Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 129 of 187
Found at i:38438820 original size:261 final size:262
Alignment explanation
Indices: 38438419--38439042 Score: 847
Period size: 261 Copynumber: 2.4 Consensus size: 262
38438409 GGAGCAGGTT
* ** *
38438419 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATTGAAGGTACCAGTCTTGCCTCCTTGGGTTGTA
1 ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTG-C-CCTTGGGTTGTA
* * * *
38438484 GTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGATAC
64 GTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGAAAGCGAAGCAGATCGAAGATAC
* ** *
38438549 CAGCCTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCG
129 CAGCCTTGCCTCCCTGGATCATAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCG
*
38438614 ACAGTGAAGCAGATCGAAGATTCCAGCCTTGCCTCCCTGGGTTGTAGT-AGAGCAGGTTGAAGAT
194 ACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGA-AGCAGGTTGAAGAT
38438678 AGCAG
258 AGCAG
* * *
38438683 ATCTTGCCTTCCTGCATCGACAATGAAGCAGATCAAAGATACCAGCCTTGCCC-TGGGTTGTAGT
1 ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTGCCCTTGGGTTGTAGT
* * * *
38438747 GGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACTGAAAGTGAAGTAGATCGAAGATACCA
66 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGAAAGCGAAGCAGATCGAAGATACCA
* * *
38438812 GCCTTGCCTCCCTGGATCATAGTTGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGAC
131 GCCTTGCCTCCCTGGATCATAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGAC
* * * *
38438877 AGTGAAGCAGATCGAAGATACCATCCTTGCCTCCCTGGGTTGTAGTGAAGTAGGTTGAAGGTAGT
196 AGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGCAGGTTGAAGATAGC
38438942 AG
261 AG
* * * * *
38438944 ATCTTGCCTTCCTGTACCAACAGTGAAACAGATCAAAGATACCAGTCTTGCCTCCTTGGGTTATC
1 ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTG-C-CCTTGGGTTGTA
* * * ** *
38439009 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
64 GTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
38439043 ATGTATTGGC
Statistics
Matches: 314, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
261 230 0.73
262 4 0.01
263 3 0.01
264 77 0.25
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (262 bp):
ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTGCCCTTGGGTTGTAGT
GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGAAAGCGAAGCAGATCGAAGATACCA
GCCTTGCCTCCCTGGATCATAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGAC
AGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGCAGGTTGAAGATAGC
AG
Found at i:38439037 original size:44 final size:44
Alignment explanation
Indices: 38439008--38439394 Score: 436
Period size: 44 Copynumber: 8.8 Consensus size: 44
38438998 CTTGGGTTAT
38439008 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * *** *
38439052 CGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
38439096 TGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
38439141 AGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
*
38439185 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * * *
38439229 CGTGAAGTAGATCGAAGAGAGCAGATCCTGTCTTCCTATACTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
38439273 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * **
38439318 C--GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACCGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * *
38439360 CATGAAATAGACCAAAGGTAGCAGATCTTGTCTTC
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
38439395 CCATACTGGT
Statistics
Matches: 289, Mismatches: 50, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
42 38 0.13
44 180 0.62
45 71 0.25
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:38439081 original size:88 final size:88
Alignment explanation
Indices: 38439007--38439424 Score: 400
Period size: 89 Copynumber: 4.7 Consensus size: 88
38438997 CCTTGGGTTA
* *
38439007 TCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
*
38439072 GCAGATCTTGTCTTCCCAT-ACTGG
66 GCAGATCTTG-CTT-CCATGACTTG
* * * * * *
38439096 TGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGAGTGAAGTAGATCAAAGATA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
* *
38439161 GCAGATCTTGTTTTCATGTA-TTG
66 GCAGATCTTGCTTCCATG-ACTTG
* * * *
38439184 GCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAGA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
* *
38439249 GCAGATCCTGTCTTCCTAT-ACTGG
66 GCAGATCTTG-CTTCC-ATGACTTG
* * * * *
38439273 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGAAA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
* *
38439336 GCAGATCTTATCTT-CATGTAC-CG
66 GCAGATCTT-GCTTCCATG-ACTTG
* * * * * * *** * *
38439359 GCATGAAATAGACCAAAGGTAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
38439424 A
65 A
38439425 CAAGTCTTAT
Statistics
Matches: 266, Mismatches: 52, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
85 2 0.01
86 33 0.12
87 32 0.12
88 69 0.26
89 128 0.48
90 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (88 bp):
TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
GCAGATCTTGCTTCCATGACTTG
Found at i:38439163 original size:133 final size:133
Alignment explanation
Indices: 38439009--38439424 Score: 451
Period size: 133 Copynumber: 3.1 Consensus size: 133
38438999 TTGGGTTATC
*
38439009 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGC
1 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
* * * * * * *
38439074 AGATCTTGTCTTCCCATACTGGTGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
66 AGATCTTGTCTTCACATACTAG-CGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACT
38439139 GG-A
130 GGTA
* *
38439142 GTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
1 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
** * * * *
38439207 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAGAGCAGATCCTGTCTTCCTATACTG
66 AGATCTTGTCTTCACATACTAGCGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACTG
*
38439272 GTG
131 GTA
* * * * *
38439275 GCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGAAAGC
1 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
* ** ** ** * * * ** * **
38439338 AGATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGGTAGCAGATCTTGTCTTCCCATACTG
66 AGATCTTGTCTTCACATACTAGCGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACTG
*
38439403 GTG
131 GTA
*
38439406 GTGAAGTAGATCGAAGATA
1 GTGAAGTAGATCAAAGATA
38439425 CAAGTCTTAT
Statistics
Matches: 244, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
131 90 0.37
132 36 0.15
133 118 0.48
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (133 bp):
GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
AGATCTTGTCTTCACATACTAGCGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACTG
GTA
Found at i:38439204 original size:177 final size:175
Alignment explanation
Indices: 38439008--38439394 Score: 594
Period size: 177 Copynumber: 2.2 Consensus size: 175
38438998 CTTGGGTTAT
* *
38439008 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGAGAG
* *
38439073 CAGATCTTGTCTTCCCATACTGGTGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
66 CAGATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
* * * * **
38439138 TGGAGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGG
131 T-G-GCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTACCGG
*
38439185 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAGAG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGAGAG
* *
38439250 CAGATCCTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAT
66 CAGATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
*
38439315 TGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACCGG
131 TGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTACCGG
* * * *
38439360 CATGAAATAGACCAAAGGTAGCAGATCTTGTCTTC
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
38439395 CCATACTGGT
Statistics
Matches: 192, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 67 0.35
176 1 0.01
177 124 0.65
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (175 bp):
CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGAGAG
CAGATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
TGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTACCGG
Found at i:38439803 original size:19 final size:19
Alignment explanation
Indices: 38439729--38439800 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
38439719 AATCTTCAAG
38439729 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38439748 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
38439767 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
38439788 GATATGCAATCTT
1 GATATGCAATCTT
38439801 GGAATATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38442510 original size:9 final size:9
Alignment explanation
Indices: 38442496--38442520 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38442486 TTAATTTCAG
38442496 TTTCTTTCT
1 TTTCTTTCT
38442505 TTTCTTTCT
1 TTTCTTTCT
38442514 TTTCTTT
1 TTTCTTT
38442521 TAATAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:38450835 original size:19 final size:19
Alignment explanation
Indices: 38450811--38450850 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
38450801 TTAATTGATA
38450811 ATGTAATTATTTTATATAT
1 ATGTAATTATTTTATATAT
* *
38450830 ATGTAATTTTTTTATCTAT
1 ATGTAATTATTTTATATAT
38450849 AT
1 AT
38450851 ATGCATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATGTAATTATTTTATATAT
Found at i:38450909 original size:28 final size:29
Alignment explanation
Indices: 38450858--38450921 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
38450848 TATATGCATA
*
38450858 TATATTTCTATTTTTTTAATGAATATTTT
1 TATATTTCTATTTTTTAAATGAATATTTT
* *
38450887 TCTATTTTTA-TTTTTAAATGAATATTTT
1 TATATTTCTATTTTTTAAATGAATATTTT
38450915 TATATTT
1 TATATTT
38450922 ATACGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (29 bp):
TATATTTCTATTTTTTAAATGAATATTTT
Found at i:38450931 original size:20 final size:20
Alignment explanation
Indices: 38450889--38450937 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
38450879 AATATTTTTC
* *
38450889 TATTTTTATTTTTAAATGAA
1 TATTTTTATATTTAAACGAA
* *
38450909 TATTTTTATATTTATACGTA
1 TATTTTTATATTTAAACGAA
*
38450929 TATATTTAT
1 TATTTTTAT
38450938 GTTTTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
TATTTTTATATTTAAACGAA
Found at i:38451319 original size:15 final size:15
Alignment explanation
Indices: 38451299--38451333 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
38451289 TTTCTATGAG
38451299 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
38451314 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
38451329 ATTGT
1 ATTGT
38451334 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:38462351 original size:25 final size:26
Alignment explanation
Indices: 38462304--38462352 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
38462294 TAGAATTTTT
38462304 TTGTTCTTGTAATATTTTATTCTTCA
1 TTGTTCTTGTAATATTTTATTCTTCA
38462330 TTGTTCTTG-AATATCTTT-TTCTT
1 TTGTTCTTGTAATAT-TTTATTCTT
38462353 TTCAAGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.63
Consensus pattern (26 bp):
TTGTTCTTGTAATATTTTATTCTTCA
Found at i:38463177 original size:44 final size:44
Alignment explanation
Indices: 38463015--38464206 Score: 972
Period size: 44 Copynumber: 27.0 Consensus size: 44
38463005 TGCTAAAAAA
* * * *
38463015 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
* * * * *
38463059 ATAGCAGATCCTGTCTTCCTATATT--AGCGAAGTGGATCGACG
1 AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
* * * * *
38463101 -ATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * *
38463145 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
** *
38463189 ATAA-CAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAG
1 A-AAGCAGATCTTGTCTTCCTATATT-GGCGCGAAGTAGATCGAAG
* * *
38463234 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * *
38463278 ATAA-CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 A-AAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * ** *
38463323 ATA-CAGATCTTATCTTCCCGTATTGGCGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
** *
38463366 ATAA-CAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAG
1 A-AAGCAGATCTTGTCTTCCTATATT-GGCGCGAAGTAGATCGAAG
* * *
38463411 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * *
38463455 ATAA-CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 A-AAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * ** *
38463500 ATA-CAGATCTTATCTTCCCGTATTGGCGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
* *
38463543 ATAA-CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 A-AAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * **
38463588 -ATGCAGATCTTGTCTT-CAAGTATTGGCATGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTA-TATTGGCGCGAAGTAGATCGAAG
* * * *
38463631 ATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * * *
38463676 -ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * ** *
38463720 ATAGCAGATCTTGTCTT-CAAGTATTGGCATGAAGGAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTA-TATTGGCGCGAAGTAGATCGAAG
* * * *
38463764 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * * ** *
38463809 -ATGCAGATCTTGGCTT-CAAGTATTGGCATGAAGGAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTA-TATTGGCGCGAAGTAGATCGAAG
* * * *
38463852 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * * ** *
38463897 -ATGCAGATCTTGGCTT-CAAGTATTGGCATGAAGGAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTA-TATTGGCGCGAAGTAGATCGAAG
* * * *
38463940 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * ** *
38463985 ATA-CAGATCTTATCTTCCCGTATTGGCGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
* * * * *
38464028 ATAGCAGATCCTGTCTTCCAATATTGGTAGCGAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * * *
38464072 AATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAG
* * * * * *
38464117 AAAGCAGATCTTATCTACATGTATTAGCGTGAAGTAGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
* * * * *
38464160 AATAGCAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAAG
1 AA-AGCAGATCTTGTCTTCCTATATTGGC-GCGAAGTAGATCGAAG
38464206 A
1 A
38464207 CATTAGTCTT
Statistics
Matches: 914, Mismatches: 193, Indels: 80
0.77 0.16 0.07
