Multiple sequence alignment - TraesCS2D01G344100

Loading Multiple Alignment...

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 TraesCS2D01G344100 chr2D 100.000 6123 0 0 1 6123 440320680 440326802 0.000000e+00 11308.0
1 TraesCS2D01G344100 chr2D 85.772 246 21 3 4098 4329 537931888 537931643 1.320000e-61 248.0
2 TraesCS2D01G344100 chr2D 85.141 249 27 4 4090 4337 592616127 592616366 4.740000e-61 246.0
3 TraesCS2D01G344100 chr2D 86.747 83 7 3 2496 2574 114515497 114515579 8.450000e-14 89.8
4 TraesCS2D01G344100 chr2A 93.423 2007 56 24 2119 4089 583838969 583840935 0.000000e+00 2905.0
5 TraesCS2D01G344100 chr2A 90.961 1228 64 22 575 1783 583837520 583838719 0.000000e+00 1609.0
6 TraesCS2D01G344100 chr2A 95.409 806 28 5 4087 4890 583841099 583841897 0.000000e+00 1275.0
7 TraesCS2D01G344100 chr2A 94.006 684 18 17 4939 5605 583841894 583842571 0.000000e+00 1014.0
8 TraesCS2D01G344100 chr2A 95.066 527 26 0 5597 6123 583842669 583843195 0.000000e+00 830.0
9 TraesCS2D01G344100 chr2A 94.618 353 18 1 2 353 583836358 583836710 4.170000e-151 545.0
10 TraesCS2D01G344100 chr2A 96.471 255 5 1 1829 2083 583838719 583838969 9.490000e-113 418.0
11 TraesCS2D01G344100 chr2A 86.307 241 5 2 339 579 583836990 583837202 2.850000e-58 237.0
12 TraesCS2D01G344100 chr2B 84.218 1432 105 51 2 1347 518044655 518046051 0.000000e+00 1280.0
13 TraesCS2D01G344100 chr2B 83.463 1282 98 40 336 1531 518045034 518046287 0.000000e+00 1088.0
14 TraesCS2D01G344100 chr2B 95.611 524 23 0 5600 6123 518053608 518054131 0.000000e+00 841.0
15 TraesCS2D01G344100 chr2B 87.868 577 19 20 4976 5526 518050383 518050934 1.120000e-176 630.0
16 TraesCS2D01G344100 chr2B 90.164 488 41 5 4420 4906 518049530 518050011 4.030000e-176 628.0
17 TraesCS2D01G344100 chr2B 83.059 425 33 21 2666 3077 518047617 518048015 3.510000e-92 350.0
18 TraesCS2D01G344100 chr2B 89.333 225 24 0 3321 3545 518048441 518048665 3.610000e-72 283.0
19 TraesCS2D01G344100 chr2B 81.081 296 39 8 2216 2498 518047204 518047495 2.870000e-53 220.0
20 TraesCS2D01G344100 chr2B 84.793 217 19 4 3559 3772 518048885 518049090 8.040000e-49 206.0
21 TraesCS2D01G344100 chr2B 79.412 306 33 14 3774 4072 518049196 518049478 8.100000e-44 189.0
22 TraesCS2D01G344100 chr2B 100.000 30 0 0 3547 3576 518048828 518048857 8.570000e-04 56.5
23 TraesCS2D01G344100 chr5A 91.542 733 45 6 993 1719 467782669 467781948 0.000000e+00 994.0
24 TraesCS2D01G344100 chr5A 91.108 731 50 5 993 1719 107891357 107892076 0.000000e+00 976.0
25 TraesCS2D01G344100 chr5A 86.667 240 21 6 4097 4334 355160703 355160473 7.880000e-64 255.0
26 TraesCS2D01G344100 chr7A 85.827 254 22 3 4091 4330 297943267 297943014 2.190000e-64 257.0
27 TraesCS2D01G344100 chr7A 88.372 86 4 3 2499 2578 99813434 99813519 1.400000e-16 99.0
28 TraesCS2D01G344100 chr3D 84.937 239 35 1 4098 4335 343492677 343492915 2.210000e-59 241.0
29 TraesCS2D01G344100 chr7D 84.190 253 26 3 4091 4329 269717132 269717384 3.690000e-57 233.0
30 TraesCS2D01G344100 chr7D 82.558 86 9 4 2499 2578 192021212 192021127 3.060000e-08 71.3
31 TraesCS2D01G344100 chr5D 84.064 251 25 3 4097 4334 267821797 267821549 1.720000e-55 228.0
32 TraesCS2D01G344100 chr5D 89.583 48 3 2 2547 2593 282007043 282006997 6.630000e-05 60.2
33 TraesCS2D01G344100 chr4B 90.132 152 15 0 4184 4335 672381 672230 1.350000e-46 198.0
34 TraesCS2D01G344100 chr4B 82.083 240 24 8 4098 4334 448534370 448534147 2.910000e-43 187.0
35 TraesCS2D01G344100 chr7B 88.372 86 4 3 2499 2578 51082050 51082135 1.400000e-16 99.0
36 TraesCS2D01G344100 chr7B 84.375 96 3 6 2499 2582 286834739 286834644 3.930000e-12 84.2
37 TraesCS2D01G344100 chr7B 93.023 43 3 0 622 664 568091546 568091588 5.120000e-06 63.9
38 TraesCS2D01G344100 chr5B 81.250 80 9 4 2499 2578 611993039 611992966 6.630000e-05 60.2
39 TraesCS2D01G344100 chr1A 89.362 47 3 2 2549 2595 306866008 306865964 2.380000e-04 58.4


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 TraesCS2D01G344100 chr2D 440320680 440326802 6122 False 11308.000000 11308 100.000000 1 6123 1 chr2D.!!$F2 6122
1 TraesCS2D01G344100 chr2A 583836358 583843195 6837 False 1104.125000 2905 93.282625 2 6123 8 chr2A.!!$F1 6121
