Multiple sequence alignment - TraesCS3B01G020900

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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 TraesCS3B01G020900 chr3B 100.000 3076 0 0 1 3076 8802859 8799784 0.000000e+00 5681.0
1 TraesCS3B01G020900 chr3B 100.000 32 0 0 492 523 827858949 827858918 3.310000e-05 60.2
2 TraesCS3B01G020900 chr3D 89.338 2326 124 42 482 2755 7187361 7185108 0.000000e+00 2808.0
3 TraesCS3B01G020900 chr3D 84.758 433 35 13 27 451 7188198 7187789 3.690000e-109 405.0
4 TraesCS3B01G020900 chr3D 88.627 255 23 3 2798 3050 7185038 7184788 3.850000e-79 305.0
5 TraesCS3B01G020900 chr3A 88.800 1741 93 31 482 2194 13074430 13076096 0.000000e+00 2041.0
6 TraesCS3B01G020900 chr3A 85.938 448 26 12 8 452 13073732 13074145 7.830000e-121 444.0
7 TraesCS3B01G020900 chr4A 76.484 455 75 18 1552 2002 661505104 661504678 5.160000e-53 219.0
8 TraesCS3B01G020900 chr4A 75.949 316 51 11 1213 1526 130525534 130525826 4.140000e-29 139.0
9 TraesCS3B01G020900 chr1D 77.778 315 47 10 1213 1526 509893 510185 4.080000e-39 172.0
10 TraesCS3B01G020900 chr1D 100.000 30 0 0 637 666 509394 509423 4.280000e-04 56.5
11 TraesCS3B01G020900 chr6A 76.825 315 46 14 1215 1526 531810262 531810552 5.310000e-33 152.0
12 TraesCS3B01G020900 chr2A 76.433 314 53 13 1213 1526 174025192 174024900 1.910000e-32 150.0
13 TraesCS3B01G020900 chr7A 81.579 190 18 8 1121 1306 268850180 268850004 1.150000e-29 141.0
14 TraesCS3B01G020900 chr1A 81.921 177 16 9 1118 1290 3117296 3117460 5.350000e-28 135.0
15 TraesCS3B01G020900 chr1A 100.000 29 0 0 637 665 3116853 3116881 2.000000e-03 54.7
16 TraesCS3B01G020900 chr1B 96.203 79 3 0 1213 1291 4220073 4220151 2.490000e-26 130.0
17 TraesCS3B01G020900 chr1B 100.000 30 0 0 637 666 4219544 4219573 4.280000e-04 56.5
18 TraesCS3B01G020900 chr2B 94.872 39 0 2 492 529 59649895 59649932 3.310000e-05 60.2
19 TraesCS3B01G020900 chr2B 89.583 48 2 3 492 537 154908460 154908414 1.190000e-04 58.4
20 TraesCS3B01G020900 chr2B 97.059 34 0 1 492 525 358917896 358917928 4.280000e-04 56.5
21 TraesCS3B01G020900 chr7B 89.583 48 2 3 492 537 680218940 680218894 1.190000e-04 58.4
22 TraesCS3B01G020900 chr6D 94.737 38 1 1 492 529 44093553 44093589 1.190000e-04 58.4
23 TraesCS3B01G020900 chr5D 97.059 34 0 1 492 525 394856553 394856585 4.280000e-04 56.5


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 TraesCS3B01G020900 chr3B 8799784 8802859 3075 True 5681.000000 5681 100.000000 1 3076 1 chr3B.!!$R1 3075
1 TraesCS3B01G020900 chr3D 7184788 7188198 3410 True 1172.666667 2808 87.574333 27 3050 3 chr3D.!!$R1 3023
2 TraesCS3B01G020900 chr3A 13073732 13076096 2364 False 1242.500000 2041 87.369000 8 2194 2 chr3A.!!$F1 2186

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
194 195 0.035458 AGAGCAAGCTAAAGTGCCGT 59.965 50.0 4.49 0.00 41.88 5.68 F
313 334 0.107993 TCTTCTTCATGCTGGCTCCG 60.108 55.0 0.00 0.00 0.00 4.63 F
1032 1519 0.179197 TCACGACGCAAGAGATCGTC 60.179 55.0 0.00 4.87 45.50 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1032 1519 0.317519 GTTGGTTTCTTGGCGAACGG 60.318 55.0 0.0 0.0 0.0 4.44 R
1263 1766 0.339859 ATGAGGGTGGAGTAGCTGGA 59.660 55.0 0.0 0.0 0.0 3.86 R
2779 3309 0.102120 CTGATGTCCGCTGTCTCCTC 59.898 60.0 0.0 0.0 0.0 3.71 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
81 82 2.046285 CAATTCTGGTGCCGGGGTC 61.046 63.158 2.18 0.00 0.00 4.46
92 93 0.602905 GCCGGGGTCGATATTCCAAG 60.603 60.000 2.18 0.00 39.00 3.61
116 117 2.912956 TGGGAGGAAGATTTACTGCTGT 59.087 45.455 0.66 0.66 0.00 4.40
117 118 3.055094 TGGGAGGAAGATTTACTGCTGTC 60.055 47.826 0.00 0.00 0.00 3.51
118 119 3.190874 GGAGGAAGATTTACTGCTGTCG 58.809 50.000 0.00 0.00 0.00 4.35
119 120 3.368531 GGAGGAAGATTTACTGCTGTCGT 60.369 47.826 0.00 0.00 0.00 4.34
121 122 3.997021 AGGAAGATTTACTGCTGTCGTTG 59.003 43.478 0.00 0.00 0.00 4.10
123 124 2.076863 AGATTTACTGCTGTCGTTGGC 58.923 47.619 0.00 0.00 0.00 4.52
124 125 2.076863 GATTTACTGCTGTCGTTGGCT 58.923 47.619 0.00 0.00 0.00 4.75
125 126 1.225855 TTTACTGCTGTCGTTGGCTG 58.774 50.000 0.00 0.00 0.00 4.85
