
* *
30272059 ACTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCTCCGTCTTTGATCTGCTCCGCTATTGC
65 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGC
* * * *
30272123 TTAGGGAGACAAGATTTGTAATTTTCAACCTATTCCACTGCTGACCAGGGATATACGACTTGTGG
1 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
* * *
30272188 CTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCTCCGGCTTTGATCTGCTCCGCTATTGC
66 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGC
* * *
30272251 TTAGGGAGACACGATTTGTAATTTTCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
1 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
* * *
30272316 CTTAAATTTGCTTCCTTACACTTGAAGATAAGATCCGCAGTCTTTGATCTGCTCCGCTATTGC
66 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGC
* * *
30272379 TTAGGGAGACAAGATTTGTAATTTTCAACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGG
1 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
* * *
30272444 CTTAAATCTGCTTCCTTACTCTTGAAGATAAGATCCGCCGTCTTTAATCTGC-CCTGCTATTGC
66 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCC-GCTATTGC
* * * * * *
30272507 TTAGGAAGACCAGATCTGTAATTTCTAACCTATTCCACTGCTAACTAGGGACATAAGACTTGTGG
1 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
* **
30272572 CTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTACAGC
66 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGC
* *
30272635 TTAGGGAGACAAGATCTGTAATCTCCAACCTATTCCACTACTGACCAGGGACATAGGACTTGTGG
1 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
* * * * * *
30272700 CTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTAGCCGTCTTCGATCTACTCCGCTACTAC
66 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGC
* * *
30272763 TTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGTGAGATAGGACTTGTGG
1 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
* * * * *
30272828 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTAGCCGTCTTCGATCTACTCCGCTACTAC
66 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGC
* ** *
30272891 TTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAAAGATATAGGACTTGT
1 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGT
30272954 AATCTTCATC
Statistics
Matches: 767, Mismatches: 62, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
127 2 0.00
128 742 0.97
129 23 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (128 bp):
TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGG
CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGC
Found at i:30274239 original size:7 final size:7
Alignment explanation
Indices: 30274227--30274255 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
30274217 TTAGCCTCTC
30274227 CATTTTT
1 CATTTTT
30274234 CATTTTT
1 CATTTTT
30274241 CA-TTTT
1 CATTTTT
30274247 CATTTTT
1 CATTTTT
30274254 CA
1 CA
30274256 CTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:30274248 original size:13 final size:13
Alignment explanation
Indices: 30274230--30274265 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30274220 GCCTCTCCAT
30274230 TTTTCATTTTTCA
1 TTTTCATTTTTCA
30274243 TTTTCATTTTTCA
1 TTTTCATTTTTCA
*
30274256 CTTTC-TTTTT
1 TTTTCATTTTT
30274266 TTGAGAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:30286427 original size:43 final size:43
Alignment explanation
Indices: 30286348--30286480 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
30286338 AAACACATAT
* * * * * *
30286348 ATCACATA-CAATGCC-ATATCCTAGATATGGTCTTACATGTT
1 ATCACATATCAATGCCAATGTCCCAGACAGGGTCTTACACGTA
* * *
30286389 ATCACATATCAATGTCACTGTCCCAGGCAGGGTCTTACACGTA