Matches are distributed among these distances:
41 19 0.02
42 13 0.01
43 97 0.11
44 513 0.56
45 269 0.29
46 3 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
AAAGCAGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAG
Found at i:38463258 original size:88 final size:89
Alignment explanation
Indices: 38463017--38464180 Score: 1190
Period size: 88 Copynumber: 13.2 Consensus size: 89
38463007 CTAAAAAAAA
* * * * * * *
38463017 AGCAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCTAT
* * *
38463081 A-T--TAGCGAAGTGGATCGACGAT
65 ATTGGTCGCGAAGTAGATCGAAGAT
* * * * * * * *
38463103 -GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCTAT
*
38463167 ATTGG-CGTGAAGTAGATCGAAGAT
65 ATTGGTCGCGAAGTAGATCGAAGAT
* * *
38463191 AACAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATA
*
38463256 TTGGTGGCGAAGTAGATCGAAGAT
66 TTGGTCGCGAAGTAGATCGAAGAT
* * * * **
38463280 AACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTATCTTCCCGTA
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATA
*
38463345 TTGG-CGTGAAGTAGATCGAAGAT
66 TTGGTCGCGAAGTAGATCGAAGAT
* * *
38463368 AACAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATA
*
38463433 TTGGTGGCGAAGTAGATCGAAGAT
66 TTGGTCGCGAAGTAGATCGAAGAT
* * * * **
38463457 AACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTATCTTCCCGTA
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATA
*
38463522 TTGG-CGTGAAGTAGATCGAAGAT
66 TTGGTCGCGAAGTAGATCGAAGAT
* *
38463545 AACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT-CAAGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTA-T
**
38463609 ATTGG-CATGAAGTAGATCGAAGAT
65 ATTGGTCGCGAAGTAGATCGAAGAT
* *
38463633 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATA
* *
38463698 CTGGTGGCGAAGTAGATCGAAGAT
66 TTGGTCGCGAAGTAGATCGAAGAT
* * * *
38463722 AGCAGATCTTGTCTT-CAAGTATTGGCA-TGAAG-GAGATCGAAGATAGCAGATCCTGTCTTCCT
1 AGCAGATCTTGTCTTCCTA-TATTGGTAGCGAAGTG-GATCGAAGAT-GCAGATCTTGTCTTCCT
* *
38463784 ATATTGGTAGCGAAGTGGATCGAAGAT
63 ATATTGGTCGCGAAGTAGATCGAAGAT
* * * * *
38463811 -GCAGATCTTGGCTT-CAAGTATTGGCA-TGAAG-GAGATCGAAGATAGCAGATCCTGTCTTCCT
1 AGCAGATCTTGTCTTCCTA-TATTGGTAGCGAAGTG-GATCGAAGAT-GCAGATCTTGTCTTCCT
* *
38463872 ATATTGGTAGCGAAGTGGATCGAAGAT
63 ATATTGGTCGCGAAGTAGATCGAAGAT
* * * * *
38463899 -GCAGATCTTGGCTT-CAAGTATTGGCA-TGAAG-GAGATCGAAGATAGCAGATCCTGTCTTCCT
1 AGCAGATCTTGTCTTCCTA-TATTGGTAGCGAAGTG-GATCGAAGAT-GCAGATCTTGTCTTCCT
* *
38463960 ATATTGGTAGCGAAGTGGATCGAAGAT
63 ATATTGGTCGCGAAGTAGATCGAAGAT
* ** * * * * *
38463987 A-CAGATCTTATCTTCCCGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCAAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCTAT
* * *
38464050 ATTGGTAGCGAAGTGGATCGAAAAT
65 ATTGGTCGCGAAGTAGATCGAAGAT
* * * * * * * * *
38464075 -GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTACATGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCTAT
* * *
38464139 ATTAG-CGTGAAGTAGATCGAAAAT
65 ATTGGTCGCGAAGTAGATCGAAGAT
*
38464163 AGCAGATCTTGCCTTCCT
1 AGCAGATCTTGTCTTCCT
38464181 GTACTGGCAG
Statistics
Matches: 961, Mismatches: 95, Indels: 41
0.88 0.09 0.04
Matches are distributed among these distances:
85 19 0.02
86 33 0.03
87 4 0.00
88 580 0.60
89 324 0.34
90 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (89 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATA
TTGGTCGCGAAGTAGATCGAAGAT
Found at i:38463349 original size:177 final size:178
Alignment explanation
Indices: 38463019--38464206 Score: 1247
Period size: 177 Copynumber: 6.7 Consensus size: 178
38463009 AAAAAAAAAG
* * * * * * *
38463019 CAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA-
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCTATAT
* * * * * * *
38463082 T--TAGCGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAG
65 TGGTAGCGAAGTAGATCGAAGATACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG
* *** *
38463145 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
130 ATAGCAGATCTTGTCTTCCCATATTGGTCGCGAAGTAGATCGAAGATAA
* *
38463193 CAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATT
* * *
38463258 GGTGGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
66 GGTAGCGAAGTAGATCGAAGAT-ACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG
* * *
38463323 ATA-CAGATCTTATCTTCCCGTATTGG-CGTGAAGTAGATCGAAGATAA
130 ATAGCAGATCTTGTCTTCCCATATTGGTCGCGAAGTAGATCGAAGATAA
* *
38463370 CAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATT
* * *
38463435 GGTGGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
66 GGTAGCGAAGTAGATCGAAGAT-ACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG
* * *
38463500 ATA-CAGATCTTATCTTCCCGTATTGG-CGTGAAGTAGATCGAAGATAA
130 ATAGCAGATCTTGTCTTCCCATATTGGTCGCGAAGTAGATCGAAGATAA
*
38463547 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT-CAAGTAT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTA-TAT
* *
38463611 TGGCA-TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAA
65 TGGTAGCGAAGTAGATCGAAGATA-CAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAA
* * *
38463675 GAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAG
129 GATAGCAGATCTTGTCTTCCCATATTGGTCGCGAAGTAGATCGAAGATAA
* * * *
38463724 CAGATCTTGTCTT-CAAGTATTGGCA-TGAAG-GAGATCGAAGATAGCAGATCCTGTCTTCCTAT
1 CAGATCTTGTCTTCCTA-TATTGGTAGCGAAGTG-GATCGAAGAT-GCAGATCTTGTCTTCCTAT
* * * * *
38463786 ATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGGCTT-CAAGTATTGGCA-TGAAG-GAGATC
63 ATTGGTAGCGAAGTAGATCGAAGATACAGATCTTGTCTTCCTA-TATTGGTAGTGAAGTG-GATC
* * * * *
38463848 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-G
126 GAAGATAGCAGATCTTGTCTTCCCATATTGGTCGCGAAGTAGATCGAAGATAA
* * * * *
38463900 CAGATCTTGGCTT-CAAGTATTGGCA-TGAAG-GAGATCGAAGATAGCAGATCCTGTCTTCCTAT
1 CAGATCTTGTCTTCCTA-TATTGGTAGCGAAGTG-GATCGAAGAT-GCAGATCTTGTCTTCCTAT
* * ** * *
38463962 ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTATCTTCCCGTATTGG-CGTGAAGTAGATCGA
63 ATTGGTAGCGAAGTAGATCGAAGATACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGA
* * * * * *
38464026 AGATAGCAGATCCTGTCTTCCAATATTGGTAGCGAAGTGGATCGAAAAT-G
128 AGATAGCAGATCTTGTCTTCCCATATTGGTCGCGAAGTAGATCGAAGATAA
* * * * * * * * *
38464076 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTACATGTAT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCTATAT
* * * * * * * * **
38464141 TAG-CGTGAAGTAGATCGAAAATAGCAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAA
65 TGGTAGCGAAGTAGATCGAAGATA-CAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAA
38464205 GA
129 GA
38464207 CATTAGTCTT
Statistics
Matches: 901, Mismatches: 87, Indels: 48
0.87 0.08 0.05
Matches are distributed among these distances:
174 37 0.04
175 20 0.02
176 308 0.34
177 465 0.52
178 71 0.08
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (178 bp):
CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATT
GGTAGCGAAGTAGATCGAAGATACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGA
TAGCAGATCTTGTCTTCCCATATTGGTCGCGAAGTAGATCGAAGATAA
Found at i:38466328 original size:28 final size:30
Alignment explanation
Indices: 38466264--38466322 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
38466254 TATATGCATA
38466264 TATATTTCTATTTTTTAATAAATATTTTTC
1 TATATTTCTATTTTTTAATAAATATTTTTC
* *
38466294 TATATTTGT-TTTTTTAAATGAATATTTTT
1 TATATTTCTATTTTTT-AATAAATATTTTT
38466323 ATATTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (30 bp):
TATATTTCTATTTTTTAATAAATATTTTTC
Found at i:38466694 original size:27 final size:27
Alignment explanation
Indices: 38466646--38466698 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
38466636 CATGTGATCG
* * *
38466646 TTTATTTTTTTTATGTATATTAGTTTCA
1 TTTATTTTATTTATATACATTA-TTTCA
38466674 TTTA-TTTATTTATATACATTATTTC
1 TTTATTTTATTTATATACATTATTTC
38466699 TATGACATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 14 0.64
28 4 0.18
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTATATACATTATTTCA
Found at i:38468336 original size:58 final size:54
Alignment explanation
Indices: 38468242--38468352 Score: 132
Period size: 58 Copynumber: 2.0 Consensus size: 54
38468232 ATAAAATATA
* * *
38468242 AAAAATATATATAAGTATGTATATATTCGTGAAAATAGAAAGATGCATATAGAC
1 AAAAATATATATAAGTATGTATATATTCATGAAAATAAAAAAATGCATATAGAC
* * *
38468296 AAAAATATATGAGTACGTATGTATATATATATATGAAAATAAAAAAATGTATATAGA
1 AAAAATATAT-A-TAAGTATGTATATAT-T-CATGAAAATAAAAAAATGCATATAGA
38468353 TTATAGAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 10 0.21
55 1 0.02
56 14 0.30
57 1 0.02
58 21 0.45
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.31
Consensus pattern (54 bp):
AAAAATATATATAAGTATGTATATATTCATGAAAATAAAAAAATGCATATAGAC
Found at i:38469801 original size:40 final size:40
Alignment explanation
Indices: 38469749--38470360 Score: 400
Period size: 40 Copynumber: 14.7 Consensus size: 40
38469739 TATCTTTAAC
38469749 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAG-GCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTG-GTGCGAT
38469789 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAG-GCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTG-GTGCGAT
* *
38469829 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGTGGTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTGC-GAT
*
38469871 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTGC-GAT
*
38469913 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
***
38469953 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATGGTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGG-TGCGAT
* * ** * * *
38469996 CCGCTCCACTGCAACTTTAGGGATATAGGA-TTGGTTTTTTTCG-T
1 CTGCTCCACTACTGC-TTAGGGAGATAAGACTTGG-----TGCGAT
* *
38470040 CTGCTCCACTACTGCTTACGGAGATAAGACTTGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
** ***
38470080 CTGCTCCACTTTTGCTTAGGGAGATAAGATCTGTGGTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGG-TGCGAT
* * * * * ** **
38470123 CCGCTCAACT-GTAACTTCAGGGAGATAGGATGATTTTTTTTTG-T
1 CTGCTCCACTACT-GCTT-AGGGAGATA--A-GA-CTTGGTGCGAT
* *
38470167 CTGCTCCACTACTACTTAGGGAGATAAGAC-TGGATGTGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGG-TGCGAT
* * ***
38470207 CTGCTTCACTACTACTTAGGGAGATAAGATCTTGGTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGG-TGCGAT
* * ** * ****
38470249 -TCACTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTTTT
1 CT-GCTCCACTACTGC-TTAGGGAGATAAGACTTGGTGCGAT
* **
38470289 TTGTCTGCTCACTACTGCTTAGGGAGATAAGACTTCATGCGAT
1 CTG-CT-C-CACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
38470332 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
38470361 TCTGTGGTTT
Statistics
Matches: 466, Mismatches: 71, Indels: 70
0.77 0.12 0.12
Matches are distributed among these distances:
38 1 0.00
39 7 0.02
40 187 0.40
41 23 0.05
42 112 0.24
43 74 0.16
44 49 0.11
45 7 0.02
46 2 0.00
47 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (40 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
Found at i:38469897 original size:82 final size:82
Alignment explanation
Indices: 38469749--38470369 Score: 418
Period size: 82 Copynumber: 7.5 Consensus size: 82
38469739 TATCTTTAAC
*
38469749 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-TCTGCTCCACTACTGCTTAGGG
*
38469810 AGATAAGA-CTTGAGGCGAT
64 AGATAAGATCTTG-GTCGAT
*
38469829 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAG
38469894 ATAAGATCTGTGGTTCTG-T
66 ATAAGATCT-TGG-TC-GAT
* *
38469913 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGC-GATCTGCTCCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGA
**
38469975 GATAAGATCTATGGTTTTAAT
65 GATAAGATCT-TGG--TCGAT
* * ** * * ** * *
38469996 CCGCTCCACTGCAACTTTAGGGATATAGGAT-TGGTTTTTTTCGTCTGCTCCACTACTGCTTACG
1 CTGCTCCACTACTGC-TTAGGGAGATAAGATCT-GTGGTTCT-GTCTGCTCCACTACTGCTTAGG
*
38470060 GAGATAAGA-CTTGATGCGAT
63 GAGATAAGATCTTGGT-CGAT
** * * * * * *
38470080 CTGCTCCACTTTTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCAACT-GTAACTTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCT-GTCTGCTCCACTACT-GCTT-AGG
* ** *
38470144 GAGATAGGATGATTTTTTTTTG-T
63 GAGATA--A-GA-TCTTGGTCGAT
* * * * *
38470167 CTGCTCCACTACTACTTAGGGAGATAAGA-C--TGGATGTGATCTGCTTCACTACTACTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGA
**
38470229 GATAAGATCTTGGTTTTAAT
65 GATAAGATCTTGG--TCGAT
* * ** * ** *
38470249 -TCACTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTTTTTTGTCTGCT-CACTACTGCTTAG
1 CT-GCTCCACTACTGC-TTAGGGAGATAAGATCT-G-TGGTTCTGTCTGCTCCACTACTGCTTAG
**
38470311 GGAGATAAGA-CTTCATGCGAT
62 GGAGATAAGATCTTGGT-CGAT
38470332 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
38470370 TTAATCCGCT
Statistics
Matches: 423, Mismatches: 77, Indels: 81
0.73 0.13 0.14
Matches are distributed among these distances:
79 3 0.01
80 30 0.07
81 11 0.03
82 101 0.24
83 86 0.20
84 87 0.21
85 26 0.06
86 12 0.03
87 62 0.15
88 2 0.00
89 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (82 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTTGGTCGAT
Found at i:38470079 original size:127 final size:127
Alignment explanation
Indices: 38469788--38470388 Score: 847
Period size: 127 Copynumber: 4.8 Consensus size: 127
38469778 CTTGAGGCGA
* *
38469788 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAAGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * * ** * ** *
38469853 TAAGATCTGTGGTTCT-GTCTGCTCCACTACTGC-TTAGGGAGATAAGATCT-G-TGGTTCTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTTTTTTG
38469912 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
38469977 TAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTTAGGGATATAGGATTGGTTTTTTTCG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
* **
38470039 TCTGCTCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTGCTCCACTTTTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * *
38470104 TAAGATCTGTGGTTTTAATCCGCTCAACTGTAACTTCAGGGAGATAGGA-TGATTTTTTTTTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTG-GTTTTTTTTG
* * * * *
38470166 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGATCTGCTTCACTACTACTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* *
38470231 TAAGATCT-TGGTTTTAATTCACTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
*
38470292 TCTGCT-CACTACTGCTTAGGGAGATAAGACTTCATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
