Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 146 of 290
Found at i:46505524 original size:24 final size:25
Alignment explanation
Indices: 46505497--46505548 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
46505487 ACCTAGCCTC
46505497 TTTTAAT-AACTGGAGAAAAGCCCT
1 TTTTAATAAACTGGAGAAAAGCCCT
* * *
46505521 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGAGAAAAGCCCT
46505546 TTT
1 TTT
46505549 CGGTAAACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGAGAAAAGCCCT
Found at i:46505532 original size:25 final size:25
Alignment explanation
Indices: 46505504--46505573 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
46505494 CTCTTTTAAT
* * *
46505504 AACTGGAGAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
46505529 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
46505554 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46505574 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:46505806 original size:27 final size:27
Alignment explanation
Indices: 46505777--46506022 Score: 332
Period size: 27 Copynumber: 9.1 Consensus size: 27
46505767 GGGCAAAATG
* * * *
46505777 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
46505804 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
46505831 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
46505858 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
46505885 GTAATTCTACCCTA-TAGGGATATTTCG
1 GTAATTCTACCCTACAAGGG-TATTTCA
* * *
46505912 GTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
46505939 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
46505966 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
46505993 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
46506020 GTA
1 GTA
46506023 TTTTACGAAT
Statistics
Matches: 191, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 185 0.97
28 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:46506024 original size:81 final size:81
Alignment explanation
Indices: 46505780--46506025 Score: 368
Period size: 81 Copynumber: 3.0 Consensus size: 81
46505770 CAAAATGGTA
* * *
46505780 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
46505844 ACAAGGGTATTTCAGT
66 ACAAGGGTATTTCAGT
* * * * * *
46505860 AATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGATATTTCGGTAATTCTATCCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
* *
46505925 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCAGT
* *
46505941 ATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
46506006 ACAAGGGTATTTCAGT
66 ACAAGGGTATTTCAGT
46506022 ATTT
1 ATTT
46506026 TACGAATCGA
Statistics
Matches: 144, Mismatches: 21, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
80 3 0.02
81 141 0.98
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCAGT
Found at i:46506091 original size:80 final size:80
Alignment explanation
Indices: 46506007--46506213 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
46505997 TTCTACCCTA
* * * * ** * *
46506007 CAAGGGTATTTCAGT-ATTTTACGAATCGAGGGT-TTTTCGATAATTTCACAAATTAGGGGTATT
1 CAAGGGTATTT-AGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTCACAAACCAAGGGTAAT
46506070 TTGGTAATTTTACAAAC
64 TTGGTAATTTTACAAAC
* * *
46506087 CAAGGGTATTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTAATTT
1 CAAGGGTATTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTAATTT
46506152 GGTAATTTTACAAAC
66 GGTAATTTTACAAAC
* * * **
46506167 TAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 CAAGGGTA-TTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
46506214 TGTAAATCAA
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 66 0.60
81 42 0.38
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTAATTT
GGTAATTTTACAAAC
Found at i:46506093 original size:27 final size:27
Alignment explanation
Indices: 46506063--46506228 Score: 226
Period size: 27 Copynumber: 6.2 Consensus size: 27
46506053 CACAAATTAG
46506063 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
46506090 GGGTA-TTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
46506116 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
46506143 GGGTAATTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
46506170 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* ** *
46506197 GGGTATTTTAGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
46506224 GGGTA
1 GGGTA
46506229 AAACGATAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 25 0.20
27 99 0.80
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:46506212 original size:81 final size:80
Alignment explanation
Indices: 46506063--46506229 Score: 262
Period size: 81 Copynumber: 2.1 Consensus size: 80
46506053 CACAAATTAG
*
46506063 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGGTAATTTTATAAACCAAGGGTATTTTAGT
1 GGGTAATTTGGTAATTTTACAAACCAAGGGTATTTGGTAATTTTATAAACCAAGGGTATTTTAGT
46506128 AATTTTACAAACCAA
66 AATTTTACAAACCAA
* * *
46506143 GGGTAATTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGGTAATTTGGTAATTTTACAAACCAAGGGTA-TTTGGTAATTTTATAAACCAAGGGTATTTTAG
** *
46506208 TAATTTTGTAAATCAA
65 TAATTTTACAAACCAA
46506224 GGGTAA
1 GGGTAA
46506230 AACGATAATT
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 29 0.37
81 50 0.63
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (80 bp):
GGGTAATTTGGTAATTTTACAAACCAAGGGTATTTGGTAATTTTATAAACCAAGGGTATTTTAGT
AATTTTACAAACCAA
Found at i:46506238 original size:27 final size:27
Alignment explanation
Indices: 46506207--46506517 Score: 361
Period size: 27 Copynumber: 11.5 Consensus size: 27
46506197 GGGTATTTTA
* * *
46506207 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
46506234 ATAATTCTATAAATCGAGGATAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
46506261 GTAATTCTGTAAATCGAGCGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * * * **
46506288 ATAATTTTGTATATCAAGGGTAAAATT
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
46506315 GTATTTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
46506342 GTAATTTTATAAATCGAGGGTAAAACT
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
46506369 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
46506396 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
46506423 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
46506450 GTAATTCTATAAATAGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
46506477 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
46506504 GCAATTCTGTAAAT
1 GTAATTCTATAAAT
46506518 TGGGGCTACT
Statistics
Matches: 239, Mismatches: 45, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 239 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:46506263 original size:81 final size:81
Alignment explanation
Indices: 46506097--46506501 Score: 404
Period size: 81 Copynumber: 5.0 Consensus size: 81
46506087 CAAGGGTATT
* * *** ** * ** *
46506097 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTAATTTGGTAATTTTA
1 TGGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTA
* * ***
46506162 CAAA-CTAGGGGTATTT
66 TAAATCGA-GGGTAAAA
* * * *** * *
46506178 TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTA
1 TGGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTA
*
46506243 TAAATCGAGGATAAAA
66 TAAATCGAGGGTAAAA
* * * * * * *
46506259 TGGTAATTCTGTAAATCGAGCGTAAAA-CGATAATTTTGTATATCAAGGGTAAAATTGTATTTCT
1 TGGTAATTTTATAAATCGAGGGTAAAATAG-TAATTTTGTAAATCAAGGGTAAAATGGTAATTCT
46506323 ATAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
*
46506340 TGGTAATTTTATAAATCGAGGGTAAAACT-GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCT
1 TGGTAATTTTATAAATCGAGGGTAAAA-TAGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCT
46506404 ATAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* * * *
46506421 CGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAAT-AGAGGGTAAAATGGTAATTCT
1 TGGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCA-AGGGTAAAATGGTAATTCT
*
46506485 GTAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
46506502 CGGCAATTCT
Statistics
Matches: 276, Mismatches: 42, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
80 1 0.00
81 272 0.99
82 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (81 bp):
TGGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:46506502 original size:81 final size:81
Alignment explanation
Indices: 46506206--46506509 Score: 423
Period size: 81 Copynumber: 3.8 Consensus size: 81
46506196 AGGGTATTTT
* * * * * *
46506206 AGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGATAAAATGGTAATTCTGT
1 AGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAT
*
46506271 AAATCGAGCGTAAAAC
66 AAATCGAGGGTAAAAC
* * * *
46506287 -GATAATTTTGTATATCAAGGGTAAAATTGTATTTCTATAAATCGAGGGTAAAATGGTAATTTTA
1 AG-TAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTA
46506351 TAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* *
46506368 TGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAT
1 AGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAT
46506433 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * *
46506449 AGTAATTCTATAAAT-AGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGCAATT
1 AGTAATTTTGTAAATCA-AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATT
46506510 CTGTAAATTG
Statistics
Matches: 200, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.00
81 198 0.99
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (81 bp):
AGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAT
AAATCGAGGGTAAAAC
Found at i:46506562 original size:27 final size:27
Alignment explanation