1 ATCACATATCAATGCCAATGTCCCAGACAGGGTCTTACACGTA
* * * **
30286432 ATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACACAAA
1 ATCACATATCAATGCCAATGTCCCAGACAGGGTCTTACACGTA
30286475 ATCACA
1 ATCACA
30286481 CCTCGGGAGT
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 8 0.11
42 6 0.08
43 58 0.81
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
ATCACATATCAATGCCAATGTCCCAGACAGGGTCTTACACGTA
Found at i:30297866 original size:10 final size:10
Alignment explanation
Indices: 30297843--30297899 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
30297833 TTAAAGTGAT
30297843 AATAAATAATAA
1 AATAAAT-A-AA
30297855 AATAAATAAA
1 AATAAATAAA
*
30297865 AATAAGTAAA
1 AATAAATAAA
*
30297875 AA-GAATAAA
1 AATAAATAAA
*
30297884 CATAAATAAA
1 AATAAATAAA
*
30297894 CATAAA
1 AATAAA
30297900 AATTAGGTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
9 6 0.15
10 25 0.64
11 1 0.03
12 7 0.18
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (10 bp):
AATAAATAAA
Found at i:30297874 original size:19 final size:18
Alignment explanation
Indices: 30297841--30297899 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
30297831 AATTAAAGTG
30297841 ATAATAAATAATAAAATAA
1 ATAA-AAATAATAAAATAA
30297860 ATAAAAATAAGTAAAA-AGA
1 ATAAAAATAA-TAAAATA-A
*
30297879 ATAAACATAAATAAACATAA
1 ATAAAAAT-AATAAA-ATAA
30297899 A
1 A
30297900 AATTAGGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 7 0.21
19 21 0.62
20 5 0.15
21 1 0.03
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
ATAAAAATAATAAAATAA
Found at i:30304739 original size:27 final size:27
Alignment explanation
Indices: 30304709--30304766 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
30304699 TATTTGCTTC
*
30304709 AAAATCTAAGACAATGGAATCAGCAGG
1 AAAATCTAAGACAATGAAATCAGCAGG
*
30304736 AAAATCTAAGACAATGAAATTAGCAGG
1 AAAATCTAAGACAATGAAATCAGCAGG
30304763 AAAA
1 AAAA
30304767 ATGAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.53, C:0.12, G:0.19, T:0.16
Consensus pattern (27 bp):
AAAATCTAAGACAATGAAATCAGCAGG
Found at i:30306852 original size:22 final size:21
Alignment explanation
Indices: 30306825--30306869 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
30306815 AAATTTTTTA
* *
30306825 ATCAATTTAAAATTTCTATCAT
1 ATCAATCTAAAATATCTAT-AT
*
30306847 ATCAATCTAATATATCTATAT
1 ATCAATCTAAAATATCTATAT
30306868 AT
1 AT
30306870 ACATATAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
ATCAATCTAAAATATCTATAT
Found at i:30313205 original size:36 final size:36
Alignment explanation
Indices: 30313147--30313228 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
30313137 TTGTGAACCA
* * *
30313147 TGTTAACTTGGCGAATTATATTATTATGGCGAATTG
1 TGTTAATTTGGCGAATTATATTAATATGGCGAACTG
* * * *
30313183 TGTTAATTTGGTGATTTGTATTAATATGGTGAACTG
1 TGTTAATTTGGCGAATTATATTAATATGGCGAACTG
*
30313219 TATTAATTTG
1 TGTTAATTTG
30313229 TCAAATTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (36 bp):
TGTTAATTTGGCGAATTATATTAATATGGCGAACTG
Found at i:30313206 original size:18 final size:18
Alignment explanation
Indices: 30313149--30313228 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
30313139 GTGAACCATG
* * *
30313149 TTAACTTGGCGAATTATA
1 TTAATTTGGTGAATTGTA
* *
30313167 TT-ATTATGGCGAATTGTG
1 TTAATT-TGGTGAATTGTA
*
30313185 TTAATTTGGTGATTTGTA
1 TTAATTTGGTGAATTGTA
* *
30313203 TTAATATGGTGAACTGTA
1 TTAATTTGGTGAATTGTA
30313221 TTAATTTG
1 TTAATTTG
30313229 TCAAATTGTG
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
17 2 0.04
18 45 0.90
19 3 0.06
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (18 bp):
