Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 32 of 187
Found at i:9198646 original size:16 final size:16
Alignment explanation
Indices: 9198610--9198646 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9198600 AAAAAAGATG
9198610 AAAAAAATGAAAAAAT
1 AAAAAAATGAAAAAAT
* *
9198626 GAAAAAATGAAAAAGT
1 AAAAAAATGAAAAAAT
9198642 AAAAA
1 AAAAA
9198647 TGGAGAGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAAAATGAAAAAAT
Found at i:9200212 original size:46 final size:46
Alignment explanation
Indices: 9199822--9200195 Score: 568
Period size: 46 Copynumber: 8.1 Consensus size: 46
9199812 ATAGATCAAT
9199822 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
9199868 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGTAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
9199914 GAGGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
9199960 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
9200006 GAGGATAGCAGATCTTATCTTTCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * * *
9200052 AAAGATAGTAGATCTTATCTTCATGTATTTGGCAGCGAAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * *
9200098 GAGGATAGTAGATTTTGTCTTCCTGTAATTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
**
9200144 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
9200190 GAAGAT
1 GAAGAT
9200196 GGTGAATCTT
Statistics
Matches: 298, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 298 1.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (46 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
Found at i:9200343 original size:132 final size:132
Alignment explanation
Indices: 9200180--9200710 Score: 833
Period size: 132 Copynumber: 4.1 Consensus size: 132
9200170 ATTTGGCAGC
* *
9200180 GGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* * * *
9200245 GTCCTATTACCCTAAGCAGTAATGGGGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGTAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
*
9200310 AT
131 GT
*
9200312 GGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* *
9200377 GTCCTATCACCCTAAGCAGTAGTGGGGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGTAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
9200442 GT
131 GT
* * *
9200444 GGAGTAGATCGAAGATGGTGAATCCTATCTTCCCAGTACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
*
9200509 GTCCTATCACCCTAAGCAGTAGTGGAATAGGTT---GA----AGATTCTGTCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
9200567 GT
131 GT
* * * * *
9200569 GGGGCAAATCAAAAATGGTGAATCTTATCTTCTCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
*
9200634 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCCCCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
9200699 GT
131 GT
9200701 GGAGCAGATC
1 GGAGCAGATC
9200711 AACAATAACG
Statistics
Matches: 367, Mismatches: 25, Indels: 14
0.90 0.06 0.03
Matches are distributed among these distances:
125 113 0.31
128 2 0.01
129 2 0.01
132 250 0.68
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
GT
Found at i:9200666 original size:257 final size:259
Alignment explanation
Indices: 9200180--9200710 Score: 832
Period size: 257 Copynumber: 2.0 Consensus size: 259
9200170 ATTTGGCAGC
*
9200180 GGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTA
1 GGAGTAGATCGAAGATGGTGAATCCTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTA
* ** *
9200245 GTCCTATTACCCTAAGCAGTAATGGGGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGTAGTA
66 GTCCTATCACCCTAAGCAGTAATGGAATAGGTT--AGA-T--AGATTCTGTCACCCTAAGCAGTA
* * *
9200310 ATGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCAT
126 ATGGAGCAAATCAAAAATGGCGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCAT
* *
9200375 TAGTCCTATCACCCTAAGCAGTAGTGGGGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGTAG
191 TAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAG
9200440 TAGT
256 TAGT
* *
9200444 GGAGTAGATCGAAGATGGTGAATCCTATCTTCCCAGTACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGTAGATCGAAGATGGTGAATCCTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTA
* * *
9200509 GTCCTATCACCCTAAGCAGTAGTGGAATAGGTT-GA-AGATTCTGTCACCCTAAGCAGTAGTGGG
66 GTCCTATCACCCTAAGCAGTAATGGAATAGGTTAGATAGATTCTGTCACCCTAAGCAGTAATGGA
* *
9200572 GCAAATCAAAAATGGTGAATCTTATCTTCTCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTC
131 GCAAATCAAAAATGGCGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTC
*
9200637 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCCCCCTAAGCAGTAGT
196 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
*
9200701 GGAGCAGATC
1 GGAGTAGATC
9200711 AACAATAACG
Statistics
Matches: 248, Mismatches: 19, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
257 155 0.62
261 2 0.01
264 91 0.37
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (259 bp):
GGAGTAGATCGAAGATGGTGAATCCTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTA
GTCCTATCACCCTAAGCAGTAATGGAATAGGTTAGATAGATTCTGTCACCCTAAGCAGTAATGGA
GCAAATCAAAAATGGCGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTC
CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
Found at i:9202206 original size:7 final size:7
Alignment explanation
Indices: 9202194--9202221 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9202184 TGCATATGTT
9202194 TTTTATA
1 TTTTATA
9202201 TTTTATA
1 TTTTATA
9202208 TTTTATA
1 TTTTATA
9202215 TTTTATA
1 TTTTATA
9202222 CATCTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTATA
Found at i:9206553 original size:16 final size:16
Alignment explanation
Indices: 9206532--9206566 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9206522 TTGTGTTTTG
9206532 TTTTGATTGCATGACA
1 TTTTGATTGCATGACA
9206548 TTTTGATTGCATGACA
1 TTTTGATTGCATGACA
9206564 TTT
1 TTT
9206567 CATCATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTTGATTGCATGACA
Found at i:9210080 original size:46 final size:45
Alignment explanation
Indices: 9209953--9210083 Score: 149
Period size: 46 Copynumber: 2.9 Consensus size: 45
9209943 AGAAGGGACT
* * *
9209953 AAGGCGAAAACTCGCAAAGGGTGCTTTGAGTCCT--AAAAAAGACC
1 AAGGTGAAAACCCGCAAAGGGTGCTTTGAGT-CTAAAAAAAAAACC
* * * * *
9209997 AAGGTGAAAACCTGCAAGGGGCGCCTTAAGTTCTAAAAAAAAAACC
1 AAGGTGAAAACCCGCAAAGGGTGCTTTGAG-TCTAAAAAAAAAACC
9210043 AAGGTGAAAACCCGCAAAGGGTGCTTTGAGTCATAAAAAAA
1 AAGGTGAAAACCCGCAAAGGGTGCTTTGAGTC-TAAAAAAA
9210084 TAATATAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
44 25 0.36
45 3 0.04
46 42 0.60
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (45 bp):
AAGGTGAAAACCCGCAAAGGGTGCTTTGAGTCTAAAAAAAAAACC
Found at i:9210099 original size:14 final size:14
Alignment explanation
Indices: 9210075--9210107 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9210065 GCTTTGAGTC
9210075 ATAAAAAAATAAT-
1 ATAAAAAAATAATA
9210088 ATAAAAATAATAATA
1 ATAAAAA-AATAATA
9210103 ATAAA
1 ATAAA
9210108 GAAGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 6 0.33
15 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAAAAATAATA
Found at i:9211615 original size:108 final size:107
Alignment explanation
Indices: 9211480--9211847 Score: 335
Period size: 108 Copynumber: 3.5 Consensus size: 107
9211470 CTAGCGTTGC
*
9211480 AGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCTCT-GGCGTTAAAACTGAAGGCAGC
1 AGTGGAGCAGATTAAAGCTGAAGGCAGCAAATCTTATCTCT-TAGGCGTTAAAACTGAAGGCAGC
*
9211544 AAATCTTATTTCCCTAGCATTGCAATGGAATAGATTAAAGCTGA
65 AAATCTTATTT-CCTAGCATTGCAATGGAATAAATTAAAGCTGA
* * * *
9211588 AGTGGAGCGGATTAAAGATGAAGGCAGCAAATCTTATCTCTTAGGCGTGACAA-TGGAA--CAGA
1 AGTGGAGCAGATTAAAGCTGAAGGCAGCAAATCTTATCTCTTAGGCGTTAAAACT-GAAGGCAG-
* * * ** * * * * *** * * * *
9211650 TTAAAGCTAAAGT--TAACGAAT-C--TTG-TTTTCTTGATGTTGC
64 -CAAATCTTATTTCCTAGC-ATTGCAATGGAATAAATTAAAGCTGA
** * *
9211690 AGCAGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCTCT-GGCGTTAAGACTGAAGGCAGC
1 AGTGGAGCAGATTAAAGCTGAAGGCAGCAAATCTTATCTCT-TAGGCGTTAAAACTGAAGGCAGC
*
9211754 AAATCTTATTTCCGTAGCGTTGCAATGGAATAAATTAAAGCTGA
65 AAATCTTATTTCC-TAGCATTGCAATGGAATAAATTAAAGCTGA
*
9211798 AGTGGAGCAGATTAAAGCTGAAGGTAGCAAATCTTATCTCTTAGGCGTTA
1 AGTGGAGCAGATTAAAGCTGAAGGCAGCAAATCTTATCTCTTAGGCGTTA
9211848 CAATGGAACA
Statistics
Matches: 193, Mismatches: 50, Indels: 34
0.70 0.18 0.12
Matches are distributed among these distances:
102 60 0.31
103 4 0.02
104 4 0.02
105 8 0.04
106 5 0.03
107 5 0.03
108 107 0.55
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (107 bp):
AGTGGAGCAGATTAAAGCTGAAGGCAGCAAATCTTATCTCTTAGGCGTTAAAACTGAAGGCAGCA
AATCTTATTTCCTAGCATTGCAATGGAATAAATTAAAGCTGA
Found at i:9211779 original size:210 final size:210
Alignment explanation
Indices: 9211437--9211946 Score: 783
Period size: 210 Copynumber: 2.4 Consensus size: 210
9211427 ACAACAAAAT
* * *
9211437 AGATTAAAGCTAAAAG--AACCAAATCTTGTTTCCCT-AGCGTTGCAGTGGAGCAGATTAAAGCT
1 AGATTAAAGCT-AAAGTTAA-CGAATCTTATTTCCCTGA-CGTTGCAGCGGAGCAGATTAAAGCT
9211499 GAAGGCAGCGAATCTTATCTCTCTGGCGTTAAAACTGAAGGCAGCAAATCTTATTTCCCTAGCAT
63 GAAGGCAGCGAATCTTATCTCTCTGGCGTTAAAACTGAAGGCAGCAAATCTTATTTCCCTAGCAT
* *
9211564 TGCAATGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGATGAAGGCAGCAAATCTTATCTCT
128 TGCAATGGAATAAATTAAAGCTGAAGTGGAGCAGATTAAAGATGAAGGCAGCAAATCTTATCTCT
9211629 TAGGCGTGACAATGGAAC
193 TAGGCGTGACAATGGAAC
* * * * *
9211647 AGATTAAAGCTAAAGTTAACGAATCTTGTTTTCTTGATGTTGCAGCAGAGCAGATTAAAGCTGAA
1 AGATTAAAGCTAAAGTTAACGAATCTTATTTCCCTGACGTTGCAGCGGAGCAGATTAAAGCTGAA
* * *
9211712 GGCAGCGAATCTTATCTCTCTGGCGTTAAGACTGAAGGCAGCAAATCTTATTTCCGTAGCGTTGC
66 GGCAGCGAATCTTATCTCTCTGGCGTTAAAACTGAAGGCAGCAAATCTTATTTCCCTAGCATTGC
* *
9211777 AATGGAATAAATTAAAGCTGAAGTGGAGCAGATTAAAGCTGAAGGTAGCAAATCTTATCTCTTAG
131 AATGGAATAAATTAAAGCTGAAGTGGAGCAGATTAAAGATGAAGGCAGCAAATCTTATCTCTTAG
*
9211842 GCGTTACAATGGAAC
196 GCGTGACAATGGAAC
** *
9211857 AGATTAAAGCTAAAGTTAACGAATCTTATTTCCCTGACGTTATAGCGGAGCAGATTAAAACTGAA
1 AGATTAAAGCTAAAGTTAACGAATCTTATTTCCCTGACGTTGCAGCGGAGCAGATTAAAGCTGAA
* *
9211922 GGCAGTGAATCTTATCTCCCTGGCG
66 GGCAGCGAATCTTATCTCTCTGGCG
9211947 CAGACTGAAG
Statistics
Matches: 273, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
209 4 0.01
210 266 0.97
211 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (210 bp):