Indices: 46506532--46506673 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
46506522 GCTACTTTGA
* *
46506532 TAATTTTACAAGTCGATGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* *
46506559 TAATTTTAC-AATCGACGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAG
* * *
46506585 TAATTTTATAAACCGGGGGTATTTTC-G
1 TAATTTTACAAATCGAGGGTA-TTTCAG
* * *
46506612 TAATTTAACAAGTCGAAGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
*
46506639 TAATTTTACAAATCGAGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAG
46506666 TAATTTTA
1 TAATTTTA
46506674 GTAAACTAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.27
27 65 0.68
28 4 0.04
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:46512170 original size:46 final size:46
Alignment explanation
Indices: 46512117--46512210 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
46512107 TAGGCATACA
46512117 TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
1 TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
46512163 TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
1 TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
46512209 TA
1 TA
46512211 CCAAGTATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.37
Consensus pattern (46 bp):
TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
Found at i:46512660 original size:53 final size:55
Alignment explanation
Indices: 46512597--46512737 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 55
46512587 TTTTAAACTT
*
46512597 ACCATTGCCATGTCTTGACATGGTCTTACGTG-GTAACCTTGCCTTAT-G-AATTC
1 ACCATTGCCATGTCTTGACATGGTCTTACATGAG-AACCTTGCCTTATAGTAATTC
* * * * * *
46512650 ACCATTGCCATGCCTTGGCATGGTCTTACATGAGATCTTTGCCTTATAGTAGTTT
1 ACCATTGCCATGTCTTGACATGGTCTTACATGAGAACCTTGCCTTATAGTAATTC
* * *
46512705 ATCAATACCATGTCTTGACATGGTCTTACATGA
1 ACCATTGCCATGTCTTGACATGGTCTTACATGA
46512738 TTTCCTTGTC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
53 40 0.55
54 2 0.03
55 31 0.42
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (55 bp):
ACCATTGCCATGTCTTGACATGGTCTTACATGAGAACCTTGCCTTATAGTAATTC
Found at i:46525187 original size:3 final size:3
Alignment explanation
Indices: 46525138--46525168 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
46525128 TCCTATCTTT
46525138 TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46525169 TTCATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:46528055 original size:13 final size:13
Alignment explanation
Indices: 46528037--46528065 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46528027 TTTAGTTTAA
46528037 TTAGTTAATTAGT
1 TTAGTTAATTAGT
46528050 TTAGTTAATTAGT
1 TTAGTTAATTAGT
46528063 TTA
1 TTA
46528066 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:46541223 original size:43 final size:43
Alignment explanation
Indices: 46541184--46541282 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
46541174 GAAAAGGGTT
* * * * *
46541184 TAGCCCGGATGGGTAATTCGTTGATCTCAATTTAGAAAGGAAC
1 TAGCCCGAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
*
46541227 TAGCCCAAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
1 TAGCCCGAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
46541270 TAGCCCGAACGGG
1 TAGCCCGAACGGG
46541283 GTTCCTTAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (43 bp):
TAGCCCGAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
Found at i:46560252 original size:28 final size:28
Alignment explanation
Indices: 46560221--46560290 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
46560211 TATGGTACTC
* *
46560221 AGTGTACGAAATATTGAGAATGGCACCT
1 AGTGTGCGAAATATTGAGAATGACACCT
* *
46560249 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACCT
*
46560277 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
46560291 CAAATGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACCT
Found at i:46567150 original size:28 final size:28
Alignment explanation
Indices: 46567118--46567180 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
46567108 TATGGTACTC
*
46567118 AGTGTACGAAATATTGAGAACGGCACCT
1 AGTGTACGAAATATTGAGAACGACACCT
* * * *
46567146 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTACGAAATATTGAGAACGACACCT
46567174 AGTGTAC
1 AGTGTAC
46567181 AACATATCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (28 bp):
AGTGTACGAAATATTGAGAACGACACCT
Found at i:46567364 original size:44 final size:43
Alignment explanation
Indices: 46567299--46567427 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
46567289 TTTATAATGG
** * *
46567299 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTG-A-AA
* * *
46567344 T-ATTATCGGGCTTCAGGCCTAGTAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAAA
*
46567387 TGATATCGGGCTTCAAGCCTAGCAAGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAA
46567428 TGAGTTCAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
42 12 0.17
43 25 0.36
44 24 0.34
45 9 0.13
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAAA
Found at i:46567503 original size:40 final size:40
Alignment explanation
Indices: 46567404--46567508 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
46567394 GGGCTTCAAG
* * * *
46567404 CCTAGCAAGCGAAATGCCGGTGAATGAGTTCAGATTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGATTTAAAA
* *** * * *
46567445 TCTAGCAGGCTTCGTGCCGTTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGATTTAAAA
46567485 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
46567509 TTGATAAAAG
Statistics
Matches: 48, Mismatches: 16, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
40 33 0.69
41 15 0.31
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGATTTAAAA
Found at i:46580173 original size:9 final size:9
Alignment explanation
Indices: 46580159--46580207 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
46580149 AACTAAAATG
46580159 TTGAGAGAA
1 TTGAGAGAA
46580168 TTGAGAGAA
1 TTGAGAGAA
46580177 -TGA-ATGAA
1 TTGAGA-GAA
46580185 TTGAGAGAA
1 TTGAGAGAA
46580194 TT-AGGAGAA
1 TTGA-GAGAA
46580203 -TGAGA
1 TTGAGA
46580208 TTTGAATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 1 0.03
8 10 0.29
9 23 0.66
10 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:46588817 original size:24 final size:24
Alignment explanation
Indices: 46588785--46588837 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
46588775 AAGTCTGTCA
*
46588785 GGAGAGGATTTATGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
46588809 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
46588833 GGAGA
1 GGAGA
46588838 ACAGTGTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.32, C:0.04, G:0.42, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:46590289 original size:27 final size:26
Alignment explanation
Indices: 46590249--46590359 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
46590239 AGGAAGCATC
* *
46590249 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
*
46590276 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
46590303 CTGGTGGCTCTGCAACGATTATCTATT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* * * *
46590330 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTATT
46590356 CTGG
1 CTGG
46590360 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
26 14 0.20
27 55 0.77
28 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:46590341 original size:54 final size:53
Alignment explanation
Indices: 46590249--46590359 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
46590239 AGGAAGCATC
* * *
46590249 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCAACAATTATCTAATCTAGTGACTCTGCCACAT-TATCTGTT
* * * *
46590303 CTGGTGGCTCTGCAACGATTATCTATTCTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCAACAATTATCTAATCTAGTGACTCTGCCACATTATCTGTT
46590356 CTGG
1 CTGG
46590360 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCAACAATTATCTAATCTAGTGACTCTGCCACATTATCTGTT
Found at i:46596616 original size:24 final size:24
Alignment explanation
Indices: 46596584--46596636 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
46596574 AAGTCTATCA
46596584 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
46596608 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
46596632 GGAGA
1 GGAGA
46596637 ACAATGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:46598108 original size:26 final size:27
Alignment explanation
Indices: 46598028--46598111 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
46598018 AGGAAGCGTC
* *
46598028 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
*
46598055 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
*
46598082 CTGGTGGCTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
46598108 CTGG
1 CTGG
46598112 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:46603295 original size:13 final size:13
Alignment explanation
Indices: 46603277--46603301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46603267 CTATGACAAG
46603277 ATTACTTCAAAAC
1 ATTACTTCAAAAC
46603290 ATTACTTCAAAA
1 ATTACTTCAAAA
46603302 GGATGTTAAG
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:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTACTTCAAAAC
Found at i:46610448 original size:48 final size:48
Alignment explanation
Indices: 46610372--46610468 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
46610362 ATCACTGATA
*
46610372 CCTTTTCTATCTTTGATGTTACTGTGAATGCATTAATTGACCCTGGGT
1 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
46610420 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
1 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
46610468 C
