Multiple sequence alignment - TraesCS6B01G191900

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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 TraesCS6B01G191900 chr6B 100.000 5759 0 0 1 5759 226192001 226186243 0.000000e+00 10635.0
1 TraesCS6B01G191900 chr6D 90.240 5051 310 84 622 5561 127141815 127136837 0.000000e+00 6427.0
2 TraesCS6B01G191900 chr6D 87.459 303 26 4 53 354 127142267 127141976 7.150000e-89 339.0
3 TraesCS6B01G191900 chr6D 98.571 70 1 0 467 536 127141889 127141820 2.180000e-24 124.0
4 TraesCS6B01G191900 chr6D 100.000 54 0 0 5006 5059 127137331 127137278 3.670000e-17 100.0
5 TraesCS6B01G191900 chr6A 94.635 3672 122 21 1223 4852 151488376 151492014 0.000000e+00 5620.0
6 TraesCS6B01G191900 chr6A 89.929 705 26 18 535 1202 151487692 151488388 0.000000e+00 867.0
7 TraesCS6B01G191900 chr6A 81.745 619 70 21 5145 5757 151492765 151493346 1.450000e-130 477.0
8 TraesCS6B01G191900 chr6A 92.509 267 15 3 4893 5154 151492108 151492374 1.510000e-100 377.0
9 TraesCS6B01G191900 chr6A 90.950 221 18 2 1 219 151485641 151485861 4.360000e-76 296.0
10 TraesCS6B01G191900 chr6A 90.476 147 14 0 208 354 151485904 151486050 1.640000e-45 195.0
11 TraesCS6B01G191900 chr6A 84.810 158 9 2 402 545 151486060 151486216 1.670000e-30 145.0
12 TraesCS6B01G191900 chr6A 96.296 54 2 0 5006 5059 151492279 151492332 7.950000e-14 89.8
13 TraesCS6B01G191900 chr4B 80.870 230 33 10 5310 5535 142420228 142420006 2.760000e-38 171.0
14 TraesCS6B01G191900 chr7D 80.741 135 20 5 994 1124 13453849 13453981 3.670000e-17 100.0
15 TraesCS6B01G191900 chr7D 87.671 73 9 0 4127 4199 491265181 491265109 1.030000e-12 86.1
16 TraesCS6B01G191900 chr7A 85.000 100 13 2 1026 1124 12893904 12894002 3.670000e-17 100.0
17 TraesCS6B01G191900 chr7A 87.671 73 9 0 4127 4199 557890110 557890038 1.030000e-12 86.1
18 TraesCS6B01G191900 chr4A 83.000 100 15 2 1026 1124 723693147 723693049 7.950000e-14 89.8
19 TraesCS6B01G191900 chr1A 83.099 71 12 0 5092 5162 302911436 302911366 1.340000e-06 65.8
20 TraesCS6B01G191900 chr3D 90.909 44 4 0 4288 4331 512675556 512675513 6.230000e-05 60.2
21 TraesCS6B01G191900 chr3B 94.737 38 2 0 4288 4325 675041168 675041205 6.230000e-05 60.2
22 TraesCS6B01G191900 chr3A 88.000 50 6 0 4288 4337 648262983 648262934 6.230000e-05 60.2


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 TraesCS6B01G191900 chr6B 226186243 226192001 5758 True 10635.00 10635 100.00000 1 5759 1 chr6B.!!$R1 5758
1 TraesCS6B01G191900 chr6D 127136837 127141815 4978 True 6427.00 6427 90.24000 622 5561 1 chr6D.!!$R1 4939
2 TraesCS6B01G191900 chr6A 151485641 151493346 7705 False 1008.35 5620 90.16875 1 5757 8 chr6A.!!$F1 5756

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
372 429 0.107703 CCACGCTTCCTGCCTCATAA 60.108 55.0 0.00 0.00 38.78 1.90 F
1215 2809 0.246635 TAGTCTGCTTCCTGTTCCGC 59.753 55.0 0.00 0.00 0.00 5.54 F
1219 2813 0.460284 CTGCTTCCTGTTCCGCGTAT 60.460 55.0 4.92 0.00 0.00 3.06 F
1447 3044 0.613260 ATCTCAAGCACCGTGGCTAA 59.387 50.0 0.00 0.00 45.07 3.09 F
2793 4412 1.016627 TGAAGTGCAGTGCAGTGTTC 58.983 50.0 25.71 22.59 41.77 3.18 F
3245 4868 0.965363 CCAGCGGCACTACCCAAATT 60.965 55.0 1.45 0.00 33.26 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1651 3258 1.884235 ACTCTGCACAAGTAACCAGC 58.116 50.000 0.00 0.00 0.00 4.85 R
2816 4435 0.901580 ATTGCCTTGTTGCAGAGGGG 60.902 55.000 12.91 4.69 43.21 4.79 R
3200 4823 2.310538 GGGAAATGGCCAGTATCCTTG 58.689 52.381 25.22 0.00 0.00 3.61 R
3245 4868 2.238521 GTGGAAATCAAAGTCTGGGCA 58.761 47.619 0.00 0.00 0.00 5.36 R
4177 5822 1.496429 CCCAATAGCAAGTCTGGGGAT 59.504 52.381 0.00 0.00 44.22 3.85 R
4881 6574 0.315886 TCTGCTTAGAACGCCAACGA 59.684 50.000 0.00 0.00 43.93 3.85 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
29 30 5.756347 TGTATATCGGCAACATTCACCTTAC 59.244 40.000 0.00 0.00 0.00 2.34
42 43 3.501349 TCACCTTACTCTTGTGAGCTCT 58.499 45.455 16.19 0.00 43.85 4.09
48 49 3.735237 ACTCTTGTGAGCTCTTTCGAA 57.265 42.857 16.19 0.00 43.85 3.71
