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 158 of 187
Found at i:47646896 original size:132 final size:132
Alignment explanation
Indices: 47646730--47647076 Score: 473
Period size: 132 Copynumber: 2.6 Consensus size: 132
47646720 TAATAACATC
*
47646730 AGTTGCGATTTTAAATCT-GCTAACTCAAATAAAAATTGTTCATGATCTTAAATCAAATGAACTT
1 AGTTGCGATCTTAAAT-TAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCAAATGAACTT
* * *
47646794 AGTTTTCGATCTTAAATCAACAAACTTTAATAATATCATTTGCAAGCTTAAATCAACGAGCTATT
65 AGGTTGCGATCTTAAATCAACAAACTTTAATAATATCAGTTGCAAGCTTAAATCAACGAGCTATT
47646859 CAG
130 CAG
* * *
47646862 AGTTGCGATCTTAAATTAGCTAACTCAAAGAAAAATTGTTCATGATCTTAAATCGAATGAACATA
1 AGTTGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCAAATGAACTTA
* * * * * ** * *
47646927 GGTTGCGATCTTATATCAGCGAACTTTAATAATATCAGTTGCGATCTTAAATCAGTGAGTTGTTC
66 GGTTGCGATCTTAAATCAACAAACTTTAATAATATCAGTTGCAAGCTTAAATCAACGAGCTATTC
*
47646992 GG
131 AG
* * **
47646994 AGTTACGATCTTAAATAAAATAACTCAAATAAAAATTGTTCATGATCTTAAATCCAAAT-AACTT
1 AGTTGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTAAAT-CAAATGAACTT
47647058 AGGTTGCGATCTTAAATCA
65 AGGTTGCGATCTTAAATCA
47647077 GCGAACTGTT
Statistics
Matches: 188, Mismatches: 25, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 183 0.97
133 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (132 bp):
AGTTGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCAAATGAACTTA
GGTTGCGATCTTAAATCAACAAACTTTAATAATATCAGTTGCAAGCTTAAATCAACGAGCTATTC
AG
Found at i:47646938 original size:65 final size:64
Alignment explanation
Indices: 47646731--47647083 Score: 191
Period size: 65 Copynumber: 5.4 Consensus size: 64
47646721 AATAACATCA
* *
47646731 GTTGCGATTTTAAATCT-GCTAACTCAAATAAAAATTGTTCATGATCTTAAATCAAATGAACTTA
1 GTTGCGATCTTAAAT-TAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATC-AATGAACATA
47646795 G
64 G
* * * * * ** * * * * *
47646796 TTTTCGATCTTAAATCAACAAACTTTAATAATATCATT-TGCA--AGCTTAAATCAACGAGCTAT
1 GTTGCGATCTTAAATTAGCTAACTCAAATAA-A-AATTGTTCATGATCTTAAATCAATGAAC-A-
47646858 TCAG
62 T-AG
*
47646862 AGTTGCGATCTTAAATTAGCTAACTCAAAGAAAAATTGTTCATGATCTTAAATCGAATGAACATA
1 -GTTGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATC-AATGAACATA
47646927 G
64 G
* * * ** * * * ***
47646928 GTTGCGATCTTATATCAGCGAACTTTAAT-AATATCAGTTGC--GATCTTAAATCAGTGAGTTGT
1 GTTGCGATCTTAAATTAGCTAACTCAAATAAAAAT-TGTT-CATGATCTTAAATCAATGA--ACA
*
47646990 TCGG
62 T-AG
* * ** *
47646994 AGTTACGATCTTAAATAAAATAACTCAAATAAAAATTGTTCATGATCTTAAATCCAAAT-AACTT
1 -GTTGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTAAAT-C-AATGAACAT
47647058 AG
63 AG
* *
47647060 GTTGCGATCTTAAATCAGCGAACT
1 GTTGCGATCTTAAATTAGCTAACT
47647084 GTTCGGAGTT
Statistics
Matches: 207, Mismatches: 59, Indels: 44
0.67 0.19 0.14
Matches are distributed among these distances:
63 9 0.04
64 24 0.12
65 72 0.35
66 16 0.08
67 53 0.26
68 24 0.12
69 7 0.03
70 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (64 bp):
GTTGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCAATGAACATAG
Found at i:47647150 original size:95 final size:95
Alignment explanation
Indices: 47646964--47647266 Score: 500
Period size: 95 Copynumber: 3.2 Consensus size: 95
47646954 AATAATATCA
* ** * * **
47646964 GTTGCGATCTTAAATCAGTGAGTTGTTCGGAGTTACGATCTTAAATAAAATAACTCAAATAAAAA
1 GTTGCGATCTTAAATCAGCGAACTGTTCGGAGTTGCGATCTTAAATTAGCT-ACTCAAATAAAAA
47647029 TTGTTCATGATCTTAAATCCAAATAACTTAG
65 TTGTTCATGATCTTAAATCCAAATAACTTAG
47647060 GTTGCGATCTTAAATCAGCGAACTGTTCGGAGTTGCGATCTTAAATTAGCTACTCAAATAAAAAT
1 GTTGCGATCTTAAATCAGCGAACTGTTCGGAGTTGCGATCTTAAATTAGCTACTCAAATAAAAAT
47647125 TGTTCATGATCTTAAATCCAAATAACTTAG
66 TGTTCATGATCTTAAATCCAAATAACTTAG
47647155 GTTGCGATCTTAAATCAGCGAACTGTTCGGAGTTGCGATCTTAAATTAGCTACTCAAATAAAAAT
1 GTTGCGATCTTAAATCAGCGAACTGTTCGGAGTTGCGATCTTAAATTAGCTACTCAAATAAAAAT
47647220 TGTTCATGATCTTAAATCC-AATGAACTTAG
66 TGTTCATGATCTTAAATCCAAAT-AACTTAG
* *
47647250 GTTGTGATATTAAATCA
1 GTTGCGATCTTAAATCA
47647267 ACAAACCTTA
Statistics
Matches: 197, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
94 3 0.02
95 150 0.76
96 44 0.22
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (95 bp):
GTTGCGATCTTAAATCAGCGAACTGTTCGGAGTTGCGATCTTAAATTAGCTACTCAAATAAAAAT
TGTTCATGATCTTAAATCCAAATAACTTAG
Found at i:47647395 original size:132 final size:132
Alignment explanation
Indices: 47647156--47647794 Score: 725
Period size: 132 Copynumber: 4.9 Consensus size: 132
47647146 ATAACTTAGG
* ** * *
47647156 TTGCGATCTTAAATCAGCGAACTGTTCGGAGTTGCGATCTTAAATTAGCT-ACTCAAATAAAAAT
1 TTGCGATCTTAAATAAGCGAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAAAT
* * *
47647220 TGTTCATGATCTTAAATCCAATGAACTTAGGTTGTGATATTAAATCAACAAACCTTAATAATATC
66 TGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAACGAACCTTAATAATATC
47647285 AA
131 AA
* * * * * * *
47647287 ATGTGATCTTAAATAAGTGAATTGTTCAGTGTTGTGATCTTAAATTAGCTAACTCAAATAAAAAT
1 TTGCGATCTTAAATAAGCGAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAAAT
* * *
47647352 TGTTCATGATCTTAAATTGAATGAACTTATGTTGCGATTTTAAATCAGA-GAACCTTAATAATAT
66 TGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCA-ACGAACCTTAATAATAT
*
47647416 CAG
130 CAA
* * * ** * *
47647419 TTGAGATCTTAAATCAA-TGAGTTCTTTGGAGTTGCAATTTTAAATCAGCTAACTCAAATAAAAA
1 TTGCGATCTTAAAT-AAGCGAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAAA
* * * * * *
47647483 TAGTTGATGGTCTTAAATTGAATGAACTTAGGTTGTGATATTAAATCAGCGAACCTTAATAATAT
65 TTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAACGAACCTTAATAATAT
47647548 CAA
130 CAA
* * * *
47647551 CTGCGACCTTAAATCAA-CGAGTTGTT-TGTA-ATGCGATCTTAAATCAGCTAACTCAAATAAAA
1 TTGCGATCTTAAAT-AAGCGAGTTGTTCAG-AGTTGCGATCTTAAATCAGCTAACTCAAATAAAA
* * * * * *
47647613 ATTATTCATGATCTCAAATCGAATGAAATTAGGTTGCGATATTAGATCAGCGAACCTTAATAAAA
64 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAACGAACCTTAATAATA
47647678 TCAA
129 TCAA
* * * * * * *
47647682 TTGCGATATTAAATCAGCGAGTTCTTC-GAGGTTGTGATATTAAATCAACTAACTCAAATGAAAA
1 TTGCGATCTTAAATAAGCGAGTTGTTCAGA-GTTGCGATCTTAAATCAGCTAACTCAAATAAAAA
* *
47647746 TTGTTCATGATCTTAAATCGAATGAACTTAGGCTGCGATCTTAAATCAA
65 TTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAA
47647795 TGAGGTATTC
Statistics
Matches: 429, Mismatches: 70, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
130 2 0.00
131 151 0.35
132 273 0.64
133 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (132 bp):
TTGCGATCTTAAATAAGCGAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAAAT
TGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAACGAACCTTAATAATATC
AA
Found at i:47647453 original size:263 final size:262
Alignment explanation
Indices: 47647183--47647794 Score: 796
Period size: 263 Copynumber: 2.3 Consensus size: 262
47647173 CGAACTGTTC
* * *
47647183 GGAGTTGCGATCTTAAATTAGCT-ACTCAAATAAAAATTGTTCATGATCTTAAATCCAATGAACT
1 GGAGTTGCGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACT
* * *
47647247 TAGGTTGTGATATTAAATCAACAAACCTTAATAATATCAAATGTGATCTTAAAT-AAGTGAATTG
66 TAGGTTGTGATATTAAATCAACAAACCTTAATAATATCAAATGCGACCTTAAATCAA-CGAATTG
** * * * * *
47647311 TTCAGTGTTGTGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATTGAATGA
130 TT-AGTAATGCGATCTTAAATCAGCTAACTCAAATAAAAATTATTCATGATCTCAAATCGAATGA
* * * * * * *
47647376 ACTTATGTTGCGATTTTAAATCAGAGAACCTTAATAATATCAGTTGAGATCTTAAATCAATGAGT
194 AATTAGGTTGCGATATTAAATCAGAGAACCTTAATAAAATCAATTGAGATATTAAATCAACGAGT
47647441 TCTTT
259 TC-TT
* * * * * *
47647446 GGAGTTGCAATTTTAAATCAGCTAACTCAAATAAAAATAGTTGATGGTCTTAAATTGAATGAACT
1 GGAGTTGCGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACT
* * * *
47647511 TAGGTTGTGATATTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAACGAGTTGT
66 TAGGTTGTGATATTAAATCAACAAACCTTAATAATATCAAATGCGACCTTAAATCAACGAATTGT
*
47647576 TTGTAATGCGATCTTAAATCAGCTAACTCAAATAAAAATTATTCATGATCTCAAATCGAATGAAA
131 TAGTAATGCGATCTTAAATCAGCTAACTCAAATAAAAATTATTCATGATCTCAAATCGAATGAAA
* * * *
47647641 TTAGGTTGCGATATTAGATCAGCGAACCTTAATAAAATCAATTGCGATATTAAATCAGCGAGTTC
196 TTAGGTTGCGATATTAAATCAGAGAACCTTAATAAAATCAATTGAGATATTAAATCAACGAGTTC
47647706 TT
261 TT
* * * *
47647708 CGAGGTTGTGATATTAAATCAACTAACTCAAATGAAAATTGTTCATGATCTTAAATCGAATGAAC
1 GGA-GTTGCGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAC
* * *
47647773 TTAGGCTGCGATCTTAAATCAA
65 TTAGGTTGTGATATTAAATCAA
47647795 TGAGGTATTC
Statistics
Matches: 298, Mismatches: 48, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
262 4 0.01
263 200 0.67
264 92 0.31
265 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (262 bp):
GGAGTTGCGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACT
TAGGTTGTGATATTAAATCAACAAACCTTAATAATATCAAATGCGACCTTAAATCAACGAATTGT
TAGTAATGCGATCTTAAATCAGCTAACTCAAATAAAAATTATTCATGATCTCAAATCGAATGAAA
TTAGGTTGCGATATTAAATCAGAGAACCTTAATAAAATCAATTGAGATATTAAATCAACGAGTTC
TT
Found at i:47647544 original size:65 final size:65
Alignment explanation
Indices: 47647211--47647544 Score: 218
Period size: 65 Copynumber: 5.1 Consensus size: 65
47647201 TAGCTACTCA
* * * * *
47647211 AATAAAAATTGTTCATGATCTTAAATCCAATGAACTTAGGTTGTGATATTAAATCAACAAACCTT
1 AATAAAAATAGTTGATGATCTTAAATTCAATGAACTTAGGTTGTGATATTAAATCAGCGAACCTT
* ** * * * *
47647276 AAT-AATATCAAATG-TGATCTTAAA-T-AAGTGAATTGTTCAGTGTTGTGATCTTAAATTAGCT
1 AATAAAAAT-AGTTGATGATCTTAAATTCAA-TGAA--CTT-AG-GTTGTGATATTAAATCAGCG
*
47647337 AA-CTCA
60 AACCT-T
* * * * * * *
47647343 AATAAAAATTGTTCATGATCTTAAATTGAATGAACTTATGTTGCGATTTTAAATCAGAGAACCTT
1 AATAAAAATAGTTGATGATCTTAAATTCAATGAACTTAGGTTGTGATATTAAATCAGCGAACCTT
* * * ** * *
47647408 AAT-AATATCAGTTGA-GATCTTAAA-TCAATGAGTTCTTTGGAGTTGCAATTTTAAATCAGCTA
1 AATAAAAAT-AGTTGATGATCTTAAATTCAATGA--AC-TTAG-GTTGTGATATTAAATCAGCGA
*
47647470 A-CTCA
61 ACCT-T
* *
47647475 AATAAAAATAGTTGATGGTCTTAAATTGAATGAACTTAGGTTGTGATATTAAATCAGCGAACCTT
1 AATAAAAATAGTTGATGATCTTAAATTCAATGAACTTAGGTTGTGATATTAAATCAGCGAACCTT
47647540 AATAA
1 AATAA
47647545 TATCAACTGC
Statistics
Matches: 201, Mismatches: 46, Indels: 44
0.69 0.16 0.15
Matches are distributed among these distances:
62 2 0.01
63 10 0.05
64 27 0.13
65 54 0.27
66 16 0.08
67 53 0.26
68 26 0.13
69 11 0.05
70 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (65 bp):
AATAAAAATAGTTGATGATCTTAAATTCAATGAACTTAGGTTGTGATATTAAATCAGCGAACCTT
Found at i:47648054 original size:132 final size:132
Alignment explanation
Indices: 47647817--47648057 Score: 320
Period size: 132 Copynumber: 1.8 Consensus size: 132
47647807 AGTTGCTATC
* * * ** *
47647817 TTAAATCAACTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAATTAGGTTGTGATC
1 TTAAATCAACTAACTCAAATAAAAATTGTTCATAACCTTAAATCCAATGAAATTAGGTTGCAATA
* * * *
47647882 TTAAATCAGTAAACCTTAATAATTTTAGCTGTAATATTAAATTAGCGAGTTGTTCGAAGCTATGA
66 TTAAATAAGTAAACCTTAATAATATCAGCTGCAATATTAAATTAGCGAGTTGTTCGAAGCTATGA
47647947 TA
131 TA
** * *
47647949 TTAAATCAGGTAACTCAAATAAAAATTGTTCGTAACCTTAAATCCAATGAACTTAGGTTGCAATA
1 TTAAATCAACTAACTCAAATAAAAATTGTTCATAACCTTAAATCCAATGAAATTAGGTTGCAATA
* * * *
47648014 TTAAATAAGTGAACCTTAATAATATCAGTTGCGATCTTAAATTA
66 TTAAATAAGTAAACCTTAATAATATCAGCTGCAATATTAAATTA
47648058 ACTAACTCAA
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
132 91 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (132 bp):
TTAAATCAACTAACTCAAATAAAAATTGTTCATAACCTTAAATCCAATGAAATTAGGTTGCAATA
TTAAATAAGTAAACCTTAATAATATCAGCTGCAATATTAAATTAGCGAGTTGTTCGAAGCTATGA
TA
Found at i:47648079 original size:101 final size:101
Alignment explanation
Indices: 47647959--47648156 Score: 272
Period size: 101 Copynumber: 2.0 Consensus size: 101
47647949 TTAAATCAGG
* *
47647959 TAACTCAAATAAAAATTGTTCGTAACCTTAAATCCAATGAACTTAGGTTGCAATATTAAAT-AAG
1 TAACTCAAATAAAAATTGTTCATAACCTTAAATCCAATGAACTTAGGTTGCAATAATAAATCAA-
* *
47648023 TGAACCTTAATAATATCAGTTGCGATCTTAAATTAAC
65 CGAACCTAAATAATATCAGTTGCGATCTTAAATTAAC
* * * ** **
47648060 TAACTCAAATAAAATTTGTTCATGATCTTAAATTGAATGAACTTAGGTTGTGATAATAAATCAAC
1 TAACTCAAATAAAAATTGTTCATAACCTTAAATCCAATGAACTTAGGTTGCAATAATAAATCAAC
*
47648125 GAACCTAAATAATATCAGTTGTGATCTTAAAT
66 GAACCTAAATAATATCAGTTGCGATCTTAAAT
47648157 CAGCGAGTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 82 0.98
102 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (101 bp):
TAACTCAAATAAAAATTGTTCATAACCTTAAATCCAATGAACTTAGGTTGCAATAATAAATCAAC
GAACCTAAATAATATCAGTTGCGATCTTAAATTAAC
Found at i:47648164 original size:233 final size:233
Alignment explanation
Indices: 47647582--47648291 Score: 862
Period size: 233 Copynumber: 3.1 Consensus size: 233
47647572 TTGTTTGTAA
* * *
47647582 TGCGATCTTAAATCAGCTAACTCAAATAAAAATTATTCATGATCTCAAATCGAATGAAATTAGGT
1 TGCGATCTTAAATCAACTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAATTAGGT
* * * * * * *
47647647 TGCGATATTAGATCAGCGAACCTTAATAAAATCAATTGCGATATTAAATCAGCGAGTTCTTCGAG