1 C
46610469 AGCACAATCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (48 bp):
CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
Found at i:46616084 original size:44 final size:42
Alignment explanation
Indices: 46616019--46616173 Score: 138
Period size: 44 Copynumber: 3.7 Consensus size: 42
46616009 TGTGATTTCG
* *
46616019 TGTAAGACCACT-TCTAAGACATTGGCATCGAT-TTGAGATATACA
1 TGTAAGACCA-TGTCTGAGACATTGGCATC-ATATT-TGAT-TACA
* * * *
46616063 TGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTTCG
1 TGTAAGACCATGTCTGAGACATTGGCATCATATTTGATTACA
* * *
46616105 T-TAAGACCCTGTCTGAGACAGTGGCATCAATATTTCATTACA
1 TGTAAGACCATGTCTGAGACATTGGCATC-ATATTTGATTACA
* *
46616147 TGTAAGACCACGTCTGGGAC-TTGGCAT
1 TGTAAGACCATGTCTGAGACATTGGCAT
46616174 TGTACAAGTT
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
41 23 0.26
42 20 0.22
43 21 0.23
44 26 0.29
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGAGACATTGGCATCATATTTGATTACA
Found at i:46616118 original size:41 final size:43
Alignment explanation
Indices: 46616059--46616166 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 43
46616049 ATTTGAGATA
* *
46616059 TACATGTAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGAT
1 TACATGTAAGACCCTGTCTGGGACAGT-GGCATCAATATTTCAT
* * *
46616101 TTCGT-TAAGACCCTGTCTGAGACAGTGGCATCAATATTTCAT
1 TACATGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTCAT
46616143 TACATGTAAGACCAC-GTCTGGGAC
1 TACATGTAAGACC-CTGTCTGGGAC
46616167 TTGGCATTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
41 23 0.43
42 15 0.28
43 15 0.28
44 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
TACATGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTCAT
Found at i:46616162 original size:84 final size:86
Alignment explanation
Indices: 46616006--46616166 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 86
46615996 AGGATTTTCG
* * *
46616006 ATATGTGATTTCGTGTAAGACCACTTCTAAGACATTGGCATCGATTTGAGATATACATGTAAGAC
1 ATATGTGATTTCGTGTAAGACCACTTCTAAGACAGTGGCATCAATTTGACATATACATGTAAGAC
*
46616071 CATGTCTGGGACATCGGCATC
66 CACGTCTGGGACATCGGCATC
* * *
46616092 ATATTTGATTTCGT-TAAGACC-CTGTCTGAGACAGTGGCATCAATATT-TCAT-TACATGTAAG
1 ATATGTGATTTCGTGTAAGACCACT-TCTAAGACAGTGGCATCAAT-TTGACATATACATGTAAG
46616153 ACCACGTCTGGGAC
64 ACCACGTCTGGGAC
46616167 TTGGCATTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
84 25 0.38
85 26 0.39
86 15 0.23
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (86 bp):
ATATGTGATTTCGTGTAAGACCACTTCTAAGACAGTGGCATCAATTTGACATATACATGTAAGAC
CACGTCTGGGACATCGGCATC
Found at i:46628306 original size:18 final size:18
Alignment explanation
Indices: 46628283--46628329 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
46628273 AGGATTGCAA
* *
46628283 GTTTCCATTTTCGTTTTC
1 GTTTCCATTTTCATTTCC
*
46628301 GTTTCCATTTCCATTTCC
1 GTTTCCATTTTCATTTCC
*
46628319 ATTTCCATTTT
1 GTTTCCATTTT
46628330 TGGAAACATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.26, G:0.06, T:0.57
Consensus pattern (18 bp):
GTTTCCATTTTCATTTCC
Found at i:46628311 original size:6 final size:6
Alignment explanation
Indices: 46628302--46628328 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46628292 TTCGTTTTCG
46628302 TTTCCA TTTCCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTT
46628329 TTGGAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:46628339 original size:12 final size:12
Alignment explanation
Indices: 46628324--46628348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46628314 TTTCCATTTC
46628324 CATTTTTGGAAA
1 CATTTTTGGAAA
46628336 CATTTTTGGAAA
1 CATTTTTGGAAA
46628348 C
1 C
46628349 CTACATTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (12 bp):
CATTTTTGGAAA
Found at i:46631902 original size:23 final size:23
Alignment explanation
Indices: 46631847--46631896 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
46631837 TGTATTGGGG
46631847 TTATCATTAGCACATTCCACATT
1 TTATCATTAGCACATTCCACATT
46631870 TTATCATTAGCACATTCCACATT
1 TTATCATTAGCACATTCCACATT
46631893 TTAT
1 TTAT
46631897 ACTTAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.42
Consensus pattern (23 bp):
TTATCATTAGCACATTCCACATT
Found at i:46642277 original size:12 final size:11
Alignment explanation
Indices: 46642239--46642272 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
46642229 CTTCATTTCT
46642239 TACCCAAAACC
1 TACCCAAAACC
46642250 TACCCATAAACC
1 TACCCA-AAACC
46642262 TACACCAAAAC
1 TAC-CCAAAAC
46642273 TTACATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 12 0.57
13 3 0.14
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (11 bp):
TACCCAAAACC
Found at i:46648798 original size:18 final size:18
Alignment explanation
Indices: 46648771--46648823 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
46648761 TTACAATTCA
*
46648771 AAAAAATATAAAAAGTCT
1 AAAAAATATAAAAAATCT
* *
46648789 AAAGAATATATAAAGAATTT
1 AAA-AA-ATATAAAAAATCT
46648809 AAAAAATATAAAAAA
1 AAAAAATATAAAAAA
46648824 ACCCTAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 13 0.45
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAAAATATAAAAAATCT
Found at i:46648820 original size:9 final size:9
Alignment explanation
Indices: 46648771--46648823 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
46648761 TTACAATTCA
46648771 AAAAAATAT
1 AAAAAATAT
* *
46648780 AAAAAGTCT
1 AAAAAATAT
46648789 AAAGAATATAT
1 AAA-AA-ATAT
* *
46648800 AAAGAATTT
1 AAAAAATAT
46648809 AAAAAATAT
1 AAAAAATAT
46648818 AAAAAA
1 AAAAAA
46648824 ACCCTAAACC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 26 0.76
10 3 0.09
11 5 0.15
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:46649048 original size:17 final size:16
Alignment explanation
Indices: 46649026--46649057 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
46649016 ACTTTACTCT
46649026 ATAATTTAAATATAATC
1 ATAATTTAAAT-TAATC
46649043 ATAATTTAAATTAAT
1 ATAATTTAAATTAAT
46649058 AAAACTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTAAATTAATC
Found at i:46649313 original size:27 final size:27
Alignment explanation
Indices: 46649283--46649335 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
46649273 GTTTAAAATT
*
46649283 AATCAAAATAAATCATAAAAGTATGTA
1 AATCAAAATAAATAATAAAAGTATGTA
46649310 AATCAAAATAAATAATAAAAGTATGT
1 AATCAAAATAAATAATAAAAGTATGT
46649336 CTACTCAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (27 bp):
AATCAAAATAAATAATAAAAGTATGTA
Found at i:46656157 original size:5 final size:6
Alignment explanation
Indices: 46656140--46656164 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46656130 ATAATATCTC
46656140 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
46656165 AAATTACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:46663350 original size:46 final size:47
Alignment explanation
Indices: 46663242--46663459 Score: 216
Period size: 46 Copynumber: 4.6 Consensus size: 47
46663232 CTTCGAGGAC
* *
46663242 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATACGT-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTC-TATA-ATGTGGCT
*
46663292 GATGCATTTCCCAGACATGTCTTACACTAGCACT-TATAATGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCTATAATGTGGCT
* * * *
46663338 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAA---CGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTC-TAT-AATGTGGCT
* * *
46663384 GATGCCATGTCCCATACATGGTCTTACACTGGCTA-TC-ATAATGTGGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCTATAATGTGGCT
46663432 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
46663460 GGTGCACAAA
Statistics
Matches: 142, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
45 5 0.04
46 56 0.39
47 26 0.18
48 36 0.25
49 15 0.11
50 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCTATAATGTGGCT
Found at i:46663374 original size:94 final size:94
Alignment explanation
Indices: 46663191--46663459 Score: 305
Period size: 94 Copynumber: 2.8 Consensus size: 94
46663181 GGATAAGTTA
* * * ** *
46663191 CCGACGCCATGTCCCAGACATGGTCTTACACTGGTTATCATCTTCGAGGAC-GATGCCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAAT-GTGG-CTGATG-CATGTCCC
*
46663255 AGACATGGTCTTACACTAGCTCTCGTAT-ATACGTG
63 AGACAT-GTCTTACACTAGCCCTCGTATCA-AC--G
* * *
46663290 CTGATG-CATTTCCCAGACAT-GTCTTACACTAGC-ACTTATAATGTGGCTGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATAATGTGGCTGATGCATGTCCCAG
*
46663352 ACATGTCTTACACTAGCCCTCGTCTCAACG
65 ACATGTCTTACACTAGCCCTCGTATCAACG
* * *
46663382 CCGATGCCATGTCCCATACATGGTCTTACACTGGCTATCATAATGTGGTTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATGCATGTCCCAGA
46663447 CATGTCTTACACT
66 CATGTCTTACACT
46663460 GGTGCACAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
92 6 0.04
93 12 0.08
94 72 0.49
95 17 0.12
96 8 0.05
97 15 0.10
98 13 0.09
99 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCCCTCGTATCAACG
Found at i:46667094 original size:57 final size:57
Alignment explanation
Indices: 46667006--46667119 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
46666996 ACCTGTAAAG
46667006 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
46667063 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
46667120 GATAACAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (57 bp):
AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
Found at i:46667167 original size:17 final size:17
Alignment explanation
Indices: 46667121--46667167 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
46667111 AAGAAATTTG
46667121 ATAACAAAATAAATAAAAA
1 ATAA-AAAA-AAATAAAAA
* *
46667140 ATTAAAAAAAATTAAAA
1 ATAAAAAAAAATAAAAA