**
38470356 TAAGATCTGTGGTTTTAATCCGCTTAACTGCAA
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAA
38470389 TGTCGGGGAA
Statistics
Matches: 421, Mismatches: 49, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
124 77 0.18
125 73 0.17
126 86 0.20
127 185 0.44
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (127 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
Found at i:38470192 original size:43 final size:43
Alignment explanation
Indices: 38470136--38470317 Score: 112
Period size: 43 Copynumber: 4.3 Consensus size: 43
38470126 CTCAACTGTA
38470136 ACTTCAGGGAGATAGGATGATTTTTTTTTGTCTGCTCCACTACT
1 ACTT-AGGGAGATAGGATGATTTTTTTTTGTCTGCTCCACTACT
* *** * *
38470180 ACTTAGGGAGATA--A-GA-CTGGATGTGATCTGCTTCACTACT
1 ACTTAGGGAGATAGGATGATTTTTTTTTG-TCTGCTCCACTACT
* * ** * * *
38470220 ACTTAGGGAGATAAGAT-CTTGGTTTTAAT-TC-ACTCCACTGCA
1 ACTTAGGGAGATAGGATGATT--TTTTTTTGTCTGCTCCACTACT
*
38470262 ACTTTAGGGAGATAGGATTG-GTTTTTTTTGTCTGCT-CACTACT
1 AC-TTAGGGAGATAGGA-TGATTTTTTTTTGTCTGCTCCACTACT
*
38470305 GCTTAGGGAGATA
1 ACTTAGGGAGATA
38470318 AGACTTCATG
Statistics
Matches: 101, Mismatches: 25, Indels: 26
0.66 0.16 0.17
Matches are distributed among these distances:
39 4 0.04
40 28 0.28
41 1 0.01
42 26 0.26
43 32 0.32
44 8 0.08
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
ACTTAGGGAGATAGGATGATTTTTTTTTGTCTGCTCCACTACT
Found at i:38470496 original size:50 final size:50
Alignment explanation
Indices: 38470442--38470924 Score: 267
Period size: 50 Copynumber: 9.7 Consensus size: 50
38470432 ACTGTATCGC
* * * *
38470442 CAGGGAAATAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* ** * * *
38470492 CAGGG-AACAAGATTCGCCGTTGTAGCTTCAAT-TTGACCCACTGC-ATCGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTT-TTCAATTGCAAT-GT
** * *
38470541 CAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * * * * ** * * *
38470591 CGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTACTCCATTGCATTGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
** * * * *
38470641 CAGGGAAGTAAGATTCACCGTTGCGGCTTTAATCTTTTTAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * * * * *
38470691 C-GGGGAACAAGATTCGCCGTTGTAGCTTCAAT-TTGATCCACTGCATTGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTT-TTCAATTGCAATGT
* * ** ** * * * *
38470740 CTGAGAAGTAAGATTCATCGTTGCGGCCTCAATCTTTTAAATTGCAATAT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * * * * *** * * *
38470790 CAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGC-ATCGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAAT-GT
* * * * *
38470840 CATGGAAATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * *
38470890 CGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCT
38470925 GTTCCACTGC
Statistics
Matches: 308, Mismatches: 115, Indels: 20
0.70 0.26 0.05
Matches are distributed among these distances:
48 6 0.02
49 69 0.22
50 225 0.73
51 8 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
Found at i:38470656 original size:100 final size:100
Alignment explanation
Indices: 38470384--38470939 Score: 724
Period size: 100 Copynumber: 5.6 Consensus size: 100
38470374 TCCGCTTAAC
** * * *
38470384 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTTAATCTGCTCCACTGTATCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
* * * *
38470449 ATAAGATTCGCCGTTGCGGCTTCAATATTTTTAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* *
38470484 TGCAATGTCAGGGAA-CAAGATTCGCCGTTGTAGCTTCAATTTGAC-CCACTGCATCGCCAGGGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-ACTCCACTGCATCGCCAGGGA
*
38470547 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
65 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
38470583 TGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTACTCCATTGCATTGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
* *
38470648 GTAAGATTCACCGTTGCGGCTTTAATCTTTTTAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * *
38470683 TGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATTTGA-TCCACTGCATTGCCTGAGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-ACTCCACTGCATCGCCAGGGA
* *
38470746 AGTAAGATTCATCGTTGCGGCCTCAATCTTTTAAAT
65 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * * *
38470782 TGCAATATCAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
*
38470847 ATAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* **
38470882 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCGC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGC
38470940 TAGTTTGATA
Statistics
Matches: 394, Mismatches: 56, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
99 173 0.44
100 221 0.56
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
Found at i:38470724 original size:199 final size:199
Alignment explanation
Indices: 38470384--38470939 Score: 851
Period size: 199 Copynumber: 2.8 Consensus size: 199
38470374 TCCGCTTAAC
* * * *
38470384 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTTAATCTGCTCCACTGTATCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* * *
38470449 ATAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGGGAACAAGATTCGCCGTTG
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
* * * *
38470514 TAGCTTCAATTTGACCCACTGCATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTT
131 TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCGTTGCGGCCTCAATCTTTT
38470579 AAAT
196 AAAT
* * * *
38470583 TGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTACTCCATTGCATTGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* *
38470648 GTAAGATTCACCGTTGCGGCTTTAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
* * *
38470713 TAGCTTCAATTTGATCCACTGCATTGCCTGAGAAGTAAGATTCATCGTTGCGGCCTCAATCTTTT
131 TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCGTTGCGGCCTCAATCTTTT
38470778 AAAT
196 AAAT
* * * *
38470782 TGCAATATCAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* *
38470847 ATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTT
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCGTT
* *
38470912 GTAGCTTCAATCTGTTCCACTGCATCGC
130 GTAGCTTCAATTTGATCCACTGCATCGC
38470940 TAGTTTGATA
Statistics
Matches: 321, Mismatches: 35, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
199 283 0.88
200 38 0.12
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (199 bp):
TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCGTTGCGGCCTCAATCTTTT
AAAT
Found at i:38471082 original size:44 final size:44
Alignment explanation
Indices: 38470982--38471253 Score: 280
Period size: 44 Copynumber: 6.2 Consensus size: 44
38470972 AGAGAGATAG
* * * * *
38470982 GATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGACAA
* * *
38471027 GATCTGC-ATCTTTGATCCACTTCCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
* * * *
38471070 GACCTGCTATCTTCGATCTACTTCCTGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
* * * *
38471114 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGACAA
* * * *
38471159 GATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
* * * *
38471202 GACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGACAA
38471246 GATCTGCT
1 GATCTGCT
38471254 TTAATGACTT
Statistics
Matches: 183, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
43 42 0.23
44 114 0.62
45 27 0.15
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
Found at i:38471219 original size:132 final size:132
Alignment explanation
Indices: 38470982--38471255 Score: 496
Period size: 132 Copynumber: 2.1 Consensus size: 132
38470972 AGAGAGATAG
* *
38470982 GATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
38471047 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTC-CTGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGA
38471111 CAA
130 CAA
*
38471114 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
38471179 TTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
38471244 AA
131 AA
38471246 GATCTGCTTT
1 GATCTGCTTT
38471256 AATGACTTCA
Statistics
Matches: 137, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
132 136 0.99
133 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:38471633 original size:24 final size:25
Alignment explanation
Indices: 38471581--38471634 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
38471571 ATTGCCCCTA
38471581 CTGTAATCTTCAAAGTTCAATCCGT
1 CTGTAATCTTCAAAGTTCAATCCGT
*
38471606 -TGTAATCTTCAAGGTT-AAGTCC-T
1 CTGTAATCTTCAAAGTTCAA-TCCGT
38471629 CTGTAA
1 CTGTAA
38471635 ATTTGGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (25 bp):
CTGTAATCTTCAAAGTTCAATCCGT
Found at i:38472995 original size:17 final size:16
Alignment explanation
Indices: 38472957--38473003 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
38472947 CCAGTAAAGG
38472957 TTTTTTGTTTTTTTTC
1 TTTTTTGTTTTTTTTC
*
38472973 TCTTTTGTTCTTTTTT-
1 TTTTTTGTT-TTTTTTC
38472989 TGTTTTTGTGTTTTT
1 T-TTTTTGT-TTTTT
38473004 GGTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.35
17 16 0.62
18 1 0.04
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (16 bp):
TTTTTTGTTTTTTTTC
Found at i:38476776 original size:31 final size:29
Alignment explanation
Indices: 38476711--38476777 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
38476701 TATGAGTACG
* *
38476711 TATGTATATATATATGAAAATAAATAAAA
1 TATGTATATAGATATGAAAATAAAGAAAA
* * *
38476740 AATGTATATAGATTATAGAATATAAAGAATA
1 TATGTATATAGA-TAT-GAAAATAAAGAAAA
38476771 TATGTAT
1 TATGTAT
38476778 GAGTATGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.33
30 3 0.10
31 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (29 bp):
TATGTATATAGATATGAAAATAAAGAAAA
Found at i:38479842 original size:23 final size:23
Alignment explanation
Indices: 38479796--38479844 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
38479786 ATTGCACCAA
*
38479796 AAGTGCAAGGAACAAGAGTACTG
1 AAGTGCAAGGAACAAGAATACTG
* * *
38479819 AAGTGCAAGTAACAGGAATGCTG
1 AAGTGCAAGGAACAAGAATACTG
38479842 AAG
1 AAG
38479845 AACAAAACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.31, T:0.14
Consensus pattern (23 bp):
AAGTGCAAGGAACAAGAATACTG
Found at i:38480932 original size:25 final size:25
Alignment explanation
Indices: 38480904--38480959 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
38480894 ATAATTCTAC
*
38480904 AATTAAATAAAATACTTAATAATAA
1 AATTAAATAAAATAATTAATAATAA
* *
38480929 AATTAAATATACTAATTAATAATAA
1 AATTAAATAAAATAATTAATAATAA
38480954 AATTAA
1 AATTAA
38480960 TTATGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
AATTAAATAAAATAATTAATAATAA
Found at i:38480934 original size:12 final size:12
Alignment explanation
Indices: 38480919--38480960 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
38480909 AATAAAATAC
38480919 TTAATAATAAAA
1 TTAATAATAAAA
*
38480931 TTAA-ATATACTAA
1 TTAATA-ATA-AAA
38480944 TTAATAATAAAA
1 TTAATAATAAAA
38480956 TTAAT
1 TTAAT
38480961 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 1 0.04
12 14 0.56
13 9 0.36
14 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATAATAAAA
Found at i:38484253 original size:37 final size:36
Alignment explanation
Indices: 38484200--38484307 Score: 109
Period size: 37 Copynumber: 2.9 Consensus size: 36
38484190 ATTCTAAAAA
38484200 TAATATTAT-TTCAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTT-AATAGTTTAATATT-AATTTAATAT
*
38484236 TAATACTTATCTTAATAGTATTTA-ATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
38484273 TAAAGTGATTATCTTAATA-TTTAAT-TTAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAATTTAAT
38484308 GTTTATCTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
36 13 0.21
37 28 0.45
38 8 0.13
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:38488400 original size:23 final size:22
Alignment explanation
Indices: 38488329--38488414 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
38488319 CCTGATCAGT
38488329 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
* ** *
38488350 A-ATGACACACGAGGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
38488370 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
38488392 GATACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
38488415 TTGGCAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 9 0.17
21 22 0.41
22 1 0.02
23 22 0.41
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:38490633 original size:16 final size:15
Alignment explanation
Indices: 38490585--38490636 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
38490575 CTATTAGAAT
*
38490585 TTTTCCTTCCTTTCTC
1 TTTTCTTTCCTTT-TC
*
38490601 TATTTCTTCCCTCTTTC
1 T-TTTCTTTCCT-TTTC
38490618 TTTTCTTTTCCTTTTC
1 TTTTC-TTTCCTTTTC
38490634 TTT
1 TTT
38490637 GTATCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCCTTTTC
Found at i:38491603 original size:34 final size:34
Alignment explanation
Indices: 38491565--38491648 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
38491555 GATTTACTAA
* *
38491565 AAGCATGTCTATTGCTATCGTATTGATCCGTTAT
1 AAGCATGTCTATTGCTACCATATTGATCCGTTAT
* * **
38491599 AAGCATATTTATTGCTACCATATTGATTTGTTAT
1 AAGCATGTCTATTGCTACCATATTGATCCGTTAT
*
38491633 AAACATGTCATATTGC
1 AAGCATGTC-TATTGC
38491649 ATTGCATAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 34 0.85
35 6 0.15
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (34 bp):
AAGCATGTCTATTGCTACCATATTGATCCGTTAT
Found at i:38491864 original size:45 final size:45
Alignment explanation
Indices: 38491693--38491866 Score: 199
Period size: 45 Copynumber: 3.9 Consensus size: 45
38491683 TATAAGCCAC
* * * *
38491693 TTATCTGCACCAATTAGTGGTTTATCCACACCGTACTAGCAACTT
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
* * **
38491738 TTATC--TACATCGATTAGTGGTTTATCCACACTGTACTAGCAACTT
1 TTATCTGTAC-T-AATGAGTGGTTTATCCACACCATACTAGCAACTT
* * *
38491783 TAATTTGTACTAATGAGTGGTTTATCCATACCATACTAGCAACTT
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
* *
38491828 TTATCTGTACTAATGAGTGGTTTATTCACACTATACTAG
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAG
38491867 TAGTTTATCT
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.02
45 103 0.94
46 1 0.01
47 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (45 bp):
TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
Found at i:38492450 original size:24 final size:24
Alignment explanation