TTAATTTGGTGAATTGTA
Found at i:30313867 original size:17 final size:17
Alignment explanation
Indices: 30313847--30313912 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 17
30313837 TGATGTTGTA
*
30313847 TGAATGAATTATTATAT
1 TGAATGAACTATTATAT
*
30313864 TGAATGAACTGTTATAT
1 TGAATGAACTATTATAT
* *
30313881 TGTATGAACTACTATAT
1 TGAATGAACTATTATAT
*
30313898 TGAATGATCTATTAT
1 TGAATGAACTATTAT
30313913 TATGCATGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (17 bp):
TGAATGAACTATTATAT
Found at i:30313922 original size:34 final size:33
Alignment explanation
Indices: 30313845--30313924 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 33
30313835 TATGATGTTG
* * *
30313845 TATGAATGAATTATTATATTGAATGAACTGTTA
1 TATGAATGAACTACTATATTGAATGAACTATTA
* *
30313878 TATTGTATGAACTACTATATTGAATGATCTATTA
1 TA-TGAATGAACTACTATATTGAATGAACTATTA
*
30313912 TTATGCATGAACT
1 -TATGAATGAACT
30313925 GTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 2 0.05
34 35 0.90
35 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.42
Consensus pattern (33 bp):
TATGAATGAACTACTATATTGAATGAACTATTA
Found at i:30316221 original size:26 final size:26
Alignment explanation
Indices: 30316186--30316238 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
30316176 ACTTTCTTTT
*
30316186 TATATTTTTTTAGAATTTTTA-AAATA
1 TATATTTTTTGA-AATTTTTATAAATA
30316212 TATATTTTTTGAAATTTTTATAAATA
1 TATATTTTTTGAAATTTTTATAAATA
30316238 T
1 T
30316239 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATTTTTTGAAATTTTTATAAATA
Found at i:30319060 original size:17 final size:18
Alignment explanation
Indices: 30319030--30319075 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
30319020 ATTTAAATTG
30319030 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
30319048 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
30319064 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
30319076 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:30320889 original size:14 final size:14
Alignment explanation
Indices: 30320851--30320893 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
30320841 TAAAATGTAC
30320851 AATATAATTAAA-T
1 AATATAATTAAATT
30320864 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
30320879 AA-ATAATTTAATT
1 AATATAATTAAATT
30320892 AA
1 AA
30320894 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:30330290 original size:22 final size:22
Alignment explanation
Indices: 30330260--30330317 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
30330250 ATGCAATCTT
* *
30330260 AGATATGA-TATGTAATCTTAG
1 AGATTTGATTATGTAATATTAG
*
30330281 AAGATTTGATTTTGTAATATTAG
1 -AGATTTGATTATGTAATATTAG
*
30330304 AGATTTAATT-TGTA
1 AGATTTGATTATGTA
30330318 GATACCCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 4 0.13
22 16 0.52
23 11 0.35
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (22 bp):
AGATTTGATTATGTAATATTAG
Found at i:30330303 original size:23 final size:22
Alignment explanation
Indices: 30330270--30330314 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30330260 AGATATGATA
* *
30330270 TGTAATCTTAGAAGATTTGATTT
1 TGTAATATTAG-AGATTTAATTT
30330293 TGTAATATTAGAGATTTAATTT
1 TGTAATATTAGAGATTTAATTT
30330315 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TGTAATATTAGAGATTTAATTT
Found at i:30330503 original size:19 final size:21
Alignment explanation
Indices: 30330479--30330517 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30330469 TATTTTCTTT
*
30330479 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