AGATTAAAGCTAAAGTTAACGAATCTTATTTCCCTGACGTTGCAGCGGAGCAGATTAAAGCTGAA
GGCAGCGAATCTTATCTCTCTGGCGTTAAAACTGAAGGCAGCAAATCTTATTTCCCTAGCATTGC
AATGGAATAAATTAAAGCTGAAGTGGAGCAGATTAAAGATGAAGGCAGCAAATCTTATCTCTTAG
GCGTGACAATGGAAC
Found at i:9212110 original size:40 final size:44
Alignment explanation
Indices: 9211964--9212413 Score: 281
Period size: 44 Copynumber: 10.4 Consensus size: 44
9211954 AAGATGGCGA
* *
9211964 ATCTTATCTCCCTGAAGTTGCAGTGGA-CTAGATTAAAA-CAAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAATCACA-G
* *
9212008 ATCCTATCTCCCTGAAGTTGCTGTGGAGCAGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * ***
9212052 ATCTTATCTCCCTAAAGTTGCAG-AGAGCAGA-TCGCATCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* *
9212093 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAAC-CA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCACAG
* * * *
9212136 ATCTTATATCCTTGAAGTTACAGTGGAGCAGATTGAGGAAA-C-TA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-A--AAATCACAG
* ** * **
9212180 ATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATGATGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * ***
9212224 ATCCTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCGCAT--CAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * *
9212265 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATAAAC-CA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AATCACAG
* * * * * * *
9212309 AT-TGTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGTTATAA
1 ATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * **
9212353 ATCCTATCTCCCTGAAGTTGCAGCGGAGCAAATTAAAATGATGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
9212397 ATCTTATCT--CTGAAGTT
1 ATCTTATCTCCCTGAAGTT
9212414 ACGGTAGAAC
Statistics
Matches: 313, Mismatches: 71, Indels: 46
0.73 0.17 0.11
Matches are distributed among these distances:
40 21 0.07
41 39 0.12
42 15 0.05
43 16 0.05
44 213 0.68
45 8 0.03
46 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
Found at i:9212152 original size:128 final size:128
Alignment explanation
Indices: 9211965--9212207 Score: 298
Period size: 128 Copynumber: 1.9 Consensus size: 128
9211955 AGATGGCGAA
* * * * *
9211965 TCTTATCTCCCTGAAGTTGCAGTGGACTAGATTAAAACAAATAATCCTATCTCCCTGAAGTTGCT
1 TCTTATCTCCCTGAAGTTGCAGTGGACTAGATGAAAACAAACAATCCTATATCCCTGAAGTTACA
9212030 GTGGAGCAGATT-A-AAATCACAGATCTTATCTCCCTAAAGTTGCAG-AGAGCAGATCGCATCAA
66 GTGGAGCAGATTGAGAAA-C-CA-ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCGCATCAA
9212092 G
128 G
* * * *
9212093 TCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTGAATA-AACCAATCTTATATCCTTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-CTAGA-TGAAAACAAACAATCCTATATCCCTGAAGTTA
* *
9212156 CAGTGGAGCAGATTGAGGAAACTAATCTTATCTCCCTGAAGTTGCAGTAGAG
64 CAGTGGAGCAGATTGA-GAAACCAATCTTATCTCCCTAAAGTTGCAGTAGAG
9212208 TGGATTAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
128 83 0.85
129 11 0.11
130 1 0.01
131 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGACTAGATGAAAACAAACAATCCTATATCCCTGAAGTTACA
GTGGAGCAGATTGAGAAACCAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCGCATCAAG
Found at i:9212291 original size:173 final size:171
Alignment explanation
Indices: 9211963--9212407 Score: 597
Period size: 173 Copynumber: 2.6 Consensus size: 171
9211953 GAAGATGGCG
* *
9211963 AATCTTATCTCCCTGAAGTTGCAGTGGA-CTAGATTAAAACAAATAATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATT-GAAGAAATAATCCTATCTCCCTGAAGTT
* * ** *
9212027 GCTGTGGAGCAGATTAAAATCACAGATCTTATCTCCCTAAAGTTGCAGAGAGCAGATCGCATCAA
64 GCAGTGGAGCAGATTAAAATGATGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCAA
*
9212092 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAACC
129 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAATAAACC
* * * * *
9212135 AATCTTATATCCTTGAAGTTACAGTGGAGCAGATTGAGGAAACTAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAA-TAATCCTATCTCCCTGAAGTTG
* ** * *
9212200 CAGTAGAGTGGATTAAAATGATGGATCCTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCAG
65 CAGTGGAGCAGATTAAAATGATGGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGATCGCATCAA
*
9212265 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATAAACC
129 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAATAAACC
* * **
9212308 AAT-TGTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGTTATAAATCCTATCTCCCTGAAGTT
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAT-AATCCTATCTCCCTGAAGTT
* *
9212372 GCAGCGGAGCAAATTAAAATGATGGATCTTATCTCT
64 GCAGTGGAGCAGATTAAAATGATGGATCTTATCTCT
9212408 GAAGTTACGG
Statistics
Matches: 234, Mismatches: 34, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
171 4 0.02
172 91 0.39
173 139 0.59
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (171 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAATAATCCTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAATGATGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCAAGT
CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAATAAACC
Found at i:9212297 original size:129 final size:129
Alignment explanation
Indices: 9212137--9212375 Score: 327
Period size: 129 Copynumber: 1.9 Consensus size: 129
9212127 AATAAACCAA
* * *
9212137 TCTTATATCCTTGAAGTTACAGTGGAGCAGATTGAGGAAACTAATCT-TATCTCCCTGAAGTTGC
1 TCTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACCAAT-TGTATCTCCCTGAAGTTGC
* * ** *
9212201 AGTAGAGTGGATTAAAATGATGGATCCTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCAGG
65 AATAGAGTAGATTAAAATGATAAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATCGCATCAGG
* *
9212266 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATAAACCAATTGTATCTCCCTGAAGTTGCA
1 TCTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACCAATTGTATCTCCCTGAAGTTGCA
* * * * *
9212331 ATGGAGTAGATTGAAGTTATAAATCCTATCTCCCTGAAGTTGCAG
66 ATAGAGTAGATTAAAATGATAAATCCTATCTCCCTAAAGTTGCAG
9212376 CGGAGCAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
128 1 0.01
129 93 0.99
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (129 bp):
TCTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACCAATTGTATCTCCCTGAAGTTGCA
ATAGAGTAGATTAAAATGATAAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATCGCATCAGG
Found at i:9214029 original size:3 final size:3
Alignment explanation
Indices: 9214021--9214054 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9214011 ACTTTATTCC
9214021 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9214055 TCATACTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9214124 original size:3 final size:3
Alignment explanation
Indices: 9214116--9214146 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9214106 TTTCATTTGC
9214116 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9214147 TCATACTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9214145 original size:92 final size:92
Alignment explanation
Indices: 9214024--9214235 Score: 415
Period size: 92 Copynumber: 2.3 Consensus size: 92
9214014 TTATTCCTAT
9214024 TATTATTATTATTATTATTATTATTATTATTTCATACTTTCAATGTTTATAATCGGTTATTTTTA
1 TATTATTATTATTATTATTATTATTATTATTTCATACTTTCAATGTTTATAATCGGTTATTTTTA
9214089 TTTTTATTTTTTGCTACTTTCATTTGC
66 TTTTTATTTTTTGCTACTTTCATTTGC
9214116 TATTATTATTATTATTATTATTATTATTATTTCATACTTTCAATGTTTATAATCGGTTATTTTTA
1 TATTATTATTATTATTATTATTATTATTATTTCATACTTTCAATGTTTATAATCGGTTATTTTTA
*
9214181 TTTTTCTTTTTTGCTACTTTCATTTGC
66 TTTTTATTTTTTGCTACTTTCATTTGC
9214208 TATTATTATTATTATTATTATTATTATT
1 TATTATTATTATTATTATTATTATTATT
9214236 TCATACTTTC
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 119 1.00
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.63
Consensus pattern (92 bp):
TATTATTATTATTATTATTATTATTATTATTTCATACTTTCAATGTTTATAATCGGTTATTTTTA
TTTTTATTTTTTGCTACTTTCATTTGC
Found at i:9214216 original size:3 final size:3
Alignment explanation
Indices: 9214208--9214235 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9214198 TTTCATTTGC
9214208 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9214236 TCATACTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9217129 original size:52 final size:48
Alignment explanation
Indices: 9216995--9217139 Score: 152
Period size: 52 Copynumber: 3.0 Consensus size: 48
9216985 TGCACATAGT
* * *
9216995 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATATCACACT-CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
* * * * *
9217043 CACATATCACACT--GATGTCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATAC-GGAG
9217090 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
1 CACATATCACA---CTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
9217140 AATCACATTT
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
46 24 0.31
47 13 0.17
48 11 0.14
49 1 0.01
50 2 0.03
51 2 0.03
52 25 0.32
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
Found at i:9219950 original size:20 final size:20
Alignment explanation
Indices: 9219913--9219953 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9219903 TTTAAAAACA
* **
9219913 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
9219933 TATAACTATTCAAATAATAT
1 TATAACTATTCAAATAATAT
9219953 T
1 T
9219954 GTTTGAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:9225076 original size:20 final size:20
Alignment explanation
Indices: 9225039--9225079 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9225029 TTAAAAAACA
**
9225039 TATAATTATTCATTTAATAT
1 TATAATTATTCAAATAATAT
9225059 TATAATTATTCAAATAATAT
1 TATAATTATTCAAATAATAT
9225079 T
1 T
9225080 GTTTGAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATTCAAATAATAT
Found at i:9228849 original size:5 final size:5
Alignment explanation
Indices: 9228839--9228871 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
9228829 AGAAGAAAGC
9228839 AGGGT AGGGT AGGGT AGGGT AGGGT AGGGT AGG
1 AGGGT AGGGT AGGGT AGGGT AGGGT AGGGT AGG
9228872 CCTATTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.61, T:0.18
Consensus pattern (5 bp):
AGGGT
Found at i:9247086 original size:4 final size:4
Alignment explanation
Indices: 9247077--9247107 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
9247067 AGGACCAAAT
*