127 128 1.754380 TACTGCTGTCGTTGGCTGGT 61.754 55.000 0.00 0.00 0.00 4.00
128 129 1.893808 CTGCTGTCGTTGGCTGGTT 60.894 57.895 0.00 0.00 0.00 3.67
129 130 1.845809 CTGCTGTCGTTGGCTGGTTC 61.846 60.000 0.00 0.00 0.00 3.62
130 131 2.954753 GCTGTCGTTGGCTGGTTCG 61.955 63.158 0.00 0.00 0.00 3.95
131 132 1.594293 CTGTCGTTGGCTGGTTCGT 60.594 57.895 0.00 0.00 0.00 3.85
132 133 0.319211 CTGTCGTTGGCTGGTTCGTA 60.319 55.000 0.00 0.00 0.00 3.43
133 134 0.598158 TGTCGTTGGCTGGTTCGTAC 60.598 55.000 0.00 0.00 0.00 3.67
136 137 0.387112 CGTTGGCTGGTTCGTACGTA 60.387 55.000 16.05 1.99 0.00 3.57
192 193 2.006169 GAGAGAGCAAGCTAAAGTGCC 58.994 52.381 4.49 0.00 41.88 5.01
193 194 0.723981 GAGAGCAAGCTAAAGTGCCG 59.276 55.000 4.49 0.00 41.88 5.69
194 195 0.035458 AGAGCAAGCTAAAGTGCCGT 59.965 50.000 4.49 0.00 41.88 5.68
195 196 1.275291 AGAGCAAGCTAAAGTGCCGTA 59.725 47.619 4.49 0.00 41.88 4.02
211 212 2.596452 CCGTACGTCATGGCATCTATC 58.404 52.381 15.21 0.00 0.00 2.08
253 265 2.440539 AGTAACCGGATCGATGCATC 57.559 50.000 17.10 17.10 0.00 3.91
265 277 6.037500 CGGATCGATGCATCATGGTAATTAAT 59.962 38.462 25.70 3.75 0.00 1.40
266 278 7.414429 CGGATCGATGCATCATGGTAATTAATT 60.414 37.037 25.70 5.89 0.00 1.40
267 279 8.892723 GGATCGATGCATCATGGTAATTAATTA 58.107 33.333 25.70 3.71 0.00 1.40
289 301 0.235665 CAGGTGCTAGTTTGTGTGCG 59.764 55.000 0.00 0.00 0.00 5.34
312 333 2.345124 ATCTTCTTCATGCTGGCTCC 57.655 50.000 0.00 0.00 0.00 4.70
313 334 0.107993 TCTTCTTCATGCTGGCTCCG 60.108 55.000 0.00 0.00 0.00 4.63
314 335 1.078214 TTCTTCATGCTGGCTCCGG 60.078 57.895 0.00 0.00 0.00 5.14
371 393 3.844099 CCGCAAACTGAATTAAAGTACGC 59.156 43.478 0.00 0.68 0.00 4.42
382 404 0.389426 AAAGTACGCAGGGCTACACG 60.389 55.000 0.00 0.00 0.00 4.49
426 448 1.070134 AGCCTAGTCGTTGTTGCTTCA 59.930 47.619 0.00 0.00 0.00 3.02
427 449 2.076863 GCCTAGTCGTTGTTGCTTCAT 58.923 47.619 0.00 0.00 0.00 2.57
428 450 2.484264 GCCTAGTCGTTGTTGCTTCATT 59.516 45.455 0.00 0.00 0.00 2.57
429 451 3.667960 GCCTAGTCGTTGTTGCTTCATTG 60.668 47.826 0.00 0.00 0.00 2.82
441 463 1.654105 GCTTCATTGTACCGACGACAG 59.346 52.381 0.00 0.00 0.00 3.51
452 474 1.070577 CCGACGACAGCAACTTTTCAG 60.071 52.381 0.00 0.00 0.00 3.02
453 475 1.070577 CGACGACAGCAACTTTTCAGG 60.071 52.381 0.00 0.00 0.00 3.86
454 476 0.663153 ACGACAGCAACTTTTCAGGC 59.337 50.000 0.00 0.00 0.00 4.85
471 936 2.609825 GCGGAGGCACATACTCATG 58.390 57.895 0.00 0.00 39.62 3.07
474 939 0.839946 GGAGGCACATACTCATGGGT 59.160 55.000 2.45 2.45 37.91 4.51
475 940 1.212935 GGAGGCACATACTCATGGGTT 59.787 52.381 2.02 0.00 37.91 4.11
476 941 2.357154 GGAGGCACATACTCATGGGTTT 60.357 50.000 2.02 0.00 37.91 3.27
477 942 2.945668 GAGGCACATACTCATGGGTTTC 59.054 50.000 2.02 0.00 37.91 2.78
478 943 1.670811 GGCACATACTCATGGGTTTCG 59.329 52.381 2.02 0.00 37.91 3.46
479 944 2.627945 GCACATACTCATGGGTTTCGA 58.372 47.619 2.02 0.00 37.91 3.71
480 945 2.351726 GCACATACTCATGGGTTTCGAC 59.648 50.000 2.02 0.00 37.91 4.20
547 1022 4.078516 GGTGGAGAACCCGGTCGG 62.079 72.222 0.00 1.86 44.02 4.79
558 1033 2.815211 CGGTCGGTCGAGGACGTA 60.815 66.667 9.67 0.00 40.69 3.57
601 1076 1.337387 CCGTAGGTGTTCCTAGCTAGC 59.663 57.143 15.74 6.62 45.75 3.42
602 1077 2.299521 CGTAGGTGTTCCTAGCTAGCT 58.700 52.381 23.12 23.12 45.75 3.32
606 1081 1.137282 GGTGTTCCTAGCTAGCTCCAC 59.863 57.143 23.26 18.92 0.00 4.02
608 1083 1.273041 TGTTCCTAGCTAGCTCCACCA 60.273 52.381 23.26 10.06 0.00 4.17
622 1097 3.858503 GCTCCACCAAAAGCTTGATGAAC 60.859 47.826 12.76 0.00 35.60 3.18
702 1186 2.202932 CAAGCTATCTGCCGCCGT 60.203 61.111 0.00 0.00 44.23 5.68
703 1187 2.107141 AAGCTATCTGCCGCCGTC 59.893 61.111 0.00 0.00 44.23 4.79
704 1188 2.721167 AAGCTATCTGCCGCCGTCA 61.721 57.895 0.00 0.00 44.23 4.35
705 1189 2.907897 AAGCTATCTGCCGCCGTCAC 62.908 60.000 0.00 0.00 44.23 3.67
706 1190 2.279517 CTATCTGCCGCCGTCACC 60.280 66.667 0.00 0.00 0.00 4.02
707 1191 4.201679 TATCTGCCGCCGTCACCG 62.202 66.667 0.00 0.00 0.00 4.94
731 1215 1.893808 ATGCACGCATCCCGAATCC 60.894 57.895 0.00 0.00 41.02 3.01