127 128 4.884668 TCGTCTCCCACTAAAGAAACAT 57.115 40.909 0.00 0.00 0.00 2.71
132 133 4.994852 TCTCCCACTAAAGAAACATTGTCG 59.005 41.667 0.00 0.00 0.00 4.35
141 142 8.122952 ACTAAAGAAACATTGTCGAAAAGTCTG 58.877 33.333 0.00 0.00 0.00 3.51
219 276 4.572389 ACCATTTAAGCTATGCTCACTTCG 59.428 41.667 0.00 0.00 38.25 3.79
270 327 8.062065 TCAACAAATAAAACCAGTTCAACTCT 57.938 30.769 0.00 0.00 0.00 3.24
271 328 7.973388 TCAACAAATAAAACCAGTTCAACTCTG 59.027 33.333 0.00 0.00 0.00 3.35
302 359 6.994421 AAAAACCAACCAGATCCAAACTAT 57.006 33.333 0.00 0.00 0.00 2.12
303 360 9.589461 TTAAAAACCAACCAGATCCAAACTATA 57.411 29.630 0.00 0.00 0.00 1.31
306 363 4.137543 CCAACCAGATCCAAACTATAGGC 58.862 47.826 4.43 0.00 0.00 3.93
330 387 8.564574 GGCAACTAATCCAATCGAAACATATAA 58.435 33.333 0.00 0.00 0.00 0.98
357 414 5.639757 TGCAAGAATTATCACAAATCCACG 58.360 37.500 0.00 0.00 0.00 4.94
358 415 4.500477 GCAAGAATTATCACAAATCCACGC 59.500 41.667 0.00 0.00 0.00 5.34
359 416 5.677091 GCAAGAATTATCACAAATCCACGCT 60.677 40.000 0.00 0.00 0.00 5.07
360 417 6.324819 CAAGAATTATCACAAATCCACGCTT 58.675 36.000 0.00 0.00 0.00 4.68
361 418 6.124088 AGAATTATCACAAATCCACGCTTC 57.876 37.500 0.00 0.00 0.00 3.86
362 419 4.900635 ATTATCACAAATCCACGCTTCC 57.099 40.909 0.00 0.00 0.00 3.46
363 420 2.496899 ATCACAAATCCACGCTTCCT 57.503 45.000 0.00 0.00 0.00 3.36
364 421 1.522668 TCACAAATCCACGCTTCCTG 58.477 50.000 0.00 0.00 0.00 3.86
365 422 0.109597 CACAAATCCACGCTTCCTGC 60.110 55.000 0.00 0.00 38.57 4.85
366 423 1.244019 ACAAATCCACGCTTCCTGCC 61.244 55.000 0.00 0.00 38.78 4.85
367 424 0.962356 CAAATCCACGCTTCCTGCCT 60.962 55.000 0.00 0.00 38.78 4.75
368 425 0.678048 AAATCCACGCTTCCTGCCTC 60.678 55.000 0.00 0.00 38.78 4.70
369 426 1.841302 AATCCACGCTTCCTGCCTCA 61.841 55.000 0.00 0.00 38.78 3.86
370 427 1.630126 ATCCACGCTTCCTGCCTCAT 61.630 55.000 0.00 0.00 38.78 2.90
371 428 0.975556 TCCACGCTTCCTGCCTCATA 60.976 55.000 0.00 0.00 38.78 2.15
372 429 0.107703 CCACGCTTCCTGCCTCATAA 60.108 55.000 0.00 0.00 38.78 1.90
373 430 1.475751 CCACGCTTCCTGCCTCATAAT 60.476 52.381 0.00 0.00 38.78 1.28
374 431 2.224281 CCACGCTTCCTGCCTCATAATA 60.224 50.000 0.00 0.00 38.78 0.98
375 432 3.557898 CCACGCTTCCTGCCTCATAATAT 60.558 47.826 0.00 0.00 38.78 1.28
376 433 4.322725 CCACGCTTCCTGCCTCATAATATA 60.323 45.833 0.00 0.00 38.78 0.86
377 434 5.237815 CACGCTTCCTGCCTCATAATATAA 58.762 41.667 0.00 0.00 38.78 0.98
378 435 5.349817 CACGCTTCCTGCCTCATAATATAAG 59.650 44.000 0.00 0.00 38.78 1.73
379 436 5.246203 ACGCTTCCTGCCTCATAATATAAGA 59.754 40.000 0.00 0.00 38.78 2.10
380 437 5.809562 CGCTTCCTGCCTCATAATATAAGAG 59.190 44.000 0.00 0.00 38.78 2.85
381 438 5.584251 GCTTCCTGCCTCATAATATAAGAGC 59.416 44.000 0.00 0.00 35.15 4.09
382 439 5.330455 TCCTGCCTCATAATATAAGAGCG 57.670 43.478 0.00 0.00 0.00 5.03
383 440 4.772624 TCCTGCCTCATAATATAAGAGCGT 59.227 41.667 0.00 0.00 0.00 5.07
384 441 5.246203 TCCTGCCTCATAATATAAGAGCGTT 59.754 40.000 0.00 0.00 0.00 4.84
385 442 6.436218 TCCTGCCTCATAATATAAGAGCGTTA 59.564 38.462 0.00 0.00 0.00 3.18
386 443 7.039293 TCCTGCCTCATAATATAAGAGCGTTAA 60.039 37.037 0.00 0.00 0.00 2.01
387 444 7.063544 CCTGCCTCATAATATAAGAGCGTTAAC 59.936 40.741 0.00 0.00 0.00 2.01
388 445 6.584942 TGCCTCATAATATAAGAGCGTTAACG 59.415 38.462 23.40 23.40 43.27 3.18
409 466 5.901552 ACGCTATATTTTGGGATGGTTTTG 58.098 37.500 0.00 0.00 0.00 2.44
413 470 7.469870 CGCTATATTTTGGGATGGTTTTGATGA 60.470 37.037 0.00 0.00 0.00 2.92
414 471 8.370182 GCTATATTTTGGGATGGTTTTGATGAT 58.630 33.333 0.00 0.00 0.00 2.45
429 486 3.857052 TGATGATCTGACGTACCCAAAC 58.143 45.455 0.00 0.00 0.00 2.93
430 487 3.259625 TGATGATCTGACGTACCCAAACA 59.740 43.478 0.00 0.00 0.00 2.83
439 496 1.259507 CGTACCCAAACACAACGTCAG 59.740 52.381 0.00 0.00 0.00 3.51
450 507 0.249868 CAACGTCAGAGGAGCCACAA 60.250 55.000 0.00 0.00 0.00 3.33
458 515 2.095567 CAGAGGAGCCACAAAAATCGTG 60.096 50.000 0.00 0.00 0.00 4.35
538 609 4.422937 CGTGCGCGCATCGTTTCA 62.423 61.111 38.62 8.54 41.07 2.69
541 2097 1.225991 TGCGCGCATCGTTTCATTC 60.226 52.632 33.09 0.00 41.07 2.67