30330498 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
30330518 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:30331140 original size:51 final size:52
Alignment explanation
Indices: 30331026--30331141 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 52
30331016 ATTTTCCACG
**
30331026 TTTT-TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
* * * * *
30331076 TTTTATATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTA
1 TTTTATATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATA
30331127 TTTTATATATATATA
1 TTTTATATATATATA
30331142 AGTTTTATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.07
51 28 0.51
52 23 0.42
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (52 bp):
TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
Found at i:30332256 original size:30 final size:31
Alignment explanation
Indices: 30332220--30332282 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
30332210 TAAAATTATA
*
30332220 AAAATATTAAATATTGATAGCGACC-AATTG
1 AAAATATTAAATATTGATAGCAACCAAATTG
30332250 AAAATATTAAATATTGATAGCAACCAAATTG
1 AAAATATTAAATATTGATAGCAACCAAATTG
30332281 AA
1 AA
30332283 TTGTGATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.29
Consensus pattern (31 bp):
AAAATATTAAATATTGATAGCAACCAAATTG
Found at i:30335968 original size:62 final size:61
Alignment explanation
Indices: 30335859--30335984 Score: 162
Period size: 62 Copynumber: 2.0 Consensus size: 61
30335849 GCATACAGGT
* * *
30335859 GTGGACCAGACCGTGTGGAGTCACACAGACCAATTCTCCAAGTCGTGTGAAACCACACGGGC
1 GTGGACCAAACCGTGTAGAGTCACACAGACCAATTCTCCAAGCCGTGTGAAACCACAC-GGC
* * * ** *
30335921 GTGGGCCAAACCGTGTAGAGTCATACAGCCCAATTCTTTAGGCCGTGTGAAACCACACGGC
1 GTGGACCAAACCGTGTAGAGTCACACAGACCAATTCTCCAAGCCGTGTGAAACCACACGGC
30335982 GTG
1 GTG
30335985 TGAAGCAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
61 6 0.11
62 49 0.89
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (61 bp):
GTGGACCAAACCGTGTAGAGTCACACAGACCAATTCTCCAAGCCGTGTGAAACCACACGGC
Found at i:30336382 original size:79 final size:79
Alignment explanation
Indices: 30336244--30336391 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
30336234 TGCTAGTATG
* * * ** * *
30336244 CCTCTACGTTATTCTGTTGATGGAAAATATGCAATATCTGAATATGTTGGATTGGTTGTTACTGG
1 CCTCTACGTTACTCTATTGATGGAAAATATACAATATCTGAATATGTTAAACTGGTTGTTACTGA
30336309 TTCTAATATACAGC
66 TTCTAATATACAGC
* * * *
30336323 CCTCTGCGTTACTCTATTGAT-GAAGAATATACGATATCTGCATATGTTAAACTGTTTGTTACTG
1 CCTCTACGTTACTCTATTGATGGAA-AATATACAATATCTGAATATGTTAAACTGGTTGTTACTG
30336387 ATTCT
65 ATTCT
30336392 GATTTATAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
78 3 0.05
79 54 0.95
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (79 bp):
CCTCTACGTTACTCTATTGATGGAAAATATACAATATCTGAATATGTTAAACTGGTTGTTACTGA
TTCTAATATACAGC
Found at i:30337843 original size:30 final size:29
Alignment explanation
Indices: 30337791--30337891 Score: 82
Period size: 31 Copynumber: 3.4 Consensus size: 29
30337781 CCTTATAACG
* *
30337791 TAATTAATGTAAAAGTGTTTTCTCAAAATA
1 TAATTAATATAAAA-TGATTTCTCAAAATA
*
30337821 TAATTAATATAAATATGATTTCTCTCATAAT-
1 TAATTAATATAAA-ATGA-TT-TCTCAAAATA
* *
30337852 TAATTATTATAAAAATGA-TTCTCAATATA
1 TAATTAATAT-AAAATGATTTCTCAAAATA
30337881 -AATGTAATATA
1 TAAT-TAATATA
30337892 TTAAAAGTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
28 11 0.19
29 6 0.10
30 14 0.24
31 16 0.28
32 11 0.19
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (29 bp):
TAATTAATATAAAATGATTTCTCAAAATA