744 1228 3.090532 AATCCCCCGTGCTCCTCC 61.091 66.667 0.00 0.00 0.00 4.30
786 1270 4.020573 TCGAGGTAGCCTTCATTTTCTTCA 60.021 41.667 0.00 0.00 31.76 3.02
849 1333 0.539051 CCATTGGAAGACTCGCCTCT 59.461 55.000 0.00 0.00 0.00 3.69
862 1346 1.518056 CGCCTCTTTGCTTTGCTCCA 61.518 55.000 0.00 0.00 0.00 3.86
884 1368 0.382515 CGTCGAGTCTTCTCCATCCC 59.617 60.000 0.00 0.00 37.40 3.85
967 1451 1.205417 GTCCATGGACCATTTGCCAAG 59.795 52.381 31.37 0.00 39.08 3.61
978 1462 6.375455 GGACCATTTGCCAAGTCCTATATATG 59.625 42.308 7.01 0.00 44.46 1.78
1032 1519 0.179197 TCACGACGCAAGAGATCGTC 60.179 55.000 0.00 4.87 45.50 4.20
1048 1543 1.572941 GTCCGTTCGCCAAGAAACC 59.427 57.895 0.00 0.00 41.10 3.27
1049 1544 1.146485 TCCGTTCGCCAAGAAACCA 59.854 52.632 0.00 0.00 41.10 3.67
1050 1545 0.464013 TCCGTTCGCCAAGAAACCAA 60.464 50.000 0.00 0.00 41.10 3.67
1075 1575 2.968206 GAGCAAAGCCAGCCAAGG 59.032 61.111 0.00 0.00 0.00 3.61
1076 1576 2.602568 AGCAAAGCCAGCCAAGGG 60.603 61.111 0.00 0.00 0.00 3.95
1102 1602 3.196254 GGGAGAAGAAACCACCATACGTA 59.804 47.826 0.00 0.00 0.00 3.57
1117 1617 5.121454 ACCATACGTACGTAGCTAGCTAATC 59.879 44.000 29.65 13.54 33.77 1.75
1118 1618 5.121298 CCATACGTACGTAGCTAGCTAATCA 59.879 44.000 29.65 10.75 33.77 2.57
1119 1619 6.183360 CCATACGTACGTAGCTAGCTAATCAT 60.183 42.308 29.65 13.50 33.77 2.45
1120 1620 5.280328 ACGTACGTAGCTAGCTAATCATC 57.720 43.478 25.74 12.11 0.00 2.92
1121 1621 4.753610 ACGTACGTAGCTAGCTAATCATCA 59.246 41.667 25.74 0.94 0.00 3.07
1122 1622 5.237996 ACGTACGTAGCTAGCTAATCATCAA 59.762 40.000 25.74 0.10 0.00 2.57
1123 1623 6.072618 ACGTACGTAGCTAGCTAATCATCAAT 60.073 38.462 25.74 7.08 0.00 2.57
1401 1904 1.590259 GACATCTTCGCGCTCCTCC 60.590 63.158 5.56 0.00 0.00 4.30
1691 2194 3.003763 GAGTCCAACCTCCCCGCT 61.004 66.667 0.00 0.00 0.00 5.52
1764 2267 4.351938 CTTCCACCACGACGGCGA 62.352 66.667 22.49 0.00 41.64 5.54
1794 2297 3.151022 CTCGTCCTCCTCCTGCCC 61.151 72.222 0.00 0.00 0.00 5.36
1817 2320 1.566018 CGGTTCTGAAGGTGAACGGC 61.566 60.000 0.00 0.00 43.21 5.68
2044 2550 5.808042 ACATACTGACTGCATTCATTCAC 57.192 39.130 7.26 0.00 30.18 3.18
2058 2564 6.529125 GCATTCATTCACTTGTACATGGAAAG 59.471 38.462 12.86 9.92 0.00 2.62
2122 2628 3.636764 CCCTGTCCATATTTAACCAAGGC 59.363 47.826 0.00 0.00 0.00 4.35
2187 2695 2.730069 ACACGCAACACACATTTCATG 58.270 42.857 0.00 0.00 0.00 3.07
2213 2721 7.472543 CATTTGTAAATGCTCTGTAAGTACCC 58.527 38.462 4.57 0.00 39.29 3.69
2215 2723 3.975168 AAATGCTCTGTAAGTACCCGT 57.025 42.857 0.00 0.00 33.76 5.28
2216 2724 5.418524 TGTAAATGCTCTGTAAGTACCCGTA 59.581 40.000 0.00 0.00 33.76 4.02
2217 2725 4.382345 AATGCTCTGTAAGTACCCGTAC 57.618 45.455 0.00 0.00 36.35 3.67
2218 2726 1.739466 TGCTCTGTAAGTACCCGTACG 59.261 52.381 8.69 8.69 40.80 3.67
2219 2727 1.740025 GCTCTGTAAGTACCCGTACGT 59.260 52.381 15.21 0.00 40.80 3.57
2222 2730 4.406943 CTCTGTAAGTACCCGTACGTTTC 58.593 47.826 15.21 0.07 40.80 2.78
2234 2742 4.092383 CCCGTACGTTTCAGAAATAACCAG 59.908 45.833 15.21 0.00 0.00 4.00
2281 2789 9.656040 AATCTGTGCAAAAATAATAGCAATTCA 57.344 25.926 0.00 0.00 38.91 2.57
2318 2826 4.314740 ACTCTTTTGCGCAATTGGTTAA 57.685 36.364 25.64 13.00 0.00 2.01
2320 2828 3.056304 TCTTTTGCGCAATTGGTTAAGC 58.944 40.909 25.64 0.00 0.00 3.09
2322 2830 3.924918 TTTGCGCAATTGGTTAAGCTA 57.075 38.095 25.64 0.36 0.00 3.32
2329 2837 4.963953 CGCAATTGGTTAAGCTAATCGAAG 59.036 41.667 7.72 0.00 0.00 3.79
2348 2857 9.869844 AATCGAAGCGATATTTTTATTTCTCAG 57.130 29.630 2.49 0.00 46.30 3.35
2384 2893 3.924144 TGCCATTGCAAATAGGTGAAAC 58.076 40.909 1.71 0.00 46.66 2.78
2386 2895 4.020396 TGCCATTGCAAATAGGTGAAACAT 60.020 37.500 1.71 0.00 46.66 2.71
2389 2898 5.481105 CATTGCAAATAGGTGAAACATGGT 58.519 37.500 1.71 0.00 39.98 3.55
2411 2920 7.658261 TGGTCTATTTACCATTGATAGACTCG 58.342 38.462 17.34 0.00 44.68 4.18
2412 2921 6.586844 GGTCTATTTACCATTGATAGACTCGC 59.413 42.308 17.34 3.54 45.80 5.03
2429 2938 5.104485 AGACTCGCTTTAATCCCCAAACTAT 60.104 40.000 0.00 0.00 0.00 2.12
2478 2987 4.343814 ACCAAAAACTATTCCCACAACCTG 59.656 41.667 0.00 0.00 0.00 4.00