46667157 ATAAAAAAAAA
1 ATAAAAAAAAA
46667168 ACAAAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 18 0.72
18 4 0.16
19 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAAAAAAAATAAAAA
Found at i:46667173 original size:17 final size:17
Alignment explanation
Indices: 46667136--46667174 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
46667126 AAAATAAATA
* **
46667136 AAAAATTAAAAAAAATT
1 AAAAATAAAAAAAAAAC
46667153 AAAAATAAAAAAAAAAC
1 AAAAATAAAAAAAAAAC
46667170 AAAAA
1 AAAAA
46667175 CAAAGTGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (17 bp):
AAAAATAAAAAAAAAAC
Found at i:46673311 original size:19 final size:19
Alignment explanation
Indices: 46673265--46673335 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
46673255 CATCACTGGA
* *
46673265 ACACAAAGTGCATACTAGA
1 ACACAAAGTGCATCCTAGC
**
46673284 ACATGAAGTGCATCCTAGC
1 ACACAAAGTGCATCCTAGC
* * *
46673303 ACACAAAGTCCATTCTGGC
1 ACACAAAGTGCATCCTAGC
* *
46673322 ACACGAGGTGCATC
1 ACACAAAGTGCATC
46673336 TTGATGCATG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (19 bp):
ACACAAAGTGCATCCTAGC
Found at i:46674708 original size:16 final size:17
Alignment explanation
Indices: 46674687--46674722 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
46674677 TTTATAGTGA
46674687 TTTTATCATTTTA-TTT
1 TTTTATCATTTTAGTTT
46674703 TTTTATCATTTTAGTTT
1 TTTTATCATTTTAGTTT
46674720 TTT
1 TTT
46674723 CTAGAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATCATTTTAGTTT
Found at i:46682347 original size:50 final size:46
Alignment explanation
Indices: 46682271--46682392 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
46682261 TGTCTTCGAC
** * *
46682271 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC----ATATATCTAAT
* * *
46682321 ATGGGCTTACATGGCTCATTCTTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
*
46682367 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
46682393 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
Found at i:46685800 original size:46 final size:46
Alignment explanation
Indices: 46685750--46685925 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
46685740 TGGTTGAGCA
46685750 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46685796 TCCGAACTCGTTGAGTTGAGTTCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * *
46685841 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
46685889 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46685926 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
45 2 0.02
46 62 0.57
47 25 0.23
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46689044 original size:41 final size:41
Alignment explanation
Indices: 46688930--46689087 Score: 149
Period size: 41 Copynumber: 3.8 Consensus size: 41
46688920 TGCATGGCGA
* * * *
46688930 AGATTAATTTTGA-TTTTTCAATACCAACATGACGAGGTGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
* * * *
46688970 TGATTAATTTTGATTTATTTTTCAACATCAACATGGCGAGGTGG
1 AGATCAATTTT-A-AT-TTTTTCAACACCAACATGGCGAGGTGG
* *
46689014 AGATCAATTTTAATTTTTTCAACATCAACATGGTGAAGG-GG
1 AGATCAATTTTAATTTTTTCAACACCAACATGGCG-AGGTGG
* * *
46689055 AGATCAACTCTGATTTTTTCAACACCAACATGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGG
46689088 TGAGACAAAG
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
40 10 0.10
41 51 0.52
42 4 0.04
43 1 0.01
44 33 0.33
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (41 bp):
AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
Found at i:46694051 original size:43 final size:43
Alignment explanation
Indices: 46693994--46694079 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
46693984 AAAAGTATAA
*
46693994 TTTTGCCAAAATGTGTAAATTGTGTTAAATTGAATGAATTAAT
1 TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
*
46694037 TTTTGCCAAAATGTGTAAATTTTATTAAATTGAATGAATTAAT
1 TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
46694080 GATTAAGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (43 bp):
TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
Found at i:46694491 original size:28 final size:28
Alignment explanation
Indices: 46694413--46694482 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
46694403 GACATCAAAT
46694413 ATGACACTTAGTGTGCGAGATATTGAGA
1 ATGACACTTAGTGTGCGAGATATTGAGA
46694441 ATGACACTTAGTGTGCGAGATATTGAGA
1 ATGACACTTAGTGTGCGAGATATTGAGA
46694469 ATGACACTTAGTGT
1 ATGACACTTAGTGT
46694483 ATGAAATATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (28 bp):
ATGACACTTAGTGTGCGAGATATTGAGA
Found at i:46698889 original size:15 final size:15
Alignment explanation
Indices: 46698869--46698898 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46698859 ACTGAGTCTA
46698869 GGGCTAATGCTTATT
1 GGGCTAATGCTTATT
46698884 GGGCTAATGCTTATT
1 GGGCTAATGCTTATT
46698899 ATCTCTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
GGGCTAATGCTTATT
Found at i:46702831 original size:40 final size:40
Alignment explanation
Indices: 46702787--46702973 Score: 234
Period size: 40 Copynumber: 4.6 Consensus size: 40
46702777 TTGATGACAA
* *
46702787 TTCGGCTATGTATGCCACTTAGTGTATGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
*
46702827 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
* * *
46702867 TTCAGCAATGTATGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
* * *
46702907 TTTGGCTATGT-TAGGCACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTAT-GGCACTTAGTGTAC--GATTCAAGATAGC
*
46702948 TTCGGCTATGTATTGACACTTAGTGT
1 TTCGGCTATGTA-TGGCACTTAGTGT
46702974 GTGAGAATTT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 97 0.74
41 17 0.13
42 15 0.11
43 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
Found at i:46705562 original size:41 final size:41
Alignment explanation
Indices: 46705474--46705756 Score: 370
Period size: 41 Copynumber: 6.9 Consensus size: 41
46705464 TGTAAAACAT
* * * * *
46705474 AGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAA-AAC
1 AGAGCATTAGCGGCG-CTTCTGGTAAAACGCCGCTAAAGACC
* *
46705515 AAAGCATTAACGGCGCTTCTGGTAAAACGCCGCTAAAGACC
1 AGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGACC
* * *
46705556 AGAGCATTAGCTGCGCTTTTGTTAAAACGCCGCTAAAGACC
1 AGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGACC
* *
46705597 AGAGCACTAGCGGCGCTTCTGGTAAAACGACGCTAAAGACC
1 AGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGACC
* *
46705638 AGAGCACTAGCGGCGCTTCTGGTAAAACGGCGCTAAAGACC
1 AGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGACC
* * *
46705679 AGAGCATTAGCGACGCTTTTGGTAAAACACCGCTAAAGACC
1 AGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGACC
* * *
46705720 AGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTAAA
1 AGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAA
46705757 AGTTATATAA
Statistics
Matches: 214, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 19 0.09
41 195 0.91
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (41 bp):
AGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGACC
Found at i:46706200 original size:24 final size:24
Alignment explanation
Indices: 46706173--46706221 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46706163 CGTATATTTG
46706173 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
46706197 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
46706221 T
1 T
46706222 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:46711225 original size:43 final size:43
Alignment explanation
Indices: 46711177--46711285 Score: 175
Period size: 43 Copynumber: 2.5 Consensus size: 43
46711167 TTTTTTAATT
46711177 TCATGA-CTTTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGG
* *
46711220 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGG
*
46711263 TCATGATCTTTAGTGGCGTTTTT
1 TCATGATCTTTAGCGGCGTTTTT
46711286 TTAAATAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 60 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGG
Found at i:46715986 original size:46 final size:49
Alignment explanation
Indices: 46715883--46716154 Score: 244
Period size: 46 Copynumber: 5.7 Consensus size: 49
46715873 GGGTTATTAT
* * * * *
46715883 GAGCCAGTGTAAGATCATGTTTGGGACATGGCATCTGCATCTAGACG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTAGATGTA
*
46715931 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCTAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTAGATGTA
* * *
46715978 -AGCCAGTGTAGGA-CATGTCTGGGACAT-GCATCGG-GTACGAGATGT-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CTAGATGTA
** * *
46716023 --GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GTATATGTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCTAGATGT-A
* * * *
46716071 GAGCTAGTGTAAGACCATGTCTGAGACATGGCGTCGGCCTCGATGATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTA-GATGTA
* * *
46716120 TAGTCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
46716155 AACTCGAGAC
Statistics
Matches: 184, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
44 9 0.05
45 15 0.08
46 65 0.35
47 14 0.08
48 13 0.07
49 31 0.17
50 34 0.18
51 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTAGATGTA
Found at i:46716138 original size:99 final size:92
Alignment explanation
Indices: 46715936--46716154 Score: 248
Period size: 99 Copynumber: 2.3 Consensus size: 92
46715926 GACGAGAGCT
*
46715936 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCTAGATGTAAGCCAGTGTAGGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTAGATGTAAGCCAGTGTAAGACATGTCTG
* * *
46715999 GGACATGCATCGGGTACGAGATGTGTT
66 AGACATGCATCGGCTACGAGATGTGTC
* * *