Indices: 38492423--38492468 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38492413 ATTTGTAAGT
38492423 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
38492447 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
38492469 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:38494413 original size:24 final size:24
Alignment explanation
Indices: 38494386--38494431 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38494376 ATTTGTAAGT
38494386 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
38494410 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
38494432 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:38495703 original size:15 final size:15
Alignment explanation
Indices: 38495683--38495733 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 15
38495673 TTTTTTAAAC
*
38495683 ATATTTAAATTTATT
1 ATATTTAATTTTATT
38495698 ATATTTATTATTGATTATT
1 ATATTTA--ATT--TTATT
38495717 ATATTTAATTTTATT
1 ATATTTAATTTTATT
38495732 AT
1 AT
38495734 TAATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 14 0.45
17 5 0.16
19 12 0.39
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
ATATTTAATTTTATT
Found at i:38495715 original size:19 final size:18
Alignment explanation
Indices: 38495693--38495735 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
38495683 ATATTTAAAT
38495693 TTATTATATTT-ATTATTGA
1 TTATTATATTTAATT-TT-A
38495712 TTATTATATTTAATTTTA
1 TTATTATATTTAATTTTA
38495730 TTATTA
1 TTATTA
38495736 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTATATTTAATTTTA
Found at i:38495734 original size:25 final size:25
Alignment explanation
Indices: 38495701--38495752 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
38495691 ATTTATTATA
* **
38495701 TTTATTATTGATTATTATATTTAAT
1 TTTATTATTAATTAAAATATTTAAT
38495726 TTTATTATTAATTAAAATATTTAAT
1 TTTATTATTAATTAAAATATTTAAT
38495751 TT
1 TT
38495753 AAAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTATTATTAATTAAAATATTTAAT
Found at i:38497366 original size:21 final size:22
Alignment explanation
Indices: 38497342--38497383 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38497332 CGGGTTTGGG
*
38497342 GTTTAATGATTTA-GGTTTAAA
1 GTTTAAGGATTTAGGGTTTAAA
*
38497363 GTTTAAGGGTTTAGGGTTTAA
1 GTTTAAGGATTTAGGGTTTAA
38497384 GATTACGAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (22 bp):
GTTTAAGGATTTAGGGTTTAAA
Found at i:38498963 original size:113 final size:115
Alignment explanation
Indices: 38498756--38499096 Score: 449
Period size: 113 Copynumber: 3.0 Consensus size: 115
38498746 CGAAAATGCC
* ** *
38498756 ACAAAAAAACCTAAGACCAACGACGCCGTTTTTTGAGCTTTTGGGGATTTAGCGGCGTTTTTAAG
1 ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
* *
38498821 AAAGCGAC-GCTAATGCTCAGGGCTTTAGCGGCGTTTTC-GGTAAAGCGCA
66 TAAGCG-CTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAAGCGCA
* * *
38498870 ACAAAAGAACCTAAGCCCAACGACGCCGTTTACTGAGC-TTCGGGGCTTTAGCGGCATTTTTAAG
1 ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
* * ** * *
38498934 TAAGCGCTTCTAATGCTCCGGGCTTTAGCGATG-ATTCTGGGAAAGCGCC
66 TAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAAGCGCA
* * * *
38498983 GCAAAAAAACATAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGTTTTAGCGGGGTTTTTAAG
1 ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
*
38499048 TAAGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTTTT-TGGGAAATGCGC
66 TAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAA-GCGC
38499097 CGCAAAGGGC
Statistics
Matches: 195, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
112 4 0.02
113 93 0.48
114 92 0.47
115 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (115 bp):
ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
TAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAAGCGCA
Found at i:38499726 original size:14 final size:15
Alignment explanation
Indices: 38499695--38499727 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
38499685 AAGTTTTATA
38499695 GATTATGGAATTAAG
1 GATTATGGAATTAAG
*
38499710 GATTATGG-ATTAGG
1 GATTATGGAATTAAG
38499724 GATT
1 GATT
38499728 CTAGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAAG
Found at i:38500017 original size:89 final size:89
Alignment explanation
Indices: 38499914--38500181 Score: 308
Period size: 97 Copynumber: 2.9 Consensus size: 89
38499904 GGTTATAGGT
*
38499914 TAGGGGTTCA-GGGTTAGGGATTTAGGA-TTGGGTTATGGTTTAGGGTTTAGATTAATTAGTATT
1 TAGGGGTT-AGGGGTTAGGGATTTAGGAGTTGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATT
*
38499977 TTTAAATTTATATATTAAATAAAGTG
65 TTT-AATTTATATATTAAATAAAATG
* * *
38500003 TAGGGGTTAGGGGTTAGGGGTTAAGGATTTGGGGTCAAGTTTAGGGTTTAGGGTTTAGATTAATT
1 TAGGGGTTAGGGGTTAGGGATTTAGGAGTT--GG----G-TTAGGGTTTAGGGTTTAGATTAATT
* *
38500068 AGTGTTTGTTAATTTATATATTAAATAAAATT
59 AGTATTT-TTAATTTATATATTAAATAAAATG
* * * * *
38500100 TAGCGGTTAGGGGTTAAGGATTT-GGAGTCGGGTTAGGGTTTAAGATTTAGATTAATTAGTACTT
1 TAGGGGTTAGGGGTTAGGGATTTAGGAGTTGGGTTAGGGTTTAGGGTTTAGATTAATTAGTA-TT
38500164 TTTAATTTATATATTAAA
65 TTTAATTTATATATTAAA
38500182 CAAGTTCTTT
Statistics
Matches: 153, Mismatches: 15, Indels: 22
0.81 0.08 0.12
Matches are distributed among these distances:
88 1 0.01
89 66 0.43
90 6 0.04
92 2 0.01
94 2 0.01
96 5 0.03
97 69 0.45
98 2 0.01
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.42
Consensus pattern (89 bp):
TAGGGGTTAGGGGTTAGGGATTTAGGAGTTGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATTT
TTAATTTATATATTAAATAAAATG
Found at i:38500526 original size:83 final size:84
Alignment explanation
Indices: 38500376--38500538 Score: 204
Period size: 83 Copynumber: 2.0 Consensus size: 84
38500366 GCCAAAGCGG
* * * * *
38500376 CGCCGTTTCTTTACTGGAATAAAATCATTTAGTGGCGTTTTGTAGGAAAACGCCGCAAAAGTGAA
1 CGCCGTTTCTCTACTCGAATAAAATCATTTAGTGGCATTTTGTAAGAAAACACCGCAAAAGTGAA
*
38500441 TTACTGTTGGCCAATACGA
66 TTAATGTTGGCCAATACGA
* * * *
38500460 CGCCGTTTCTCTACTCGAATGAAATC--TTATGTGGCATTTTTTAAGAAAACACTGCAAGAGTGA
1 CGCCGTTTCTCTACTCGAATAAAATCATTTA-GTGGCATTTTGTAAGAAAACACCGCAAAAGTGA
*
38500523 ATTAATGTTTGCCAAT
65 ATTAATGTTGGCCAAT
38500539 GTGACACTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
82 3 0.04
83 41 0.61
84 23 0.34
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (84 bp):
CGCCGTTTCTCTACTCGAATAAAATCATTTAGTGGCATTTTGTAAGAAAACACCGCAAAAGTGAA
TTAATGTTGGCCAATACGA
Found at i:38500938 original size:84 final size:84
Alignment explanation
Indices: 38500816--38501071 Score: 254
Period size: 84 Copynumber: 3.0 Consensus size: 84
38500806 TTCTTATGTT
* * *** * * * *
38500816 TTAAAATTTGTCAA-AATGGCGCCATTTATCTTGAGGAATGAAATATTTTTGTGGCGTTTTTGAT
1 TTAAAATTTGCCAATAA-GGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTA-
* *
38500880 AAAAACACCGCAAGGA-TGTA
64 AAAAACGCCGCAAGGAGTGAA
* *
38500900 TTAAAATTTGCC-A-AAGCGACGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTA
1 TTAAAATTTGCCAATAAG-G-CGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTA
*
38500963 GGAAAACGCCGCAA-GAGTGAA
64 -AAAAACGCCGCAAGGAGTGAA
* * *
38500984 TTAATATTTGCCAATAAGGTGCCATTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAG
1 TTAAAATTTGCCAATAAGGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAA-
*
38501049 AAAACGCCGCAA-GTGTGAA
65 AAAACGCCGCAAGGAGTGAA
38501068 TTAA
1 TTAA
38501072 TGTCTGTCAA
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
82 1 0.01
83 6 0.04
84 132 0.92
85 2 0.01
86 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (84 bp):
TTAAAATTTGCCAATAAGGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAA
AAACGCCGCAAGGAGTGAA
Found at i:38501072 original size:84 final size:83
Alignment explanation
Indices: 38500851--38501072 Score: 261
Period size: 84 Copynumber: 2.6 Consensus size: 83
38500841 TTATCTTGAG
* * * * * * *
38500851 GAATGAAATATTTTTGTGGCGTTTTTGATA-AAAACACCGCAAGGATGTATTAAAATTTGCCAAA
1 GAATGAAATCTTATAGTGGCGTTTTTTA-AGAAAACGCCGCAAGG-TGAATTAATATTTGCCAAA
* *
38500915 GCGACGCCGTTTCTCTACTG
64 GCGACGCCATTTCTCTACTC
* *
38500935 GAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATTAATATTTGCCAATA
1 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG-GTGAATTAATATTTGCC-A-A
*
38501000 AG-G-TGCCATTTCTCTACTC
63 AGCGACGCCATTTCTCTACTC
38501019 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAGTGTGAATTAAT
1 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG-GTGAATTAAT
38501073 GTCTGTCAAT
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
84 113 0.95
85 3 0.03
86 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (83 bp):
GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAGGTGAATTAATATTTGCCAAAGC
GACGCCATTTCTCTACTC
Found at i:38501483 original size:84 final size:84
Alignment explanation
Indices: 38501361--38501640 Score: 257
Period size: 84 Copynumber: 3.3 Consensus size: 84
38501351 TTCTTATGTT
* * * * *** * * *
38501361 TTAAAATTTGTCAAAACGGCACCGTTTATCTTGAGGAATGAAATATTTTTGTGGCGATTTTGATA
1 TTAAAATTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTT-ATA
*
38501426 AAAACGCCGCAAGGA-TGTA
65 AAAACGCCGCAAGGAGTGAA
* * *
38501445 TTAAAATTTTCCAA-AGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGC-ATTTTTTA
1 TTAAAATTTGCCAATA-CGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTTATA
38501508 GGAAAACGCCGCAA-GAGTGAA
65 --AAAACGCCGCAAGGAGTGAA
** *
38501529 TTAATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCG-TTTTTTAG
1 TTAAAATTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTTATA-
*
38501593 GAAAACGCCGCAA-GTGTGAA
65 -AAAACGCCGCAAGGAGTGAA
** * * *
38501613 TTAATGTTTGTCAATGCGGCACCGTTTC
1 TTAAAATTTGCCAATACGGCGCCGTTTC
38501641 GATTCATGAA
Statistics
Matches: 169, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
82 2 0.01
83 8 0.05
84 158 0.93
85 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (84 bp):
TTAAAATTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTTATAA
AAACGCCGCAAGGAGTGAA
Found at i:38501589 original size:545 final size:544
Alignment explanation
Indices: 38500313--38501788 Score: 2366
Period size: 545 Copynumber: 2.7 Consensus size: 544
38500303 TAAAATTGTA
* * *
38500313 AAATAATTTTGTGGAGTTTTTAATAAAAACGCCGCAAGGAT-TCATTAAAATTTGCCAAAGCGGC
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGT-ATTAAAATTTGCCAAAGCGGC
* * *
38500377 GCCGTTTCTTTACTGGAATAAAATCATT-TAGTGGCGTTTTGTAGGAAAACGCCGCAAAAGTGAA
65 GCCGTTTCTCTACTGGAATAAAATC-TTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAA
* * * *
38500441 TTACTGTTGGCCAATACGACGCCGTTTCTCTACTCGAATGAAATCTTAT-GTGGCATTTTTTAAG
129 TTAATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAG
* * * * * * *
38500505 AAAACACTGCAAGAGTGAATTAATGTTTGCCAATGTGACACTGTTTGGCTTCATGAAATGAATTT
194 AAAACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTT
*
38500570 ATACTGGCGTTTTTGCTAGAAACGCCAGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTT
259 ATACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTT
* * *
38500635 TTGTTCAGTACTTTATTTTGGTGGTGTTTTTTATTAAAACGTTGCAAATATCGGAAGCAATAGCG
324 TTGTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCG
* * *
38500700 GGGTTTTGGCCTAAAATGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCGTTTCAGTTGA
389 GCGTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGA
38500765 GGAATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAA
454 GGAATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAA
* *
38500830 AATGGCGCCATTTATCTTGAGGAATG
519 AACGGCACCATTTATCTTGAGGAATG
* *
38500856 AAATATTTTTGTGGCGTTTTTGATAAAAACACCGCAAGGATGTATTAAAATTTGCCAAAGCGACG
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
38500921 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
66 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
* * * *
38500986 AATATTTGCCAATAAGGTGCCATTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
131 AATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
* *
38501051 AACGCCGCAAGTGTGAATTAATGTCTGTCAATGCGGCAATGTTTCGCTTCATGAAATGAATTTAT
196 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTTAT
*
38501116 ACTGGCGTTTTTACTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
261 ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
*
38501181 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATTAGAAGCAATAGCGGC
326 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCGGC
38501246 GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGG
391 GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGG
* *
38501311 AATTTAATTTTTTTTAGTGGCATTTTTTGGGAAAACGTCGTTCTTATGTTTTAAAATTTGTCAAA
456 AATTTAA-TTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAAA
*
38501376 ACGGCACCGTTTATCTTGAGGAATG
520 ACGGCACCATTTATCTTGAGGAATG
* *
38501401 AAATATTTTTGTGGCGATTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTTCCAAAGCGGCG
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
*
38501466 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCATTTTTTAGGAAAACGCCGCAAGAGTGAATT
66 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
* *
38501531 AATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAA
131 AATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
* *
38501596 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGATTCATGAAATGAATTTAT
196 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTTAT
* * * * *
38501661 ACTGTCGTTTTTGCTAGAAACGCTGAAAATATGCATCAAAGTTTAGTAAAACGGCACCAT-TTTC
261 ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTT-
* * * * * * *
38501725 TATTCAGTACTCTATTTCGGTGGCGTTTTCTATTAAAATGCCGCAAATGTCAGAAGCAATAGCG
325 TGTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCG
38501789 ACATTTTTAA
Statistics
Matches: 860, Mismatches: 68, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
542 2 0.00
543 157 0.18
544 269 0.31
545 432 0.50
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (544 bp):
AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
AATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTTAT
ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCGGC
GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGG
AATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAAAA
CGGCACCATTTATCTTGAGGAATG
Found at i:38503240 original size:18 final size:18
Alignment explanation
Indices: 38503225--38503294 Score: 88
Period size: 18 Copynumber: 3.7 Consensus size: 18
38503215 TAAAATATGC