2484 2993 1.381867 ATTCCCACAACCTGGATGGA 58.618 50.000 15.07 4.68 43.95 3.41
2503 3012 4.582869 TGGATTGACATTCAAGACTCAGG 58.417 43.478 0.16 0.00 40.05 3.86
2512 3021 1.615883 TCAAGACTCAGGAGCTGTGAC 59.384 52.381 0.00 0.00 32.61 3.67
2525 3034 3.929610 GAGCTGTGACAAACTGTAGGATC 59.070 47.826 0.00 0.00 0.00 3.36
2526 3035 3.324846 AGCTGTGACAAACTGTAGGATCA 59.675 43.478 0.00 0.00 0.00 2.92
2527 3036 4.065088 GCTGTGACAAACTGTAGGATCAA 58.935 43.478 0.00 0.00 0.00 2.57
2529 3038 5.182001 GCTGTGACAAACTGTAGGATCAATT 59.818 40.000 0.00 0.00 0.00 2.32
2530 3039 6.621596 GCTGTGACAAACTGTAGGATCAATTC 60.622 42.308 0.00 0.00 0.00 2.17
2531 3040 6.533730 TGTGACAAACTGTAGGATCAATTCT 58.466 36.000 0.00 0.00 0.00 2.40
2532 3041 6.998074 TGTGACAAACTGTAGGATCAATTCTT 59.002 34.615 0.00 0.00 0.00 2.52
2539 3057 8.779354 AACTGTAGGATCAATTCTTAACAGTC 57.221 34.615 7.13 0.00 32.46 3.51
2540 3058 7.331791 ACTGTAGGATCAATTCTTAACAGTCC 58.668 38.462 0.00 0.00 30.16 3.85
2542 3060 7.103641 TGTAGGATCAATTCTTAACAGTCCAC 58.896 38.462 0.00 0.00 0.00 4.02
2559 3077 7.402862 ACAGTCCACTAAAGCAAATACCTAAT 58.597 34.615 0.00 0.00 0.00 1.73
2672 3202 0.179189 GCAAATCAGCCTTTCCGACG 60.179 55.000 0.00 0.00 0.00 5.12
2680 3210 0.458669 GCCTTTCCGACGATCTACCA 59.541 55.000 0.00 0.00 0.00 3.25
2699 3229 0.827925 ACGGCACAAGAGGAGACAGA 60.828 55.000 0.00 0.00 0.00 3.41
2783 3313 9.815306 ATTTATAGATCTACTAGCACAAGAGGA 57.185 33.333 4.10 0.00 34.35 3.71
2784 3314 8.856153 TTATAGATCTACTAGCACAAGAGGAG 57.144 38.462 4.10 0.00 34.35 3.69
2785 3315 5.381184 AGATCTACTAGCACAAGAGGAGA 57.619 43.478 0.00 0.00 0.00 3.71
2786 3316 5.130350 AGATCTACTAGCACAAGAGGAGAC 58.870 45.833 0.00 0.00 0.00 3.36
2787 3317 4.302559 TCTACTAGCACAAGAGGAGACA 57.697 45.455 0.00 0.00 0.00 3.41
2789 3319 1.548269 ACTAGCACAAGAGGAGACAGC 59.452 52.381 0.00 0.00 0.00 4.40
2790 3320 0.528017 TAGCACAAGAGGAGACAGCG 59.472 55.000 0.00 0.00 0.00 5.18
2792 3322 1.967535 CACAAGAGGAGACAGCGGA 59.032 57.895 0.00 0.00 0.00 5.54
2793 3323 0.389166 CACAAGAGGAGACAGCGGAC 60.389 60.000 0.00 0.00 0.00 4.79
2794 3324 0.827925 ACAAGAGGAGACAGCGGACA 60.828 55.000 0.00 0.00 0.00 4.02
2795 3325 0.534412 CAAGAGGAGACAGCGGACAT 59.466 55.000 0.00 0.00 0.00 3.06
2796 3326 0.820871 AAGAGGAGACAGCGGACATC 59.179 55.000 0.00 0.00 0.00 3.06
2829 3387 7.544650 TGATTCTCTAGGTAATTATCCTCCCA 58.455 38.462 9.14 0.00 36.60 4.37
2832 3390 6.935036 TCTCTAGGTAATTATCCTCCCACTT 58.065 40.000 9.14 0.00 36.60 3.16
2845 3403 4.006319 CCTCCCACTTCTCTGACAAATTC 58.994 47.826 0.00 0.00 0.00 2.17
2846 3404 4.263243 CCTCCCACTTCTCTGACAAATTCT 60.263 45.833 0.00 0.00 0.00 2.40
2847 3405 5.046304 CCTCCCACTTCTCTGACAAATTCTA 60.046 44.000 0.00 0.00 0.00 2.10
2850 3408 6.724441 TCCCACTTCTCTGACAAATTCTACTA 59.276 38.462 0.00 0.00 0.00 1.82
2852 3410 7.310113 CCCACTTCTCTGACAAATTCTACTAGT 60.310 40.741 0.00 0.00 0.00 2.57
2854 3412 9.482627 CACTTCTCTGACAAATTCTACTAGTTT 57.517 33.333 0.00 0.00 0.00 2.66
2865 3423 8.559536 CAAATTCTACTAGTTTTGAGAGTTGCA 58.440 33.333 10.88 0.00 32.17 4.08
2871 3429 4.889832 AGTTTTGAGAGTTGCACAGAAG 57.110 40.909 0.00 0.00 0.00 2.85
2875 3433 5.895636 TTTGAGAGTTGCACAGAAGAAAA 57.104 34.783 0.00 0.00 0.00 2.29
2877 3435 6.455360 TTGAGAGTTGCACAGAAGAAAATT 57.545 33.333 0.00 0.00 0.00 1.82
2878 3436 7.566760 TTGAGAGTTGCACAGAAGAAAATTA 57.433 32.000 0.00 0.00 0.00 1.40
2879 3437 7.750229 TGAGAGTTGCACAGAAGAAAATTAT 57.250 32.000 0.00 0.00 0.00 1.28
2882 3440 6.029346 AGTTGCACAGAAGAAAATTATGGG 57.971 37.500 0.00 0.00 0.00 4.00
2883 3441 4.454728 TGCACAGAAGAAAATTATGGGC 57.545 40.909 2.66 2.66 40.71 5.36
2900 3458 0.105778 GGCTGATGCTGTAGGAGACC 59.894 60.000 0.00 0.00 39.59 3.85
2940 3498 4.407621 TGACCCGTATATTTGTGACCTGAT 59.592 41.667 0.00 0.00 0.00 2.90
2964 3522 4.594062 AGAATAGCAGATGAGATCAGCCTT 59.406 41.667 0.00 0.00 42.08 4.35
2997 3557 5.595814 AGGGAATAATCTGGCAATCATCT 57.404 39.130 0.00 0.00 0.00 2.90
2998 3558 6.708885 AGGGAATAATCTGGCAATCATCTA 57.291 37.500 0.00 0.00 0.00 1.98
3002 3562 6.373774 GGAATAATCTGGCAATCATCTACTGG 59.626 42.308 0.00 0.00 0.00 4.00