46716026 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GTATATGTGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCTAGATGT-A-AGCCAGTGTAAGA-CATG
*
46716090 TCTGAGACATGGCGTCGGCCT-CGATGATGATAGTC
62 TCTGAGACAT-GCATCGG-CTACGA-GATG-T-GTC
*
46716125 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
46716155 AACTCGAGAC
Statistics
Matches: 109, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
90 9 0.08
91 14 0.13
92 14 0.13
93 2 0.02
94 11 0.10
95 13 0.12
96 9 0.08
97 5 0.05
98 1 0.01
99 31 0.28
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTAGATGTAAGCCAGTGTAAGACATGTCTG
AGACATGCATCGGCTACGAGATGTGTC
Found at i:46720014 original size:18 final size:18
Alignment explanation
Indices: 46719991--46720025 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46719981 AGCTGCAGGT
*
46719991 AAGAATCGTAAGTTACAG
1 AAGAATAGTAAGTTACAG
46720009 AAGAATAGTAAGTTACA
1 AAGAATAGTAAGTTACA
46720026 TATTCAGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.23
Consensus pattern (18 bp):
AAGAATAGTAAGTTACAG
Found at i:46723353 original size:17 final size:17
Alignment explanation
Indices: 46723328--46723363 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46723318 ATTTGCTTAT
46723328 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
* *
46723345 AAATGAATAAATTAATA
1 AAATAAATAAATAAATA
46723362 AA
1 AA
46723364 GGCTCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:46724225 original size:12 final size:12
Alignment explanation
Indices: 46724208--46724238 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46724198 CCTCCAACAC
46724208 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
46724220 CCGTGTGCTAGG
1 CCGTGTGCCAGG
46724232 CCGTGTG
1 CCGTGTG
46724239 AAAACTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:46731037 original size:25 final size:25
Alignment explanation
Indices: 46731009--46731056 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
46730999 CAGAGGACCA
*
46731009 ATCATATAACTCATAATAATGATTC
1 ATCACATAACTCATAATAATGATTC
* * *
46731034 ATCACATAATTCTTCATAATGAT
1 ATCACATAACTCATAATAATGAT
46731057 AATAATAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (25 bp):
ATCACATAACTCATAATAATGATTC
Found at i:46737967 original size:28 final size:24
Alignment explanation
Indices: 46737927--46737981 Score: 58
Period size: 28 Copynumber: 2.1 Consensus size: 24
46737917 TCCGCTGGCA
46737927 GCATAGCTGCTTTATCATATAACTGGAG
1 GCATAGCTGCTTT-T-A-ATAACTGG-G
46737955 GCATAGCCT-CTTTTAATAACTGGG
1 GCATAG-CTGCTTTTAATAACTGGG
46737979 GCA
1 GCA
46737982 AAACCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
24 4 0.15
25 8 0.31
26 1 0.04
27 1 0.04
28 10 0.38
29 2 0.08
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
GCATAGCTGCTTTTAATAACTGGG
Found at i:46737992 original size:24 final size:25
Alignment explanation
Indices: 46737947--46738066 Score: 136
Period size: 25 Copynumber: 4.8 Consensus size: 25
46737937 TTTATCATAT
* *
46737947 AACTGGAGGCATAG-CCTCTTTTAAT-
1 AACTGG-GGCAAAGCCCT-TTTTGATA
*
46737972 AACTGGGGCAAAACCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
46737997 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
46738022 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
46738047 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46738067 AGCACTTCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.13
25 75 0.87
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:46738000 original size:25 final size:25
Alignment explanation
Indices: 46737972--46738066 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
46737962 CTCTTTTAAT
* * *
46737972 AACTGGGGCAAAACCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
46737997 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
46738022 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
46738047 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46738067 AGCACTTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:46738302 original size:27 final size:27
Alignment explanation
Indices: 46738271--46738415 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
46738261 GGGGCAAAAT
* * *
46738271 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
46738298 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
46738325 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
46738352 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
46738379 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
46738406 GAT-ATTTTAC
1 GGTAATTTTAC
46738416 AAATCGAGAG
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 9 0.09
27 91 0.88
28 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:46738455 original size:27 final size:27
Alignment explanation
Indices: 46738340--46738565 Score: 120
Period size: 27 Copynumber: 8.4 Consensus size: 27
46738330 TTCTACCCTA
* **
46738340 CAAGGGTATTTCGGTAATTTTAC-CCT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * **
46738366 ACAGGGGTATTTCGGTAATTCTAC-CCT
1 -CAAGGGTATTTCGATAATTTTACAAAT
*
46738393 ACAGGGGTATTTCGAT-ATTTTACAAAT
1 -CAAGGGTATTTCGATAATTTTACAAAT
* * *
46738420 CGAGAGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * **
46738447 TAAGGGTATTTTGGTAATTTTACAAGC
1 CAAGGGTATTTCGATAATTTTACAAAT
* * *
46738474 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCGATAATTTTACAAAT
* * *
46738500 CTAGGGGTATTT-TAGTAATTTTACTAAT
1 C-AAGGGTATTTCGA-TAATTTTACAAAT
* * * ** *
46738528 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGATAATTTTACAAAT
46738555 CAAGGGTATTT
1 CAAGGGTATTT
46738566 TAGTAATTTT
Statistics
Matches: 160, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 19 0.12
27 140 0.88
28 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTACAAAT
Found at i:46738492 original size:54 final size:54
Alignment explanation
Indices: 46738425--46738575 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 54
46738415 CAAATCGAGA
* * * * *
46738425 GTATTTCGATAATTTCACAAATTAAGGGTATTTTGGTAATTTTAC-AAGCCAGGG
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACTAAGCCA-GG
* * *
46738479 GTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACTAATCGAGG
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACTAAGCCAGG
** *
46738533 GTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTT
46738576 TTAAATCGAG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 80 0.95
55 4 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACTAAGCCAGG
Found at i:46738566 original size:27 final size:27
Alignment explanation
Indices: 46738448--46738589 Score: 142
Period size: 27 Copynumber: 5.3 Consensus size: 27
46738438 TTCACAAATT
* *
46738448 AAGGGTATTTTGGTAATTTTACAAGCC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
46738475 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
46738502 AGGGGTATTTTAGTAATTTTACT-AATC
1 AAGGGTATTTTGGTAATTTTA-TAAACC
* *
46738529 GAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
46738556 AAGGGTATTTTAGTAATTTTTTAAATC
1 AAGGGTATTTTGGTAATTTTATAAACC
*
46738583 GAGGGTA
1 AAGGGTA
46738590 AAATGGTAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 95 0.99
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACC
Found at i:46738583 original size:54 final size:54
Alignment explanation
Indices: 46738448--46738616 Score: 180
Period size: 54 Copynumber: 3.1 Consensus size: 54
46738438 TTCACAAATT
* * * ** *
46738448 AAGGGTATTTTGGTAATTTTAC-AAGCCAGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTAGTAATTTTACTAATCGA-GGGTATTTTGGTAATTTTGTAAACC
*
46738502 AGGGGTATTTTAGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACC
* *** * *
46738556 AAGGGTATTTTAGTAATTTT-TTAAATCGAGGGTAAAATGGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGTAAACC
*
46738610 GAGGGTA
1 AAGGGTA
46738617 AAACGGTAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 93 0.95
55 4 0.04
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (54 bp):
AAGGGTATTTTAGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACC
Found at i:46738598 original size:27 final size:27
Alignment explanation
Indices: 46738568--46738697 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
46738558 GGGTATTTTA
* * *
46738568 GTAATTTTTTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
46738595 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
46738622 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
46738649 TTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
46738676 GTAATTCTATAAATTGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
46738698 CTTTGGTATT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.32
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:46738599 original size:81 final size:80
Alignment explanation
Indices: 46738449--46738711 Score: 206
Period size: 81 Copynumber: 3.2 Consensus size: 80
46738439 TCACAAATTA
* * * * * * ***
46738449 AGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTT
1 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAAT
*
46738513 AGTAATTTTACTAATCG
65 GGTAATTTTA-TAATCG
* *
46738530 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTTTAAATCGAGGGTAAAATG
1 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATG
46738595 GTAATTCTGTA-AATCG
66 GTAATT-T-TATAATCG
**** * * * **** * *
46738611 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACATTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATG
* *
46738676 GTAATTCTATAAATTG
66 GTAATTTTAT-AATCG
* *
46738692 AGGGTACTTTGGTATTTTTA
1 AGGGTATTTTGGTAATTTTA
46738712 CAAATTGAGG
Statistics
Matches: 142, Mismatches: 35, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