9247077 ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
9247108 GTGAAACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:9249612 original size:19 final size:19
Alignment explanation
Indices: 9249583--9249645 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
9249573 TCTCAACAAA
*
9249583 AATTTAAAAAAATCAAAAT
1 AATTTATAAAAATCAAAAT
9249602 AATTT-TCAAAAATCAAAAT
1 AATTTAT-AAAAATCAAAAT
*
9249621 -ATTTATAAAAATTAAAA-
1 AATTTATAAAAATCAAAAT
9249638 AATTTATA
1 AATTTATA
9249646 TTATTTTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 21 0.54
19 18 0.46
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTTATAAAAATCAAAAT
Found at i:9249776 original size:3 final size:3
Alignment explanation
Indices: 9249768--9249798 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9249758 TACTAAAGCA
9249768 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
9249799 TTATAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:9251710 original size:2 final size:2
Alignment explanation
Indices: 9251703--9251728 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9251693 TTCTCAAGGC
9251703 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9251729 TTAAAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9254865 original size:91 final size:90
Alignment explanation
Indices: 9254690--9254897 Score: 253
Period size: 91 Copynumber: 2.3 Consensus size: 90
9254680 AGTTTATCTG
* * *
9254690 CAAACACTAGTGGTTCATCCACAAACTTACTAGTAGCTTTTATCTGCAAACCCGCTGTGCATTCA
1 CAAACA-TTGTGGTTTATCCACAAACTTACTAGCAGCTTTTATCTGCAAACCCGCTGTGCATTCA
*
9254755 CAACCTATTGGCAATGTATTAACCTA
65 CAACCTATTGGCAACGTATTAACCTA
*
9254781 CAAACATTGGTGGTTTATCCAC-AACTTTTACTAGCAGCTTTTATCTGCAAACCCGTTGTGTC-T
1 CAAACATT-GTGGTTTATCCACAAAC--TTACTAGCAGCTTTTATCTGCAAACCCGCTGTG-CAT
* * *
9254844 TCACAA-CTATTGGCAGCGTATTAACTTG
62 TCACAACCTATTGGCAACGTATTAACCTA
*
9254872 C-AACACTTGTGGTTTATCCGCAAACT
1 CAAACA-TTGTGGTTTATCCACAAACT
9254898 GGAGTGTCTG
Statistics
Matches: 102, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
89 1 0.01
90 20 0.20
91 42 0.41
92 38 0.37
93 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (90 bp):
CAAACATTGTGGTTTATCCACAAACTTACTAGCAGCTTTTATCTGCAAACCCGCTGTGCATTCAC
AACCTATTGGCAACGTATTAACCTA
Found at i:9255611 original size:24 final size:23
Alignment explanation
Indices: 9255559--9255612 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
9255549 GATAACTCGT
* *
9255559 AAGTTTTTTTCTAAAAATAAATT
1 AAGTTTTCTTCTAAAAATAAATA
9255582 AAGTTTTCTTCTAAAAA-AAAGTA
1 AAGTTTTCTTCTAAAAATAAA-TA
9255605 AATGTTTT
1 AA-GTTTT
9255613 AATATGACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 19 0.70
24 5 0.19
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (23 bp):
AAGTTTTCTTCTAAAAATAAATA
Found at i:9257666 original size:3 final size:3
Alignment explanation
Indices: 9257658--9257709 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
9257648 GAAACAAAAC
* * * *
9257658 TAA TAA TAA TTAA TAG TAA TAA TAA TAT TAA TAA TAA TAT TAT TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9257704 -AA TAA T
1 TAA TAA T
9257710 TAATTAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:9257689 original size:12 final size:12
Alignment explanation
Indices: 9257661--9257713 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
9257651 ACAAAACTAA
*
9257661 TAATAATTAATAG
1 TAATAA-TAATAT
9257674 TAATAATAATAT
1 TAATAATAATAT
9257686 TAATAATAATAT
1 TAATAATAATAT
*
9257698 TATTAA-AATAAT
1 TAATAATAAT-AT
9257710 TAAT
1 TAAT
9257714 TAAACAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.08
12 27 0.75
13 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:9259510 original size:50 final size:51
Alignment explanation
Indices: 9259441--9259822 Score: 235
Period size: 50 Copynumber: 7.6 Consensus size: 51
9259431 CGCAATGTCG
*
9259441 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCACCG-CTA
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCAACGCCTA
* ** * * * * * * * **
9259491 GGGAAGTAAGATTTGCCGTTGTGGCCTCAATCTTTTTGATTGCAATGTCGG
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCAACGCCTA
* * * *
9259542 GGGAAG-AAGATTCACCGTTGTAGTTTCAATCTATTCCACTGCACCGCCT-
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCAACGCCTA
* * * * * * * * *
9259591 GGGAAGTAAGATTCGCCGTTGT-GACCTCAATCTTTTTAATTGCAATGTC-G
1 GGGAAGCAAGATTCACCGTTGTAG-CTTCAATCTGTTTCACTGCAACGCCTA
* ** * * *
9259641 GGGTAGCAAGATTCGTCGTTGTAGCTTCAATATGTTCCACTGCATCGCCTA
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCAACGCCTA
* * * * * * * * *
9259692 -GAAAGTAAGATTCACCGTTGTAGCCTCAATCTTTTTAATTGCAATGTCGA
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCAACGCCTA
* * *
9259742 GGG-AGCAAGATTCA-CGTTGTAGCTTCAATTTGTTCCACTGC-ACTACCT-
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCAAC-GCCTA
* * * * *
9259790 GGAAAGTAAGATTCACTGTTGTGGCCTCAATCT
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
9259823 TTTTAATTGC
Statistics
Matches: 241, Mismatches: 81, Indels: 20
0.70 0.24 0.06
Matches are distributed among these distances:
48 3 0.01
49 39 0.16
50 190 0.79
51 9 0.04
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (51 bp):
GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTGCAACGCCTA
Found at i:9259558 original size:100 final size:100
Alignment explanation
Indices: 9259392--9259834 Score: 572
Period size: 100 Copynumber: 4.5 Consensus size: 100
9259382 TGCAATGTCG
* * * * * **
9259392 GGAAAGTAAGATTCGCTGTTGTAGCTTCAATC-TATTAACCGCAATGTCGGGGAAGCAAGATTCA
1 GGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
*
9259456 CCGTTGTAGCTTCAATCTGTTTCACTGCACCG-CT
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT
* ** *
9259490 AGGGAAGTAAGATTTGCCGTTGTGGCCTCAATCTTTTTGATTGCAATGTCGGGGGAAG-AAGATT
1 -GGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTC-GGGGAAGCAAGATT
* *
9259554 CACCGTTGTAGTTTCAATCTATTCCACTGCACCGCCT
64 CACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT
* * * * *
9259591 GGGAAGTAAGATTCGCCGTTGTGACCTCAATCTTTTTAATTGCAATGTCGGGGTAGCAAGATTCG
1 GGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* * *
9259656 TCGTTGTAGCTTCAATATGTTCCACTGCATCGCCT
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT
* *
9259691 AGAAAGTAAGATTCACCGTTGTAGCCTCAATCTTTTTAATTGCAATGTCGAGGG-AGCAAGATTC
1 GGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCG-GGGAAGCAAGATTC
* **
9259755 A-CGTTGTAGCTTCAATTTGTTCCACTGCACTACCT
65 ACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT
*
9259790 GGAAAGTAAGATTCACTGTTGTGGCCTCAATCTTTTTAATTGCAA
1 GGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAA
9259835 ACTATGGTTT
Statistics
Matches: 304, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
99 105 0.35
100 187 0.62
101 12 0.04
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
GGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT
Found at i:9260910 original size:108 final size:107
Alignment explanation
Indices: 9260721--9260920 Score: 287
Period size: 108 Copynumber: 1.9 Consensus size: 107
9260711 TTTCAACGTT
** * *
9260721 TGAAAAAGATTATCTTAATGGACAAACAAAATGTTATTGAGAACAAATCTCGAAATGAATAAGTT
1 TGAAAAAGATTATCGCAATGGACAAACAAAATGTTATTGAGAACAAAGCTCGAAATGAATAAATT
9260786 AATCAAGATAGAAAATTTTTCCAAGATACGAACTGAATAAGA
66 AATCAAGATAGAAAATTTTTCCAAGATACGAACTGAATAAGA
* *
9260828 TGAAAAAGATTATCGCAATGGACAAA-ATGAAAT-TCTATTGAGAGCAAAGCTTGAAATGAATAA
1 TGAAAAAGATTATCGCAATGGACAAACA--AAATGT-TATTGAGAACAAAGCTCGAAATGAATAA
* *
9260891 ATTAGTCAAGATAGCAAATTTTTCCAAGAT
63 ATTAATCAAGATAGAAAATTTTTCCAAGAT
9260921 TCAAGATAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
106 1 0.01
107 25 0.30
108 56 0.68
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (107 bp):
TGAAAAAGATTATCGCAATGGACAAACAAAATGTTATTGAGAACAAAGCTCGAAATGAATAAATT
AATCAAGATAGAAAATTTTTCCAAGATACGAACTGAATAAGA
Found at i:9272435 original size:3 final size:3
Alignment explanation
Indices: 9272427--9272481 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
9272417 GAAACAAAAC
* * *
9272427 TAA TAA TAA TTAA TAG TAA TAA TAA TAT TAA TAA TAA TAA TAA TAC
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9272473 TAA -AA TAA T
1 TAA TAA TAA T
9272482 TAATTAAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9283080 original size:10 final size:9
Alignment explanation
Indices: 9283020--9283234 Score: 69
Period size: 9 Copynumber: 22.3 Consensus size: 9
9283010 ATGAAATTGC
9283020 AAAATTTTT
1 AAAATTTTT
9283029 AAAATTTATT
1 AAAATTT-TT
* *
9283039 AAAATATTA
1 AAAATTTTT
* *
9283048 AAAAGTTGT
1 AAAATTTTT
9283057 AAAATTTATT
1 AAAATTT-TT
*
9283067 AAAATTTGTAAA
1 AAAATTT-T--T
9283079 AAAATGTTTTT
1 AAAA--TTTTT
*
9283090 AAAAAATTATT
1 --AAAATTTTT
*
9283101 ATAATTTTT
1 AAAATTTTT
*
9283110 AGAAGTTTTTT
1 A-AA-ATTTTT
9283121 AAAATATTTT
1 AAAAT-TTTT
*
9283131 ACAATTTTT
1 AAAATTTTT
*
9283140 ACAA-TTTT
1 AAAATTTTT
**
9283148 AATTTTTTT
1 AAAATTTTT
*
9283157 AACGATTATTT
1 AA-AATT-TTT
*
9283168 ACAATTTTT
1 AAAATTTTT
9283177 AAGAA-TTTT
1 AA-AATTTTT
* *
9283186 ACAA-GTTT
1 AAAATTTTT
*
9283194 -ATATTTTT
1 AAAATTTTT
9283202 ATAAATTTTT
1 A-AAATTTTT
**
9283212 AAATAAAATTT
1 -AA-AATTTTT
9283223 AAAATTTTT
1 AAAATTTTT
9283232 AAA
1 AAA
9283235 TAGCTTTTAT
Statistics
Matches: 150, Mismatches: 36, Indels: 40
0.66 0.16 0.18
Matches are distributed among these distances:
7 1 0.01
8 13 0.09
9 59 0.39
10 45 0.30
11 20 0.13
12 4 0.03
13 5 0.03
14 3 0.02
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (9 bp):
AAAATTTTT
Found at i:9283243 original size:20 final size:21
Alignment explanation
Indices: 9283198--9283245 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
9283188 AAGTTTATAT
9283198 TTTTATAAATTTTTAAATAAA
1 TTTTATAAATTTTTAAATAAA
* **
9283219 ATTTA-AAATTTTTAAATAGC
1 TTTTATAAATTTTTAAATAAA
9283239 TTTTATA
1 TTTTATA
9283246 GTTTTTGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTATAAATTTTTAAATAAA
Found at i:9288355 original size:7 final size:7
Alignment explanation
Indices: 9288343--9288372 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9288333 ATCATTGAGA
9288343 ATTATAT
1 ATTATAT
*
9288350 ATTATAA
1 ATTATAT
9288357 ATTATAT
1 ATTATAT
9288364 ATTATAT
1 ATTATAT
9288371 AT
1 AT