3028 3588 2.107950 TCAAAACATGCCTAGGACCG 57.892 50.000 14.75 1.10 0.00 4.79
3034 3594 0.537188 CATGCCTAGGACCGTTCTGT 59.463 55.000 14.75 0.00 0.00 3.41
3044 3604 3.322828 AGGACCGTTCTGTTGCTTTAGTA 59.677 43.478 0.00 0.00 0.00 1.82
3045 3605 4.060205 GGACCGTTCTGTTGCTTTAGTAA 58.940 43.478 0.00 0.00 0.00 2.24
3050 3610 6.932960 ACCGTTCTGTTGCTTTAGTAAAGTAT 59.067 34.615 20.95 0.00 40.64 2.12
3051 3611 8.090214 ACCGTTCTGTTGCTTTAGTAAAGTATA 58.910 33.333 20.95 10.08 40.64 1.47
3052 3612 8.592998 CCGTTCTGTTGCTTTAGTAAAGTATAG 58.407 37.037 20.95 17.07 40.64 1.31
3053 3613 9.350357 CGTTCTGTTGCTTTAGTAAAGTATAGA 57.650 33.333 20.95 18.59 40.64 1.98
3067 3627 8.519526 AGTAAAGTATAGATGTATCTGAGCTGC 58.480 37.037 4.67 0.00 37.76 5.25
3068 3628 7.537596 AAAGTATAGATGTATCTGAGCTGCT 57.462 36.000 0.00 0.00 37.76 4.24
3069 3629 6.513806 AGTATAGATGTATCTGAGCTGCTG 57.486 41.667 7.01 0.00 37.76 4.41
3070 3630 6.009589 AGTATAGATGTATCTGAGCTGCTGT 58.990 40.000 7.01 0.00 37.76 4.40
3071 3631 7.171653 AGTATAGATGTATCTGAGCTGCTGTA 58.828 38.462 7.01 0.00 37.76 2.74
3072 3632 4.582701 AGATGTATCTGAGCTGCTGTAC 57.417 45.455 7.01 5.59 35.42 2.90
3073 3633 2.851805 TGTATCTGAGCTGCTGTACG 57.148 50.000 7.01 0.00 0.00 3.67
3074 3634 1.405463 TGTATCTGAGCTGCTGTACGG 59.595 52.381 7.01 0.00 0.00 4.02
3075 3635 1.405821 GTATCTGAGCTGCTGTACGGT 59.594 52.381 7.01 0.00 0.00 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 7.834881 TGAACCACTCTCTCCGTATTAATAT 57.165 36.000 0.00 0.00 0.00 1.28
22 23 6.732896 ATGAACCACTCTCTCCGTATTAAT 57.267 37.500 0.00 0.00 0.00 1.40
25 26 4.585162 CCTATGAACCACTCTCTCCGTATT 59.415 45.833 0.00 0.00 0.00 1.89
92 93 2.280628 CAGTAAATCTTCCTCCCACGC 58.719 52.381 0.00 0.00 0.00 5.34
116 117 1.372004 CGTACGAACCAGCCAACGA 60.372 57.895 10.44 0.00 32.35 3.85
117 118 0.387112 TACGTACGAACCAGCCAACG 60.387 55.000 24.41 0.00 36.48 4.10
118 119 1.063031 GTACGTACGAACCAGCCAAC 58.937 55.000 24.41 2.02 0.00 3.77
119 120 3.495124 GTACGTACGAACCAGCCAA 57.505 52.632 24.41 0.00 0.00 4.52
130 131 2.430582 TTGGCCGCACGTACGTAC 60.431 61.111 22.34 15.19 0.00 3.67
131 132 2.430582 GTTGGCCGCACGTACGTA 60.431 61.111 22.34 0.52 0.00 3.57
163 164 0.795085 CTTGCTCTCTCTTTGCGTGG 59.205 55.000 0.00 0.00 0.00 4.94
192 193 3.282831 TGATAGATGCCATGACGTACG 57.717 47.619 15.01 15.01 0.00 3.67
193 194 4.809673 TGATGATAGATGCCATGACGTAC 58.190 43.478 0.00 0.00 0.00 3.67
194 195 5.221422 TGTTGATGATAGATGCCATGACGTA 60.221 40.000 0.00 0.00 0.00 3.57
195 196 4.060900 GTTGATGATAGATGCCATGACGT 58.939 43.478 0.00 0.00 0.00 4.34
289 301 3.549794 AGCCAGCATGAAGAAGATTACC 58.450 45.455 0.00 0.00 39.69 2.85
320 341 3.711541 ATTCGTCGTACCGCAGCCC 62.712 63.158 0.00 0.00 0.00 5.19
321 342 2.202703 ATTCGTCGTACCGCAGCC 60.203 61.111 0.00 0.00 0.00 4.85
322 343 2.228914 GGATTCGTCGTACCGCAGC 61.229 63.158 0.00 0.00 0.00 5.25
323 344 1.937846 CGGATTCGTCGTACCGCAG 60.938 63.158 12.33 0.00 38.98 5.18
324 345 2.100797 CGGATTCGTCGTACCGCA 59.899 61.111 12.33 0.00 38.98 5.69
347 368 3.297830 ACTTTAATTCAGTTTGCGGGC 57.702 42.857 0.00 0.00 0.00 6.13
348 369 4.399978 CGTACTTTAATTCAGTTTGCGGG 58.600 43.478 0.00 0.00 0.00 6.13
349 370 3.844099 GCGTACTTTAATTCAGTTTGCGG 59.156 43.478 0.00 0.00 0.00 5.69
358 380 4.033702 GTGTAGCCCTGCGTACTTTAATTC 59.966 45.833 0.00 0.00 0.00 2.17
382 404 2.533942 GACCATTTCAAACAACACGTGC 59.466 45.455 17.22 0.00 0.00 5.34
426 448 1.000506 AGTTGCTGTCGTCGGTACAAT 59.999 47.619 0.00 0.00 0.00 2.71
427 449 0.386476 AGTTGCTGTCGTCGGTACAA 59.614 50.000 0.00 0.00 0.00 2.41
428 450 0.386476 AAGTTGCTGTCGTCGGTACA 59.614 50.000 0.00 0.00 0.00 2.90
429 451 1.494824 AAAGTTGCTGTCGTCGGTAC 58.505 50.000 0.00 0.00 0.00 3.34
441 463 1.581447 CCTCCGCCTGAAAAGTTGC 59.419 57.895 0.00 0.00 0.00 4.17
452 474 0.882042 CATGAGTATGTGCCTCCGCC 60.882 60.000 0.00 0.00 0.00 6.13
453 475 0.882042 CCATGAGTATGTGCCTCCGC 60.882 60.000 0.00 0.00 32.21 5.54
454 476 0.250038 CCCATGAGTATGTGCCTCCG 60.250 60.000 0.00 0.00 32.21 4.63
466 931 2.683968 TCGAAAGTCGAAACCCATGAG 58.316 47.619 0.00 0.00 46.90 2.90