602 2160 2.780924 TGGGCCCCCAAACAGAGT 60.781 61.111 22.27 0.00 44.12 3.24
603 2161 2.035783 GGGCCCCCAAACAGAGTC 59.964 66.667 12.23 0.00 35.81 3.36
604 2162 2.035783 GGCCCCCAAACAGAGTCC 59.964 66.667 0.00 0.00 0.00 3.85
605 2163 2.840753 GGCCCCCAAACAGAGTCCA 61.841 63.158 0.00 0.00 0.00 4.02
606 2164 1.384191 GCCCCCAAACAGAGTCCAT 59.616 57.895 0.00 0.00 0.00 3.41
607 2165 0.251787 GCCCCCAAACAGAGTCCATT 60.252 55.000 0.00 0.00 0.00 3.16
608 2166 1.549203 CCCCCAAACAGAGTCCATTG 58.451 55.000 0.00 0.00 0.00 2.82
609 2167 0.890683 CCCCAAACAGAGTCCATTGC 59.109 55.000 0.00 0.00 0.00 3.56
610 2168 1.619654 CCCAAACAGAGTCCATTGCA 58.380 50.000 0.00 0.00 0.00 4.08
611 2169 1.270550 CCCAAACAGAGTCCATTGCAC 59.729 52.381 0.00 0.00 0.00 4.57
612 2170 1.069022 CCAAACAGAGTCCATTGCACG 60.069 52.381 0.00 0.00 0.00 5.34
614 2172 1.237285 AACAGAGTCCATTGCACGCC 61.237 55.000 0.00 0.00 0.00 5.68
616 2174 1.073025 AGAGTCCATTGCACGCCAA 59.927 52.632 0.00 0.00 37.94 4.52
618 2176 1.514678 GAGTCCATTGCACGCCAACA 61.515 55.000 0.00 0.00 35.99 3.33
649 2213 1.743958 CTTGGCATCTTCTTCCTGCTG 59.256 52.381 0.00 0.00 36.18 4.41
671 2235 3.838795 CGTCGAAGCGCCCGAAAG 61.839 66.667 21.34 15.25 37.81 2.62
985 2568 4.168291 GCAAGGCGGGAGAGGAGG 62.168 72.222 0.00 0.00 0.00 4.30
986 2569 2.364317 CAAGGCGGGAGAGGAGGA 60.364 66.667 0.00 0.00 0.00 3.71
987 2570 2.042435 AAGGCGGGAGAGGAGGAG 60.042 66.667 0.00 0.00 0.00 3.69
988 2571 3.687828 AAGGCGGGAGAGGAGGAGG 62.688 68.421 0.00 0.00 0.00 4.30
1155 2749 1.341531 CCTACCTACCCATCTGCTTCG 59.658 57.143 0.00 0.00 0.00 3.79
1169 2763 4.371786 TCTGCTTCGCATTCCTGTTATAG 58.628 43.478 0.00 0.00 38.13 1.31
1210 2804 5.365021 AGCATATTTAGTCTGCTTCCTGT 57.635 39.130 0.00 0.00 43.44 4.00
1211 2805 5.749462 AGCATATTTAGTCTGCTTCCTGTT 58.251 37.500 0.00 0.00 43.44 3.16
1212 2806 5.819901 AGCATATTTAGTCTGCTTCCTGTTC 59.180 40.000 0.00 0.00 43.44 3.18
1213 2807 5.008118 GCATATTTAGTCTGCTTCCTGTTCC 59.992 44.000 0.00 0.00 33.15 3.62
1214 2808 2.743636 TTAGTCTGCTTCCTGTTCCG 57.256 50.000 0.00 0.00 0.00 4.30
1215 2809 0.246635 TAGTCTGCTTCCTGTTCCGC 59.753 55.000 0.00 0.00 0.00 5.54
1216 2810 2.048222 TCTGCTTCCTGTTCCGCG 60.048 61.111 0.00 0.00 0.00 6.46
1217 2811 2.357517 CTGCTTCCTGTTCCGCGT 60.358 61.111 4.92 0.00 0.00 6.01
1218 2812 1.080093 CTGCTTCCTGTTCCGCGTA 60.080 57.895 4.92 0.00 0.00 4.42
1219 2813 0.460284 CTGCTTCCTGTTCCGCGTAT 60.460 55.000 4.92 0.00 0.00 3.06
1220 2814 0.739462 TGCTTCCTGTTCCGCGTATG 60.739 55.000 4.92 0.00 0.00 2.39
1221 2815 2.006772 CTTCCTGTTCCGCGTATGC 58.993 57.895 4.92 0.00 37.91 3.14
1238 2832 6.974432 CGTATGCGCAAATTTTGTATTTTG 57.026 33.333 17.11 0.00 36.21 2.44
1239 2833 6.746367 CGTATGCGCAAATTTTGTATTTTGA 58.254 32.000 17.11 0.00 35.34 2.69
1303 2897 2.231964 GCAGGTGCTCAAATTCAATGGA 59.768 45.455 0.00 0.00 38.21 3.41
1325 2919 2.941720 CAAGAAGCACTATTCTCAGCCC 59.058 50.000 0.00 0.00 38.59 5.19
1386 2980 8.792830 TTTAGTTAGATTGCTGCATAACTTCT 57.207 30.769 24.08 14.73 38.86 2.85
1387 2981 8.792830 TTAGTTAGATTGCTGCATAACTTCTT 57.207 30.769 24.08 9.57 38.86 2.52
1415 3009 3.555547 TCTGTTCGATATCACGGCAAATG 59.444 43.478 3.12 0.00 0.00 2.32
1447 3044 0.613260 ATCTCAAGCACCGTGGCTAA 59.387 50.000 0.00 0.00 45.07 3.09
1460 3057 3.458189 CGTGGCTAATAGAACCTGAAGG 58.542 50.000 0.00 0.00 42.17 3.46
1495 3095 8.049655 TCTGATGATCTGTATATGTGCTAGTC 57.950 38.462 0.00 0.00 0.00 2.59
1504 3104 4.737855 ATATGTGCTAGTCGTTTCCTGT 57.262 40.909 0.00 0.00 0.00 4.00
1576 3180 3.932822 ACCAACCAACAAAAGTTTCCAC 58.067 40.909 0.00 0.00 0.00 4.02
1584 3191 3.855858 ACAAAAGTTTCCACGCACAAAT 58.144 36.364 0.00 0.00 0.00 2.32
1651 3258 6.662414 TGTTCGTCTTGCCTAATCTATTTG 57.338 37.500 0.00 0.00 0.00 2.32
1726 3333 4.153117 AGCGTCTGTCAAAATCTCATCAAC 59.847 41.667 0.00 0.00 0.00 3.18
1741 3348 1.153588 CAACCGCATTTGCATCCCC 60.154 57.895 3.13 0.00 42.21 4.81
1806 3413 1.375098 GCCAGAGAAGATGCTGCCAC 61.375 60.000 0.00 0.00 0.00 5.01
1808 3415 1.408405 CCAGAGAAGATGCTGCCACAT 60.408 52.381 0.00 0.00 0.00 3.21