79 2 0.01
81 135 0.95
82 3 0.02
83 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATG
GTAATTTTATAATCG
Found at i:46742379 original size:99 final size:96
Alignment explanation
Indices: 46742272--46742447 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 96
46742262 TACGAGATGT
* *
46742272 GTCAGTGTAAGACCATGTATAAGACATGGCATTAACACAGATATG-TGAGAGCTAGTGTAAGACC
1 GTCAGTGTAAGACCATGTATAAGACATGGCATCAAC-CAGATA-GAT--GAGCCAGTGTAAGACC
46742336 ATGTCTGGGACATGGCGTTGGCCTCGATTTCGATA
62 ATGTCTGGGACATGGCGTTGGCCTCGATTTCGATA
* * ** * **
46742371 GTCAGTGTAAGACCTTGTCTGGGACATGGCATCGACTTGATAGATGAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCATGTATAAGACATGGCATCAACCAGATAGATGAGCCAGTGTAAGACCATGT
46742436 CTGGGACATGGC
66 CTGGGACATGGC
46742448 ATCGGTGTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
96 31 0.46
97 1 0.01
98 5 0.07
99 30 0.45
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTATAAGACATGGCATCAACCAGATAGATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCGTTGGCCTCGATTTCGATA
Found at i:46742437 original size:47 final size:48
Alignment explanation
Indices: 46742320--46742451 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 48
46742310 AGATATGTGA
* * * * *
46742320 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGC-ATCGACTCGA-TTAGAT
* * *
46742370 -AGTCAGTGTAAGACCTTGTCTGGGACATGGCATCGACTTGA-TAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATTAGAT
46742416 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
46742452 GTGTTATACC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
46 4 0.06
47 33 0.46
48 6 0.08
49 28 0.39
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATTAGAT
Found at i:46743614 original size:21 final size:22
Alignment explanation
Indices: 46743574--46743615 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46743564 GTTGAATTGG
*
46743574 TCACACGGGCATGTTGCCCCTC
1 TCACACGGGCATGATGCCCCTC
46743596 TCACACGGGCAT-ATGCCCCT
1 TCACACGGGCATGATGCCCCT
46743616 GTGGCTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.17, C:0.40, G:0.21, T:0.21
Consensus pattern (22 bp):
TCACACGGGCATGATGCCCCTC
Found at i:46750731 original size:30 final size:30
Alignment explanation
Indices: 46750674--46750731 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46750664 CACGGCCATG
* *
46750674 ACACACGGGCATGTGGCCTACCTGTGTGTA
1 ACACACGGGCATGTGGACTACCAGTGTGTA
*
46750704 ACACACGGGCATGTGGATTACCAGTGTG
1 ACACACGGGCATGTGGACTACCAGTGTG
46750732 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.22
Consensus pattern (30 bp):
ACACACGGGCATGTGGACTACCAGTGTGTA
Found at i:46752280 original size:46 final size:47
Alignment explanation
Indices: 46752174--46752295 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
46752164 TGTCTTCGAC
** * *
46752174 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
46752224 ACGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
46752270 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
46752296 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:46755698 original size:23 final size:23
Alignment explanation
Indices: 46755674--46755905 Score: 281
Period size: 23 Copynumber: 10.1 Consensus size: 23
46755664 AATATAGTCA
*
46755674 AAGCTACCACTGTATTGTAGCCA
1 AAGCTACCACTGTATTGTAGCCG
*
46755697 AAGCTACCACTGTATTATAGCCG
1 AAGCTACCACTGTATTGTAGCCG
* * *
46755720 AAGCTACCATTG-AGATGTAGCCA
1 AAGCTACCACTGTA-TTGTAGCCG
46755743 AAGCTACCACTGTATTGTAGCCG
1 AAGCTACCACTGTATTGTAGCCG
* *
46755766 AAGCTACCACTATATTGCAGCCG
1 AAGCTACCACTGTATTGTAGCCG
*
46755789 AAGCTACCACTG-AGATGTAGCCG
1 AAGCTACCACTGTA-TTGTAGCCG
*
46755812 AAGCTACCACTATATTGTAGCCG
1 AAGCTACCACTGTATTGTAGCCG
*
46755835 AAGTTACCACTGTATTGTAGCCG
1 AAGCTACCACTGTATTGTAGCCG
* * *
46755858 AATCTACCACTG-AGATGTAGCCA
1 AAGCTACCACTGTA-TTGTAGCCG
* *
46755881 AAGCTACCACTATATTGTAGTCG
1 AAGCTACCACTGTATTGTAGCCG
46755904 AA
1 AA
46755906 ACTATCATTG
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
22 3 0.02
23 170 0.97
24 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (23 bp):
AAGCTACCACTGTATTGTAGCCG
Found at i:46755788 original size:69 final size:69
Alignment explanation
Indices: 46755672--46755905 Score: 369
Period size: 69 Copynumber: 3.4 Consensus size: 69
46755662 GTAATATAGT
* * * *
46755672 CAAAGCTACCACTGTATTGTAGCCAAAGCTACCACTGTATTATAGCCGAAGCTACCATTGAGATG
1 CAAAGCTACCACTATATTGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGATG
46755737 TAGC
66 TAGC
* * *
46755741 CAAAGCTACCACTGTATTGTAGCCGAAGCTACCACTATATTGCAGCCGAAGCTACCACTGAGATG
1 CAAAGCTACCACTATATTGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGATG
46755806 TAGC
66 TAGC
* * *
46755810 CGAAGCTACCACTATATTGTAGCCGAAGTTACCACTGTATTGTAGCCGAATCTACCACTGAGATG
1 CAAAGCTACCACTATATTGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGATG
46755875 TAGC
66 TAGC
*
46755879 CAAAGCTACCACTATATTGTAGTCGAA
1 CAAAGCTACCACTATATTGTAGCCGAA
46755906 ACTATCATTG
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 152 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (69 bp):
CAAAGCTACCACTATATTGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGATG
TAGC
Found at i:46758527 original size:7 final size:6
Alignment explanation
Indices: 46758500--46758557 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
46758490 TCTTTAAAAT
* *
46758500 AAATAGA AAATAC AAATAA AAATAA AAAT-A AAGTGAA AAATAA AAGATAAA
1 AAATA-A AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AA-AT-AA
46758551 AAATAA A
1 AAATAA A
46758558 TGGACTCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.09
6 22 0.51
7 13 0.30
8 4 0.09
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:46758529 original size:18 final size:18
Alignment explanation
Indices: 46758500--46758551 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
46758490 TCTTTAAAAT
46758500 AAATAGAAAATACAAAT-AA
1 AAATA-AAAATA-AAATGAA
*
46758519 AAATAAAAATAAAGTGAA
1 AAATAAAAATAAAATGAA
46758537 AAATAAAAGATAAAA
1 AAATAAAA-ATAAAA
46758552 AATAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 16 0.55
19 10 0.34
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (18 bp):
AAATAAAAATAAAATGAA
Found at i:46758601 original size:3 final size:3
Alignment explanation
Indices: 46758593--46758618 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46758583 TGGATCTTGA
46758593 GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
46758619 AGGCGAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:46760220 original size:16 final size:17
Alignment explanation
Indices: 46760201--46760233 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46760191 ATAAATAAAT
*
46760201 AATTGACTAA-AATTAA
1 AATTGAATAACAATTAA
46760217 AATTGAATAACAATTAA
1 AATTGAATAACAATTAA
46760234 GTAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AATTGAATAACAATTAA
Found at i:46760812 original size:20 final size:20
Alignment explanation
Indices: 46760784--46760829 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
46760774 TGTGGTCTCC
*
46760784 CACATGCCCAAGTGTCCGAA
1 CACACGCCCAAGTGTCCGAA
** *
46760804 CACACGCCCGTGTGTTCGAA
1 CACACGCCCAAGTGTCCGAA
46760824 CACACG
1 CACACG
46760830 GCCGTATGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.37, G:0.22, T:0.15
Consensus pattern (20 bp):
CACACGCCCAAGTGTCCGAA
Found at i:46760834 original size:20 final size:20
Alignment explanation
Indices: 46760795--46760834 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46760785 ACATGCCCAA
46760795 GTGTCCGAACACACGCCCGT
1 GTGTCCGAACACACGCCCGT
* *
46760815 GTGTTCGAACACACGGCCGT
1 GTGTCCGAACACACGCCCGT
46760835 ATGGTTCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (20 bp):
GTGTCCGAACACACGCCCGT
Found at i:46765476 original size:44 final size:47
Alignment explanation
Indices: 46765418--46765552 Score: 161
Period size: 50 Copynumber: 2.9 Consensus size: 47
46765408 TTGGGTTATT
*
46765418 TGTGTGCTAGTGTAAGA-CATGTTTGGGACATGCATCGGCTAC-GAGA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGCATCGGC-ACAGAGA
* * *
46765464 TGT-ATC-AGTGTAAGACCATGTCTGGGACATTGCATCGGCACAGATA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACA-TGCATCGGCACAGAGA
46765510 TGTGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 TGT--GAGCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGC
46765553 CTCGATTTTG
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
44 9 0.12
45 15 0.20
46 18 0.24
49 3 0.04
50 30 0.40
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTGAGCTAGTGTAAGACCATGTTTGGGACATGCATCGGCACAGAGA
Found at i:46765576 original size:99 final size:94
Alignment explanation
Indices: 46765423--46765602 Score: 247
Period size: 99 Copynumber: 1.9 Consensus size: 94
46765413 TTATTTGTGT
*
46765423 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTATCAGTGTAAGACCATGTCTG
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTATCAGTGTAAGACCATGTCTA
*
46765488 GGACATTG-CATCGGCACAGATATGTGAGA
66 AGACA-TGACATCGGCACAGATATGTGAGA
**
46765517 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-CGATTTTGATAGTCAGTGTAAGACCA
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTACGA-GATG-TA-TCAGTGTAAGACCA
46765581 TGTCTAAGACATGACATCGGCA
60 TGTCTAAGACATGACATCGGCA
46765603 TTATACCCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
94 12 0.16
95 14 0.19
96 10 0.13
97 4 0.05
98 4 0.05
99 31 0.41
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTATCAGTGTAAGACCATGTCTA
AGACATGACATCGGCACAGATATGTGAGA
Found at i:46765592 original size:49 final size:50
Alignment explanation
Indices: 46765426--46765602 Score: 167