66 TGTGATATTAAATCAGCGAACCTTAATAATATCAGTTGTGATATTAAATCAGCGAGTTGTTCGAA
* *
47647712 GTTGTGATATTAAATCAACTAACTCAAATGAAAATTGTTCATGATCTTAAATCGAATGAACTTAG
131 GTTGTGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTAG
* ** *
47647777 GCTGCGATCTTAAATCAA-TG-A-GGT-AT--TCA-GAGT
196 GTTGCGATCTTAAAT-AAGTGAACCTTAATAAT-ATCAGT
*
47647810 TGCTATCTTAAATCAACTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAATTAGGT
1 TGCGATCTTAAATCAACTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAATTAGGT
* ** * * * * *
47647875 TGTGATCTTAAATCAGTAAACCTTAATAATTTTAGCTGTAATATTAAATTAGCGAGTTGTTCGAA
66 TGTGATATTAAATCAGCGAACCTTAATAATATCAGTTGTGATATTAAATCAGCGAGTTGTTCGAA
* * * * * * *
47647940 GCTATGATATTAAATCAGGTAACTCAAATAAAAATTGTTCGTAACCTTAAATCCAATGAACTTAG
131 GTTGTGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTAG
* *
47648005 GTTGCAATATTAAATAAGTGAACCTTAATAATATCAGT
196 GTTGCGATCTTAAATAAGTGAACCTTAATAATATCAGT
* * * *
47648043 TGCGATCTTAAATTAACTAACTCAAATAAAATTTGTTCATGATCTTAAATTGAATGAACTTAGGT
1 TGCGATCTTAAATCAACTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAATTAGGT
* * * * *
47648108 TGTGATAATAAATCAACGAACCTAAATAATATCAGTTGTGATCTTAAATCAGCGAGTTGTTCGGA
66 TGTGATATTAAATCAGCGAACCTTAATAATATCAGTTGTGATATTAAATCAGCGAGTTGTTCGAA
* * * * *
47648173 GTTGCGATCTTAAATCAGCTAACTCAAATAAAAATTGTTCTTGATTTTAAAGT-GAATTAACTTA
131 GTTGTGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAA-TCGAATGAACTTA
* *
47648237 GGTTGCGATCTTAAATTAG-CATACCTTAATAATATCAGT
195 GGTTGCGATCTTAAATAAGTGA-ACCTTAATAATATCAGT
*
47648276 TGAGATCTTAAATCAA
1 TGCGATCTTAAATCAA
47648292 TGAGTTATTC
Statistics
Matches: 404, Mismatches: 69, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
227 2 0.00
228 181 0.45
229 1 0.00
230 1 0.00
231 2 0.00
232 2 0.00
233 214 0.53
234 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (233 bp):
TGCGATCTTAAATCAACTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAATTAGGT
TGTGATATTAAATCAGCGAACCTTAATAATATCAGTTGTGATATTAAATCAGCGAGTTGTTCGAA
GTTGTGATATTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTAG
GTTGCGATCTTAAATAAGTGAACCTTAATAATATCAGT
Found at i:47648277 original size:132 final size:131
Alignment explanation
Indices: 47648040--47648786 Score: 766
Period size: 132 Copynumber: 5.7 Consensus size: 131
47648030 TAATAATATC
* * * * *
47648040 AGTTGCGATCTTAAATTAACTAACTCAAATAAAATTTGTTCATGATCTTAAATTGAATGAACTTA
1 AGTTGCAATCTTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTA
** * * * *
47648105 GGTTGTGATAATAAATCAACGAACCTAAATAATATCAGTTGTGATCTTAAATCAGCGAGTTGTTC
66 GGTTGTGATCTTAAATCAGC-AACCTTAATAATATCAGTTGCGATCTTAAATCAACGAGTTGTTC
*
47648170 GG
130 AG
* * * *
47648172 AGTTGCGATCTTAAATCAGCTAACTCAAATAAAAATTGTTCTTGATTTTAAAGT-GAATTAACTT
1 AGTTGCAATCTTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAA-TCGAATGAACTT
* * * * *
47648236 AGGTTGCGATCTTAAATTAGCATACCTTAATAATATCAGTTGAGATCTTAAATCAATGAGTTATT
65 AGGTTGTGATCTTAAATCAGCA-ACCTTAATAATATCAGTTGCGATCTTAAATCAACGAGTTGTT
47648301 CAG
129 CAG
* * * * * * * *
47648304 AGTTACAATTTTAAATCAGGTAGCACAAATAAAAATTATTAATAATCTTAAATCGAATGAACTTA
1 AGTTGCAATCTTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTA
* * * ** * * * *
47648369 GGTTGCGATCTTAAATCAGTGAACATTAATAATATCAACTGCAATCTTAAATCAACGAGCTATCC
66 GGTTGTGATCTTAAATCAG-CAACCTTAATAATATCAGTTGCGATCTTAAATCAACGAGTTGTTC
*
47648434 AT
130 AG
* **
47648436 AGTTGCAATCTTAAATCAGCTAACTAAAATAAAAATTGTTCATGATCTTAAATAAAATGAACTTA
1 AGTTGCAATCTTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTA
* * * * * * *
47648501 GGTTGTGATCTTAAATAAGTGAAGCTTAATAATATC-TTCTACGATCTTAAATCAATGAGCTGTT
66 GGTTGTGATCTTAAATCAG-CAACCTTAATAATATCAGT-TGCGATCTTAAATCAACGAGTTGTT
47648565 CAG
129 CAG
* * * *
47648568 AGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATCGAATGAACTTA
1 AGTTGCAATCTTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTA
* * * * *
47648633 GGTTATGATCTTAAATCAGCGAACTTTAATAATATCAGCTGCGATTTTAAATCAACGAGTTGTTT
66 GGTTGTGATCTTAAATCAGC-AACCTTAATAATATCAGTTGCGATCTTAAATCAACGAGTTGTTC
*
47648698 TG
130 AG
* * * *
47648700 AGCTATG--ATATTAAATCAAG-TAACTCAAATGAAAATTGTTCATGATCTTAAATCCAATGAAT
1 AG-T-TGCAATCTTAAATC-AGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAAC
* ** *
47648762 TTAAGTTGCAATCTTAAATAAGCAA
63 TTAGGTTGTGATCTTAAATCAGCAA
47648787 GCTTTTCAGA
Statistics
Matches: 511, Mismatches: 94, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
131 4 0.01
132 501 0.98
133 4 0.01
134 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (131 bp):
AGTTGCAATCTTAAATCAGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCGAATGAACTTA
GGTTGTGATCTTAAATCAGCAACCTTAATAATATCAGTTGCGATCTTAAATCAACGAGTTGTTCA
G
Found at i:47648499 original size:396 final size:395
Alignment explanation
Indices: 47648040--47648780 Score: 941
Period size: 396 Copynumber: 1.9 Consensus size: 395
47648030 TAATAATATC
* * * * **
47648040 AGTTGCGATCTTAAATTAACTAACTCAAATAAAATTTGTTCATGATCTTAAATTGAATGAACTTA
1 AGTTGCAATCTTAAATCAACTAACTAAAATAAAAATTGTTCATGATCTTAAATAAAATGAACTTA
* * *
47648105 GGTTGTGATAATAAATCAA-CGAACCTAAATAATATCAGTTGT-GATCTTAAATCAGCGAGTTGT
66 GGTTGTGATAATAAAT-AAGCGAACCTAAATAATATC--TTCTAGATCTTAAATCAACGAGCTGT
* * * * * ** * *
47648168 TCGGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAAATTGTTCTTGATTTTAAAGT-GAATTA
128 TCAGAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAA-TCGAATGA
* * * *
47648232 ACTTAGGTTGCGATCTTAAATTAGC-ATACCTTAATAATATCAGTTGAGATCTTAAATCAATGAG
192 ACTTAGGTTACGATCTTAAATCAGCGA-ACCTTAATAATATCAGCTGAGATCTTAAATCAACGAG
* * * * *
47648296 TTATTCAGAGTTACAATTTTAAATCAGGTAGCACAAATAAAAATTATTAATAATCTTAAATCGAA
256 TTATTCAGAGCTACAATATTAAATCAAGTAACACAAATAAAAATTATTAATAATCTTAAATCCAA
* *
47648361 TGAACTTAGGTTGCGATCTTAAATCAGTGAACATTAATAATATCAACTGCAATCTTAAATCAACG
321 TGAACTTAAGTTGCAATCTTAAATCAGTGAACATTAATAATATCAACTGCAATCTTAAATCAACG
47648426 AGCTATCCAT
386 AGCTATCCAT
*
47648436 AGTTGCAATCTTAAATCAGCTAACTAAAATAAAAATTGTTCATGATCTTAAATAAAATGAACTTA
1 AGTTGCAATCTTAAATCAACTAACTAAAATAAAAATTGTTCATGATCTTAAATAAAATGAACTTA
** * * * *
47648501 GGTTGTGATCTTAAATAAGTGAAGCTTAATAATATCTTCTACGATCTTAAATCAATGAGCTGTTC
66 GGTTGTGATAATAAATAAGCGAACCTAAATAATATCTTCTA-GATCTTAAATCAACGAGCTGTTC
47648566 AGAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATCGAATGAACT
130 AGAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATCGAATGAACT
* * * * *
47648631 TAGGTTATGATCTTAAATCAGCGAACTTTAATAATATCAGCTGCGATTTTAAATCAACGAGTTGT
195 TAGGTTACGATCTTAAATCAGCGAACCTTAATAATATCAGCTGAGATCTTAAATCAACGAGTTAT
** ** * * * * *
47648696 TTTGAGCTATGATATTAAATCAAGTAACTCAAATGAAAATTGTTCATGATCTTAAATCCAATGAA
260 TCAGAGCTACAATATTAAATCAAGTAACACAAATAAAAATTATTAATAATCTTAAATCCAATGAA
*
47648761 TTTAAGTTGCAATCTTAAAT
325 CTTAAGTTGCAATCTTAAAT
47648781 AAGCAAGCTT
Statistics
Matches: 289, Mismatches: 51, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
394 3 0.01
395 3 0.01
396 282 0.98
397 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (395 bp):
AGTTGCAATCTTAAATCAACTAACTAAAATAAAAATTGTTCATGATCTTAAATAAAATGAACTTA
GGTTGTGATAATAAATAAGCGAACCTAAATAATATCTTCTAGATCTTAAATCAACGAGCTGTTCA
GAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATCGAATGAACTT
AGGTTACGATCTTAAATCAGCGAACCTTAATAATATCAGCTGAGATCTTAAATCAACGAGTTATT
CAGAGCTACAATATTAAATCAAGTAACACAAATAAAAATTATTAATAATCTTAAATCCAATGAAC
TTAAGTTGCAATCTTAAATCAGTGAACATTAATAATATCAACTGCAATCTTAAATCAACGAGCTA
TCCAT
Found at i:47648950 original size:224 final size:224
Alignment explanation
Indices: 47648558--47649003 Score: 540
Period size: 224 Copynumber: 2.0 Consensus size: 224
47648548 TAAATCAATG
47648558 AGCTGTTCAGAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATCG
1 AGCTGTTCAGAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATC-
* * * *
47648623 AATGAACTTAGGTTATGATCTTAAATCAGCGAACTTTAATAATATCAGCTGCGATTTTAAATCAA
65 -A-GAACTTAGGTTATGATCTTAAATCAGCGAACCTTAATAATATCAACTACGATTTTAAATAAA
* ** *
47648688 CGAGTTGTTTTGAGCTATGATATTAAATCAAGTAACTCAAATGAAAATTGTTCATGATCTTAAAT
128 CGAGCTGTTCGGAGCTACGATATTAAATCAAGTAACTCAAAT-AAAATTGTTCATGATCTTAAAT
*
47648753 CCAATGAATTTAAGTTGCAATCTTAAATAAGCA
192 CCAATGAACTTAAGTTGCAATCTTAAATAAGCA
* * * * * * * *
47648786 AGCTTTTCAGAGTTGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTTATATC-
1 AGCTGTTCAGAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATCA
* * *
47648850 GAACTTAGGTTGTGATCTTAAATCAGCGAACCTTAATAATATCAACTATGATTTTAAA-AAAGTG
66 GAACTTAGGTTATGATCTTAAATCAGCGAACCTTAATAATATCAACTACGATTTTAAATAAA-CG
* * * * *
47648914 AGCTGTTCGGAGTTGCGATCA-TAAAT-TAGCTAACTCAAATAAAATTTTTCATGATCTTAAATT
130 AGCTGTTCGGAGCTACGAT-ATTAAATCAAG-TAACTCAAATAAAATTGTTCATGATCTTAAATC
* * **
47648977 GAATGAACTTAGGTTGTGATCTTAAAT
193 CAATGAACTTAAGTTGCAATCTTAAAT
47649004 CAGTGAACCT
Statistics
Matches: 186, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
223 47 0.25
224 82 0.44
225 1 0.01
228 56 0.30
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (224 bp):
AGCTGTTCAGAGTTGCAATATGAAATCAACTAACTCAAATAAAAATTGTTAATGATCTTAAATCA
GAACTTAGGTTATGATCTTAAATCAGCGAACCTTAATAATATCAACTACGATTTTAAATAAACGA
GCTGTTCGGAGCTACGATATTAAATCAAGTAACTCAAATAAAATTGTTCATGATCTTAAATCCAA
TGAACTTAAGTTGCAATCTTAAATAAGCA
Found at i:47649023 original size:131 final size:131
Alignment explanation
Indices: 47648799--47649396 Score: 870
Period size: 131 Copynumber: 4.6 Consensus size: 131
47648789 TTTTCAGAGT
* * * *
47648799 TGCGATCTTAAATTAGCTAACTCAAATAAAAATTGTTCATGATCTT-A-T---ATCGAACTTAGG
1 TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAAT-GAAATTAGG
** ** * * * *
47648859 TTGTGATCTTAAATCAGCGAACCTTAATAATATCAACTATGATTTTAAA-AAAGTGAGCTGTTCG
65 TTGTGATCTTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAA-CGAGTTGTTTG
*
47648923 GAG
129 TAG
* * * * * * *
47648926 TTGCGATCATAAATTAGCTAACTCAAAT-AAAATTTTTCATGATCTTAAATT-GAATGAACTTAG
1 -TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTT-AATTCAAATGAAATTAG
* *
47648989 GTTGTGATCTTAAATCAGTGAACCTTAATGATATCAACTGCGACCTTAAATCAACGAGTTGTTTG
64 GTTGTGATCTTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAACGAGTTGTTTG
47649054 TAG
129 TAG
47649057 TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGT
1 TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGT
*
47649122 TGTGATATTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAACGAGTTGTTTGTA
66 TGTGATCTTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAACGAGTTGTTTGTA
47649187 G
131 G
47649188 TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGT
1 TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGT
*
47649253 TGTGATATTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAACGAGTTGTTTGTA
66 TGTGATCTTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAACGAGTTGTTTGTA
47649318 G
131 G
47649319 TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGT
1 TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGT
* *
47649384 TGCGATCATAAAT
66 TGTGATCTTAAAT
47649397 TGAATGATAG
Statistics
Matches: 436, Mismatches: 26, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
127 17 0.04
128 26 0.06
129 1 0.00
130 28 0.06
131 360 0.83
132 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (131 bp):
TGCGACCTTAAATCAGCTTACTCAAATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGT
TGTGATCTTAAATCAGCGAACCTTAATAATATCAACTGCGACCTTAAATCAACGAGTTGTTTGTA
G
Found at i:47649281 original size:65 final size:65
Alignment explanation
Indices: 47649081--47649281 Score: 171
Period size: 65 Copynumber: 3.1 Consensus size: 65
47649071 AGCTTACTCA
47649081 AATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGTTGTGATATTAAATCAGCGAACCTT
1 AATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGTTGTGATATTAAATCAGCGAACCTT
* * * * ** ** * ** *
47649146 AATAATATCAACTG--C--GACCTTAAATC-AACGAGTTGTTTGTAGTGCGACCTTAAATCAGCT
1 AATAA-A--AATTGTTCATGATCTTAATTCAAATGAAAT-TAGGT--TGTGATATTAAATCAGCG
* *
47649206 TA-CTCA
60 AACCT-T
47649212 AATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGTTGTGATATTAAATCAGCGAACCTT
1 AATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGTTGTGATATTAAATCAGCGAACCTT
47649277 AATAA
1 AATAA
47649282 TATCAACTGC
Statistics
Matches: 95, Mismatches: 28, Indels: 26
0.64 0.19 0.17
Matches are distributed among these distances:
63 9 0.09
64 12 0.13
65 29 0.31
66 24 0.25
67 12 0.13
68 9 0.09
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (65 bp):
AATAAAAATTGTTCATGATCTTAATTCAAATGAAATTAGGTTGTGATATTAAATCAGCGAACCTT
Found at i:47658576 original size:6 final size:6
Alignment explanation
Indices: 47658571--47658607 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
47658561 TAATTTTTAT
47658571 TATT-A TATTAA TATTAA TATTAA TATTAA TATTAA TA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TA
47658608 ATTTATTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:47660930 original size:18 final size:18
