Multiple sequence alignment - TraesCS2A01G488100

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2A01G488100 chr2A 100.000 2945 0 0 1 2945 722566392 722563448 0.000000e+00 5439.0
1 TraesCS2A01G488100 chr2A 72.575 299 72 9 479 771 263218414 263218120 4.040000e-14 89.8
2 TraesCS2A01G488100 chr2D 94.271 1187 47 8 681 1856 587740103 587738927 0.000000e+00 1796.0
3 TraesCS2A01G488100 chr2D 96.467 651 14 5 2300 2945 587738344 587737698 0.000000e+00 1066.0
4 TraesCS2A01G488100 chr2D 90.415 699 56 5 3 690 587741424 587740726 0.000000e+00 909.0
5 TraesCS2A01G488100 chr2D 98.507 201 3 0 1908 2108 587738537 587738337 3.610000e-94 355.0
6 TraesCS2A01G488100 chr2D 77.720 193 38 4 676 866 555950542 555950353 2.400000e-21 113.0
7 TraesCS2A01G488100 chr2D 82.500 80 12 1 2335 2412 225272431 225272352 5.270000e-08 69.4
8 TraesCS2A01G488100 chr2B 92.678 997 50 10 890 1864 710325384 710324389 0.000000e+00 1415.0
9 TraesCS2A01G488100 chr2B 89.692 650 50 11 2302 2945 710324107 710323469 0.000000e+00 813.0
10 TraesCS2A01G488100 chr2B 93.519 216 12 1 1886 2101 710324325 710324112 1.320000e-83 320.0
11 TraesCS2A01G488100 chr2B 93.333 45 3 0 2385 2429 37012528 37012572 1.890000e-07 67.6
12 TraesCS2A01G488100 chr4A 98.446 193 3 0 2107 2299 136617831 136618023 1.010000e-89 340.0
13 TraesCS2A01G488100 chr4A 94.811 212 9 2 2090 2299 564145180 564144969 2.190000e-86 329.0
14 TraesCS2A01G488100 chr4A 71.308 474 106 23 417 873 4144992 4144532 8.690000e-16 95.3
15 TraesCS2A01G488100 chr3D 97.382 191 5 0 2109 2299 40793807 40793997 2.830000e-85 326.0
16 TraesCS2A01G488100 chr3D 95.361 194 9 0 2109 2302 337532050 337532243 2.850000e-80 309.0
17 TraesCS2A01G488100 chr7A 96.354 192 7 0 2109 2300 686003967 686003776 1.700000e-82 316.0
18 TraesCS2A01G488100 chr5D 95.833 192 8 0 2108 2299 420900875 420901066 7.930000e-81 311.0
19 TraesCS2A01G488100 chr3A 95.833 192 8 0 2108 2299 693067053 693066862 7.930000e-81 311.0
20 TraesCS2A01G488100 chr3A 94.089 203 12 0 2104 2306 71784050 71783848 2.850000e-80 309.0
21 TraesCS2A01G488100 chr3A 73.273 333 80 7 572 901 381301088 381300762 2.400000e-21 113.0
22 TraesCS2A01G488100 chr6D 95.812 191 8 0 2109 2299 418875373 418875183 2.850000e-80 309.0
23 TraesCS2A01G488100 chr7D 73.793 290 74 2 584 871 62683132 62683421 2.400000e-21 113.0
24 TraesCS2A01G488100 chr6B 74.892 231 55 2 584 813 8651929 8652157 5.190000e-18 102.0
25 TraesCS2A01G488100 chr1B 76.847 203 34 9 2330 2528 111663736 111663929 5.190000e-18 102.0
26 TraesCS2A01G488100 chr1B 81.818 110 18 1 706 815 305148557 305148664 1.120000e-14 91.6
27 TraesCS2A01G488100 chr5B 73.622 254 63 4 618 869 639419807 639419556 8.690000e-16 95.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G488100 chr2A 722563448 722566392 2944 True 5439.000000 5439 100.000 1 2945 1 chr2A.!!$R2 2944
1 TraesCS2A01G488100 chr2D 587737698 587741424 3726 True 1031.500000 1796 94.915 3 2945 4 chr2D.!!$R3 2942
2 TraesCS2A01G488100 chr2B 710323469 710325384 1915 True 849.333333 1415 91.963 890 2945 3 chr2B.!!$R1 2055

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
28 29 0.100146 GGGTCAGTACTACTTCGGCG 59.900 60.0 0.0 0.0 0.00 6.46 F
181 182 0.179234 TCACCGACTTTCCAGTTGCA 59.821 50.0 0.0 0.0 33.37 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1640 2308 0.540830 ACGACTCCTGCTTCTCCAGT 60.541 55.0 0.00 0.0 0.00 4.00 R
2111 3124 1.048724 CCTCCCTAGTGGAATCGCCA 61.049 60.0 2.15 0.0 44.57 5.69 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 0.100146 GGGTCAGTACTACTTCGGCG 59.900 60.000 0.00 0.00 0.00 6.46
65 66 0.533308 TCCGTTGTTTTGGGAGGACG 60.533 55.000 0.00 0.00 0.00 4.79
67 68 1.540797 CCGTTGTTTTGGGAGGACGTA 60.541 52.381 0.00 0.00 0.00 3.57
85 86 6.497259 AGGACGTATAGGTATGATTGTCCATT 59.503 38.462 10.34 0.00 45.45 3.16
92 93 8.685257 ATAGGTATGATTGTCCATTCATCCTA 57.315 34.615 19.07 19.07 36.63 2.94
103 104 4.023107 TCCATTCATCCTATCGTCGTCTTC 60.023 45.833 0.00 0.00 0.00 2.87
110 111 2.879026 CCTATCGTCGTCTTCATCTCCA 59.121 50.000 0.00 0.00 0.00 3.86
144 145 3.705961 TCCTTCAGGTTCGACTCAGTCG 61.706 54.545 21.74 21.74 45.40 4.18