1852 3459 3.930336 TGAACTGTGAAGATAGTGCTGG 58.070 45.455 0.00 0.00 0.00 4.85
1859 3466 3.691118 GTGAAGATAGTGCTGGCATCAAA 59.309 43.478 0.00 0.00 0.00 2.69
1928 3535 6.205658 AGTGTCTTCTGTTTTCCTTTGATAGC 59.794 38.462 0.00 0.00 0.00 2.97
1933 3540 3.146066 TGTTTTCCTTTGATAGCAGCGT 58.854 40.909 0.00 0.00 0.00 5.07
2031 3638 6.483640 AGAATCGCAAAGGATATTTACCAGAC 59.516 38.462 0.00 0.00 0.00 3.51
2049 3656 4.763793 CCAGACTGGTCATTCTGAAACATT 59.236 41.667 13.84 0.00 39.58 2.71
2054 3661 7.337942 AGACTGGTCATTCTGAAACATTATTCC 59.662 37.037 3.51 0.00 0.00 3.01
2192 3799 5.030820 ACTTGGTGGAGCTAAGGTATAACT 58.969 41.667 0.00 0.00 39.63 2.24
2193 3800 6.200114 ACTTGGTGGAGCTAAGGTATAACTA 58.800 40.000 0.00 0.00 39.63 2.24
2194 3801 6.670902 ACTTGGTGGAGCTAAGGTATAACTAA 59.329 38.462 0.00 0.00 39.63 2.24
2195 3802 7.347485 ACTTGGTGGAGCTAAGGTATAACTAAT 59.653 37.037 0.00 0.00 39.63 1.73
2196 3803 7.685849 TGGTGGAGCTAAGGTATAACTAATT 57.314 36.000 0.00 0.00 0.00 1.40
2197 3804 8.786710 TGGTGGAGCTAAGGTATAACTAATTA 57.213 34.615 0.00 0.00 0.00 1.40
2198 3805 9.216148 TGGTGGAGCTAAGGTATAACTAATTAA 57.784 33.333 0.00 0.00 0.00 1.40
2199 3806 9.486497 GGTGGAGCTAAGGTATAACTAATTAAC 57.514 37.037 0.00 0.00 0.00 2.01
2493 4109 7.407393 TGACAATGGCATGAGAATTATTTGA 57.593 32.000 0.00 0.00 0.00 2.69
2636 4254 1.992557 ACAGGGGAAGGCATCAGTAAA 59.007 47.619 0.00 0.00 0.00 2.01
2757 4376 8.940952 GGGAAAGCTATTATGACATGAAGATAC 58.059 37.037 0.00 0.00 0.00 2.24
2793 4412 1.016627 TGAAGTGCAGTGCAGTGTTC 58.983 50.000 25.71 22.59 41.77 3.18
2816 4435 6.512297 TCCACTTCTTTTTGTTATTTCAGGC 58.488 36.000 0.00 0.00 0.00 4.85
2844 4463 4.018490 TGCAACAAGGCAATATCATGACT 58.982 39.130 0.00 0.00 41.64 3.41
3200 4823 5.699915 GTCCTGGTTTTCCTAGTGAACTAAC 59.300 44.000 0.00 0.00 41.38 2.34
3245 4868 0.965363 CCAGCGGCACTACCCAAATT 60.965 55.000 1.45 0.00 33.26 1.82
3466 5099 7.766736 ATAAATGGTAACTCCTAAAGTCCCT 57.233 36.000 0.00 0.00 37.17 4.20
3553 5186 6.173339 ACCATGTTTACGATCTGTCATTTCT 58.827 36.000 0.00 0.00 0.00 2.52
3592 5225 4.094442 GCTACTTGGTTAGAACAATTCGGG 59.906 45.833 0.00 0.00 34.02 5.14
3596 5229 3.527533 TGGTTAGAACAATTCGGGATCG 58.472 45.455 0.00 0.00 37.82 3.69
3599 5232 1.656652 AGAACAATTCGGGATCGCAG 58.343 50.000 10.70 3.17 36.13 5.18
4121 5766 3.993658 TGGGGATATCTGACTGGTACT 57.006 47.619 2.05 0.00 0.00 2.73
4177 5822 4.348754 TCATGGAGAACAGATCATATGCCA 59.651 41.667 0.00 0.00 0.00 4.92
4200 5845 2.369394 CCCAGACTTGCTATTGGGTTC 58.631 52.381 0.19 0.00 44.27 3.62
4360 6006 2.674796 AGCTCTCGTTCCACCATTAC 57.325 50.000 0.00 0.00 0.00 1.89
4614 6285 3.710722 CCTGCAACCGAGGAGGCT 61.711 66.667 0.00 0.00 46.52 4.58
4830 6501 2.127345 CGTCTCGCTGTCGACGTT 60.127 61.111 11.62 0.00 45.64 3.99
4831 6502 2.418333 CGTCTCGCTGTCGACGTTG 61.418 63.158 11.62 4.89 45.64 4.10
4832 6503 1.370172 GTCTCGCTGTCGACGTTGT 60.370 57.895 11.62 0.00 40.21 3.32
4847 6518 2.921797 TTGTCGTCGTCATCCGGCA 61.922 57.895 0.00 0.00 42.71 5.69
4881 6574 4.771356 CACCGCCGACGTCGTCAT 62.771 66.667 33.49 15.28 37.70 3.06
4885 6578 2.503375 GCCGACGTCGTCATCGTT 60.503 61.111 33.49 0.00 41.64 3.85
4887 6580 3.359733 CGACGTCGTCATCGTTGG 58.640 61.111 29.08 3.16 41.64 3.77
4888 6581 2.774951 CGACGTCGTCATCGTTGGC 61.775 63.158 29.08 0.00 41.64 4.52
4894 6618 3.024423 CGTCATCGTTGGCGTTCTA 57.976 52.632 12.15 0.00 45.71 2.10
4908 6634 3.004944 GGCGTTCTAAGCAGACTAGCTAT 59.995 47.826 0.00 0.00 45.89 2.97
4947 6674 0.666274 TCGCGCGATCTCAACACTTT 60.666 50.000 31.40 0.00 0.00 2.66
4975 6703 9.561069 AAACTTTGACAATATAATATCGCCTCT 57.439 29.630 0.00 0.00 0.00 3.69
5070 6801 8.565896 TTCTAAAATAAGCATTTCTGAGCAGA 57.434 30.769 0.00 0.00 33.09 4.26
5089 6820 6.814506 GCAGAATATTTGCTCCTATCATGT 57.185 37.500 12.51 0.00 38.51 3.21
5170 7301 2.195123 GAAACCCATCCGCGGTTGTG 62.195 60.000 29.18 22.93 42.90 3.33
5189 7320 3.637273 AGTCCGGGCACAAGGTCC 61.637 66.667 9.71 0.00 38.17 4.46
5227 7358 2.490165 TCTCTAAAGGAGACCGGCG 58.510 57.895 0.00 0.00 45.20 6.46
5250 7381 1.226888 GCTCCGGTGTATGTCCGTC 60.227 63.158 0.00 0.00 45.63 4.79