2 TraesCS2D01G344100 chr2B 518044655 518054131 9476 False 524.681818 1280 87.182000 2 6123 11 chr2B.!!$F1 6121
3 TraesCS2D01G344100 chr5A 467781948 467782669 721 True 994.000000 994 91.542000 993 1719 1 chr5A.!!$R2 726
4 TraesCS2D01G344100 chr5A 107891357 107892076 719 False 976.000000 976 91.108000 993 1719 1 chr5A.!!$F1 726

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
750 1387 0.029567 GTCGATCTCTGTGGGCGTAG 59.970 60.0 0.00 0.0 0.00 3.51 F
2207 3322 0.397816 CCCCCGCCCCATTTTCATTA 60.398 55.0 0.00 0.0 0.00 1.90 F
2470 3598 0.768622 TTGAGAACACCCCGTGGAAT 59.231 50.0 0.00 0.0 37.94 3.01 F
3508 4912 0.392193 GCACTAGCATGTGAGGCTGT 60.392 55.0 12.33 0.0 42.62 4.40 F
4926 6847 0.105408 GGTCGGTATATGTGCCCGTT 59.895 55.0 0.00 0.0 42.30 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2470 3598 1.065926 AGGCAGACATGAGCGATCAAA 60.066 47.619 7.76 0.0 0.00 2.69 R
3500 4904 0.606401 GCAGCCACTAAACAGCCTCA 60.606 55.000 0.00 0.0 0.00 3.86 R
4218 6138 0.317020 GACACACGGCAAGTTTCTGC 60.317 55.000 0.00 0.0 41.85 4.26 R
4939 6860 0.528684 CCCAATCTTCCGAGACGAGC 60.529 60.000 0.00 0.0 33.99 5.03 R
5749 10666 0.621571 ACAAGGAGGCTGGCAGGATA 60.622 55.000 17.64 0.0 0.00 2.59 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
50 56 1.436983 GGCGTGAACCGATCCATTCC 61.437 60.000 2.08 0.00 39.56 3.01
114 127 2.100197 TGTCCGGTAGATCCACTTCTG 58.900 52.381 0.00 0.00 35.57 3.02
125 138 5.258841 AGATCCACTTCTGAATTGATTGCA 58.741 37.500 9.08 0.00 0.00 4.08
136 150 1.971481 TTGATTGCATCCTCCCATCG 58.029 50.000 0.00 0.00 0.00 3.84
187 201 1.772063 GAACACCGTGTCCTGTGTGC 61.772 60.000 4.23 0.00 44.53 4.57
241 255 3.125146 TGTTTATCATGTCGCTTGCAGAC 59.875 43.478 0.00 9.42 38.98 3.51
268 284 7.834068 ATGCAATCGGTATATACAATCAGAC 57.166 36.000 14.70 0.00 0.00 3.51
335 352 2.682856 CACAGCCATATACCCAACACAC 59.317 50.000 0.00 0.00 0.00 3.82
569 880 1.269831 GCTCAAATCTAGCGACCCGAT 60.270 52.381 0.00 0.00 0.00 4.18
579 890 0.792640 GCGACCCGATGCATATTCAG 59.207 55.000 0.00 0.00 0.00 3.02
580 891 1.432514 CGACCCGATGCATATTCAGG 58.567 55.000 0.00 0.00 0.00 3.86
592 1225 2.706555 TATTCAGGCACTCGCTATCG 57.293 50.000 0.00 0.00 34.60 2.92
597 1230 1.080434 GGCACTCGCTATCGATCCC 60.080 63.158 0.00 0.00 44.56 3.85
703 1339 1.456296 GTGTTACGGAATCCAACCCC 58.544 55.000 0.00 0.00 0.00 4.95
704 1340 0.328926 TGTTACGGAATCCAACCCCC 59.671 55.000 0.00 0.00 0.00 5.40
705 1341 0.745486 GTTACGGAATCCAACCCCCG 60.745 60.000 0.00 0.00 46.65 5.73
750 1387 0.029567 GTCGATCTCTGTGGGCGTAG 59.970 60.000 0.00 0.00 0.00 3.51
769 1406 1.133730 AGCCCCGAAGACTAGTAGAGG 60.134 57.143 3.59 0.00 0.00 3.69
779 1416 4.377134 AGACTAGTAGAGGAGGAGGAGTT 58.623 47.826 3.59 0.00 0.00 3.01
846 1493 1.074084 ACACAGGAGGAGAACGAGAGA 59.926 52.381 0.00 0.00 0.00 3.10
847 1494 1.742831 CACAGGAGGAGAACGAGAGAG 59.257 57.143 0.00 0.00 0.00 3.20
899 1549 1.915078 CGAAGCCATCACCCCCTTCT 61.915 60.000 0.00 0.00 33.35 2.85
902 1561 3.061905 GCCATCACCCCCTTCTCCC 62.062 68.421 0.00 0.00 0.00 4.30
1141 1816 0.955919 CAGTTCTGGCCGAGGGTTTC 60.956 60.000 0.00 0.00 0.00 2.78
1210 1900 2.228822 GGAGCGATTGTGATTTTGGTGT 59.771 45.455 0.00 0.00 0.00 4.16
1211 1901 3.492313 GAGCGATTGTGATTTTGGTGTC 58.508 45.455 0.00 0.00 0.00 3.67
1222 1912 2.999739 TTTGGTGTCCGGGAGTTCGC 63.000 60.000 0.00 0.00 0.00 4.70
1349 2039 1.011968 TTCGGCGGATCAGTTTCGTG 61.012 55.000 7.21 0.00 0.00 4.35
1435 2172 0.463654 TGTTGGTATGATCTGCGCCC 60.464 55.000 4.18 0.00 0.00 6.13
1450 2187 0.883833 CGCCCATTGCTTCTGAAACT 59.116 50.000 0.00 0.00 38.05 2.66
1547 2291 2.076863 AGTTGGACGAATGCTTACAGC 58.923 47.619 0.00 0.00 42.82 4.40
1611 2610 4.121317 TGTTCGGTATGTTTTTCGTCTGT 58.879 39.130 0.00 0.00 0.00 3.41
1758 2771 3.914426 ACTGCCAGATTAGGGTTGTAG 57.086 47.619 0.00 0.00 0.00 2.74
1759 2772 3.182152 ACTGCCAGATTAGGGTTGTAGT 58.818 45.455 0.00 0.00 0.00 2.73
1760 2773 4.359105 ACTGCCAGATTAGGGTTGTAGTA 58.641 43.478 0.00 0.00 0.00 1.82
1805 2818 4.375272 TGCTTCATGTCTAATGCTAGAGC 58.625 43.478 0.00 0.00 34.73 4.09
1807 2820 3.650070 TCATGTCTAATGCTAGAGCCG 57.350 47.619 0.00 0.00 41.18 5.52