165 166 1.078759 CACTTCCCGACAGCGATCAC 61.079 60.000 0.00 0.00 40.82 3.06
166 167 1.519455 CTTCCCGACAGCGATCACC 60.519 63.158 0.00 0.00 40.82 4.02
181 182 0.179234 TCACCGACTTTCCAGTTGCA 59.821 50.000 0.00 0.00 33.37 4.08
197 199 6.212388 TCCAGTTGCATGTATGGGTAAATTTT 59.788 34.615 0.00 0.00 33.45 1.82
222 224 1.068474 CCAACGACGATGTGGAACTC 58.932 55.000 0.00 0.00 38.04 3.01
234 236 0.611618 TGGAACTCCAATGCGGCATT 60.612 50.000 21.87 21.87 44.35 3.56
240 242 4.172346 CAATGCGGCATTGGTGTG 57.828 55.556 36.34 19.53 45.03 3.82
241 243 2.095847 CAATGCGGCATTGGTGTGC 61.096 57.895 36.34 0.00 45.03 4.57
289 291 6.656693 AGGATTGAGGATTCTACTTTGTTGTG 59.343 38.462 0.00 0.00 0.00 3.33
435 444 6.748333 ATTCTTGATGCTTCTTTCGATCAA 57.252 33.333 0.88 0.00 34.47 2.57
444 453 5.142962 GCTTCTTTCGATCAAGACTTGTTG 58.857 41.667 14.75 6.84 32.28 3.33
453 462 3.042682 TCAAGACTTGTTGAGGGGTACA 58.957 45.455 14.75 0.00 32.54 2.90
454 463 3.071023 TCAAGACTTGTTGAGGGGTACAG 59.929 47.826 14.75 0.00 32.54 2.74
456 465 0.400594 ACTTGTTGAGGGGTACAGCC 59.599 55.000 0.00 0.00 0.00 4.85
457 466 0.673644 CTTGTTGAGGGGTACAGCCG 60.674 60.000 0.00 0.00 38.44 5.52
475 484 0.595567 CGCAGCTGCTCTGAGAGATC 60.596 60.000 34.22 3.31 45.72 2.75
526 535 4.271696 TGGAGACTTGATTGGTGTACAG 57.728 45.455 0.00 0.00 0.00 2.74
527 536 3.007940 TGGAGACTTGATTGGTGTACAGG 59.992 47.826 0.00 0.00 0.00 4.00
531 540 1.812571 CTTGATTGGTGTACAGGTGCC 59.187 52.381 0.00 0.00 0.00 5.01
540 549 1.899814 TGTACAGGTGCCCTAACAGAG 59.100 52.381 0.00 0.00 29.64 3.35
580 592 0.535102 ATTATCCCGAGCGCAAAGGG 60.535 55.000 23.54 23.54 46.40 3.95
611 623 2.921754 GTCGACTTGTTATCAACTCGGG 59.078 50.000 8.70 0.00 38.98 5.14
621 633 5.878116 TGTTATCAACTCGGGTAATTTGGAG 59.122 40.000 0.00 0.00 0.00 3.86
628 640 4.472108 ACTCGGGTAATTTGGAGGTCATTA 59.528 41.667 0.00 0.00 0.00 1.90
657 669 0.687757 AGAGCGGAGGAACCTATGCA 60.688 55.000 15.64 0.00 36.31 3.96
659 671 0.687757 AGCGGAGGAACCTATGCAGA 60.688 55.000 15.64 0.00 36.31 4.26
700 1348 5.726980 TTATGATTGCTATCATTTGGCCC 57.273 39.130 25.11 0.00 46.88 5.80
711 1359 2.896685 TCATTTGGCCCGTGATTTTTCT 59.103 40.909 0.00 0.00 0.00 2.52
732 1380 9.921637 TTTTCTTTCACTAGTTTTGAACATTGT 57.078 25.926 0.00 0.00 32.65 2.71
808 1456 3.900941 ACGACAAATGATTGGTTTGAGC 58.099 40.909 5.69 0.00 41.01 4.26
824 1472 3.920231 TGAGCAGCCTCTCAATGTTAT 57.080 42.857 3.30 0.00 39.89 1.89
842 1490 6.276832 TGTTATTGTACCACTCCTACTGAC 57.723 41.667 0.00 0.00 0.00 3.51
846 1494 3.693807 TGTACCACTCCTACTGACGATT 58.306 45.455 0.00 0.00 0.00 3.34
938 1586 3.054802 AGTGAGTAAGCCAGCTTAGCATT 60.055 43.478 12.26 8.02 38.95 3.56
1079 1729 1.371558 GTTCCACGTGGAGGCTCTT 59.628 57.895 34.25 0.00 46.36 2.85
1210 1860 4.486090 GACGTGATACTCAGCAAGAAGAA 58.514 43.478 0.00 0.00 0.00 2.52
1446 2111 3.414700 CTGTGGTTCCAGCGACGC 61.415 66.667 13.03 13.03 0.00 5.19
1469 2134 3.462678 GCCGTGGAGGAGGAGGTC 61.463 72.222 0.00 0.00 45.00 3.85
1528 2193 1.194781 TGTTGGCTGGAGGAGGAGAC 61.195 60.000 0.00 0.00 0.00 3.36
1640 2308 3.135994 GAGGTTCCACGCAAAGTTCTTA 58.864 45.455 0.00 0.00 0.00 2.10
1720 2388 1.445066 CGAGATCCATGGCGATCCG 60.445 63.158 6.96 8.15 39.67 4.18
1815 2487 4.761235 ATTTGATGTTGAGCAGTGAGTG 57.239 40.909 0.00 0.00 0.00 3.51
1860 2532 1.808411 GTGCCTCGAAATTGGAGTCA 58.192 50.000 4.39 0.00 0.00 3.41
1864 2536 4.394920 GTGCCTCGAAATTGGAGTCATTTA 59.605 41.667 4.39 0.00 0.00 1.40
1865 2537 5.007034 TGCCTCGAAATTGGAGTCATTTAA 58.993 37.500 4.39 0.00 0.00 1.52
1866 2538 5.652014 TGCCTCGAAATTGGAGTCATTTAAT 59.348 36.000 4.39 0.00 0.00 1.40
1867 2539 6.152661 TGCCTCGAAATTGGAGTCATTTAATT 59.847 34.615 4.39 0.00 0.00 1.40
1878 2580 6.038825 TGGAGTCATTTAATTTTCGTGTGTGT 59.961 34.615 0.00 0.00 0.00 3.72
1884 2586 3.840890 AATTTTCGTGTGTGTGTGTGT 57.159 38.095 0.00 0.00 0.00 3.72
1912 2922 1.741145 CATGTAAGGTTGGGTTACGGC 59.259 52.381 0.00 0.00 33.75 5.68
1921 2931 2.884207 GGTTACGGCCGAAGCGAG 60.884 66.667 35.90 0.00 41.24 5.03
1955 2965 5.934625 CGGGAGGTCAAGAAATAATATCAGG 59.065 44.000 0.00 0.00 0.00 3.86
2107 3120 3.548745 TGCATGAACACCCATCTAGAG 57.451 47.619 0.00 0.00 0.00 2.43