547 1022 0.247301 CGGTTACGTACGTCCTCGAC 60.247 60.000 26.53 15.59 36.72 4.20
555 1030 0.868602 CCATCTGCCGGTTACGTACG 60.869 60.000 15.01 15.01 38.78 3.67
556 1031 0.174162 ACCATCTGCCGGTTACGTAC 59.826 55.000 1.90 0.00 38.78 3.67
557 1032 0.896923 AACCATCTGCCGGTTACGTA 59.103 50.000 1.90 0.00 45.00 3.57
558 1033 0.896923 TAACCATCTGCCGGTTACGT 59.103 50.000 1.90 0.00 45.00 3.57
592 1067 2.911484 CTTTTGGTGGAGCTAGCTAGG 58.089 52.381 19.38 4.48 0.00 3.02
600 1075 1.888512 TCATCAAGCTTTTGGTGGAGC 59.111 47.619 0.00 0.00 39.17 4.70
601 1076 3.318839 TGTTCATCAAGCTTTTGGTGGAG 59.681 43.478 0.00 0.00 32.81 3.86
602 1077 3.295093 TGTTCATCAAGCTTTTGGTGGA 58.705 40.909 0.00 0.00 33.97 4.02
622 1097 6.128742 GCATGCAACAACTAGGAATTTTCTTG 60.129 38.462 14.21 0.00 0.00 3.02
630 1105 3.004629 CACAAGCATGCAACAACTAGGAA 59.995 43.478 21.98 0.00 0.00 3.36
631 1106 2.553602 CACAAGCATGCAACAACTAGGA 59.446 45.455 21.98 0.00 0.00 2.94
632 1107 2.553602 TCACAAGCATGCAACAACTAGG 59.446 45.455 21.98 0.51 0.00 3.02
633 1108 3.902261 TCACAAGCATGCAACAACTAG 57.098 42.857 21.98 2.50 0.00 2.57
634 1109 4.097741 AGTTTCACAAGCATGCAACAACTA 59.902 37.500 21.98 0.00 0.00 2.24
635 1110 3.119029 AGTTTCACAAGCATGCAACAACT 60.119 39.130 21.98 14.73 0.00 3.16
636 1111 3.189285 AGTTTCACAAGCATGCAACAAC 58.811 40.909 21.98 12.79 0.00 3.32
637 1112 3.523606 AGTTTCACAAGCATGCAACAA 57.476 38.095 21.98 1.89 0.00 2.83
638 1113 3.188492 CAAGTTTCACAAGCATGCAACA 58.812 40.909 21.98 0.00 0.00 3.33
731 1215 3.866582 GATGGGAGGAGCACGGGG 61.867 72.222 0.00 0.00 0.00 5.73
744 1228 2.455032 GAGATCACAACGACTCGATGG 58.545 52.381 12.69 3.06 34.07 3.51
786 1270 2.515429 AGCTCTCCTCTCTCCTTCTGAT 59.485 50.000 0.00 0.00 0.00 2.90
849 1333 1.452145 GACGGGTGGAGCAAAGCAAA 61.452 55.000 0.00 0.00 0.00 3.68
862 1346 0.323542 ATGGAGAAGACTCGACGGGT 60.324 55.000 0.00 0.00 43.44 5.28
884 1368 3.018840 GCGGCGTAGGGTTTCGTTG 62.019 63.158 9.37 0.00 0.00 4.10
967 1451 6.528423 GTGACAGTGATTCGCATATATAGGAC 59.472 42.308 0.00 0.00 0.00 3.85
978 1462 0.517316 GGGTTGTGACAGTGATTCGC 59.483 55.000 0.00 0.00 0.00 4.70
1032 1519 0.317519 GTTGGTTTCTTGGCGAACGG 60.318 55.000 0.00 0.00 0.00 4.44
1048 1543 0.594796 GGCTTTGCTCGTGGTTGTTG 60.595 55.000 0.00 0.00 0.00 3.33
1049 1544 1.034838 TGGCTTTGCTCGTGGTTGTT 61.035 50.000 0.00 0.00 0.00 2.83
1050 1545 1.447317 CTGGCTTTGCTCGTGGTTGT 61.447 55.000 0.00 0.00 0.00 3.32
1075 1575 2.045242 GGTTTCTTCTCCCCGGCC 60.045 66.667 0.00 0.00 0.00 6.13
1076 1576 1.674651 GTGGTTTCTTCTCCCCGGC 60.675 63.158 0.00 0.00 0.00 6.13
1077 1577 1.002502 GGTGGTTTCTTCTCCCCGG 60.003 63.158 0.00 0.00 0.00 5.73
1078 1578 0.328258 ATGGTGGTTTCTTCTCCCCG 59.672 55.000 0.00 0.00 0.00 5.73
1079 1579 2.679930 CGTATGGTGGTTTCTTCTCCCC 60.680 54.545 0.00 0.00 0.00 4.81
1080 1580 2.027469 ACGTATGGTGGTTTCTTCTCCC 60.027 50.000 0.00 0.00 0.00 4.30
1081 1581 3.329929 ACGTATGGTGGTTTCTTCTCC 57.670 47.619 0.00 0.00 0.00 3.71
1082 1582 3.855950 CGTACGTATGGTGGTTTCTTCTC 59.144 47.826 7.22 0.00 0.00 2.87
1102 1602 5.473931 CCATTGATGATTAGCTAGCTACGT 58.526 41.667 24.09 15.46 0.00 3.57
1117 1617 2.537560 GCCTCCGTCGCCATTGATG 61.538 63.158 0.00 0.00 0.00 3.07
1118 1618 2.203070 GCCTCCGTCGCCATTGAT 60.203 61.111 0.00 0.00 0.00 2.57
1119 1619 4.467084 GGCCTCCGTCGCCATTGA 62.467 66.667 0.00 0.00 46.27 2.57
1263 1766 0.339859 ATGAGGGTGGAGTAGCTGGA 59.660 55.000 0.00 0.00 0.00 3.86
1496 1999 3.735029 GAGTCGACGACGGCCACT 61.735 66.667 21.44 0.00 45.89 4.00
1764 2267 4.719106 ACGAGGAGGAGTCGCGGT 62.719 66.667 6.13 0.00 41.26 5.68
1794 2297 2.725203 TTCACCTTCAGAACCGCGGG 62.725 60.000 31.76 11.94 0.00 6.13
1817 2320 1.734477 CCTCTTGCACGACGACCTG 60.734 63.158 0.00 0.00 0.00 4.00
1883 2386 3.834799 CGGCCACCGGTAGAGGTC 61.835 72.222 6.87 5.12 43.89 3.85
1910 2416 4.430765 GTCGTCGTCATGGGCCGT 62.431 66.667 0.00 0.00 0.00 5.68
1916 2422 2.774951 GAACGGCGTCGTCGTCATG 61.775 63.158 26.51 0.00 45.33 3.07
2044 2550 5.982890 ACATTTCCCTTTCCATGTACAAG 57.017 39.130 0.00 0.00 0.00 3.16
2058 2564 6.220726 AGCATGGTTATTTGTACATTTCCC 57.779 37.500 0.00 0.00 0.00 3.97