1826 2839 6.548622 AGAGCCGAGTTGGTTACATAATACTA 59.451 38.462 0.00 0.00 41.21 1.82
1828 2841 6.323225 AGCCGAGTTGGTTACATAATACTACT 59.677 38.462 0.00 0.00 41.21 2.57
1857 2962 9.626045 CTGTGTTTCCTTATTTTGGTTCTAATC 57.374 33.333 0.00 0.00 0.00 1.75
1925 3032 4.935205 AGTTATGTATGTTCGCTGCAAAGA 59.065 37.500 0.00 0.00 0.00 2.52
2019 3127 9.995003 TCCTGATAATTTAAGCAAAATTGTTGT 57.005 25.926 16.00 4.20 45.35 3.32
2083 3191 1.827344 TGCTAGATCTGTGACCCTGTG 59.173 52.381 5.18 0.00 0.00 3.66
2084 3192 2.103373 GCTAGATCTGTGACCCTGTGA 58.897 52.381 5.18 0.00 0.00 3.58
2086 3194 3.243704 GCTAGATCTGTGACCCTGTGATC 60.244 52.174 5.18 0.00 35.19 2.92
2088 3196 3.030291 AGATCTGTGACCCTGTGATCTC 58.970 50.000 0.00 0.00 39.44 2.75
2089 3197 2.309136 TCTGTGACCCTGTGATCTCA 57.691 50.000 0.00 0.00 0.00 3.27
2090 3198 2.608623 TCTGTGACCCTGTGATCTCAA 58.391 47.619 0.00 0.00 0.00 3.02
2091 3199 3.176411 TCTGTGACCCTGTGATCTCAAT 58.824 45.455 0.00 0.00 0.00 2.57
2092 3200 3.196469 TCTGTGACCCTGTGATCTCAATC 59.804 47.826 0.00 0.00 0.00 2.67
2093 3201 2.237143 TGTGACCCTGTGATCTCAATCC 59.763 50.000 0.00 0.00 0.00 3.01
2094 3202 2.237143 GTGACCCTGTGATCTCAATCCA 59.763 50.000 0.00 0.00 0.00 3.41
2095 3203 3.117745 TGACCCTGTGATCTCAATCCAT 58.882 45.455 0.00 0.00 0.00 3.41
2096 3204 3.524789 TGACCCTGTGATCTCAATCCATT 59.475 43.478 0.00 0.00 0.00 3.16
2097 3205 4.133078 GACCCTGTGATCTCAATCCATTC 58.867 47.826 0.00 0.00 0.00 2.67
2098 3206 3.524789 ACCCTGTGATCTCAATCCATTCA 59.475 43.478 0.00 0.00 0.00 2.57
2099 3207 4.018141 ACCCTGTGATCTCAATCCATTCAA 60.018 41.667 0.00 0.00 0.00 2.69
2100 3208 4.951715 CCCTGTGATCTCAATCCATTCAAA 59.048 41.667 0.00 0.00 0.00 2.69
2101 3209 5.163581 CCCTGTGATCTCAATCCATTCAAAC 60.164 44.000 0.00 0.00 0.00 2.93
2102 3210 5.651139 CCTGTGATCTCAATCCATTCAAACT 59.349 40.000 0.00 0.00 0.00 2.66
2103 3211 6.183360 CCTGTGATCTCAATCCATTCAAACTC 60.183 42.308 0.00 0.00 0.00 3.01
2104 3212 6.479006 TGTGATCTCAATCCATTCAAACTCT 58.521 36.000 0.00 0.00 0.00 3.24
2105 3213 6.944290 TGTGATCTCAATCCATTCAAACTCTT 59.056 34.615 0.00 0.00 0.00 2.85
2106 3214 7.120285 TGTGATCTCAATCCATTCAAACTCTTC 59.880 37.037 0.00 0.00 0.00 2.87
2107 3215 6.600822 TGATCTCAATCCATTCAAACTCTTCC 59.399 38.462 0.00 0.00 0.00 3.46
2108 3216 6.131972 TCTCAATCCATTCAAACTCTTCCT 57.868 37.500 0.00 0.00 0.00 3.36
2109 3217 6.546484 TCTCAATCCATTCAAACTCTTCCTT 58.454 36.000 0.00 0.00 0.00 3.36
2110 3218 7.006509 TCTCAATCCATTCAAACTCTTCCTTT 58.993 34.615 0.00 0.00 0.00 3.11
2111 3219 6.985117 TCAATCCATTCAAACTCTTCCTTTG 58.015 36.000 0.00 0.00 0.00 2.77
2112 3220 6.550854 TCAATCCATTCAAACTCTTCCTTTGT 59.449 34.615 0.00 0.00 31.63 2.83
2113 3221 7.723616 TCAATCCATTCAAACTCTTCCTTTGTA 59.276 33.333 0.00 0.00 31.63 2.41
2114 3222 8.359642 CAATCCATTCAAACTCTTCCTTTGTAA 58.640 33.333 0.00 0.00 31.63 2.41
2115 3223 7.510549 TCCATTCAAACTCTTCCTTTGTAAG 57.489 36.000 0.00 0.00 31.63 2.34
2116 3224 7.287061 TCCATTCAAACTCTTCCTTTGTAAGA 58.713 34.615 0.00 0.00 31.63 2.10
2117 3225 7.777910 TCCATTCAAACTCTTCCTTTGTAAGAA 59.222 33.333 0.00 0.00 32.77 2.52
2167 3279 7.613022 AGGATTGTAGACAATTTGTGATGTCAT 59.387 33.333 6.80 0.00 45.72 3.06
2207 3322 0.397816 CCCCCGCCCCATTTTCATTA 60.398 55.000 0.00 0.00 0.00 1.90
2260 3375 2.020720 TGTGTGTAAAGCCACCACAAG 58.979 47.619 0.00 0.00 40.48 3.16
2265 3393 2.685897 TGTAAAGCCACCACAAGTTCAC 59.314 45.455 0.00 0.00 0.00 3.18
2274 3402 2.708861 ACCACAAGTTCACAGGGTATCA 59.291 45.455 0.00 0.00 0.00 2.15
2321 3449 6.016527 CCATTTGCTGTCTCATGCAGTATATT 60.017 38.462 0.00 0.00 40.46 1.28
2363 3491 1.739750 TGTTTGGGGGCCATTTGAAT 58.260 45.000 4.39 0.00 31.53 2.57
2380 3508 5.375417 TTGAATATGTGCAGACACCTTTG 57.625 39.130 0.00 0.00 46.86 2.77
2393 3521 6.491394 CAGACACCTTTGTTCGATAAAAACA 58.509 36.000 0.00 0.00 35.47 2.83
2421 3549 8.647226 GTTTTTATTGACTCAATAACATGCACC 58.353 33.333 19.60 4.99 43.24 5.01
2470 3598 0.768622 TTGAGAACACCCCGTGGAAT 59.231 50.000 0.00 0.00 37.94 3.01
2514 3649 2.176247 ATGTACTCCCTCCGTTCCAT 57.824 50.000 0.00 0.00 0.00 3.41
2516 3651 3.323774 TGTACTCCCTCCGTTCCATAT 57.676 47.619 0.00 0.00 0.00 1.78
2517 3652 3.228453 TGTACTCCCTCCGTTCCATATC 58.772 50.000 0.00 0.00 0.00 1.63