2108 3121 2.216898 GCATGAACACCCATCTAGAGC 58.783 52.381 0.00 0.00 0.00 4.09
2109 3122 2.420547 GCATGAACACCCATCTAGAGCA 60.421 50.000 0.00 0.00 0.00 4.26
2110 3123 3.464907 CATGAACACCCATCTAGAGCAG 58.535 50.000 0.00 0.00 0.00 4.24
2111 3124 2.540383 TGAACACCCATCTAGAGCAGT 58.460 47.619 0.00 0.00 0.00 4.40
2112 3125 2.234661 TGAACACCCATCTAGAGCAGTG 59.765 50.000 14.15 14.15 0.00 3.66
2113 3126 1.198713 ACACCCATCTAGAGCAGTGG 58.801 55.000 17.99 11.85 0.00 4.00
2114 3127 0.179062 CACCCATCTAGAGCAGTGGC 60.179 60.000 4.77 0.00 41.61 5.01
2128 3141 4.798585 TGGCGATTCCACTAGGGA 57.201 55.556 0.00 0.00 46.61 4.20
2136 3149 3.807309 TCCACTAGGGAGGCTTCAA 57.193 52.632 0.00 0.00 42.15 2.69
2137 3150 2.270434 TCCACTAGGGAGGCTTCAAT 57.730 50.000 0.00 0.00 42.15 2.57
2138 3151 3.414759 TCCACTAGGGAGGCTTCAATA 57.585 47.619 0.00 0.00 42.15 1.90
2139 3152 3.309296 TCCACTAGGGAGGCTTCAATAG 58.691 50.000 0.00 1.75 42.15 1.73
2140 3153 2.370189 CCACTAGGGAGGCTTCAATAGG 59.630 54.545 0.00 0.00 40.01 2.57
2159 3172 2.801077 GCTTAAGCCTACCCTCCAAA 57.199 50.000 17.00 0.00 34.31 3.28
2160 3173 3.081710 GCTTAAGCCTACCCTCCAAAA 57.918 47.619 17.00 0.00 34.31 2.44
2161 3174 3.632333 GCTTAAGCCTACCCTCCAAAAT 58.368 45.455 17.00 0.00 34.31 1.82
2162 3175 3.632604 GCTTAAGCCTACCCTCCAAAATC 59.367 47.826 17.00 0.00 34.31 2.17
2163 3176 4.855340 CTTAAGCCTACCCTCCAAAATCA 58.145 43.478 0.00 0.00 0.00 2.57
2164 3177 5.449553 CTTAAGCCTACCCTCCAAAATCAT 58.550 41.667 0.00 0.00 0.00 2.45
2165 3178 6.584471 TTAAGCCTACCCTCCAAAATCATA 57.416 37.500 0.00 0.00 0.00 2.15
2166 3179 5.669798 AAGCCTACCCTCCAAAATCATAT 57.330 39.130 0.00 0.00 0.00 1.78
2167 3180 5.669798 AGCCTACCCTCCAAAATCATATT 57.330 39.130 0.00 0.00 0.00 1.28
2168 3181 6.030727 AGCCTACCCTCCAAAATCATATTT 57.969 37.500 0.00 0.00 0.00 1.40
2169 3182 7.161715 AGCCTACCCTCCAAAATCATATTTA 57.838 36.000 0.00 0.00 0.00 1.40
2170 3183 7.591821 AGCCTACCCTCCAAAATCATATTTAA 58.408 34.615 0.00 0.00 0.00 1.52
2171 3184 7.725844 AGCCTACCCTCCAAAATCATATTTAAG 59.274 37.037 0.00 0.00 0.00 1.85
2172 3185 7.523873 GCCTACCCTCCAAAATCATATTTAAGC 60.524 40.741 0.00 0.00 0.00 3.09
2173 3186 7.725844 CCTACCCTCCAAAATCATATTTAAGCT 59.274 37.037 0.00 0.00 0.00 3.74
2174 3187 9.793259 CTACCCTCCAAAATCATATTTAAGCTA 57.207 33.333 0.00 0.00 0.00 3.32
2176 3189 9.487442 ACCCTCCAAAATCATATTTAAGCTAAA 57.513 29.630 0.00 0.00 0.00 1.85
2177 3190 9.750125 CCCTCCAAAATCATATTTAAGCTAAAC 57.250 33.333 0.00 0.00 0.00 2.01
2205 3218 7.538575 ACAACTTGACAAATATATTCTGGTGC 58.461 34.615 0.00 0.00 0.00 5.01
2206 3219 7.394359 ACAACTTGACAAATATATTCTGGTGCT 59.606 33.333 0.00 0.00 0.00 4.40
2207 3220 7.944729 ACTTGACAAATATATTCTGGTGCTT 57.055 32.000 0.00 0.00 0.00 3.91
2208 3221 8.353423 ACTTGACAAATATATTCTGGTGCTTT 57.647 30.769 0.00 0.00 0.00 3.51
2209 3222 9.461312 ACTTGACAAATATATTCTGGTGCTTTA 57.539 29.630 0.00 0.00 0.00 1.85
2210 3223 9.722056 CTTGACAAATATATTCTGGTGCTTTAC 57.278 33.333 0.00 0.00 0.00 2.01
2211 3224 8.800370 TGACAAATATATTCTGGTGCTTTACA 57.200 30.769 0.00 0.00 0.00 2.41
2212 3225 9.407380 TGACAAATATATTCTGGTGCTTTACAT 57.593 29.630 0.00 0.00 0.00 2.29
2213 3226 9.669353 GACAAATATATTCTGGTGCTTTACATG 57.331 33.333 0.00 0.00 0.00 3.21
2214 3227 8.137437 ACAAATATATTCTGGTGCTTTACATGC 58.863 33.333 0.00 0.00 0.00 4.06
2215 3228 7.822161 AATATATTCTGGTGCTTTACATGCA 57.178 32.000 0.00 0.00 38.19 3.96
2216 3229 7.822161 ATATATTCTGGTGCTTTACATGCAA 57.178 32.000 0.00 0.00 42.41 4.08
2223 3236 5.761818 GGTGCTTTACATGCAACAATTAC 57.238 39.130 0.00 0.00 46.39 1.89
2224 3237 5.226396 GGTGCTTTACATGCAACAATTACA 58.774 37.500 0.00 0.00 46.39 2.41
2225 3238 5.118510 GGTGCTTTACATGCAACAATTACAC 59.881 40.000 0.00 0.00 46.39 2.90
2226 3239 5.920273 GTGCTTTACATGCAACAATTACACT 59.080 36.000 0.00 0.00 42.41 3.55
2227 3240 5.919707 TGCTTTACATGCAACAATTACACTG 59.080 36.000 0.00 0.00 37.51 3.66
2228 3241 5.164061 GCTTTACATGCAACAATTACACTGC 60.164 40.000 0.00 0.00 35.32 4.40
2234 3247 3.493877 TGCAACAATTACACTGCATTTGC 59.506 39.130 0.00 0.00 39.77 3.68
2235 3248 3.742369 GCAACAATTACACTGCATTTGCT 59.258 39.130 3.94 0.00 42.66 3.91