38503225 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
*
38503243 TAC-TTACTAAAATTTATAATT
1 TACATTACTTAAA--TAT-A-T
38503264 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
38503282 TACATTACTTAAA
1 TACATTACTTAAA
38503295 ATTTATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 8 0.18
18 17 0.38
19 4 0.09
20 4 0.09
21 4 0.09
22 8 0.18
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
TACATTACTTAAATATAT
Found at i:38503271 original size:39 final size:41
Alignment explanation
Indices: 38503225--38503301 Score: 140
Period size: 39 Copynumber: 1.9 Consensus size: 41
38503215 TAAAATATGC
38503225 TACATTACTTAAATATATTAC-TTAC-TAAAATTTATAATT
1 TACATTACTTAAATATATTACATTACTTAAAATTTATAATT
38503264 TACATTACTTAAATATATTACATTACTTAAAATTTATA
1 TACATTACTTAAATATATTACATTACTTAAAATTTATA
38503302 TATATTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 21 0.58
40 4 0.11
41 11 0.31
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.45
Consensus pattern (41 bp):
TACATTACTTAAATATATTACATTACTTAAAATTTATAATT
Found at i:38503312 original size:17 final size:17
Alignment explanation
Indices: 38503290--38503323 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38503280 ATTACATTAC
38503290 TTAAAATTTATATATAT
1 TTAAAATTTATATATAT
*
38503307 TTAAAATTTTTATATAT
1 TTAAAATTTATATATAT
38503324 GGTATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTATATATAT
Found at i:38503558 original size:30 final size:30
Alignment explanation
Indices: 38503519--38503576 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
38503509 TTATAAATAA
38503519 TATACATAAAAGTG-ATATACTTACATAACT
1 TATACATAAAAGTGCATA-ACTTACATAACT
* **
38503549 TATATATAAACTTGCATAACTTACATAA
1 TATACATAAAAGTGCATAACTTACATAA
38503577 TAACATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (30 bp):
TATACATAAAAGTGCATAACTTACATAACT
Found at i:38503569 original size:9 final size:9
Alignment explanation
Indices: 38503537--38503906 Score: 151
Period size: 9 Copynumber: 42.3 Consensus size: 9
38503527 AAAGTGATAT
38503537 ACTTACATA
1 ACTTACATA
*
38503546 ACTTATATATAA
1 AC-T-TACAT-A
*
38503558 ACTTGCATA
1 ACTTACATA
38503567 ACTTACATA
1 ACTTACATA
*
38503576 A-TAACATAATA
1 ACTTAC---ATA
38503587 ACTTACATA
1 ACTTACATA
*
38503596 A--TACACA
1 ACTTACATA
38503603 ACTTACATA
1 ACTTACATA
*
38503612 ACTTAAATA
1 ACTTACATA
38503621 ACTTACAT-
1 ACTTACATA
*
38503629 A-GTACATA
1 ACTTACATA
**
38503637 ACTTTGATA
1 ACTTACATA
* *
38503646 ACTAACATT
1 ACTTACATA
*
38503655 A--TACACA
1 ACTTACATA
38503662 ACTTACATA
1 ACTTACATA
*
38503671 ACATACACTTA
1 ACTTACA--TA
*
38503682 A-ATACATA
1 ACTTACATA
*
38503690 ACATACATA
1 ACTTACATA
*
38503699 A--TACACA
1 ACTTACATA
38503706 ACTTA-ATTAA
1 ACTTACA-T-A
*
38503716 TATTATACATA
1 -ACT-TACATA
*
38503727 ACATACATA
1 ACTTACATA
38503736 A--TACATA
1 ACTTACATA
*
38503743 A-TACACATA
1 ACT-TACATA
38503752 ACTTACAT-
1 ACTTACATA
*
38503760 A-GTACATA
1 ACTTACATA
*
38503768 ACTAACATA
1 ACTTACATA
*
38503777 A--TACACA
1 ACTTACATA
*
38503784 ACTTACGTA
1 ACTTACATA
* *
38503793 ACTGAAATA
1 ACTTACATA
38503802 ACTTACATA
1 ACTTACATA
*
38503811 GCTTACATA
1 ACTTACATA
38503820 A--TACATA
1 ACTTACATA
38503827 ACTTACATA
1 ACTTACATA
*
38503836 ACTTATATA
1 ACTTACATA
38503845 A--TACATA
1 ACTTACATA
38503852 ACTTACATA
1 ACTTACATA
* *
38503861 ATTTACCTA
1 ACTTACATA
38503870 A--TACATA
1 ACTTACATA
* *
38503877 A-ATATATA
1 ACTTACATA
* *
38503885 TCATATCATA
1 ACTTA-CATA
38503895 ACTTACATA
1 ACTTACATA
38503904 ACT
1 ACT
38503907 CATTTATAGT
Statistics
Matches: 270, Mismatches: 54, Indels: 74
0.68 0.14 0.19
Matches are distributed among these distances:
7 57 0.21
8 16 0.06
9 154 0.57
10 18 0.07
11 15 0.06
12 9 0.03
13 1 0.00
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:38503607 original size:16 final size:16
Alignment explanation
Indices: 38503563--38503862 Score: 145
Period size: 16 Copynumber: 17.9 Consensus size: 16
38503553 TATAAACTTG
38503563 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
38503580 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
*
38503599 CACAACTTACATAACTTA
1 CATAACTTACATAA--TA
* *
38503617 AATAACTTACATAGTA
1 CATAACTTACATAATA
**
38503633 CATAACTTTGATAACTAA
1 CATAACTTACATAA-T-A
* *
38503651 CATTA--TACACAACTTA
1 CATAACTTACATAA--TA
*
38503667 CATAACATACACTTAAATA
1 CATAACTTACA--T-AATA
*
38503686 CATAACATACATAATA
1 CATAACTTACATAATA
*
38503702 CACAACTTA-AT--TA
1 CATAACTTACATAATA
*
38503715 -AT-ATTATACATAACATA
1 CATAACT-TACAT-A-ATA
38503732 CATAA--TACATAATACA
1 CATAACTTACATAAT--A
*
38503748 CATAACTTACATAGTA
1 CATAACTTACATAATA
*
38503764 CATAACTAACATAATA
1 CATAACTTACATAATA
* *
38503780 CACAACTTACGTAACTGA
1 CATAACTTACATAA-T-A
* *
38503798 AATAACTTACATAGCTTA
1 CATAACTTACATA--ATA
38503816 CATAA--TACATAACTTA
1 CATAACTTACATAA--TA
*
38503832 CATAACTTATATAATA
1 CATAACTTACATAATA
38503848 CATAACTTACATAAT
1 CATAACTTACATAAT
38503863 TTACCTAATA
Statistics
Matches: 217, Mismatches: 33, Indels: 67
0.68 0.10 0.21
Matches are distributed among these distances:
11 2 0.01
12 3 0.01
13 4 0.02
14 2 0.01
15 3 0.01
16 110 0.51
17 7 0.03
18 53 0.24
19 17 0.08
20 14 0.06
21 2 0.01
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:38503696 original size:28 final size:28
Alignment explanation
Indices: 38503655--38503758 Score: 81
Period size: 28 Copynumber: 3.8 Consensus size: 28
38503645 AACTAACATT
* *
38503655 ATACACAACTTACATAACATACACTTAA
1 ATACATAACATACATAACATACACTTAA
* *
38503683 ATACATAACATACATAATACACAACTTAA
1 ATACATAACATACATAACATAC-ACTTAA
* **
38503712 TTA-ATATTATACATAACATACA--T-A
1 ATACATAACATACATAACATACACTTAA
* * *
38503736 ATACATAATACACATAACTTACA
1 ATACATAACATACATAACATACA
38503759 TAGTACATAA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
24 3 0.05
25 17 0.28
27 1 0.02
28 32 0.52
29 8 0.13
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (28 bp):
ATACATAACATACATAACATACACTTAA
Found at i:38503703 original size:44 final size:44
Alignment explanation
Indices: 38503650--38503760 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
38503640 TTGATAACTA
* *
38503650 ACATTATACACAACTTACATAACA-TACACTTAA-ATACATAACAT
1 ACATAATACACAACTTACATAACATTACACATAACATACAT-A-AT
* *
38503694 ACATAATACACAACTTA-ATTAATATTATACATAACATACATAAT
1 ACATAATACACAACTTACA-TAACATTACACATAACATACATAAT
38503738 ACATAATACACATAACTTACATA
1 ACATAATACAC--AACTTACATA
38503761 GTACATAACT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
43 1 0.02
44 33 0.58
45 8 0.14
46 14 0.25
47 1 0.02
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (44 bp):
ACATAATACACAACTTACATAACATTACACATAACATACATAAT
Found at i:38503832 original size:25 final size:25
Alignment explanation
Indices: 38503537--38503904 Score: 100
Period size: 25 Copynumber: 14.8 Consensus size: 25
38503527 AAAGTGATAT
*
38503537 ACTTACATAACTT--AT-ATATA-A
1 ACTTACATAACTTACATAATACATA
*
38503558 ACTTGCATAACTTACATAATAACATAATA
1 ACTTACATAACTTACATAAT-AC---ATA
*
38503587 ACTTACATAA--TACACAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
* *
38503612 ACTTAAATAACTTACATAGTACATA
1 ACTTACATAACTTACATAATACATA
** * * *
38503637 ACTTTGATAACTAACATTATACACA
1 ACTTACATAACTTACATAATACATA
*
38503662 ACTTACATAACATACACTTAAATACATA
1 ACTTACATAACTTACA--T-AATACATA
* * *
38503690 ACATACATAA--TACA-CA-ACTTA
1 ACTTACATAACTTACATAATACATA
*
38503711 A-TTA-AT-ATTATACATAACATACATA
1 ACTTACATAACT-TACAT-A-ATACATA
*
38503736 A--TACATAA-TACACATAACTTACAT-
1 ACTTACATAACT-TACATAA--TACATA
* * *
38503760 A-GTACATAACTAACATAATACACA
1 ACTTACATAACTTACATAATACATA
* * *
38503784 ACTTACGTAACTGAAATAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
*
38503811 GCTTACATAA--TACATAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
*
38503836 ACTTATATAA--TACATAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
* * *
38503861 ATTTACCTAA--TACATAAATATATA
1 ACTTACATAACTTACAT-AATACATA
* *
38503885 TCATATCATAACTTACATAA
1 ACTTA-CATAACTTACATAA
38503905 CTCATTTATA
Statistics
Matches: 264, Mismatches: 47, Indels: 67
0.70 0.12 0.18
Matches are distributed among these distances:
18 1 0.00
19 2 0.01
20 2 0.01
21 21 0.08
22 1 0.00
23 7 0.03
24 15 0.06
25 146 0.55
26 10 0.04
27 30 0.11
28 18 0.07
29 11 0.04
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:38505718 original size:21 final size:21
Alignment explanation
Indices: 38505688--38505734 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
38505678 CTACAACTTA
*
38505688 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGGG
38505709 AAGCAAAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGGG
38505730 AAGCA
1 AAGCA
38505735 GAGCAGAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.47, T:0.00
Consensus pattern (21 bp):
AAGCAAAGGCGGCAGCGAGGG
Found at i:38506151 original size:43 final size:42
Alignment explanation
Indices: 38506090--38506224 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 42
38506080 AAACAATAGT
*
38506090 GGCGTTTGTGAGGAAAGCGCCGCTAAAGAACATGACCTTTAAC
1 GGCGTTTGT-AGGAAAGCGCCGCTAAAGAACATGACCTTTAGC
* * * *
38506133 GGCGTTTGTAGGAAAAGCGCTGCTAAAGACCCTGACTTTTAGC
1 GGCGTTTGTAGG-AAAGCGCCGCTAAAGAACATGACCTTTAGC
* * ** * *
38506176 GGTGTTTTTTCTG-TAGCGTCGCTAAAGAACATGACCTTTAGC
1 GGCG-TTTGTAGGAAAGCGCCGCTAAAGAACATGACCTTTAGC
38506218 GGCGTTT
1 GGCGTTT
38506225 ATAAAAATAA
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 3 0.04
42 29 0.39
43 37 0.50
44 5 0.07
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
GGCGTTTGTAGGAAAGCGCCGCTAAAGAACATGACCTTTAGC
Found at i:38506361 original size:22 final size:22
Alignment explanation
Indices: 38506318--38506361 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38506308 TAGTGGCGCT
* **
38506318 AAAAAGCGCCGCTAAAGGCCTG
1 AAAAAACGCCGCTAAAAACCTG
38506340 AAAAAACGCCGCTAAAAACCTG
1 AAAAAACGCCGCTAAAAACCTG
38506362 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTG
Found at i:38509071 original size:27 final size:27
Alignment explanation
Indices: 38509033--38509085 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
38509023 AAAATGATTA
*
38509033 AAATATGTAAAAAGCTGGGGTTATATG
1 AAATATGTAAAAAGATGGGGTTATATG
38509060 AAATATGTAAAAAGATGGGGTTATAT
1 AAATATGTAAAAAGATGGGGTTATAT
38509086 TTAACTTAGT
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:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (27 bp):
AAATATGTAAAAAGATGGGGTTATATG
Found at i:38512422 original size:14 final size:16
Alignment explanation
Indices: 38512392--38512423 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
38512382 CTACTCTTGG
38512392 TTTAACATTCATTTGT
1 TTTAACATTCATTTGT
38512408 TTTAA-ATTC-TTTGT
1 TTTAACATTCATTTGT
38512422 TT
1 TT
38512424 CAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTAACATTCATTTGT
Found at i:38513941 original size:43 final size:43
Alignment explanation
Indices: 38513827--38513953 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
38513817 ATTTTCGATA
*
38513827 TGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
* *
38513870 TGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATTGACT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
* * **
38513913 TGTGTTTACGTGTAAGACC-CTGTTTGGGACAATGGCATCGA
1 TGTGTTTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGA
38513954 TCTGTAAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
Found at i:38514972 original size:30 final size:30
Alignment explanation
Indices: 38514903--38514973 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
38514893 GCCCTTAAAC
* *
38514903 TTTTCCAAATTTATATTTTGACCCCTAACA
1 TTTTCTAAATTTATATCTTGACCCCTAACA
*
38514933 TTTTCTAAATTTATATCTTGACCCCTAATA
1 TTTTCTAAATTTATATCTTGACCCCTAACA
*
38514963 TTTTGTAAATT
1 TTTTCTAAATT
38514974 ACATTTGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (30 bp):
TTTTCTAAATTTATATCTTGACCCCTAACA
Found at i:38515005 original size:30 final size:29
Alignment explanation
Indices: 38514969--38515038 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
38514959 AATATTTTGT
38514969 AAATTACATTTGGGCCCCTAAACTTT-CTAG
1 AAATTACATTTGGGCCCC-AAACTTTCCT-G
* * *
38514999 AAATTACATTTTGGCCCCATATTTTCCTG
1 AAATTACATTTGGGCCCCAAACTTTCCTG
38515028 AAATTACATTT
1 AAATTACATTT
38515039 TTGCCCCAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (29 bp):
AAATTACATTTGGGCCCCAAACTTTCCTG
Found at i:38515034 original size:29 final size:29
Alignment explanation
Indices: 38514969--38515046 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
38514959 AATATTTTGT
*
38514969 AAATTACATTTGGGCCCCTAAACTTTCTAG
1 AAATTACATTTTGGCCCC-AAACTTTCTAG
* *
38514999 AAATTACATTTTGGCCCCATATTTTCCT-G
1 AAATTACATTTTGGCCCCAAACTTT-CTAG
*
38515028 AAATTACATTTTTGCCCCA
1 AAATTACATTTTGGCCCCA
38515047 GAAACTTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 24 0.56
30 19 0.44
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.37
Consensus pattern (29 bp):
AAATTACATTTTGGCCCCAAACTTTCTAG
Found at i:38515230 original size:23 final size:24
Alignment explanation
Indices: 38515186--38515230 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
38515176 GAAGACAAGG
*
38515186 AAAAGAAGACAAATTTGAAAGATT
1 AAAAGAAGACAAAATTGAAAGATT
38515210 AAAAGAAGA-AAAATTGAAAGA
1 AAAAGAAGACAAAATTGAAAGA
38515231 AAATAGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAAGAAGACAAAATTGAAAGATT
Found at i:38515790 original size:25 final size:25
Alignment explanation
Indices: 38515743--38515790 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
38515733 GGGGCCGAAC
* **
38515743 GAAAAAGAAGAGAAAAAGCAAAGTA
1 GAAAAAAAAGAGAAAAAAAAAAGTA
*
38515768 GAAAAAAAATAGAAAAAAAAAAG
1 GAAAAAAAAGAGAAAAAAAAAAG
38515791 AAAGGAGCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (25 bp):
GAAAAAAAAGAGAAAAAAAAAAGTA
Found at i:38516488 original size:17 final size:17
Alignment explanation
Indices: 38516466--38516522 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
38516456 GTACTTTAAA
*
38516466 AAAAATAATCGTGTTTC
1 AAAAATTATCGTGTTTC
* *
38516483 AAAAATTTTCATGTTCTC
1 AAAAATTATCGTGTT-TC
* *
38516501 AAAATTTCTCGTGTTTC
1 AAAAATTATCGTGTTTC
38516518 AAAAA
1 AAAAA
38516523 AATAATAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (17 bp):
AAAAATTATCGTGTTTC
Found at i:38516598 original size:17 final size:17
Alignment explanation
Indices: 38516576--38516993 Score: 101