Alignment explanation
Indices: 47660909--47660943 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47660899 CTGATAGTTA
*
47660909 TAATTGAAAAGATACCTG
1 TAATTCAAAAGATACCTG
*
47660927 TAATTCAAAAGTTACCT
1 TAATTCAAAAGATACCT
47660944 CACTTGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (18 bp):
TAATTCAAAAGATACCTG
Found at i:47661726 original size:46 final size:46
Alignment explanation
Indices: 47661654--47661757 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
47661644 ACATCAATTG
* * *
47661654 TAATT-TCAATTAAAACAAGCTTATATAATTATTTAATC-TAATAAC
1 TAATTCTCTATTAAAACAAGCTCATATAATTATTTAA-CACAATAAC
* * *
47661699 TAATTCTCTATTAAAGCAATCTCATATAATTATTTAACACAATAAT
1 TAATTCTCTATTAAAACAAGCTCATATAATTATTTAACACAATAAC
47661745 TAATTCTCTATTA
1 TAATTCTCTATTA
47661758 TTCCATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 6 0.12
46 45 0.88
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (46 bp):
TAATTCTCTATTAAAACAAGCTCATATAATTATTTAACACAATAAC
Found at i:47662561 original size:22 final size:21
Alignment explanation
Indices: 47662533--47662577 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
47662523 GAGACAAGTT
47662533 TTGCTTTAATTATTTATTTATG
1 TTGCTTTAATTATTT-TTTATG
* *
47662555 TTGCTTTATTTATTTTTTCTG
1 TTGCTTTAATTATTTTTTATG
47662576 TT
1 TT
47662578 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.16, C:0.07, G:0.09, T:0.69
Consensus pattern (21 bp):
TTGCTTTAATTATTTTTTATG
Found at i:47664258 original size:29 final size:29
Alignment explanation
Indices: 47664216--47664274 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
47664206 TTGTGATTTT
47664216 GGTGAACAATTGAAGGAGGGGACGAAAGA
1 GGTGAACAATTGAAGGAGGGGACGAAAGA
*
47664245 GGTGAACAATTGAAGGAGGGGACGCAAGA
1 GGTGAACAATTGAAGGAGGGGACGAAAGA
47664274 G
1 G
47664275 TGTCAGATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.42, T:0.10
Consensus pattern (29 bp):
GGTGAACAATTGAAGGAGGGGACGAAAGA
Found at i:47686522 original size:50 final size:50
Alignment explanation
Indices: 47686443--47686634 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 50
47686433 TTTCTTGTAC
* * * **
47686443 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
47686493 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
***
47686543 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTTAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A---T--CGG
*
47686599 TTCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
47686635 GTCTCATTCC
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
50 81 0.69
54 1 0.01
56 35 0.30
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:47694072 original size:50 final size:50
Alignment explanation
Indices: 47693945--47694080 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 50
47693935 TGCCAAAGCT
* ** * * **
47693945 ATGTCCCAGACATGGTCTAACATGGGAGTTCTCATATCGGGGCCTATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCGTATCGGGGCCAACACC
* ** * *
47693995 ATGTCCTAGACATGGTCTTACGGGGGACCTCTCGTCTCGGTGCCAACACC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCGTATCGGGGCCAACACC
* *
47694045 ATGTCCCAGACATGGTCTTATATGGGACCTTTCGTA
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCGTA
47694081 ACCTCAATAA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCGTATCGGGGCCAACACC
Found at i:47696862 original size:27 final size:27
Alignment explanation
Indices: 47696827--47697277 Score: 354
Period size: 27 Copynumber: 16.7 Consensus size: 27
47696817 CTGCACCGAG
* *
47696827 ACCCCCATAAGGTAAAATGACCGAAAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
*
47696854 ACCCTCATAGGGTATAATGACCGAAAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
47696881 ACCCTCATAGGGTAAAATGACCGAAAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
**
47696908 A-CCTCTATAGGGTAAAATGATTGAAAT
1 ACCCTC-ATAGGGTAAAATGACCGAAAT
* **
47696935 ACCCTCATAGGGTAGAATGATTGAAAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
* **
47696962 ACCCCCATAGGGTAAAATGACTAAAAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
* *
47696989 ACCCTTCA-AAGGTAAAATGACCAAAAT
1 ACCC-TCATAGGGTAAAATGACCGAAAT
*
47697016 ACCCCCGA-AGGGTAAAATGACCGAAAT
1 ACCCTC-ATAGGGTAAAATGACCGAAAT
* * *
47697043 ACCCTTGAT-GGGTAAAATAACTGAAAT
1 ACCC-TCATAGGGTAAAATGACCGAAAT
* *
47697070 ACCCCTGA-AGGGTAAAATGATCGAAAT
1 A-CCCTCATAGGGTAAAATGACCGAAAT
* **
47697097 ACTCCTGA-AGGGTAAAATGATTGAAAT
1 AC-CCTCATAGGGTAAAATGACCGAAAT
* * *
47697124 ACCCCCGA-AAGGTAAAATGACCAAAAT
1 ACCCTC-ATAGGGTAAAATGACCGAAAT
* * * *
47697151 ACCCTCGACA-TGTAAAATTATCGAAAT
1 ACCCTC-ATAGGGTAAAATGACCGAAAT
* **
47697178 ACCCTCAAAGGGTAAAA-GTACTAAAAT
1 ACCCTCATAGGGTAAAATG-ACCGAAAT
* **
47697205 ACCCTCGA-AGGGTAAAATTATTGAAAT
1 ACCCTC-ATAGGGTAAAATGACCGAAAT
*
47697232 ACCC-C-TAAGGGTAAAATTACC-ATAAT
1 ACCCTCAT-AGGGTAAAATGACCGA-AAT
*
47697258 ACCC-CCTAAGGGTAAAATGA
1 ACCCTCAT-AGGGTAAAATGA
47697278 TCTTTATACC
Statistics
Matches: 357, Mismatches: 48, Indels: 38
0.81 0.11 0.09
Matches are distributed among these distances:
25 1 0.00
26 31 0.09
27 314 0.88
28 11 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
ACCCTCATAGGGTAAAATGACCGAAAT
Found at i:47696972 original size:81 final size:79
Alignment explanation
Indices: 47696829--47697277 Score: 390
Period size: 81 Copynumber: 5.6 Consensus size: 79
47696819 GCACCGAGAC
* * * *
47696829 CCCCATAA-GGTAAAATGACCGAAATACCCTCATAGGGTATAATGACCGAAATACCCTCATAGGG
1 CCCC-TAAGGGTAAAATGATCGAAATACCCTCA-AGGGTAAAATGACTGAAATACCCCCATAGGG
*
47696893 TAAAATGACCGAAATA
64 TAAAATGACTGAAATA
* * * *
47696909 CCTCTATAGGGTAAAATGATTGAAATACCCTCATAGGGTAGAATGATTGAAATACCCCCATAGGG
1 CCCCTA-AGGGTAAAATGATCGAAATACCCTCA-AGGGTAAAATGACTGAAATACCCCCATAGGG
*
47696974 TAAAATGACTAAAATA
64 TAAAATGACTGAAATA
* * * * * * **
47696990 CCCTTCAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTTGAT-GG
1 CCCCT-AAGGGTAAAATGATCGAAATACCCTC-AAGGGTAAAATGACTGAAATACCC-CCATAGG
*
47697054 GTAAAATAACTGAAATA
63 GTAAAATGACTGAAATA
* * *
47697071 CCCCTGAAGGGTAAAATGATCGAAATACTCCTGAAGGGTAAAATGATTGAAATACCCCCGA-AAG
1 CCCCT-AAGGGTAAAATGATCGAAATAC-CCTCAAGGGTAAAATGACTGAAATACCCCC-ATAGG
**
47697135 GTAAAATGACCAAAATA
63 GTAAAATGACTGAAATA
* * * * *
47697152 CCCTCGACA-TGTAAAATTATCGAAATACCCTCAAAGGGTAAAA-GTACTAAAATACCCTCGA-A
1 CCC-CTA-AGGGTAAAATGATCGAAATACCCTC-AAGGGTAAAATG-ACTGAAATACCC-CCATA
* *
47697214 GGGTAAAATTATTGAAATA
61 GGGTAAAATGACTGAAATA
* * *
47697233 CCCCTAAGGGTAAAATTA-CCATAATACCCCCTAAGGGTAAAATGA
1 CCCCTAAGGGTAAAATGATCGA-AATACCCTC-AAGGGTAAAATGA
47697278 TCTTTATACC
Statistics
Matches: 298, Mismatches: 55, Indels: 32
0.77 0.14 0.08
Matches are distributed among these distances:
79 5 0.02
80 38 0.13
81 246 0.83
82 9 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (79 bp):
CCCCTAAGGGTAAAATGATCGAAATACCCTCAAGGGTAAAATGACTGAAATACCCCCATAGGGTA
AAATGACTGAAATA
Found at i:47697526 original size:26 final size:26
Alignment explanation
Indices: 47697493--47697567 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
47697483 ACATATATAG
*
47697493 TTACTGGCAGCTTTGCTACGATACTGA
1 TTACTGGCAGCTTTGCTGCGATACT-A
* *
47697520 -TACTGGCAGCTCTGCTGCGATGCTA
1 TTACTGGCAGCTTTGCTGCGATACTA
*
47697545 TTACTGGTAGCTTTGCTGCGATA
1 TTACTGGCAGCTTTGCTGCGATA
47697568 TTGGTGTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.02
26 40 0.98
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATACTA
Found at i:47697710 original size:28 final size:29
Alignment explanation
Indices: 47697670--47697791 Score: 160
Period size: 28 Copynumber: 4.1 Consensus size: 29
47697660 ATTGCACTGT
*
47697670 ACTG-TTATTGTATTGGGCTAAGGCCCAC
1 ACTGATTACTGTATTGGGCTAAGGCCCAC
47697698 ACTGATT-CTGTATTGGGCTAAGGCCCAC
1 ACTGATTACTGTATTGGGCTAAGGCCCAC
47697726 ACTG-TTACTGTATTGGGCTAAGGCCCAC
1 ACTGATTACTGTATTGGGCTAAGGCCCAC
*
47697754 ACTGTTACTGTTACTATATTGGGCTAAGGCCCAC
1 ACTG--A---TTACTGTATTGGGCTAAGGCCCAC
47697788 ACTG
1 ACTG
47697792 TACTATCACT
Statistics
Matches: 84, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
27 2 0.02
28 53 0.63
29 2 0.02
34 27 0.32
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (29 bp):
ACTGATTACTGTATTGGGCTAAGGCCCAC
Found at i:47697755 original size:56 final size:59
Alignment explanation
Indices: 47697670--47697792 Score: 180
Period size: 56 Copynumber: 2.1 Consensus size: 59
47697660 ATTGCACTGT
* *
47697670 ACTGTTATTGTATTGGGCTAAGGCCCACACTG-A-TT-CTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACACTGTACTTACTATATTGGGCTAAGGCCCAC
47697726 ACTGTTACTGTATTGGGCTAAGGCCCACACTGTTACTGTTACTATATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACACTG-TAC--TTACTATATTGGGCTAAGGCCCAC
47697788 ACTGT
1 ACTGT
47697793 ACTATCACTG
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
56 31 0.53
58 1 0.02
61 2 0.03
62 25 0.42
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (59 bp):
ACTGTTACTGTATTGGGCTAAGGCCCACACTGTACTTACTATATTGGGCTAAGGCCCAC
Found at i:47697817 original size:33 final size:33
Alignment explanation
Indices: 47697684--47697826 Score: 110
Period size: 28 Copynumber: 4.6 Consensus size: 33
47697674 TTATTGTATT
* *
47697684 GGGCTAAGGCCCACACTG-A-T-T--CTGTATT
1 GGGCTAAGGCCCACACTGTACTATCACTATATA
* *
47697712 GGGCTAAGGCCCACACTG---T-T-ACTGTATT
1 GGGCTAAGGCCCACACTGTACTATCACTATATA
* * *
47697740 GGGCTAAGGCCCACACTGTTACTGTTACTATATT
1 GGGCTAAGGCCCACACTG-TACTATCACTATATA
47697774 GGGCTAAGGCCCACACTGTACTATCACTGA-ATA
1 GGGCTAAGGCCCACACTGTACTATCACT-ATATA
* *
47697807 GGGCTCAGGCCCAGACTGTA
1 GGGCTAAGGCCCACACTGTA
47697827 ACTGCATGCT
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 43 0.43
32 1 0.01
33 29 0.29
34 26 0.26
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (33 bp):
GGGCTAAGGCCCACACTGTACTATCACTATATA
Found at i:47706772 original size:11 final size:10
Alignment explanation
Indices: 47706756--47706807 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
47706746 GTACATATGC
47706756 TCTTTTTTTGT
1 TCTTTTTTT-T
47706767 TCTTTTTCTTT
1 TCTTTTT-TTT
*
47706778 TATTTTTCTTT
1 TCTTTTT-TTT
*
47706789 T-TCTTTTTT
1 TCTTTTTTTT
47706798 TCTTTTTTTT
1 TCTTTTTTTT
47706808 CACGAGCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 11 0.31
11 19 0.53
12 2 0.06
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.85
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:47706778 original size:17 final size:16
Alignment explanation
Indices: 47706756--47706808 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 16
47706746 GTACATATGC
47706756 TCTTTTTTTGTTCTTTT
1 TCTTTTTTT-TTCTTTT
47706773 TCTTTTATTTTTCTTTT
1 TCTTTT-TTTTTCTTTT
*
47706790 TCTTTTTTTCTTTTTTT
1 TCTTTTTTT-TTCTTTT
47706807 TC
1 TC
47706809 ACGAGCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 3 0.09
17 27 0.82
18 3 0.09
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (16 bp):
TCTTTTTTTTTCTTTT
Found at i:47710367 original size:13 final size:13
Alignment explanation
Indices: 47710349--47710374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47710339 CGTAATAACT
47710349 CCTTGAACCGCTC
1 CCTTGAACCGCTC
47710362 CCTTGAACCGCTC
1 CCTTGAACCGCTC
47710375 TCATGCCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.46, G:0.15, T:0.23
Consensus pattern (13 bp):
CCTTGAACCGCTC
Found at i:47712822 original size:10 final size:10
Alignment explanation
Indices: 47712800--47712836 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
47712790 AAATCTATCG
*
47712800 AAAA-TAATC
1 AAAATTAATT
47712809 AAAATTAATT
1 AAAATTAATT
47712819 AAAATTAATT
1 AAAATTAATT
47712829 AAAATTAA
1 AAAATTAA
47712837 ACATGTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATTAATT
Found at i:47721435 original size:50 final size:50
Alignment explanation
Indices: 47721323--47721721 Score: 573
Period size: 50 Copynumber: 7.8 Consensus size: 50
47721313 ATTTGGGTAA
* * * *
47721323 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCCTTAAGATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC----GA-GACG
* *
47721379 ATAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
*
47721429 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
*
47721479 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
*
47721529 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
*
47721579 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
* * * * *
47721629 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
** *
47721679 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
47721722 TGTTATGATG
Statistics
Matches: 324, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
50 246 0.76
51 37 0.11
55 2 0.01
56 39 0.12
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
Found at i:47728462 original size:30 final size:29
Alignment explanation