2236 3249 4.922692 GCAACAATTACACTGCATTTGCTA 59.077 37.500 3.94 0.00 42.66 3.49
2237 3250 5.404968 GCAACAATTACACTGCATTTGCTAA 59.595 36.000 3.94 0.00 42.66 3.09
2238 3251 6.091169 GCAACAATTACACTGCATTTGCTAAT 59.909 34.615 3.94 0.00 42.66 1.73
2239 3252 7.360269 GCAACAATTACACTGCATTTGCTAATT 60.360 33.333 3.94 3.46 42.66 1.40
2240 3253 9.138062 CAACAATTACACTGCATTTGCTAATTA 57.862 29.630 3.94 0.00 42.66 1.40
2241 3254 8.915871 ACAATTACACTGCATTTGCTAATTAG 57.084 30.769 8.20 8.20 42.66 1.73
2242 3255 8.739039 ACAATTACACTGCATTTGCTAATTAGA 58.261 29.630 16.85 0.00 42.66 2.10
2243 3256 9.013490 CAATTACACTGCATTTGCTAATTAGAC 57.987 33.333 16.85 8.12 42.66 2.59
2244 3257 7.921786 TTACACTGCATTTGCTAATTAGACT 57.078 32.000 16.85 0.00 42.66 3.24
2245 3258 6.824305 ACACTGCATTTGCTAATTAGACTT 57.176 33.333 16.85 0.00 42.66 3.01
2246 3259 7.921786 ACACTGCATTTGCTAATTAGACTTA 57.078 32.000 16.85 0.00 42.66 2.24
2247 3260 7.752695 ACACTGCATTTGCTAATTAGACTTAC 58.247 34.615 16.85 0.00 42.66 2.34
2248 3261 6.901887 CACTGCATTTGCTAATTAGACTTACG 59.098 38.462 16.85 0.91 42.66 3.18
2249 3262 6.816640 ACTGCATTTGCTAATTAGACTTACGA 59.183 34.615 16.85 0.00 42.66 3.43
2250 3263 7.333423 ACTGCATTTGCTAATTAGACTTACGAA 59.667 33.333 16.85 4.67 42.66 3.85
2251 3264 8.035165 TGCATTTGCTAATTAGACTTACGAAA 57.965 30.769 16.85 4.76 42.66 3.46
2252 3265 8.673711 TGCATTTGCTAATTAGACTTACGAAAT 58.326 29.630 16.85 6.53 42.66 2.17
2253 3266 9.503427 GCATTTGCTAATTAGACTTACGAAATT 57.497 29.630 16.85 0.00 38.21 1.82
2266 3279 9.836076 AGACTTACGAAATTTATGTTTTAAGCC 57.164 29.630 0.00 0.00 0.00 4.35
2267 3280 9.836076 GACTTACGAAATTTATGTTTTAAGCCT 57.164 29.630 0.00 0.00 0.00 4.58
2271 3284 7.541162 ACGAAATTTATGTTTTAAGCCTACCC 58.459 34.615 0.00 0.00 0.00 3.69
2272 3285 7.395206 ACGAAATTTATGTTTTAAGCCTACCCT 59.605 33.333 0.00 0.00 0.00 4.34
2273 3286 7.913821 CGAAATTTATGTTTTAAGCCTACCCTC 59.086 37.037 0.00 0.00 0.00 4.30
2274 3287 7.655521 AATTTATGTTTTAAGCCTACCCTCC 57.344 36.000 0.00 0.00 0.00 4.30
2275 3288 5.782677 TTATGTTTTAAGCCTACCCTCCA 57.217 39.130 0.00 0.00 0.00 3.86
2276 3289 4.668138 ATGTTTTAAGCCTACCCTCCAA 57.332 40.909 0.00 0.00 0.00 3.53
2277 3290 4.668138 TGTTTTAAGCCTACCCTCCAAT 57.332 40.909 0.00 0.00 0.00 3.16
2278 3291 4.340617 TGTTTTAAGCCTACCCTCCAATG 58.659 43.478 0.00 0.00 0.00 2.82
2279 3292 4.202631 TGTTTTAAGCCTACCCTCCAATGT 60.203 41.667 0.00 0.00 0.00 2.71
2280 3293 3.926058 TTAAGCCTACCCTCCAATGTC 57.074 47.619 0.00 0.00 0.00 3.06
2281 3294 0.919710 AAGCCTACCCTCCAATGTCC 59.080 55.000 0.00 0.00 0.00 4.02
2282 3295 0.044855 AGCCTACCCTCCAATGTCCT 59.955 55.000 0.00 0.00 0.00 3.85
2283 3296 0.181350 GCCTACCCTCCAATGTCCTG 59.819 60.000 0.00 0.00 0.00 3.86
2284 3297 0.181350 CCTACCCTCCAATGTCCTGC 59.819 60.000 0.00 0.00 0.00 4.85
2285 3298 1.207791 CTACCCTCCAATGTCCTGCT 58.792 55.000 0.00 0.00 0.00 4.24
2286 3299 2.398588 CTACCCTCCAATGTCCTGCTA 58.601 52.381 0.00 0.00 0.00 3.49
2287 3300 1.207791 ACCCTCCAATGTCCTGCTAG 58.792 55.000 0.00 0.00 0.00 3.42
2288 3301 1.273838 ACCCTCCAATGTCCTGCTAGA 60.274 52.381 0.00 0.00 0.00 2.43
2289 3302 2.053244 CCCTCCAATGTCCTGCTAGAT 58.947 52.381 0.00 0.00 0.00 1.98
2290 3303 2.441001 CCCTCCAATGTCCTGCTAGATT 59.559 50.000 0.00 0.00 0.00 2.40
2291 3304 3.495806 CCCTCCAATGTCCTGCTAGATTC 60.496 52.174 0.00 0.00 0.00 2.52
2292 3305 3.388308 CTCCAATGTCCTGCTAGATTCG 58.612 50.000 0.00 0.00 0.00 3.34
2293 3306 1.869767 CCAATGTCCTGCTAGATTCGC 59.130 52.381 0.00 0.00 0.00 4.70
2294 3307 1.869767 CAATGTCCTGCTAGATTCGCC 59.130 52.381 0.00 0.00 0.00 5.54
2295 3308 1.123077 ATGTCCTGCTAGATTCGCCA 58.877 50.000 0.00 0.00 0.00 5.69
2296 3309 0.175760 TGTCCTGCTAGATTCGCCAC 59.824 55.000 0.00 0.00 0.00 5.01
2297 3310 0.461961 GTCCTGCTAGATTCGCCACT 59.538 55.000 0.00 0.00 0.00 4.00
2298 3311 0.461548 TCCTGCTAGATTCGCCACTG 59.538 55.000 0.00 0.00 0.00 3.66
2299 3312 0.461548 CCTGCTAGATTCGCCACTGA 59.538 55.000 0.00 0.00 0.00 3.41
2300 3313 1.069823 CCTGCTAGATTCGCCACTGAT 59.930 52.381 0.00 0.00 0.00 2.90
2301 3314 2.402305 CTGCTAGATTCGCCACTGATC 58.598 52.381 0.00 0.00 0.00 2.92