5260 7391 4.142004 GGTGTATGTCCGTCTTTATGTCCT 60.142 45.833 0.00 0.00 0.00 3.85
5263 7394 3.868757 TGTCCGTCTTTATGTCCTCAG 57.131 47.619 0.00 0.00 0.00 3.35
5264 7395 2.496070 TGTCCGTCTTTATGTCCTCAGG 59.504 50.000 0.00 0.00 0.00 3.86
5270 7401 3.515901 GTCTTTATGTCCTCAGGTGGTCT 59.484 47.826 0.00 0.00 0.00 3.85
5281 7412 0.396435 AGGTGGTCTGCGAACATGAA 59.604 50.000 0.00 0.00 29.64 2.57
5285 7416 1.014044 GGTCTGCGAACATGAAGCGA 61.014 55.000 0.00 1.60 0.00 4.93
5294 7425 3.671971 CGAACATGAAGCGAGAGAGAGTT 60.672 47.826 0.00 0.00 0.00 3.01
5314 7445 8.115490 AGAGTTATCCAATCCTTTTCACAAAG 57.885 34.615 0.00 0.00 39.45 2.77
5414 7547 1.404851 CGTGGTGGCTTTTTGTTGGTT 60.405 47.619 0.00 0.00 0.00 3.67
5441 7575 3.639094 GGATGTCAGACACTGGTATAGCT 59.361 47.826 5.05 0.00 31.51 3.32
5443 7577 3.969553 TGTCAGACACTGGTATAGCTCT 58.030 45.455 0.00 0.00 31.51 4.09
5480 7614 3.427909 GGTTTTGTCGGAAAACGGACTTT 60.428 43.478 13.89 0.00 44.45 2.66
5497 7631 1.216941 TTTCGGACCACTTCGCGAAC 61.217 55.000 19.38 7.71 36.94 3.95
5548 7682 1.927895 CCACAAGCGGTCTAGACATC 58.072 55.000 23.91 14.21 0.00 3.06
5561 7695 3.901222 TCTAGACATCACAACCCAGACAA 59.099 43.478 0.00 0.00 0.00 3.18
5562 7696 3.131709 AGACATCACAACCCAGACAAG 57.868 47.619 0.00 0.00 0.00 3.16
5565 7699 1.881973 CATCACAACCCAGACAAGTGG 59.118 52.381 0.00 0.00 37.34 4.00
5580 7714 5.482908 GACAAGTGGTCTAGACATCACAAT 58.517 41.667 25.00 15.28 43.46 2.71
5584 7718 4.718774 AGTGGTCTAGACATCACAATCCAT 59.281 41.667 25.00 8.52 33.01 3.41
5594 7728 8.122472 AGACATCACAATCCATACATATACGA 57.878 34.615 0.00 0.00 0.00 3.43
5595 7729 8.246871 AGACATCACAATCCATACATATACGAG 58.753 37.037 0.00 0.00 0.00 4.18
5605 7740 6.071896 TCCATACATATACGAGAGCTTTGAGG 60.072 42.308 0.00 0.00 0.00 3.86
5652 7788 4.030452 GCACAGCCGCACAAGGTC 62.030 66.667 0.00 0.00 0.00 3.85
5670 7806 4.879598 AGGTCCTACAAACGAACTAACTG 58.120 43.478 0.00 0.00 0.00 3.16
5672 7808 3.431233 GTCCTACAAACGAACTAACTGCC 59.569 47.826 0.00 0.00 0.00 4.85
5673 7809 3.069872 TCCTACAAACGAACTAACTGCCA 59.930 43.478 0.00 0.00 0.00 4.92
5691 7827 4.129737 GCTACGACTCCGCCTGCA 62.130 66.667 0.00 0.00 39.95 4.41
5697 7833 1.816537 GACTCCGCCTGCACATCTA 59.183 57.895 0.00 0.00 0.00 1.98
5736 7872 3.756434 CGGTATGAATTAATCCGGCCATT 59.244 43.478 2.24 0.00 37.92 3.16
5757 7893 1.270839 TGCCAAGTCTTTCCTTCCTCG 60.271 52.381 0.00 0.00 0.00 4.63
5758 7894 1.002087 GCCAAGTCTTTCCTTCCTCGA 59.998 52.381 0.00 0.00 0.00 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 2.734079 GGTTCGAAAGAGCTCACAAGAG 59.266 50.000 17.77 2.08 43.69 2.85
67 68 0.033504 ATGCGTGTGGAGACTTCGTT 59.966 50.000 0.00 0.00 0.00 3.85
127 128 7.702386 TGAATTCATTTCAGACTTTTCGACAA 58.298 30.769 3.38 0.00 39.44 3.18
186 189 8.651389 AGCATAGCTTAAATGGTTACTCATCTA 58.349 33.333 0.00 0.00 33.89 1.98
190 193 6.538742 GTGAGCATAGCTTAAATGGTTACTCA 59.461 38.462 12.37 6.79 39.88 3.41
239 296 7.491048 TGAACTGGTTTTATTTGTTGAGCTTTC 59.509 33.333 0.00 0.00 0.00 2.62
270 327 7.726291 TGGATCTGGTTGGTTTTTAAGATTACA 59.274 33.333 0.00 0.00 0.00 2.41
271 328 8.117813 TGGATCTGGTTGGTTTTTAAGATTAC 57.882 34.615 0.00 0.00 0.00 1.89
302 359 5.492895 TGTTTCGATTGGATTAGTTGCCTA 58.507 37.500 0.00 0.00 0.00 3.93
303 360 4.331968 TGTTTCGATTGGATTAGTTGCCT 58.668 39.130 0.00 0.00 0.00 4.75
330 387 9.754382 GTGGATTTGTGATAATTCTTGCATTAT 57.246 29.630 0.00 0.00 32.89 1.28
334 391 5.639757 CGTGGATTTGTGATAATTCTTGCA 58.360 37.500 0.00 0.00 0.00 4.08
336 393 5.883661 AGCGTGGATTTGTGATAATTCTTG 58.116 37.500 0.00 0.00 0.00 3.02
339 396 5.066505 AGGAAGCGTGGATTTGTGATAATTC 59.933 40.000 0.00 0.00 0.00 2.17
341 398 4.336433 CAGGAAGCGTGGATTTGTGATAAT 59.664 41.667 0.00 0.00 0.00 1.28
345 402 1.522668 CAGGAAGCGTGGATTTGTGA 58.477 50.000 0.00 0.00 0.00 3.58
357 414 5.584251 GCTCTTATATTATGAGGCAGGAAGC 59.416 44.000 0.00 0.00 44.65 3.86
358 415 5.809562 CGCTCTTATATTATGAGGCAGGAAG 59.190 44.000 8.54 0.00 32.35 3.46
359 416 5.246203 ACGCTCTTATATTATGAGGCAGGAA 59.754 40.000 8.54 0.00 32.35 3.36