2518 3653 2.777459 ACTCCCTCCGTTCCATATCT 57.223 50.000 0.00 0.00 0.00 1.98
2519 3654 2.320781 ACTCCCTCCGTTCCATATCTG 58.679 52.381 0.00 0.00 0.00 2.90
2524 3659 3.370527 CCCTCCGTTCCATATCTGTTGTT 60.371 47.826 0.00 0.00 0.00 2.83
2526 3661 3.006940 TCCGTTCCATATCTGTTGTTGC 58.993 45.455 0.00 0.00 0.00 4.17
2527 3662 3.009723 CCGTTCCATATCTGTTGTTGCT 58.990 45.455 0.00 0.00 0.00 3.91
2529 3664 3.684305 CGTTCCATATCTGTTGTTGCTGA 59.316 43.478 0.00 0.00 0.00 4.26
2530 3665 4.333649 CGTTCCATATCTGTTGTTGCTGAT 59.666 41.667 0.00 0.00 0.00 2.90
2531 3666 5.163723 CGTTCCATATCTGTTGTTGCTGATT 60.164 40.000 0.00 0.00 0.00 2.57
2532 3667 6.623549 CGTTCCATATCTGTTGTTGCTGATTT 60.624 38.462 0.00 0.00 0.00 2.17
2533 3668 7.413988 CGTTCCATATCTGTTGTTGCTGATTTA 60.414 37.037 0.00 0.00 0.00 1.40
2534 3669 7.558161 TCCATATCTGTTGTTGCTGATTTAG 57.442 36.000 0.00 0.00 0.00 1.85
2535 3670 7.112122 TCCATATCTGTTGTTGCTGATTTAGT 58.888 34.615 0.00 0.00 0.00 2.24
2536 3671 8.264347 TCCATATCTGTTGTTGCTGATTTAGTA 58.736 33.333 0.00 0.00 0.00 1.82
2537 3672 8.892723 CCATATCTGTTGTTGCTGATTTAGTAA 58.107 33.333 0.00 0.00 0.00 2.24
2541 3676 8.220755 TCTGTTGTTGCTGATTTAGTAAAGTT 57.779 30.769 1.21 0.00 32.62 2.66
2542 3677 9.332502 TCTGTTGTTGCTGATTTAGTAAAGTTA 57.667 29.630 1.21 0.00 32.62 2.24
2576 3748 3.924922 ACTAATATGGAACGGAGGGAGT 58.075 45.455 0.00 0.00 0.00 3.85
2662 3834 5.014544 AGCTGGTGCCTTGGTATATATGATT 59.985 40.000 0.00 0.00 40.80 2.57
2731 3903 5.649831 ACTATCTTCAAGCTTGATTTGGGAC 59.350 40.000 28.89 0.00 37.00 4.46
2767 3939 3.245990 GTGTTTCAAATTGCACTTCTGCC 59.754 43.478 0.00 0.00 43.51 4.85
2772 3944 3.132646 TCAAATTGCACTTCTGCCAAACT 59.867 39.130 0.00 0.00 43.51 2.66
2827 3999 5.462530 AGCATGGGTAAACTGGTAAAAAC 57.537 39.130 0.00 0.00 0.00 2.43
2847 4032 6.368779 AAACCATGCTAAACTGTCCTACTA 57.631 37.500 0.00 0.00 0.00 1.82
3138 4333 8.097038 TGACTACTTCTATTGCATGAATATCCC 58.903 37.037 0.00 0.00 0.00 3.85
3216 4527 6.609237 TTTATCTCTTCTGATTTCATGCGG 57.391 37.500 0.00 0.00 0.00 5.69
3270 4581 5.796935 GCTGTATGTTGTGAAACTATTGCTG 59.203 40.000 0.00 0.00 38.04 4.41
3311 4622 3.311871 GCATTCATAGTTCACAGCCTCTG 59.688 47.826 0.00 0.00 37.52 3.35
3466 4870 5.544176 TCAGTCTCATCCTAAAAGGTCTTGT 59.456 40.000 0.00 0.00 36.53 3.16
3485 4889 6.017440 GTCTTGTACTTGTGGTGAAATAGCAA 60.017 38.462 0.00 0.00 38.75 3.91
3508 4912 0.392193 GCACTAGCATGTGAGGCTGT 60.392 55.000 12.33 0.00 42.62 4.40
3651 5261 8.914328 TTGAATCACAATTGCACATATACTTG 57.086 30.769 5.05 0.00 33.18 3.16
3813 5529 7.230222 CGAGATTGAGATTGTTCTGTTGTTAC 58.770 38.462 0.00 0.00 30.30 2.50
3827 5550 5.467063 TCTGTTGTTACGCATGTTCAATGTA 59.533 36.000 0.00 0.00 0.00 2.29
3828 5551 6.148645 TCTGTTGTTACGCATGTTCAATGTAT 59.851 34.615 0.00 0.00 0.00 2.29
3829 5552 7.332182 TCTGTTGTTACGCATGTTCAATGTATA 59.668 33.333 0.00 0.00 0.00 1.47
3830 5553 7.807680 TGTTGTTACGCATGTTCAATGTATAA 58.192 30.769 0.00 0.00 0.00 0.98
3831 5554 8.454894 TGTTGTTACGCATGTTCAATGTATAAT 58.545 29.630 0.00 0.00 0.00 1.28
3832 5555 9.284594 GTTGTTACGCATGTTCAATGTATAATT 57.715 29.630 0.00 0.00 0.00 1.40
3833 5556 9.497030 TTGTTACGCATGTTCAATGTATAATTC 57.503 29.630 0.00 0.00 0.00 2.17
3834 5557 8.669243 TGTTACGCATGTTCAATGTATAATTCA 58.331 29.630 0.00 0.00 0.00 2.57
3835 5558 9.497030 GTTACGCATGTTCAATGTATAATTCAA 57.503 29.630 0.00 0.00 0.00 2.69
3837 5560 8.564648 ACGCATGTTCAATGTATAATTCAATG 57.435 30.769 0.00 0.00 0.00 2.82
3838 5561 7.167968 ACGCATGTTCAATGTATAATTCAATGC 59.832 33.333 0.00 0.00 0.00 3.56
3989 5714 9.482627 GATAAACAGTTGATGAGTATCCTTAGG 57.517 37.037 0.00 0.00 32.09 2.69
3990 5715 7.496346 AAACAGTTGATGAGTATCCTTAGGA 57.504 36.000 2.37 2.37 35.55 2.94
4127 6046 4.883585 TGATAAGTACCGAACGTCAGGTAT 59.116 41.667 20.40 11.26 43.91 2.73
4131 6050 1.830279 ACCGAACGTCAGGTATGAGA 58.170 50.000 12.51 0.00 39.30 3.27
4150 6069 1.234615 AACATGGCAACTCCGAACGG 61.235 55.000 6.94 6.94 37.80 4.44
4154 6074 1.595929 GGCAACTCCGAACGGTTCA 60.596 57.895 19.91 1.48 36.47 3.18
4171 6091 5.151389 CGGTTCAATGGCAAGTTTAGTTAC 58.849 41.667 0.00 0.00 0.00 2.50
4186 6106 1.813753 TTACGCGAGGATGCCAAGC 60.814 57.895 15.93 0.00 0.00 4.01