2302 3315 2.034878 TGCTAGATTCGCCACTGATCT 58.965 47.619 0.00 0.00 0.00 2.75
2303 3316 3.222603 TGCTAGATTCGCCACTGATCTA 58.777 45.455 0.00 0.00 0.00 1.98
2304 3317 3.254411 TGCTAGATTCGCCACTGATCTAG 59.746 47.826 12.84 12.84 42.07 2.43
2305 3318 3.504134 GCTAGATTCGCCACTGATCTAGA 59.496 47.826 18.72 0.00 41.85 2.43
2556 3572 5.456497 CACTTTGCGCACTATTATGAAATGG 59.544 40.000 11.12 0.00 0.00 3.16
2688 3704 7.125113 GTCGGAAATTAGTTGACGTTTAAACA 58.875 34.615 18.07 0.00 0.00 2.83
2700 3716 7.041635 TGACGTTTAAACAGATATATCCCGA 57.958 36.000 18.07 0.00 0.00 5.14
2823 3839 4.637483 ATGCTATGATTTTGGTTGACGG 57.363 40.909 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.430042 AGTAGTACTGACCCTGACGAA 57.570 47.619 5.39 0.00 0.00 3.85
3 4 3.341823 GAAGTAGTACTGACCCTGACGA 58.658 50.000 5.39 0.00 0.00 4.20
4 5 2.095532 CGAAGTAGTACTGACCCTGACG 59.904 54.545 5.39 3.23 0.00 4.35
5 6 2.422832 CCGAAGTAGTACTGACCCTGAC 59.577 54.545 5.39 0.00 0.00 3.51
17 18 1.508088 CCGTTACCGCCGAAGTAGT 59.492 57.895 0.00 0.00 0.00 2.73
28 29 1.398041 GGAATAACCAACGCCGTTACC 59.602 52.381 0.45 0.00 38.79 2.85
37 38 4.052608 CCCAAAACAACGGAATAACCAAC 58.947 43.478 0.00 0.00 38.90 3.77
65 66 8.543774 AGGATGAATGGACAATCATACCTATAC 58.456 37.037 8.58 0.00 37.57 1.47
67 68 7.579940 AGGATGAATGGACAATCATACCTAT 57.420 36.000 8.58 0.00 37.57 2.57
85 86 4.390264 AGATGAAGACGACGATAGGATGA 58.610 43.478 0.00 0.00 43.77 2.92
92 93 2.690497 ACATGGAGATGAAGACGACGAT 59.310 45.455 0.00 0.00 33.36 3.73
144 145 3.665675 ATCGCTGTCGGGAAGTGCC 62.666 63.158 0.00 0.00 35.59 5.01
154 155 0.992802 GAAAGTCGGTGATCGCTGTC 59.007 55.000 14.62 9.44 39.05 3.51
158 159 0.389948 ACTGGAAAGTCGGTGATCGC 60.390 55.000 0.00 0.00 39.05 4.58
160 161 1.464997 GCAACTGGAAAGTCGGTGATC 59.535 52.381 0.00 0.00 0.00 2.92
165 166 1.238439 ACATGCAACTGGAAAGTCGG 58.762 50.000 0.00 0.00 0.00 4.79
166 167 3.181507 CCATACATGCAACTGGAAAGTCG 60.182 47.826 0.00 0.00 0.00 4.18
215 217 0.611618 AATGCCGCATTGGAGTTCCA 60.612 50.000 17.85 0.00 45.94 3.53
240 242 2.581409 GCTGCACATGCGAATGGC 60.581 61.111 8.61 9.00 45.83 4.40
241 243 1.435925 ATGCTGCACATGCGAATGG 59.564 52.632 8.61 0.00 45.83 3.16
254 256 3.555527 TCCTCAATCCTCTTCATGCTG 57.444 47.619 0.00 0.00 0.00 4.41
289 291 4.639334 AGGACCGTAAAAGAAAGGAAGAC 58.361 43.478 0.00 0.00 0.00 3.01
415 424 5.350914 AGTCTTGATCGAAAGAAGCATCAAG 59.649 40.000 12.69 12.69 46.84 3.02
435 444 1.348036 GCTGTACCCCTCAACAAGTCT 59.652 52.381 0.00 0.00 0.00 3.24
444 453 4.840005 GCTGCGGCTGTACCCCTC 62.840 72.222 11.21 0.00 35.22 4.30
456 465 4.476640 ATGATCTCTCAGAGCAGCTGCG 62.477 54.545 31.78 18.73 44.49 5.18
457 466 0.460722 TGATCTCTCAGAGCAGCTGC 59.539 55.000 31.53 31.53 44.52 5.25
458 467 4.587584 TTATGATCTCTCAGAGCAGCTG 57.412 45.455 10.11 10.11 44.49 4.24
459 468 4.039488 CCTTTATGATCTCTCAGAGCAGCT 59.961 45.833 0.00 0.00 44.49 4.24
475 484 7.712205 CCCCTCAGCAATAAAATTTCCTTTATG 59.288 37.037 0.00 0.00 32.92 1.90
495 504 2.631384 TCAAGTCTCCATTTCCCCTCA 58.369 47.619 0.00 0.00 0.00 3.86
499 508 3.445096 CACCAATCAAGTCTCCATTTCCC 59.555 47.826 0.00 0.00 0.00 3.97
531 540 0.815615 GCGCCAATCCCTCTGTTAGG 60.816 60.000 0.00 0.00 46.09 2.69
540 549 0.307760 CAAATCGTAGCGCCAATCCC 59.692 55.000 2.29 0.00 0.00 3.85
542 551 1.295792 TCCAAATCGTAGCGCCAATC 58.704 50.000 2.29 0.00 0.00 2.67
580 592 2.031163 AAGTCGACTGCACCCAGC 59.969 61.111 20.85 0.00 43.02 4.85
621 633 5.296780 TCCGCTCTTCATGATTTTAATGACC 59.703 40.000 0.00 0.00 33.84 4.02
628 640 3.634397 TCCTCCGCTCTTCATGATTTT 57.366 42.857 0.00 0.00 0.00 1.82
657 669 1.906990 AAATCACTGCTGCTGCTTCT 58.093 45.000 17.00 0.00 40.48 2.85
690 702 2.896685 AGAAAAATCACGGGCCAAATGA 59.103 40.909 4.39 5.01 0.00 2.57
756 1404 6.153510 ACCTAGCTAATCTCGCATGATCATAA 59.846 38.462 8.15 0.00 0.00 1.90
757 1405 5.654209 ACCTAGCTAATCTCGCATGATCATA 59.346 40.000 8.15 0.00 0.00 2.15
808 1456 5.065218 GTGGTACAATAACATTGAGAGGCTG 59.935 44.000 5.92 0.00 44.16 4.85
824 1472 3.144657 TCGTCAGTAGGAGTGGTACAA 57.855 47.619 0.00 0.00 44.16 2.41
903 1551 6.039616 GGCTTACTCACTCTGACTTAGATTG 58.960 44.000 0.00 0.00 37.41 2.67