9288373 ATTCAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATTATAT
Found at i:9307633 original size:31 final size:32
Alignment explanation
Indices: 9307597--9307661 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
9307587 CTTAGATAAT
9307597 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
9307628 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
9307660 TT
1 TT
9307662 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:9312958 original size:37 final size:37
Alignment explanation
Indices: 9312899--9312992 Score: 145
Period size: 37 Copynumber: 2.6 Consensus size: 37
9312889 AGTACATAAG
*
9312899 TAATCCAACCAA-AACACCCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
** *
9312935 TAATCCAACCGTTAACACGCCAAATGCTCATGAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
9312972 TAATCCAACCAATAACACGCC
1 TAATCCAACCAATAACACGCC
9312993 TCGACACTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 10 0.20
37 41 0.80
ACGTcount: A:0.40, C:0.33, G:0.11, T:0.16
Consensus pattern (37 bp):
TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
Found at i:9314706 original size:21 final size:21
Alignment explanation
Indices: 9314677--9314809 Score: 124
Period size: 21 Copynumber: 6.3 Consensus size: 21
9314667 GAAGCCCGAA
* *
9314677 AGCTGAACAGAGGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
*
9314698 AGCTAAACAGAAAC-CAATAAG
1 AGCTAAACAGAAGCTC-ATAAG
* * *
9314719 GGTTGAACAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
9314740 GGTTTAACAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
9314761 AGCTGAACAGAAACTCATACG
1 AGCTAAACAGAAGCTCATAAG
* *
9314782 AGTTAAACAGAAGCTCATAAA
1 AGCTAAACAGAAGCTCATAAG
9314803 AGCTAAA
1 AGCTAAA
9314810 AAAAGTAAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
20 1 0.01
21 89 0.98
22 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCATAAG
Found at i:9314728 original size:42 final size:42
Alignment explanation
Indices: 9314677--9314806 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 42
9314667 GAAGCCCGAA
* *
9314677 AGCTGAACAGAGGCTCATAAGAGCTAAACAGAAAC-CAATAAG
1 AGCTGAACAGAAGCTCATAAGAGTTAAACAGAAACTC-ATAAG
* * * * *
9314719 GGTTGAACAGAAGCTCATAAGGGTTTAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAGAGTTAAACAGAAACTCATAAG
* * * *
9314761 AGCTGAACAGAAACTCATACGAGTTAAACAGAAGCTCATAAA
1 AGCTGAACAGAAGCTCATAAGAGTTAAACAGAAACTCATAAG
9314803 AGCT
1 AGCT
9314807 AAAAAAAGTA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.17
Consensus pattern (42 bp):
AGCTGAACAGAAGCTCATAAGAGTTAAACAGAAACTCATAAG
Found at i:9314760 original size:63 final size:63
Alignment explanation
Indices: 9314682--9314801 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
9314672 CCGAAAGCTG
* * *
9314682 AACAGAGGCTCATAAGAGCTAAACAGAAAC-CAATAAGGGTTGAACAGAAGCTCATAAGGGTTT
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTC-ATAAGAGTTAAACAGAAGCTCATAAGGGTTT
* *
9314745 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATACGAGTTAAACAGAAGCTCATAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAA
9314802 AAGCTAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 50 0.98
64 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (63 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAGGGTTT
Found at i:9322160 original size:42 final size:40
Alignment explanation
Indices: 9322113--9322283 Score: 148
Period size: 42 Copynumber: 4.1 Consensus size: 40
9322103 CCGAAAACTG
* *
9322113 AACAAAAGCTCATGAGAGCTAAACAGAATCTCATAAGAGCTA
1 AACAAAA-CTCAT-AGAGTTAAACAGAAGCTCATAAGAGCTA
* *
9322155 AACAAAAAC-CGATTAGAGTTGAACAGAAACTCATAAGAGCTGA
1 AAC-AAAACTC-A-TAGAGTTAAACAGAAGCTCATAAGAGCT-A
* * *
9322198 AA-AAAACTCATAAGAGTTGAACAAAAGCTCATAAGACCTA
1 AACAAAACTCAT-AGAGTTAAACAGAAGCTCATAAGAGCTA
* * * *
9322238 AATAGAAACTCATATGAGTTAAATAGAAGCTCGTAATAGCTA
1 AACA-AAACTCATA-GAGTTAAACAGAAGCTCATAAGAGCTA
9322280 AACA
1 AACA
9322284 GAAAGTAAAA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
40 4 0.04
41 33 0.31
42 62 0.58
43 8 0.07
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (40 bp):
AACAAAACTCATAGAGTTAAACAGAAGCTCATAAGAGCTA
Found at i:9322179 original size:21 final size:21
Alignment explanation
Indices: 9322111--9322233 Score: 115
Period size: 21 Copynumber: 5.9 Consensus size: 21
9322101 TCCCGAAAAC
* * *
9322111 TGAACAAAAGCTCATGAGAGC
1 TGAACAAAAACTCATAAGAGT
* * * *
9322132 TAAACAGAATCTCATAAGAGC
1 TGAACAAAAACTCATAAGAGT
* *
9322153 TAAACAAAAAC-CGATTAGAGT
1 TGAACAAAAACTC-ATAAGAGT
* *
9322174 TGAACAGAAACTCATAAGAGC
1 TGAACAAAAACTCATAAGAGT
9322195 TGAA-AAAAACTCATAAGAGT
1 TGAACAAAAACTCATAAGAGT
*
9322215 TGAACAAAAGCTCATAAGA
1 TGAACAAAAACTCATAAGA
9322234 CCTAAATAGA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
20 19 0.23
21 64 0.76
22 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.17
Consensus pattern (21 bp):
TGAACAAAAACTCATAAGAGT
Found at i:9322249 original size:21 final size:21
Alignment explanation
Indices: 9322121--9322287 Score: 108
Period size: 21 Copynumber: 8.0 Consensus size: 21
9322111 TGAACAAAAG
* * *
9322121 CTCATGAGAGCTAAACAGAAT
1 CTCATAAGAGCTAAATAGAAA
* *
9322142 CTCATAAGAGCTAAACAAAAA
1 CTCATAAGAGCTAAATAGAAA
* * * *
9322163 C-CGATTAGAGTTGAACAGAAA
1 CTC-ATAAGAGCTAAATAGAAA
9322184 CTCATAAGAGCTGAAA-A-AAA
1 CTCATAAGAGCT-AAATAGAAA
* * *
9322204 CTCATAAGAGTTGAACA-AAA
1 CTCATAAGAGCTAAATAGAAA
*
9322224 GCTCATAAGACCTAAATAGAAA
1 -CTCATAAGAGCTAAATAGAAA
* * *
9322246 CTCATATGAGTTAAATAGAAG
1 CTCATAAGAGCTAAATAGAAA
* * *
9322267 CTCGTAATAGCTAAACAGAAA
1 CTCATAAGAGCTAAATAGAAA
9322288 GTAAAACACG
Statistics
Matches: 114, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.02
20 19 0.17
21 87 0.76
22 6 0.05
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (21 bp):
CTCATAAGAGCTAAATAGAAA
Found at i:9328111 original size:68 final size:68
Alignment explanation
Indices: 9328023--9328150 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
9328013 TCCCAACTGG
* * *
9328023 CATTATAAGAGCTCGTAGAGTTAAGCTCGTAACT-CTGACACAACTAGCGGACCTACGCTCTTAG
1 CATTATAAGAGCTCGCAGAGTTAAGCTCGCAACTCCAG-CACAACTAGCGGACCTACGCTCTTAG
9328087 CTAA
65 CTAA
* * * *
9328091 CATTATAAGAGCTTGCAGAGTTAAGCTCGCAGCTCCAGCATAGCTAGCGGACCTACGCTC
1 CATTATAAGAGCTCGCAGAGTTAAGCTCGCAACTCCAGCACAACTAGCGGACCTACGCTC
9328151 CAGCTGATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
68 50 0.96
69 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (68 bp):
CATTATAAGAGCTCGCAGAGTTAAGCTCGCAACTCCAGCACAACTAGCGGACCTACGCTCTTAGC
TAA
Found at i:9328179 original size:13 final size:13
Alignment explanation
Indices: 9328161--9328187 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9328151 CAGCTGATGT
9328161 CATAAAGGTTTGA
1 CATAAAGGTTTGA
9328174 CATAAAGGTTTGA
1 CATAAAGGTTTGA
9328187 C
1 C
9328188 GGTTTAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (13 bp):
CATAAAGGTTTGA
Found at i:9328357 original size:69 final size:68
Alignment explanation
Indices: 9328174--9328514 Score: 278
Period size: 69 Copynumber: 5.0 Consensus size: 68
9328164 AAAGGTTTGA
* * * * * * *
9328174 CATAAAGGTTTGACGGTTTAAGGTCGTAACCTCCAAAGTAGCTAGCGGACCCACGCTCCCAGCTG
1 CATAAAGGTTTGACGGTTTAAGATC-AAACCTCCAAAGCAACTAGCAGACCTACGCTCCCAG-TT
9328239 GCAT-T
64 G-ATGT
* * * * * ** *
9328244 -ATAAAAGCTCGAAGAG-TTAAGCTCGCAGCTCCAATA-CAACTAGCAGACCTACGCTCCCAGTT
1 CATAAAGGTTTGACG-GTTTAAGATCAAACCTCCAA-AGCAACTAGCAGACCTACGCTCCCAGTT
9328306 GATGT
64 GATGT
* * ** *
9328311 CATAGAGGTTTGACGGTTTAAGATCATAACCTCCAAAGCAACTAGCAAACCTACATTCCTAGTTG
1 CATAAAGGTTTGACGGTTTAAGATCA-AACCTCCAAAGCAACTAGCAGACCTACGCTCCCAGTTG
9328376 ATGT
65 ATGT
* * * * *
9328380 CATAAAGGTTTAACGGTTTAAGATCGAAACCTCTAAAGCAGCTAGC-GAACATACGCTTCCAGTT
1 CATAAAGGTTTGACGGTTTAAGATC-AAACCTCCAAAGCAACTAGCAG-ACCTACGCTCCCAGTT
9328444 GATGT
64 GATGT
* * * * * * *
9328449 CCTAAAGGTTTGACGGTTTAAAATCACAACTTCTAAAGCAGCTCGCAGACCTATGCTCCCAGTTG
1 CATAAAGGTTTGACGGTTTAAGATCA-AACCTCCAAAGCAACTAGCAGACCTACGCTCCCAGTTG
9328514 A
65 A
9328515 CATTATAAGA
Statistics
Matches: 216, Mismatches: 44, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
66 2 0.01
67 4 0.02
68 45 0.21
69 162 0.75
70 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (68 bp):
CATAAAGGTTTGACGGTTTAAGATCAAACCTCCAAAGCAACTAGCAGACCTACGCTCCCAGTTGA
TGT
Found at i:9331688 original size:102 final size:103
Alignment explanation
Indices: 9331497--9331694 Score: 236
Period size: 102 Copynumber: 1.9 Consensus size: 103
9331487 CCACCCGCAC
* * *
9331497 ATGTGGCGAGACTAATGTCATGCTTCAGTGGTCGCAGCGTATTCAACAAACTGTCTAAATGTGAA
1 ATGTGGCGAGACTAACGTCATGCTTCAGTGGT--CAGCGTATTCAACAAACTGTATAAATGCGAA
* * *
9331562 GTGATAGTTTTAAGGAACATCACTTTATAACCCTCCGTAT
64 GTGATAGCTCTAAGGAACACCACTTTATAACCCTCCGTAT
* * * **
9331602 ATGTGGTGAGACTAACGTCATGCTTTAGTGGT-TGCGTATTCAACAAGTTGTATAAATGCGAAGT
1 ATGTGGCGAGACTAACGTCATGCTTCAGTGGTCAGCGTATTCAACAAACTGTATAAATGCGAAGT
* ***
9331666 GATGGCTCTAAGGAGTGCCACTTTATAAC
66 GATAGCTCTAAGGAACACCACTTTATAAC
9331695 TCCCTTTAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
102 49 0.63
105 29 0.37
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (103 bp):
ATGTGGCGAGACTAACGTCATGCTTCAGTGGTCAGCGTATTCAACAAACTGTATAAATGCGAAGT
GATAGCTCTAAGGAACACCACTTTATAACCCTCCGTAT
Found at i:9333387 original size:18 final size:18
Alignment explanation
Indices: 9333364--9333399 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9333354 CTTTTTTCTA
9333364 TCCTTATCGTTATACTTG
1 TCCTTATCGTTATACTTG
* *
9333382 TCCTTATCTTTTTACTTG
1 TCCTTATCGTTATACTTG
9333400 GAGACCAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.22, G:0.08, T:0.56
Consensus pattern (18 bp):
TCCTTATCGTTATACTTG
Found at i:9342214 original size:17 final size:18
Alignment explanation
Indices: 9342177--9342233 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 18
9342167 GGAGAGGGGT
*
9342177 AAAAGTTTGAGGAGAAAATA
1 AAAAATTTGAGG-G-AAATA
9342197 AAAAATTTG-GGGAAAT-
1 AAAAATTTGAGGGAAATA
9342213 AAAAATTTGAGGGAAAGTA
1 AAAAATTTGAGGGAAA-TA
9342232 AA
1 AA
9342234 TAGGAGAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 9 0.27
17 10 0.30
18 2 0.06
19 4 0.12
20 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (18 bp):
AAAAATTTGAGGGAAATA
Found at i:9342233 original size:18 final size:18