4187 6107 2.514510 TTACGCGAGGATGCCAAGCA 62.515 55.000 15.93 0.00 44.86 3.91
4213 6133 5.523552 GGCAACTTTTGTGCTTCAGTTTATT 59.476 36.000 0.00 0.00 0.00 1.40
4218 6138 7.973601 ACTTTTGTGCTTCAGTTTATTTTTGG 58.026 30.769 0.00 0.00 0.00 3.28
4262 6182 0.968405 AATTTGCCATCCTTGCGTGT 59.032 45.000 0.00 0.00 0.00 4.49
4320 6240 1.968017 CGCACCTGACTTGTGGCAT 60.968 57.895 0.00 0.00 34.27 4.40
4342 6263 9.225436 GGCATTTATCATTTGGGTAAAGAAAAA 57.775 29.630 0.00 0.00 0.00 1.94
4373 6294 2.032894 AGTGTGACGTCATTTTCTTGCG 60.033 45.455 23.12 0.00 0.00 4.85
4377 6298 2.731451 TGACGTCATTTTCTTGCGAGAG 59.269 45.455 15.76 0.00 32.44 3.20
4433 6354 9.567776 TCATCAGTTATGGTCTTTCAAACTTTA 57.432 29.630 0.00 0.00 36.15 1.85
4447 6368 7.857734 TTCAAACTTTATGTGACACTGAAGA 57.142 32.000 17.22 0.00 0.00 2.87
4458 6379 5.012458 TGTGACACTGAAGAAAGATGGAGAT 59.988 40.000 7.20 0.00 0.00 2.75
4460 6381 5.936372 TGACACTGAAGAAAGATGGAGATTG 59.064 40.000 0.00 0.00 0.00 2.67
4464 6385 7.768120 ACACTGAAGAAAGATGGAGATTGATAC 59.232 37.037 0.00 0.00 0.00 2.24
4569 6490 2.290641 GCGTGAAATTCTTGGACACACT 59.709 45.455 0.00 0.00 0.00 3.55
4721 6642 5.353400 TCAAGAGCATCATTTTGTGAGCTAG 59.647 40.000 0.00 0.00 40.92 3.42
4728 6649 6.671190 CATCATTTTGTGAGCTAGTTCAACA 58.329 36.000 11.19 8.94 40.92 3.33
4895 6816 5.323371 TGGGACAAATAATTGCTAGTTGC 57.677 39.130 0.00 0.00 38.82 4.17
4900 6821 4.941263 ACAAATAATTGCTAGTTGCCTCGA 59.059 37.500 0.00 0.00 38.82 4.04
4906 6827 1.041437 GCTAGTTGCCTCGACCCTAT 58.959 55.000 0.00 0.00 35.15 2.57
4907 6828 1.269831 GCTAGTTGCCTCGACCCTATG 60.270 57.143 0.00 0.00 35.15 2.23
4908 6829 1.341531 CTAGTTGCCTCGACCCTATGG 59.658 57.143 0.00 0.00 37.80 2.74
4921 6842 2.565834 ACCCTATGGTCGGTATATGTGC 59.434 50.000 0.00 0.00 43.06 4.57
4922 6843 2.093658 CCCTATGGTCGGTATATGTGCC 60.094 54.545 0.00 0.00 0.00 5.01
4923 6844 2.093658 CCTATGGTCGGTATATGTGCCC 60.094 54.545 0.00 0.00 0.00 5.36
4924 6845 0.320374 ATGGTCGGTATATGTGCCCG 59.680 55.000 0.00 0.00 43.03 6.13
4925 6846 1.044231 TGGTCGGTATATGTGCCCGT 61.044 55.000 0.00 0.00 42.30 5.28
4926 6847 0.105408 GGTCGGTATATGTGCCCGTT 59.895 55.000 0.00 0.00 42.30 4.44
4927 6848 1.473788 GGTCGGTATATGTGCCCGTTT 60.474 52.381 0.00 0.00 42.30 3.60
4928 6849 1.862827 GTCGGTATATGTGCCCGTTTC 59.137 52.381 0.00 0.00 42.30 2.78
4929 6850 1.202557 TCGGTATATGTGCCCGTTTCC 60.203 52.381 0.00 0.00 42.30 3.13
4930 6851 1.601166 GGTATATGTGCCCGTTTCCC 58.399 55.000 0.00 0.00 0.00 3.97
4931 6852 1.601166 GTATATGTGCCCGTTTCCCC 58.399 55.000 0.00 0.00 0.00 4.81
5125 7368 4.894114 GCTCTGGGGAGTTACACTTAGATA 59.106 45.833 0.00 0.00 41.38 1.98
5243 7486 4.157289 CCATGCTGATGCTACAAAGTCTTT 59.843 41.667 0.00 0.00 40.48 2.52
5244 7487 5.336213 CCATGCTGATGCTACAAAGTCTTTT 60.336 40.000 0.00 0.00 40.48 2.27
5317 7560 4.156556 TGCTGTAAATCTGAGATGTTTGCC 59.843 41.667 0.00 0.00 0.00 4.52
5351 7594 3.256383 CCTCCTCATGTTGAATGTTTGCA 59.744 43.478 0.00 0.00 0.00 4.08
5429 7678 2.416547 CCACGTCATAAGCTCCACTTTG 59.583 50.000 0.00 0.00 39.97 2.77
5540 7811 8.773404 AACGCAACTTTTCATAGTATAGTTCT 57.227 30.769 0.00 0.00 0.00 3.01
5541 7812 8.186178 ACGCAACTTTTCATAGTATAGTTCTG 57.814 34.615 0.00 0.00 0.00 3.02
5545 7816 9.593134 CAACTTTTCATAGTATAGTTCTGCTCT 57.407 33.333 0.00 0.00 0.00 4.09
5566 7837 6.650390 GCTCTTTCTCTCCCAGATGATTATTC 59.350 42.308 0.00 0.00 0.00 1.75
5587 7858 3.636300 TCTGTTTAAGCAACACAGCCAAT 59.364 39.130 0.22 0.00 40.71 3.16
5588 7859 4.824537 TCTGTTTAAGCAACACAGCCAATA 59.175 37.500 0.22 0.00 40.71 1.90
5658 10575 0.747283 CCCAGTCAGAGCTTGGATGC 60.747 60.000 2.79 0.00 0.00 3.91
5661 10578 2.124983 TCAGAGCTTGGATGCCGC 60.125 61.111 0.00 0.00 0.00 6.53
5749 10666 1.815421 GACGCACTGCCGGATGAAT 60.815 57.895 5.05 0.00 0.00 2.57
5765 10682 1.063183 GAATATCCTGCCAGCCTCCT 58.937 55.000 0.00 0.00 0.00 3.69
5766 10683 1.423161 GAATATCCTGCCAGCCTCCTT 59.577 52.381 0.00 0.00 0.00 3.36
5837 10754 1.032657 CATCTCCTCCTCCACGACGT 61.033 60.000 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 16 0.890996 CCAAGAATGATAGGGGCGCC 60.891 60.000 21.18 21.18 0.00 6.53
50 56 2.001812 AGCTGTACTGCACGATCAAG 57.998 50.000 24.38 0.00 34.99 3.02