907 1555 4.676723 GCTGGCTTACTCACTCTGACTTAG 60.677 50.000 0.00 0.00 0.00 2.18
908 1556 3.193691 GCTGGCTTACTCACTCTGACTTA 59.806 47.826 0.00 0.00 0.00 2.24
938 1586 0.892755 CCGTACTGTCAGTTAGCCCA 59.107 55.000 11.54 0.00 0.00 5.36
1079 1729 0.816018 GTGAGATCGAGCTCGGGAGA 60.816 60.000 33.98 16.88 40.29 3.71
1287 1949 2.496817 GGCGATCTTGCTCGTCCT 59.503 61.111 0.00 0.00 40.73 3.85
1352 2017 4.162690 GCGTCCAGCCGATCCCTT 62.163 66.667 0.00 0.00 40.81 3.95
1469 2134 4.337060 TCGTCGCACACCTCCACG 62.337 66.667 0.00 0.00 0.00 4.94
1558 2223 4.273257 GACTAGCCTCGCCCTCGC 62.273 72.222 0.00 0.00 35.26 5.03
1640 2308 0.540830 ACGACTCCTGCTTCTCCAGT 60.541 55.000 0.00 0.00 0.00 4.00
1815 2487 1.329906 CGAAGAGCTGCACCATGAATC 59.670 52.381 1.02 0.00 0.00 2.52
1860 2532 6.252441 CACACACACACACACGAAAATTAAAT 59.748 34.615 0.00 0.00 0.00 1.40
1864 2536 3.057876 ACACACACACACACACGAAAATT 60.058 39.130 0.00 0.00 0.00 1.82
1865 2537 2.486203 ACACACACACACACACGAAAAT 59.514 40.909 0.00 0.00 0.00 1.82
1866 2538 1.874231 ACACACACACACACACGAAAA 59.126 42.857 0.00 0.00 0.00 2.29
1867 2539 1.195674 CACACACACACACACACGAAA 59.804 47.619 0.00 0.00 0.00 3.46
1878 2580 4.071423 CCTTACATGAATCCACACACACA 58.929 43.478 0.00 0.00 0.00 3.72
1884 2586 3.075283 ACCCAACCTTACATGAATCCACA 59.925 43.478 0.00 0.00 0.00 4.17
1921 2931 5.277857 TCTTGACCTCCCGAAGAATAATC 57.722 43.478 0.00 0.00 0.00 1.75
2111 3124 1.048724 CCTCCCTAGTGGAATCGCCA 61.049 60.000 2.15 0.00 44.57 5.69
2112 3125 1.749033 CCTCCCTAGTGGAATCGCC 59.251 63.158 2.15 0.00 44.57 5.54
2113 3126 1.069935 GCCTCCCTAGTGGAATCGC 59.930 63.158 2.15 1.42 44.57 4.58
2114 3127 1.069358 GAAGCCTCCCTAGTGGAATCG 59.931 57.143 2.15 0.00 44.57 3.34
2115 3128 2.119495 TGAAGCCTCCCTAGTGGAATC 58.881 52.381 2.15 0.68 44.57 2.52
2116 3129 2.270434 TGAAGCCTCCCTAGTGGAAT 57.730 50.000 2.15 0.00 44.57 3.01
2117 3130 2.038863 TTGAAGCCTCCCTAGTGGAA 57.961 50.000 2.15 0.00 44.57 3.53
2118 3131 2.270434 ATTGAAGCCTCCCTAGTGGA 57.730 50.000 0.71 0.71 42.41 4.02
2119 3132 2.370189 CCTATTGAAGCCTCCCTAGTGG 59.630 54.545 0.00 0.00 0.00 4.00
2120 3133 2.224402 GCCTATTGAAGCCTCCCTAGTG 60.224 54.545 0.00 0.00 0.00 2.74
2121 3134 2.050918 GCCTATTGAAGCCTCCCTAGT 58.949 52.381 0.00 0.00 0.00 2.57
2122 3135 2.334023 AGCCTATTGAAGCCTCCCTAG 58.666 52.381 0.00 0.00 0.00 3.02
2123 3136 2.496679 AGCCTATTGAAGCCTCCCTA 57.503 50.000 0.00 0.00 0.00 3.53
2124 3137 1.601248 AAGCCTATTGAAGCCTCCCT 58.399 50.000 0.00 0.00 0.00 4.20
2125 3138 3.481453 CTTAAGCCTATTGAAGCCTCCC 58.519 50.000 0.00 0.00 0.00 4.30
2126 3139 2.881513 GCTTAAGCCTATTGAAGCCTCC 59.118 50.000 17.00 0.00 38.68 4.30
2140 3153 2.801077 TTTGGAGGGTAGGCTTAAGC 57.199 50.000 19.53 19.53 41.14 3.09
2141 3154 4.855340 TGATTTTGGAGGGTAGGCTTAAG 58.145 43.478 0.00 0.00 0.00 1.85
2142 3155 4.938575 TGATTTTGGAGGGTAGGCTTAA 57.061 40.909 0.00 0.00 0.00 1.85
2143 3156 6.780198 ATATGATTTTGGAGGGTAGGCTTA 57.220 37.500 0.00 0.00 0.00 3.09
2144 3157 5.669798 ATATGATTTTGGAGGGTAGGCTT 57.330 39.130 0.00 0.00 0.00 4.35
2145 3158 5.669798 AATATGATTTTGGAGGGTAGGCT 57.330 39.130 0.00 0.00 0.00 4.58
2146 3159 7.523873 GCTTAAATATGATTTTGGAGGGTAGGC 60.524 40.741 0.00 0.00 0.00 3.93
2147 3160 7.725844 AGCTTAAATATGATTTTGGAGGGTAGG 59.274 37.037 0.00 0.00 0.00 3.18
2148 3161 8.697507 AGCTTAAATATGATTTTGGAGGGTAG 57.302 34.615 0.00 0.00 0.00 3.18
2150 3163 9.487442 TTTAGCTTAAATATGATTTTGGAGGGT 57.513 29.630 0.00 0.00 0.00 4.34
2151 3164 9.750125 GTTTAGCTTAAATATGATTTTGGAGGG 57.250 33.333 0.00 0.00 0.00 4.30
2179 3192 8.673711 GCACCAGAATATATTTGTCAAGTTGTA 58.326 33.333 2.11 0.00 0.00 2.41
2180 3193 7.394359 AGCACCAGAATATATTTGTCAAGTTGT 59.606 33.333 2.11 0.00 0.00 3.32
2181 3194 7.765307 AGCACCAGAATATATTTGTCAAGTTG 58.235 34.615 0.00 0.00 0.00 3.16
2182 3195 7.944729 AGCACCAGAATATATTTGTCAAGTT 57.055 32.000 0.00 0.00 0.00 2.66
2183 3196 7.944729 AAGCACCAGAATATATTTGTCAAGT 57.055 32.000 0.00 0.00 0.00 3.16
2184 3197 9.722056 GTAAAGCACCAGAATATATTTGTCAAG 57.278 33.333 0.00 0.00 0.00 3.02
2185 3198 9.237187 TGTAAAGCACCAGAATATATTTGTCAA 57.763 29.630 0.00 0.00 0.00 3.18
2186 3199 8.800370 TGTAAAGCACCAGAATATATTTGTCA 57.200 30.769 0.00 0.00 0.00 3.58