Alignment explanation
Indices: 9342175--9342233 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 18
9342165 AGGGAGAGGG
*
9342175 GTAAAAGTTTGAGGAGAAA
1 GTAAAAATTTGAGG-GAAA
*
9342194 ATAAAAAATTTG-GGGAAA
1 GT-AAAAATTTGAGGGAAA
9342212 -TAAAAATTTGAGGGAAA
1 GTAAAAATTTGAGGGAAA
9342229 GTAAA
1 GTAAA
9342234 TAGGAGAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 9 0.26
17 7 0.20
18 8 0.23
19 3 0.09
20 8 0.23
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (18 bp):
GTAAAAATTTGAGGGAAA
Found at i:9342599 original size:9 final size:9
Alignment explanation
Indices: 9342582--9342618 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9342572 TATAGTTTGA
9342582 TATTCGAAT
1 TATTCGAAT
*
9342591 TATTTGAAT
1 TATTCGAAT
9342600 TATTCGAAT
1 TATTCGAAT
*
9342609 TATTCAAAT
1 TATTCGAAT
9342618 T
1 T
9342619 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9342911 original size:7 final size:7
Alignment explanation
Indices: 9342899--9342933 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
9342889 AAAAGAAAAC
9342899 TGAGCAG
1 TGAGCAG
9342906 TGAGCAG
1 TGAGCAG
9342913 TGAGCAG
1 TGAGCAG
9342920 TGAGCAG
1 TGAGCAG
9342927 TGA-CAG
1 TGAGCAG
9342933 T
1 T
9342934 ACGATCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.29, C:0.14, G:0.40, T:0.17
Consensus pattern (7 bp):
TGAGCAG
Found at i:9356275 original size:15 final size:15
Alignment explanation
Indices: 9356255--9356291 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
9356245 TGGTGATGGA
9356255 AGCAATAAGCGACTG
1 AGCAATAAGCGACTG
9356270 AGCAATAAGCGACTG
1 AGCAATAAGCGACTG
*
9356285 AGAAATA
1 AGCAATA
9356292 TAAGAGTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (15 bp):
AGCAATAAGCGACTG
Found at i:9358450 original size:35 final size:35
Alignment explanation
Indices: 9358411--9358487 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
9358401 AAACATACAT
9358411 TATTATATATTATCAACTAGCACAAATGAATATAC
1 TATTATATATTATCAACTAGCACAAATGAATATAC
*
9358446 TATTATATCTTATCAACTAGCACAAATGAATATAC
1 TATTATATATTATCAACTAGCACAAATGAATATAC
9358481 TATTATA
1 TATTATA
9358488 GCCATTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTATATATTATCAACTAGCACAAATGAATATAC
Found at i:9376393 original size:25 final size:25
Alignment explanation
Indices: 9376365--9376458 Score: 84
Period size: 25 Copynumber: 3.6 Consensus size: 25
9376355 CCGTTATACA
*
9376365 GCTCGAATGAGCTTCCTGTTACATG
1 GCTCGAATGAGCTTCCTGTTATATG
* *
9376390 GCTC-ACATGAGCTTCATATTATATG
1 GCTCGA-ATGAGCTTCCTGTTATATG
*
9376415 GCTCGAAAGAGAGCTTCCTGTT-TATG
1 GCTCG-AA-TGAGCTTCCTGTTATATG
*
9376441 TGCTCGTATGAGCATTCC
1 -GCTCGAATGAGC-TTCC
9376459 CGAATACGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
24 1 0.02
25 28 0.51
26 10 0.18
27 16 0.29
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (25 bp):
GCTCGAATGAGCTTCCTGTTATATG
Found at i:9377413 original size:40 final size:40
Alignment explanation
Indices: 9377367--9377447 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
9377357 CTAGCGTCTG
9377367 TCTCGACCGTGTGTGACACACGGCCTCACGCACAGGCGTT
1 TCTCGACCGTGTGTGACACACGGCCTCACGCACAGGCGTT
9377407 TCTCGACCGTGTGTGACACACGGCCTCACGCACAGGCGTT
1 TCTCGACCGTGTGTGACACACGGCCTCACGCACAGGCGTT
9377447 T
1 T
9377448 GGTTTGGCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.17, C:0.35, G:0.27, T:0.21
Consensus pattern (40 bp):
TCTCGACCGTGTGTGACACACGGCCTCACGCACAGGCGTT
Found at i:9385258 original size:41 final size:41
Alignment explanation
Indices: 9385201--9385305 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 41
9385191 CTCCGGCACG
**
9385201 AAGCCTGCTAGGCATAAAGCCTGATCTAATACACCAGCATA
1 AAGCCTGCTAGGCATAAAGCCTGATAAAATACACCAGCATA
* *
9385242 AAGCCTGCTAGGCATAAAGCCTGATAAAATTCACCGGCATA
1 AAGCCTGCTAGGCATAAAGCCTGATAAAATACACCAGCATA
* *
9385283 AAGCCTCCTAGGCACAAAGCCTG
1 AAGCCTGCTAGGCATAAAGCCTG
9385306 GATATCACTG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATAAAATACACCAGCATA
Found at i:9391373 original size:30 final size:32
Alignment explanation
Indices: 9391300--9391384 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 32
9391290 TGTTCTCCAT
* *
9391300 TCCTCGTCATCTTTGTTCGTCGGCCTCCGCATC
1 TCCTCATCATCTTTGTTCGTCGG-CTCCGCACC
* * *
9391333 TCCTCCTCATCTTTGTTCGTTGG-T-CTCACC
1 TCCTCATCATCTTTGTTCGTCGGCTCCGCACC
*
9391363 TCCTCATCATCTTTGTTAGTCG
1 TCCTCATCATCTTTGTTCGTCG
9391385 ACATTCACCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 23 0.51
31 1 0.02
33 21 0.47
ACGTcount: A:0.08, C:0.35, G:0.15, T:0.41
Consensus pattern (32 bp):
TCCTCATCATCTTTGTTCGTCGGCTCCGCACC
Found at i:9392507 original size:16 final size:16
Alignment explanation
Indices: 9392488--9392519 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9392478 ATTAATGTGA
*
9392488 TATAGTACTAATTATG
1 TATAGTACTAAATATG
9392504 TATAGTACTAAATATG
1 TATAGTACTAAATATG
9392520 CATTGGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (16 bp):
TATAGTACTAAATATG
Found at i:9394646 original size:24 final size:24
Alignment explanation
Indices: 9394599--9394654 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
9394589 TTAAATTTTT
**
9394599 TTAAAAAATAATGACCAAATTTAA
1 TTAAAAAATAAAAACCAAATTTAA
*
9394623 CTTAAAAAATAAAAATCAAA-TTAA
1 -TTAAAAAATAAAAACCAAATTTAA
*
9394647 TAAAAAAA
1 TTAAAAAA
9394655 ATGTAAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 16 0.59
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (24 bp):
TTAAAAAATAAAAACCAAATTTAA
Found at i:9398240 original size:16 final size:17
Alignment explanation
Indices: 9398221--9398255 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
9398211 AAAGCAAAAT
9398221 AAAAATAAAAAA-TAAA
1 AAAAATAAAAAACTAAA
9398237 AAAAATAAAAAACTAAA
1 AAAAATAAAAAACTAAA
9398254 AA
1 AA
9398256 CAAAAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAATAAAAAACTAAA
Found at i:9400808 original size:64 final size:64
Alignment explanation
Indices: 9400729--9400855 Score: 254
Period size: 64 Copynumber: 2.0 Consensus size: 64
9400719 AACATCCACC
9400729 TCGTGTTGAATATTAGCATCCTTAAAGGAAAATAAAATAAATTTCATAAATTTCTGCAGTAAGT
1 TCGTGTTGAATATTAGCATCCTTAAAGGAAAATAAAATAAATTTCATAAATTTCTGCAGTAAGT
9400793 TCGTGTTGAATATTAGCATCCTTAAAGGAAAATAAAATAAATTTCATAAATTTCTGCAGTAAG
1 TCGTGTTGAATATTAGCATCCTTAAAGGAAAATAAAATAAATTTCATAAATTTCTGCAGTAAG
9400856 AATTCCTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (64 bp):
TCGTGTTGAATATTAGCATCCTTAAAGGAAAATAAAATAAATTTCATAAATTTCTGCAGTAAGT
Found at i:9401474 original size:23 final size:23
Alignment explanation
Indices: 9401444--9401491 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9401434 CCCATAACTT
9401444 TGTAGGCATCTTTTATGAGTAGG
1 TGTAGGCATCTTTTATGAGTAGG
9401467 TGTAGGCATCTTTTATGAGTAGG
1 TGTAGGCATCTTTTATGAGTAGG
9401490 TG
1 TG
9401492 CCATGGACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.31, T:0.40
Consensus pattern (23 bp):
TGTAGGCATCTTTTATGAGTAGG
Found at i:9408554 original size:79 final size:79
Alignment explanation
Indices: 9408418--9408581 Score: 301
Period size: 79 Copynumber: 2.1 Consensus size: 79
9408408 CTCAACTTCT
*
9408418 TTCGACATCTTTCAACGGTGGTTTCGAACCTGGCTCTGATACCAACTGTCACGGACTTAGAGTTT
1 TTCGGCATCTTTCAACGGTGGTTTCGAACCTGGCTCTGATACCAACTGTCACGGACTTAGAGTTT
9408483 TTTCACGCGATCCG
66 TTTCACGCGATCCG
9408497 TTCGGCATCTTTCAACGGTGGTTTCGAACCTGGCTCTGATACCAACTGTCACGGACTTAGAGTTT
1 TTCGGCATCTTTCAACGGTGGTTTCGAACCTGGCTCTGATACCAACTGTCACGGACTTAGAGTTT
*
9408562 TTTCATGCGATCCG
66 TTTCACGCGATCCG
*
9408576 TGCGGC
1 TTCGGC
9408582 CTTAGGCAGT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (79 bp):
TTCGGCATCTTTCAACGGTGGTTTCGAACCTGGCTCTGATACCAACTGTCACGGACTTAGAGTTT
TTTCACGCGATCCG
Found at i:9408694 original size:49 final size:48
Alignment explanation
Indices: 9408601--9408697 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 48
9408591 TTTCCTTGCT
** *
9408601 TAAAAACGTCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
9408649 TAAAAACACCTAAGTCAGCCTAATCTCGCAACGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAA-CTCGCAACGATAAAGGATTCAACAG
9408698 AATTCCCTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.20
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
Found at i:9416211 original size:6 final size:6
Alignment explanation
Indices: 9416202--9416230 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9416192 AAGGAGAGAA
9416202 AGGAGC AGGAGC AGGAGC AGGAGC AGGAG
1 AGGAGC AGGAGC AGGAGC AGGAGC AGGAG
9416231 ATGGAGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.52, T:0.00
Consensus pattern (6 bp):
AGGAGC
Found at i:9425220 original size:20 final size:20
Alignment explanation
Indices: 9425197--9425240 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
9425187 AGGGAAGAAA
9425197 AAAGAAAAAAAATCAAAATC
1 AAAGAAAAAAAATCAAAATC
**
9425217 AAAGTGAAAAAATCAAAATC
1 AAAGAAAAAAAATCAAAATC
9425237 AAAG
1 AAAG
9425241 TCACAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.11
Consensus pattern (20 bp):
AAAGAAAAAAAATCAAAATC
Found at i:9425241 original size:20 final size:20
Alignment explanation
Indices: 9425203--9425241 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9425193 GAAAAAAGAA
9425203 AAAAAATCAAAATCAAAGTG
1 AAAAAATCAAAATCAAAGTG
9425223 AAAAAATCAAAATCAAAGT
1 AAAAAATCAAAATCAAAGT
9425242 CACAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAAAATCAAAATCAAAGTG
Found at i:9425266 original size:34 final size:32
Alignment explanation
Indices: 9425209--9425295 Score: 104
Period size: 34 Copynumber: 2.7 Consensus size: 32
9425199 AGAAAAAAAA
* * *
9425209 TCAAAATCAAAGTGAAAAAATCAAAATCAAAG
1 TCAAAATAAAAATAAAAAAATCAAAATCAAAG
*
9425241 TCACAAATAAGAAA-AAGAAAAATCAAAGTCAAAG
1 TCA-AAATAA-AAATAA-AAAAATCAAAATCAAAG
9425275 TCAAAATAAAAATAAAAAAAT
1 TCAAAATAAAAATAAAAAAAT
9425296 AGAGAGAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
32 12 0.26
33 14 0.30
34 21 0.45
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (32 bp):
TCAAAATAAAAATAAAAAAATCAAAATCAAAG
Found at i:9426206 original size:15 final size:14
Alignment explanation
Indices: 9426182--9426216 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9426172 CTCTGAGTCA
*
9426182 GAAAATATGAAAAAT
1 GAAAAAATG-AAAAT