Indices: 47728411--47728467 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
47728401 AGCCTTGGGG
47728411 AAAAATGTAATTCTGTAAAAGTTTAGAGGT
1 AAAAATGTAATTCTGTAAAAG-TTAGAGGT
* *
47728441 AAAATTGTAATTTTG-ACAAAGTTAGAG
1 AAAAATGTAATTCTGTA-AAAGTTAGAG
47728468 TCGAGGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (29 bp):
AAAAATGTAATTCTGTAAAAGTTAGAGGT
Found at i:47728518 original size:19 final size:19
Alignment explanation
Indices: 47728473--47728521 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
47728463 TAGAGTCGAG
47728473 GGCT-ATTTTGATGAATGT
1 GGCTAATTTTGATGAATGT
*
47728491 GG-GATATTTTGATGAATGT
1 GGCTA-ATTTTGATGAATGT
47728510 GGCTAATTTTGA
1 GGCTAATTTTGA
47728522 CAAAATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.08
19 23 0.88
20 1 0.04
ACGTcount: A:0.24, C:0.04, G:0.29, T:0.43
Consensus pattern (19 bp):
GGCTAATTTTGATGAATGT
Found at i:47731704 original size:3 final size:3
Alignment explanation
Indices: 47731696--47731730 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
47731686 TTCTTTGTCT
47731696 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
47731731 TAAGCATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:47740274 original size:26 final size:26
Alignment explanation
Indices: 47740221--47740282 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
47740211 TACCCACACT
* * *
47740221 AGTTTCAATATATCATAATATATGTC
1 AGTTTCAAAATATCATAACATATATC
* *
47740247 AGTTTCAAAATATCATAGCATGTATC
1 AGTTTCAAAATATCATAACATATATC
47740273 AGTTTCAAAA
1 AGTTTCAAAA
47740283 CACTTACAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (26 bp):
AGTTTCAAAATATCATAACATATATC
Found at i:47745441 original size:13 final size:13
Alignment explanation
Indices: 47745425--47745449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47745415 TAAATCAGAC
47745425 TAATAAATATTTT
1 TAATAAATATTTT
47745438 TAATAAATATTT
1 TAATAAATATTT
47745450 ATGAAGCTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATAAATATTTT
Found at i:47745948 original size:16 final size:16
Alignment explanation
Indices: 47745927--47745961 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47745917 GATTAAGATT
* *
47745927 TTAAATGTTTTTATTA
1 TTAAATATTTTTAGTA
47745943 TTAAATATTTTTAGTA
1 TTAAATATTTTTAGTA
47745959 TTA
1 TTA
47745962 GGGATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
TTAAATATTTTTAGTA
Found at i:47753714 original size:51 final size:51
Alignment explanation
Indices: 47753649--47753848 Score: 192
Period size: 51 Copynumber: 3.9 Consensus size: 51
47753639 ATTAATGATA
* * * *
47753649 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
** * *
47753700 CCAATACACGTAGTAGCCTGCACATAGTACTACACACGTGA--TTGAAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT-CA-CTAT
* ** * * * *
47753751 TCGGTATGCATAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* *
47753801 CTGGTACACGTAGTAGCCTGCACGTAGTACTACACACGTGACCATCAC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAC
47753849 ATTCATTTTC
Statistics
Matches: 115, Mismatches: 28, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
49 5 0.04
50 36 0.31
51 72 0.63
53 1 0.01
54 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:47753833 original size:101 final size:102
Alignment explanation
Indices: 47753657--47753841 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
47753647 TACCGGTTCA
*
47753657 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCAATACACGTAGTAGCCTGCA
47753722 CATAGTACTACACACGTGATTGAAGCTATTCGGTATG
66 CATAGTACTACACACGTGATTGAAGCTATTCGGTATG
** ***
47753759 CATAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCAATACACGTAGTAGCCTGC
*
47753822 ACGTAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
47753842 CCATCACATT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCAATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATTGAAGCTATTCGGTATG
Found at i:47759928 original size:5 final size:5
Alignment explanation
Indices: 47759918--47759971 Score: 92
Period size: 5 Copynumber: 10.8 Consensus size: 5
47759908 ATTTAGCCAT
47759918 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT- TTTATA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA
47759968 TTTT
1 TTTT
47759972 CGTTTTTAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
4 3 0.06
5 41 0.87
6 3 0.06
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:47762781 original size:12 final size:12
Alignment explanation
Indices: 47762743--47762781 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
47762733 CCTTTGCGCC
47762743 TTTTGTTTTT-G
1 TTTTGTTTTTAG
47762754 TTTTGTTTTTTA-
1 TTTTG-TTTTTAG
47762766 TTTTGTTTTTAG
1 TTTTGTTTTTAG
47762778 TTTT
1 TTTT
47762782 CTGCCTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (12 bp):
TTTTGTTTTTAG
Found at i:47765162 original size:16 final size:17
Alignment explanation
Indices: 47765130--47765166 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
47765120 AATCTAATTC
47765130 ATTTGATATACTTAAAT
1 ATTTGATATACTTAAAT
*
47765147 ATTTTATATA-TTAAAT
1 ATTTGATATACTTAAAT
47765163 ATTT
1 ATTT
47765167 AAAAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTGATATACTTAAAT
Found at i:47765578 original size:167 final size:168
Alignment explanation
Indices: 47765299--47765633 Score: 534
Period size: 167 Copynumber: 2.0 Consensus size: 168
47765289 CAAATTTCAG
* *
47765299 TTTTGTCTTCTATACTATGTTGAAACTTAAATTTTAATCTCTATACTTTAATTTCTAATATAATT
1 TTTTGTCTTCTATACTATGGTGAAACTTAAATTTTAATCTATATACTTTAATTTCTAATATAATT
*
47765364 TGATCATCTATCATTAGTTAGTTTAAATAGTTAAATATTATTAAATATTTCAATCAAAATACTTG
66 TGATCATCTATCATTAGTTAGTTTAAATAGTTAAATATTAATAAATATTTCAATCAAAAT-CTTG
*
47765429 -CATTA-TTTTTTTCTTGAGAACATTATTCTAATAAAAA
130 ACATTATTTTTTTTCTTGAGAACATTATTCCAATAAAAA
* *
47765466 TTTTGTCTTTTATACTATGGTGAAACTTAAGA-TTTAATCTATATACTTTAATTTTTAATATAAT
1 TTTTGTCTTCTATACTATGGTGAAACTTAA-ATTTTAATCTATATACTTTAATTTCTAATATAAT
* * *
47765530 TTGATTC-TCTTTCATTAGTTAGTTTAAATAGTTAAATATTAATAAATATTTCAATGAAAATGTT
65 TTGA-TCATCTATCATTAGTTAGTTTAAATAGTTAAATATTAATAAATATTTCAATCAAAATCTT
47765594 GACATTATTTTTTTTCTTGAGAACATTATTCCAATAAAAA
129 GACATTATTTTTTTTCTTGAGAACATTATTCCAATAAAAA
47765634 ATATTTTATC
Statistics
Matches: 155, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
166 3 0.02
167 118 0.76
168 34 0.22
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (168 bp):
TTTTGTCTTCTATACTATGGTGAAACTTAAATTTTAATCTATATACTTTAATTTCTAATATAATT
TGATCATCTATCATTAGTTAGTTTAAATAGTTAAATATTAATAAATATTTCAATCAAAATCTTGA
CATTATTTTTTTTCTTGAGAACATTATTCCAATAAAAA
Found at i:47766141 original size:16 final size:16
Alignment explanation
Indices: 47766087--47766134 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
47766077 TCAGAATATT
* *
47766087 TATAAAATTTTAAAAT
1 TATAAAATTTAAAAAA
* * *
47766103 TTTATATTTTAAAAAA
1 TATAAAATTTAAAAAA
47766119 TATAAAATTTAAAAAA
1 TATAAAATTTAAAAAA
47766135 ATCAAAAAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAAATTTAAAAAA
Found at i:47766223 original size:41 final size:40
Alignment explanation
Indices: 47766178--47766254 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
47766168 AAATTTTCTA
*
47766178 AAATAATAATTTTGGGACCTATTTAATTATTCAAATTATTC
1 AAATAATAATTTTGGG-CCTAATTAATTATTCAAATTATTC
*
47766219 AAATAATAATTTTGGGTCTAATTAATTATTCAAATT
1 AAATAATAATTTTGGGCCTAATTAATTATTCAAATT
47766255 TATCGTACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 18 0.53
41 16 0.47
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (40 bp):
AAATAATAATTTTGGGCCTAATTAATTATTCAAATTATTC
Found at i:47766786 original size:14 final size:14
Alignment explanation
Indices: 47766767--47766806 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
47766757 TACCTTTCTT
47766767 TTCTTTCTCCTCTC
1 TTCTTTCTCCTCTC
47766781 TTCTTT-TCCCTCTC
1 TTCTTTCT-CCTCTC
*
47766795 TTTTTTCTCCTC
1 TTCTTTCTCCTC
47766807 ACTGCCAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (14 bp):
TTCTTTCTCCTCTC
Found at i:47775580 original size:62 final size:59
Alignment explanation
Indices: 47775499--47775744 Score: 228
Period size: 58 Copynumber: 4.2 Consensus size: 59
47775489 TTTTAATAAG
*
47775499 ATTATTATTAAATATAATTTAATAAAAATAAAAATTAAATAATTTAATCATATTTTAACATT
1 ATTATTATTAAATACAATTTAATAAAAAT--AAA-TAAATAATTTAATCATATTTTAACATT
* * * *
47775561 ATTATTATTAAATACAATTTAAT-AAAAT-AATATATAATTTAATAACA-ATCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAAT--CATATTTTAACATT
*
47775619 ATTATTATTAGAATATGAA-TTAATAAAAATCATAATAAATAATTTAATCATATTTTAACA-T
1 ATTATTATTA-AATA-CAATTTAATAAAAAT-A-AATAAATAATTTAATCATATTTTAACATT
* * *
47775680 A--ATTATTAAATACAATTTAAT-AAAAT-AAT--TTAATTTAATTACAT-TTTTAATATA
1 ATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAA-T-CATATTTTAACATT
47775734 ATTATTATTAA
1 ATTATTATTAA
47775745 TTTAGGTAAA
Statistics
Matches: 155, Mismatches: 14, Indels: 36
0.76 0.07 0.18
Matches are distributed among these distances:
52 8 0.05
53 8 0.05
54 7 0.05
56 8 0.05
57 19 0.12
58 29 0.19
59 18 0.12
60 7 0.05
61 8 0.05
62 29 0.19
63 14 0.09
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAATCATATTTTAACATT
Found at i:47775669 original size:120 final size:115
Alignment explanation
Indices: 47775491--47775744 Score: 370
Period size: 120 Copynumber: 2.2 Consensus size: 115
47775481 TTATTAAATT
47775491 TTAATA-AGATTATTATTAAATATAATTTAATAAAAATAAAAATTAAATAATTTAATCATATTTT
1 TTAATATA-ATTATTATTAAATATAATTTAATAAAAATAAAAATTAAATAATTTAATCATATTTT
47775555 AACATTATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACAATC
65 AACA-TA--ATTATTAAATACAATTTAATAAAATAAT-T-TAATTTAATAACAATC
* *
47775611 TTAATATAATTATTATTAGAATATGAA-TTAATAAAAATCATAA-TAAATAATTTAATCATATTT
1 TTAATATAATTATTATTA-AATAT-AATTTAATAAAAATAAAAATTAAATAATTTAATCATATTT
* * *
47775674 TAACATAATTATTAAATACAATTTAATAAAATAATTTAATTTAATTACATTT
64 TAACATAATTATTAAATACAATTTAATAAAATAATTTAATTTAATAACAATC
47775726 TTAATATAATTATTATTAA
1 TTAATATAATTATTATTAA
47775745 TTTAGGTAAA
Statistics
Matches: 126, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
114 1 0.01
115 31 0.25
116 1 0.01
117 28 0.22
119 2 0.02
120 41 0.33
121 20 0.16
122 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (115 bp):
TTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATTAAATAATTTAATCATATTTTA
ACATAATTATTAAATACAATTTAATAAAATAATTTAATTTAATAACAATC
Found at i:47779090 original size:231 final size:221
Alignment explanation
Indices: 47778696--47779152 Score: 725
Period size: 231 Copynumber: 2.0 Consensus size: 221
47778686 TTTATATTAA
* * * *
47778696 TGCAAAAAGCATACAATTTGGTAAAAGAGTATCGTACAAATTAAGAATTGGAAGATTAGATCTAT
1 TGCAAAAAGCATACAATTTGATAAAAGAGTATCGAACAAACTAAGAACTGGAAGATTAGATCTAT
* * *
47778761 ACTTTTTTTTCAATGCATCAAGATCTTGTGTATATAGCTTTGATAAAAAATTAATTATCACCTCT
66 ACCTTTTTTTCAATGCATCAAGATCTGGTATATATAGCTTTGATAAAAAATTAATTATCACCTCT
47778826 ACTTTTAGACTATCTGTGAGTAAATCAATCTTGTTATTAGCTTCTTCTTCTTTTTTGGCTTTGTA
131 ACTTTTAGACTATCTGTGAGTAAATCAATCTTGTTATTAGCTTCTTCTT-TTTTTTGGCTTTGTA
47778891 GGGTAGAACTGCAGAAAAAGGCTTTGT
195 GGGTAGAACTGCAGAAAAAGGCTTTGT
47778918 TGCAAAAAGCATACAATTTGATAAAAGAGTATCGAACAAACTAAGAACTGGAAGATTAGATCTAT
1 TGCAAAAAGCATACAATTTGATAAAAGAGTATCGAACAAACTAAGAACTGGAAGATTAGATCTAT
*
47778983 AAACCAAAACGCTTTTTTTCAATGCATCAAGATCTGGTATATATAGGTTTGATAAAAAATTAATT
66 --------AC-CTTTTTTTCAATGCATCAAGATCTGGTATATATAGCTTTGATAAAAAATTAATT
* *
47779048 ATCACCTCTGCTTTTGGACTATCTGTGAGTAAATCAATCTTGTTATTAGCTTCTTCTTTTTTTTG
122 ATCACCTCTACTTTTAGACTATCTGTGAGTAAATCAATCTTGTTATTAGCTTCTTCTTTTTTTTG
*
47779113 GCTTTGTAGGGTAGAACTGCAGAATAAGGCTTTGT
187 GCTTTGTAGGGTAGAACTGCAGAAAAAGGCTTTGT
47779148 TGCAA
1 TGCAA
47779153 TGTCTTTTAG
Statistics
Matches: 215, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
222 61 0.28
230 48 0.22
231 106 0.49
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (221 bp):
TGCAAAAAGCATACAATTTGATAAAAGAGTATCGAACAAACTAAGAACTGGAAGATTAGATCTAT
ACCTTTTTTTCAATGCATCAAGATCTGGTATATATAGCTTTGATAAAAAATTAATTATCACCTCT
ACTTTTAGACTATCTGTGAGTAAATCAATCTTGTTATTAGCTTCTTCTTTTTTTTGGCTTTGTAG
GGTAGAACTGCAGAAAAAGGCTTTGT
Found at i:47780558 original size:34 final size:35
Alignment explanation
Indices: 47780498--47780564 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47780488 CAAACACCAG
* *
47780498 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
47780533 AAAACATTTTCCCG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
47780565 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:47789810 original size:27 final size:26
Alignment explanation
Indices: 47789686--47789808 Score: 112
Period size: 27 Copynumber: 4.8 Consensus size: 26
47789676 AATCAAGTAT
* *
47789686 TTTACCCTATAAGGGTATTTTAGTCA
1 TTTACCCTATAGGGGTATTTTGGTCA
*
47789712 TTTCACCTTATAGGGGTATTTTGGTCA
1 TTT-ACCCTATAGGGGTATTTTGGTCA
47789739 TTTTACCCTAT-GAGGGTATTTTGG---