2187 3200 9.669353 CATGTAAAGCACCAGAATATATTTGTC 57.331 33.333 0.00 0.00 0.00 3.18
2188 3201 8.137437 GCATGTAAAGCACCAGAATATATTTGT 58.863 33.333 0.00 0.00 0.00 2.83
2189 3202 8.136800 TGCATGTAAAGCACCAGAATATATTTG 58.863 33.333 0.00 0.85 37.02 2.32
2190 3203 8.236585 TGCATGTAAAGCACCAGAATATATTT 57.763 30.769 0.00 0.00 37.02 1.40
2191 3204 7.822161 TGCATGTAAAGCACCAGAATATATT 57.178 32.000 0.00 0.00 37.02 1.28
2192 3205 7.285172 TGTTGCATGTAAAGCACCAGAATATAT 59.715 33.333 0.00 0.00 42.54 0.86
2193 3206 6.601217 TGTTGCATGTAAAGCACCAGAATATA 59.399 34.615 0.00 0.00 42.54 0.86
2194 3207 5.418524 TGTTGCATGTAAAGCACCAGAATAT 59.581 36.000 0.00 0.00 42.54 1.28
2195 3208 4.764308 TGTTGCATGTAAAGCACCAGAATA 59.236 37.500 0.00 0.00 42.54 1.75
2196 3209 3.573538 TGTTGCATGTAAAGCACCAGAAT 59.426 39.130 0.00 0.00 42.54 2.40
2197 3210 2.954989 TGTTGCATGTAAAGCACCAGAA 59.045 40.909 0.00 0.00 42.54 3.02
2198 3211 2.580962 TGTTGCATGTAAAGCACCAGA 58.419 42.857 0.00 0.00 42.54 3.86
2199 3212 3.367992 TTGTTGCATGTAAAGCACCAG 57.632 42.857 0.00 0.00 42.54 4.00
2200 3213 4.333913 AATTGTTGCATGTAAAGCACCA 57.666 36.364 0.00 0.00 42.54 4.17
2201 3214 5.118510 GTGTAATTGTTGCATGTAAAGCACC 59.881 40.000 0.00 0.00 42.54 5.01
2202 3215 5.920273 AGTGTAATTGTTGCATGTAAAGCAC 59.080 36.000 0.00 2.32 42.54 4.40
2203 3216 5.919707 CAGTGTAATTGTTGCATGTAAAGCA 59.080 36.000 0.00 0.00 40.85 3.91
2204 3217 5.164061 GCAGTGTAATTGTTGCATGTAAAGC 60.164 40.000 0.00 0.00 36.59 3.51
2205 3218 5.919707 TGCAGTGTAATTGTTGCATGTAAAG 59.080 36.000 0.00 0.00 41.23 1.85
2206 3219 5.836347 TGCAGTGTAATTGTTGCATGTAAA 58.164 33.333 0.00 0.00 41.23 2.01
2207 3220 5.444663 TGCAGTGTAATTGTTGCATGTAA 57.555 34.783 0.00 0.00 41.23 2.41
2213 3226 3.742369 AGCAAATGCAGTGTAATTGTTGC 59.258 39.130 10.22 11.00 45.16 4.17
2214 3227 7.585286 ATTAGCAAATGCAGTGTAATTGTTG 57.415 32.000 10.22 2.87 45.16 3.33
2215 3228 9.357652 CTAATTAGCAAATGCAGTGTAATTGTT 57.642 29.630 10.22 7.15 45.16 2.83
2216 3229 8.739039 TCTAATTAGCAAATGCAGTGTAATTGT 58.261 29.630 7.67 1.51 45.16 2.71
2217 3230 9.013490 GTCTAATTAGCAAATGCAGTGTAATTG 57.987 33.333 7.67 4.78 45.16 2.32
2218 3231 8.960591 AGTCTAATTAGCAAATGCAGTGTAATT 58.039 29.630 7.67 10.77 45.16 1.40
2219 3232 8.511604 AGTCTAATTAGCAAATGCAGTGTAAT 57.488 30.769 7.67 0.50 45.16 1.89
2220 3233 7.921786 AGTCTAATTAGCAAATGCAGTGTAA 57.078 32.000 7.67 0.00 45.16 2.41
2221 3234 7.921786 AAGTCTAATTAGCAAATGCAGTGTA 57.078 32.000 7.67 0.00 45.16 2.90
2222 3235 6.824305 AAGTCTAATTAGCAAATGCAGTGT 57.176 33.333 7.67 0.00 45.16 3.55
2223 3236 6.901887 CGTAAGTCTAATTAGCAAATGCAGTG 59.098 38.462 7.67 0.00 45.16 3.66
2224 3237 6.816640 TCGTAAGTCTAATTAGCAAATGCAGT 59.183 34.615 7.67 0.00 40.83 4.40
2225 3238 7.234187 TCGTAAGTCTAATTAGCAAATGCAG 57.766 36.000 7.67 0.00 40.83 4.41
2226 3239 7.603963 TTCGTAAGTCTAATTAGCAAATGCA 57.396 32.000 7.67 0.00 40.83 3.96
2227 3240 9.503427 AATTTCGTAAGTCTAATTAGCAAATGC 57.497 29.630 7.67 0.00 39.28 3.56
2240 3253 9.836076 GGCTTAAAACATAAATTTCGTAAGTCT 57.164 29.630 0.00 0.00 39.48 3.24
2241 3254 9.836076 AGGCTTAAAACATAAATTTCGTAAGTC 57.164 29.630 0.00 0.00 39.48 3.01
2245 3258 8.676401 GGGTAGGCTTAAAACATAAATTTCGTA 58.324 33.333 0.00 0.00 0.00 3.43
2246 3259 7.395206 AGGGTAGGCTTAAAACATAAATTTCGT 59.605 33.333 0.00 0.00 0.00 3.85
2247 3260 7.768240 AGGGTAGGCTTAAAACATAAATTTCG 58.232 34.615 0.00 0.00 0.00 3.46
2248 3261 8.195436 GGAGGGTAGGCTTAAAACATAAATTTC 58.805 37.037 0.00 0.00 0.00 2.17
2249 3262 7.676468 TGGAGGGTAGGCTTAAAACATAAATTT 59.324 33.333 0.00 0.00 0.00 1.82
2250 3263 7.186268 TGGAGGGTAGGCTTAAAACATAAATT 58.814 34.615 0.00 0.00 0.00 1.82
2251 3264 6.737608 TGGAGGGTAGGCTTAAAACATAAAT 58.262 36.000 0.00 0.00 0.00 1.40
2252 3265 6.142259 TGGAGGGTAGGCTTAAAACATAAA 57.858 37.500 0.00 0.00 0.00 1.40
2253 3266 5.782677 TGGAGGGTAGGCTTAAAACATAA 57.217 39.130 0.00 0.00 0.00 1.90
2254 3267 5.782677 TTGGAGGGTAGGCTTAAAACATA 57.217 39.130 0.00 0.00 0.00 2.29
2255 3268 4.668138 TTGGAGGGTAGGCTTAAAACAT 57.332 40.909 0.00 0.00 0.00 2.71
2256 3269 4.202631 ACATTGGAGGGTAGGCTTAAAACA 60.203 41.667 0.00 0.00 0.00 2.83