Period size: 17 Copynumber: 23.8 Consensus size: 17
38516566 AAGGAAACTT
38516576 CGTGTTTCAAAAATTTC
1 CGTGTTTCAAAAATTTC
*
38516593 CGTGTTTTTAAAAAAATTTC
1 CGTG--TTT-CAAAAATTTC
*
38516613 CGTGTTTCAAAAA-ATC
1 CGTGTTTCAAAAATTTC
*
38516629 CTGTGTTTTCAAAAATTTT
1 C-GTG-TTTCAAAAATTTC
* * *
38516648 CGTGTTTTAGAAATTTT
1 CGTGTTTCAAAAATTTC
* ***
38516665 CGTTTTTTTTTTAAATTT-
1 CG--TGTTTCAAAAATTTC
38516683 -GTGTTTTC-AAAATTTC
1 CGTG-TTTCAAAAATTTC
* * **
38516699 TGGTGATAAAAAAATTT-
1 -CGTGTTTCAAAAATTTC
*
38516716 CGTGTTTCAAAAA-TCC
1 CGTGTTTCAAAAATTTC
* *
38516732 TCATGTTTTCTAAAAA-TGC
1 -CGTG-TTTC-AAAAATTTC
* *
38516751 CAGTGTTTTAAAAATTTT
1 C-GTGTTTCAAAAATTTC
38516769 CGTGTTTTCCAAAAATTT-
1 CGTG-TTT-CAAAAATTTC
*
38516787 TGTGTTTCAAAAAAATTT-
1 CGTGTTTC--AAAAATTTC
* *
38516805 CATGTTTTCAAAAAATTC
1 CGTG-TTTCAAAAATTTC
38516823 TCGTGTTTTCAAAAAATTT-
1 -CGTG-TTTC-AAAAATTTC
*
38516842 CGTGTTTTCAACAA-TTC
1 CGTG-TTTCAAAAATTTC
** * *
38516859 TCGCATTTCACAAATTTT
1 -CGTGTTTCAAAAATTTC
** *
38516877 CGTG-TT-ATAATTTTTT
1 CGTGTTTCA-AAAATTTC
* * * **
38516893 TGTCTTTTTAAAAAAAATC
1 CG--TGTTTCAAAAATTTC
38516912 TCGTGTTTCAAAAATTGT-
1 -CGTGTTTCAAAAATT-TC
* * *
38516930 CTTGTTTTAAAAATTTT
1 CGTGTTTCAAAAATTTC
*
38516947 CGTGTTTCTAAAATTTC
1 CGTGTTTCAAAAATTTC
*
38516964 CGTGTTTTAAAAA-TTC
1 CGTGTTTCAAAAATTTC
*
38516980 TCGTGTTTTAAAAA
1 -CGTGTTTCAAAAA
38516994 AAAATTCTCG
Statistics
Matches: 297, Mismatches: 65, Indels: 78
0.68 0.15 0.18
Matches are distributed among these distances:
15 9 0.03
16 30 0.10
17 111 0.37
18 74 0.25
19 51 0.17
20 22 0.07
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTC
Found at i:38516624 original size:19 final size:19
Alignment explanation
Indices: 38516576--38516626 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
38516566 AAGGAAACTT
38516576 CGTGTTTC--AAAAATTTC
1 CGTGTTTCAAAAAAATTTC
*
38516593 CGTGTTTTTAAAAAAATTTC
1 CGTG-TTTCAAAAAAATTTC
38516613 CGTGTTTCAAAAAA
1 CGTGTTTCAAAAAA
38516627 TCCTGTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 9 0.31
20 13 0.45
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (19 bp):
CGTGTTTCAAAAAAATTTC
Found at i:38516784 original size:19 final size:19
Alignment explanation
Indices: 38516706--38516994 Score: 138
Period size: 17 Copynumber: 16.3 Consensus size: 19
38516696 TTCTGGTGAT
*
38516706 AAAAAAATTTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
** *
38516724 -AAAAATCCTCATGTTTTC
1 AAAAAATTTTCGTGTTTTC
* **
38516742 TAAAAA-TGCCAGTGTTTT-
1 AAAAAATTTTC-GTGTTTTC
38516760 -AAAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
38516778 CAAAAATTTT-GTG-TTTC
1 AAAAAATTTTCGTGTTTTC
* *
38516795 AAAAAAATTTCATGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
38516814 AAAAAATTCTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
38516833 AAAAAA-TTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
* * **
38516851 -AACAATTCTCG-CATTTC
1 AAAAAATTTTCGTGTTTTC
*
38516868 -ACAAATTTTCGTG--TT-
1 AAAAAATTTTCGTGTTTTC
* ** * * *
38516883 ATAATTTTTTTGTCTTTTTA
1 AAAAAATTTTCGT-GTTTTC
* *
38516903 AAAAAAATCTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
* *
38516921 -AAAAATTGTCTTGTTTT-
1 AAAAAATTTTCGTGTTTTC
38516938 -AAAAATTTTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
* *
38516955 -TAAAATTTCCGTGTTTT-
1 AAAAAATTTTCGTGTTTTC
*
38516972 -AAAAATTCTCGTGTTTT-
1 AAAAAATTTTCGTGTTTTC
38516989 AAAAAA
1 AAAAAA
38516995 AAATTCTCGT
Statistics
Matches: 203, Mismatches: 49, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
16 12 0.06
17 95 0.47
18 41 0.20
19 48 0.24
20 7 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (19 bp):
AAAAAATTTTCGTGTTTTC
Found at i:38516849 original size:18 final size:18
Alignment explanation
Indices: 38516574--38516994 Score: 190
Period size: 18 Copynumber: 23.9 Consensus size: 18
38516564 TAAAGGAAAC
38516574 TTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
*
38516590 TTCCGTGTTTTTAAAAAAAT
1 TT-CGTG-TTTTCAAAAAAT
38516610 TTCCGTG-TTTCAAAAAA-
1 TT-CGTGTTTTCAAAAAAT
* *
38516627 TCCTGTGTTTTCAAAAATT
1 TTC-GTGTTTTCAAAAAAT
* *
38516646 TTCGTGTTTT-AGAAATT
1 TTCGTGTTTTCAAAAAAT
* ****
38516663 TTCGTTTTTTTTTTAAAT
1 TTCGTGTTTTCAAAAAAT
38516681 TT-GTGTTTTC--AAAAT
1 TTCGTGTTTTCAAAAAAT
** *
38516696 TTC-TGGTGATAAAAAAAT
1 TTCGT-GTTTTCAAAAAAT
38516714 TTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
* * *
38516730 CCTCATGTTTTCTAAAAAT
1 -TTCGTGTTTTCAAAAAAT
** *
38516749 GCCAGTGTTTT-AAAAATT
1 TTC-GTGTTTTCAAAAAAT
*
38516767 TTCGTGTTTTCCAAAAAT
1 TTCGTGTTTTCAAAAAAT
*
38516785 TTTGTG-TTTCAAAAAAAT
1 TTCGTGTTTTC-AAAAAAT
*
38516803 TTCATGTTTTCAAAAAAT
1 TTCGTGTTTTCAAAAAAT
38516821 TCTCGTGTTTTCAAAAAAT
1 T-TCGTGTTTTCAAAAAAT
*
38516840 TTCGTGTTTTC-AACAAT
1 TTCGTGTTTTCAAAAAAT
** * *
38516857 TCTCG-CATTTCACAAATT
1 T-TCGTGTTTTCAAAAAAT
* ***
38516875 TTCGTGTTAT--AATTTT
1 TTCGTGTTTTCAAAAAAT
* * *
38516891 TTTGTCTTTTTAAAAAAAAT
1 TTCGT-GTTTT-CAAAAAAT
*
38516911 CTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
* *
38516927 TGTCTTGTTTT-AAAAATT
1 T-TCGTGTTTTCAAAAAAT
*
38516945 TTCGTG-TTTC-TAAAAT
1 TTCGTGTTTTCAAAAAAT
38516961 TTCCGTGTTTT--AAAAAT
1 TT-CGTGTTTTCAAAAAAT
38516978 TCTCGTGTTTT-AAAAAA
1 T-TCGTGTTTTCAAAAAA
38516995 AAATTCTCGT
Statistics
Matches: 304, Mismatches: 65, Indels: 70
0.69 0.15 0.16
Matches are distributed among these distances:
15 7 0.02
16 34 0.11
17 87 0.29
18 118 0.39
19 39 0.13
20 19 0.06
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
TTCGTGTTTTCAAAAAAT
Found at i:38516997 original size:21 final size:20
Alignment explanation
Indices: 38516972--38517016 Score: 81
Period size: 21 Copynumber: 2.2 Consensus size: 20
38516962 TCCGTGTTTT
38516972 AAAAATTCTCGTGTTTTAAAA
1 AAAAATTCTCGTG-TTTAAAA
38516993 AAAAATTCTCGTGTTTAAAA
1 AAAAATTCTCGTGTTTAAAA
38517013 AAAA
1 AAAA
38517017 CTTTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (20 bp):
AAAAATTCTCGTGTTTAAAA
Found at i:38520763 original size:9 final size:9
Alignment explanation
Indices: 38520751--38520775 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38520741 TGAACTCAAT
38520751 GAAAGAATG
1 GAAAGAATG
38520760 GAAAGAATG
1 GAAAGAATG
38520769 GAAAGAA
1 GAAAGAA
38520776 CCCAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (9 bp):
GAAAGAATG
Found at i:38529585 original size:25 final size:25
Alignment explanation
Indices: 38529557--38529615 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
38529547 TATTATGCCT
*
38529557 AAAAAAACAAAAAAAAAAG-AAACAG
1 AAAAAAA-AAAAAAAAAAGTAAAAAG
*
38529582 AAAAAAAAACAAAAAAAGTAAAAAG
1 AAAAAAAAAAAAAAAAAGTAAAAAG
*
38529607 AAAGAAAAA
1 AAAAAAAAA
38529616 TCAAGATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAAAAAAAAGTAAAAAG
Found at i:38529604 original size:19 final size:17
Alignment explanation
Indices: 38529557--38529615 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
38529547 TATTATGCCT
*
38529557 AAAAAAACAAAAAAAAA
1 AAAAAAAGAAAAAAAAA
* *
38529574 AGAAACAGAAAAAAAAA
1 AAAAAAAGAAAAAAAAA
38529591 CAAAAAAAGTAAAAAGAAAGA
1 -AAAAAAAG-AAAAA-AAA-A
38529612 AAAA
1 AAAA
38529616 TCAAGATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 14 0.42
18 6 0.18
19 5 0.15
20 7 0.21
21 1 0.03
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAA
Found at i:38529610 original size:11 final size:9
Alignment explanation
Indices: 38529557--38529615 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
38529547 TATTATGCCT
*
38529557 AAAAAAACA
1 AAAAAAAGA
38529566 AAAAAAA-A
1 AAAAAAAGA
* *
38529574 AGAAACAGA
1 AAAAAAAGA
38529583 AAAAAAA-A
1 AAAAAAAGA
38529591 CAAAAAAAGTA
1 -AAAAAAAG-A
38529602 AAAAGAAAGA
1 AAAA-AAAGA
38529612 AAAA
1 AAAA
38529616 TCAAGATGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.17
9 20 0.49
10 9 0.22
11 5 0.12
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:38530646 original size:80 final size:79
Alignment explanation
Indices: 38530493--38530804 Score: 348
Period size: 80 Copynumber: 4.0 Consensus size: 79
38530483 TTTTTTCAAA
* * * *
38530493 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCATCCTGAGGTATTTTTCAATTTCTATT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA-CCCGAGGTATTTTTAAATTTCTATT
38530558 TTTCAAAAAAAAATC
65 TTTCAAAAAAAAATC
* * * *
38530573 AACTTATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGATGTA-TTTTAAATTTCTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC-CCGAGGTATTTTTAAATTTCTATT
38530637 TTTC--AAAAAAATC
65 TTTCAAAAAAAAATC
* * * * *
38530650 AACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCAC-GCTGAGGTA-TTTTCAATTTCTATTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACCCGAGGTATTTTTAAATTTCTATTT
38530713 TTCAAAAAAAAAATC
66 TTC-AAAAAAAAATC
* * * * * * * * *
38530728 AACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTA-TCCCGAGGTATTTTTCAATTTTTTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACCCGAGGTATTTTT-AAATTTCTATT
38530792 TTTCAAAAAAAAA
65 TTTCAAAAAAAAA
38530805 GGGAAGCTCA
Statistics
Matches: 195, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
75 23 0.12
77 43 0.22
78 46 0.24
79 31 0.16
80 52 0.27
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (79 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACCCGAGGTATTTTTAAATTTCTATTT
TTCAAAAAAAAATC
Found at i:38530773 original size:78 final size:79
Alignment explanation
Indices: 38530493--38530804 Score: 368
Period size: 78 Copynumber: 4.0 Consensus size: 79
38530483 TTTTTTCAAA
* *
38530493 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCATC-CTGAGGTATTTTTCAATTTCTAT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CATCGCCGAGGTATTTTTCAATTTCTAT
38530557 TTTTCAAAAAAAAATC
64 TTTTCAAAAAAAAATC
* * * * * *
38530573 AACTTATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGATGTA-TTTTAAATTTCTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA-TCGCCGAGGTATTTTTCAATTTCTATT
38530637 TTTC--AAAAAAATC
65 TTTCAAAAAAAAATC
* * *
38530650 AACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCA-CGCTGAGGTA-TTTTCAATTTCTATTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATCGCCGAGGTATTTTTCAATTTCTATTT
38530713 TTCAAAAAAAAAATC
66 TTC-AAAAAAAAATC
* * * * * * *
38530728 AACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTATC-CCGAGGTATTTTTCAATTTTTTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATCGCCGAGGTATTTTTCAA-TTTCTATT
38530792 TTTCAAAAAAAAA
65 TTTCAAAAAAAAA
38530805 GGGAAGCTCA
Statistics
Matches: 198, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
75 25 0.13
77 42 0.21
78 48 0.24
79 35 0.18
80 48 0.24
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (79 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATCGCCGAGGTATTTTTCAATTTCTATTT
TTCAAAAAAAAATC
Found at i:38530826 original size:96 final size:94
Alignment explanation
Indices: 38530718--38530896 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 94
38530708 TATTTTTCAA
* * * * * *
38530718 AAAAAAAATCAACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTATC-CCGAGGTATTTTTCA
1 AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCA-CGCCGAGGTA-TTTT-A
* *
38530782 ATTTTTTGTTTTTCAAAAAAAAAGGGAAGCTC
63 AATTTCTGTTTTTCAAAAAAAAAGGGAAGCTC
* *
38530814 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAAAT
1 AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCACGCCGAGGTATTTTAAAT
38530879 TTCTGTTTTTCAAAAAAA
66 TTCTGTTTTTCAAAAAAA
38530897 TCAACTCATA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 20 0.28
95 5 0.07
96 47 0.65
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (94 bp):
AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCACGCCGAGGTATTTTAAAT
TTCTGTTTTTCAAAAAAAAAGGGAAGCTC
Found at i:38530956 original size:77 final size:75
Alignment explanation
Indices: 38530815--38531002 Score: 317
Period size: 75 Copynumber: 2.5 Consensus size: 75
38530805 GGGAAGCTCA
* *
38530815 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTAAATT
38530880 TCTGTTTTTC
66 TCTGTTTTTC
38530890 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTAAA
38530955 TTTCTGTTTTTC
64 TTTCTGTTTTTC
*
38530967 --AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
38531003 CTGAGTCCTA
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
75 77 0.71
77 31 0.29
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTAAATT
TCTGTTTTTC
Found at i:38531021 original size:75 final size:74
Alignment explanation
Indices: 38530817--38531057 Score: 315
Period size: 75 Copynumber: 3.2 Consensus size: 74
38530807 GAAGCTCAAA
* *
38530817 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGT-CACGCTGAGGTATTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTAAATTT
38530881 CTGTTTTTC
66 CTGTTTTTC
38530890 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTAAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTAAA
38530955 TTTCTGTTTTTC
63 TTTCTGTTTTTC
* * * * * *
38530967 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC-CTGAGTCCTATGCCGAGGTGTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCC-ACGCTGAGGT-ATTTTAAA
*
38531031 TTTCTATTTTTC
63 TTTCTGTTTTTC
**
38531043 AAAGTTCAACTCATA
1 AAAAATCAACTCATA
38531058 ATCTGAAAAG
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
74 2 0.01
75 87 0.58
76 29 0.19
77 31 0.21
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTAAATTT
CTGTTTTTC
Found at i:38531431 original size:30 final size:29
Alignment explanation
Indices: 38531392--38531567 Score: 130
Period size: 30 Copynumber: 5.9 Consensus size: 29
38531382 CAAAAAAATA
38531392 TAAATTACATTTTGGCCCCTAAACTTTTC
1 TAAATTACATTTTGGCCCCTAAACTTTTC
* **
38531421 CAAATTTACATTTTAACCCCT-AACATTTTC
1 TAAA-TTACATTTTGGCCCCTAAAC-TTTTC
* * * *
38531451 TAAACTTGCATCTTGACCCCTAATA-TTTTG
1 TAAA-TTACATTTTGGCCCCTAA-ACTTTTC
*
38531481 TAAATTACATTTGGGCCCCTAAAC-TTTC
1 TAAATTACATTTTGGCCCCTAAACTTTTC
38531509 TAAAAATTACATTTTGG-CCC-AATA-TTTTC
1 T--AAATTACATTTTGGCCCCTAA-ACTTTTC
* *
38531538 TTGAAATTACATTTTTGCCCCAGAAACTTT
1 -T-AAATTACATTTTGGCCCC-TAAACTTT
38531568 GCGCCCTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
28 7 0.06
29 41 0.35
30 60 0.52
31 2 0.02
32 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (29 bp):
TAAATTACATTTTGGCCCCTAAACTTTTC
Found at i:38531743 original size:23 final size:24
Alignment explanation