Period size: 49 Copynumber: 3.7 Consensus size: 50
46765416 TTTGTGTGCT
* *
46765426 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTAC-GAGATGT---A-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGATATGTGAGAGTC
*
46765470 AGTGTAAGACCATGTCTGGGACATTGCATCGGCACAGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGTC
* * * *
46765519 TAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGAT-TTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGAGAGTC
** *
46765569 AGTGTAAGACCATGTCTAAGACATGACATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
46765603 TTATACCCTA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
44 9 0.08
45 15 0.14
46 14 0.13
49 38 0.34
50 35 0.32
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGTC
Found at i:46767617 original size:40 final size:40
Alignment explanation
Indices: 46767562--46767641 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
46767552 ACGCATGAGG
46767562 AATGCGTGAAGTGTGCGGTGTCACTCTTACGAGACTCGAC
1 AATGCGTGAAGTGTGCGGTGTCACTCTTACGAGACTCGAC
46767602 AATGCGTGAAGTGTGCGGTGTCACTCTTACGAGACTCGAC
1 AATGCGTGAAGTGTGCGGTGTCACTCTTACGAGACTCGAC
46767642 CTACCAATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
AATGCGTGAAGTGTGCGGTGTCACTCTTACGAGACTCGAC
Found at i:46772923 original size:27 final size:26
Alignment explanation
Indices: 46772891--46773044 Score: 114
Period size: 27 Copynumber: 5.7 Consensus size: 26
46772881 ACACATCAAT
*
46772891 AAAGGAATGCCTTTGTGGCATAATATG
1 AAAGGAACGCCTTTGTGGCA-AATATG
* *
46772918 AAAGGAAAGCCTTTGTGACAAATTATG
1 AAAGGAACGCCTTTGTGGCAAA-TATG
** *
46772945 AAAGGAACATCTTTATGGTGC-AATATG
1 AAAGGAACGCCTTTGT-G-GCAAATATG
* ** *
46772972 AAAGTAACAACTTTGTGGCGGAATATG
1 AAAGGAACGCCTTTGTGGC-AAATATG
*
46772999 AAAGGAACGCCTTTGTGGCGAATCATG
1 AAAGGAACGCCTTTGTGGCAAAT-ATG
* *
46773026 AAGGGATA-GCCTCTGTGGC
1 AAAGGA-ACGCCTTTGTGGC
46773045 GAACCCTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
25 2 0.02
26 7 0.07
27 91 0.87
28 4 0.04
29 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.26
Consensus pattern (26 bp):
AAAGGAACGCCTTTGTGGCAAATATG
Found at i:46778291 original size:30 final size:30
Alignment explanation
Indices: 46778257--46778324 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
46778247 TAGGGCAGAC
* *
46778257 CGTGTGTCACACACGACCTAGACACACGTT
1 CGTGTGCCACACACGACCTAGACACACGCT
46778287 CGTGTGCCACACACGACCTAGACACACGCT
1 CGTGTGCCACACACGACCTAGACACACGCT
46778317 CGTGTGCC
1 CGTGTGCC
46778325 TATCCGTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.37, G:0.22, T:0.18
Consensus pattern (30 bp):
CGTGTGCCACACACGACCTAGACACACGCT
Found at i:46779095 original size:58 final size:58
Alignment explanation
Indices: 46778969--46779082 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
46778959 TTATACACAG
46778969 AACACAATAATATTTATCACAATGTCATCAAGTATCATAGGTACATTTTAAGTCATAT
1 AACACAATAATATTTATCACAATGTCATCAAGTATCATAGGTACATTTTAAGTCATAT
* *
46779027 AACACAATAATATTTATCACAATTTCATCAAGTATCATAGGTACATTTTCAGTCAT
1 AACACAATAATATTTATCACAATGTCATCAAGTATCATAGGTACATTTTAAGTCAT
46779083 GCATTTACAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (58 bp):
AACACAATAATATTTATCACAATGTCATCAAGTATCATAGGTACATTTTAAGTCATAT
Found at i:46779372 original size:48 final size:48
Alignment explanation
Indices: 46779297--46779433 Score: 166
Period size: 48 Copynumber: 2.9 Consensus size: 48
46779287 CACATGGTAG
* * * * *
46779297 GATGGCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATC
** * *
46779345 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATC
* * *
46779393 GATGCCAAAGGCATGTCTCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
46779434 GTACATTACC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATC
Found at i:46779779 original size:29 final size:29
Alignment explanation
Indices: 46779746--46779805 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
46779736 TTATTTAATT
46779746 ATCACATTGTTAAAAATAGTCCATAAATC
1 ATCACATTGTTAAAAATAGTCCATAAATC
*
46779775 ATCACATTGTTAAAAATAGTCCCTAAATC
1 ATCACATTGTTAAAAATAGTCCATAAATC
46779804 AT
1 AT
46779806 ACTTTGGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (29 bp):
ATCACATTGTTAAAAATAGTCCATAAATC
Found at i:46782837 original size:41 final size:41
Alignment explanation
Indices: 46782791--46782872 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
46782781 ACACGAGTGT
* *
46782791 GTGTGACCACATGGCCTACCCATATGGGTGTGTGACTCTCC
1 GTGTGACCACATGGCCTACCCATATAGGCGTGTGACTCTCC
46782832 GTGTGACCACATGGCCTACCCATATAGGCGTGTGACTCTCC
1 GTGTGACCACATGGCCTACCCATATAGGCGTGTGACTCTCC
46782873 AAACTAGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.18, C:0.30, G:0.26, T:0.26
Consensus pattern (41 bp):
GTGTGACCACATGGCCTACCCATATAGGCGTGTGACTCTCC
Found at i:46787507 original size:15 final size:15
Alignment explanation
Indices: 46787459--46787508 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
46787449 ATGAAAATCG
*
46787459 AGATAAAGAAGTCCA
1 AGATAAAGAAATCCA
* *
46787474 GGACAAAGAAATCCA
1 AGATAAAGAAATCCA
46787489 AGATAAAGAAATCCA
1 AGATAAAGAAATCCA
46787504 AGATA
1 AGATA
46787509 CAATATCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
AGATAAAGAAATCCA
Found at i:46797609 original size:31 final size:31
Alignment explanation
Indices: 46797571--46797633 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
46797561 CTTTTCACAC
46797571 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
46797602 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
46797633 T
1 T
46797634 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:46797875 original size:23 final size:24
Alignment explanation
Indices: 46797841--46797948 Score: 155
Period size: 25 Copynumber: 4.4 Consensus size: 24
46797831 CTGAAGGCCT
46797841 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
46797865 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
46797889 AGCCCTTTATCATAACTGGGGTATA
1 AGCCCTTT-TAATAACTGGGGCATA
*
46797914 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
46797939 AGCCCTTTTA
1 AGCCCTTTTA
46797949 CACTTCCTCC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
23 18 0.23
24 14 0.18
25 46 0.59
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:46797909 original size:25 final size:25
Alignment explanation
Indices: 46797852--46797946 Score: 158
Period size: 25 Copynumber: 3.9 Consensus size: 25
46797842 GCCTCTTTTA
*
46797852 ATAACTGGGGCA-AAGCCCTTT-TA
1 ATAACTGGGGCATAAGCCCTTTATC
46797875 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
*
46797900 ATAACTGGGGTATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
46797925 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
46797947 TACACTTCCT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
23 12 0.18
24 9 0.13
25 46 0.69
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
ATAACTGGGGCATAAGCCCTTTATC
Found at i:46798022 original size:20 final size:20
Alignment explanation
Indices: 46797997--46798063 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
46797987 TTATGAATAC
46797997 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
46798017 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
* *
46798037 TTCATTTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46798057 ATCATGT
1 ATCATGT
46798064 TTACTAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46802008 original size:40 final size:40
Alignment explanation
Indices: 46801931--46802148 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
46801921 AAACCAAGTA
* *
46801931 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
46801970 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46802010 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46802050 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
46802090 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
46802130 CCCTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46802149 TTATCATACG
Statistics
Matches: 165, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 147 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46804331 original size:45 final size:44
Alignment explanation
Indices: 46804267--46804429 Score: 247
Period size: 45 Copynumber: 3.7 Consensus size: 44
46804257 TATTGTACAG
46804267 TATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCATGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCA-GTGAGA
* *
46804312 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CAGTGAGA
* *
46804357 TATTATTCGGGCCTTTGAGCCTAGCAAGCTATAATACCAGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGCAGGCTATAAT-GCAGTGAGA
*
46804402 TATTATTCGGGCC-TCGAGCCTAGCAGGC
1 TATTATTCGGGCCTTTGAGCCTAGCAGGC
46804430 GAAATGTCGG
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
44 13 0.12
45 94 0.87
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (44 bp):
TATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGTGAGA
Found at i:46806358 original size:48 final size:48
Alignment explanation
Indices: 46806280--46806386 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
46806270 TATCCCAGAT
* * * *
46806280 ATGGTCTTACATAGGATCACATATCGATGCCAGTACCATGTCCCAAAC
1 ATGGTCTTACATAGGATCACAGATCAATGCCAATACCATGTCACAAAC
** * ** *
46806328 ATGGTCTTACATAGGATCGTAGGTCAATGCCAATGTCATGTCATAAAC
1 ATGGTCTTACATAGGATCACAGATCAATGCCAATACCATGTCACAAAC
46806376 ATGGTCTTACA
1 ATGGTCTTACA
46806387 CGAGATCACA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACATAGGATCACAGATCAATGCCAATACCATGTCACAAAC
Found at i:46809674 original size:30 final size:30
Alignment explanation