2257 3270 4.341487 ACATTGGAGGGTAGGCTTAAAAC 58.659 43.478 0.00 0.00 0.00 2.43
2258 3271 4.569015 GGACATTGGAGGGTAGGCTTAAAA 60.569 45.833 0.00 0.00 0.00 1.52
2259 3272 3.053917 GGACATTGGAGGGTAGGCTTAAA 60.054 47.826 0.00 0.00 0.00 1.52
2260 3273 2.508300 GGACATTGGAGGGTAGGCTTAA 59.492 50.000 0.00 0.00 0.00 1.85
2261 3274 2.124411 GGACATTGGAGGGTAGGCTTA 58.876 52.381 0.00 0.00 0.00 3.09
2262 3275 0.919710 GGACATTGGAGGGTAGGCTT 59.080 55.000 0.00 0.00 0.00 4.35
2263 3276 0.044855 AGGACATTGGAGGGTAGGCT 59.955 55.000 0.00 0.00 0.00 4.58
2264 3277 0.181350 CAGGACATTGGAGGGTAGGC 59.819 60.000 0.00 0.00 0.00 3.93
2265 3278 0.181350 GCAGGACATTGGAGGGTAGG 59.819 60.000 0.00 0.00 0.00 3.18
2266 3279 1.207791 AGCAGGACATTGGAGGGTAG 58.792 55.000 0.00 0.00 0.00 3.18
2267 3280 2.023404 TCTAGCAGGACATTGGAGGGTA 60.023 50.000 0.00 0.00 0.00 3.69
2268 3281 1.207791 CTAGCAGGACATTGGAGGGT 58.792 55.000 0.00 0.00 0.00 4.34
2269 3282 1.500474 TCTAGCAGGACATTGGAGGG 58.500 55.000 0.00 0.00 0.00 4.30
2270 3283 3.737850 GAATCTAGCAGGACATTGGAGG 58.262 50.000 0.00 0.00 0.00 4.30
2271 3284 3.388308 CGAATCTAGCAGGACATTGGAG 58.612 50.000 0.00 0.00 0.00 3.86
2272 3285 2.483714 GCGAATCTAGCAGGACATTGGA 60.484 50.000 0.00 0.00 34.19 3.53
2273 3286 1.869767 GCGAATCTAGCAGGACATTGG 59.130 52.381 0.00 0.00 34.19 3.16
2274 3287 1.869767 GGCGAATCTAGCAGGACATTG 59.130 52.381 0.00 0.00 36.08 2.82
2275 3288 1.486310 TGGCGAATCTAGCAGGACATT 59.514 47.619 0.00 0.00 36.08 2.71
2276 3289 1.123077 TGGCGAATCTAGCAGGACAT 58.877 50.000 0.00 0.00 36.08 3.06
2277 3290 0.175760 GTGGCGAATCTAGCAGGACA 59.824 55.000 0.00 0.00 36.08 4.02
2278 3291 0.461961 AGTGGCGAATCTAGCAGGAC 59.538 55.000 0.00 0.00 36.08 3.85
2279 3292 0.461548 CAGTGGCGAATCTAGCAGGA 59.538 55.000 0.00 0.00 36.08 3.86
2280 3293 0.461548 TCAGTGGCGAATCTAGCAGG 59.538 55.000 0.00 0.00 36.08 4.85
2281 3294 2.035704 AGATCAGTGGCGAATCTAGCAG 59.964 50.000 0.00 0.00 36.08 4.24
2282 3295 2.034878 AGATCAGTGGCGAATCTAGCA 58.965 47.619 0.00 0.00 36.08 3.49
2283 3296 2.810439 AGATCAGTGGCGAATCTAGC 57.190 50.000 0.00 0.00 0.00 3.42
2284 3297 4.759693 ACTCTAGATCAGTGGCGAATCTAG 59.240 45.833 15.63 15.63 41.10 2.43
2285 3298 4.720046 ACTCTAGATCAGTGGCGAATCTA 58.280 43.478 0.00 0.00 0.00 1.98
2286 3299 3.561143 ACTCTAGATCAGTGGCGAATCT 58.439 45.455 0.00 0.00 0.00 2.40
2287 3300 3.568007 AGACTCTAGATCAGTGGCGAATC 59.432 47.826 0.00 0.00 30.60 2.52
2288 3301 3.561143 AGACTCTAGATCAGTGGCGAAT 58.439 45.455 0.00 0.00 30.60 3.34
2289 3302 3.006112 AGACTCTAGATCAGTGGCGAA 57.994 47.619 0.00 0.00 30.60 4.70
2290 3303 2.719531 AGACTCTAGATCAGTGGCGA 57.280 50.000 0.00 0.00 30.60 5.54
2291 3304 4.393680 GGTATAGACTCTAGATCAGTGGCG 59.606 50.000 0.00 0.00 30.60 5.69
2292 3305 5.317808 TGGTATAGACTCTAGATCAGTGGC 58.682 45.833 0.00 0.00 0.00 5.01
2293 3306 7.001674 ACTTGGTATAGACTCTAGATCAGTGG 58.998 42.308 0.00 0.00 0.00 4.00
2294 3307 8.995220 GTACTTGGTATAGACTCTAGATCAGTG 58.005 40.741 0.00 0.00 0.00 3.66
2295 3308 8.940982 AGTACTTGGTATAGACTCTAGATCAGT 58.059 37.037 0.00 0.00 0.00 3.41
2296 3309 9.787435 AAGTACTTGGTATAGACTCTAGATCAG 57.213 37.037 7.48 0.00 0.00 2.90
2297 3310 9.562408 CAAGTACTTGGTATAGACTCTAGATCA 57.438 37.037 25.19 0.00 36.95 2.92
2298 3311 8.508875 GCAAGTACTTGGTATAGACTCTAGATC 58.491 40.741 31.42 9.35 40.74 2.75
2299 3312 8.398878 GCAAGTACTTGGTATAGACTCTAGAT 57.601 38.462 31.42 0.00 40.74 1.98
2300 3313 7.804843 GCAAGTACTTGGTATAGACTCTAGA 57.195 40.000 31.42 0.00 40.74 2.43
2489 3503 8.726988 GTCATACCTTGTAAAGTTTGAGCAATA 58.273 33.333 0.00 0.00 44.25 1.90
2556 3572 2.359848 ACACTTACCCGCCAACTTTTTC 59.640 45.455 0.00 0.00 0.00 2.29
2642 3658 5.542779 GACGGAGGCAGTATTATTTCTCAT 58.457 41.667 0.00 0.00 0.00 2.90
2697 3713 6.936279 AGTGGAATATTAGACCATGTATCGG 58.064 40.000 0.00 0.00 36.09 4.18
2796 3812 8.920665 CGTCAACCAAAATCATAGCATTTAAAA 58.079 29.630 0.00 0.00 0.00 1.52
2823 3839 3.817647 AGTGAAGCAGAACCAAGACAATC 59.182 43.478 0.00 0.00 0.00 2.67
2875 3894 6.405842 GCCAATCTTTTTCGGGTCTTCATATT 60.406 38.462 0.00 0.00 0.00 1.28


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.