Indices: 38531699--38531743 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
38531689 GAAGACAAGG
*
38531699 AAAAGAAGACAAATTTGAAAGATT
1 AAAAGAAGACAAAATTGAAAGATT
38531723 AAAAGAAGA-AAAATTGAAAGA
1 AAAAGAAGACAAAATTGAAAGA
38531744 GAATAGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAAGAAGACAAAATTGAAAGATT
Found at i:38532303 original size:24 final size:24
Alignment explanation
Indices: 38532269--38532331 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
38532259 ATAAGAAGAG
38532269 AAAAAGCAAAGTAGAAAAAAAGAAA
1 AAAAAG-AAAGTAGAAAAAAAGAAA
* * **
38532294 AAAAAGAAAGGAGCAAAGCAGAAA
1 AAAAAGAAAGTAGAAAAAAAGAAA
*
38532318 AAAATGAAA-TAGAA
1 AAAAAGAAAGTAGAA
38532332 GCAGGCCATA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 3 0.10
24 22 0.71
25 6 0.19
ACGTcount: A:0.71, C:0.05, G:0.19, T:0.05
Consensus pattern (24 bp):
AAAAAGAAAGTAGAAAAAAAGAAA
Found at i:38533020 original size:18 final size:18
Alignment explanation
Indices: 38532993--38533038 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
38532983 ATAATAATCG
38532993 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
*
38533010 TGTTCTC-AAAATTTCTCG
1 TGTT-TCAAAAATTTCTCA
38533028 TGTTTCAAAAA
1 TGTTTCAAAAA
38533039 AATAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:38533106 original size:17 final size:17
Alignment explanation
Indices: 38533080--38533452 Score: 122
Period size: 18 Copynumber: 20.9 Consensus size: 17
38533070 TTAAAAAAAG
38533080 AAAA-TTCCGTGTTTCA
1 AAAATTTCCGTGTTTCA
*
38533096 AAAATTTCCGTGTTTTTAAA
1 AAAATTTCCGTG--TTT-CA
38533116 AAAATTTCCGTGTTTCA
1 AAAATTTCCGTGTTTCA
*
38533133 AAAA-ATCCTGTGTTTTCA
1 AAAATTTCC-GTG-TTTCA
* *
38533151 AAAATTTTCGTGTTTTA
1 AAAATTTCCGTGTTTCA
* * * **
38533168 GAAATTTTCGTTTTTTTTT
1 AAAATTTCCG--TGTTTCA
*
38533187 TAAATTT--GTGTTTTC-
1 AAAATTTCCGTG-TTTCA
* * **
38533202 AAAATTTCTGGTGATAAA
1 AAAATTTC-CGTGTTTCA
38533220 AAAATTT-CGTGTTTCA
1 AAAATTTCCGTGTTTCA
* *
38533236 AAAA-TCCTCATGTTTTCTA
1 AAAATTTC-CGTG-TTTC-A
* *
38533255 AAAA-TGCCAGTGTTTTA
1 AAAATTTCC-GTGTTTCA
*
38533272 AAAATTTTCGTGTTTTCCA
1 AAAATTTCCGTG-TTT-CA
*
38533291 AAAATTT-CATGTTTTCAAA
1 AAAATTTCCGTG-TTTC--A
38533310 GAAAATTT-CGTGTTTCA
1 -AAAATTTCCGTGTTTCA
*
38533327 AAAA-TCCTCGTGTTTTCA
1 AAAATTTC-CGTG-TTTCA
* * *
38533345 AAAAATGCCGGTGTTTTA
1 AAAATTTCC-GTGTTTCA
*
38533363 AAAATTTTCGTGTTTTCTA
1 AAAATTTCCGTG-TTTC-A
**
38533382 AAAATTTTTTGTGTTTCAAA
1 AAAA-TTTCCGTGTTTC--A
*
38533402 AAAATTT-CATGTTTTCA
1 AAAATTTCCGTG-TTTCA
*
38533419 AAACATTCCCGTGTTTTCA
1 AAA-ATTTCCGTG-TTTCA
*
38533438 AAAATTTTCGTGTTT
1 AAAATTTCCGTGTTT
38533453 TCAACAATTC
Statistics
Matches: 275, Mismatches: 45, Indels: 73
0.70 0.11 0.19
Matches are distributed among these distances:
15 9 0.03
16 23 0.08
17 57 0.21
18 80 0.29
19 71 0.26
20 35 0.13
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAATTTCCGTGTTTCA
Found at i:38533136 original size:20 final size:20
Alignment explanation
Indices: 38533074--38533137 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
38533064 GTTTTTTTAA
*
38533074 AAAAAGAAAATTCCGTGTTTC
1 AAAAA-AAATTTCCGTGTTTC
*
38533095 ---AAAAATTTCCGTGTTTT
1 AAAAAAAATTTCCGTGTTTC
*
38533112 TAAAAAAATTTCCGTGTTTC
1 AAAAAAAATTTCCGTGTTTC
38533132 AAAAAA
1 AAAAAA
38533138 TCCTGTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 13 0.36
18 2 0.06
20 21 0.58
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAAAAAATTTCCGTGTTTC
Found at i:38533257 original size:19 final size:17
Alignment explanation
Indices: 38533231--38533456 Score: 75
Period size: 19 Copynumber: 12.4 Consensus size: 17
38533221 AAATTTCGTG
38533231 TTTCAAAAATCCTCATGT
1 TTTCAAAAAT-CTCATGT
38533249 TTTCTAAAAATGC-CAGTGT
1 TTTC-AAAAAT-CTCA-TGT
* *
38533268 TTT-AAAAATTTTCGTGT
1 TTTCAAAAA-TCTCATGT
*
38533285 TTTCCAAAAATTTCATGT
1 TTT-CAAAAATCTCATGT
* *
38533303 TTTCAAAGAAAATTTCGTG-
1 TTTC--A-AAAATCTCATGT
*
38533322 TTTCAAAAATCCTCGTGT
1 TTTCAAAAAT-CTCATGT
*
38533340 TTTCAAAAAATGC-CGGTGT
1 TTTC-AAAAAT-CTC-ATGT
* *
38533359 TTT-AAAAATTTTCGTGT
1 TTTCAAAAA-TCTCATGT
* **
38533376 TTTCTAAAAATTTTTTGT
1 TTTC-AAAAATCTCATGT
*
38533394 GTTTCAAAAAAATTTCATGT
1 -TTTC--AAAAATCTCATGT
* *
38533414 TTTCAAAACATTCCCGTGT
1 TTTCAAAA-A-TCTCATGT
* *
38533433 TTTCAAAAATTTTCGTGT
1 TTTCAAAAA-TCTCATGT
38533451 TTTCAA
1 TTTCAA
38533457 CAATTCTCGC
Statistics
Matches: 169, Mismatches: 18, Indels: 42
0.74 0.08 0.18
Matches are distributed among these distances:
16 5 0.03
17 34 0.20
18 46 0.27
19 63 0.37
20 21 0.12
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTCAAAAATCTCATGT
Found at i:38533316 original size:20 final size:19
Alignment explanation
Indices: 38533291--38533328 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38533281 GTGTTTTCCA
38533291 AAAATTTCATGTTTTCAAAG
1 AAAATTTCATG-TTTCAAAG
*
38533311 AAAATTTCGTGTTTCAAA
1 AAAATTTCATGTTTCAAA
38533329 AATCCTCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (19 bp):
AAAATTTCATGTTTCAAAG
Found at i:38533325 original size:91 final size:90
Alignment explanation
Indices: 38533217--38533442 Score: 330
Period size: 91 Copynumber: 2.5 Consensus size: 90
38533207 TTCTGGTGAT
*
38533217 AAAAAAATTTCGTGTTTCAAAAATCCTCATGTTTTCTAAAAATGCCAGTGTTTTAAAAATTTTCG
1 AAAAAAATTTCGTGTTTCAAAAATCCTCGTGTTTTC-AAAAATGCCAGTGTTTTAAAAATTTTCG
38533282 TGTTTTCCAAAAATTTCATGT-TTTC
65 TGTTTTCCAAAAATTTCATGTGTTTC
*
38533307 AAAGAAAATTTCGTGTTTCAAAAATCCTCGTGTTTTCAAAAAATGCCGGTGTTTTAAAAATTTTC
1 AAA-AAAATTTCGTGTTTCAAAAATCCTCGTGTTTTC-AAAAATGCCAGTGTTTTAAAAATTTTC
* **
38533372 GTGTTTTCTAAAAATTTTTTGTGTTTC
64 GTGTTTTCCAAAAATTTCATGTGTTTC
*
38533399 AAAAAAATTTCATGTTTTCAAAACATTCC-CGTGTTTTCAAAAAT
1 AAAAAAATTTCGTG-TTTCAAAA-A-TCCTCGTGTTTTCAAAAAT
38533443 TTTCGTGTTT
Statistics
Matches: 124, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
90 3 0.02
91 87 0.70
92 21 0.17
93 10 0.08
94 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (90 bp):
AAAAAAATTTCGTGTTTCAAAAATCCTCGTGTTTTCAAAAATGCCAGTGTTTTAAAAATTTTCGT
GTTTTCCAAAAATTTCATGTGTTTC
Found at i:38533433 original size:37 final size:36
Alignment explanation
Indices: 38533080--38533488 Score: 159
Period size: 36 Copynumber: 11.4 Consensus size: 36
38533070 TTAAAAAAAG
* * *
38533080 AAAATTCCGTG-TTTC-AAAAATTTCCGTGTTTTTAAA
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTG--TTTCAA
*
38533116 AAAATTTCCGTG-TTTCAAAAAA-TCCTGTGTTTTCAA
1 AAAATTT-CGTGTTTTCAAAAAATTCCCGTG-TTTCAA
* * ** * ***
38533152 AAATTTTCGTGTTTT--AGAAATTTTCGTTTTTTTTT
1 AAAATTTCGTGTTTTCAAAAAATTCCCG-TGTTTCAA
* * ** * *
38533187 TAAATTT-GTGTTTTC-AAAATTTCTGGTG-ATAAA
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
* *
38533220 AAAATTTCGTG-TTTC-AAAAA-TCCTCATGTTTTCTA
1 AAAATTTCGTGTTTTCAAAAAATTCC-CGTG-TTTCAA
** ** *
38533255 AAAATGCCAGTGTTTT--AAAAATTTTCGTGTTTTCCA
1 AAAATTTC-GTGTTTTCAAAAAATTCCCGTG-TTTCAA
* *
38533291 AAAATTTCATGTTTTCAAAGAAAATT-TCGTGTTTC-A
1 AAAATTTCGTGTTTTC-AA-AAAATTCCCGTGTTTCAA
* * * *
38533327 AAAATCCTCGTGTTTTCAAAAAATGCCGGTGTTTTAA
1 AAAAT-TTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
* * ***
38533364 AAATTTTCGTGTTTTCTAAAAATTTTTTGTGTTTCAAA
1 AAAATTTCGTGTTTTC-AAAAAATTCCCGTGTTTC-AA
* *
38533402 AAAATTTCATGTTTTCAAAACATTCCCGTGTTTTCAA
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTG-TTTCAA
* * * ** *
38533439 AAATTTTCGTGTTTTC-AACAATTCTCGCATTTCAC
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
*
38533474 AAATTTTCGTGTTTT
1 AAAATTTCGTGTTTT
38533489 AATTTTTTTT
Statistics
Matches: 280, Mismatches: 70, Indels: 47
0.71 0.18 0.12
Matches are distributed among these distances:
32 2 0.01
33 17 0.06
34 15 0.05
35 60 0.21
36 77 0.28
37 72 0.26
38 31 0.11
39 6 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (36 bp):
AAAATTTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
Found at i:38533453 original size:18 final size:18
Alignment explanation
Indices: 38533087--38533626 Score: 260
Period size: 17 Copynumber: 30.8 Consensus size: 18
38533077 AAGAAAATTC
*
38533087 CGTG-TTTCAAAAATTTC
1 CGTGTTTTCAAAAATTTT
* *
38533104 CGTGTTTTTAAAAAAATTTC
1 CGTG-TTTT-CAAAAATTTT
* *
38533124 CGTG-TTTCAAAAA-ATC
1 CGTGTTTTCAAAAATTTT
38533140 CTGTGTTTTCAAAAATTTT
1 C-GTGTTTTCAAAAATTTT
*
38533159 CGTGTTTT-AGAAATTTT
1 CGTGTTTTCAAAAATTTT
* ***
38533176 CGTTTTTTTTTTAAA-TTT
1 CG-TGTTTTCAAAAATTTT
38533194 -GTGTTTTC-AAAA-TTT
1 CGTGTTTTCAAAAATTTT
** * *
38533209 C-TGGTGATAAAAAAATTT
1 CGT-GTTTTCAAAAATTTT
**
38533227 CGTG-TTTCAAAAATCCT
1 CGTGTTTTCAAAAATTTT
* **
38533244 CATGTTTTCTAAAAA-TGC
1 CGTGTTTTC-AAAAATTTT
38533262 CAGTGTTTT-AAAAATTTT
1 C-GTGTTTTCAAAAATTTT
38533280 CGTGTTTTCCAAAAA-TTT
1 CGTGTTTT-CAAAAATTTT
* *
38533298 CATGTTTTCAAAGAAAATTT
1 CGTGTTTTC-AA-AAATTTT
**
38533318 CGTG-TTTCAAAAATCCT
1 CGTGTTTTCAAAAATTTT
* **
38533335 CGTGTTTTCAAAAAATGC
1 CGTGTTTTCAAAAATTTT
38533353 CGGTGTTTT-AAAAATTTT
1 C-GTGTTTTCAAAAATTTT
38533371 CGTGTTTTCTAAAAATTTT
1 CGTGTTTTC-AAAAATTTT
* *
38533390 -TTGTGTTTCAAAAAAATTT
1 CGTGT-TTTC-AAAAATTTT
* **
38533409 CATGTTTTCAAAACATTCC
1 CGTGTTTTCAAAA-ATTTT
38533428 CGTGTTTTCAAAAATTTT
1 CGTGTTTTCAAAAATTTT
* *
38533446 CGTGTTTTCAACAATTCT
1 CGTGTTTTCAAAAATTTT
** *
38533464 CG-CATTTCACAAATTTT
1 CGTGTTTTCAAAAATTTT
38533481 CGTGTTTT----AA-TTT
1 CGTGTTTTCAAAAATTTT
*
38533494 --T-TTTTCACAAATTTT
1 CGTGTTTTCAAAAATTTT
***
38533509 CGTGTTTT-AATTTTTTT
1 CGTGTTTTCAAAAATTTT
* * * * *
38533526 TGTCTTTTTAAAAAAAATCT
1 CGT-GTTTT-CAAAAATTTT
*
38533546 CGTG-TTTCAAAAATTGT
1 CGTGTTTTCAAAAATTTT
*
38533563 CTTGTTTT-AAAAATTTT
1 CGTGTTTTCAAAAATTTT
* *
38533580 CGTG-TTTCTAAAATTTC
1 CGTGTTTTCAAAAATTTT
*
38533597 CGTGTTTT-AAAAATTCT
1 CGTGTTTTCAAAAATTTT
38533614 CGTGTTTT-AAAAA
1 CGTGTTTTCAAAAA
38533627 AAATTCTCGT
Statistics
Matches: 396, Mismatches: 83, Indels: 88
0.70 0.15 0.16
Matches are distributed among these distances:
10 4 0.01
11 1 0.00
13 3 0.01
14 4 0.01
15 10 0.03
16 14 0.04
17 136 0.34
18 118 0.30
19 78 0.20
20 28 0.07
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.47
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTT
Found at i:38533500 original size:28 final size:28
Alignment explanation
Indices: 38533468--38533526 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
38533458 AATTCTCGCA
38533468 TTTCACAAATTTTCGTGTTTTAATTTTT
1 TTTCACAAATTTTCGTGTTTTAATTTTT
38533496 TTTCACAAATTTTCGTGTTTTAATTTTT
1 TTTCACAAATTTTCGTGTTTTAATTTTT
38533524 TTT
1 TTT
38533527 GTCTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (28 bp):
TTTCACAAATTTTCGTGTTTTAATTTTT
Found at i:38533644 original size:17 final size:17
Alignment explanation
Indices: 38533536--38533646 Score: 98
Period size: 17 Copynumber: 6.4 Consensus size: 17
38533526 TGTCTTTTTA
*
38533536 AAAAAAATCTCGTGTTT
1 AAAAAATTCTCGTGTTT
* * *
38533553 CAAAAATTGTCTTGTTT
1 AAAAAATTCTCGTGTTT
* *
38533570 TAAAAATTTTCGTGTTT
1 AAAAAATTCTCGTGTTT
**
38533587 CTAAAATT-TCCGTGTTT
1 AAAAAATTCT-CGTGTTT
*
38533604 TAAAAATTCTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
38533622 AAAAAAAATTCTCGTGTTT
1 --AAAAAATTCTCGTGTTT
38533641 AAAAAA
1 AAAAAA
38533647 AACCTTTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
16 1 0.01
17 56 0.73
18 4 0.05
19 3 0.04
20 13 0.17
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (17 bp):
AAAAAATTCTCGTGTTT
Found at i:38537792 original size:17 final size:17
Alignment explanation
Indices: 38537765--38537882 Score: 57
Period size: 17 Copynumber: 7.7 Consensus size: 17
38537755 CCGATATAAT
* * *
38537765 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
38537782 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
**
38537799 AAATATTTTTAA-AAT-
1 AAATATTTTTAATTTTA
38537814 AAAT-TTTTT-A--TT-
1 AAATATTTTTAATTTTA
*
38537826 --ATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
38537841 AAATA--CTT--TT-TA
1 AAATATTTTTAATTTTA
38537853 AAATACTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
38537871 AAATATTTTTAA
1 AAATATTTTTAA
38537883 AATACTTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 26
0.68 0.10 0.23
Matches are distributed among these distances:
10 2 0.03
11 5 0.06
12 9 0.12
13 3 0.04
14 7 0.09
15 8 0.10
16 1 0.01
17 35 0.45
18 7 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:38537821 original size:13 final size:11
Alignment explanation
Indices: 38537794--38537892 Score: 54
Period size: 12 Copynumber: 9.4 Consensus size: 11
38537784 ATTTTTTTAA
38537794 TTTTAAAATAT
1 TTTTAAAATAT
38537805 TTTTAAAATAAAT
1 TTTTAAAAT--AT
* *
38537818 TTTT-TATTAT
1 TTTTAAAATAT
* *
38537828 TTTT---TTAA
1 TTTTAAAATAT
38537836 TTTTAAAATACT
1 TTTTAAAATA-T
38537848 TTTTAAAATACT
1 TTTTAAAATA-T
38537860 TTTT---A-A-
1 TTTTAAAATAT
38537866 TTTTAAAATAT
1 TTTTAAAATAT
38537877 TTTTAAAATACT
1 TTTTAAAATA-T
38537889 TTTT
1 TTTT
38537893 TTAATTTTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
6 4 0.06
8 8 0.11
9 2 0.03
10 7 0.10
11 21 0.30
12 23 0.32
13 6 0.08
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:38537822 original size:42 final size:43
Alignment explanation
Indices: 38537775--38537857 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 43
38537765 AAATATATTT
38537775 ATTTTTTA-AATTTTTTTAATTTTAAAATA-TTTTTAAAATAA
1 ATTTTTTATAATTTTTTTAATTTTAAAATACTTTTTAAAATAA
*
38537816 ATTTTTTATTATTTTTTTAATTTTAAAATACTTTTTAAAATA
1 ATTTTTTATAATTTTTTTAATTTTAAAATACTTTTTAAAATA
38537858 CTTTTTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 8 0.21
42 20 0.51
43 11 0.28
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (43 bp):
ATTTTTTATAATTTTTTTAATTTTAAAATACTTTTTAAAATAA
Found at i:38537840 original size:31 final size:29
Alignment explanation
Indices: 38537805--38537907 Score: 107
Period size: 30 Copynumber: 3.3 Consensus size: 29
38537795 TTTAAAATAT
*
38537805 TTTTAAAATAAATTTTTTATTATTTTTTTAA
1 TTTTAAAAT--ATTTTTTAATATTTTTTTAA
* * *
38537836 TTTTAAAATACTTTTTAAAATACTTTTTAA
1 TTTTAAAATATTTTTTAATAT-TTTTTTAA
*
38537866 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTT-TAATA-TTTTTTTAA
38537897 TTTTTAAAATA
1 -TTTTAAAATA
38537908 AATTTTTGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
29 9 0.15
30 21 0.35
31 19 0.32
32 11 0.18
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTAAAATATTTTTTAATATTTTTTTAA
Found at i:38537851 original size:12 final size:12
Alignment explanation