1 -TTTACCCTATAG-GGGTATTTTGGTCA
* *
47789763 -TTACCCTATAGGTGTATTTCGGTCA
1 TTTACCCTATAGGGGTATTTTGGTCA
* *
47789788 TTCTACCTTATGGGGGTATTT
1 TT-TACCCTATAGGGGTATTT
47789809 CGATCATAAC
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
22 18 0.23
23 1 0.01
26 5 0.06
27 52 0.66
28 3 0.04
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (26 bp):
TTTACCCTATAGGGGTATTTTGGTCA
Found at i:47792149 original size:26 final size:26
Alignment explanation
Indices: 47792104--47792169 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
47792094 GGTTTGTCAG
* *
47792104 AAAGGCTTTCATTTTATATTACACCAC
1 AAAGCCTTTC-TTTCATATTACACCAC
* **
47792131 AAATCCTTTCTTTCATATTATGCCAC
1 AAAGCCTTTCTTTCATATTACACCAC
*
47792157 AAAGGCTTTCTTT
1 AAAGCCTTTCTTT
47792170 ATCTGTCGTG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (26 bp):
AAAGCCTTTCTTTCATATTACACCAC
Found at i:47795980 original size:16 final size:17
Alignment explanation
Indices: 47795959--47796000 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
47795949 AATTATGTGT
47795959 ATTAATTTATAA-TATA
1 ATTAATTTATAATTATA
*
47795975 ATTAATTT-TAATTTTA
1 ATTAATTTATAATTATA
47795991 ATTCAATTTA
1 ATT-AATTTA
47796001 GTTTGGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 14 0.64
17 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAATTTATAATTATA
Found at i:47801925 original size:27 final size:27
Alignment explanation
Indices: 47801895--47802237 Score: 390
Period size: 27 Copynumber: 12.7 Consensus size: 27
47801885 AATGGGCCTC
* *
47801895 TAAAATTACTGAAATACCCTTGATAGG
1 TAAAATTACTGAAATACCCTCGATGGG
47801922 TAAAATTACTGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
47801949 TAAAATTA-TCGAAATACCCCCGATAGG
1 TAAAATTACT-GAAATACCCTCGATGGG
* ** *
47801976 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
47802003 TAAATTTA-TCGAAATA-CCTCTGATGGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
*
47802030 TAAAATTACTAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
47802057 TAAAATTATTGAAATACCCTCGAAGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
47802084 TAAAATTA-TCGAAATACCC-CTGATGGA
1 TAAAATTACT-GAAATACCCTC-GATGGG
* *
47802111 TAAAATTACTAAAATACCCTCAATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
47802138 TAAAATTACTAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* **
47802165 TAAAATTAGTGAAATACCCTTAATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* **
47802192 TGAAATTACCAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
**
47802219 TAAAATTACCAAAATACCC
1 TAAAATTACTGAAATACCC
47802238 CTATGAGATG
Statistics
Matches: 269, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.03
27 255 0.95
28 7 0.03
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATGGG
Found at i:47802498 original size:26 final size:26
Alignment explanation
Indices: 47802435--47802505 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
47802425 TTGCTGGTAG
* * *
47802435 TACTGGCAGCTCTGCTGCATTACTGT
1 TACTGGCAGCTTTGCTGCATCACTAT
*
47802461 TACTGGCAGCTTTGCTGCGTCACTAT
1 TACTGGCAGCTTTGCTGCATCACTAT
* *
47802487 TACTTGCAGCTTTGTTGCA
1 TACTGGCAGCTTTGCTGCA
47802506 ATATTGGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCATCACTAT
Found at i:47802651 original size:30 final size:30
Alignment explanation
Indices: 47802615--47802699 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
47802605 GCATTTGCAT
*
47802615 TGTTACTGTATTGGGCTAAGGCCCACACTC
1 TGTTACTGTATTGGGCTAAGGCCCACACAC
*
47802645 TGTTACTGTATTGGGCTATGGCCCACACAC
1 TGTTACTGTATTGGGCTAAGGCCCACACAC
* * ** *
47802675 TGCTCCTGTATAAGGCTCAGGCCCA
1 TGTTACTGTATTGGGCTAAGGCCCA
47802700 AACTGATTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (30 bp):
TGTTACTGTATTGGGCTAAGGCCCACACAC
Found at i:47806432 original size:16 final size:15
Alignment explanation
Indices: 47806404--47806438 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
47806394 AATAACTAGT
*
47806404 TTATAATTATATTTA
1 TTATAATTATATTAA
47806419 TTATAATATATATTAA
1 TTATAAT-TATATTAA
47806435 TTAT
1 TTAT
47806439 TATCAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATAATTATATTAA
Found at i:47810056 original size:10 final size:10
Alignment explanation
Indices: 47810041--47810089 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
47810031 ATTAACATGT
47810041 TTAATTTTAA
1 TTAATTTTAA
47810051 TTAATTTTATAA
1 TTAA-TTT-TAA
*
47810063 TTAATTTTGA
1 TTAATTTTAA
*
47810073 TTAATTTTGA
1 TTAATTTTAA
47810083 TT-ATTTT
1 TTAATTTT
47810090 CGACAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 18 0.50
11 6 0.17
12 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:47811887 original size:10 final size:10
Alignment explanation
Indices: 47811872--47811928 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
47811862 ATGAATATGT
47811872 TTAATTTTAA
1 TTAATTTTAA
47811882 TTAATTTT-A
1 TTAATTTTAA
*
47811891 TTCAAATTTTGA
1 TT--AATTTTAA
*
47811903 TTAATTTTTA
1 TTAATTTTAA
*
47811913 TTATTTTTAA
1 TTAATTTTAA
47811923 TTAATT
1 TTAATT
47811929 AGCACAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 3 0.08
10 28 0.70
11 6 0.15
12 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:47815863 original size:19 final size:19
Alignment explanation
Indices: 47815841--47815878 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
47815831 TCCCTCATCC
47815841 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
47815860 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
47815879 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:47821698 original size:40 final size:40
Alignment explanation
Indices: 47821623--47821807 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
47821613 TTTTTGTTGT
* * * * * *
47821623 ATGCACATACATGTCGCTATTTATTCTTCAGTACCCCTGA
1 ATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGA
* * * * *
47821663 ATGCATATACGTGCCCCTGTTTGTACTTTGATACCCTTGA
1 ATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGA
*
47821703 ATGCACATACATGCCCCTATTTGTACTTCGGTACCCCTGA
1 ATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGA
*
47821743 ATGCACATACATGCCCCTGTTTGTACTTCGGTACCCATGA
1 ATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGA
** *
47821783 ATGCACATATGTGACCCTGTTTGTA
1 ATGCACATACATGCCCCTGTTTGTA
47821808 ATTTGGTAAC
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (40 bp):
ATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTGA
Found at i:47828024 original size:40 final size:40
Alignment explanation
Indices: 47827980--47828143 Score: 231
Period size: 40 Copynumber: 4.1 Consensus size: 40
47827970 TAATTATTGT
*
47827980 TGAATGCACATATGTGCCCCTGTTTGTTCTTCGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* *
47828020 TGAATGCACATATGTGCCCCTGTTTG-AATGTCGGTACCCT
1 TGAATGCACATATGTGCCCCTGTTTGTACT-TCGGTACCCC
* *
47828060 TGAATGCACATAGGTGCCCCTGTTTGTACTTCGATACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
47828100 TGAATGCACATACGTGCCCCTATTTGTACTTTGGTAACCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
47828140 TGAA
1 TGAA
47828144 ACTAATAGTT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 107 0.97
41 2 0.02
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:47828119 original size:20 final size:20
Alignment explanation
Indices: 47828016--47828120 Score: 54
Period size: 20 Copynumber: 5.2 Consensus size: 20
47828006 TTCTTCGGTA
*
47828016 CCCCTGAATGCACATATGTG
1 CCCCTGAATGCACATACGTG
** * *
47828036 CCCCTGTTTG-A-ATGTCGGTA
1 CCCCTGAATGCACAT-AC-GTG
* *
47828056 CCCTTGAATGCACATAGGTG
1 CCCCTGAATGCACATACGTG
** * * *
47828076 CCCCTGTTTGTAC-TTCGATA
1 CCCCTGAATGCACATACG-TG
47828096 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
47828116 CCCCT
1 CCCCT
47828121 ATTTGTACTT
Statistics
Matches: 56, Mismatches: 23, Indels: 12
0.62 0.25 0.13
Matches are distributed among these distances:
18 2 0.04
19 3 0.05
20 45 0.80
21 4 0.07
22 2 0.04
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:47828796 original size:36 final size:36
Alignment explanation
Indices: 47828728--47828797 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
47828718 TTTCACACAT
* *
47828728 CATGTGGCACACACGACCACAGCCTAGTGACACGAC
1 CATGTGACACACACGACCACAGCCTAGCGACACGAC
* ** *
47828764 CATGTGACACACACGGCCATGGCCTGGCGACACG
1 CATGTGACACACACGACCACAGCCTAGCGACACG
47828798 GCCGTGTGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.27, C:0.36, G:0.26, T:0.11
Consensus pattern (36 bp):
CATGTGACACACACGACCACAGCCTAGCGACACGAC
Found at i:47835779 original size:5 final size:5
Alignment explanation
Indices: 47835769--47835798 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
47835759 TGGTAATTTG
47835769 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
47835799 GGTTAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:47839479 original size:13 final size:13
Alignment explanation
Indices: 47839461--47839485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47839451 CACAATGGGT
47839461 AATTGAACTTGAA
1 AATTGAACTTGAA
47839474 AATTGAACTTGA
1 AATTGAACTTGA
47839486 CATCATAAAT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:47858200 original size:18 final size:19
Alignment explanation
Indices: 47858177--47858212 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
47858167 TCAATATTGT
47858177 ATTTATTAATT-TTTATTA
1 ATTTATTAATTATTTATTA
47858195 ATTTATTAATTATTTATT
1 ATTTATTAATTATTTATT
47858213 TCAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATTAATTATTTATTA
Found at i:47858803 original size:10 final size:9
Alignment explanation
Indices: 47858786--47858822 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
47858776 ATTTTATATT
47858786 TTTAAAAAA
1 TTTAAAAAA
47858795 TTCTAAAAAA
1 TT-TAAAAAA
47858805 TTTAAAAAAA
1 TTT-AAAAAA
47858815 TTTAAAAA
1 TTTAAAAA
47858823 TTTTCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:47869416 original size:35 final size:37
Alignment explanation
Indices: 47869369--47869445 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
47869359 TTCTTTTTTT
* *
47869369 AAAAAAGTAAAAATAT-C-ATAAAAAATGAAACGAAA
1 AAAAAAGGAAAAATATACAAGAAAAAATGAAACGAAA
* *
47869404 AAAAAAGGAAAAATGTACGAAGAAAAAATGAAAGGAAA
1 AAAAAAGGAAAAATATAC-AAGAAAAAATGAAACGAAA
47869442 AAAA
1 AAAA
47869446 TGAACCACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 14 0.40
36 1 0.03
38 20 0.57
ACGTcount: A:0.71, C:0.04, G:0.14, T:0.10
Consensus pattern (37 bp):
AAAAAAGGAAAAATATACAAGAAAAAATGAAACGAAA
Found at i:47869423 original size:22 final size:23
Alignment explanation
Indices: 47869389--47869436 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
47869379 AAATATCATA
47869389 AAAAATGAAACGAAAAAAAAAGG
1 AAAAATGAAACGAAAAAAAAAGG
* * *
47869412 AAAAATG-TACGAAGAAAAAATG
1 AAAAATGAAACGAAAAAAAAAGG
47869434 AAA
1 AAA
47869437 GGAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.71, C:0.04, G:0.17, T:0.08
Consensus pattern (23 bp):
AAAAATGAAACGAAAAAAAAAGG
Found at i:47870357 original size:44 final size:42
Alignment explanation
Indices: 47870321--47870484 Score: 145
Period size: 44 Copynumber: 3.8 Consensus size: 42
47870311 AGGATTCATC
47870321 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TGG
1 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATCT-G
* * * * * *
47870363 A-TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTAAG
1 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATCT--G
* * *
47870406 GTTTTAA-CTCACTCCACTGCAACTTCAGAGAGATAGGATCATTG
1 ATTTTAATC-CGCTCCACTGCAACTTCAGGGAGATAGGATC--TG
** *
47870450 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
47870485 AGACTTACCA
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
41 31 0.32
42 2 0.02
43 2 0.02
44 60 0.62
45 1 0.01
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTG
Found at i:47870576 original size:50 final size:50
Alignment explanation
Indices: 47870522--47870912 Score: 248
Period size: 50 Copynumber: 7.8 Consensus size: 50
47870512 TGCAATGTGG
* **
47870522 GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCACCA
1 GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACTGCCA
* * * ** * * *
47870572 GGGAAGTAAGATTCACCGTTGT-GACTTCAATCTATTTAACTACAATGTCG
1 GGGAAATAAGATTCGCCGTCGTAG-CTTCAATCTATTCCACTACACTGCCA
* * * *
47870622 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCC-CTTACACCGCCA
1 GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCAC-TACACTGCCA
* * * * * ** * * * *
47870672 GGGAAGTAAGATTCGCCATTGTGGCTTCAATTTATTTAACTGCAATGTCG
1 GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACTGCCA
** * **
47870722 GGGAAATAAGATTCATCGTCGTAGCTTCAATCTATTCCCCTACACCACCA
1 GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACTGCCA
* * * * * * ** * * *
47870772 GGGAAGTAAAATTTGACGTTGTGGCTTCAATCTATTTAACTACAATGTCG
1 GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACTGCCA
