Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 168 of 204
Found at i:50399602 original size:44 final size:45
Alignment explanation
Indices: 50399549--50399735 Score: 111
Period size: 44 Copynumber: 4.2 Consensus size: 45
50399539 ACAGTGGAAT
50399549 AGATTGAAGATTTCAGATCTTATCTCCCTAAG-CAGTAGTGGAGC
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGACAGTAGTGGAGC
* ** * * * * **
50399593 AGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA-TAGTGGAGC
1 AGATTGAAGATTTCAGATCTTATCTCCCTA-AGACAGTAGTGGAGC
* ** * * ** **
50399638 ACATTGAAG--CCCATAAT-TCTA-CTTCCCT-GGACAACAGTGGAAT
1 AGATTGAAGATTTCA-GATCT-TATC-TCCCTAAGACAGTAGTGGAGC
50399681 AGATTGAAGATTTCAGATCTTATCTCCCTAAG-CAGTAGTGGAGC
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGACAGTAGTGGAGC
*
50399725 AGATCGAAGAT
1 AGATTGAAGAT
50399736 GGTGGATTTT
Statistics
Matches: 103, Mismatches: 29, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
42 3 0.03
43 17 0.17
44 60 0.58
45 22 0.21
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
AGATTGAAGATTTCAGATCTTATCTCCCTAAGACAGTAGTGGAGC
Found at i:50399838 original size:132 final size:131
Alignment explanation
Indices: 50399190--50399795 Score: 1043
Period size: 132 Copynumber: 4.6 Consensus size: 131
50399180 TTGCATTGAC
* * *
50399190 AGTGGAGCAAATCGAAGATGGCGAATTTTACCTCCCTGTGGTTATAGTGAAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
50399255 GTAATTCTACTTCCCTGGCAACAGTGGAATAGATCGAAGATTTCAGATATTATCTCCCTAAGCAG
66 GTAATTCTACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
50399320 T
131 T
* *
50399321 AGTAGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAATACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
50399386 GTAATTCTACTTCCCTAGGCAACAGTGGAAAAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
50399451 GT
130 GT
*
50399453 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
50399518 GTAATTCTACTTCCCTGGTCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
50399583 GT
130 GT
* *
50399585 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTATAGTGGAGCACATTGAAGCCC
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAG-CC
50399650 A-TAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
65 AGTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
50399714 AGT
129 AGT
*
50399717 AGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
50399782 ATAATTTTACTTCC
66 GTAATTCTACTTCC
50399796 TTGAAGTTGC
Statistics
Matches: 451, Mismatches: 20, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
131 81 0.18
132 367 0.81
133 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
T
Found at i:50399845 original size:44 final size:44
Alignment explanation
Indices: 50399797--50400292 Score: 300
Period size: 44 Copynumber: 11.6 Consensus size: 44
50399787 TTTACTTCCT
* * *
50399797 TGAAGTTGCAGTGGAGCAGGTTAAAGCCGGTAATCCTATCTCGC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCTTATCTCCC
* * *
50399841 TGAAGTTGCAGTGG-GCGGATTAAAACC--TCAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGT-A-ATCTTATCTCCC
* * * *** *
50399884 TGAAGTTACAG-AGAGCAGA-T--CGCATCTACTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCTTATCTCCC
* * *
50399924 TGAAGTTGAAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCTTATCTCCC
* **
50399968 TGAAGTTGCAGTGG-GCAGATTAAAACC--TCAGATCTTATCTCTT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGT-A-ATCTTATCTCCC
* *** *
50400011 TGAAGTTGCAG-AGAGCAGATT---GCATCTAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCTTATCTCCC
* * ***
50400051 TGAAGTTGCAGTGAAGCAGACT-AAGTAAGTAAGTCTTATC-CTCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA-TCTTATCTC-CC
* * ** *
50400095 TGAAGTTGCAGTGGGGCAGACTGAAA-TTGGCAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGA-TTAAAGCCGGTAA-TCTTATCTCCC
* * *
50400140 TGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCTTATCTCCC
* * *
50400184 TGAAGTTGCAGTGGAGCGGATTAGAA-CC-TTAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTA-AAGCCGGTA-ATCTTATCTCCC
* * *** * *
50400228 TGAAGTTGTAG-AGAGCAGATCGCATCC---AGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCTTATCTCCC
* *
50400268 TGAAGTTGCAGTAGAGCAGACTAAA
1 TGAAGTTGCAGTGGAGCAGATTAAA
50400293 TAAGCAAGTC
Statistics
Matches: 351, Mismatches: 74, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
40 61 0.17
41 28 0.08
42 9 0.03
43 89 0.25
44 124 0.35
45 37 0.11
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCTTATCTCCC
Found at i:50399959 original size:127 final size:127
Alignment explanation
Indices: 50399797--50400114 Score: 478
Period size: 127 Copynumber: 2.5 Consensus size: 127
50399787 TTTACTTCCT
* *
50399797 TGAAGTTGCAGTGGAGCAGGTTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCAGATT
50399862 AAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTACTCTTATCTCCC
66 AAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTACTCTTATCTCCC
*
50399924 TGAAGTTGAAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCAGATT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCAGATT
* * * *
50399989 AAAACCTCAGATCTTATCTCTTTGAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCC
66 AAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTACTCTTATCTCCC
* * *** *
50400051 TGAAGTTGCAGTGAAGCAGACT-AAGTAAGTAAGTCTTATCCTC-CTGAAGTTGCAGTGGGGCAG
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA-TCCTAT-CTCGCTGAAGTTGCAGT-GGGCAG
50400114 A
63 A
50400115 CTGAAATTGG
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
126 7 0.04
127 157 0.90
128 10 0.06
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (127 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCAGATT
AAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTACTCTTATCTCCC
Found at i:50400290 original size:217 final size:216
Alignment explanation
Indices: 50399913--50400383 Score: 721
Period size: 217 Copynumber: 2.2 Consensus size: 216
50399903 TCGCATCTAC
* *
50399913 TCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
* * *
50399978 GTGGGCAGATTAAAACCTCAGATCTTATCTCTTTGAAGTTGCAGAGAGCAGATTGCATCTAGTCT
66 GTGGGCAGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAGTCT
* *
50400043 TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCAGTG
131 TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
* * * *
50400108 GGGCAGACTGAA-ATTGGCAAG
196 AGGCAAACTGAAGA-TAGCAAA
*
50400129 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
* * * *
50400194 GTGGAGCGGATTAGAACCTTAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCCAGTC
66 GTGG-GCAGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAGTC
50400259 TTATCTCCCTGAAGTTGCAGT-AGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAG
130 TTATCTCCCTGAAGTTGCAGTGA-AGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAG
50400323 TGAGGCAAACTGAAGATAGCAAA
194 TGAGGCAAACTGAAGATAGCAAA
* * * *
50400346 TCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTGAAGC
1 TCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGC
50400384 ATTAGTTCCT
Statistics
Matches: 232, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
216 67 0.29
217 164 0.71
218 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (216 bp):
TCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
GTGGGCAGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAGTCT
TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
AGGCAAACTGAAGATAGCAAA
Found at i:50400307 original size:44 final size:43
Alignment explanation
Indices: 50399913--50400372 Score: 268
Period size: 44 Copynumber: 10.6 Consensus size: 43
50399903 TCGCATCTAC
* * ** *
50399913 TCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCCGGTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA--TAGCAAG
* * * * *
50399957 TCCTATCTCGCTGAAGTTGCAGTGG-GCAGATTAAA-ACCTCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAGC-AAG
** * * ** *
50399999 ATCTTATCTCTTTGAAGTTGCAG-AGAGCAGATTGCAT--CTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAGCAAG
* * *
50400040 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGTAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAT-AGCAAG
* *
50400084 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAATTGGCAAG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAA-TAGCAAG
* * *
50400129 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTAA-AGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAG-C-A-AG
* * * * * *
50400173 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGA-ACCTTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAGC-AAG
* * * ** *
50400216 ATCTTATCTCTCTGAAGTTGTAG-AGAGCAGA-TCGCAT--CCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAATAGCAAG
*
50400257 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAATAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAT-AGCAAG
* *
50400301 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAGATAGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-ATAGCAAG
*
50400346 TCTTATCTCCCTGAAGTTGCAGAGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
50400373 TAGATTGAAG
Statistics
Matches: 326, Mismatches: 59, Indels: 61
0.73 0.13 0.14
Matches are distributed among these distances:
40 40 0.12
41 24 0.07
42 6 0.02
43 52 0.16
44 133 0.41
45 64 0.20
46 7 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAGCAAG
Found at i:50400382 original size:45 final size:45
Alignment explanation
Indices: 50400257--50400369 Score: 144
Period size: 45 Copynumber: 2.5 Consensus size: 45
50400247 TCGCATCCAG
*
50400257 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AA-ATAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAG-AGAGCAGACTGAAGATAAGCAAA
* *
50400301 TCTTATC-CTCCTGAAGTTGCAGTGAGGCAAACTGAAGAT-AGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGAGA-GCAGACTGAAGATAAGCAAA
50400346 TCTTATCTCCCTGAAGTTGCAGAG
1 TCTTATCTCCCTGAAGTTGCAGAG
50400370 GAGTAGATTG
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
43 3 0.05
44 26 0.43
45 28 0.47
46 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGAGAGCAGACTGAAGATAAGCAAA
Found at i:50400404 original size:173 final size:173
Alignment explanation
Indices: 50399797--50400405 Score: 421
Period size: 173 Copynumber: 3.5 Consensus size: 173
50399787 TTTACTTCCT
*** * * * * *
50399797 TGAAGTTGCAGTGGAGCAGGTTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGG-GCGGAT
1 TGAAGTTGCAGTGGAGCAAACTAAAGCAGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCAGAT
* * * * ** * *
50399861 TAAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTACTCTTAT-CTCCCT
66 TAGAACATTAGATCCTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCCAGTCTTATCCT-CCT
* * * *** * * *
50399925 GAAGTTGAAGTGGAGCAGA-TTAAAGCCGGTAA-TCCTATCTCGC
130 GAAGTTGCAGTAGAGCAGACTGAAA-TAAGCAAGTCTTATCTCCC
* * ** * **
50399968 TGAAGTTGCAGTGG-GCAGATTAAA--ACCTCAGATCTTATCTCTTTGAAGTTGCAGA-GAGCAG
1 TGAAGTTGCAGTGGAGCAAACTAAAGCAGAT-A-ATCCTATCTCCCTGAAGTTGCAGAGGAGCAG
* * * * * * *
50400029 ATT-G--CATCTAG-TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGT-AAGTCTTA
64 ATTAGAACAT-TAGATCCTATCTCTCTGAAGTTGTAGAG-AGCAGA-T-CG-CA-TCCAGTCTTA
* * **
50400089 TCCTCCTGAAGTTGCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCC
123 TCCTCCTGAAGTTGCAGTAGAGCAGACTGAAATAAGCAAGTCTTATCTCCC
* * * * * *
50400140 TGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
1 TGAAGTTGCAGTGGAGCAAACTAAAGCAGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCAGAT
* *
50400205 TAGAACCTTAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCCAGTCTTAT-CTCCCT
66 TAGAACATTAGATCCTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCCAGTCTTATCCT-CCT
50400269 GAAGTTGCAGTAGAGCAGACT-AAATAAGCAAGTCTTATC-CTCC
130 GAAGTTGCAGTAGAGCAGACTGAAATAAGCAAGTCTTATCTC-CC
* * * *
50400312 TGAAGTTGCAGT-GAGGCAAACTGAAGATAGCA-AATCTTATCTCCCTGAAGTTGCAGAGGAGTA
1 TGAAGTTGCAGTGGA-GCAAACTAAAG-CAG-ATAATCCTATCTCCCTGAAGTTGCAGAGGAGCA
*
50400375 GATT-GAAGCATTAGTTCCTATAC-CTCTGAAG
63 GATTAGAA-CATTAGATCCTAT-CTCTCTGAAG
50400406 ATGCAGTAGG
Statistics
Matches: 350, Mismatches: 60, Indels: 54
0.75 0.13 0.12
Matches are distributed among these distances:
167 23 0.07
168 9 0.03
169 3 0.01
170 36 0.10
171 49 0.14
172 72 0.21
173 111 0.32
174 12 0.03
175 3 0.01
176 9 0.03
177 23 0.07
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
TGAAGTTGCAGTGGAGCAAACTAAAGCAGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCAGAT
TAGAACATTAGATCCTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCCAGTCTTATCCTCCTG
AAGTTGCAGTAGAGCAGACTGAAATAAGCAAGTCTTATCTCCC
Found at i:50402083 original size:9 final size:9
Alignment explanation
Indices: 50402071--50402095 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50402061 GATGATGTAT
50402071 TTATTATTG
1 TTATTATTG
50402080 TTATTATTG
1 TTATTATTG
50402089 TTATTAT
1 TTATTAT
50402096 AGCATTTGCA