9426197 GAAAAAATGAAAAT
1 GAAAAAATGAAAAT
9426211 GAAAAA
1 GAAAAA
9426217 TGGAGAGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
GAAAAAATGAAAAT
Found at i:9427694 original size:128 final size:128
Alignment explanation
Indices: 9427525--9428024 Score: 831
Period size: 128 Copynumber: 3.9 Consensus size: 128
9427515 CAAGATAGTG
* * *
9427525 GGAAGCAGATTTAGGCCACTGAG-CCTGTGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACA
1 GGAAGCAGATTTAAGCCAC-AAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACA
9427589 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAA
65 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAA
* *
9427653 GGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAG
1 GGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACAG
* *
9427718 ATCTTGTCTCCCTAAGAAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTAAGTGTAA
66 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAA
* **
9427781 GGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGTAG
1 GGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACAG
* *
9427846 ATCTTGTCTCCTTAAACAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAA
66 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAA
* *
9427909 GGAAGAAGATTTAAGCGACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACAG
1 GGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACAG
* * *
9427974 ATCTTGTCTCCCTAAGCAGTAGCGGGGCAGATCGAAGACGACAAATCTTAT
66 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTAT
9428025 TTCCCTAAAG
Statistics
Matches: 349, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
127 2 0.01
128 347 0.99
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (128 bp):
GGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACAG
ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAA
Found at i:9428263 original size:169 final size:171
Alignment explanation
Indices: 9427971--9428326 Score: 506
Period size: 169 Copynumber: 2.1 Consensus size: 171
9427961 TTAGAAATTA
* *
9427971 CAGATCTTGTCTCCCTAAGCAGTAGCGGGGCAGATCGAAGACGACAAATCTTATTTCCCTAAAGT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACAAATCCTATTT-CC-AAAGT
* * *
9428036 TACAGTAGAGAAGATTGAAGTCGATAATCCTGTATCCCTGAAGTTGTAGTGGAGCGGATTAAAGT
64 TACAGGAGAGAAGATTGAAGTCGATAATCCTATATCCCTGAAGTTGTAGTAGAGCGGATTAAAGT
*
9428101 AATAGTTCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAG
129 AATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAG
* *
9428144 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCATATCGAAGACGGCAAATCCTATCTT-C-AAGTG
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACAAATCCTAT-TTCCAAAGT-
* * *
9428207 TA-AGGA-AGCAGATTGAAG-CTGATAATCCTATTTCCTTGAAGTTGTAGTAGAGCGGATTAAAG
64 TACAGGAGAGAAGATTGAAGTC-GATAATCCTATATCCCTGAAGTTGTAGTAGAGCGGATTAAAG
*
9428269 TAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
128 TAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAG
* *
9428313 CAGGTCTTATCTCC
1 CAGATCTTGTCTCC
9428327 TTGAGGTTGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
168 1 0.01
169 103 0.62
170 7 0.04
171 2 0.01
172 1 0.01
173 50 0.30
174 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (171 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACAAATCCTATTTCCAAAGTTA
CAGGAGAGAAGATTGAAGTCGATAATCCTATATCCCTGAAGTTGTAGTAGAGCGGATTAAAGTAA
TAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAG
Found at i:9428455 original size:218 final size:216
Alignment explanation
Indices: 9428213--9428755 Score: 673
Period size: 218 Copynumber: 2.5 Consensus size: 216
9428203 AGTGTAAGGA
* * *
9428213 AGCAGATTGAAGCTGATAATCCTATTTCCTTGAAGTTGTAGTAGAGCGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGT-GAGCGGATTAAAGTAATAGATC
* * * **
9428278 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTA-TCTCCTTGAGGTTGCAGCGG
65 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATTC-CCCTAAAGTCACAGCGG
* * **
9428342 AG-CAGACTGAGTAAGCAGGTCTTATCC-CTTTGAAGTTGCAGTGGGACAGATCGAA-AATGGCA
129 -GTCAGACTAAGTAAGCAGGTCTTATCCTC-CTGAAGTCACAGTGGGACAGATCGAAGAA--GCA
* * *
9428404 AATCTTATCTCCCTGAGGTTGTAGTGG
190 AATCTTATCTCCCTAAGGTTGCAGTAG
*
9428431 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATATATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGT-GAGCGGATTAAAGTAATAGATC
* * * * * *
9428496 TTATCTCTCCGAAGTTTCAGTAGAGTGGATCGCAT-TGAATCTTATTCCCCTAAAGTCATAGTGG
65 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAG-GTCTTATTCCCCTAAAGTCACAGCGG
* *
9428560 GTCAGGCTAAGTAAGCAGGTCTTATCCTCCTGAAGTCACAGTGGGGCAGATCGAAGAAGCAAATC
129 GTCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTCACAGTGGGACAGATCGAAGAAGCAAATC
9428625 TTATCTCCCTAAGGTTGCAGTAG
194 TTATCTCCCTAAGGTTGCAGTAG
* * * *
9428648 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAGGTTGTAGTGAAGCAGATTAAAGTAATAGATT
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTG-AGCGGATTAAAGTAATAGATC
* * ** *
9428713 TTATCTCTCTAAAATTGCAGTAGAGCAGATCGCATCAAGTCTT
65 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTT
9428756 GCCGACTAGA
Statistics
Matches: 279, Mismatches: 39, Indels: 15
0.84 0.12 0.05
Matches are distributed among these distances:
216 1 0.00
217 120 0.43
218 153 0.55
219 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (216 bp):
AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGAGCGGATTAAAGTAATAGATCT
TATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATTCCCCTAAAGTCACAGCGGGT
CAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTCACAGTGGGACAGATCGAAGAAGCAAATCTT
ATCTCCCTAAGGTTGCAGTAG
Found at i:9428501 original size:44 final size:44
Alignment explanation
Indices: 9428404--9428511 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
9428394 GAAAATGGCA
* * *
9428404 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
* * *
9428448 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG-TAAT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
9428491 ATATCTTATCTCTCC-GAAGTT
1 A-ATCTTATCTC-CCTGAAGTT
9428512 TCAGTAGAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 3 0.05
44 50 0.91
45 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
Found at i:9428653 original size:44 final size:43
Alignment explanation
Indices: 9428605--9428744 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 43
9428595 TCACAGTGGG
9428605 GCAGATCGAAGAAGCAAATCTTATCTCCCTAAGGTTGCAGTAGA
1 GCAGATCGAAGAAG-AAATCTTATCTCCCTAAGGTTGCAGTAGA
* ** * * *
9428649 GCAGATTGAAGTCGATAATCCTATCTCCCTGAGGTTGTAGT-GAA
1 GCAGATCGAAGAAGA-AATCTTATCTCCCTAAGGTTGCAGTAG-A
** * * * * **
9428693 GCAGATTAAAGTAATAGATTTTATCTCTCTAAAATTGCAGTAGA
1 GCAGATCGAAG-AAGAAATCTTATCTCCCTAAGGTTGCAGTAGA
9428737 GCAGATCG
1 GCAGATCG
9428745 CATCAAGTCT
Statistics
Matches: 72, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
43 2 0.03
44 68 0.94
45 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
GCAGATCGAAGAAGAAATCTTATCTCCCTAAGGTTGCAGTAGA
Found at i:9432392 original size:18 final size:16
Alignment explanation
Indices: 9432369--9432404 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
9432359 ATAGAGTTTT
9432369 TAAAAGTATATTACAAAA
1 TAAAAGT-TATTA-AAAA
9432387 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
9432403 TA
1 TA
9432405 TATTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:9440930 original size:109 final size:109
Alignment explanation
Indices: 9440752--9440966 Score: 297
Period size: 109 Copynumber: 2.0 Consensus size: 109
9440742 GCACATGACC
* * * ** * * ** *
9440752 TGCGACACGACCGTGTGTCTTAAAATAGTTAGTTACACGGTTTGAGGCACGGCTTGTGACATGGC
1 TGCGACAAGACCGTGTGTCTTAAAATAGTTAGTTACACGGTCTAAAACACGACCTACGACACGGC
9440817 CGTGTGACCCAACATTAAATGCACACACGGGCTGGGACACGGCT
66 CGTGTGACCCAACATTAAATGCACACACGGGCTGGGACACGGCT
*
9440861 TGCGACAAGACCGTGTGTCTTAAAAT-GATTAGTTACACGGTCTAAAACATGACCTACGACACGG
1 TGCGACAAGACCGTGTGTCTTAAAATAG-TTAGTTACACGGTCTAAAACACGACCTACGACACGG
* *
9440925 TCGTGTGACCCAACATTGAATGCACACACGGGCTGGGACACG
65 CCGTGTGACCCAACATTAAATGCACACACGGGCTGGGACACG
9440967 ACTTTGTGTC
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 1 0.01
109 91 0.99
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (109 bp):
TGCGACAAGACCGTGTGTCTTAAAATAGTTAGTTACACGGTCTAAAACACGACCTACGACACGGC
CGTGTGACCCAACATTAAATGCACACACGGGCTGGGACACGGCT
Found at i:9450428 original size:30 final size:30
Alignment explanation
Indices: 9450392--9450449 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
9450382 CTTGTGGTTA
9450392 AAACTAAAGATTTGATATTCAATTTTTTAT
1 AAACTAAAGATTTGATATTCAATTTTTTAT
*
9450422 AAACTAAATATTTGATATTCAATTTTTT
1 AAACTAAAGATTTGATATTCAATTTTTT
9450450 GCCACTCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (30 bp):
AAACTAAAGATTTGATATTCAATTTTTTAT
Found at i:9460594 original size:98 final size:98
Alignment explanation
Indices: 9460479--9460673 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
9460469 TAAAATCATG
*
9460479 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
9460544 AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
* *
9460577 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
9460642 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAATGGATGTTCTTTTAAAGT
9460674 TTTATTGCAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
Found at i:9467271 original size:83 final size:84
Alignment explanation
Indices: 9467050--9467299 Score: 421
Period size: 83 Copynumber: 3.0 Consensus size: 84
9467040 AGAAAGTTTG
*
9467050 TTTCGAACCTAATTTGTTGTTTATGTGGTATTGAAGATGAGATTGTTGAACATATTATTCTTAGT
1 TTTCGAACCTAATTTGTTGTTTATGTGGTATTGAAGATGAGATTGTTGAACATATTATTCTTAGC
*
9467115 TTTAATTGGGATAGGATTTT
66 TTTGATTGGGATAGGA-TTT
** *
9467135 TTTTTAACCTAATTTGTTGTTTATGTGGTATTGAAGATGAGATTGTTGAACATATTATTTTTAG-
1 TTTCGAACCTAATTTGTTGTTTATGTGGTATTGAAGATGAGATTGTTGAACATATTATTCTTAGC
9467199 TTTGATTGGGATAGGATTT
66 TTTGATTGGGATAGGATTT
*
9467218 TTTCGAACCTAATTTGTTGTTTATGTGGTATTGAGGATGAGATTGTTGAACATATTATTCTTAGC
1 TTTCGAACCTAATTTGTTGTTTATGTGGTATTGAAGATGAGATTGTTGAACATATTATTCTTAGC
*
9467283 TTTGATTGGGTTAGGAT
66 TTTGATTGGGATAGGAT
9467300 AATATGGTAT
Statistics
Matches: 155, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
83 63 0.41
84 31 0.20
85 61 0.39
ACGTcount: A:0.25, C:0.06, G:0.22, T:0.47