360 417 4.772624 ACGCTCTTATATTATGAGGCAGGA 59.227 41.667 8.54 0.00 32.35 3.86
361 418 5.078411 ACGCTCTTATATTATGAGGCAGG 57.922 43.478 8.54 0.00 32.35 4.85
362 419 7.201359 CGTTAACGCTCTTATATTATGAGGCAG 60.201 40.741 16.05 5.39 32.35 4.85
363 420 6.584942 CGTTAACGCTCTTATATTATGAGGCA 59.415 38.462 16.05 0.00 32.35 4.75
364 421 6.979509 CGTTAACGCTCTTATATTATGAGGC 58.020 40.000 16.05 0.00 32.35 4.70
381 438 5.237779 ACCATCCCAAAATATAGCGTTAACG 59.762 40.000 23.40 23.40 43.27 3.18
382 439 6.628919 ACCATCCCAAAATATAGCGTTAAC 57.371 37.500 0.00 0.00 0.00 2.01
383 440 7.648039 AAACCATCCCAAAATATAGCGTTAA 57.352 32.000 0.00 0.00 0.00 2.01
384 441 7.339721 TCAAAACCATCCCAAAATATAGCGTTA 59.660 33.333 0.00 0.00 0.00 3.18
385 442 6.153680 TCAAAACCATCCCAAAATATAGCGTT 59.846 34.615 0.00 0.00 0.00 4.84
386 443 5.654650 TCAAAACCATCCCAAAATATAGCGT 59.345 36.000 0.00 0.00 0.00 5.07
387 444 6.142818 TCAAAACCATCCCAAAATATAGCG 57.857 37.500 0.00 0.00 0.00 4.26
388 445 7.725251 TCATCAAAACCATCCCAAAATATAGC 58.275 34.615 0.00 0.00 0.00 2.97
389 446 9.918630 GATCATCAAAACCATCCCAAAATATAG 57.081 33.333 0.00 0.00 0.00 1.31
390 447 9.659135 AGATCATCAAAACCATCCCAAAATATA 57.341 29.630 0.00 0.00 0.00 0.86
391 448 8.426489 CAGATCATCAAAACCATCCCAAAATAT 58.574 33.333 0.00 0.00 0.00 1.28
392 449 7.618907 TCAGATCATCAAAACCATCCCAAAATA 59.381 33.333 0.00 0.00 0.00 1.40
393 450 6.441284 TCAGATCATCAAAACCATCCCAAAAT 59.559 34.615 0.00 0.00 0.00 1.82
394 451 5.779260 TCAGATCATCAAAACCATCCCAAAA 59.221 36.000 0.00 0.00 0.00 2.44
395 452 5.185635 GTCAGATCATCAAAACCATCCCAAA 59.814 40.000 0.00 0.00 0.00 3.28
396 453 4.706476 GTCAGATCATCAAAACCATCCCAA 59.294 41.667 0.00 0.00 0.00 4.12
397 454 4.272489 GTCAGATCATCAAAACCATCCCA 58.728 43.478 0.00 0.00 0.00 4.37
398 455 3.313526 CGTCAGATCATCAAAACCATCCC 59.686 47.826 0.00 0.00 0.00 3.85
399 456 3.941483 ACGTCAGATCATCAAAACCATCC 59.059 43.478 0.00 0.00 0.00 3.51
400 457 5.006746 GGTACGTCAGATCATCAAAACCATC 59.993 44.000 0.00 0.00 0.00 3.51
409 466 3.617263 GTGTTTGGGTACGTCAGATCATC 59.383 47.826 0.00 0.00 0.00 2.92
413 470 3.135994 GTTGTGTTTGGGTACGTCAGAT 58.864 45.455 0.00 0.00 0.00 2.90
414 471 2.553086 GTTGTGTTTGGGTACGTCAGA 58.447 47.619 0.00 0.00 0.00 3.27
429 486 0.946221 GTGGCTCCTCTGACGTTGTG 60.946 60.000 0.00 0.00 0.00 3.33
430 487 1.367840 GTGGCTCCTCTGACGTTGT 59.632 57.895 0.00 0.00 0.00 3.32
439 496 2.619013 CACGATTTTTGTGGCTCCTC 57.381 50.000 0.00 0.00 33.69 3.71
450 507 1.278127 AGATGACCCGTCCACGATTTT 59.722 47.619 0.00 0.00 43.02 1.82
458 515 1.068741 GTGGTGATAGATGACCCGTCC 59.931 57.143 0.00 0.00 32.66 4.79
588 2146 0.251787 AATGGACTCTGTTTGGGGGC 60.252 55.000 0.00 0.00 0.00 5.80
602 2160 0.678395 ATTTGTTGGCGTGCAATGGA 59.322 45.000 0.00 0.00 0.00 3.41
603 2161 1.510776 AATTTGTTGGCGTGCAATGG 58.489 45.000 0.00 0.00 0.00 3.16
604 2162 3.605743 AAAATTTGTTGGCGTGCAATG 57.394 38.095 0.00 0.00 0.00 2.82
635 2199 3.450028 GCGACAGCAGGAAGAAGAT 57.550 52.632 0.00 0.00 44.35 2.40
885 2468 2.743538 GCATCACGGCACTGCAGA 60.744 61.111 23.35 0.00 35.96 4.26
985 2568 0.178935 CCCATCTCCTCCTCCTCCTC 60.179 65.000 0.00 0.00 0.00 3.71
986 2569 1.673928 CCCCATCTCCTCCTCCTCCT 61.674 65.000 0.00 0.00 0.00 3.69
987 2570 1.152139 CCCCATCTCCTCCTCCTCC 60.152 68.421 0.00 0.00 0.00 4.30
988 2571 1.841103 GCCCCATCTCCTCCTCCTC 60.841 68.421 0.00 0.00 0.00 3.71
1132 2715 1.128188 GCAGATGGGTAGGTAGGGGG 61.128 65.000 0.00 0.00 0.00 5.40
1155 2749 6.418226 CGTAACAGAGACTATAACAGGAATGC 59.582 42.308 0.00 0.00 0.00 3.56
1169 2763 5.646467 TGCTTTACAAACGTAACAGAGAC 57.354 39.130 0.00 0.00 0.00 3.36
1202 2796 2.006772 CATACGCGGAACAGGAAGC 58.993 57.895 12.47 0.00 0.00 3.86
1204 2798 4.195308 GCATACGCGGAACAGGAA 57.805 55.556 12.47 0.00 0.00 3.36
1215 2809 6.746367 TCAAAATACAAAATTTGCGCATACG 58.254 32.000 12.75 0.00 44.07 3.06
1216 2810 8.987729 CAATCAAAATACAAAATTTGCGCATAC 58.012 29.630 12.75 0.00 36.66 2.39
1217 2811 8.929746 TCAATCAAAATACAAAATTTGCGCATA 58.070 25.926 12.75 7.07 36.66 3.14
1218 2812 7.804712 TCAATCAAAATACAAAATTTGCGCAT 58.195 26.923 12.75 0.00 36.66 4.73