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:50402492 original size:98 final size:98
Alignment explanation
Indices: 50402371--50402567 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
50402361 AAAAAAATAA
*
50402371 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
50402436 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
50402469 TAAAGGAAATATTCCAAGTTTGGGATTTTAAAGGAATTGTTCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
50402534 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
50402567 T
1 T
50402568 TTTATTGTAC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:50408959 original size:25 final size:24
Alignment explanation
Indices: 50408930--50408976 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
50408920 ATACCATTAA
*
50408930 AAAGAAAGAACAGAAAAGAAAAAAT
1 AAAGAAA-AACAAAAAAGAAAAAAT
*
50408955 AAAGAAATACAAAAAAGAAAAA
1 AAAGAAAAACAAAAAAGAAAAA
50408977 GAACCACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (24 bp):
AAAGAAAAACAAAAAAGAAAAAAT
Found at i:50418611 original size:43 final size:43
Alignment explanation
Indices: 50418545--50418691 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
50418535 TATCCTAGAT
* *
50418545 ATGGTCTTACATGTAATCTCATATCGATG-TCAATAGCCCA-ACC
1 ATGGTCTTACACGGAATCTCATATCGATGCT-AATAGCCCAGA-C
* * *
50418588 GAT-GTCTTACACGGAATCACATATCGATGCTAATATCCTAGAC
1 -ATGGTCTTACACGGAATCTCATATCGATGCTAATAGCCCAGAC
* * *
50418631 ATGGTCTTACAC-GAATCTCATATCGATGC-CATATCCCAGAT
1 ATGGTCTTACACGGAATCTCATATCGATGCTAATAGCCCAGAC
*
50418672 ATGGTCTTACACGTAATCTC
1 ATGGTCTTACACGGAATCTC
50418692 GGTAACCCTA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
41 21 0.24
42 24 0.27
43 40 0.45
44 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGGAATCTCATATCGATGCTAATAGCCCAGAC
Found at i:50422467 original size:17 final size:16
Alignment explanation
Indices: 50422445--50422476 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
50422435 CTTTTTTTTT
50422445 CATTTCATTTACATTTC
1 CATTTCATTTA-ATTTC
50422462 CATTTCATTTAATTT
1 CATTTCATTTAATTT
50422477 TTTTCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (16 bp):
CATTTCATTTAATTTC
Found at i:50422483 original size:20 final size:19
Alignment explanation
Indices: 50422445--50422509 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
50422435 CTTTTTTTTT
*
50422445 CATTTCATTT-A-CATTTC
1 CATTTCATTTAATTATTTC
*
50422462 CATTTCATTTAATTTTTTTC
1 CATTTCATTTAA-TTATTTC
*
50422482 CATTTATATTTAATTATTTC
1 CATTT-CATTTAATTATTTC
50422502 TCATTTCA
1 -CATTTCA
50422510 ATTTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 10 0.26
18 1 0.03
20 16 0.42
21 11 0.29
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (19 bp):
CATTTCATTTAATTATTTC
Found at i:50422513 original size:21 final size:21
Alignment explanation
Indices: 50422457--50422513 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
50422447 TTTCATTTAC
50422457 ATTTC-CATTTC-ATTTAATT
1 ATTTCTCATTTCAATTTAATT
*
50422476 -TTTTTCCATTT-ATATTTAATT
1 ATTTCT-CATTTCA-ATTTAATT
50422497 ATTTCTCATTTCAATTT
1 ATTTCTCATTTCAATTT
50422514 TTTTTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 3 0.10
20 5 0.17
21 17 0.57
22 5 0.17
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTCTCATTTCAATTTAATT
Found at i:50422541 original size:35 final size:36
Alignment explanation
Indices: 50422464--50422548 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 36
50422454 TACATTTCCA
50422464 TTTCATTT-AA-TTTTTTTCCATTTATATTTAATTAT
1 TTTCATTTCAATTTTTTTTCCATTTATATTT-ATTAT
* *
50422499 TTCTCATTTCAATTTTTTTTTCATTT-TAGTTT-TTGT
1 TT-TCATTTCAATTTTTTTTCCATTTATA-TTTATTAT
50422535 TTTCATTTCAATTT
1 TTTCATTTCAATTT
50422549 ATAATTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
35 14 0.32
36 11 0.25
37 4 0.09
38 15 0.34
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (36 bp):
TTTCATTTCAATTTTTTTTCCATTTATATTTATTAT
Found at i:50422599 original size:5 final size:5
Alignment explanation
Indices: 50422570--50422656 Score: 61
Period size: 5 Copynumber: 16.4 Consensus size: 5
50422560 TCATTTAAAC
* * *
50422570 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTCA TATTCA TTACAAA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA T-TTCA TTTC--A
*
50422617 TTACA TTTCA TTTCA TATTCA TTTAACA TTTCA TTTCA TT
1 TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
50422657 AATTTTTTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.04
5 42 0.62
6 13 0.19
7 10 0.15
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.51
Consensus pattern (5 bp):
TTTCA
Found at i:50422600 original size:19 final size:19
Alignment explanation
Indices: 50422572--50422610 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50422562 ATTTAAACTT
50422572 TCATTCCATTTCATAATCA
1 TCATTCCATTTCATAATCA
* *
50422591 TCATTTCATTTCATATTCA
1 TCATTCCATTTCATAATCA
50422610 T
1 T
50422611 TACAAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (19 bp):
TCATTCCATTTCATAATCA
Found at i:50422624 original size:23 final size:22
Alignment explanation
Indices: 50422597--50422657 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
50422587 ATCATCATTT
50422597 CATTTCATATTCATTACAAATT-A
1 CATTTCAT-TTCATTAC-AATTAA
* *
50422620 CATTTCATTTCATATTCATTTAA
1 CATTTCATTTCAT-TACAATTAA
50422643 CATTTCATTTCATTA
1 CATTTCATTTCATTA
50422658 ATTTTTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 9 0.27
23 24 0.73
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (22 bp):
CATTTCATTTCATTACAATTAA
Found at i:50422625 original size:28 final size:28
Alignment explanation
Indices: 50422592--50422656 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
50422582 TCATAATCAT
50422592 CATTTCATTTCATATTCA-TTACAAATTA
1 CATTTCATTTCATATTCATTTA-AAATTA
* *
50422620 CATTTCATTTCATATTCATTTAACATTT
1 CATTTCATTTCATATTCATTTAAAATTA
50422648 CATTTCATT
1 CATTTCATT
50422657 AATTTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (28 bp):
CATTTCATTTCATATTCATTTAAAATTA
Found at i:50422651 original size:12 final size:11
Alignment explanation
Indices: 50422591--50422656 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
50422581 TTCATAATCA
50422591 TCATTT-CATT
1 TCATTTACATT
50422601 TCATATT-CATT
1 TCAT-TTACATT
* *
50422612 ACAAATTACATT
1 TC-ATTTACATT
50422624 TCATTT-CATAT
1 TCATTTACAT-T
50422635 TCATTTAACATT
1 TCATTT-ACATT
50422647 TCATTT-CATT
1 TCATTTACATT
50422657 AATTTTTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
10 11 0.24
11 19 0.41
12 13 0.28
13 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (11 bp):
TCATTTACATT
Found at i:50423019 original size:29 final size:29
Alignment explanation
Indices: 50422985--50423051 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
50422975 CCTAGGCACT
* * *
50422985 AGGCCTGTTGGTGCCGACCACTGATTCCC
1 AGGCCTGCTAGTGCCGACAACTGATTCCC
* * *
50423014 AGGCCTACTAGTGCTGACAACTTATTCCC
1 AGGCCTGCTAGTGCCGACAACTGATTCCC
50423043 AGGCCTGCT
1 AGGCCTGCT
50423052 GCAATGTCCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25
Consensus pattern (29 bp):
AGGCCTGCTAGTGCCGACAACTGATTCCC
Found at i:50423086 original size:5 final size:5
Alignment explanation
Indices: 50423078--50423197 Score: 98
Period size: 5 Copynumber: 22.6 Consensus size: 5
50423068 TTTCTTTTTT
* * * *
50423078 TTTCA TTTCA TTTTA TTTC- TTCCA TTTCA TTCCA TTTGTA TTTCCA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA
* *
50423129 TTTCA TTTCCA TTTCA TTCCA TTTGTA TTTCCA TTTCA TTTCA TTTCCA
1 TTTCA TTT-CA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTT-CA
*
50423178 TTTCCA TTTTCA TTTTA TTT
1 TTT-CA -TTTCA TTTCA TTT
50423198 AAATTATTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
4 3 0.03
5 57 0.61
6 31 0.33
7 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:50423091 original size:15 final size:15
Alignment explanation
Indices: 50423068--50423197 Score: 82
Period size: 16 Copynumber: 8.2 Consensus size: 15
50423058 TCCTTTCATC
* *
50423068 TTTCTTTTTTTTTCA
1 TTTCATTTTATTTCA
50423083 TTTCATTTTATTTC-
1 TTTCATTTTATTTCA
* * *
50423097 TTCCATTTCATTCCA
1 TTTCATTTTATTTCA
* *
50423112 TTTGTATTTCCATTTCA
1 TTT-CATTT-TATTTCA
*
50423129 TTTCATTTCCATTTCA
1 TTTCATTT-TATTTCA
*
50423145 TTCCATTTGTATTTCCA
1 TTTCATTT-TATTT-CA
*
50423162 TTTCATTTCATTTCCA
1 TTTCATTTTATTT-CA
*
50423178 TTTCCATTTTCATTTTA
1 TTT-CATTTT-ATTTCA
50423195 TTT
1 TTT
50423198 AAATTATTTT
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
14 11 0.12
15 14 0.15
16 37 0.40
17 27 0.29
18 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.02, T:0.62
Consensus pattern (15 bp):
TTTCATTTTATTTCA
Found at i:50423125 original size:22 final size:22
Alignment explanation
Indices: 50423097--50423191 Score: 103
Period size: 22 Copynumber: 4.5 Consensus size: 22
50423087 ATTTTATTTC
*
50423097 TTCCATTTCATTCCATTTGTAT
1 TTCCATTTCATTCCATTTGCAT
50423119 TTCCA--T--TT-CATTT-CAT
1 TTCCATTTCATTCCATTTGCAT
*
50423135 TTCCATTTCATTCCATTTGTAT
1 TTCCATTTCATTCCATTTGCAT
* *
50423157 TTCCATTTCATTTCATTTCCAT
1 TTCCATTTCATTCCATTTGCAT
50423179 TTCCATTTTCATT
1 TTCCA-TTTCATT
50423192 TTATTTAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
16 7 0.11
17 5 0.08
18 3 0.05
20 3 0.05
21 5 0.08
22 31 0.51
23 7 0.11
ACGTcount: A:0.18, C:0.24, G:0.02, T:0.56
Consensus pattern (22 bp):
TTCCATTTCATTCCATTTGCAT
Found at i:50423148 original size:38 final size:38
Alignment explanation
Indices: 50423082--50423181 Score: 170
Period size: 38 Copynumber: 2.7 Consensus size: 38
50423072 TTTTTTTTTC
*
50423082 ATTT-CATTTTATTTC--TTCCATTTCATTCCATTTGT
1 ATTTCCATTTCATTTCATTTCCATTTCATTCCATTTGT
50423117 ATTTCCATTTCATTTCATTTCCATTTCATTCCATTTGT
1 ATTTCCATTTCATTTCATTTCCATTTCATTCCATTTGT
50423155 ATTTCCATTTCATTTCATTTCCATTTC
1 ATTTCCATTTCATTTCATTTCCATTTC
50423182 CATTTTCATT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
35 4 0.07
36 10 0.16
38 47 0.77
ACGTcount: A:0.18, C:0.23, G:0.02, T:0.57
Consensus pattern (38 bp):
ATTTCCATTTCATTTCATTTCCATTTCATTCCATTTGT
Found at i:50423228 original size:21 final size:21
Alignment explanation
Indices: 50423194--50423330 Score: 100
Period size: 21 Copynumber: 6.2 Consensus size: 21
50423184 TTTTCATTTT
50423194 ATTTAAA-TTA-TTTTTTCTC
1 ATTTAAATTTATTTTTTTCTC
50423213 ATTTAAATTTATTTTTTTCTC
1 ATTTAAATTTATTTTTTTCTC
* * *
50423234 ATTTCATTTAAATTATATTTCTTCCC
1 ATTT-A---AATTTAT-TTTTTTCTC
* *
50423260 ATTTTAATTAATTTTTTTCTC
1 ATTTAAATTTATTTTTTTCTC
*
50423281 ATTTCATTTAAATTATCTTTTTTC-C
1 ATTT-A---AATTTAT-TTTTTTCTC
*
50423306 ATTTAATTTTATTTTTTTCTC
1 ATTTAAATTTATTTTTTTCTC
50423327 ATTT
1 ATTT
50423331 CGTTTAAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
19 7 0.08
20 10 0.11
21 34 0.37
22 6 0.07
24 1 0.01
25 16 0.17
26 18 0.20
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTAAATTTATTTTTTTCTC
Found at i:50423243 original size:26 final size:26
Alignment explanation
Indices: 50423211--50423430 Score: 129
Period size: 26 Copynumber: 9.0 Consensus size: 26
50423201 TTATTTTTTC
50423211 TCATTTAAATTTATTTTTTTCTCATT
1 TCATTTAAATTTATTTTTTTCTCATT
*
50423237 TCATTTAAA-TTATATTTCTTC-C---
1 TCATTTAAATTTAT-TTTTTTCTCATT
* *
50423259 -CATTTTAATTAATTTTTTTCTCATT
1 TCATTTAAATTTATTTTTTTCTCATT
*
50423284 TCATTTAAA-TTATCTTTTT-TC---
1 TCATTTAAATTTATTTTTTTCTCATT
*
50423305 -CATTTAATTTTATTTTTTTCTCATT
1 TCATTTAAATTTATTTTTTTCTCATT
* ** *
50423330 TCGTTTAAATTGCCTTTCTTTC-CA--
1 TCATTTAAATT-TATTTTTTTCTCATT
*
50423354 T--TTT-AATTTATTTTTTTCTTATT
1 TCATTTAAATTTATTTTTTTCTCATT
* * *
50423377 TCATTTAAATTTAATATTATTCTCTTT
1 TCATTTAAATTT-ATTTTTTTCTCATT
*
50423404 TCTTTTAAA-TTATCTTTCTTTC-CATT
1 TCATTTAAATTTAT-TTT-TTTCTCATT
50423430 T
1 T
50423431 TAATTTACGT
Statistics
Matches: 145, Mismatches: 26, Indels: 46
0.67 0.12 0.21
Matches are distributed among these distances:
20 14 0.10
21 27 0.19
22 9 0.06
23 1 0.01
24 3 0.02
25 18 0.12
26 45 0.31
27 28 0.19
ACGTcount: A:0.22, C:0.14, G:0.01, T:0.63
Consensus pattern (26 bp):
TCATTTAAATTTATTTTTTTCTCATT
Found at i:50423274 original size:47 final size:46
Alignment explanation
Indices: 50423187--50423387 Score: 262
Period size: 47 Copynumber: 4.3 Consensus size: 46
50423177 ATTTCCATTT
* * *
50423187 TCATTTTATTTAAATTAT-TTTTTCTCATTTAAATTTATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTCCCATTTTAATTTATTTTTTTC
* *
50423232 TCATTTCATTTAAATTATATTTCTTCCCATTTTAATTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTT-TTCCCATTTTAATTTATTTTTTTC
*
50423279 TCATTTCATTTAAATTATCTTTTTTCCA-TTTAATTTTATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTCCCATTTTAA-TTTATTTTTTTC
* ** *
50423325 TCATTTCGTTTAAATTGCCTTTCTTTCCATTTTAATTTATTTTTTTC
1 TCATTTCATTTAAATTATCTTT-TTCCCATTTTAATTTATTTTTTTC
*
50423372 TTATTTCATTTAAATT
1 TCATTTCATTTAAATT
50423388 TAATATTATT
Statistics
Matches: 139, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
45 22 0.16
46 38 0.27
47 74 0.53
48 5 0.04
ACGTcount: A:0.23, C:0.13, G:0.01, T:0.63