125 138 2.143419 GGTGGAGCGATGGGAGGAT 61.143 63.158 0.00 0.00 0.00 3.24
187 201 0.033504 CCCCATGGTTCGTATCTCGG 59.966 60.000 11.73 0.00 40.32 4.63
241 255 7.761249 TCTGATTGTATATACCGATTGCATCTG 59.239 37.037 10.38 5.28 0.00 2.90
245 259 6.868339 CAGTCTGATTGTATATACCGATTGCA 59.132 38.462 10.38 0.00 0.00 4.08
335 352 1.476007 TTTGGGGCATTCGGTTTGGG 61.476 55.000 0.00 0.00 0.00 4.12
379 690 1.620739 ATCGGCTGTCCAGATGCAGT 61.621 55.000 0.00 0.00 35.33 4.40
450 761 1.006571 ACAGCTACGTGTTCACCGG 60.007 57.895 0.00 0.00 0.00 5.28
569 880 0.178767 AGCGAGTGCCTGAATATGCA 59.821 50.000 0.00 0.00 44.31 3.96
592 1225 4.554036 GGACGGCTGGCTGGGATC 62.554 72.222 0.00 0.00 0.00 3.36
597 1230 2.813908 GTTACGGACGGCTGGCTG 60.814 66.667 5.37 5.37 0.00 4.85
750 1387 1.133853 TCCTCTACTAGTCTTCGGGGC 60.134 57.143 0.00 0.00 0.00 5.80
769 1406 2.896443 CCCGAGCAACTCCTCCTC 59.104 66.667 0.00 0.00 0.00 3.71
846 1493 2.301738 CGGCTTTTCCCCTCTCCCT 61.302 63.158 0.00 0.00 0.00 4.20
847 1494 2.272471 CGGCTTTTCCCCTCTCCC 59.728 66.667 0.00 0.00 0.00 4.30
991 1651 2.490148 CGGCGACCATCTCCAGCTA 61.490 63.158 0.00 0.00 0.00 3.32
1167 1848 3.869272 GGCTCCGCAATGCTCACG 61.869 66.667 2.94 0.00 0.00 4.35
1195 1885 1.892474 CCCGGACACCAAAATCACAAT 59.108 47.619 0.73 0.00 0.00 2.71
1196 1886 1.133761 TCCCGGACACCAAAATCACAA 60.134 47.619 0.73 0.00 0.00 3.33
1210 1900 1.327690 ATAAGCTGCGAACTCCCGGA 61.328 55.000 0.73 0.00 0.00 5.14
1211 1901 0.876342 GATAAGCTGCGAACTCCCGG 60.876 60.000 0.00 0.00 0.00 5.73
1222 1912 0.506080 CGCGCTAAGCAGATAAGCTG 59.494 55.000 5.56 0.00 45.89 4.24
1316 2006 5.542616 TCCGCCGAATTATAAAACGAAAA 57.457 34.783 13.57 0.00 0.00 2.29
1317 2007 5.293814 TGATCCGCCGAATTATAAAACGAAA 59.706 36.000 13.57 1.09 0.00 3.46
1349 2039 2.823758 GGGGATCCACAGCCTAGCC 61.824 68.421 15.23 0.00 0.00 3.93
1435 2172 7.312657 TGAATAGCTAGTTTCAGAAGCAATG 57.687 36.000 5.80 0.00 38.75 2.82
1450 2187 5.598417 TCTGCTAGTGGTTCATGAATAGCTA 59.402 40.000 27.00 19.69 37.21 3.32
1611 2610 9.642343 ACTATGAGTAATGTGATCCACTACTTA 57.358 33.333 6.73 4.21 35.11 2.24
1658 2671 2.991250 TGACCCTAAAATGCTCTCAGC 58.009 47.619 0.00 0.00 42.82 4.26
1758 2771 9.801714 CAAATTTGCTTCAGAAATCACAAATAC 57.198 29.630 5.01 0.00 36.88 1.89
1785 2798 3.986572 CGGCTCTAGCATTAGACATGAAG 59.013 47.826 0.00 0.00 44.36 3.02
1787 2800 3.222603 TCGGCTCTAGCATTAGACATGA 58.777 45.455 0.00 0.00 44.36 3.07
1793 2806 2.101582 ACCAACTCGGCTCTAGCATTAG 59.898 50.000 4.07 0.63 44.36 1.73
1805 2818 8.078596 GGTAGTAGTATTATGTAACCAACTCGG 58.921 40.741 0.00 0.00 42.50 4.63
1807 2820 9.962783 CAGGTAGTAGTATTATGTAACCAACTC 57.037 37.037 0.00 0.00 0.00 3.01
1826 2839 6.370453 ACCAAAATAAGGAAACACAGGTAGT 58.630 36.000 0.00 0.00 0.00 2.73
1828 2841 7.064229 AGAACCAAAATAAGGAAACACAGGTA 58.936 34.615 0.00 0.00 0.00 3.08
1857 2962 7.607991 ACAAAGTAGATTAAACATCTGAGTGGG 59.392 37.037 0.00 0.00 0.00 4.61
1925 3032 7.875554 TCTTTAAAGTTCAAAAACAAAGCCACT 59.124 29.630 14.74 0.00 37.88 4.00
2019 3127 9.595823 GCTTACTTCATGTCCATAGTTTAGTAA 57.404 33.333 0.00 0.00 0.00 2.24
2083 3191 6.827762 AGGAAGAGTTTGAATGGATTGAGATC 59.172 38.462 0.00 0.00 0.00 2.75
2084 3192 6.729428 AGGAAGAGTTTGAATGGATTGAGAT 58.271 36.000 0.00 0.00 0.00 2.75
2086 3194 6.830873 AAGGAAGAGTTTGAATGGATTGAG 57.169 37.500 0.00 0.00 0.00 3.02
2088 3196 6.752168 ACAAAGGAAGAGTTTGAATGGATTG 58.248 36.000 2.70 0.00 38.13 2.67
2089 3197 6.983906 ACAAAGGAAGAGTTTGAATGGATT 57.016 33.333 2.70 0.00 38.13 3.01
2090 3198 7.944554 TCTTACAAAGGAAGAGTTTGAATGGAT 59.055 33.333 2.70 0.00 38.13 3.41
2091 3199 7.287061 TCTTACAAAGGAAGAGTTTGAATGGA 58.713 34.615 2.70 0.00 38.13 3.41
2092 3200 7.510549 TCTTACAAAGGAAGAGTTTGAATGG 57.489 36.000 2.70 0.00 38.13 3.16
2093 3201 9.971922 AATTCTTACAAAGGAAGAGTTTGAATG 57.028 29.630 2.70 0.00 38.13 2.67
2167 3279 5.014333 GGGGGCCCCTTTTCTTAAAAATAAA 59.986 40.000 39.92 0.00 41.34 1.40
2170 3282 2.916934 GGGGGCCCCTTTTCTTAAAAAT 59.083 45.455 39.92 0.00 41.34 1.82
2260 3375 9.310716 GTTACTATAAGTTGATACCCTGTGAAC 57.689 37.037 0.00 0.00 0.00 3.18
2265 3393 7.438459 GTGCAGTTACTATAAGTTGATACCCTG 59.562 40.741 0.00 0.00 0.00 4.45