Found at i:30337863 original size:31 final size:32
Alignment explanation
Indices: 30337791--30337871 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
30337781 CCTTATAACG
* *
30337791 TAATTAATGTAAAAGTG-TTT-TCTCAAAATA
1 TAATTAATATAAAAATGATTTCTCTCAAAATA
* *
30337821 TAATTAATATAAATATGATTTCTCTCATAAT-
1 TAATTAATATAAAAATGATTTCTCTCAAAATA
*
30337852 TAATTATTATAAAAATGATT
1 TAATTAATATAAAAATGATT
30337872 CTCAATATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
30 14 0.33
31 21 0.49
32 8 0.19
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
TAATTAATATAAAAATGATTTCTCTCAAAATA
Found at i:30338427 original size:33 final size:35
Alignment explanation
Indices: 30338384--30338451 Score: 106
Period size: 33 Copynumber: 2.0 Consensus size: 35
30338374 CCCTTTTCTC
30338384 AAAATGTAAAATTTATATATCAA-ATATTAT-TTTT
1 AAAATGTAAAATTTATATAT-AATATATTATATTTT
30338418 AAAAT-TAAAATTTATATATAATATATTATATTTT
1 AAAATGTAAAATTTATATATAATATATTATATTTT
30338452 CTCATTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 2 0.06
33 21 0.66
34 9 0.28
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
AAAATGTAAAATTTATATATAATATATTATATTTT
Found at i:30341608 original size:9 final size:10
Alignment explanation
Indices: 30341588--30341616 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
30341578 ATTACATGTT
30341588 TGAATAGAAA
1 TGAATAGAAA
30341598 TGAAT-GAAA
1 TGAATAGAAA
30341607 TGAATAGAAA
1 TGAATAGAAA
30341617 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:30343379 original size:91 final size:89
Alignment explanation
Indices: 30343219--30343421 Score: 237
Period size: 91 Copynumber: 2.3 Consensus size: 89
30343209 GTTTATCTGT
* * * * *
30343219 AAACATTAGTGGTTTATCCACGAACTTACTGGAAATTTTTATTTGCAAACTTGTTGTGTATCCAT
1 AAACACTAGTGGTTCATCCAC-AACTTACTGGAAATTTTTATCTGCAAACCTGTTGTGTATCCAC
* * *
30343284 AACTACTGGTAGCTTATTAACCTAC
65 AACTACTAGCAGCGTATTAACCTAC
* * ***
30343309 AAACACTAGTGGTTCATCCACAATTTTTACTGGCAATTTTTATCTGCAAACCTGTTGTGTATTTG
1 AAACACTAGTGGTTCATCCACAA--CTTACTGGAAATTTTTATCTGCAAACCTGTTGTGTATCCA
*
30343374 CAACTACTAGCAGCGTATTAACCTGC
64 CAACTACTAGCAGCGTATTAACCTAC
*
30343400 -AACACTGGTGGTTCATCCACAA
1 AAACACTAGTGGTTCATCCACAA
30343422 ACTAGAGTGT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
89 2 0.02
90 40 0.42
91 54 0.56
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (89 bp):
AAACACTAGTGGTTCATCCACAACTTACTGGAAATTTTTATCTGCAAACCTGTTGTGTATCCACA
ACTACTAGCAGCGTATTAACCTAC
Found at i:30348964 original size:29 final size:29
Alignment explanation
Indices: 30348931--30349025 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 29
30348921 TTACTTTTTC
30348931 TTTTATCAAATTAATATTTAAATATTACT
1 TTTTATCAAATTAATATTTAAATATTACT
* * *
30348960 TTTTATTTAGATATTGTAATTATTT-AACATTATTT
1 TTTTA-TCA-A-A-T-TAA-TATTTAAATATTA-CT
* *
30348995 TTTTATCAAATTAATATTTACATACTACT
1 TTTTATCAAATTAATATTTAAATATTACT
30349024 TT
1 TT
30349026 GTATTAGTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
29 13 0.26
30 9 0.18
31 2 0.04
32 2 0.04
33 2 0.04
34 11 0.22
35 11 0.22
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTTATCAAATTAATATTTAAATATTACT
Found at i:30349117 original size:21 final size:22
Alignment explanation
Indices: 30349093--30349140 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
30349083 TTTGTATTAG
30349093 TTTATCAAA-TTAAAATAAAAA
1 TTTATCAAATTTAAAATAAAAA
*
30349114 TTTATCAAATTTAATATAAAAA
1 TTTATCAAATTTAAAATAAAAA
30349136 TTTAT
1 TTTAT
30349141 AAACTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTATCAAATTTAAAATAAAAA
Done.