Consensus pattern (46 bp):
TCATTTCATTTAAATTATCTTTTTCCCATTTTAATTTATTTTTTTC
Found at i:50423328 original size:93 final size:92
Alignment explanation
Indices: 50423187--50423387 Score: 296
Period size: 93 Copynumber: 2.2 Consensus size: 92
50423177 ATTTCCATTT
* *
50423187 TCATTTTATTTAAATTATTTTTTCTCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTATAT
1 TCATTTCATTTAAATTATTTTTTCTCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTACAT
50423252 TTCTTCCCATTTTAATTAATTTTTTTC
66 TTCTTCCCATTTTAATTAATTTTTTTC
* * *
50423279 TCATTTCATTTAAATTATCTTTTT-TCCATTTAATTTTATTTTTTTCTCATTTCGTTTAAATTGC
1 TCATTTCATTTAAATTAT-TTTTTCT-CATTTAAATTTATTTTTTTCTCATTTCATTTAAATTAC
* * *
50423343 CTTTCTTTCCATTTTAATTTATTTTTTTC
64 ATTTCTTCCCATTTTAATTAATTTTTTTC
*
50423372 TTATTTCATTTAAATT
1 TCATTTCATTTAAATT
50423388 TAATATTATT
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 18 0.18
93 80 0.82
ACGTcount: A:0.23, C:0.13, G:0.01, T:0.63
Consensus pattern (92 bp):
TCATTTCATTTAAATTATTTTTTCTCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTACAT
TTCTTCCCATTTTAATTAATTTTTTTC
Found at i:50423340 original size:27 final size:26
Alignment explanation
Indices: 50423310--50423414 Score: 60
Period size: 27 Copynumber: 4.2 Consensus size: 26
50423300 TTTTCCATTT
50423310 AATTTTATTTTTTTCTCATTTCGTTTA
1 AATTTTATTTTTTTCTCATTTC-TTTA
*** *
50423337 AATTGCCTTTCTTTC-CA--T-TTT-
1 AATTTTATTTTTTTCTCATTTCTTTA
*
50423358 AA-TTTATTTTTTTCTTATTTCATTTA
1 AATTTTATTTTTTTCTCATTTC-TTTA
* * * *
50423384 AATTTAATATTATTCTCTTTTCTTTTA
1 AATTTTATTTTTTTCTCATTTC-TTTA
50423411 AATT
1 AATT
50423415 ATCTTTCTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
20 8 0.14
21 3 0.05
22 3 0.05
23 1 0.02
24 1 0.02
25 3 0.05
26 4 0.07
27 33 0.59
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (26 bp):
AATTTTATTTTTTTCTCATTTCTTTA
Found at i:50423410 original size:21 final size:23
Alignment explanation
Indices: 50423386--50423434 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
50423376 TTCATTTAAA
*
50423386 TTTAATATTAT-TCTCTTTTC-T
1 TTTAATATTATCTCTCTTTCCAT
*
50423407 TTTAA-ATTATCTTTCTTTCCAT
1 TTTAATATTATCTCTCTTTCCAT
50423429 TTTAAT
1 TTTAAT
50423435 TTACGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.22
21 12 0.52
22 6 0.26
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTAATATTATCTCTCTTTCCAT
Found at i:50423411 original size:74 final size:74
Alignment explanation
Indices: 50423296--50423437 Score: 196
Period size: 74 Copynumber: 1.9 Consensus size: 74
50423286 ATTTAAATTA
* * * * *
50423296 TCTTTTTTCCATTTAATTTTATTTTTTTCTCATTTCGTTTAAATTGCCTTTCTTTCCATTTTAAT
1 TCTTATTTCCATTTAATTTAATATTATTCTCATTTCGTTTAAATTACCTTTCTTTCCATTTTAAT
50423361 TTATTTTTT
66 TTATTTTTT
* * *
50423370 TCTTATTT-CATTTAAATTTAATATTATTCTCTTTTCTTTTAAATTATCTTTCTTTCCATTTTAA
1 TCTTATTTCCATTT-AATTTAATATTATTCTCATTTCGTTTAAATTACCTTTCTTTCCATTTTAA
50423434 TTTA
65 TTTA
50423438 CGTTTTTTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
73 5 0.08
74 54 0.92
ACGTcount: A:0.20, C:0.14, G:0.01, T:0.64
Consensus pattern (74 bp):
TCTTATTTCCATTTAATTTAATATTATTCTCATTTCGTTTAAATTACCTTTCTTTCCATTTTAAT
TTATTTTTT
Found at i:50423561 original size:15 final size:16
Alignment explanation
Indices: 50423543--50423583 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
50423533 AGTAATCTCA
50423543 TTTCAAATT-ATCTTT
1 TTTCAAATTCATCTTT
*
50423558 TTTC-AATTCATTTTT
1 TTTCAAATTCATCTTT
50423573 TTTC-AATTCAT
1 TTTCAAATTCAT
50423584 TTAATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTCAAATTCATCTTT
Found at i:50423584 original size:15 final size:15
Alignment explanation
Indices: 50423555--50423585 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50423545 TCAAATTATC
50423555 TTTTTTCAATTCATT
1 TTTTTTCAATTCATT
50423570 TTTTTTCAATTCATT
1 TTTTTTCAATTCATT
50423585 T
1 T
50423586 AATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTCAATTCATT
Found at i:50423879 original size:5 final size:5
Alignment explanation
Indices: 50423869--50423940 Score: 56
Period size: 5 Copynumber: 13.6 Consensus size: 5
50423859 TTCTTCTTTT
* * *
50423869 TTTCA TTTCA TTTC- TTCCA TTTCA TTCCA TTTGTA TTTCCA TTTCA TTTCCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTT-CA
*
50423921 TTTTCA TGTCCA TTTCA TTT
1 -TTTCA T-TTCA TTTCA TTT
50423941 AAATTATCTT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
4 3 0.06
5 31 0.58
6 16 0.30
7 3 0.06
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:50423910 original size:12 final size:11
Alignment explanation
Indices: 50423869--50423940 Score: 80
Period size: 12 Copynumber: 6.7 Consensus size: 11
50423859 TTCTTCTTTT
50423869 TTTCATTT-CA
1 TTTCATTTCCA
50423879 TTTC--TTCCA
1 TTTCATTTCCA
50423888 TTTCA-TTCCA
1 TTTCATTTCCA
*
50423898 TTTGTATTTCCA
1 TTT-CATTTCCA
50423910 TTTCATTTCCA
1 TTTCATTTCCA
*
50423921 TTTTCATGTCCA
1 -TTTCATTTCCA
50423933 TTTCATTT
1 TTTCATTT
50423941 AAATTATCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
8 2 0.04
9 6 0.11
10 12 0.23
11 15 0.28
12 18 0.34
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.57
Consensus pattern (11 bp):
TTTCATTTCCA
Found at i:50423912 original size:6 final size:6
Alignment explanation
Indices: 50423883--50423940 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
50423873 ATTTCATTTC
** *
50423883 TTCCAT TT-CA- TTCCAT TTGTAT TTCCAT TT-CAT TTCCAT TTTCAT
1 TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT
*
50423928 GTCCAT TT-CAT TT
1 TTCCAT TTCCAT TT
50423941 AAATTATCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
4 2 0.05
5 14 0.34
6 25 0.61
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.55
Consensus pattern (6 bp):
TTCCAT
Found at i:50423923 original size:23 final size:23
Alignment explanation
Indices: 50423883--50423940 Score: 52
Period size: 23 Copynumber: 2.6 Consensus size: 23
50423873 ATTTCATTTC
*
50423883 TTCCA-TTTCA-TTCCATTTGTAT
1 TTCCATTTTCATTTCCATTT-CAT
50423905 TTCCA-TTTCATTTCCATTTTCAT
1 TTCCATTTTCATTTCCA-TTTCAT
*
50423928 GTCCA-TTTCATTT
1 TTCCATTTTCATTT
50423941 AAATTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 10 0.31
23 19 0.59
24 3 0.09
ACGTcount: A:0.17, C:0.24, G:0.03, T:0.55
Consensus pattern (23 bp):
TTCCATTTTCATTTCCATTTCAT
Found at i:50423967 original size:27 final size:27
Alignment explanation
Indices: 50423931--50424139 Score: 88
Period size: 26 Copynumber: 8.4 Consensus size: 27
50423921 TTTTCATGTC
*
50423931 CATTTCATTTAAATTATCTTTTTTTTT
1 CATTTAATTTAAATTATCTTTTTTTTT
* **
50423958 CATTTAA-TT---TT-T-TTCTCATTT
1 CATTTAATTTAAATTATCTTTTTTTTT
50423979 CATTTAAATTT-AATT-TCTTTTTCTTTT
1 CATTT-AATTTAAATTATCTTTTT-TTTT
* *
50424006 C-----ATTTAAATTATC-TTTCTTTC
1 CATTTAATTTAAATTATCTTTTTTTTT
* *
50424027 CA-TT---TTAATTTAT-TT-TTTTCT
1 CATTTAATTTAAATTATCTTTTTTTTT
* *
50424048 CATTTCATTTAAATTATC-TTTTTTTC
1 CATTTAATTTAAATTATCTTTTTTTTT
*
50424074 CATTTAAATTT-AATGT-T-TTTTTTTCT
1 CATTT-AATTTAAAT-TATCTTTTTTTTT
*
50424100 CATTTCATTTAAATTATCTTTTTTTTT
1 CATTTAATTTAAATTATCTTTTTTTTT
50424127 CCATTTAGATTTA
1 -CATTTA-ATTTA
50424140 TTTTTTTCTC
Statistics
Matches: 134, Mismatches: 22, Indels: 50
0.65 0.11 0.24
Matches are distributed among these distances:
21 24 0.18
22 21 0.16
23 6 0.04
25 17 0.13
26 33 0.25
27 23 0.17
28 5 0.04
29 5 0.04
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.64
Consensus pattern (27 bp):
CATTTAATTTAAATTATCTTTTTTTTT
Found at i:50423970 original size:16 final size:16
Alignment explanation
Indices: 50423949--50423983 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50423939 TTAAATTATC
*
50423949 TTTTTTTTTCATTTAA
1 TTTTTTTCTCATTTAA
*
50423965 TTTTTTTCTCATTTCA
1 TTTTTTTCTCATTTAA
50423981 TTT
1 TTT
50423984 AAATTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTTCTCATTTAA
Found at i:50424011 original size:21 final size:21
Alignment explanation
Indices: 50423933--50424085 Score: 85
Period size: 22 Copynumber: 6.7 Consensus size: 21
50423923 TTCATGTCCA
* *
50423933 TTTCATTTAAATTATCTTTTTT
1 TTTCATTTAATTTAT-TTTTCT
*
50423955 TTTCATTTAATTT-TTTTCTCA
1 TTTCATTTAATTTATTTT-TCT
50423976 TTTCATTTAAATTTAATTTCTTTTTCT
1 TTTCATTT-AATTT-A----TTTTTCT
* *
50424003 TTTCATTTAAATTATCTTTCT
1 TTTCATTTAATTTATTTTTCT
*
50424024 TTCCATTTTAATTTATTTTTTTCT
1 TTTCA-TTTAATTTA--TTTTTCT
*
50424048 CATTTCATTTAAATTATCTTTT-T
1 --TTTCATTTAATTTAT-TTTTCT
*
50424071 TTCCATTTAAATTTA
1 TTTCATTT-AATTTA
50424086 ATGTTTTTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 30
0.71 0.09 0.21
Matches are distributed among these distances:
20 3 0.03
21 27 0.26
22 30 0.29
23 2 0.02
24 10 0.10
25 9 0.09
26 8 0.08
27 10 0.10
28 4 0.04
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCATTTAATTTATTTTTCT
Found at i:50424062 original size:47 final size:48
Alignment explanation
Indices: 50423979--50424159 Score: 242
Period size: 47 Copynumber: 3.7 Consensus size: 48
50423969 TTTCTCATTT
* *
50423979 CATTTAAATTTAATTTCTTTT-TCTTTTCATTTAAATTATCTTTCTTTC
1 CATTTAAATTTAATTT-TTTTCTCATTTCATTTAAATTATCTTTTTTTC
*
50424027 CATTTTAATTT-ATTTTTTTCTCATTTCATTTAAATTATCTTTTTTTC
1 CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTTTTTC
50424074 CATTTAAATTTAATGTTTTTTTTTCTCATTTCATTTAAATTATCTTTTTTTTTC
1 CATTTAAATTTAA----TTTTTTTCTCATTTCATTTAAATTATC--TTTTTTTC
*
50424128 CATTTAGATTT-ATTTTTTTCTCATTTCATTTA
1 CATTTAAATTTAATTTTTTTCTCATTTCATTTA
50424160 GTTGAATATA
Statistics
Matches: 120, Mismatches: 5, Indels: 15
0.86 0.04 0.11
Matches are distributed among these distances:
46 4 0.03
47 39 0.32
48 11 0.09
49 20 0.17
52 27 0.22
53 1 0.01
54 18 0.15
ACGTcount: A:0.22, C:0.13, G:0.01, T:0.64
Consensus pattern (48 bp):
CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTTTTTC
Found at i:50424112 original size:31 final size:28
Alignment explanation
Indices: 50424074--50424132 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
50424064 TCTTTTTTTC
*
50424074 CATTTAAATTTAATGTTTTTTTTTCTCATTT
1 CATTTAAA-TT-ATCTTTTTTTTTC-CATTT
50424105 CATTTAAATTATCTTTTTTTTTCCATTT
1 CATTTAAATTATCTTTTTTTTTCCATTT
50424133 AGATTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.19
29 12 0.44
30 2 0.07
31 8 0.30
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (28 bp):
CATTTAAATTATCTTTTTTTTTCCATTT
Found at i:50424158 original size:20 final size:20
Alignment explanation
Indices: 50424120--50424159 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50424110 AAATTATCTT
*
50424120 TTTTTTTCCATTTAGATTTA
1 TTTTTTTCCATTTACATTTA
50424140 TTTTTTTCTCATTT-CATTTA
1 TTTTTTTC-CATTTACATTTA
50424160 GTTGAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTTTCCATTTACATTTA
Found at i:50427608 original size:3 final size:3
Alignment explanation
Indices: 50427600--50427660 Score: 104
Period size: 3 Copynumber: 20.0 Consensus size: 3
50427590 AAAATGAAAC
*
50427600 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50427646 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
50427661 CAACACTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:50428360 original size:19 final size:18
Alignment explanation
Indices: 50428316--50428362 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
50428306 AATAGTTTCG
*
50428316 AAAGGAAGA-AAAAATAA
1 AAAGGAAAATAAAAATAA
* *
50428333 AGAGAAAAATAAAAATAAA
1 AAAGGAAAATAAAAAT-AA
50428352 AAAGGAAAATA
1 AAAGGAAAATA
50428363 GATCTTATAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (18 bp):
AAAGGAAAATAAAAATAA
Found at i:50430227 original size:104 final size:97
Alignment explanation
Indices: 50430042--50430430 Score: 329
Period size: 97 Copynumber: 4.0 Consensus size: 97
50430032 AGCCATTACA
* *
50430042 TGGCCAGCACTCAAATTTTTTTTT--T--AAATACACTAGTTC-ACCCATCAGTGTTCCAAAGTA
1 TGGCCAG-AC-CAAATTTTTTTTTAATAAAAATACACT-GTGCTAACCATCAGTGTTCCAAAGTA
50430102 AAAAAAAATGCATTGGGAGCCAAAAATTGTACTTGGTGC
63 AAAAAAAATGCATTGGGAGCCAAAAATTGTAC----TGC
* *
50430141 TGGCCATGTACCAAATTTTTTTTTAATAAAAATACACTGATGCTAACCATCAGAGTTTCAAAGTA
1 TGGCCA-G-ACCAAATTTTTTTTTAATAAAAATACACTG-TGCTAACCATCAGTGTTCCAAAGTA
**
50430206 AAAAAAAATGCATTGGGAGCCAAAAA-T-TA-TAA
63 AAAAAAAATGCATTGGGAGCCAAAAATTGTACTGC
** ** * *
50430238 TGGCCAGCACCCAAATTTTCTTTTTTTTTTAAATACACT-TGTTCGACCATCAGTGTTCCAAAGT
1 TGGCCAG-A-CCAAATTTT-TTTTTAATAAAAATACACTGTGCT-AACCATCAGTGTTCCAAAGT
* * *
50430302 AAAAGAAAATGCATTGGGAGCCGAAAATTGAAC-GC
62 AAAAAAAAATGCATTGGGAGCCAAAAATTGTACTGC
* * * * *
50430337 TGG-CA-CCCAAAATTTTTTTTTTAATAAAAATACACTGGTGCCAGCCATCAGTGCTCTAAAGT-
1 TGGCCAGACC-AAA-TTTTTTTTTAATAAAAATACACT-GTGCTAACCATCAGTGTTCCAAAGTA
**
50430399 AAAAAAAA-GCATTGGGAGCCGGAAATTGTACT
63 AAAAAAAATGCATTGGGAGCCAAAAATTGTACT
50430431 TGGTGCTAGC
Statistics
Matches: 237, Mismatches: 35, Indels: 39
0.76 0.11 0.13
Matches are distributed among these distances:
95 23 0.10
96 30 0.13
97 78 0.33
98 20 0.08
99 23 0.10
100 3 0.01
101 1 0.00
102 3 0.01
103 12 0.05
104 44 0.19