2102 2608 7.639113 TTAAGCCTTGGTTAAATATGGACAG 57.361 36.000 0.00 0.00 33.48 3.51
2211 2719 3.995705 TGGTTATTTCTGAAACGTACGGG 59.004 43.478 21.06 4.34 0.00 5.28
2213 2721 5.834239 ACTGGTTATTTCTGAAACGTACG 57.166 39.130 15.01 15.01 0.00 3.67
2215 2723 8.659925 TTACAACTGGTTATTTCTGAAACGTA 57.340 30.769 4.73 0.00 0.00 3.57
2216 2724 7.556733 TTACAACTGGTTATTTCTGAAACGT 57.443 32.000 4.73 0.00 0.00 3.99
2217 2725 8.286800 TGATTACAACTGGTTATTTCTGAAACG 58.713 33.333 4.73 0.00 0.00 3.60
2218 2726 9.394477 GTGATTACAACTGGTTATTTCTGAAAC 57.606 33.333 4.73 0.00 0.00 2.78
2219 2727 9.349713 AGTGATTACAACTGGTTATTTCTGAAA 57.650 29.630 5.15 5.15 0.00 2.69
2222 2730 8.783093 TGAAGTGATTACAACTGGTTATTTCTG 58.217 33.333 0.00 0.00 0.00 3.02
2251 2759 9.920133 TTGCTATTATTTTTGCACAGATTTACA 57.080 25.926 0.00 0.00 35.01 2.41
2281 2789 7.759433 CGCAAAAGAGTAAACCCATAAATGAAT 59.241 33.333 0.00 0.00 0.00 2.57
2289 2797 2.235016 TGCGCAAAAGAGTAAACCCAT 58.765 42.857 8.16 0.00 0.00 4.00
2303 2811 3.924918 TTAGCTTAACCAATTGCGCAA 57.075 38.095 27.24 27.24 0.00 4.85
2304 2812 3.486708 CGATTAGCTTAACCAATTGCGCA 60.487 43.478 5.66 5.66 0.00 6.09
2318 2826 9.813080 GAAATAAAAATATCGCTTCGATTAGCT 57.187 29.630 7.04 0.00 44.59 3.32
2322 2830 9.869844 CTGAGAAATAAAAATATCGCTTCGATT 57.130 29.630 7.04 0.00 44.59 3.34
2348 2857 4.093261 GCAATGGCACCACAATAATTTCAC 59.907 41.667 0.00 0.00 40.72 3.18
2364 2873 3.924144 TGTTTCACCTATTTGCAATGGC 58.076 40.909 0.00 0.00 41.68 4.40
2389 2898 7.526142 AGCGAGTCTATCAATGGTAAATAGA 57.474 36.000 0.00 0.00 31.29 1.98
2403 2912 5.104485 AGTTTGGGGATTAAAGCGAGTCTAT 60.104 40.000 0.00 0.00 0.00 1.98
2411 2920 5.445964 TGAGGATAGTTTGGGGATTAAAGC 58.554 41.667 0.00 0.00 0.00 3.51
2412 2921 6.547510 CCTTGAGGATAGTTTGGGGATTAAAG 59.452 42.308 0.00 0.00 37.39 1.85
2438 2947 6.603940 TTTTGGTTCCAGCTAAGCATTTAT 57.396 33.333 2.14 0.00 36.78 1.40
2444 2953 5.644977 ATAGTTTTTGGTTCCAGCTAAGC 57.355 39.130 0.00 0.00 0.00 3.09
2478 2987 5.188434 TGAGTCTTGAATGTCAATCCATCC 58.812 41.667 0.00 0.00 35.59 3.51
2484 2993 4.019501 AGCTCCTGAGTCTTGAATGTCAAT 60.020 41.667 0.00 0.00 35.59 2.57
2503 3012 3.386768 TCCTACAGTTTGTCACAGCTC 57.613 47.619 0.00 0.00 0.00 4.09
2512 3021 9.003658 ACTGTTAAGAATTGATCCTACAGTTTG 57.996 33.333 0.00 0.00 39.46 2.93
2525 3034 7.202016 TGCTTTAGTGGACTGTTAAGAATTG 57.798 36.000 0.00 0.00 0.00 2.32
2526 3035 7.817418 TTGCTTTAGTGGACTGTTAAGAATT 57.183 32.000 0.00 0.00 0.00 2.17
2527 3036 7.817418 TTTGCTTTAGTGGACTGTTAAGAAT 57.183 32.000 0.00 0.00 0.00 2.40
2529 3038 7.389607 GGTATTTGCTTTAGTGGACTGTTAAGA 59.610 37.037 0.00 0.00 0.00 2.10
2530 3039 7.390718 AGGTATTTGCTTTAGTGGACTGTTAAG 59.609 37.037 0.00 0.00 0.00 1.85
2531 3040 7.228590 AGGTATTTGCTTTAGTGGACTGTTAA 58.771 34.615 0.00 0.00 0.00 2.01
2532 3041 6.775708 AGGTATTTGCTTTAGTGGACTGTTA 58.224 36.000 0.00 0.00 0.00 2.41
2595 3113 8.047911 CCTCTCCTTATCCGTTGAGATATACTA 58.952 40.741 0.00 0.00 33.68 1.82
2637 3165 4.397103 TGATTTGCAGATCAGATGTTCCAC 59.603 41.667 15.50 0.00 32.50 4.02
2638 3166 4.591929 TGATTTGCAGATCAGATGTTCCA 58.408 39.130 15.50 0.00 32.50 3.53
2672 3202 1.471676 CCTCTTGTGCCGTGGTAGATC 60.472 57.143 0.00 0.00 0.00 2.75
2680 3210 0.827925 TCTGTCTCCTCTTGTGCCGT 60.828 55.000 0.00 0.00 0.00 5.68
2757 3287 9.815306 TCCTCTTGTGCTAGTAGATCTATAAAT 57.185 33.333 5.57 0.00 0.00 1.40
2758 3288 9.290988 CTCCTCTTGTGCTAGTAGATCTATAAA 57.709 37.037 5.57 0.00 0.00 1.40
2760 3290 8.098286 GTCTCCTCTTGTGCTAGTAGATCTATA 58.902 40.741 5.57 0.00 0.00 1.31
2761 3291 6.940298 GTCTCCTCTTGTGCTAGTAGATCTAT 59.060 42.308 5.57 0.00 0.00 1.98
2762 3292 6.126739 TGTCTCCTCTTGTGCTAGTAGATCTA 60.127 42.308 0.00 0.00 0.00 1.98
2763 3293 5.130350 GTCTCCTCTTGTGCTAGTAGATCT 58.870 45.833 0.00 0.00 0.00 2.75
2764 3294 4.884744 TGTCTCCTCTTGTGCTAGTAGATC 59.115 45.833 0.00 0.00 0.00 2.75
2765 3295 4.861196 TGTCTCCTCTTGTGCTAGTAGAT 58.139 43.478 0.00 0.00 0.00 1.98
2767 3297 3.181491 GCTGTCTCCTCTTGTGCTAGTAG 60.181 52.174 0.00 0.00 0.00 2.57
2769 3299 1.548269 GCTGTCTCCTCTTGTGCTAGT 59.452 52.381 0.00 0.00 0.00 2.57