Consensus pattern (84 bp):
TTTCGAACCTAATTTGTTGTTTATGTGGTATTGAAGATGAGATTGTTGAACATATTATTCTTAGC
TTTGATTGGGATAGGATTT
Found at i:9471780 original size:60 final size:59
Alignment explanation
Indices: 9471708--9471852 Score: 191
Period size: 60 Copynumber: 2.4 Consensus size: 59
9471698 TTTTTTTTTA
**
9471708 AATTTTAGAATTAGAATTAAATTGACAAATTTTGTAAATGTTGAGGGCTAAATTTATTG
1 AATTTTAGAATTAGAATTAAATTGACAAATTTTGTAAACATTGAGGGCTAAATTTATTG
* * * *
9471767 AATTTTAAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGGGCTAACTTTGTTG
1 AATTTT-AGAATTAGAATTAAATTGACAAATTTTGTAAACATTGAGGGCTAAATTTATTG
* * *
9471827 AATTTTTAGATTTAGGATCAAATTGA
1 AA-TTTTAGAATTAGAATTAAATTGA
9471853 TAGAATGTGT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 6 0.08
60 63 0.86
61 4 0.05
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (59 bp):
AATTTTAGAATTAGAATTAAATTGACAAATTTTGTAAACATTGAGGGCTAAATTTATTG
Found at i:9472145 original size:17 final size:17
Alignment explanation
Indices: 9472096--9472146 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
9472086 AATTATACAA
*
9472096 AATAAATATATAATTTT
1 AATAAATATATAAATTT
*
9472113 AAGT-TATATA-ATAATTT
1 AA-TAAATATATA-AATTT
9472130 AATAAATATATAAATTT
1 AATAAATATATAAATTT
9472147 GGTTATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.07
17 23 0.85
18 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AATAAATATATAAATTT
Found at i:9472881 original size:9 final size:9
Alignment explanation
Indices: 9472867--9472935 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
9472857 TTTGGTTAAA
9472867 AATTAACCG
1 AATTAACCG
*
9472876 AATTAATCG
1 AATTAACCG
*
9472885 AATTACCCG
1 AATTAACCG
9472894 AATTAACCG
1 AATTAACCG
*
9472903 AATTAACAG
1 AATTAACCG
*
9472912 AATTACCCG
1 AATTAACCG
*
9472921 AATTACCCG
1 AATTAACCG
9472930 AATTAA
1 AATTAA
9472936 ATCACTACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:9472905 original size:27 final size:27
Alignment explanation
Indices: 9472867--9472935 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
9472857 TTTGGTTAAA
9472867 AATTAACCGAATTAATC-GAATTACCCG
1 AATTAACCGAATTAA-CAGAATTACCCG
9472894 AATTAACCGAATTAACAGAATTACCCG
1 AATTAACCGAATTAACAGAATTACCCG
*
9472921 AATTACCCGAATTAA
1 AATTAACCGAATTAA
9472936 ATCACTACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAACAGAATTACCCG
Found at i:9475678 original size:28 final size:28
Alignment explanation
Indices: 9475646--9475701 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
9475636 TTTCACTCTG
9475646 TTCTGATGTGCCCTTTATGTGGCAGTCT
1 TTCTGATGTGCCCTTTATGTGGCAGTCT
*
9475674 TTCTGATGTGCCCTTTATTTGGCAGTCT
1 TTCTGATGTGCCCTTTATGTGGCAGTCT
9475702 ACCGTGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (28 bp):
TTCTGATGTGCCCTTTATGTGGCAGTCT
Found at i:9485623 original size:28 final size:28
Alignment explanation
Indices: 9485591--9485665 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
9485581 TGTCCACTTC
*
9485591 TCCTAGATTGGTACTTAAGGTTTTTTTG
1 TCCTAGATTGGTACTTAACGTTTTTTTG
* *
9485619 TCCTAGATTGGTACCTAAACTTTTTTTTG
1 TCCTAGATTGGTA-CTTAACGTTTTTTTG
*
9485648 TCAACTAGTTTGGTACTT
1 TC--CTAGATTGGTACTT
9485666 TTTTTAACAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 13 0.33
29 14 0.36
30 2 0.05
31 10 0.26
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (28 bp):
TCCTAGATTGGTACTTAACGTTTTTTTG
Found at i:9489458 original size:21 final size:20
Alignment explanation
Indices: 9489432--9489500 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 20
9489422 CAACAACTTA
*
9489432 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
9489453 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
*
9489474 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
9489495 AAGCAG
1 AAGCAG
9489501 CGAGAGAAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.45, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:9489502 original size:12 final size:12
Alignment explanation
Indices: 9489464--9489512 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
9489454 AGCAGAGGCT
9489464 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
9489476 GCA--GAG-GCC
1 GCAGCGAGAGAA
9489485 GCAGCGAGAGAA
1 GCAGCGAGAGAA
9489497 GCAGCGAGAGAA
1 GCAGCGAGAGAA
9489509 GCAG
1 GCAG
9489513 AGGTTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 3 0.10
12 20 0.67
ACGTcount: A:0.37, C:0.20, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:9490000 original size:43 final size:43
Alignment explanation
Indices: 9489946--9490112 Score: 205
Period size: 43 Copynumber: 3.9 Consensus size: 43
9489936 GTTTGTGAAA
* *
9489946 TAAGTGCCGCTAAAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTCTTCC
*
9489989 TAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
* * * *
9490031 CAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTC-C
* * *
9490075 T-AGCGCCACTAAAGAACATGAGCTTTAGCAGCGTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTC
9490113 CCTGTAAGCA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 39 0.36
43 68 0.63
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
Found at i:9490061 original size:85 final size:85
Alignment explanation
Indices: 9489947--9490111 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 85
9489937 TTTGTGAAAT
* * *
9489947 AAGTGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTCTTC-CTAAGCGTCGCTAAAGAACATGA
1 AAGTGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCGCT-AGCGCCACTAAAGAACATGA
* *
9490011 TCTTTAGCGGCGTTTTTTCCC
65 GCTTTAGCAGCGTTTTTTCCC
* *
9490032 AAGTGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTTCGGTAGCGCCACTAAAGAACATGA
1 AAGTGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTCTTCGCTAGCGCCACTAAAGAACATGA
9490096 GCTTTAGCAGCGTTTT
65 GCTTTAGCAGCGTTTT
9490112 CCCTGTAAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
84 1 0.01
85 69 0.97
86 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (85 bp):
AAGTGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCGCTAGCGCCACTAAAGAACATGAG
CTTTAGCAGCGTTTTTTCCC
Found at i:9490769 original size:21 final size:19
Alignment explanation
Indices: 9490744--9490783 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
9490734 CCGGCCCGAT
9490744 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
9490765 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
9490784 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:9498016 original size:27 final size:27
Alignment explanation
Indices: 9497978--9498032 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
9497968 ACGAGAGAAG
*
9497978 TTGACAAACAAAAGTCAATAGTACAAA
1 TTGACAAACAAAAGTCAAGAGTACAAA
*
9498005 TTGACAAACAAAAGTCAAGAGTATAAA
1 TTGACAAACAAAAGTCAAGAGTACAAA
9498032 T
1 T
9498033 CCAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.20
Consensus pattern (27 bp):
TTGACAAACAAAAGTCAAGAGTACAAA
Found at i:9499753 original size:21 final size:20
Alignment explanation
Indices: 9499715--9499769 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
9499705 TATATTCTTT
9499715 TTTAAATTATT-TTTTAAAAA
1 TTTAAA-TATTATTTTAAAAA
*
9499735 TTTAAATATTATGTTTAAAAT
1 TTTAAATATTAT-TTTAAAAA
9499756 TTTAAATA-TATTTT
1 TTTAAATATTATTTT
9499770 TAATAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.22
20 10 0.31
21 15 0.47
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTAAATATTATTTTAAAAA
Found at i:9499781 original size:20 final size:20
Alignment explanation
Indices: 9499715--9499772 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
9499705 TATATTCTTT
*
9499715 TTTAAATTATT-TTTTAAAAA
1 TTTAAA-TATTATTTTTAAAA
*
9499735 TTTAAATATTATGTTTAAAA
1 TTTAAATATTATTTTTAAAA
9499755 TTTTAAATA-TATTTTTAA
1 -TTTAAATATTATTTTTAA
9499773 TAATATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.12
20 21 0.64
21 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAAATATTATTTTTAAAA
Found at i:9499940 original size:12 final size:12
Alignment explanation
Indices: 9499923--9499947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9499913 ATTCAAAAAA
9499923 ATTTAAAATTTT
1 ATTTAAAATTTT
9499935 ATTTAAAATTTT
1 ATTTAAAATTTT
9499947 A
1 A
9499948 AAAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTAAAATTTT
Found at i:9500014 original size:20 final size:20
Alignment explanation
Indices: 9499991--9500032 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9499981 AATTAATTAG
9499991 AAAAAAATTATTTGTTAAAA
1 AAAAAAATTATTTGTTAAAA
* *
9500011 AAAAGATTTATTTGTTAAAA
1 AAAAAAATTATTTGTTAAAA
9500031 AA
1 AA
9500033 TATGACTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (20 bp):
AAAAAAATTATTTGTTAAAA
Found at i:9502742 original size:30 final size:30
Alignment explanation
Indices: 9502706--9502811 Score: 124
Period size: 30 Copynumber: 3.6 Consensus size: 30
9502696 GTCGCAAAGT
* *
9502706 AGTTCATATCACCCTGACATGGGCAGTTCA
1 AGTTCATATCACCCAGACATGGGCAGTTCG
* * **
9502736 AGTTCATATCA-CCGGACTTGGGTGGTTCG
1 AGTTCATATCACCCAGACATGGGCAGTTCG
* *
9502765 AGTTCGTATCACCCAGACATAGGCAGTTCG
1 AGTTCATATCACCCAGACATGGGCAGTTCG
*
9502795 AGTTCATTTCACCCAGA
1 AGTTCATATCACCCAGA
9502812 GCAACCACTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 23 0.37
30 39 0.63
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATGGGCAGTTCG
Found at i:9507183 original size:86 final size:85
Alignment explanation
Indices: 9507039--9507223 Score: 316
Period size: 86 Copynumber: 2.2 Consensus size: 85
9507029 ATCACTTTCT
* *
9507039 ACAATTTCACCATTAAAAAAGTATACACCAAAAACACCTCATTATTCATTTTCAACAGAATTTTT
1 ACAATTTCACCATTAAAAAAATATACACCAAAAACACCTCATTATTCATCTTCAACAGAATTTTT
*
9507104 GAACTCTCCTACTGAACACA
66 AAACTCTCCTACTGAACACA
*
9507124 ACAATTTCGCCATTAAAAAAAATATACACCAAAAACACCTCATTATTCATCTTCAACAGAATTTT
1 ACAATTTCACCATT-AAAAAAATATACACCAAAAACACCTCATTATTCATCTTCAACAGAATTTT
*
9507189 TAAACTCTCCTATTGAACACA
65 TAAACTCTCCTACTGAACACA
9507210 ACAATTTCACCATT
1 ACAATTTCACCATT
9507224 CTATATATGC
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
85 13 0.14
86 80 0.86
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.30
Consensus pattern (85 bp):
ACAATTTCACCATTAAAAAAATATACACCAAAAACACCTCATTATTCATCTTCAACAGAATTTTT
AAACTCTCCTACTGAACACA
Found at i:9507404 original size:21 final size:22