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (97 bp):
TGGCCAGACCAAATTTTTTTTTAATAAAAATACACTGTGCTAACCATCAGTGTTCCAAAGTAAAA
AAAAATGCATTGGGAGCCAAAAATTGTACTGC
Found at i:50430276 original size:201 final size:192
Alignment explanation
Indices: 50430057--50430418 Score: 489
Period size: 201 Copynumber: 1.8 Consensus size: 192
50430047 AGCACTCAAA
50430057 TTTTTTTTTTAAATACACTAGTTC-ACCCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAG
1 TTTTTTTTTTAAATACACTAGTTCGA-CCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAG
*
50430121 CCAAAAATTGTACTTGGTGCTGGCCATGTACC-AAA-TTTTTTTTTAATAAAAATACACTGATGC
65 CCAAAAATTGAAC-----GCTGG-CA---ACCAAAATTTTTTTTTTAATAAAAATACACTGATGC
* *
50430184 TAACCATCAGAG-TTTCAAAGTAAAAAAAAATGCATTGGGAGCCAAAAATTATAATGGCCAGCAC
121 CAACCATCAGAGCTCT-AAAGT-AAAAAAAA-GCATTGGGAGCCAAAAATTATAATGGCCAGCAC
50430248 CCAAATTTTC
183 CCAAATTTTC
* *
50430258 TTTTTTTTTTAAATACACTTGTTCGACCATCAGTGTTCCAAAGTAAAAGAAAATGCATTGGGAGC
1 TTTTTTTTTTAAATACACTAGTTCGACCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGC
* * * *
50430323 CGAAAATTGAACGCTGGCACCCAAAATTTTTTTTTTAATAAAAATACACTGGTGCCAGCCATCAG
66 CAAAAATTGAACGCTGGCAACCAAAATTTTTTTTTTAATAAAAATACACTGATGCCAACCATCAG
*
50430388 TGCTCTAAAGTAAAAAAAAGCATTGGGAGCC
131 AGCTCTAAAGTAAAAAAAAGCATTGGGAGCC
50430419 GGAAATTGTA
Statistics
Matches: 147, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
192 14 0.10
193 11 0.07
194 41 0.28
195 4 0.03
196 5 0.03
201 71 0.48
202 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (192 bp):
TTTTTTTTTTAAATACACTAGTTCGACCATCAGTGTTCCAAAGTAAAAAAAAATGCATTGGGAGC
CAAAAATTGAACGCTGGCAACCAAAATTTTTTTTTTAATAAAAATACACTGATGCCAACCATCAG
AGCTCTAAAGTAAAAAAAAGCATTGGGAGCCAAAAATTATAATGGCCAGCACCCAAATTTTC
Found at i:50433604 original size:30 final size:30
Alignment explanation
Indices: 50433570--50433632 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
50433560 ACTTATTTTA
50433570 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
50433600 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
50433630 TTG
1 TTG
50433633 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:50433779 original size:23 final size:25
Alignment explanation
Indices: 50433742--50433789 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
50433732 TTTTTAATAT
* *
50433742 ATTATATATATAAAT-ATAT-TAAA
1 ATTATATAAAAAAATAATATATAAA
50433765 ATTATATAAAAAAATAATATATAAA
1 ATTATATAAAAAAATAATATATAAA
50433790 TTAATATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 4 0.19
25 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTATATAAAAAAATAATATATAAA
Found at i:50440042 original size:50 final size:51
Alignment explanation
Indices: 50439971--50440305 Score: 221
Period size: 50 Copynumber: 6.7 Consensus size: 51
50439961 TTGTTTCAAG
* * * *
50439971 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAAG-CGA-TGCAGTAGAAT
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGAC-ATTGCAGTAGAAA
* * **
50440021 AGATTAAAGCCACAGCGGCGAATCTTGCTTCCC-TGACATTGCAGTTCAAA
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGACATTGCAGTAGAAA
* * * * * *
50440071 AGATTAAAGCTACATCAGCGAATCTTACCTT-CC-AGACGA-TGCAATGGAAC
1 AGATTAAAGCCACAGCGGCGAATCTTA-CTTCCCAAGAC-ATTGCAGTAGAAA
* * * **
50440121 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCC-TGACATTGCAGTTCAAA
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGACATTGCAGTAGAAA
* * * * * * *
50440171 AGATTAAAGCTACATCAGCGAATCTTACCTT-CC-AGGCAGTACAGT-GAAGC
1 AGATTAAAGCCACAGCGGCGAATCTTA-CTTCCCAAGACATTGCAGTAGAA-A
* * *
50440221 AGATTAAAGCCACATCGGTGAATCTTGCTTCCTC-A-ACATTGCAGTTA-AAA
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCC-CAAGACATTGCAG-TAGAAA
* *
50440271 AGATTAAAGCCAC-GATGGCGAATCTTACTTTCCAA
1 AGATTAAAGCCACAG-CGGCGAATCTTACTTCCCAA
50440306 AGTTACGAGT
Statistics
Matches: 220, Mismatches: 51, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
49 12 0.05
50 196 0.89
51 12 0.05
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (51 bp):
AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGACATTGCAGTAGAAA
Found at i:50440125 original size:100 final size:100
Alignment explanation
Indices: 50439901--50440304 Score: 518
Period size: 100 Copynumber: 4.0 Consensus size: 100
50439891 ATCTTATCCC
* *
50439901 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACAAATTTG--
1 CCAGACGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGAC--A-TTGCA
* * *
50439964 TTTCAAGAGATTAAAGCTACAACAGCGAATCTTA-CTT
63 GTTCAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
* * *
50440001 CCCA-AGCGATGCAGTAGAATAGATTAAAGCCACAGCGGCGAATCTTGCTTCCCTGACATTGCAG
1 -CCAGA-CGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAG
50440065 TTCAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
64 TTCAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
*
50440102 CCAGACGATGCAATGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAGTT
1 CCAGACGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAGTT
50440167 CAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
66 CAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
* * * *
50440202 CCAGGC-AGTACAGT-GAAGCAGATTAAAGCCACATCGGTGAATCTTGCTT-CCTCAACATTGCA
1 CCAGACGA-TGCAGTGGAA-CAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCT-GACATTGCA
* * * *
50440264 GTTAAAAAGATTAAAGCCACGAT-GGCGAATCTTACTTT
63 GTTCAAAAGATTAAAGCTAC-ATCAGCGAATCTTACCTT
50440302 CCA
1 CCA
50440305 AAGTTACGAG
Statistics
Matches: 273, Mismatches: 21, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
98 3 0.01
99 8 0.03
100 206 0.75
101 56 0.21
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (100 bp):
CCAGACGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAGTT
CAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
Found at i:50440317 original size:50 final size:50
Alignment explanation
Indices: 50439920--50440300 Score: 187
Period size: 50 Copynumber: 7.6 Consensus size: 50
50439910 GCAGTGGAAC
* * * * *
50439920 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACAA-ATT--TGTTTCAAG
1 AGATTAAAGCCACATCGGCGAATCTTACTT-CCT--CAACATTACAG-TTAAAA
* * * * *
50439971 AGATTAAAGCTACAACAGCGAATCTTACTTCC-CAAGCGA-TGCAG-TAGAAT
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTCAA-C-ATTACAGTTA-AAA
* * * * *
50440021 AGATTAAAGCCACAGCGGCGAATCTTGCTTCC-CTGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTC-AACATTACAGTTAAAA
* * * * ** *
50440071 AGATTAAAGCTACATCAGCGAATCTTACCTT-C-CAGACGA-TGCAATGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTA-CTTCCTCA-AC-ATTACAGTTAAAA
* * * * * *
50440121 AGATTAAAGCCACAGCGGTGAATCTTGCTTCC-CTGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTC-AACATTACAGTTAAAA
* * * * * **
50440171 AGATTAAAGCTACATCAGCGAATCTTACCTT-C-CAGGCAGTACAGTGAAGC
1 AGATTAAAGCCACATCGGCGAATCTTA-CTTCCTCA-ACATTACAGTTAAAA
* * *
50440221 AGATTAAAGCCACATCGGTGAATCTTGCTTCCTCAACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTCAACATTACAGTTAAAA
50440271 AGATTAAAGCCACGAT-GGCGAATCTTACTT
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTT
50440301 TCCAAAGTTA
Statistics
Matches: 251, Mismatches: 59, Indels: 41
0.72 0.17 0.12
Matches are distributed among these distances:
47 3 0.01
49 10 0.04
50 199 0.79
51 39 0.16
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGCGAATCTTACTTCCTCAACATTACAGTTAAAA
Found at i:50447030 original size:6 final size:6
Alignment explanation
Indices: 50447021--50447053 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
50447011 AGAATAAAGA
*
50447021 AAAATC AAAATC AAAATC AAAATT AAAAT- AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
50447054 AAACAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATC
Found at i:50447055 original size:19 final size:19
Alignment explanation
Indices: 50447033--50447073 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
50447023 AATCAAAATC
* * *
50447033 AAAATCAAAATTAAAATAA
1 AAAAACAAAAATAAAAGAA
50447052 AAAAACAAAAATAAAAGAA
1 AAAAACAAAAATAAAAGAA
50447071 AAA
1 AAA
50447074 TAAAAGTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAAACAAAAATAAAAGAA
Found at i:50447055 original size:25 final size:24
Alignment explanation
Indices: 50447016--50447091 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
50447006 GAAGAAGAAT
*
50447016 AAAGAAAAATCAAAATCAAAATCA
1 AAAGAAAAATAAAAATCAAAATCA
** *
50447040 AAATTAAAATAAAAAAACAAAAAT-A
1 AAAGAAAAAT-AAAAATC-AAAATCA
* *
50447065 AAAGAAAAATAAAAGTCAAAAACA
1 AAAGAAAAATAAAAATCAAAATCA
50447089 AAA
1 AAA
50447092 AAGAGAGAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
23 4 0.10
24 17 0.43
25 14 0.35
26 5 0.12
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (24 bp):
AAAGAAAAATAAAAATCAAAATCA
Found at i:50447124 original size:13 final size:13
Alignment explanation
Indices: 50447106--50447137 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
50447096 GAGAAGATGA
50447106 AAAATGAAAAATG
1 AAAATGAAAAATG
50447119 AAAATGAAAAATG
1 AAAATGAAAAATG
50447132 AAAATG
1 AAAATG
50447138 GAGAGGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:50447137 original size:6 final size:7
Alignment explanation
Indices: 50447102--50447135 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
50447092 AAGAGAGAAG
50447102 ATGAAAA
1 ATGAAAA
50447109 ATGAAAA
1 ATGAAAA
50447116 ATG-AAA
1 ATGAAAA
50447122 ATGAAAA
1 ATGAAAA
50447129 ATGAAAA
1 ATGAAAA
50447136 TGGAGAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:50448637 original size:50 final size:51
Alignment explanation
Indices: 50448566--50448900 Score: 230
Period size: 50 Copynumber: 6.7 Consensus size: 51
50448556 TTGTTTCAAG
* * * *
50448566 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAAG-CGA-TGCAGTAGAAT
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGAC-ATTGCAGTAGAAA
* * **
50448616 AGATTAAAGCCACAGCGGCGAATCTTGCTTCCC-TGACATTGCAGTTCAAA
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGACATTGCAGTAGAAA
* * * * *
50448666 AGATTAAAGCTACATCAGCGAATCTTACCTT-CC-AGACGA-TGCAGTGGAAC
1 AGATTAAAGCCACAGCGGCGAATCTTA-CTTCCCAAGAC-ATTGCAGTAGAAA
* * * **
50448716 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCC-TGACATTGCAGTTCAAA
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGACATTGCAGTAGAAA
* * * * * * *
50448766 AGATTAAAGCTACATCAGCGAATCTTACCTT-CC-AGGCAGTACAGT-GAAGC
1 AGATTAAAGCCACAGCGGCGAATCTTA-CTTCCCAAGACATTGCAGTAGAA-A
* * *
50448816 AGATTAAAGCCACATCGGTGAATCTTGCTTCCTC-A-ACATTGCAGTTA-AAA
1 AGATTAAAGCCACAGCGGCGAATCTTACTTCC-CAAGACATTGCAG-TAGAAA
* *
50448866 AGATTAAAGCCAC-GATGGCGAATCTTACTTTCCAA
1 AGATTAAAGCCACAG-CGGCGAATCTTACTTCCCAA
50448901 AGTTACGAGT
Statistics
Matches: 222, Mismatches: 49, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
49 12 0.05
50 198 0.89
51 12 0.05
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (51 bp):
AGATTAAAGCCACAGCGGCGAATCTTACTTCCCAAGACATTGCAGTAGAAA
Found at i:50448720 original size:100 final size:100
Alignment explanation
Indices: 50448496--50448899 Score: 527
Period size: 100 Copynumber: 4.0 Consensus size: 100
50448486 ATCTTATCCC
* *
50448496 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACAAATTTG--
1 CCAGACGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGAC--A-TTGCA
* * *
50448559 TTTCAAGAGATTAAAGCTACAACAGCGAATCTTA-CTT
63 GTTCAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
* * *
50448596 CCCA-AGCGATGCAGTAGAATAGATTAAAGCCACAGCGGCGAATCTTGCTTCCCTGACATTGCAG
1 -CCAGA-CGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAG
50448660 TTCAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
64 TTCAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
50448697 CCAGACGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAGTT
1 CCAGACGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAGTT
50448762 CAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
66 CAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
* * * *
50448797 CCAGGC-AGTACAGT-GAAGCAGATTAAAGCCACATCGGTGAATCTTGCTT-CCTCAACATTGCA
1 CCAGACGA-TGCAGTGGAA-CAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCT-GACATTGCA
* * * *
50448859 GTTAAAAAGATTAAAGCCACGAT-GGCGAATCTTACTTT
63 GTTCAAAAGATTAAAGCTAC-ATCAGCGAATCTTACCTT
50448897 CCA
1 CCA
50448900 AAGTTACGAG
Statistics
Matches: 275, Mismatches: 19, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
98 3 0.01
99 8 0.03
100 208 0.76
101 56 0.20
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (100 bp):
CCAGACGATGCAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGCTTCCCTGACATTGCAGTT
CAAAAGATTAAAGCTACATCAGCGAATCTTACCTT
Found at i:50448912 original size:50 final size:50
Alignment explanation
Indices: 50448515--50448895 Score: 196
Period size: 50 Copynumber: 7.6 Consensus size: 50
50448505 GCAGTGGAAC
* * * * *
50448515 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACAA-ATT--TGTTTCAAG
1 AGATTAAAGCCACATCGGCGAATCTTACTT-CCT--CAACATTACAG-TTAAAA