2772 3302 1.291588 CGCTGTCTCCTCTTGTGCT 59.708 57.895 0.00 0.00 0.00 4.40
2773 3303 1.739562 CCGCTGTCTCCTCTTGTGC 60.740 63.158 0.00 0.00 0.00 4.57
2774 3304 0.389166 GTCCGCTGTCTCCTCTTGTG 60.389 60.000 0.00 0.00 0.00 3.33
2775 3305 0.827925 TGTCCGCTGTCTCCTCTTGT 60.828 55.000 0.00 0.00 0.00 3.16
2776 3306 0.534412 ATGTCCGCTGTCTCCTCTTG 59.466 55.000 0.00 0.00 0.00 3.02
2777 3307 0.820871 GATGTCCGCTGTCTCCTCTT 59.179 55.000 0.00 0.00 0.00 2.85
2779 3309 0.102120 CTGATGTCCGCTGTCTCCTC 59.898 60.000 0.00 0.00 0.00 3.71
2780 3310 1.954362 GCTGATGTCCGCTGTCTCCT 61.954 60.000 0.00 0.00 0.00 3.69
2781 3311 1.520342 GCTGATGTCCGCTGTCTCC 60.520 63.158 0.00 0.00 0.00 3.71
2782 3312 1.520342 GGCTGATGTCCGCTGTCTC 60.520 63.158 0.00 0.00 0.00 3.36
2783 3313 1.548357 AAGGCTGATGTCCGCTGTCT 61.548 55.000 0.00 0.00 0.00 3.41
2784 3314 1.078848 AAGGCTGATGTCCGCTGTC 60.079 57.895 0.00 0.00 0.00 3.51
2785 3315 1.078848 GAAGGCTGATGTCCGCTGT 60.079 57.895 0.00 0.00 0.00 4.40
2786 3316 1.088340 CAGAAGGCTGATGTCCGCTG 61.088 60.000 0.00 0.00 45.17 5.18
2787 3317 1.220206 CAGAAGGCTGATGTCCGCT 59.780 57.895 0.00 0.00 45.17 5.52
2796 3326 5.860941 TTACCTAGAGAATCAGAAGGCTG 57.139 43.478 0.00 0.00 43.67 4.85
2815 3373 6.098409 TGTCAGAGAAGTGGGAGGATAATTAC 59.902 42.308 0.00 0.00 0.00 1.89
2826 3384 5.799213 AGTAGAATTTGTCAGAGAAGTGGG 58.201 41.667 0.00 0.00 0.00 4.61
2832 3390 9.698309 CTCAAAACTAGTAGAATTTGTCAGAGA 57.302 33.333 21.51 9.43 35.01 3.10
2845 3403 6.216569 TCTGTGCAACTCTCAAAACTAGTAG 58.783 40.000 0.00 0.00 38.04 2.57
2846 3404 6.156748 TCTGTGCAACTCTCAAAACTAGTA 57.843 37.500 0.00 0.00 38.04 1.82
2847 3405 5.023533 TCTGTGCAACTCTCAAAACTAGT 57.976 39.130 0.00 0.00 38.04 2.57
2850 3408 4.517285 TCTTCTGTGCAACTCTCAAAACT 58.483 39.130 0.00 0.00 38.04 2.66
2852 3410 5.895636 TTTCTTCTGTGCAACTCTCAAAA 57.104 34.783 0.00 0.00 38.04 2.44
2854 3412 6.455360 AATTTTCTTCTGTGCAACTCTCAA 57.545 33.333 0.00 0.00 38.04 3.02
2855 3413 7.308770 CCATAATTTTCTTCTGTGCAACTCTCA 60.309 37.037 0.00 0.00 38.04 3.27
2865 3423 5.163478 GCATCAGCCCATAATTTTCTTCTGT 60.163 40.000 0.00 0.00 33.58 3.41
2871 3429 4.660789 ACAGCATCAGCCCATAATTTTC 57.339 40.909 0.00 0.00 43.56 2.29
2875 3433 2.981784 TCCTACAGCATCAGCCCATAAT 59.018 45.455 0.00 0.00 43.56 1.28
2877 3435 1.973515 CTCCTACAGCATCAGCCCATA 59.026 52.381 0.00 0.00 43.56 2.74
2878 3436 0.763652 CTCCTACAGCATCAGCCCAT 59.236 55.000 0.00 0.00 43.56 4.00
2879 3437 0.325577 TCTCCTACAGCATCAGCCCA 60.326 55.000 0.00 0.00 43.56 5.36
2882 3440 1.118838 AGGTCTCCTACAGCATCAGC 58.881 55.000 0.00 0.00 34.15 4.26
2883 3441 3.957497 ACTAAGGTCTCCTACAGCATCAG 59.043 47.826 0.00 0.00 31.13 2.90
2964 3522 9.653516 TGCCAGATTATTCCCTTTTTATAATGA 57.346 29.630 0.00 0.00 0.00 2.57
2984 3544 4.225942 ACTTTCCAGTAGATGATTGCCAGA 59.774 41.667 0.00 0.00 0.00 3.86
2986 3546 4.574674 ACTTTCCAGTAGATGATTGCCA 57.425 40.909 0.00 0.00 0.00 4.92
2997 3557 6.245408 AGGCATGTTTTGATACTTTCCAGTA 58.755 36.000 0.00 0.00 39.94 2.74
2998 3558 5.079643 AGGCATGTTTTGATACTTTCCAGT 58.920 37.500 0.00 0.00 36.99 4.00
3002 3562 6.183360 GGTCCTAGGCATGTTTTGATACTTTC 60.183 42.308 2.96 0.00 0.00 2.62
3044 3604 7.015098 ACAGCAGCTCAGATACATCTATACTTT 59.985 37.037 0.00 0.00 34.85 2.66
3045 3605 6.493115 ACAGCAGCTCAGATACATCTATACTT 59.507 38.462 0.00 0.00 34.85 2.24
3050 3610 4.214332 CGTACAGCAGCTCAGATACATCTA 59.786 45.833 0.00 0.00 34.85 1.98
3051 3611 3.004210 CGTACAGCAGCTCAGATACATCT 59.996 47.826 0.00 0.00 37.72 2.90
3052 3612 3.304257 CGTACAGCAGCTCAGATACATC 58.696 50.000 0.00 0.00 0.00 3.06
3053 3613 2.035193 CCGTACAGCAGCTCAGATACAT 59.965 50.000 0.00 0.00 0.00 2.29
3054 3614 1.405463 CCGTACAGCAGCTCAGATACA 59.595 52.381 0.00 0.00 0.00 2.29
3055 3615 1.405821 ACCGTACAGCAGCTCAGATAC 59.594 52.381 0.00 0.00 0.00 2.24
3056 3616 1.763968 ACCGTACAGCAGCTCAGATA 58.236 50.000 0.00 0.00 0.00 1.98
3057 3617 2.584673 ACCGTACAGCAGCTCAGAT 58.415 52.632 0.00 0.00 0.00 2.90
3058 3618 4.097218 ACCGTACAGCAGCTCAGA 57.903 55.556 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.