1219 2813 7.182361 TCAATCAAAATACAAAATTTGCGCA 57.818 28.000 5.66 5.66 36.66 6.09
1220 2814 7.798052 ACTTCAATCAAAATACAAAATTTGCGC 59.202 29.630 5.52 0.00 36.66 6.09
1221 2815 9.649024 AACTTCAATCAAAATACAAAATTTGCG 57.351 25.926 5.52 0.00 36.66 4.85
1229 2823 9.958234 TCATCGAAAACTTCAATCAAAATACAA 57.042 25.926 0.00 0.00 0.00 2.41
1234 2828 9.075519 GCATATCATCGAAAACTTCAATCAAAA 57.924 29.630 0.00 0.00 0.00 2.44
1235 2829 8.461222 AGCATATCATCGAAAACTTCAATCAAA 58.539 29.630 0.00 0.00 0.00 2.69
1236 2830 7.988737 AGCATATCATCGAAAACTTCAATCAA 58.011 30.769 0.00 0.00 0.00 2.57
1237 2831 7.558161 AGCATATCATCGAAAACTTCAATCA 57.442 32.000 0.00 0.00 0.00 2.57
1272 2866 1.949525 TGAGCACCTGCAGAAAGAAAC 59.050 47.619 17.39 0.98 45.16 2.78
1278 2872 2.585330 TGAATTTGAGCACCTGCAGAA 58.415 42.857 17.39 0.00 45.16 3.02
1303 2897 3.604582 GGCTGAGAATAGTGCTTCTTGT 58.395 45.455 0.00 0.00 35.63 3.16
1325 2919 3.399440 ACCTTCTTTGACTCTCTGCAG 57.601 47.619 7.63 7.63 0.00 4.41
1387 2981 5.813157 TGCCGTGATATCGAACAGATAAAAA 59.187 36.000 0.00 0.00 44.27 1.94
1396 2990 3.944422 ACATTTGCCGTGATATCGAAC 57.056 42.857 0.00 0.00 0.00 3.95
1408 3002 7.771183 TGAGATAATTGAGGTAAACATTTGCC 58.229 34.615 3.47 3.47 42.43 4.52
1415 3009 6.456988 CGGTGCTTGAGATAATTGAGGTAAAC 60.457 42.308 0.00 0.00 0.00 2.01
1447 3044 7.310113 CAGAAGAACTGTACCTTCAGGTTCTAT 60.310 40.741 18.68 0.00 42.68 1.98
1466 3063 7.960262 AGCACATATACAGATCATCAGAAGAA 58.040 34.615 0.00 0.00 0.00 2.52
1495 3095 3.733727 AGCGCAATTTTAAACAGGAAACG 59.266 39.130 11.47 0.00 0.00 3.60
1504 3104 5.982516 ACAATCAGTTCAGCGCAATTTTAAA 59.017 32.000 11.47 0.00 0.00 1.52
1576 3180 2.413112 ACGAGACATTCTGATTTGTGCG 59.587 45.455 0.00 5.49 0.00 5.34
1584 3191 3.824443 TGAACTGGTACGAGACATTCTGA 59.176 43.478 12.28 0.00 0.00 3.27
1651 3258 1.884235 ACTCTGCACAAGTAACCAGC 58.116 50.000 0.00 0.00 0.00 4.85
1726 3333 2.828095 TCGGGGATGCAAATGCGG 60.828 61.111 0.00 0.00 45.83 5.69
1741 3348 2.278206 ATACGTGCAGCGCTCTCG 60.278 61.111 7.13 17.15 46.11 4.04
1806 3413 4.633565 GGTCTACCTTTCTCTTGCAGAATG 59.366 45.833 0.00 0.00 41.02 2.67
1808 3415 3.646162 TGGTCTACCTTTCTCTTGCAGAA 59.354 43.478 0.02 0.00 39.56 3.02
1852 3459 3.832276 TGAACGGCACTAAATTTGATGC 58.168 40.909 16.26 16.26 37.35 3.91
1880 3487 8.629158 CACTGAAGCTAGAGTCAGATATTTAGT 58.371 37.037 22.90 3.45 43.32 2.24
1892 3499 4.148838 ACAGAAGACACTGAAGCTAGAGT 58.851 43.478 0.00 0.00 40.63 3.24
1893 3500 4.782019 ACAGAAGACACTGAAGCTAGAG 57.218 45.455 0.00 0.00 40.63 2.43
1895 3502 5.178438 GGAAAACAGAAGACACTGAAGCTAG 59.822 44.000 0.00 0.00 40.63 3.42
1928 3535 7.113684 GCTACTAAGAATACTACATCAACGCTG 59.886 40.741 0.00 0.00 0.00 5.18
1980 3587 4.274459 GGACTGGCAATGTCTAGCAATTAG 59.726 45.833 6.81 0.00 35.04 1.73
2203 3810 9.661563 CGTATTCAGCCCCAGTAATAATAATTA 57.338 33.333 0.00 0.00 0.00 1.40
2204 3811 8.161425 ACGTATTCAGCCCCAGTAATAATAATT 58.839 33.333 0.00 0.00 0.00 1.40
2205 3812 7.606456 CACGTATTCAGCCCCAGTAATAATAAT 59.394 37.037 0.00 0.00 0.00 1.28
2206 3813 6.932400 CACGTATTCAGCCCCAGTAATAATAA 59.068 38.462 0.00 0.00 0.00 1.40
2207 3814 6.042322 ACACGTATTCAGCCCCAGTAATAATA 59.958 38.462 0.00 0.00 0.00 0.98
2208 3815 5.163237 ACACGTATTCAGCCCCAGTAATAAT 60.163 40.000 0.00 0.00 0.00 1.28
2209 3816 4.162698 ACACGTATTCAGCCCCAGTAATAA 59.837 41.667 0.00 0.00 0.00 1.40
2493 4109 6.516693 GCAGCTTCATTTTACTTGGGTAAACT 60.517 38.462 1.50 0.00 44.48 2.66
2579 4195 3.694072 GCAGCCATGGTGTTTAAGATGTA 59.306 43.478 14.67 0.00 33.19 2.29
2591 4207 7.779754 TTAATTTCATATATGCAGCCATGGT 57.220 32.000 14.67 0.00 32.85 3.55
2757 4376 2.951457 TCATGCACATGCCATCAAAG 57.049 45.000 5.73 0.00 41.18 2.77
2793 4412 5.696270 GGCCTGAAATAACAAAAAGAAGTGG 59.304 40.000 0.00 0.00 0.00 4.00
2816 4435 0.901580 ATTGCCTTGTTGCAGAGGGG 60.902 55.000 12.91 4.69 43.21 4.79
2958 4577 7.177744 TCGGGGAAATTTTACTTAAAGAATGCT 59.822 33.333 0.00 0.00 0.00 3.79
3200 4823 2.310538 GGGAAATGGCCAGTATCCTTG 58.689 52.381 25.22 0.00 0.00 3.61