* * * * *
50448566 AGATTAAAGCTACAACAGCGAATCTTACTTCC-CAAGCGA-TGCAG-TAGAAT
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTCAA-C-ATTACAGTTA-AAA
* * * * *
50448616 AGATTAAAGCCACAGCGGCGAATCTTGCTTCC-CTGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTC-AACATTACAGTTAAAA
* * * ** *
50448666 AGATTAAAGCTACATCAGCGAATCTTACCTT-C-CAGACGA-TGCAGTGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTA-CTTCCTCA-AC-ATTACAGTTAAAA
* * * * * *
50448716 AGATTAAAGCCACAGCGGTGAATCTTGCTTCC-CTGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTC-AACATTACAGTTAAAA
* * * * * **
50448766 AGATTAAAGCTACATCAGCGAATCTTACCTT-C-CAGGCAGTACAGTGAAGC
1 AGATTAAAGCCACATCGGCGAATCTTA-CTTCCTCA-ACATTACAGTTAAAA
* * *
50448816 AGATTAAAGCCACATCGGTGAATCTTGCTTCCTCAACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCTCAACATTACAGTTAAAA
50448866 AGATTAAAGCCACGAT-GGCGAATCTTACTT
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTT
50448896 TCCAAAGTTA
Statistics
Matches: 253, Mismatches: 57, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
47 3 0.01
49 10 0.04
50 201 0.79
51 39 0.15
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGCGAATCTTACTTCCTCAACATTACAGTTAAAA
Found at i:50455406 original size:14 final size:16
Alignment explanation
Indices: 50455370--50455400 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50455360 ACAATTTATC
*
50455370 CTTTTAAAAAAAATAA
1 CTTTAAAAAAAAATAA
50455386 CTTTAAAAAAAAATA
1 CTTTAAAAAAAAATA
50455401 CTTAAACTAA
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:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
CTTTAAAAAAAAATAA
Found at i:50458120 original size:20 final size:20
Alignment explanation
Indices: 50458095--50458150 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
50458085 CATTTTGGCA
*
50458095 TACCAAAATTTTTAATGATT
1 TACCAAAATTTTTAAGGATT
*
50458115 TACCAATATTTTTAAGGATT
1 TACCAAAATTTTTAAGGATT
* *
50458135 TATCAAAATTTATAAG
1 TACCAAAATTTTTAAG
50458151 AATTCCTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (20 bp):
TACCAAAATTTTTAAGGATT
Found at i:50458375 original size:20 final size:20
Alignment explanation
Indices: 50458350--50458463 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
50458340 TGAACTACCT
*
50458350 TTAGAAATATTGTTAAATCC
1 TTAGAAATATTGATAAATCC
* *
50458370 TTAGAAAT-TTTAGTAAATGC
1 TTAGAAATATTGA-TAAATCC
*
50458390 GTAGAAATATTGATAAA-CAC
1 TTAGAAATATTGATAAATC-C
* *
50458410 TTAGAAATACTGACAAATCC
1 TTAGAAATATTGATAAATCC
** * * *
50458430 TTAGATGTTTTGGTAAATCT
1 TTAGAAATATTGATAAATCC
50458450 TTAGAAATATTGAT
1 TTAGAAATATTGAT
50458464 TTTTGATAAA
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
19 2 0.03
20 64 0.91
21 4 0.06
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (20 bp):
TTAGAAATATTGATAAATCC
Found at i:50458446 original size:60 final size:60
Alignment explanation
Indices: 50458350--50458463 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
50458340 TGAACTACCT
* **
50458350 TTAGAAATATTGTTAAATCCTTAGAAATTTTAGTAAATGC-GTAGAAATATTGATAAACAC
1 TTAGAAATACTGACAAATCCTTAGAAATTTTAGTAAAT-CTGTAGAAATATTGATAAACAC
** * *
50458410 TTAGAAATACTGACAAATCCTTAGATGTTTTGGTAAATCTTTAGAAATATTGAT
1 TTAGAAATACTGACAAATCCTTAGAAATTTTAGTAAATCTGTAGAAATATTGAT
50458464 TTTTGATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (60 bp):
TTAGAAATACTGACAAATCCTTAGAAATTTTAGTAAATCTGTAGAAATATTGATAAACAC
Found at i:50458597 original size:22 final size:21
Alignment explanation
Indices: 50458572--50458665 Score: 56
Period size: 20 Copynumber: 4.6 Consensus size: 21
50458562 AAGTAAATCT
50458572 TTAGAAATTTTGGTTAAAACTC
1 TTAGAAATTTTGGTT-AAACTC
* * *
50458594 TTAGGAATATTGG-TAAAGTC
1 TTAGAAATTTTGGTTAAACTC
*
50458614 TT-GAAAATTTTGG-TATAA-TT
1 TTAG-AAATTTTGGTTA-AACTC
*
50458634 TTAGAAATTCTGG-TAAA-TAC
1 TTAGAAATTTTGGTTAAACT-C
*
50458654 TTAGATATTTTG
1 TTAGAAATTTTG
50458666 ATATGCTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 4 0.07
20 39 0.67
21 4 0.07
22 11 0.19
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (21 bp):
TTAGAAATTTTGGTTAAACTC
Found at i:50458930 original size:20 final size:20
Alignment explanation
Indices: 50458870--50458972 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
50458860 TTGATCAGGG
*
50458870 AGAAATTTT-ATAAAATCTTT
1 AGAAATTTTGATAAATTC-TT
* * * **
50458890 ATATATTTTGATATAGCCTT
1 AGAAATTTTGATAAATTCTT
50458910 AGAAATTTTGATAAATTCTT
1 AGAAATTTTGATAAATTCTT
* *
50458930 A-AATATTTTGGTAAA-ACATT
1 AGAA-ATTTTGATAAATTC-TT
*
50458950 ATAAATTTTGA-AAATTACTT
1 AGAAATTTTGATAAATT-CTT
50458970 AGA
1 AGA
50458973 TATATTAATG
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
19 6 0.10
20 48 0.77
21 8 0.13
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.44
Consensus pattern (20 bp):
AGAAATTTTGATAAATTCTT
Found at i:50458956 original size:40 final size:40
Alignment explanation
Indices: 50458870--50458975 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
50458860 TTGATCAGGG
* * * * *
50458870 AGAAATTTT-ATAAAATCTTTATATATTTTGATATAGCCTT
1 AGAAATTTTGATAAATTC-TTAAATATTTTGATAAAACATT
*
50458910 AGAAATTTTGATAAATTCTTAAATATTTTGGTAAAACATT
1 AGAAATTTTGATAAATTCTTAAATATTTTGATAAAACATT
* *
50458950 ATAAATTTTGA-AAATTACTTAGATAT
1 AGAAATTTTGATAAATT-CTTAAATAT
50458976 ATTAATGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 5 0.09
40 44 0.79
41 7 0.12
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (40 bp):
AGAAATTTTGATAAATTCTTAAATATTTTGATAAAACATT
Found at i:50464112 original size:12 final size:13
Alignment explanation
Indices: 50464085--50464119 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
50464075 CCAAATTATT
50464085 TTTTTCTTTTCTTC
1 TTTTT-TTTTCTTC
50464099 TTTTTTTTTC-TC
1 TTTTTTTTTCTTC
50464111 TTTTTTTTT
1 TTTTTTTTT
50464120 ATGCTTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.52
13 5 0.24
14 5 0.24
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTCTTC
Found at i:50465166 original size:17 final size:17
Alignment explanation
Indices: 50465143--50465185 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
50465133 AAAATAAAAT
*
50465143 AAAATAAAATAAAGCAA
1 AAAATAAAATAAAGAAA
* *
50465160 TAAATAAAGTAAAGAAA
1 AAAATAAAATAAAGAAA
50465177 AAAATAAAA
1 AAAATAAAA
50465186 AATAAAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAAGAAA
Found at i:50470415 original size:22 final size:23
Alignment explanation
Indices: 50470390--50470434 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
50470380 AAATAAAGAA
*
50470390 AATTTTA-TCAATAAATATTAAT
1 AATTTTATTAAATAAATATTAAT
50470412 AATTTTATTTAAATAAATATTAA
1 AATTTTA-TTAAATAAATATTAA
50470435 ATTCATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTTATTAAATAAATATTAAT
Found at i:50474766 original size:25 final size:24
Alignment explanation
Indices: 50474732--50474778 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
50474722 ATTTAACACA
50474732 ATTTTAATATATGATCGTGAATTG
1 ATTTTAATATATGATCGTGAATTG
*
50474756 ATTTTCAATATGTGATCGTGAAT
1 ATTTT-AATATATGATCGTGAAT
50474779 AATGAATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (24 bp):
ATTTTAATATATGATCGTGAATTG
Found at i:50477084 original size:16 final size:17
Alignment explanation
Indices: 50477057--50477091 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
50477047 TTTACCCTGT
50477057 TTCTTATTTTGATTTAA
1 TTCTTATTTTGATTTAA
50477074 TTCTT-TTTTGATTTAA
1 TTCTTATTTTGATTTAA
50477090 TT
1 TT
50477092 AAATCGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (17 bp):
TTCTTATTTTGATTTAA
Found at i:50477440 original size:23 final size:23
Alignment explanation
Indices: 50477414--50477457 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
50477404 GTAAACTTGG
50477414 TTTTGGGGTTCAAATT-GGTACTT
1 TTTTGGGGTTC-AATTAGGTACTT
**
50477437 TTTTTTGGTTCAATTAGGTAC
1 TTTTGGGGTTCAATTAGGTAC
50477458 CTAAATTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.18, C:0.09, G:0.23, T:0.50
Consensus pattern (23 bp):
TTTTGGGGTTCAATTAGGTACTT
Found at i:50482858 original size:19 final size:20
Alignment explanation
Indices: 50482818--50482860 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
50482808 TGACTGTATA
*
50482818 AAAATAAGAAATTTTGTTAC
1 AAAATAAGAAATTTTGTGAC
50482838 AAAATAA-AAATTTCT-TGAC
1 AAAATAAGAAATTT-TGTGAC
50482857 AAAA
1 AAAA
50482861 AATATGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATAAGAAATTTTGTGAC
Found at i:50482861 original size:20 final size:21
Alignment explanation
Indices: 50482817--50482861 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
50482807 CTGACTGTAT
*
50482817 AAAAATAAGAAATTTTGTTAC
1 AAAAATAAGAAATTTTGTGAC
50482838 -AAAATAA-AAATTTCT-TGAC
1 AAAAATAAGAAATTT-TGTGAC
50482857 AAAAA
1 AAAAA
50482862 ATATGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAAATAAGAAATTTTGTGAC
Found at i:50492559 original size:12 final size:12
Alignment explanation
Indices: 50492538--50492567 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50492528 TAATTTATCT
*
50492538 AAAATAATATTA
1 AAAATTATATTA
50492550 AAAATTATATTA
1 AAAATTATATTA
50492562 AAAATT
1 AAAATT
50492568 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAATTATATTA
Found at i:50496804 original size:27 final size:27
Alignment explanation
Indices: 50496774--50496850 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
50496764 TTTTTTTGAC
50496774 ATACATATTTTTAATTATAAAAACGAA
1 ATACATATTTTTAATTATAAAAACGAA
* * * *
50496801 ATACACATTTTTAATTAAAAAAATGTA
1 ATACATATTTTTAATTATAAAAACGAA
*
50496828 ATACATAATTTATAATTATAAAA
1 ATACAT-ATTTTTAATTATAAAA
50496851 GTGTAACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 28 0.67
28 14 0.33
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (27 bp):
ATACATATTTTTAATTATAAAAACGAA
Found at i:50496838 original size:28 final size:28
Alignment explanation
Indices: 50496774--50496870 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
50496764 TTTTTTTGAC
* *
50496774 ATACAT-ATTTTTAATTATAAAAACGAA
1 ATACATAATTTTTAATTATAAAAATGTA
* *
50496801 ATACA-CATTTTTAATTAAAAAAATGTA
1 ATACATAATTTTTAATTATAAAAATGTA
* *
50496828 ATACATAATTTATAATTATAAAAGTGTA
1 ATACATAATTTTTAATTATAAAAATGTA
* * *
50496856 ACAAATACTTTTTAA
1 ATACATAATTTTTAA
50496871 ACATTAAATA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
27 28 0.49
28 29 0.51
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (28 bp):
ATACATAATTTTTAATTATAAAAATGTA
Found at i:50499907 original size:12 final size:12
Alignment explanation
Indices: 50499887--50499919 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50499877 CATAAAAAAC
50499887 ATTTTATTTAAT
1 ATTTTATTTAAT
*
50499899 ATTTCATTTAAT
1 ATTTTATTTAAT
50499911 -TTTTATTTA
1 ATTTTATTTA
50499920 TTTACTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:50502639 original size:674 final size:674
Alignment explanation
Indices: 50501344--50502697 Score: 2537
Period size: 674 Copynumber: 2.0 Consensus size: 674
50501334 GGATCGAAGA
*
50501344 ATCTGCTGGTTCGGGTACCTTTGCTTTAGAGCTGAACCGCATATAATGAACCTAAGAGCCCACCC
1 ATCTGCTGGTTCGAGTACCTTTGCTTTAGAGCTGAACCGCATATAATGAACCTAAGAGCCCACCC
50501409 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
66 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
* *
50501474 TTTGCTTTGTGCTAACCTGTTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
131 TTTGCTTTGTACTAACCTATTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
* *
50501539 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAGAGAGCTTGTCATAAGAAAATGGGTTTCTTGA
196 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAAAGAGCTTGTCATAAGAAAATAGGTTTCTTGA
* *
50501604 TAAAGTGGATAACGATACGGTTGTCCTAATATGGTCTAAGAAAACGTGATAAGAAAAGGATGATA
261 TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGGATAATA
50501669 GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
326 GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
50501734 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGGGGATGAGTGAGCAACGAGTT
391 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGGGGATGAGTGAGCAACGAGTT
*
50501799 GCGGCCCGGATCAAGCAAAAATGAGATAGAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATA
456 GCGGCCCGGATCAAGCAAAAATGAGATAAAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATA
*
50501864 TTAACGCTCGAATGAAGAAAAGGATCAATTGTCTCCACATATAAGGGCAAAGACGTATATATATC
521 TTAACACTCGAATGAAGAAAAGGATCAATTGTCTCCACATATAAGGGCAAAGACGTATATATATC
* *
50501929 CGTTTTATGTACAAAGATTTATTTTCTAGTAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
586 CGTTTTATGTACAAAGATTTATATTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
50501994 TTTCTTTTTGCATTCATTCCATGC
651 TTTCTTTTTGCATTCATTCCATGC
50502018 ATCTGCTGGTTCGAGTACCTTTGCTTTAGAGCTGAACCGCATATAATGAACCTAAGAGCCCACCC
1 ATCTGCTGGTTCGAGTACCTTTGCTTTAGAGCTGAACCGCATATAATGAACCTAAGAGCCCACCC
50502083 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