* * * * *
47870822 GGGAAACAAGATTCGTCGTCGT-GACTTTAATCTGTTCCCCTACACTGCCA
1 GGGAAATAAGATTCGCCGTCGTAG-CTTCAATCTATTCCACTACACTGCCA
* * * * ** *
47870872 GAGAAGTAAGATTTGCTGTTATGGCTTCAATCTATTCCACT
1 GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACT
47870913 GTAATGCCAA
Statistics
Matches: 243, Mismatches: 92, Indels: 12
0.70 0.27 0.03
Matches are distributed among these distances:
49 3 0.01
50 237 0.98
51 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (50 bp):
GGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACTGCCA
Found at i:47870625 original size:100 final size:100
Alignment explanation
Indices: 47870496--47870907 Score: 540
Period size: 100 Copynumber: 4.1 Consensus size: 100
47870486 GACTTACCAT
* * * * * *
47870496 CTTCAATCTGTTTAACTGCAATGTGGGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCC
*
47870561 CTACACCACCAGGGAAGTAAGATTCACCGTTGTGA
66 CTACACCACCAGGGAAGTAAGATTCACCGTTGTGG
47870596 CTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCC
1 CTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCC
* * * *
47870661 TTACACCGCCAGGGAAGTAAGATTCGCCATTGTGG
66 CTACACCACCAGGGAAGTAAGATTCACCGTTGTGG
* * * * *
47870696 CTTCAATTTATTTAACTGCAATGTCGGGGAAATAAGATTCATCGTCGTAGCTTCAATCTATTCCC
1 CTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCC
* *
47870761 CTACACCACCAGGGAAGTAAAATTTGA-CGTTGTGG
66 CTACACCACCAGGGAAGTAAGA-TTCACCGTTGTGG
** *
47870796 CTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCGTCGTCGT-GACTTTAATCTGTTCC
1 CTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACCGTCGTAG-CTTCAATCTGTTCC
** * ** * *
47870860 CCTACACTGCCAGAGAAGTAAGATTTGCTGTTATGG
65 CCTACACCACCAGGGAAGTAAGATTCACCGTTGTGG
47870896 CTTCAATCTATT
1 CTTCAATCTATT
47870908 CCACTGTAAT
Statistics
Matches: 273, Mismatches: 36, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
99 3 0.01
100 268 0.98
101 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (100 bp):
CTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCC
CTACACCACCAGGGAAGTAAGATTCACCGTTGTGG
Found at i:47870856 original size:200 final size:200
Alignment explanation
Indices: 47870496--47870907 Score: 612
Period size: 200 Copynumber: 2.1 Consensus size: 200
47870486 GACTTACCAT
* * * *
47870496 CTTCAATCTGTTTAACTGCAATGTGGGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAATAAGATTCACCGTCGTAGCTTCAATCTATTCCA
*
47870561 CTACACCACCAGGGAAGTAAGATTCACCGTTGTGACTTCAATCTATTTAACTACAATGTCGGGGA
66 CTACACCACCAGGGAAGTAAAATTCACCGTTGTGACTTCAATCTATTTAACTACAATGTCGGGGA
* *
47870626 AACAAGATTCACCGTCGTAGCTTCAATCTGTTCCCTTACACCGCCAGGGAAGTAAGATTCGCCAT
131 AACAAGATTCACCGTCGTAGCTTCAATCTGTTCCCCTACACCGCCAGAGAAGTAAGATTCGCCAT
*
47870691 TGTGG
196 TATGG
* * *
47870696 CTTCAATTTATTTAACTGCAATGTCGGGGAAATAAGATTCATCGTCGTAGCTTCAATCTATTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAATAAGATTCACCGTCGTAGCTTCAATCTATTCCA
* *
47870761 CTACACCACCAGGGAAGTAAAATTTGA-CGTTGTGGCTTCAATCTATTTAACTACAATGTCGGGG
66 CTACACCACCAGGGAAGTAAAA-TTCACCGTTGTGACTTCAATCTATTTAACTACAATGTCGGGG
** * * * *
47870825 AAACAAGATTCGTCGTCGT-GACTTTAATCTGTTCCCCTACACTGCCAGAGAAGTAAGATTTGCT
130 AAACAAGATTCACCGTCGTAG-CTTCAATCTGTTCCCCTACACCGCCAGAGAAGTAAGATTCGCC
*
47870889 GTTATGG
194 ATTATGG
47870896 CTTCAATCTATT
1 CTTCAATCTATT
47870908 CCACTGTAAT
Statistics
Matches: 189, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
199 1 0.01
200 185 0.98
201 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (200 bp):
CTTCAATCTATTTAACTGCAATGTCGGGGAAATAAGATTCACCGTCGTAGCTTCAATCTATTCCA
CTACACCACCAGGGAAGTAAAATTCACCGTTGTGACTTCAATCTATTTAACTACAATGTCGGGGA
AACAAGATTCACCGTCGTAGCTTCAATCTGTTCCCCTACACCGCCAGAGAAGTAAGATTCGCCAT
TATGG
Found at i:47871164 original size:88 final size:88
Alignment explanation
Indices: 47871049--47871221 Score: 267
Period size: 88 Copynumber: 2.0 Consensus size: 88
47871039 AAGACTGGTG
* * **
47871049 TCTTCGATATGCTTCGCTGCCAGTACAGGAAGGTAAGATCTGCTATT-TTCAACCTACTCCACTG
1 TCTTCGATATACTTCGCTGCCAATACAGGAAGACAAGATCTGCT-TTATTCAACCTACTCCACTG
47871113 CTGCTCAGGGAGACAAGGCTAGTA
65 CTGCTCAGGGAGACAAGGCTAGTA
* *
47871137 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTTTATTCAACTTACTCCACTGC
1 TCTTCGATATACTTCGCTGCCAATACAGGAAGACAAGATCTGCTTTATTCAACCTACTCCACTGC
*
47871202 TGCTCAGGGAGATAAGGCTA
66 TGCTCAGGGAGACAAGGCTA
47871222 AGATTTCACC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 2 0.03
88 75 0.97
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (88 bp):
TCTTCGATATACTTCGCTGCCAATACAGGAAGACAAGATCTGCTTTATTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGGCTAGTA
Found at i:47875954 original size:16 final size:19
Alignment explanation
Indices: 47875921--47875958 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
47875911 AGAATATACA
47875921 AATAATATATGAATTTATG
1 AATAATATATGAATTTATG
47875940 AATAA-ATATG-A-TTATG
1 AATAATATATGAATTTATG
47875956 AAT
1 AAT
47875959 GATGTGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 5 0.26
19 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
AATAATATATGAATTTATG
Found at i:47886951 original size:16 final size:16
Alignment explanation
Indices: 47886930--47886960 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47886920 TTTGGTTCGC
47886930 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGA
47886946 TGTAATGGAATAGAG
1 TGTAATGGAATAGAG
47886961 GCGTAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGA
Found at i:47886966 original size:16 final size:16
Alignment explanation
Indices: 47886931--47886967 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47886921 TTGGTTCGCT
*
47886931 GTAATGGAATAGAGAT
1 GTAATGGAATAGAGAC
*
47886947 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGAC
47886963 GTAAT
1 GTAAT
47886968 AGTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:47887009 original size:45 final size:44
Alignment explanation
Indices: 47886945--47887041 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 44
47886935 TGGAATAGAG
47886945 ATGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGA
*
47886990 ATGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGA
*
47887034 ATGGAATG
1 ATGTAATG
47887042 ATGTTGTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.45
45 26 0.53
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (44 bp):
ATGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGA
Found at i:47887174 original size:21 final size:20
Alignment explanation
Indices: 47887150--47887240 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 20
47887140 AATAAGATTA
47887150 TTAATATAAATAATAAATAAT
1 TTAATATAAAT-ATAAATAAT
* *
47887171 TTAATCAT-AATTTAGCATAA-
1 TTAAT-ATAAATATA-AATAAT
*
47887191 TTATTATTAAATATAATATAAT
1 TTAATA-TAAATATAA-ATAAT
*
47887213 TTAATA-AAA-ATATATAAT
1 TTAATATAAATATAAATAAT
47887231 TTAATA-AAAT
1 TTAATATAAAT
47887241 TCTTAATATT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
18 14 0.25
19 4 0.07
20 10 0.18
21 21 0.38
22 7 0.12
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (20 bp):
TTAATATAAATATAAATAAT
Found at i:47887349 original size:18 final size:18
Alignment explanation
Indices: 47887326--47887372 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
47887316 TTATTATTAA
47887326 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
47887344 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
47887362 AT-TAATATTAA
1 ATATAAT-TTAA
47887373 ATATTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:47887359 original size:82 final size:82
Alignment explanation
Indices: 47887273--47887423 Score: 184
Period size: 82 Copynumber: 1.8 Consensus size: 82
47887263 ATGAATTTTC
47887273 TAAAATCA-TAATA-TATAATACTATAAAATATAATTTA-ACATAATTA-TTATTAAATATAATT
1 TAAAATCATTAATATTA-AATACTATAAAAT-TAATTTAGA-ATAATTACTT-TTAAATATAATT
47887334 TAATAAAAATATATAATTTAA
62 TAATAAAAATATATAATTTAA
* * * * * *
47887355 TAAAATTATTAATATTAAATATTCTTATATTAATTTAGATTAATTACTTTTAAATATAATTTAAT
1 TAAAATCATTAATATTAAATACTATAAAATTAATTTAGAATAATTACTTTTAAATATAATTTAAT
47887420 AAAA
66 AAAA
47887424 TTCTTAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
82 40 0.68
83 17 0.29
84 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (82 bp):
TAAAATCATTAATATTAAATACTATAAAATTAATTTAGAATAATTACTTTTAAATATAATTTAAT
AAAAATATATAATTTAA
Found at i:47887376 original size:29 final size:29
Alignment explanation
Indices: 47887344--47887440 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 29
47887334 TAATAAAAAT
47887344 ATATAATTTAATAAAATTATTAATATTAA
1 ATATAATTTAATAAAATTATTAATATTAA
* * * * *
47887373 ATATTCTTATATTAATTTAGATTAATTACTTTTAA
1 ATA---TAAT-TTAA-TAAAATT-ATTAATATTAA
*
47887408 ATATAATTTAATAAAATTCTTAATATTAA
1 ATATAATTTAATAAAATTATTAATATTAA
47887437 ATAT
1 ATAT
47887441 TCTTATATGA
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
29 15 0.29
30 5 0.10
31 4 0.08
32 6 0.12
33 4 0.08
34 5 0.10
35 12 0.24
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
ATATAATTTAATAAAATTATTAATATTAA
Found at i:47888925 original size:43 final size:43
Alignment explanation
Indices: 47888877--47889007 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 43
47888867 AAAAACAAAT
* *
47888877 TAAAATTAAGTTTAATATTATGAATCAAAAGGTGAACACTTTA
1 TAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTGTA
* * *
47888920 TAAAATTAAAATTAAATTCAATATCATGAATCAAAAGCTCAACACTGTA
1 TAAAATT--AAGT---TT-AATATCATGAATCAAAAGGTGAACACTGTA
47888969 TAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACAC
1 TAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACAC
47889008 ATGATGAATG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
43 31 0.42
44 2 0.03
45 3 0.04
47 3 0.04
48 2 0.03
49 33 0.45
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.31
Consensus pattern (43 bp):
TAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTGTA
Found at i:47892153 original size:289 final size:291
Alignment explanation
Indices: 47891628--47892191 Score: 820
Period size: 289 Copynumber: 1.9 Consensus size: 291
47891618 GACGGTGCAG
* *
47891628 AGCTACATATTTCAATTCTTGTAGATCAGGATATAGTTGGTTCAAACTGAAACCATACGATTTTA
1 AGCTACATATTTCAATTCTTGCAAATCAGGATATAGTTGGTTCAAACTGAAACCATACGATTTTA
* * * *
47891693 TTAACAAAATAGAAAGTACTATATCATTTTATAAAATCATGGATATATCGTGGTTATTCTCCTCC
66 TTAACAAAATAGAAAGTACTATATCATTTTATAAAAGCATGGAAATATCCTAGTTATTCTCCTCC
47891758 ATAAACCACTAGAAAGATCAAACAAACCCTAATATATAAGCCCCATTGAACTACATTTCCCCTCA
131 ATAAACCACTAGAAAGATCAAACAAACCCTAATATATAAGCCCCATTGAACTACATTTCCCCTCA
** *
47891823 ATGATCCCCAATTGCCTTATTTTTGATGCAAAGTTGGGTCTACAACTAAAAACAGTTCATTACTG
196 ATGATCCCCAATTGCCCCATTTTTGATGCAAAGTTGGGTCTAAAACTAAAAACAGTTCATTACTG
47891888 TAGTTCACTAGCAGAACAACTGCTGCATTAT
261 TAGTTCACTAGCAGAACAACTGCTGCATTAT
* * * *
47891919 AGCTACATATTTCAATTCTTGCAAATCTGGATGTAGTTGGTTCTAAACTGCAACCATACGGTTTT
1 AGCTACATATTTCAATTCTTGCAAATCAGGATATAGTTGGTTC-AAACTGAAACCATACGATTTT
* *
47891984 ATTGACAAAATAGCAAGTACTATATCATTTTCA-AAAAGCATGGAAATATCCTAGTTA-T-T-CT
65 ATTAACAAAATAGAAAGTACTATATCATTTT-ATAAAAGCATGGAAATATCCTAGTTATTCTCCT
* *
47892045 CCATAAACCACTAGAAAGAAT-AAATAAATCCTAATATATAAGTCCCC-TTGAACTACATTTCCC
129 CCATAAACCACTAGAAAG-ATCAAACAAACCCTAATATATAAG-CCCCATTGAACTACATTTCCC
* * *
47892108 CTCAATGATCCACC-ATTGCCCCATTTTTGCTGCAAA-TTGGGGTCTAAAACTAGAAATAGTTCA
192 CTCAATGATCC-CCAATTGCCCCATTTTTGATGCAAAGTT-GGGTCTAAAACTAAAAACAGTTCA
* *
47892171 TTATTGTAGTTCACTTGCAGA
255 TTACTGTAGTTCACTAGCAGA
47892192 GCAGCTGGCT
Statistics
Matches: 245, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
288 2 0.01
289 125 0.51
290 9 0.04
291 40 0.16
292 68 0.28
293 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (291 bp):
AGCTACATATTTCAATTCTTGCAAATCAGGATATAGTTGGTTCAAACTGAAACCATACGATTTTA
TTAACAAAATAGAAAGTACTATATCATTTTATAAAAGCATGGAAATATCCTAGTTATTCTCCTCC
ATAAACCACTAGAAAGATCAAACAAACCCTAATATATAAGCCCCATTGAACTACATTTCCCCTCA
ATGATCCCCAATTGCCCCATTTTTGATGCAAAGTTGGGTCTAAAACTAAAAACAGTTCATTACTG
TAGTTCACTAGCAGAACAACTGCTGCATTAT
Found at i:47896662 original size:20 final size:21
Alignment explanation
Indices: 47896618--47896662 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
47896608 CGCAGGGGCG
* * *
47896618 GTGTTGCAACATTGGCCTGTA
1 GTGTTGCAACATCGGCATCTA
47896639 GTGTTGCAACATCGG-ATCTA
1 GTGTTGCAACATCGGCATCTA
47896659 GTGT
1 GTGT
47896663 CACGACTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (21 bp):
GTGTTGCAACATCGGCATCTA
Found at i:47917374 original size:8 final size:9
Alignment explanation
Indices: 47917353--47917378 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47917343 ATAAAAGGAG
47917353 TTTTTAATA
1 TTTTTAATA
47917362 TTTTTAATA
1 TTTTTAATA
47917371 TTTTTAAT
1 TTTTTAAT
47917379 TTAGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTAATA
Found at i:47920921 original size:19 final size:19