2274 3402 9.681062 AATGGTAATGTGCAGTTACTATAAGTT 57.319 29.630 16.23 4.60 33.74 2.66
2363 3491 2.805671 CGAACAAAGGTGTCTGCACATA 59.194 45.455 0.12 0.00 46.95 2.29
2393 3521 9.979578 TGCATGTTATTGAGTCAATAAAAACTT 57.020 25.926 30.66 19.94 44.45 2.66
2470 3598 1.065926 AGGCAGACATGAGCGATCAAA 60.066 47.619 7.76 0.00 0.00 2.69
2514 3649 9.502091 ACTTTACTAAATCAGCAACAACAGATA 57.498 29.630 0.00 0.00 0.00 1.98
2516 3651 7.801716 ACTTTACTAAATCAGCAACAACAGA 57.198 32.000 0.00 0.00 0.00 3.41
2517 3652 9.944663 TTAACTTTACTAAATCAGCAACAACAG 57.055 29.630 0.00 0.00 0.00 3.16
2530 3665 9.654417 GTTGTCGCTGATTTTAACTTTACTAAA 57.346 29.630 0.00 0.00 0.00 1.85
2531 3666 9.048446 AGTTGTCGCTGATTTTAACTTTACTAA 57.952 29.630 0.00 0.00 0.00 2.24
2532 3667 8.597662 AGTTGTCGCTGATTTTAACTTTACTA 57.402 30.769 0.00 0.00 0.00 1.82
2533 3668 7.492352 AGTTGTCGCTGATTTTAACTTTACT 57.508 32.000 0.00 0.00 0.00 2.24
2534 3669 9.821662 ATTAGTTGTCGCTGATTTTAACTTTAC 57.178 29.630 0.00 0.00 31.55 2.01
2537 3672 9.988350 CATATTAGTTGTCGCTGATTTTAACTT 57.012 29.630 0.00 0.00 31.55 2.66
2538 3673 8.612619 CCATATTAGTTGTCGCTGATTTTAACT 58.387 33.333 0.00 0.00 33.46 2.24
2539 3674 8.609176 TCCATATTAGTTGTCGCTGATTTTAAC 58.391 33.333 0.00 0.00 0.00 2.01
2541 3676 8.609176 GTTCCATATTAGTTGTCGCTGATTTTA 58.391 33.333 0.00 0.00 0.00 1.52
2542 3677 7.472543 GTTCCATATTAGTTGTCGCTGATTTT 58.527 34.615 0.00 0.00 0.00 1.82
2576 3748 7.505923 ACCTCTTACATGCTACTACACATCATA 59.494 37.037 0.00 0.00 0.00 2.15
2662 3834 6.200114 AGGCCACCTCTTACATACTACTAAA 58.800 40.000 5.01 0.00 0.00 1.85
2731 3903 1.273327 GAAACACAATCCTTGCCCCAG 59.727 52.381 0.00 0.00 0.00 4.45
2800 3972 4.650972 ACCAGTTTACCCATGCTTCTAA 57.349 40.909 0.00 0.00 0.00 2.10
2827 3999 6.591834 GCATATAGTAGGACAGTTTAGCATGG 59.408 42.308 0.00 0.00 0.00 3.66
2847 4032 8.523915 TGATTTAGAGAACACCAAATGCATAT 57.476 30.769 0.00 0.00 0.00 1.78
3160 4471 8.618677 TGAAAGCAAACAAATGAATGCAAATAA 58.381 25.926 14.23 0.00 41.18 1.40
3196 4507 4.148128 ACCGCATGAAATCAGAAGAGAT 57.852 40.909 0.00 0.00 0.00 2.75
3270 4581 1.228245 TGCCAGGGAAGTGCTGTTC 60.228 57.895 0.00 0.00 0.00 3.18
3281 4592 1.952296 GAACTATGAATGCTGCCAGGG 59.048 52.381 0.00 0.00 0.00 4.45
3466 4870 6.601217 TGCATATTGCTATTTCACCACAAGTA 59.399 34.615 0.75 0.00 45.31 2.24
3500 4904 0.606401 GCAGCCACTAAACAGCCTCA 60.606 55.000 0.00 0.00 0.00 3.86
3508 4912 3.951563 ATAATCAGGGCAGCCACTAAA 57.048 42.857 15.19 0.57 0.00 1.85
3651 5261 9.178427 GAAAGTCTAATGCAATCTAATGAATGC 57.822 33.333 0.00 0.00 46.30 3.56
3813 5529 7.495765 GCATTGAATTATACATTGAACATGCG 58.504 34.615 0.00 0.00 0.00 4.73
3827 5550 6.857964 GCATAACTTACTGCGCATTGAATTAT 59.142 34.615 12.24 5.40 0.00 1.28
3828 5551 6.183360 TGCATAACTTACTGCGCATTGAATTA 60.183 34.615 12.24 2.75 41.32 1.40
3829 5552 5.036737 GCATAACTTACTGCGCATTGAATT 58.963 37.500 12.24 0.00 0.00 2.17
3830 5553 4.096231 TGCATAACTTACTGCGCATTGAAT 59.904 37.500 12.24 0.00 41.32 2.57
3831 5554 3.438434 TGCATAACTTACTGCGCATTGAA 59.562 39.130 12.24 4.43 41.32 2.69
3832 5555 3.006247 TGCATAACTTACTGCGCATTGA 58.994 40.909 12.24 0.00 41.32 2.57
3833 5556 3.403613 TGCATAACTTACTGCGCATTG 57.596 42.857 12.24 1.81 41.32 2.82
3834 5557 3.793129 GCATGCATAACTTACTGCGCATT 60.793 43.478 12.24 8.40 41.32 3.56
3835 5558 2.287188 GCATGCATAACTTACTGCGCAT 60.287 45.455 12.24 3.79 41.32 4.73
3836 5559 1.063912 GCATGCATAACTTACTGCGCA 59.936 47.619 14.21 10.98 41.32 6.09
3837 5560 1.063912 TGCATGCATAACTTACTGCGC 59.936 47.619 18.46 0.00 41.32 6.09
3838 5561 2.352651 ACTGCATGCATAACTTACTGCG 59.647 45.455 22.97 7.24 41.32 5.18
3895 5618 1.080638 TAGTGGCCAATTTCAGGGGT 58.919 50.000 12.70 0.00 0.00 4.95
3989 5714 5.376625 TCAAGTCCAGGCCAAACATATATC 58.623 41.667 5.01 0.00 0.00 1.63
3990 5715 5.387113 TCAAGTCCAGGCCAAACATATAT 57.613 39.130 5.01 0.00 0.00 0.86
4058 5787 7.339212 TGTCAATGGGGATCTTTAAACATACAG 59.661 37.037 0.00 0.00 0.00 2.74
4127 6046 0.684535 TCGGAGTTGCCATGTTCTCA 59.315 50.000 0.00 0.00 35.94 3.27
4131 6050 1.234615 CCGTTCGGAGTTGCCATGTT 61.235 55.000 5.19 0.00 35.94 2.71
4150 6069 4.615541 GCGTAACTAAACTTGCCATTGAAC 59.384 41.667 0.00 0.00 0.00 3.18