Alignment explanation
Indices: 9507375--9507423 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9507365 CCACCAAATA
*
9507375 AAATATTAATTTTTAAAAT-TTT
1 AAATATTAA-TTTAAAAATGTTT
9507397 AAAT-TTAATTTAAAAATGTTT
1 AAATATTAATTTAAAAATGTTT
9507418 AAATAT
1 AAATAT
9507424 CTTTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.33
21 11 0.46
22 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATATTAATTTAAAAATGTTT
Found at i:9507430 original size:31 final size:29
Alignment explanation
Indices: 9507386--9507444 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
9507376 AATATTAATT
*
9507386 TTTAAAATTTTAAATTTAATTTAAAAATG
1 TTTAAAATTTTAAAATTAATTTAAAAATG
9507415 TTTAAATATCTTTAAAATTAATTTAAAAAT
1 TTTAAA-AT-TTTAAAATTAATTTAAAAAT
9507445 TAATAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 6 0.22
30 2 0.07
31 19 0.70
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTAAAATTTTAAAATTAATTTAAAAATG
Found at i:9507570 original size:9 final size:9
Alignment explanation
Indices: 9507556--9507630 Score: 53
Period size: 9 Copynumber: 7.8 Consensus size: 9
9507546 AAATAATATA
9507556 TTTAAAAAT
1 TTTAAAAAT
*
9507565 TTTAAAAAA
1 TTTAAAAAT
9507574 TTTAAAATAT
1 TTTAAAA-AT
*
9507584 TATAAAACAAAT
1 T-T-TAA-AAAT
*
9507596 TTTAAAAAAA
1 TTT-AAAAAT
9507606 TTTAAAAA-
1 TTTAAAAAT
9507614 TTTAAAATAT
1 TTTAAAA-AT
*
9507624 TATAAAA
1 TTTAAAA
9507631 CTAGTAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 7 0.13
9 21 0.40
10 14 0.26
11 4 0.08
12 5 0.09
13 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:9507599 original size:31 final size:30
Alignment explanation
Indices: 9507561--9507620 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 30
9507551 ATATATTTAA
9507561 AAATTTT-AAAAAATTTAAAATATTATAAAAC
1 AAATTTTAAAAAAATTTAAAA-ATT-TAAAAC
9507592 AAATTTTAAAAAAATTTAAAAATTTAAAA
1 AAATTTTAAAAAAATTTAAAAATTTAAAA
9507621 TATTATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.18
31 10 0.36
32 13 0.46
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
AAATTTTAAAAAAATTTAAAAATTTAAAAC
Found at i:9507717 original size:21 final size:20
Alignment explanation
Indices: 9507687--9507733 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
9507677 TTGTATTATT
9507687 AAAAAT-ATATTTAAAATTTA
1 AAAAATAATATTT-AAATTTA
9507707 AAAAATAATATTTAAATTTA
1 AAAAATAATATTTAAATTTA
9507727 AAAAATA
1 AAAAATA
9507734 TTTAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATAATATTTAAATTTA
Found at i:9507724 original size:117 final size:114
Alignment explanation
Indices: 9507444--9507730 Score: 277
Period size: 117 Copynumber: 2.5 Consensus size: 114
9507434 AATTTAAAAA
* * * * *
9507444 TTAATAATTTATAAAAATTATAATTAAAATTT--AAAAAATATTTAAA-ATATACATTTAAAATA
1 TTAAAAATTT-TAAAAA-TATATTTAAAATTTAAAAAAAATATTTAAATTTAAAAATTTAAAATA
*
9507506 TTATAAAACAAATAATAAATTTGAAAGGTCATTTCTTTAAAAATAATATAT
64 TTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATAT
9507557 TTAAAAATTTT-AAAA-A-ATTTAAAATATTATAAAACAAAT-TTTAAAAAAATTTAAAAATTTA
1 TTAAAAATTTTAAAAATATATTTAAAAT-TTA-AAAA-AAATATTT----AAATTTAAAAATTTA
* * *
9507618 AAATATTATAAAACTAGTAATAAATTTGAAAGGTCATATCTTTAAAATATTTAA-ATGT
59 AAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAA-A--TAATATAT
***
9507676 TT-TGTATTATTAAAAATATATTTAAAATTTAAAAAATAATATTTAAATTTAAAAA
1 TTAAAAATT-TTAAAAATATATTTAAAATTTAAAAAA-AATATTTAAATTTAAAAA
9507731 ATATTTAAAA
Statistics
Matches: 143, Mismatches: 12, Indels: 34
0.76 0.06 0.18
Matches are distributed among these distances:
108 8 0.06
109 3 0.02
111 4 0.03
112 7 0.05
113 13 0.09
116 3 0.02
117 63 0.44
118 4 0.03
119 8 0.06
120 14 0.10
121 7 0.05
122 9 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (114 bp):
TTAAAAATTTTAAAAATATATTTAAAATTTAAAAAAAATATTTAAATTTAAAAATTTAAAATATT
ATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATAT
Found at i:9507751 original size:33 final size:33
Alignment explanation
Indices: 9507702--9507768 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 33
9507692 TATATTTAAA
9507702 ATTTAAAAAATAATATTT-AAA-TTTAAAAAAT
1 ATTTAAAAAATAATATTTAAAATTTTAAAAAAT
9507733 ATTTAAAAATATATATATTTAAAATTTTAAAAAAT
1 ATTTAAAAA-ATA-ATATTTAAAATTTTAAAAAAT
9507768 A
1 A
9507769 ATATTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 9 0.28
32 3 0.09
33 6 0.19
34 3 0.09
35 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
ATTTAAAAAATAATATTTAAAATTTTAAAAAAT
Found at i:9507776 original size:27 final size:27
Alignment explanation
Indices: 9507692--9507776 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 27
9507682 TTATTAAAAA
9507692 TATATTTAAAA-TTTAAAAAATAATATT
1 TATATTTAAAATTTTAAAAAATAATA-T
*
9507719 TAAATTTAAAAAATATTT-AAAAAT-ATA-
1 TATATTT--AAAAT-TTTAAAAAATAATAT
9507746 TATATTTAAAATTTTAAAAAATAATAT
1 TATATTTAAAATTTTAAAAAATAATAT
9507773 TATA
1 TATA
9507777 AAACATTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
24 3 0.06
25 11 0.22
26 3 0.06
27 16 0.33
29 7 0.14
30 6 0.12
31 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TATATTTAAAATTTTAAAAAATAATAT
Found at i:9507854 original size:24 final size:24
Alignment explanation
Indices: 9507822--9507867 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
9507812 AACAAACAAA
*
9507822 TAAATAAAGACAAATAAA-AAAACT
1 TAAAAAAAG-CAAATAAATAAAACT
*
9507846 TAAAAAAAGTAAATAAATAAAA
1 TAAAAAAAGCAAATAAATAAAA
9507868 ACTGTCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (24 bp):
TAAAAAAAGCAAATAAATAAAACT
Found at i:9508857 original size:16 final size:17
Alignment explanation
Indices: 9508836--9508868 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9508826 GTAATATAAT
*
9508836 ATTTAAATAA-ATTAAA
1 ATTTAAAAAATATTAAA
9508852 ATTTAAAAAATATTAAA
1 ATTTAAAAAATATTAAA
9508869 TATCATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAAAATATTAAA
Found at i:9509717 original size:16 final size:15
Alignment explanation
Indices: 9509669--9509714 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
9509659 TGTTTTTTAA
*
9509669 AAAATATTTTTGAGAT
1 AAAATATTTTT-AAAT
*
9509685 AAAAGTATTGTTAAAT
1 AAAA-TATTTTTAAAT
9509701 AAAATATTTTTAAA
1 AAAATATTTTTAAA
9509715 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
16 11 0.42
17 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (15 bp):
AAAATATTTTTAAAT
Found at i:9509741 original size:36 final size:38
Alignment explanation
Indices: 9509684--9509758 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 38
9509674 ATTTTTGAGA
9509684 TAAAAGTATTGTTAAATAAAATATTTT-TAAAA-TATT
1 TAAAAGTATTGTTAAATAAAATATTTTATAAAAGTATT
* *
9509720 TAAAAGTGTTTTTGAAA-AAAATATTTTATAAAAGTATT
1 TAAAAGTATTGTT-AAATAAAATATTTTATAAAAGTATT
9509758 T
1 T
9509759 TTTAACGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 21 0.62
37 8 0.24
38 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (38 bp):
TAAAAGTATTGTTAAATAAAATATTTTATAAAAGTATT
Found at i:9519857 original size:15 final size:15
Alignment explanation
Indices: 9519833--9519862 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9519823 TATTTTAGTT
9519833 ATATTAAGATAATTA
1 ATATTAAGATAATTA
*
9519848 ATATTGAGATAATTA
1 ATATTAAGATAATTA
9519863 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:9526653 original size:20 final size:19
Alignment explanation
Indices: 9526620--9526657 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9526610 AGTAGGAGGC
9526620 TTTCTTTTTCTTCTTTCTA
1 TTTCTTTTTCTTCTTTCTA
*
9526639 TTTCTGTTTTTTTCTTTCT
1 TTTCT-TTTTCTTCTTTCT
9526658 TAAGAGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTCTTTTTCTTCTTTCTA
Found at i:9529618 original size:18 final size:17
Alignment explanation
Indices: 9529592--9529625 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9529582 ATTTTATATT
*
9529592 AATATATTAATATTTTAA
1 AATACATTAAT-TTTTAA
9529610 AATACATTAATTTTTA
1 AATACATTAATTTTTA
9529626 GTATTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AATACATTAATTTTTAA
Found at i:9537809 original size:8 final size:8
Alignment explanation
Indices: 9537798--9537823 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9537788 TATGTACGTG
9537798 TGTATATA
1 TGTATATA
9537806 TGTATATA
1 TGTATATA
9537814 TGTATATA
1 TGTATATA
9537822 TG
1 TG
9537824 AACCTTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (8 bp):
TGTATATA
Found at i:9542394 original size:15 final size:16
Alignment explanation
Indices: 9542376--9542408 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9542366 AATTAAATTG
*
9542376 ATTAA-CTAGATGCAA
1 ATTAACCTAAATGCAA
9542391 ATTAACCTAAATGCAA
1 ATTAACCTAAATGCAA
9542407 AT
1 AT
9542409 GAGATGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (16 bp):
ATTAACCTAAATGCAA
Found at i:9558110 original size:37 final size:37
Alignment explanation
Indices: 9558069--9558282 Score: 392
Period size: 37 Copynumber: 5.8 Consensus size: 37
9558059 TTTGAGTACT
9558069 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
9558106 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
9558143 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
9558180 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
*
9558217 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
9558254 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
9558283 AGCTTTAGCT
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:9558352 original size:45 final size:46
Alignment explanation
Indices: 9558244--9558367 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
9558234 GTGATAAGTG
* *
9558244 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
9558290 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGC-CTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
9558335 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
9558368 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 22 0.30
46 40 0.54
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
Found at i:9562071 original size:13 final size:13
Alignment explanation
Indices: 9562053--9562077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9562043 TATTTTAATA
9562053 TTATTTTGTGTGT
1 TTATTTTGTGTGT
9562066 TTATTTTGTGTG
1 TTATTTTGTGTG
9562078 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Done.