Alignment explanation
Indices: 47920891--47920932 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
47920881 ATCAAATAAA
47920891 AAAAATTAGAAAATTTTGGG
1 AAAAATTAGAAAATTTT-GG
47920911 AAAAATT-GAAAATTTTGG
1 AAAAATTAGAAAATTTTGG
47920929 AAAA
1 AAAA
47920933 CAGTGGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.29
Consensus pattern (19 bp):
AAAAATTAGAAAATTTTGG
Found at i:47922242 original size:80 final size:80
Alignment explanation
Indices: 47922144--47922384 Score: 410
Period size: 80 Copynumber: 3.0 Consensus size: 80
47922134 TCACATAAAA
* * *
47922144 TTTCCATATTATTCATGAATTCAATTTCATCTTACCTTAACTTATAAATTGATATTGAAAGAGTT
1 TTTCCATATGATTCATGAATTCAATATCATCTTACCTTAACTTATAAATTGATATTAAAAGAGTT
*
47922209 TTCATAACTATACCT
66 TTCATAACTATACCC
47922224 TTTCCATATGATTCATGAATTCAATATCATCTTACCTTAACTTATAAATTGATATTAAAAGAGTT
1 TTTCCATATGATTCATGAATTCAATATCATCTTACCTTAACTTATAAATTGATATTAAAAGAGTT
47922289 TTCATAACTATACCC
66 TTCATAACTATACCC
* * *
47922304 TTTCCATATGATTCATGAATTCAATATCATCTTATCTTAACTTATAAATTGATGTTAAAAGAGAT
1 TTTCCATATGATTCATGAATTCAATATCATCTTACCTTAACTTATAAATTGATATTAAAAGAGTT
*
47922369 TTCATAATTATACCC
66 TTCATAACTATACCC
47922384 T
1 T
47922385 GACAATCATT
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 153 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (80 bp):
TTTCCATATGATTCATGAATTCAATATCATCTTACCTTAACTTATAAATTGATATTAAAAGAGTT
TTCATAACTATACCC
Found at i:47922762 original size:20 final size:20
Alignment explanation
Indices: 47922729--47922848 Score: 114
Period size: 20 Copynumber: 6.0 Consensus size: 20
47922719 AGCATCGAGA
*
47922729 TGCATAACACAGGCACCAAAG
1 TGCA-AACAGAGGCACCAAAG
* * *
47922750 TGTAAACAGAGGCACGAATG
1 TGCAAACAGAGGCACCAAAG
** * *
47922770 TGCAGTCAGAGGCATCGAAG
1 TGCAAACAGAGGCACCAAAG
47922790 TGCAAACAGAGGCACCAAAG
1 TGCAAACAGAGGCACCAAAG
* * **
47922810 TGAAAACAAAGGCATTAAAG
1 TGCAAACAGAGGCACCAAAG
*
47922830 TACAAACAGAGGCACCAAA
1 TGCAAACAGAGGCACCAAA
47922849 CACAAATAGA
Statistics
Matches: 75, Mismatches: 24, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
20 72 0.96
21 3 0.04
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (20 bp):
TGCAAACAGAGGCACCAAAG
Found at i:47922840 original size:60 final size:61
Alignment explanation
Indices: 47922720--47922843 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 61
47922710 CACACCAAAA
* * * * **
47922720 GCATCGAGATGCATAACACAGGCACCAAAGTGTAAACAGAGGCACGAATGTGCAGTCAGAG
1 GCATCGAGATGCATAACACAGGCACCAAAGTGAAAACAAAGGCACGAAAGTACAAACAGAG
* **
47922781 GCATCGA-AGTGCA-AACAGAGGCACCAAAGTGAAAACAAAGGCATTAAAGTACAAACAGAG
1 GCATCGAGA-TGCATAACACAGGCACCAAAGTGAAAACAAAGGCACGAAAGTACAAACAGAG
47922841 GCA
1 GCA
47922844 CCAAACACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
60 42 0.79
61 11 0.21
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.11
Consensus pattern (61 bp):
GCATCGAGATGCATAACACAGGCACCAAAGTGAAAACAAAGGCACGAAAGTACAAACAGAG
Found at i:47929006 original size:173 final size:173
Alignment explanation
Indices: 47928717--47929069 Score: 609
Period size: 173 Copynumber: 2.0 Consensus size: 173
47928707 GGTAATGGTG
47928717 GCCAATTATAACCTTATATAATCATGCAACAGAGACAAGGTTTAGTGGAGAAATCAGATAATCCC
1 GCCAATTATAACCTTATATAATCATGCAACAGAGACAAGGTTTAGTGGAGAAATCAGATAATCCC
*
47928782 ACTAACACCCTTGATTCCAGTGATTAAACAACCTTAACAAGTTTTAAGTCTAATCATCTATAGTA
66 ACTAACACCCTTGATTCCAGTGATTAAACAACCTTAACAAGTTTTAAGTCTAATCATCTACAGTA
* *
47928847 GTCTAGTTTAGTTGTAATTAAATCTCAACTAAATCCCAACATA
131 GTCTAGTTCAGTTCTAATTAAATCTCAACTAAATCCCAACATA
* * *
47928890 GCCAATTATAACCTTATATACTCATGCAATAGAGACAAGGTTTAGTGGAGAAATTAGATAATCCC
1 GCCAATTATAACCTTATATAATCATGCAACAGAGACAAGGTTTAGTGGAGAAATCAGATAATCCC
*
47928955 ACTAACACCCTTGATTCCCGTGATTAAAC-ACACTTAACAAGTTTTAAGTCTAATCATCTACAGT
66 ACTAACACCCTTGATTCCAGTGATTAAACAAC-CTTAACAAGTTTTAAGTCTAATCATCTACAGT
*
47929019 AGTTTAGTTCAGTTCTAATTAAATCTCAACTAAATCCCAACATA
130 AGTCTAGTTCAGTTCTAATTAAATCTCAACTAAATCCCAACATA
*
47929063 GCTAATT
1 GCCAATT
47929070 GATTCATCTA
Statistics
Matches: 170, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 2 0.01
173 168 0.99
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (173 bp):
GCCAATTATAACCTTATATAATCATGCAACAGAGACAAGGTTTAGTGGAGAAATCAGATAATCCC
ACTAACACCCTTGATTCCAGTGATTAAACAACCTTAACAAGTTTTAAGTCTAATCATCTACAGTA
GTCTAGTTCAGTTCTAATTAAATCTCAACTAAATCCCAACATA
Found at i:47931019 original size:27 final size:27
Alignment explanation
Indices: 47930989--47931060 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
47930979 GCAAACTGGG
* *
47930989 GGTTCGCCAGTTGAGTTGTGAATTGGA
1 GGTTTGCCAGTTGAGTTGAGAATTGGA
** *
47931016 GGTTTGTGAGTTGAGTTGAGAATTGGG
1 GGTTTGCCAGTTGAGTTGAGAATTGGA
* *
47931043 GGTTTACCAGTTGTGTTG
1 GGTTTGCCAGTTGAGTTG
47931061 CGAACTAGGG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.17, C:0.07, G:0.39, T:0.38
Consensus pattern (27 bp):
GGTTTGCCAGTTGAGTTGAGAATTGGA
Found at i:47931071 original size:27 final size:27
Alignment explanation
Indices: 47931024--47931126 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
47931014 GAGGTTTGTG
* * *
47931024 AGTTGAGTTGAGAATTGGGGGTTTACC
1 AGTTGAGTTGCGAACTAGGGGTTTACC
* *
47931051 AGTTGTGTTGCGAACTAGGGG-TTATCA
1 AGTTGAGTTGCGAACTAGGGGTTTA-CC
* * *
47931078 AGTTAAGCTGCGAACTAGGGGTTTGCC
1 AGTTGAGTTGCGAACTAGGGGTTTACC
*
47931105 AGTTGAGTTGTGAACT-GGGGTT
1 AGTTGAGTTGCGAACTAGGGGTT
47931127 AACTTGCCAA
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
26 9 0.15
27 50 0.82
28 2 0.03
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (27 bp):
AGTTGAGTTGCGAACTAGGGGTTTACC
Found at i:47936618 original size:79 final size:81
Alignment explanation
Indices: 47936482--47936666 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
47936472 TTGAATGATG
*
47936482 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
47936546 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
47936561 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
47936623 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
47936641 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47936667 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:47936680 original size:40 final size:40
Alignment explanation
Indices: 47936483--47936666 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
47936473 TGAATGATGT
* * * *
47936483 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
47936523 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
47936563 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47936601 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47936642 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47936667 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:47936688 original size:79 final size:79
Alignment explanation
Indices: 47936483--47936699 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
47936473 TGAATGATGT
** * * * **
47936483 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
47936546 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
47936563 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
47936628 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
47936642 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
47936700 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:47945805 original size:25 final size:26
Alignment explanation
Indices: 47945726--47945805 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 26
47945716 AAACTCTTCC
* * * *
47945726 GAGCTGAATAGCAGTAAGCTCCT-CT
1 GAGCTGAATAACGGTAAGCTCATACA
47945751 GAGCTGAATAACGGTAAGCTCATACA
1 GAGCTGAATAACGGTAAGCTCATACA
* *
47945777 -AGCTGAGTATCGGTAAGCTCATA-A
1 GAGCTGAATAACGGTAAGCTCATACA
47945801 GAGCT
1 GAGCT
47945806 AAAATCGGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (26 bp):
GAGCTGAATAACGGTAAGCTCATACA
Found at i:47965310 original size:8 final size:8
Alignment explanation
Indices: 47965297--47965321 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
47965287 CCTGGAAAAA
47965297 GATCATGG
1 GATCATGG
47965305 GATCATGG
1 GATCATGG
47965313 GATCATGG
1 GATCATGG
47965321 G
1 G
47965322 TCTACCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (8 bp):
GATCATGG
Found at i:47970870 original size:33 final size:33
Alignment explanation
Indices: 47970824--47970890 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
47970814 ACACTGTTTC
*
47970824 TTCTATGAGAAACTAGACTCAATAATATTTATT
1 TTCTATGAGAAACTAGAATCAATAATATTTATT
*
47970857 TTCTATGATAAACTAGAATCAATAATATTTATT
1 TTCTATGAGAAACTAGAATCAATAATATTTATT
47970890 T
1 T
47970891 ACATATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (33 bp):
TTCTATGAGAAACTAGAATCAATAATATTTATT
Found at i:47971819 original size:30 final size:31
Alignment explanation
Indices: 47971752--47971810 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
47971742 CACCCTTAAA
** *
47971752 ATATTTACACTATTGGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
47971783 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
47971811 GAGTATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:47971999 original size:23 final size:23
Alignment explanation
Indices: 47971968--47972016 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
47971958 ACCTACTTTC
* *
47971968 TTACTGTAGTAATTTTCGGGGTA
1 TTACGGTAGTAATTTTCGGGATA
47971991 TTACGGTAGTAATTTTCGGGATA
1 TTACGGTAGTAATTTTCGGGATA
47972014 TTA
1 TTA
47972017 GATTAAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.43
Consensus pattern (23 bp):
TTACGGTAGTAATTTTCGGGATA
Found at i:47974246 original size:40 final size:40
Alignment explanation
Indices: 47974215--47974504 Score: 422
Period size: 40 Copynumber: 7.3 Consensus size: 40
47974205 GGACTAAGAT
* * * *
47974215 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
47974255 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
47974295 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
47974335 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
47974375 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
47974415 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
47974455 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
47974494 CCGAAGGCATT
1 CCGAAGGCATT
47974505 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.14
40 198 0.84
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:47974299 original size:80 final size:80
Alignment explanation
Indices: 47974162--47974504 Score: 424
Period size: 80 Copynumber: 4.3 Consensus size: 80
47974152 TTGAATGCTG
* * * * * * **
47974162 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
47974225 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
47974241 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
47974306 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
47974322 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
47974387 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
47974402 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
47974466 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
47974481 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
47974505 TGAACGAGGA
Statistics
Matches: 236, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.15
80 191 0.81
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:47974378 original size:120 final size:118
Alignment explanation
Indices: 47974162--47974506 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 118
47974152 TTGAATGCTG
* * * * * * **
47974162 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* * * *
47974225 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TTGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
47974282 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* * *
47974347 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
47974402 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
47974467 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
66 TGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
47974507 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.19
120 151 0.76
121 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:47982273 original size:40 final size:39
Alignment explanation
Indices: 47982242--47982451 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
47982232 GGACTAAGAT
* *
47982242 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
47982282 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
47982322 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
47982362 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
47982402 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
47982441 CCGAAGGCATT
1 CCGAAGGCATT
47982452 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:47982405 original size:120 final size:120