4154 6074 3.068560 TCGCGTAACTAAACTTGCCATT 58.931 40.909 5.77 0.00 0.00 3.16
4186 6106 2.798283 CTGAAGCACAAAAGTTGCCATG 59.202 45.455 0.00 0.00 41.18 3.66
4187 6107 2.431782 ACTGAAGCACAAAAGTTGCCAT 59.568 40.909 0.00 0.00 41.18 4.40
4188 6108 1.824230 ACTGAAGCACAAAAGTTGCCA 59.176 42.857 0.00 0.00 41.18 4.92
4189 6109 2.584492 ACTGAAGCACAAAAGTTGCC 57.416 45.000 0.00 0.00 41.18 4.52
4218 6138 0.317020 GACACACGGCAAGTTTCTGC 60.317 55.000 0.00 0.00 41.85 4.26
4231 6151 1.680735 TGGCAAATTCCAGTGACACAC 59.319 47.619 8.59 0.00 34.10 3.82
4232 6152 2.064434 TGGCAAATTCCAGTGACACA 57.936 45.000 8.59 0.00 0.00 3.72
4262 6182 5.813311 ACGTTTTTCGATGGCAATTCCAGA 61.813 41.667 0.00 0.00 45.10 3.86
4303 6223 0.675633 AAATGCCACAAGTCAGGTGC 59.324 50.000 0.00 0.00 34.94 5.01
4342 6263 4.983671 TGACGTCACACTTCTATGCTAT 57.016 40.909 15.76 0.00 0.00 2.97
4343 6264 4.983671 ATGACGTCACACTTCTATGCTA 57.016 40.909 22.71 0.00 0.00 3.49
4373 6294 7.067129 GGGTAAACAGGACAAAATTATCCTCTC 59.933 40.741 3.41 0.00 43.84 3.20
4377 6298 6.436218 ACTGGGTAAACAGGACAAAATTATCC 59.564 38.462 0.00 0.00 42.75 2.59
4433 6354 5.012458 TCTCCATCTTTCTTCAGTGTCACAT 59.988 40.000 5.62 0.00 0.00 3.21
4447 6368 7.013083 GCATCAACAGTATCAATCTCCATCTTT 59.987 37.037 0.00 0.00 0.00 2.52
4458 6379 7.774625 TGATAGGATTTGCATCAACAGTATCAA 59.225 33.333 0.00 0.00 0.00 2.57
4460 6381 7.094890 CCTGATAGGATTTGCATCAACAGTATC 60.095 40.741 0.00 0.00 37.67 2.24
4464 6385 4.885907 ACCTGATAGGATTTGCATCAACAG 59.114 41.667 1.13 0.00 37.67 3.16
4569 6490 1.267121 GTGAGCTAACCTGAGGGACA 58.733 55.000 2.38 0.00 36.25 4.02
4728 6649 9.967346 TCTTTCGATATGAATTATTCGAGAACT 57.033 29.630 0.23 0.00 36.22 3.01
4776 6697 7.174107 ACTATTCAATAATTGCAGCTTTGGT 57.826 32.000 0.00 0.00 0.00 3.67
4834 6755 9.793252 GATGTCATTTGCATTCTAAGTATTTGT 57.207 29.630 0.00 0.00 0.00 2.83
4911 6832 1.601166 GGGAAACGGGCACATATACC 58.399 55.000 0.00 0.00 0.00 2.73
4912 6833 1.601166 GGGGAAACGGGCACATATAC 58.399 55.000 0.00 0.00 0.00 1.47
4915 6836 2.678470 GGGGGAAACGGGCACATA 59.322 61.111 0.00 0.00 0.00 2.29
4930 6851 1.364171 CGAGACGAGCATAAGGGGG 59.636 63.158 0.00 0.00 0.00 5.40
4931 6852 1.107538 TCCGAGACGAGCATAAGGGG 61.108 60.000 0.00 0.00 0.00 4.79
4939 6860 0.528684 CCCAATCTTCCGAGACGAGC 60.529 60.000 0.00 0.00 33.99 5.03
4940 6861 0.528684 GCCCAATCTTCCGAGACGAG 60.529 60.000 0.00 0.00 33.99 4.18
4943 6864 2.044123 AATGCCCAATCTTCCGAGAC 57.956 50.000 0.00 0.00 33.99 3.36
4983 7223 7.693951 GCATATCGGCTAATCATTGTTATCAAC 59.306 37.037 0.00 0.00 36.33 3.18
5125 7368 8.975663 ATATCTGATGATCAAATATTGCCGAT 57.024 30.769 0.00 0.00 34.32 4.18
5243 7486 5.419542 ACAGCGCAGATCTAAATCAGTTAA 58.580 37.500 11.47 0.00 34.07 2.01
5244 7487 5.011090 ACAGCGCAGATCTAAATCAGTTA 57.989 39.130 11.47 0.00 34.07 2.24
5317 7560 3.066900 ACATGAGGAGGTTCTAATCGACG 59.933 47.826 0.00 0.00 0.00 5.12
5351 7594 7.255312 GCTCTACATATCACTGCTAGTTGTACT 60.255 40.741 0.00 0.00 0.00 2.73
5429 7678 5.400066 AAAAGGCAAATATGTGTACCCAC 57.600 39.130 0.00 0.00 42.19 4.61
5534 7805 3.766591 CTGGGAGAGAAAGAGCAGAACTA 59.233 47.826 0.00 0.00 0.00 2.24
5535 7806 2.566724 CTGGGAGAGAAAGAGCAGAACT 59.433 50.000 0.00 0.00 0.00 3.01
5536 7807 2.564947 TCTGGGAGAGAAAGAGCAGAAC 59.435 50.000 0.00 0.00 0.00 3.01
5537 7808 2.894731 TCTGGGAGAGAAAGAGCAGAA 58.105 47.619 0.00 0.00 0.00 3.02
5539 7810 2.765135 TCATCTGGGAGAGAAAGAGCAG 59.235 50.000 0.00 0.00 33.12 4.24
5540 7811 2.825223 TCATCTGGGAGAGAAAGAGCA 58.175 47.619 0.00 0.00 33.12 4.26
5541 7812 4.420522 AATCATCTGGGAGAGAAAGAGC 57.579 45.455 0.00 0.00 33.12 4.09
5545 7816 7.443302 ACAGAATAATCATCTGGGAGAGAAA 57.557 36.000 8.26 0.00 46.81 2.52
5546 7817 7.443302 AACAGAATAATCATCTGGGAGAGAA 57.557 36.000 8.26 0.00 46.81 2.87
5749 10666 0.621571 ACAAGGAGGCTGGCAGGATA 60.622 55.000 17.64 0.00 0.00 2.59
5804 10721 2.764128 GATGGCGAGGGTCCAGGA 60.764 66.667 0.00 0.00 36.98 3.86
5900 10817 2.149383 AGAACTGGCAGTGGCTCCA 61.149 57.895 22.83 2.92 40.87 3.86
6013 10930 3.622826 CTCAACACCCGGGTCGGT 61.623 66.667 27.51 18.16 46.80 4.69


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

AutoCloner maintained by Alex Coulton.