66 TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
*
50502148 TTTGCTTTGTACTAACCTATTTTCTTTTGTTTTGATCATGATTGCATTGTATTATCATCATTAAA
131 TTTGCTTTGTACTAACCTATTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
50502213 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAAAGAGCTTGTCATAAGAAAATAGGTTTCTTGA
196 AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAAAGAGCTTGTCATAAGAAAATAGGTTTCTTGA
50502278 TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGGATAATA
261 TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGGATAATA
50502343 GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
326 GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
50502408 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGGGGATGAGTGAGCAACGAGTT
391 AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGGGGATGAGTGAGCAACGAGTT
* *
50502473 GCGGCCCGGATCAAGCGAAAATGAGATAAAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATC
456 GCGGCCCGGATCAAGCAAAAATGAGATAAAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATA
* * * *
50502538 TTAGCACTCGAATGAAGAAGAGGATCAATTGTCTCCGCATATAAGGGCAAAGCCGTATATATATC
521 TTAACACTCGAATGAAGAAAAGGATCAATTGTCTCCACATATAAGGGCAAAGACGTATATATATC
*
50502603 CGTTTTATGTACAGAGATTTATATTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
586 CGTTTTATGTACAAAGATTTATATTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
50502668 TTTCTTTTTGCATTCATTCCATGC
651 TTTCTTTTTGCATTCATTCCATGC
50502692 ATCTGC
1 ATCTGC
50502698 ATTACATTTC
Statistics
Matches: 661, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
674 661 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (674 bp):
ATCTGCTGGTTCGAGTACCTTTGCTTTAGAGCTGAACCGCATATAATGAACCTAAGAGCCCACCC
TAGGAAGAACCACTTCAAACCCTTAGTGGTCACCCGAATAGGTGTTTTATTTATTCTTGCTTGCT
TTTGCTTTGTACTAACCTATTTTCTTTTGTTTTGATCATGATTGCATTGCATTATCATCATTAAA
AAGAGGTGTTGATTCACGTTCAGTTGCTAAATAAAGAGCTTGTCATAAGAAAATAGGTTTCTTGA
TAAAGTGGATAACGATACGGTTGTCCGAATATGGTCTAAGAAAACGTGATAAGAAAAGGATAATA
GTTTAATGGAAGACTACAAGACTATTGCTCCGTTGCCCAAGGATTCAAGATGACAAAGATTATTC
AAGAGCCGCTGAACCTTCTTAAAAAGAAGCCAATGAGCATTACGGGGATGAGTGAGCAACGAGTT
GCGGCCCGGATCAAGCAAAAATGAGATAAAATAGACATCTTTTTGAAGAGTTCGTGAAATTTATA
TTAACACTCGAATGAAGAAAAGGATCAATTGTCTCCACATATAAGGGCAAAGACGTATATATATC
CGTTTTATGTACAAAGATTTATATTCTAGCAAAGCTGTTCTAATAGAGTTGAATCAGAATCAACA
TTTCTTTTTGCATTCATTCCATGC
Found at i:50502722 original size:24 final size:25
Alignment explanation
Indices: 50502680--50502732 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
50502670 TCTTTTTGCA
*
50502680 TTCATTCCATGCATCTGCATTACAT
1 TTCATTCCATGCATCTGCATTAAAT
* *
50502705 TTCATTGCAT-CATTTGCATTAAAT
1 TTCATTCCATGCATCTGCATTAAAT
50502729 TTCA
1 TTCA
50502733 CAAAAGGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (25 bp):
TTCATTCCATGCATCTGCATTAAAT
Found at i:50505490 original size:8 final size:9
Alignment explanation
Indices: 50505469--50505536 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
50505459 GAGGCAAAAA
50505469 AAAAAACAC
1 AAAAAACAC
50505478 AAAAAACAC
1 AAAAAACAC
*
50505487 AAAAAAGTA-
1 AAAAAA-CAC
50505496 AAAAAA-AC
1 AAAAAACAC
*
50505504 AAAAAAAAC
1 AAAAAACAC
* *
50505513 AAAAAAAAG
1 AAAAAACAC
*
50505522 AACAAA-AC
1 AAAAAACAC
50505530 AAAAAAC
1 AAAAAAC
50505537 CTCTATCGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.02
8 12 0.24
9 36 0.72
10 1 0.02
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.01
Consensus pattern (9 bp):
AAAAAACAC
Found at i:50505498 original size:26 final size:26
Alignment explanation
Indices: 50505467--50505535 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 26
50505457 TGGAGGCAAA
50505467 AAAAAAAACACAAAAAACACAAAAAAGT
1 AAAAAAAACA-AAAAAA-ACAAAAAAGT
50505495 AAAAAAAACAAAAAAAACAAAAAA--
1 AAAAAAAACAAAAAAAACAAAAAAGT
50505519 AAGAACAAAACAAAAAA
1 AA-AA-AAAACAAAAAA
50505536 CCTCTATCGG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 19 0.49
27 6 0.15
28 10 0.26
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (26 bp):
AAAAAAAACAAAAAAAACAAAAAAGT
Found at i:50505498 original size:28 final size:28
Alignment explanation
Indices: 50505467--50505535 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
50505457 TGGAGGCAAA
* *
50505467 AAAAAAAACACAAAAAACACAAAAAAGT
1 AAAAAAAACAAAAAAAACAAAAAAAAGT
50505495 AAAAAAAACAAAAAAAACAAAAAAAAG-
1 AAAAAAAACAAAAAAAACAAAAAAAAGT
*
50505522 -AACAAAACAAAAAA
1 AAAAAAAACAAAAAA
50505536 CCTCTATCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 13 0.34
28 25 0.66
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (28 bp):
AAAAAAAACAAAAAAAACAAAAAAAAGT
Found at i:50505516 original size:17 final size:17
Alignment explanation
Indices: 50505464--50505535 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
50505454 CAGTGGAGGC
*
50505464 AAAAAA-AAAAACACAA
1 AAAAAACAAAAAAACAA
* **
50505480 AAAACACAAAAAAGTAA
1 AAAAAACAAAAAAACAA
50505497 AAAAAACAAAAAAAACAA
1 AAAAAAC-AAAAAAACAA
* *
50505515 AAAAAAGAACAAAACAA
1 AAAAAACAAAAAAACAA
50505532 AAAA
1 AAAA
50505536 CCTCTATCGG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
16 5 0.11
17 26 0.58
18 14 0.31
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (17 bp):
AAAAAACAAAAAAACAA
Found at i:50505983 original size:11 final size:10
Alignment explanation
Indices: 50505965--50506028 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
50505955 ACTTCACTTG
50505965 AAAAAAAAGA
1 AAAAAAAAGA
50505975 AACAAAAAAGA
1 AA-AAAAAAGA
*
50505986 AAAGAAAAGA
1 AAAAAAAAGA
50505996 AAAGAAAAA-A
1 AAA-AAAAAGA
*
50506006 AGAAAAGAAGA
1 A-AAAAAAAGA
*
50506017 ACGAAAAAAGA
1 A-AAAAAAAGA
50506028 A
1 A
50506029 GAATGAGAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
10 18 0.41
11 26 0.59
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:50505983 original size:13 final size:13
Alignment explanation
Indices: 50505966--50506014 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
50505956 CTTCACTTGA
50505966 AAAAAAAG-AAA-
1 AAAAAAAGAAAAG
*
50505977 CAAAAAAGAAAAG
1 AAAAAAAGAAAAG
50505990 ---AAAAGAAAAG
1 AAAAAAAGAAAAG
50506000 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
50506013 AA
1 AA
50506015 GAACGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 10 0.31
11 7 0.22
12 3 0.09
13 12 0.38
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:50505990 original size:5 final size:5
Alignment explanation
Indices: 50505964--50506014 Score: 63
Period size: 5 Copynumber: 10.6 Consensus size: 5
50505954 TACTTCACTT
*
50505964 GAAAA -AAAA GAAACA AAAAA GAAAA GAAAA GAAAA G-AAA -AAAA GAAAA
1 GAAAA GAAAA GAAA-A GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
50506012 GAA
1 GAA
50506015 GAACGAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 10 0.25
5 26 0.65
6 4 0.10
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:50506004 original size:23 final size:25
Alignment explanation
Indices: 50505978--50506023 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
50505968 AAAAAGAAAC
50505978 AAAAAAGAAAAGAA-AA-GAAAAGA
1 AAAAAAGAAAAGAAGAACGAAAAGA
50506001 AAAAAAGAAAAGAAGAACGAAAA
1 AAAAAAGAAAAGAAGAACGAAAA
50506024 AAGAAGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.67
24 2 0.10
25 5 0.24
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (25 bp):
AAAAAAGAAAAGAAGAACGAAAAGA
Found at i:50506550 original size:108 final size:108
Alignment explanation
Indices: 50506361--50506556 Score: 268
Period size: 108 Copynumber: 1.8 Consensus size: 108
50506351 AATTTATTCT
* * * * * **
50506361 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTTTTAATAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTCTGCTCTCAAAAAAACTTCATCTT
50506426 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTAGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTAGTATCTC
* **
50506469 AGCAAAATTTGCTATCTT-ATTTGATTTATTTGTTTAGAGCTCTGCTCTCAAAAAAACTTCATCT
1 AGCAAAATTTGCTATCTTGA-TTAATTTATTCATTTAGAGCTCTGCTCTCAAAAAAACTTCATCT
* *
50506533 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
50506557 AGCATTTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 74 0.99
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTCTGCTCTCAAAAAAACTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTAGTATCTC
Found at i:50507476 original size:50 final size:50
Alignment explanation
Indices: 50507408--50508049 Score: 436
Period size: 50 Copynumber: 12.9 Consensus size: 50
50507398 GCAGTGAAGC
* * *
50507408 AGATTAAGGCTACGACGGCGAATCTTGCTTCCCTAACATTGCAATTAAAA
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * * * ** **
50507458 AGATTAAAGCCACAACGGCGAATCTCGCTTCCCTGGA-AGTACAGTGGAGC
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCT-GACATTGCAATTAAAA
* * * *
50507508 AGATTAAAGCTACGACAGCGAATCTTGCTTCCCTGATATTGCAATTTAAA
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * * ** *
50507558 AGATTGAAG-TCGCAACGGCGAATCTTACTTCCCTGGCGGTGC-AGTAAAA
1 AGATTAAAGCT-ACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * *
50507607 TAGATTAAAGCTACAACGACGAATCTTGTTTCCCCGACATTGCAATTAAAA
1 -AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * * ** * * * * ** **
50507658 AGGTTGAAGCCACAGCGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGC
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * * *
50507708 AGATTAAAGCTACGATGGTGAATCTTGCTTCCCTGATATTGCAATTTAAA
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* ** * * * * *
50507758 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGC-AGTAGAAC
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTA-AAA
* * * *
50507808 AGATTAAAGCTACAACGGCGAATTTTGTTTCCCCGACATTGTAATTAAAA
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * ** * ** * ** **
50507858 AGATTGAAGCCACAATGGCGAATCTCACTTCCCT-AGCAGTATAGTGGAGC
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGA-CATTGCAATTAAAA
* *
50507908 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGATATTGCAATTTAAA
1 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * * * ** *
50507958 AGATTGAAGCCGA-AACGGTGAATCTTACTTCCCTGGCGGTGC-AGTAAAA
1 AGATTAAAG-CTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
*
50508007 CAGATTAAAGCTACAACGGCGAATCTTG-TTCCGTGACATTGCA
1 -AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCA
50508050 GTCAATTTGA
Statistics
Matches: 427, Mismatches: 151, Indels: 28
0.70 0.25 0.05
Matches are distributed among these distances:
49 28 0.07
50 385 0.90
51 14 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAA
Found at i:50507559 original size:100 final size:100
Alignment explanation
Indices: 50507385--50508049 Score: 821
Period size: 100 Copynumber: 6.7 Consensus size: 100
50507375 ATGAAGTTAC
** * * * *
50507385 CTTCCCTGAAAGTGCAGTGAAGCAGATTAAGGCTACGACGGCGAATCTTGCTTCCCTAACATTGC
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
* *
50507450 AATTAAAAAGATTAAAGCCACAACGGCGAATCTCG
66 AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
* * * * *
50507485 CTTCCCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACAGCGAATCTTGCTTCCCTGATATTGC
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
* * * *
50507550 AATTTAAAAGATTGAAGTCGCAACGGCGAATCTTA
66 AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
* ** ** * * *
50507585 CTTCCCTGGCGGTGCAGTAAAATAGATTAAAGCTACAACGACGAATCTTGTTTCCCCGACATTGC
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
* *
50507650 AATTAAAAAGGTTGAAGCCACAGCGGCGAATCTCA
66 AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
* * * * *
50507685 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGATGGTGAATCTTGCTTCCCTGATATTGC
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
* * *
50507750 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTA
66 AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
* * * * * *
50507785 CTTCCCTGGCAGTGCAGTAGAACAGATTAAAGCTACAACGGCGAATTTTGTTTCCCCGACATTGT
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
*
50507850 AATTAAAAAGATTGAAGCCACAATGGCGAATCTCA
66 AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
* ** *
50507885 CTTCCCTAGCAGTATAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGATATTGC
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
* * *
50507950 AATTTAAAAGATTGAAGCCGA-AACGGTGAATCTTA
66 AATTAAAAAGATTGAAGCC-ACAACGGCGAATCTCA
* ** * *
50507985 CTTCCCTGGCGGTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTG-TTCCGTGACATTGC
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
50508049 A
66 A
50508050 GTCAATTTGA
Statistics
Matches: 476, Mismatches: 88, Indels: 3
0.84 0.16 0.01
Matches are distributed among these distances:
99 13 0.03
100 462 0.97
101 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (100 bp):
CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC
AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
Found at i:50507733 original size:200 final size:200
Alignment explanation
Indices: 50507396--50508049 Score: 1031
Period size: 200 Copynumber: 3.3 Consensus size: 200