Alignment explanation
Indices: 47982189--47982451 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
47982179 TTGAATGCTG
* *
47982189 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
47982253 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
47982309 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
47982372 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
47982428 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47982452 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:47982471 original size:79 final size:80
Alignment explanation
Indices: 47982190--47982486 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
47982180 TGAATGCTGT
* ** * * * **
47982190 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
47982253 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
47982270 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
47982334 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
47982350 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
47982414 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
47982429 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
47982487 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:47989883 original size:73 final size:74
Alignment explanation
Indices: 47989788--47989934 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 74
47989778 TGAAATGTGG
* *
47989788 TTAATTGTGCCATGTATATAGGATGCTCATTTTGCAAATGTTTGGGCATGTTTTAGTACTTTGGT
1 TTAATTGTGCCATATATATAGGATGCTCATTTTGCAAATCTTTGGGCATGTTTTAGTACTTTGGT
47989853 TGTAAATAT
66 TGTAAATAT
*
47989862 TTAATTGTGGCA-ATATATAGGATGCTCATTTTGCAAATCTTTGGGCATGTTTTAGTACTTTGGT
1 TTAATTGTGCCATATATATAGGATGCTCATTTTGCAAATCTTTGGGCATGTTTTAGTACTTTGGT
*
47989926 TGTATATAT
66 TGTAAATAT
47989935 ACTTTTGTGC
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 58 0.84
74 11 0.16
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (74 bp):
TTAATTGTGCCATATATATAGGATGCTCATTTTGCAAATCTTTGGGCATGTTTTAGTACTTTGGT
TGTAAATAT
Found at i:48003797 original size:13 final size:13
Alignment explanation
Indices: 48003779--48003803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48003769 TCAAAGCTTA
48003779 AATGAATTTGCAC
1 AATGAATTTGCAC
48003792 AATGAATTTGCA
1 AATGAATTTGCA
48003804 TTATTTTCCA
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGAATTTGCAC
Found at i:48013723 original size:13 final size:13
Alignment explanation
Indices: 48013707--48013771 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
48013697 TTTAAACCAA
48013707 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
48013720 ACTTCTC-AAATC
1 ACTTTTCAAAAGC
* *
48013732 ACTTTTTAACAGC
1 ACTTTTCAAAAGC
48013745 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
48013758 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
48013771 A
1 A
48013772 TTGAAGAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
12 9 0.21
13 33 0.79
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:48013735 original size:25 final size:26
Alignment explanation
Indices: 48013707--48013771 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
48013697 TTTAAACCAA
*
48013707 ACTTTTCAAAAGCACTTCTC-AAATC
1 ACTTTTCAAAAGCACTTCTCAAAAGC
* * *
48013732 ACTTTTTAACAGCACTTTTCAAAAGC
1 ACTTTTCAAAAGCACTTCTCAAAAGC
*
48013758 ATTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
48013772 TTGAAGAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 17 0.53
26 15 0.47
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGC
Found at i:48017612 original size:17 final size:18
Alignment explanation
Indices: 48017590--48017624 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48017580 AGATTCTATG
*
48017590 CAAGCT-CCTTTGCGAGC
1 CAAGCTCCCTATGCGAGC
48017607 CAAGCTCCCTATGCGAGC
1 CAAGCTCCCTATGCGAGC
48017625 TCTCTATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (18 bp):
CAAGCTCCCTATGCGAGC
Found at i:48020322 original size:10 final size:11
Alignment explanation
Indices: 48020298--48020326 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
48020288 AGAAGGTTTG
48020298 AATAAATGAAA
1 AATAAATGAAA
48020309 AATAAATG-AA
1 AATAAATGAAA
48020319 AATAAATG
1 AATAAATG
48020327 GGTGAAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (11 bp):
AATAAATGAAA
Found at i:48023110 original size:17 final size:19
Alignment explanation
Indices: 48023071--48023110 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
48023061 TATTTGTTGT
48023071 ACTA-AAAAATTAAACTGA
1 ACTAGAAAAATTAAACTGA
48023089 ACTAGAAAAA-TAAACT-A
1 ACTAGAAAAATTAAACTGA
48023106 ACTAG
1 ACTAG
48023111 TACTTGGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.20
Consensus pattern (19 bp):
ACTAGAAAAATTAAACTGA
Found at i:48030017 original size:42 final size:41
Alignment explanation
Indices: 48029905--48030017 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 41
48029895 GGTGTGACTT
* **
48029905 CATGTAAGACCATATCTGGGACAATTGCATCGTATATGATTT
1 CATGTAAGACCATATCTGGGA-AATGGCATCGTATATGATAA
* * * *
48029947 CGTGTAAGACCCTCTCTGGGAAAGTGGCATCGATATATTATAA
1 CATGTAAGACCATATCTGGGAAA-TGGCATCG-TATATGATAA
*
48029990 CATGTAAGACCATATCTGGGATATGGCA
1 CATGTAAGACCATATCTGGGAAATGGCA
48030018 GTGTATGAGC
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 2 0.03
42 30 0.52
43 26 0.45
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (41 bp):
CATGTAAGACCATATCTGGGAAATGGCATCGTATATGATAA
Found at i:48030868 original size:69 final size:69
Alignment explanation
Indices: 48030790--48031014 Score: 288
Period size: 69 Copynumber: 3.3 Consensus size: 69
48030780 GTTTTGCATG
* *
48030790 TATTAATGCTGTCCAAATTGGTGCTTAAATGCTATCCATTTTTGGTACAAATCTATGTTGTCCGA
1 TATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCTATGTTGTCCGA
48030855 ATGT
66 ATGT
* * * * * * *
48030859 TCTTAATGCTATCCAAATTAGTGCTTAAATGTTGTCCATTTTTTGTACAAATTTGTGTTGTCCGT
1 TATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCTATGTTGTCCGA
48030924 ATGT
66 ATGT
* * * * * *
48030928 TAGTAATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAGTCAATGCTGTCCAA
1 TATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCTATGTTGTCCGA
48030993 ATGT
66 ATGT
* * *
48030997 TTTTACTCCTGTCCAAAT
1 TATTAATGCTGTCCAAAT
48031015 ATTTGTGAAT
Statistics
Matches: 129, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 129 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (69 bp):
TATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCTATGTTGTCCGA
ATGT
Found at i:48036850 original size:154 final size:153
Alignment explanation
Indices: 48036665--48037622 Score: 1286
Period size: 154 Copynumber: 6.3 Consensus size: 153
48036655 TTTAGTGTGT
* * *
48036665 TTTTTATTGAAAGTAATAAAATCCGGTAAAAAGTACGAACAAAGGGCCGAAATAAGGTTTTTTTT
1 TTTTTATTGAAAGTAATAAAATCGGGGAAAAAATACGAACAAAGGGCCGAAATAAGG-TTTTTTT
*
48036730 TAAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAA
65 TAAATTTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
* * *
48036795 AATTATAAAAT-TTAAAATATTATA
129 AATAATAAAATATGAAAATAATATA
* *
48036819 -TTTT-TTAAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCCGAAATAATGGTTTTCT
1 TTTTTATTGAAAGTAATAAAA-TCGGGGAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTT
* * * * *
48036882 GTAAATTTATTTCAAAAACACAGTAAATTAATATATTTCAAACATAATGTACTAAAATAATGTAA
64 TTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
48036947 AATAATAAAATACGAAAATAATATA
129 AATAATAAAATATGAAAATAATATA
* * * * *
48036972 TTTTTATTGAAATTAATAAAACCTGGG--AAAA-A--AATAAATGGCCGAAATAAGGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCGGGGAAAAAATACGAACAAAGGGCCGAAATAAGG-TTTTTTT
*
48037032 TAAATTTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATTTACTAAAATAATGT-A
65 TAAA-TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
48037096 AATAATAAAAT-TAGAAAATAATATA
129 AATAATAAAATAT-GAAAATAATATA
*
48037121 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGG-TTTTTT
1 TTTTTATTGAAAGTAATAAAATC-GGGGAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
* * * * *
48037185 TAAATTTATTTAAAAAATACATTAAATTAATACATTTCAAATATAATGTACTCAAATAATGTAAA
65 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
48037250 ATAATAAAATATGAAAATAATATA
130 ATAATAAAATATGAAAATAATATA
** *
48037274 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTT
1 TTTTTATTGAAAGTAATAAAATC-GG-GGAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTT
**
48037339 TTT-AATTTAAATAAAAAA-ACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
63 TTTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
48037402 AAATAATAAAATATGAAAATAATATA
128 AAATAATAAAATATGAAAATAATATA
** *
48037428 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTT
1 TTTTTATTGAAAGTAATAAAATC-GG-GGAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTT
**
48037493 TTT-AATTTAAATAAAAAA-ACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
63 TTTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
*
48037556 AAATAATAAAAT-TAGAAAATAGTATA
128 AAATAATAAAATAT-GAAAATAATATA
* **
48037582 -TTTT-TTAAAAGTAATAAAATCTAGGAAAAAATACGAACAAA
1 TTTTTATTGAAAGTAATAAAATCGGGGAAAAAATACGAACAAA
48037623 TTGCCAAAAT
Statistics
Matches: 729, Mismatches: 55, Indels: 44
0.88 0.07 0.05
Matches are distributed among these distances:
148 2 0.00
149 70 0.10
150 71 0.10
151 1 0.00
152 148 0.20
153 127 0.17
154 257 0.35
155 46 0.06
156 7 0.01
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (153 bp):
TTTTTATTGAAAGTAATAAAATCGGGGAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTT
AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATATGAAAATAATATA
Found at i:48037255 original size:302 final size:302
Alignment explanation
Indices: 48036665--48037612 Score: 1301
Period size: 302 Copynumber: 3.1 Consensus size: 302
48036655 TTTAGTGTGT
* * * *
48036665 TTTTTATTGAAAGTAATAAAATCCGGTAAAAAGTACGA-ACAAAGGGCCGAAATAAGGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAA--A--ATA-AAATGGCCGAAATAAGGATTTTTT
*
48036729 TTAAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTA
61 TTAAATTTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
* * * * *
48036794 AAATTATAAAATT-TAAAATATTATA-TTTT-TTAAAAGTAATAAAAT-TCGGGGAAAAAATACG
125 AAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCT-GGGAAAAAAATACG
* * * * *
48036855 AACAAAGGGCCGAAATAATGGTTTTCTGTAAATTTATTTCAAAAACACAGTAAATTAATATATTT
189 AACAAAGGGCCGAAATAAGGGTTTT-TTTAAATTTATTT-AAAAAAACACTAAATTAATACATTT
48036920 CAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATA
252 CAAACATAATGTACTAAAATAATGTAAAATAATAAAATA-GAAAATAATATA
* *
48036972 TTTTTATTGAAATTAATAAAACCTGGGAAAAAAAT-AAATGGCCGAAATAAGGATTTTTTTTAAA
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATAAAATGGCCGAAATAAGGATTTTTTTTAAA
*
48037036 TTTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATTTACTAAAATAATGT-AAATA
66 -TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
48037100 ATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAA
130 ATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAA
* *
48037165 GGGCCGAAATAA-GGTTTTTTTAAATTTATTTAAAAAATACATTAAATTAATACATTTCAAATAT
195 GGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAA-ACACTAAATTAATACATTTCAAACAT
*
48037229 AATGTACTCAAATAATGTAAAATAATAAAATATGAAAATAATATA
259 AATGTACTAAAATAATGTAAAATAATAAAATA-GAAAATAATATA
* *
48037274 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGG-GAAAAAAAT----A-AAATGGCCGAAATAAGGATTTTT
**
48037339 TTT-AATTTAAATAAAAAA-ACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
60 TTTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
*
48037402 AAATAATAAAA-TATGAAAATAATATATTTTTATTGAAAGTAATAAAATCTGGAAAAAAAAATAC
125 AAATAATAAAATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATCTGG-GAAAAAAATAC
* * ** *
48037466 GAACAAATGGCCGAAATAAGGGTTTTTTTTAATTTAAATAAAAAAACACTAAATGAATACATTTC
188 GAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAAACACTAAATTAATACATTTC
*
48037531 AAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATA
253 AAACATAATGTACTAAAATAATGTAAAATAATAAAA-TAGAAAATAATATA
* *
48037582 -TTTT-TTAAAAGTAATAAAATCTAGGAAAAAA
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAA
48037613 TACGAACAAA
Statistics
Matches: 582, Mismatches: 40, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
301 17 0.03
302 188 0.32
303 26 0.04
304 46 0.08
305 8 0.01
306 63 0.11
307 92 0.16
308 93 0.16
309 49 0.08
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (302 bp):
TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATAAAATGGCCGAAATAAGGATTTTTTTTAAA
TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
TAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAG
GGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAAACACTAAATTAATACATTTCAAACATAA
TGTACTAAAATAATGTAAAATAATAAAATAGAAAATAATATA
Done.