Indices: 38537836--38537892 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
38537826 ATTTTTTTAA
38537836 TTTTAAAATACT
1 TTTTAAAATACT
38537848 TTTTAAAATACT
1 TTTTAAAATACT
38537860 TTTT---A-A--
1 TTTTAAAATACT
38537866 TTTTAAAATA-T
1 TTTTAAAATACT
38537877 TTTTAAAATACT
1 TTTTAAAATACT
38537889 TTTT
1 TTTT
38537893 TTAATTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 4 0.10
8 1 0.03
9 2 0.05
10 1 0.03
11 10 0.26
12 21 0.54
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:38537863 original size:30 final size:30
Alignment explanation
Indices: 38537828--38537907 Score: 126
Period size: 30 Copynumber: 2.6 Consensus size: 30
38537818 TTTTTATTAT
38537828 TTTTTTAATTTTAAAATACTTTTTAAAATAC
1 TTTTTTAATTTTAAAATA-TTTTTAAAATAC
38537859 -TTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
38537888 TTTTTTTAATTTTTAAAATA
1 -TTTTTTAA-TTTTAAAATA
38537908 AATTTTTGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
29 12 0.26
30 17 0.37
31 7 0.15
32 10 0.22
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:38537913 original size:21 final size:21
Alignment explanation
Indices: 38537875--38537914 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38537865 ATTTTAAAAT
**
38537875 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
38537896 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
38537915 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:38537921 original size:22 final size:21
Alignment explanation
Indices: 38537874--38537932 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
38537864 AATTTTAAAA
* *
38537874 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
38537894 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
38537917 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
38537933 GGGCAAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:38538674 original size:16 final size:17
Alignment explanation
Indices: 38538655--38538687 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
38538645 TTTTTTCAAT
38538655 TTTATTTTT-ATTTTTA
1 TTTATTTTTAATTTTTA
38538671 TTTATTTTTAATTTTTA
1 TTTATTTTTAATTTTTA
38538688 AAAGTTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTAATTTTTA
Found at i:38540317 original size:41 final size:40
Alignment explanation
Indices: 38540272--38540360 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
38540262 AGCGGTACTT
*
38540272 TTAGCGG-AGTTTGGACAAAAAACGCCAC-TAATAATCGAGCA
1 TTAGCGGCA-TTT-GACAAAAAACGCCACAAAAT-ATCGAGCA
* * *
38540313 TTAGCGGCATTTTACGAAAAACGCCGCAAAATATCGAGCA
1 TTAGCGGCATTTGACAAAAAACGCCACAAAATATCGAGCA
38540353 TTAGCGGC
1 TTAGCGGC
38540361 GCTACATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 28 0.67
41 13 0.31
42 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (40 bp):
TTAGCGGCATTTGACAAAAAACGCCACAAAATATCGAGCA
Found at i:38540813 original size:114 final size:113
Alignment explanation
Indices: 38540399--38540972 Score: 896
Period size: 113 Copynumber: 5.1 Consensus size: 113
38540389 AGCATTAGCA
*
38540399 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * * *
38540464 ATTAGCGGCGGTTTTTCCCAAGCGCCACTAAAACTCCGTTCTTCAGCG
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
* *
38540512 GCGTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * * *
38540577 ATTAGCGGCGGTTTTTCCCAAGCGCCACTAAAACTCCGTTCTTCAGCG
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
* *
38540625 GCGTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * *
38540690 ATTAGTGGCAGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCT
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
*
38540738 GCGTTTTACAAAAAGCGTCGCAAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
1 GCGTTTTACAAAAAGCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * *
38540803 CATTAGTGGCAGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCT
65 CATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
*
38540852 GCGTTTTACAAAAAGCGTCGCAAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
1 GCGTTTTACAAAAAGCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * * *
38540917 CACTAGTGGCGGTTTTTGCCCAAACGCCGCTAATAATCCGTTCTTCAACG
65 CATTAGTGGCGG-TTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
38540967 GCGTTT
1 GCGTTT
38540973 GGCGTTAAGC
Statistics
Matches: 439, Mismatches: 20, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
113 235 0.54
114 166 0.38
115 38 0.09
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (113 bp):
GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
Found at i:38541143 original size:41 final size:41
Alignment explanation
Indices: 38541065--38541174 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 41
38541055 TTTAATAAAC
* * * * *
38541065 CGCCGCTGATGCTCCGCTCTAAAGCGGCGTTTATGGAG-AG
1 CGCCGCTAATGTTCCGGTCTATAGCGGCGTTCATGGAGAAG
*
38541105 TCGCCGCTAATGTTCCGGTCTATAGCGGCGTTCCTGGAGAAG
1 -CGCCGCTAATGTTCCGGTCTATAGCGGCGTTCATGGAGAAG
* * *
38541147 CGCCGGTAACTCTT-GGGTCTATAGCGGC
1 CGCCGCTAA-TGTTCCGGTCTATAGCGGC
38541175 ATTTGTGTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
41 53 0.91
42 5 0.09
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (41 bp):
CGCCGCTAATGTTCCGGTCTATAGCGGCGTTCATGGAGAAG
Found at i:38543351 original size:796 final size:785
Alignment explanation
Indices: 38541658--38543450 Score: 3060
Period size: 796 Copynumber: 2.3 Consensus size: 785
38541648 CAAAATATGT
* * * * *
38541658 AACCGAAACGACTTCGTTTTTATACTGTTTTACTAGTATTAGCGGCGTTTTTTGTAAAAACGCCG
1 AACCGAAACGACTTTGTTTTTACACTG-TTTATTGGTATTAGCGGCG-TTTTTGTAAAAATGCCG
* *
38541723 CAAATGAAAGTTATGTATTTTAGGGTTTTGGGATTAATATTTAAGTTTTGTTGTATACGGTTTGG
64 CAAATGAAAGTTATGTATTTTAGGGTTTTGGGATTAATATTTAAGTTTTGTTGCATATGGTTTGG
*
38541788 GGTTTTAGGGTTTGATACATAATGTTTATTAATTTAGGATTACAATTTTATGTTTAGGGTTTTGG
129 GGTTTTAGGGTTTGATACATAATGTTTATTAATTTAGGATTATAATTTTATGTTTAGGGTTTTGG
38541853 GTTTAGGTTTACGGCTTGAGGAATAGGGTTTAGGGTTTGAGTTTACATGTTAGTTTTAATGCGAG
194 GTTTAGGTTTACGGCTTGAGGAATAGGGTTTAGGGTTTGAGTTTACATGTTAGTTTTAATGCGAG
* * *
38541918 GTTTACGGCTTATAAGATATATTAATGATCAAATTTATTGTTTTACAGCTTGATGTTTATGGTTT
259 GTTTACGGCTTATAAGATATATTAATGATAAAATTTACTGTTTTACAACTTGATGTTTATGGTTT
* * * **
38541983 ATGGTTTACCCTTATTGATTTGAATGTTACAATGCTTGGTTTTTGTGTTCGGATTTGCATGAAGA
324 ATGGTTCACACGTATTGATTTGAATGTTACAATGCTTGGTTTTTGCCTTCGGATTTGCATGAAGA
**
38542048 ATATGAGGTAGCTAGGGTTTAGCCCTTTAATTTTAATGTTTACGGGTTATAGGGATTAATAGCTT
389 ATACAAGGTAGCTAGGGTTTAGCCCTTTAATTTTAATGTTTACGGGTTATAGGGATTAATAGCTT
*
38542113 CGGGTTTTAGGGTACAAAAGCAAAAAAAAAAATTAAAATTAGATGAACTTTTTACTTCTTATTAT
454 CGGGTTTTAGGGTACAAAACCAAAAAAAAAAATT--AATTAGATG-ACTTTTTACTTCTTATTAT
38542178 GTCACTAGTATATAGGATTATAAGAGACAGGGTTATATATATAATATGCCACGATATGCATATAT
516 GTCACTAGTATATAGGATTATAAGAGACAGGGTTATATATATAATATGCCACGATATGCATATAT
*
38542243 ATATGTTATATATTATACATATACTGCATAAAATTGAAATAATTTTATAAATTCATATTGATGTA
581 ATATGTTATATATTATACATATACTGCATAAAATTGAAATAATTTTATAAATGCATATTGATGTA
38542308 TCAATTTAAAATAATGTCATAACAATTATAAAAATAAAAAATCTACTAAAAATCATTAGACTTAT
646 TCAATTTAAAATAATGTCATAACAATTATAAAAATAAAAAATCTACTAAAAATCATTAGACTTAT
38542373 AAATAAAGACAAATAAAATAAATTGAAAAATTAGCAGCGTTTATACAGAAAACGCCGCTGTAGAA
711 AAATAAAGACAAATAAAATAAATTGAAAAATTAGCAGCGTTTATACAGAAAACGCCGCTGTAGAA
38542438 CAAGATTTGG
776 CAAGATTTGG
38542448 AACCGAAACGACTTTGTTTTTACACTGTTTATTGGTATTAGCGGCGTTTTTGTAAAAATGCCGCA
1 AACCGAAACGACTTTGTTTTTACACTGTTTATTGGTATTAGCGGCGTTTTTGTAAAAATGCCGCA
38542513 AATGAAAGTTATGTATTTTAGGGTTTTGGGATTAATATTTAAGTTTTGTTGCATATGGTTTGGGG
66 AATGAAAGTTATGTATTTTAGGGTTTTGGGATTAATATTTAAGTTTTGTTGCATATGGTTTGGGG
38542578 TTTTAGGGTTTGATACATAATGTTTATTAATTTAGGATTATAATTTTATGTTTAGGGTTTTGGGT
131 TTTTAGGGTTTGATACATAATGTTTATTAATTTAGGATTATAATTTTATGTTTAGGGTTTTGGGT
*
38542643 TTAGGTTTACGGCTTGAGGAATGGGGTTTAGGGTTTGAGTTTACATGTTAGTTTTAATGCGAGGT
196 TTAGGTTTACGGCTTGAGGAATAGGGTTTAGGGTTTGAGTTTACATGTTAGTTTTAATGCGAGGT
*
38542708 TTACGGCTTATAAGATGTATTAATGATAAAATTTACTGTTTTACAACTTGATGTTTATGGTTTAT
261 TTACGGCTTATAAGATATATTAATGATAAAATTTACTGTTTTACAACTTGATGTTTATGGTTTAT
***
38542773 GGTTCACACGTATTGATTTGAATGTTACAATGCTTGGTTTTTGCCTTCGGATTTGCATGAATTTT
326 GGTTCACACGTATTGATTTGAATGTTACAATGCTTGGTTTTTGCCTTCGGATTTGCATGAAGAAT
*
38542838 ACAAGTTAGCTAGGGTTTAG-CCTTTAATTTTAATGTTTACGGGTTATAGGGATTAATAGCTTCG
391 ACAAGGTAGCTAGGGTTTAGCCCTTTAATTTTAATGTTTACGGGTTATAGGGATTAATAGCTTCG
* **
38542902 GGTTTTAGGGTACAAAACCAAAAAAAAAAATT-CTT-TCTG-CTTTTTACTTCTTATTATATATG
456 GGTTTTAGGGTACAAAACCAAAAAAAAAAATTAATTAGATGACTTTTTACTTC---TTAT-TATG
38542964 TCACTAGTATATAGGATTATAAGTA-ACAGGGTTATATATATAATATATGCCACGATATATATCT
517 TCACTAGTATATAGGATTATAAG-AGACAGGGTTATATATAT-A-ATATGCCACG------A--T
*
38543028 ATGCATATATATATGTTATAT-TATATATATAGTACTGCATAAAATTGAAATAATTTTATAAATG
571 ATGCATATATATATGTTATATAT-TATACATA-TACTGCATAAAATTGAAATAATTTTATAAATG
38543092 CATATT-ACTGTATCAATTTAAAATAATGTCATAACAATTATAAAAATAAAAAATCTACTAAAAA
634 CATATTGA-TGTATCAATTTAAAATAATGTCATAACAATTATAAAAATAAAAAATCTACTAAAAA
38543156 TCATTAGACTTATAAATAAAGACAAATAAAATAAATTGAAAAATTAGCAGCGTTTATACAGAAAA
698 TCATTAGACTTATAAATAAAGACAAATAAAATAAATTGAAAAATTAGCAGCGTTTATACAGAAAA
38543221 CGCCGCTGTAGAACAAGATTTGG
763 CGCCGCTGTAGAACAAGATTTGG
38543244 AACCGAAACGACTTTGTTTTTACACTGTTTATTGGTATTAGCGGCGTTTTTGTAAAAATGCCGCA
1 AACCGAAACGACTTTGTTTTTACACTGTTTATTGGTATTAGCGGCGTTTTTGTAAAAATGCCGCA
38543309 AATGAAAGTTATGTATTTTAGGGTTTTGGGATTAATATTTAAGTTTTGTTGCATATGGTTTGGGG
66 AATGAAAGTTATGTATTTTAGGGTTTTGGGATTAATATTTAAGTTTTGTTGCATATGGTTTGGGG
38543374 TTTTAGGGTTTGATACATAATGTTTATTAATTTAGGATTATAATTTTATGTTTAGGGTTTTGGGT
131 TTTTAGGGTTTGATACATAATGTTTATTAATTTAGGATTATAATTTTATGTTTAGGGTTTTGGGT
38543439 TTAGGTTTACGG
196 TTAGGTTTACGG
38543451 TTGTTAATGT
Statistics
Matches: 955, Mismatches: 30, Indels: 30
0.94 0.03 0.03
Matches are distributed among these distances:
781 11 0.01
783 2 0.00
784 6 0.01
785 43 0.05
786 2 0.00
787 85 0.09
788 344 0.36
789 17 0.02
790 25 0.03
793 1 0.00
794 1 0.00
795 30 0.03
796 388 0.41
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (785 bp):
AACCGAAACGACTTTGTTTTTACACTGTTTATTGGTATTAGCGGCGTTTTTGTAAAAATGCCGCA
AATGAAAGTTATGTATTTTAGGGTTTTGGGATTAATATTTAAGTTTTGTTGCATATGGTTTGGGG
TTTTAGGGTTTGATACATAATGTTTATTAATTTAGGATTATAATTTTATGTTTAGGGTTTTGGGT
TTAGGTTTACGGCTTGAGGAATAGGGTTTAGGGTTTGAGTTTACATGTTAGTTTTAATGCGAGGT
TTACGGCTTATAAGATATATTAATGATAAAATTTACTGTTTTACAACTTGATGTTTATGGTTTAT
GGTTCACACGTATTGATTTGAATGTTACAATGCTTGGTTTTTGCCTTCGGATTTGCATGAAGAAT
ACAAGGTAGCTAGGGTTTAGCCCTTTAATTTTAATGTTTACGGGTTATAGGGATTAATAGCTTCG
GGTTTTAGGGTACAAAACCAAAAAAAAAAATTAATTAGATGACTTTTTACTTCTTATTATGTCAC
TAGTATATAGGATTATAAGAGACAGGGTTATATATATAATATGCCACGATATGCATATATATATG
TTATATATTATACATATACTGCATAAAATTGAAATAATTTTATAAATGCATATTGATGTATCAAT
TTAAAATAATGTCATAACAATTATAAAAATAAAAAATCTACTAAAAATCATTAGACTTATAAATA
AAGACAAATAAAATAAATTGAAAAATTAGCAGCGTTTATACAGAAAACGCCGCTGTAGAACAAGA
TTTGG
Found at i:38543738 original size:16 final size:16
Alignment explanation
Indices: 38543714--38543744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38543704 ATTTTCCCTA
38543714 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
38543730 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
38543745 CTCATAAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:38544916 original size:27 final size:27
Alignment explanation
Indices: 38544885--38544940 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
38544875 TTTAATAGAT
* *
38544885 AATTTTATTTGTATTAACAATTTTTAA
1 AATTTTAATTATATTAACAATTTTTAA
38544912 AATTTTAATTATATTAACAATTTTTAA
1 AATTTTAATTATATTAACAATTTTTAA
38544939 AA
1 AA
38544941 ATTACATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
AATTTTAATTATATTAACAATTTTTAA
Found at i:38544949 original size:27 final size:27
Alignment explanation
Indices: 38544896--38544955 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
38544886 ATTTTATTTG
*
38544896 TATTAACAATTTTTAAAATTTTAATTA
1 TATTAACAATTTTTAAAATATTAATTA
38544923 TATTAACAATTTTTAAAA-ATTACATTA
1 TATTAACAATTTTTAAAATATTA-ATTA
*
38544950 TTTTAA
1 TATTAA
38544956 TAAAAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTAACAATTTTTAAAATATTAATTA
Found at i:38545350 original size:14 final size:14
Alignment explanation
Indices: 38545328--38545367 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
38545318 TATGACACCA
*
38545328 AATATATTTTAAAC
1 AATAAATTTTAAAC
38545342 AATAAATTTTAAAC
1 AATAAATTTTAAAC
* *
38545356 ATTAAAGTTTAA
1 AATAAATTTTAA
38545368 TTTTAAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (14 bp):
AATAAATTTTAAAC
Found at i:38551459 original size:87 final size:87
Alignment explanation
Indices: 38551310--38551468 Score: 225
Period size: 87 Copynumber: 1.8 Consensus size: 87
38551300 GGCAACATCA
* *
38551310 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAGC
1 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATACGGCAGC
38551375 GAGAGAAACAGAGACAGCAGCG
66 GAGAGAAACAGAGACAGCAGCG
* * *
38551397 AGAGAAGCTGAGGTTCAACGAAAG-TATG-AGCAACTGCAGC-AGCAGCTTAAAGAAGATACGGC
1 AGAGAAGCTGAGGTTCAA-AAAAGATATGAAG-AACTCCAGCTA-CAACTTAAAGAAGATACGGC
38551459 AGCGAGAGAA
63 AGCGAGAGAA
38551469 GCAGCGGCTG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
86 3 0.05
87 57 0.89
88 4 0.06
ACGTcount: A:0.42, C:0.18, G:0.29, T:0.12
Consensus pattern (87 bp):
AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATACGGCAGC
GAGAGAAACAGAGACAGCAGCG
Found at i:38551490 original size:21 final size:21
Alignment explanation
Indices: 38551457--38551515 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
38551447 AGAAGATACG
* *
38551457 GCAGCGAGAGAAGCAGCGGCT
1 GCAGCGAGGGAAGCAGAGGCT
* *
38551478 GCAGTGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
38551499 GCAGCGAGGGAAGCAGA
1 GCAGCGAGGGAAGCAGA
38551516 ACAGCATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.46, T:0.07
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:38551742 original size:14 final size:14
Alignment explanation
Indices: 38551723--38551752 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38551713 TTATATAGAT
38551723 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
38551737 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
38551751 TT
1 TT
38551753 TCTTCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (14 bp):
TTGGTTAGATTTGG
Done.