50507386 TTCCCTGAAA
* * * * * **
50507396 GTGCAGTGAAGCAGATTAAGGCTACGACGGCGAATCTTGCTTCCCTAACATTGCAATTAAAAAGA
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGA
* * * *
50507461 TTAAAGCCACAACGGCGAATCTCGCTTCCCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACAG
66 TTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGG
*
50507526 CGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGTCGCAACGGCGAATCTTACTTCCC
131 CGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC
50507591 TGGCG
196 TGGCG
* * *
50507596 GTGCAGTAAAATAGATTAAAGCTACAACGACGAATCTTGTTTCCCCGACATTGCAATTAAAAAGG
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGA
* *
50507661 TTGAAGCCACAGCGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGATGG
66 TTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGG
*
50507726 TGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC
131 CGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC
*
50507791 TGGCA
196 TGGCG
* * *
50507796 GTGCAGTAGAACAGATTAAAGCTACAACGGCGAATTTTGTTTCCCCGACATTGTAATTAAAAAGA
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGA
* * * *
50507861 TTGAAGCCACAATGGCGAATCTCACTTCCCTAGCAGTATAGTGGAGCAGATTAAAGCTACAACGG
66 TTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGG
* *
50507926 CGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGAAACGGTGAATCTTACTTCCC
131 CGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC
50507991 TGGCG
196 TGGCG
**
50507996 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTG-TTCCGTGACATTGCA
1 GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCCGACATTGCA
50508050 GTCAATTTGA
Statistics
Matches: 414, Mismatches: 40, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
199 12 0.03
200 402 0.97
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (200 bp):
GTGCAGTAAAACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGA
TTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGG
CGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC
TGGCG
Found at i:50508158 original size:40 final size:40
Alignment explanation
Indices: 50508114--50508686 Score: 210
Period size: 40 Copynumber: 13.8 Consensus size: 40
50508104 AAACCACAGA
* *
50508114 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAATCAAG
50508154 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACATAAGAAATCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAG--AT-AG-AATCAAG
* * * * * *
50508197 TCCTATCTCCCTGAAGTTA-CAGTGGAGCGGATTAAAACCATAG
1 TCTTATCTCCCT-AAG-CAGTAGTGGAGCAGA-TAGAATCA-AG
* * * *
50508240 ATCTTATCTCCGTAAGCAGTAGTGGAGCAGTTTGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAATCAAG
* * * *
50508281 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACA-AA-AAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAATCAAG
* * * * *
50508319 TCCTATCTCCCTGAA--ATTACAGTGGAGCAGATTAAAACCACAAA
1 TCTTATCTCCCT-AAGCAGT--AGTGGAGCAGA-TAGAA--TCAAG
* * * * * * **
50508363 TATTATCTCTCTAA-AATTGCAGTAGAGCAGATCA-CATCCCG
1 TCTTATCTCCCTAAGCA--GTAGTGGAGCAGAT-AGAATCAAG
*
50508404 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAG--A-TAG-AATCAAG
* ** * * * * *
50508447 TCCTATCTCCCTGAAGTTGTAGTGGAACGGATTAAAACCATAAA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TAGAATC--AAG
* * * * **
50508491 TCTTATCTCTCTAAGCAGTAGTGGAGCAAATCGTATCCCG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAATCAAG
* ** *
50508531 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAATCAAG
* ** * * *
50508571 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TAGAATCA-AG
* ** * * * * **
50508614 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCCG
1 -TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATAGAATCAAG
* *
50508656 TCTTATCTCCCTTAAGTAGTAGCGGAGCAGA
1 TCTTATCTCCC-TAAGCAGTAGTGGAGCAGA
50508687 CTAAAGAAAA
Statistics
Matches: 389, Mismatches: 106, Indels: 75
0.68 0.19 0.13
Matches are distributed among these distances:
37 2 0.01
38 13 0.03
39 13 0.03
40 108 0.28
41 63 0.16
42 25 0.06
43 59 0.15
44 105 0.27
45 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAATCAAG
Found at i:50508220 original size:127 final size:127
Alignment explanation
Indices: 50508060--50508695 Score: 835
Period size: 127 Copynumber: 5.0 Consensus size: 127
50508050 GTCAATTTGA
*
50508060 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
** *
50508125 TAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAT
66 TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
* *
50508187 AAGAAATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATAGATCTTATCTC-C
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* * ** *
50508251 GTAAGCAGTAGTGGAGCAGTTTGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGAC--
66 -TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
* * * * *
50508312 AA-AAA--AATCCTATCTCCCTGAAATTACAGTGGAGCAGATTAAAACCACAAATATTATCTCTC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* * * *
50508374 TAA-AATTGCAGTAGAGCAGATCACATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
66 TAAGCA--GTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
* * * *
50508437 AAGAAATCAATCCTATCTCCCTGAAGTTGTAGTGGAACGGATTAAAACCATAAATCTTATCTCTC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* *
50508502 TAAGCAGTAGTGGAGCAAATCGTATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
66 TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
* *
50508564 AA-AAA--AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
1 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
** * * * *
50508626 TGAAGTTGCAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTTAAGTAGTAGCGGAGCAGACTA-
66 T-AAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCC-TAAGCAGTAGTGGAGCAGAC-AG
50508690 AAGAAA
1 AAGAAA
50508696 ATGATGAATC
Statistics
Matches: 449, Mismatches: 46, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
121 1 0.00
122 53 0.12
123 47 0.10
124 55 0.12
125 37 0.08
126 27 0.06
127 175 0.39
128 53 0.12
129 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (127 bp):
AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
TAAGCAGTAGTGGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG
Found at i:50508508 original size:250 final size:250
Alignment explanation
Indices: 50508068--50508695 Score: 913
Period size: 250 Copynumber: 2.5 Consensus size: 250
50508058 GAAAGAAATC
* * *
50508068 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCA--
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAA-AATT
* * **
50508131 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACATAAGAAATCA
65 GCAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AAGAAATCA
* *
50508196 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATAGATCTTATCTCCGTAAGCAGTA
129 ATCCTATCTCCCTGAAGTTACAGTGGAACGGATTAAAACCATAAATCTTATCTCCGTAAGCAGTA
** * *
50508261 GTGGAGCAGTTTGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGAC-AAAAA
194 GTGGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAA
* * * *
50508317 AATCCTATCTCCCTGAAATTACAGTGGAGCAGATTAAAACCACAAATATTATCTCTCTAAAATTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAATTG
*
50508382 CAGTAGAGCAGATCACATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAA
66 CAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AAGAAATCAA
**
50508447 TCCTATCTCCCTGAAGTTGTAGTGGAACGGATTAAAACCATAAATCTTATCTCTC-TAAGCAGTA
130 TCCTATCTCCCTGAAGTTACAGTGGAACGGATTAAAACCATAAATCTTATCTC-CGTAAGCAGTA
* **
50508511 GTGGAGCAAATCGTATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAA
194 GTGGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AAAAA
* * *
50508569 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAATTG
* *
50508634 CAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTTAAGTAGTAGCGGAGCAGACTAAAGAAA
66 CAGTAGAGCAGATCGCATCCCGTCTTATCTCCC-TAAGCAGTAGTGGAGCAGAC-AAAGAAA
50508696 ATGATGAATC
Statistics
Matches: 338, Mismatches: 34, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
248 1 0.00
249 54 0.16
250 162 0.48
251 1 0.00
252 95 0.28
253 24 0.07
254 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (250 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAATTG
CAGTAGAGCAGATCGCATCCCGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAGAAATCAAT
CCTATCTCCCTGAAGTTACAGTGGAACGGATTAAAACCATAAATCTTATCTCCGTAAGCAGTAGT
GGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAA
Found at i:50510393 original size:12 final size:11
Alignment explanation
Indices: 50510375--50510405 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
50510365 TAAAAAACAT
50510375 TTTATTTAATA
1 TTTATTTAATA
50510386 TTTCATTTAATA
1 TTT-ATTTAATA
50510398 TTTATTTA
1 TTTATTTA
50510406 TTTACTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTATTTAATA
Found at i:50521431 original size:3 final size:3
Alignment explanation
Indices: 50521404--50521468 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
50521394 CAAACCTTAG
* * * *
50521404 ATT ATT CATT ATTT ATT ATT TTT ATT ATC ATT CA-T ATT ATT CTC ATT
1 ATT ATT -ATT A-TT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
*
50521451 ATT ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
50521469 TTTAAAACCC
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 1 0.02
3 40 0.83
4 7 0.15
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:50523929 original size:21 final size:20
Alignment explanation
Indices: 50523903--50523946 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
50523893 TAAAGACTTA
* *
50523903 AATGAAGTGTTATGTGATAGT
1 AATGAAGTGTAAGGTGATA-T
50523924 AATGAAGTGTAAGGTGATAT
1 AATGAAGTGTAAGGTGATAT
50523944 AAT
1 AAT
50523947 AATTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (20 bp):
AATGAAGTGTAAGGTGATAT
Found at i:50525768 original size:25 final size:25
Alignment explanation
Indices: 50525719--50525802 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
50525709 GAGCCATGAT
* *
50525719 CGGTAAGCTCATTTTGAGCTGAAGAA
1 CGGTAAGCTC-TATCGAGCTGAAGAA
50525745 CGGTAAGCTCTATCGAGCTGAAGAA
1 CGGTAAGCTCTATCGAGCTGAAGAA
*
50525770 CAGTAAGCTCTATCGAGCTG-A-AA
1 CGGTAAGCTCTATCGAGCTGAAGAA
50525793 CGGTAAGCTC
1 CGGTAAGCTC
50525803 ATAAGAGCTG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
23 11 0.20
24 1 0.02
25 32 0.59
26 10 0.19
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCTATCGAGCTGAAGAA
Found at i:50525811 original size:48 final size:51
Alignment explanation
Indices: 50525734--50525828 Score: 126
Period size: 48 Copynumber: 1.9 Consensus size: 51
50525724 AGCTCATTTT
*
50525734 GAGCTGAAGAACGGTAAGCTCTATCGAGCTGA-AGAACAGTAAGCTCTATC
1 GAGCTGAAGAACGGTAAGCTCTATAGAGCTGATAGAACAGTAAGCTCTATC
* *
50525784 GAGCTG-A-AACGGTAAGCTC-ATAAGAGCTGATATATCAGTAAGCTC
1 GAGCTGAAGAACGGTAAGCTCTAT-AGAGCTGATAGAACAGTAAGCTC
50525829 ATACGAGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
47 2 0.05
48 19 0.47
49 13 0.32
50 6 0.15
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (51 bp):
GAGCTGAAGAACGGTAAGCTCTATAGAGCTGATAGAACAGTAAGCTCTATC
Found at i:50528824 original size:11 final size:11
Alignment explanation
Indices: 50528803--50528842 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
50528793 AATTTAGTGA
*
50528803 AAGAAAGAGAG
1 AAGAAAAAGAG
*
50528814 AAGAAGAAGAG
1 AAGAAAAAGAG
50528825 AAGAAAAAGA-
1 AAGAAAAAGAG
50528835 AAGAAAAA
1 AAGAAAAA
50528843 AAAAAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:50533196 original size:42 final size:42
Alignment explanation
Indices: 50533137--50533232 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
50533127 CTATATGAAT
* *
50533137 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTACGAAACTAAAATGACGATGTTGAATAACG
* *
50533179 GGCACTAAGTGTACGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTACGAAACTAAAATGACGATGTTGAATAACG
50533221 GGCACTAAGTGT
1 GGCACTAAGTGT
50533233 GCGATACCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (42 bp):
GGCACTAAGTGTACGAAACTAAAATGACGATGTTGAATAACG
Found at i:50535304 original size:7 final size:7
Alignment explanation
Indices: 50535292--50535316 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50535282 AGTCGATTGA
50535292 TATTTAG
1 TATTTAG
50535299 TATTTAG
1 TATTTAG
50535306 TATTTAG
1 TATTTAG
50535313 TATT
1 TATT
50535317 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:50535994 original size:18 final size:18
Alignment explanation
Indices: 50535968--50536004 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50535958 AGGTGCGTTC
*
50535968 CCTAGCCCTTATATGTAT
1 CCTAACCCTTATATGTAT
50535986 CCTAACCCTTATATGTAT
1 CCTAACCCTTATATGTAT
50536004 C
1 C
50536005 TTTTTCCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.30, G:0.08, T:0.38
Consensus pattern (18 bp):
CCTAACCCTTATATGTAT
Found at i:50536286 original size:21 final size:21
Alignment explanation