Indices: 46809640--46809701 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
46809630 TAGTAAGATG
46809640 TACTTATTAGCCATACGAGCTTACTAAGCT
1 TACTTATTAGCCATACGAGCTTACTAAGCT
*
46809670 TACTTATTAGCCATATGAGCTTACTAAGCT
1 TACTTATTAGCCATACGAGCTTACTAAGCT
46809700 TA
1 TA
46809702 ATAGCTTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (30 bp):
TACTTATTAGCCATACGAGCTTACTAAGCT
Found at i:46811894 original size:16 final size:16
Alignment explanation
Indices: 46811873--46811911 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46811863 ATGTATCGGA
* * *
46811873 AAAAGCTGAAATTCTG
1 AAAAGCCGAAATGCCG
46811889 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
46811905 AAAAGCC
1 AAAAGCC
46811912 AAAAGTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.13
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:46812034 original size:19 final size:19
Alignment explanation
Indices: 46812010--46812064 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
46812000 ATTTGGCCAT
*
46812010 ATGGGCCGGAATGGGCTAA
1 ATGGGCCGGAATAGGCTAA
46812029 ATGGGCCGGAATAGGCTAA
1 ATGGGCCGGAATAGGCTAA
* *
46812048 ATTGGCCCG-ATAGGCTA
1 ATGGGCCGGAATAGGCTA
46812065 TTGGGCCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (19 bp):
ATGGGCCGGAATAGGCTAA
Found at i:46812191 original size:29 final size:28
Alignment explanation
Indices: 46812131--46812234 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
46812121 GTGAGCATGA
* * * *
46812131 ATATGAATGTGACTGGGCCTAACGGGCG
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
46812159 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
46812188 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
46812217 ATATGAATTTGATTGGGC
1 ATATAAATGTGATTGGGC
46812235 GCAATAGGCC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
28 17 0.27
29 46 0.73
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:46814498 original size:27 final size:27
Alignment explanation
Indices: 46814450--46814505 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
46814440 TAGCTTCAGG
**
46814450 GTACTGATAGCTCCACGGAGGGAGCGA
1 GTACTGATAGCTCCACAAAGGGAGCGA
*
46814477 GTACTGATAGCTCCACAAAGGGAGTGA
1 GTACTGATAGCTCCACAAAGGGAGCGA
46814504 GT
1 GT
46814506 TTTCTCAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.34, T:0.18
Consensus pattern (27 bp):
GTACTGATAGCTCCACAAAGGGAGCGA
Found at i:46816751 original size:29 final size:29
Alignment explanation
Indices: 46816696--46816782 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
46816686 GTGAGCATGA
* * *
46816696 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
46816724 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
46816753 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
46816782 A
1 A
46816783 GATACAAGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 11 0.21
29 42 0.79
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:46816787 original size:29 final size:29
Alignment explanation
Indices: 46816709--46816788 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
46816699 TGAATGTGAC
* * *
46816709 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
46816738 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
*
46816767 TGGGCCTAATGGGCCAGATACA
1 TGGGCCTAATGGGCCATATACA
46816789 AGTATGTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGGTGATT
Found at i:46819496 original size:31 final size:31
Alignment explanation
Indices: 46819458--46819567 Score: 202
Period size: 31 Copynumber: 3.5 Consensus size: 31
46819448 TTTAACGGTT
46819458 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
46819489 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
46819520 ACTGGGCCGAAGCCTTTTCATAAATCATTTT
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
46819551 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
46819568 ACTGTAAACG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:46819638 original size:42 final size:42
Alignment explanation
Indices: 46819591--46819682 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
46819581 TGGCCCATAG
* ** *
46819591 GCCCATTTCAATATCACATGTAATGTCAATGGATATATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
* *
46819633 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
46819675 GCCCATTT
1 GCCCATTT
46819683 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
Found at i:46819856 original size:25 final size:26
Alignment explanation
Indices: 46819815--46819950 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
46819805 CTGGAGGCCT
46819815 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
46819839 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
46819864 AGCCCTTTTCAATAAACTGAGGCACA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
46819890 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
46819916 AGCCCTTTTCAATAAACTTGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
46819942 AGCCCTTTT
1 AGCCCTTTT
46819951 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.33
26 55 0.57
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:46819945 original size:52 final size:50
Alignment explanation
Indices: 46819815--46819950 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 50
46819805 CTGGAGGCCT
*
46819815 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTTGGGCAAAGCCCTTTTCGGTAAACTGGGGCAA
46819864 AGCCCTTTTCAATAAAC-TGAGGCACAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTTG-GGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
46819916 AGCCCTTTTCAATAAACTTGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTTGGGCA-AAGCCCTTTT
46819951 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
48 5 0.06
49 8 0.10
50 7 0.09
51 25 0.32
52 32 0.41
53 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTTGGGCAAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:46820025 original size:20 final size:20
Alignment explanation
Indices: 46820000--46820086 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
46819990 TTATGAATAC
46820000 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
46820020 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
46820040 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
46820060 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
46820080 ATCATGT
1 ATCATGT
46820087 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:46820150 original size:25 final size:25
Alignment explanation
Indices: 46820122--46820169 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
46820112 ATAATTAAAC
* *
46820122 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAATAGTCATTTTTA
46820147 CCTAGGGGTAAAATAGTCATTTT
1 CCTAGGGGTAAAATAGTCATTTT
46820170 CATACTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGGGGTAAAATAGTCATTTTTA
Found at i:46821201 original size:55 final size:53
Alignment explanation
Indices: 46821125--46821326 Score: 147
Period size: 55 Copynumber: 3.7 Consensus size: 53
46821115 TAATTCTGTA
** * *
46821125 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTAC
1 AATCGAGGGT-ATTTAGTAATTCTATAAATCAAGGGTAATTTGGTAATTTTTAC
* * * *
46821179 AAGTCGAGGGTATTTCAGTAATTTTACAAATCAAGGGGTATTTTAGTAA-TTTTAC
1 AA-TCGAGGGTATTT-AGTAATTCTATAAATCAA-GGGTAATTTGGTAATTTTTAC
* * * * ** *
46821234 AAACCAGGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATGATAATTTTATA-
1 AATCGA-GGGTA-TTTAGTAATTCTATAAATCAAGGGTAATTTGGTAATTTT-TAC
** * *
46821289 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGT-ATTTAGTAATTCTATAAATCAAGGGTA
46821327 GAACGGTAAT
Statistics
Matches: 116, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
54 39 0.34
55 60 0.52
56 17 0.15
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (53 bp):
AATCGAGGGTATTTAGTAATTCTATAAATCAAGGGTAATTTGGTAATTTTTAC
Found at i:46821271 original size:27 final size:27
Alignment explanation
Indices: 46820862--46821326 Score: 147
Period size: 27 Copynumber: 17.2 Consensus size: 27
46820852 TACCTATTAG
* * *
46820862 GGGTATTTTAGTCATTTCATCCAA-CAA
1 GGGTATTTTAGTAATTTTAT-AAATCAA
* * * * *
46820889 GGGTTTTTTGGTAAATCTACAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * *
46820916 GGGTATTTCTA-TAATTTTGTAAATTAG
1 GGGTATTT-TAGTAATTTTATAAATCAA
* * **
46820943 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * * *
46820970 GGGTA-TTTCGATAATTTCACAAA-CCA
1 GGGTATTTTAG-TAATTTTATAAATCAA
* * *
46820996 GTGGTATTTTGGTAATTTTACAAA-CTAG
1 G-GGTATTTTAGTAATTTTATAAATC-AA
* * * *** *
46821024 GGGTGTTTTGGTAATTCTACCCTAT-AG
1 GGGTATTTTAGTAATTTTA-TAAATCAA
* * * *
46821051 GGGTATTTCAGTAATTTCA-CAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
*** * * * *
46821077 GGGTAAAATGGTAATTTTGTAAATTAG
1 GGGTATTTTAGTAATTTTATAAATCAA
*** * * *
46821104 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
*** * *
46821131 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * *
46821158 GGGTACTTTGGTAATTTT-TACAAGTCGA
1 GGGTATTTTAGTAATTTTATA-AA-TCAA
* *
46821186 GGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * *
46821213 GGGGTATTTTAGTAATTTTACAAACCAG
1 -GGGTATTTTAGTAATTTTATAAATCAA
*
46821241 GGGTATTTTAGTAATTTTGTAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
*** *
46821268 GGGTAAAAT-GATAATTTTATAAATCGA
1 GGGTATTTTAG-TAATTTTATAAATCAA
*** * * *
46821295 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
46821322 GGGTA
1 GGGTA
46821327 GAACGGTAAT
Statistics
Matches: 340, Mismatches: 81, Indels: 34
0.75 0.18 0.07
Matches are distributed among these distances:
25 3 0.01
26 24 0.07
27 258 0.76
28 54 0.16
29 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAATCAA
Done.