Indices: 50536262--50536310 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
50536252 AGATGTCGTA
* *
50536262 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCGCCG
*
50536283 CCGGAGGAACAACAACCGCCG
1 CCGGAAGAACAACAACCGCCG
50536304 CCGGAAG
1 CCGGAAG
50536311 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.37, G:0.29, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCGCCG
Found at i:50536465 original size:25 final size:25
Alignment explanation
Indices: 50536431--50536554 Score: 125
Period size: 25 Copynumber: 5.1 Consensus size: 25
50536421 TGATTATTTT
50536431 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
50536456 GAAGTTTATTTGATGTAATAAAAAGA
1 GAAGTTTATTTGATGTAAT-AAAATA
* * ***
50536482 GAAATTTTTTTGA-GT--TATTGT-
1 GAAGTTTATTTGATGTAATAAAATA
*
50536503 G-A-TATTATTTGATATAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
50536527 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
50536552 GAA
1 GAA
50536555 ATTTTTGAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
19 1 0.01
20 8 0.10
21 2 0.03
22 1 0.01
23 4 0.05
24 1 0.01
25 44 0.56
26 17 0.22
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (25 bp):
GAAGTTTATTTGATGTAATAAAATA
Found at i:50536630 original size:28 final size:24
Alignment explanation
Indices: 50536599--50536783 Score: 209
Period size: 23 Copynumber: 7.6 Consensus size: 24
50536589 GAGAATTGTA
50536599 CTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATT----AGAAAACC
*
50536627 CTAACCTAATTAAATT-GAAAACT
1 CTAACCTAATTAAATTAGAAAACC
50536650 CTAACCTAATTAAATTA-AAAACC
1 CTAACCTAATTAAATTAGAAAACC
* **
50536673 CTAACCTAATTAAACT-CTAAACC
1 CTAACCTAATTAAATTAGAAAACC
*
50536696 CTAACCTAATTAAAGTGAAAAGAAAACC
1 CTAACCTAATTAAA-T---TAGAAAACC
50536724 CTAACCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
*
50536747 CTAACCTAATTAAATTA-AAAACT
1 CTAACCTAATTAAATTAGAAAACC
50536770 CTAACCTAATTAAA
1 CTAACCTAATTAAA
50536784 CCCTAAACTA
Statistics
Matches: 139, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
23 103 0.74
27 1 0.01
28 35 0.25
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (24 bp):
CTAACCTAATTAAATTAGAAAACC
Found at i:50536637 original size:23 final size:23
Alignment explanation
Indices: 50536611--50536837 Score: 199
Period size: 23 Copynumber: 10.0 Consensus size: 23
50536601 AACCTAATTA
50536611 AATTGAAA-AGAAAACCCTAACCT
1 AATT-AAATAGAAAACCCTAACCT
* *
50536634 AATTAAATTGAAAACTCTAACCT
1 AATTAAATAGAAAACCCTAACCT
50536657 AATTAAATTA-AAAACCCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
**
50536680 AATTAAACT-CTAAACCCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
50536703 AATTAAAGTGAAAAGAAAACCCTAACCT
1 AATTAAA-T----AGAAAACCCTAACCT
*
50536731 AATTAAATTGAAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
*
50536754 AATTAAATTA-AAAACTCTAACCT
1 AATTAAA-TAGAAAACCCTAACCT
*
50536777 AA-T---T---AAACCCTAAACT
1 AATTAAATAGAAAACCCTAACCT
* *
50536793 AATTAACTTGAAAACCCTAACCT
1 AATTAAATAGAAAACCCTAACCT
50536816 AATTAAATTA-AAAACCCTAACC
1 AATTAAA-TAGAAAACCCTAACC
50536838 CTAACCCTAA
Statistics
Matches: 170, Mismatches: 17, Indels: 34
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.07
17 1 0.01
18 1 0.01
20 1 0.01
22 4 0.02
23 128 0.75
24 3 0.02
27 1 0.01
28 19 0.11
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.25
Consensus pattern (23 bp):
AATTAAATAGAAAACCCTAACCT
Found at i:50536674 original size:46 final size:46
Alignment explanation
Indices: 50536621--50536837 Score: 250
Period size: 46 Copynumber: 4.8 Consensus size: 46
50536611 AATTGAAAAG
*
50536621 AAAACCCTAACCTAATTAAATTGAAAACTCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
* ** *
50536667 AAAACCCTAACCTAATTAAACTCTAAACCCTAACCTAATTAAAGTGAAAA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA-T---TA
50536717 GAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
1 -AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
* * * *
50536764 AAAACTCTAACC----T-AATT--AAACCCTAAACTAATTAACTTG
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
*
50536803 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACC
50536838 CTAACCCTAA
Statistics
Matches: 144, Mismatches: 15, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
39 30 0.21
41 4 0.03
42 1 0.01
43 1 0.01
44 4 0.03
46 60 0.42
47 2 0.01
50 2 0.01
51 40 0.28
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (46 bp):
AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
Found at i:50536764 original size:97 final size:97
Alignment explanation
Indices: 50536599--50536791 Score: 350
Period size: 97 Copynumber: 2.0 Consensus size: 97
50536589 GAGAATTGTA
* *
50536599 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACTCTAACCTAATTAAA
1 CTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
50536664 TTAAAAACCCTAACCTAATTAAACTCTAAACC
66 TTAAAAACCCTAACCTAATTAAACCCTAAACC
50536696 CTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
50536761 TTAAAAACTCTAACCTAATTAAACCCTAAAC
66 TTAAAAACCCTAACCTAATTAAACCCTAAAC
50536792 TAATTAACTT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.25
Consensus pattern (97 bp):
CTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
TTAAAAACCCTAACCTAATTAAACCCTAAACC
Found at i:50536774 original size:74 final size:74
Alignment explanation
Indices: 50536621--50536783 Score: 228
Period size: 74 Copynumber: 2.3 Consensus size: 74
50536611 AATTGAAAAG
* *
50536621 AAAACCCTAACCTAATTAAA-T----TGAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTA
1 AAAACCCTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTA
*
50536681 ATTAAACTC
66 ATTAAACTA
* *
50536690 TAAACCCTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTA
1 AAAACCCTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTA
*
50536755 ATTAAATTA
66 ATTAAACTA
*
50536764 AAAACTCTAACCTAATTAAA
1 AAAACCCTAACCTAATTAAA
50536784 CCCTAAACTA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 19 0.23
70 1 0.01
74 61 0.75
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.25
Consensus pattern (74 bp):
AAAACCCTAACCTAATTAAAGTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTA
ATTAAACTA
Found at i:50536789 original size:16 final size:16
Alignment explanation
Indices: 50536765--50536798 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50536755 ATTAAATTAA
* *
50536765 AAACTCTAACCTAATT
1 AAACCCTAAACTAATT
50536781 AAACCCTAAACTAATT
1 AAACCCTAAACTAATT
50536797 AA
1 AA
50536799 CTTGAAAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (16 bp):
AAACCCTAAACTAATT
Found at i:50536816 original size:62 final size:62
Alignment explanation
Indices: 50536719--50536837 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 62
50536709 AGTGAAAAGA
* *
50536719 AAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACTCTAACCTAATT
1 AAACCCTAAACTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATT
*
50536781 AAACCCTAAACTAATTAACTTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
1 AAACCCTAAACTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
50536838 CTAACCCTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (62 bp):
AAACCCTAAACTAATTAAATTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATT
Found at i:50536838 original size:29 final size:29
Alignment explanation
Indices: 50536805--50536868 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
50536795 TTAACTTGAA
50536805 AACCCTAA-CCTAATTA-AATTAAAAACCCT
1 AACCCTAACCCTAA--ACAATTAAAAACCCT
**
50536834 AACCCTAACCCTAAACCCTTAAAAACCCT
1 AACCCTAACCCTAAACAATTAAAAACCCT
50536863 AACCCT
1 AACCCT
50536869 TAACATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 25 0.81
30 5 0.16
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (29 bp):
AACCCTAACCCTAAACAATTAAAAACCCT
Found at i:50536862 original size:17 final size:16
Alignment explanation
Indices: 50536823--50536871 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
50536813 CCTAATTAAA
50536823 TTAAAAACCCTAACCC
1 TTAAAAACCCTAACCC
50536839 -T---AACCCTAAACCC
1 TTAAAAACCCT-AACCC
50536852 TTAAAAACCCTAACCC
1 TTAAAAACCCTAACCC
50536868 TTAA
1 TTAA
50536872 CATTCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 1 0.04
15 1 0.04
16 9 0.32
17 6 0.21
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (16 bp):
TTAAAAACCCTAACCC
Found at i:50537069 original size:115 final size:115
Alignment explanation
Indices: 50536871--50537088 Score: 350
Period size: 115 Copynumber: 1.9 Consensus size: 115
50536861 CTAACCCTTA
* * *
50536871 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATATTAGATTTGGAAAAATG-TTTTTCCTAGTACTAACAAATAATAATTTTATA
*
50536936 TAATTTGATAATTTTACTAACAATTAATACAATTTATCGGATAATAATTTT
65 TAAATTGATAATTTTACTAACAATTAATACAATTTATCGGATAATAATTTT
50536987 ACATTCACATAATATTAGATTTGGAAAAATG-TTTTCACTAGTACTAACAAATAATAATTTTATA
1 ACATTCACATAATATTAGATTTGGAAAAATGTTTTTC-CTAGTACTAACAAATAATAATTTTATA
*
50537051 TAAATTGA-AATTTTTACTAACCATTAATACAATTTATC
65 TAAATTGATAA-TTTTACTAACAATTAATACAATTTATC
50537089 AATTAATAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
114 7 0.07
115 58 0.61
116 30 0.32
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (115 bp):
ACATTCACATAATATTAGATTTGGAAAAATGTTTTTCCTAGTACTAACAAATAATAATTTTATAT
AAATTGATAATTTTACTAACAATTAATACAATTTATCGGATAATAATTTT
Found at i:50539375 original size:604 final size:604
Alignment explanation
Indices: 50538227--50539434 Score: 2344
Period size: 604 Copynumber: 2.0 Consensus size: 604
50538217 ATCAGGTTGG
50538227 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
1 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
*
50538292 TATTGCAAATGCAATTGGAAGAATTATCCCACCGTCATTCTGTGCCACTGCAAGCAATAGCTGAT
66 TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
*
50538357 GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTATCAATGGCTTGCAGTATGGAAATGCG
131 GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
* *
50538422 TCTCGGTATTGCTTAAAGGTCCAAAATAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
196 TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
*
50538487 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGATGTATCTCTCTAGCACCT
261 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGACGTATCTCTCTAGCACCT
50538552 GACACCACTGCCATATTTCATTATATGAGGCGTCCCACCCCCTATGCATCTTCTCCAACGCCTTT
326 GACACCACTGCCATATTTCATTATATGAGGCGTCCCACCCCCTATGCATCTTCTCCAACGCCTTT
50538617 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
391 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
*
50538682 TAACACCGGCACTGAAGTCTTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
456 TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
50538747 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
521 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
50538812 TGCATAATAAAAGTATTGT
586 TGCATAATAAAAGTATTGT
50538831 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
1 GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
50538896 TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
66 TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
50538961 GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
131 GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
*
50539026 TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGTC
196 TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
*
50539091 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACTTGGGACGTATCTCTCTAGCACCT
261 GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGACGTATCTCTCTAGCACCT
50539156 GACACCACTGCCATATTTCATTATATGAGGCGTCCCACCCCCTATGCATCTTCTCCAACGCCTTT
326 GACACCACTGCCATATTTCATTATATGAGGCGTCCCACCCCCTATGCATCTTCTCCAACGCCTTT
50539221 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
391 TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
50539286 TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
456 TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
50539351 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
521 TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
50539416 TGCATAATAAAAGTATTGT
586 TGCATAATAAAAGTATTGT
50539435 TCAGAAACCG
Statistics
Matches: 596, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
604 596 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (604 bp):
GGGCACACATGCCTCCTTAACCTAGAGAGAAAGAAATCCCAGTCATCAGACGACTCCCCCGGTGT
TATTGCAAATGCAATTGGAAGAATTATCCCACCGCCATTCTGTGCCACTGCAAGCAATAGCTGAT
GAGTATACCTCCCGAACATAAAGGTACCGTCAATTTGTACCAATGGCTTGCAGTATGGAAATGCG
TCTCGGCATTGCTTAAAGGTCCAAAACAGGCGTTTGAACACTTGGCATCCACGTAGCAATCGGCC
GTTGTAGTACGCATGTTCCGTTTCAAGGTCTGTGATGGCACCTGGGACGTATCTCTCTAGCACCT
GACACCACTGCCATATTTCATTATATGAGGCGTCCCACCCCCTATGCATCTTCTCCAACGCCTTT
TGCTTAGCTATCCAAGCCTTGCGGTAAGAGGGCGTGTACCCCATTTGGCTACGAATATTGGCAAT
TAACACCGGCACTGAAGTCCTGGGATCTACTTTTACCGTGGGCAGTATCAAGCTAGCTAACATAG
TTGAATCCATCTTGGGATGATCTTGTGAAACACCTATAAACCGAGTACATTAAATAATGCAACAT
TGCATAATAAAAGTATTGT
Done.