3245 4868 2.238521 GTGGAAATCAAAGTCTGGGCA 58.761 47.619 0.00 0.00 0.00 5.36
3466 5099 4.936411 TCTTCGGGCAAACAAATATACGAA 59.064 37.500 0.00 0.00 37.50 3.85
3553 5186 4.617253 AGTAGCATAACTTGTGGTGACA 57.383 40.909 0.83 0.00 38.70 3.58
3592 5225 5.176958 ACACAAACTACTTGTTACTGCGATC 59.823 40.000 0.00 0.00 46.49 3.69
3596 5229 5.065474 TCCAACACAAACTACTTGTTACTGC 59.935 40.000 0.00 0.00 46.49 4.40
3599 5232 7.971722 ACAATTCCAACACAAACTACTTGTTAC 59.028 33.333 0.00 0.00 46.49 2.50
3663 5308 4.263462 ACCCTGCATTGACAGTAGATCAAA 60.263 41.667 0.00 0.00 39.43 2.69
4121 5766 2.255406 ACCCATATGTTGCCTGCAAAA 58.745 42.857 6.07 0.96 37.70 2.44
4177 5822 1.496429 CCCAATAGCAAGTCTGGGGAT 59.504 52.381 0.00 0.00 44.22 3.85
4200 5845 7.295930 GGAAAAAGATAGTGAGGTTTTGTACG 58.704 38.462 0.00 0.00 0.00 3.67
4360 6006 3.378112 TCAAGCAGTGTTCTTGGTGAAAG 59.622 43.478 9.71 0.00 40.82 2.62
4881 6574 0.315886 TCTGCTTAGAACGCCAACGA 59.684 50.000 0.00 0.00 43.93 3.85
4885 6578 1.135083 GCTAGTCTGCTTAGAACGCCA 60.135 52.381 0.00 0.00 0.00 5.69
4887 6580 2.570442 AGCTAGTCTGCTTAGAACGC 57.430 50.000 0.00 0.00 40.93 4.84
4888 6581 5.209240 GTCATAGCTAGTCTGCTTAGAACG 58.791 45.833 0.00 0.00 43.74 3.95
4889 6582 6.137794 TGTCATAGCTAGTCTGCTTAGAAC 57.862 41.667 0.00 0.00 43.74 3.01
4890 6583 6.322456 ACATGTCATAGCTAGTCTGCTTAGAA 59.678 38.462 0.00 0.00 43.74 2.10
4891 6584 5.830457 ACATGTCATAGCTAGTCTGCTTAGA 59.170 40.000 0.00 0.38 43.74 2.10
4894 6618 5.128499 AGAACATGTCATAGCTAGTCTGCTT 59.872 40.000 0.00 0.00 43.74 3.91
4908 6634 2.230508 GACGGTCCAGTAGAACATGTCA 59.769 50.000 0.00 0.00 29.87 3.58
4947 6674 9.337396 AGGCGATATTATATTGTCAAAGTTTCA 57.663 29.630 6.81 0.00 0.00 2.69
5093 6824 7.928307 TGCTTGTGCTTATTTTAGAAGAGAT 57.072 32.000 0.00 0.00 40.48 2.75
5170 7301 4.643387 ACCTTGTGCCCGGACTGC 62.643 66.667 0.73 0.00 0.00 4.40
5189 7320 4.504858 AGATGCCCTTAGTTCGTTTGTAG 58.495 43.478 0.00 0.00 0.00 2.74
5227 7358 2.607282 CGGACATACACCGGAGCTATTC 60.607 54.545 9.46 0.00 45.65 1.75
5240 7371 5.258456 TGAGGACATAAAGACGGACATAC 57.742 43.478 0.00 0.00 0.00 2.39
5250 7381 3.866651 CAGACCACCTGAGGACATAAAG 58.133 50.000 4.99 0.00 45.78 1.85
5260 7391 0.320683 CATGTTCGCAGACCACCTGA 60.321 55.000 0.00 0.00 45.78 3.86
5263 7394 0.798776 CTTCATGTTCGCAGACCACC 59.201 55.000 0.00 0.00 26.53 4.61
5264 7395 0.166814 GCTTCATGTTCGCAGACCAC 59.833 55.000 0.00 0.00 26.53 4.16
5270 7401 0.243636 TCTCTCGCTTCATGTTCGCA 59.756 50.000 0.00 0.00 0.00 5.10
5281 7412 3.572255 GGATTGGATAACTCTCTCTCGCT 59.428 47.826 0.00 0.00 0.00 4.93
5285 7416 7.038017 TGTGAAAAGGATTGGATAACTCTCTCT 60.038 37.037 0.00 0.00 0.00 3.10
5314 7445 6.183360 CCTCCAACCGGACAAATAAGAATTAC 60.183 42.308 9.46 0.00 35.91 1.89
5319 7450 2.907696 TCCTCCAACCGGACAAATAAGA 59.092 45.455 9.46 0.00 35.91 2.10
5370 7503 2.837591 GCCCTCCTCTCTTTTCTCTCTT 59.162 50.000 0.00 0.00 0.00 2.85
5414 7547 3.239449 ACCAGTGTCTGACATCCACTTA 58.761 45.455 14.37 0.00 37.34 2.24
5441 7575 3.593442 AACCAAGACAAACATGGGAGA 57.407 42.857 0.00 0.00 41.13 3.71
5443 7577 3.772025 ACAAAACCAAGACAAACATGGGA 59.228 39.130 0.00 0.00 41.13 4.37
5480 7614 2.049802 GTTCGCGAAGTGGTCCGA 60.050 61.111 24.13 0.00 39.32 4.55
5540 7674 3.961480 TGTCTGGGTTGTGATGTCTAG 57.039 47.619 0.00 0.00 0.00 2.43
5541 7675 3.646162 ACTTGTCTGGGTTGTGATGTCTA 59.354 43.478 0.00 0.00 0.00 2.59
5548 7682 1.308998 GACCACTTGTCTGGGTTGTG 58.691 55.000 0.00 0.00 41.03 3.33
5561 7695 4.096681 TGGATTGTGATGTCTAGACCACT 58.903 43.478 24.00 11.61 0.00 4.00
5562 7696 4.471904 TGGATTGTGATGTCTAGACCAC 57.528 45.455 20.11 19.82 0.00 4.16
5575 7709 6.625362 AGCTCTCGTATATGTATGGATTGTG 58.375 40.000 0.00 0.00 0.00 3.33
5580 7714 6.071896 CCTCAAAGCTCTCGTATATGTATGGA 60.072 42.308 0.00 0.00 0.00 3.41
5584 7718 5.138276 ACCCTCAAAGCTCTCGTATATGTA 58.862 41.667 0.00 0.00 0.00 2.29
5610 7745 1.216990 AGTTAAGGCATCTCCAGGGG 58.783 55.000 0.00 0.00 37.29 4.79
5613 7748 3.181461 CCCAGTAGTTAAGGCATCTCCAG 60.181 52.174 0.00 0.00 37.29 3.86
5640 7775 0.887387 TTTGTAGGACCTTGTGCGGC 60.887 55.000 0.00 0.00 0.00 6.53
5642 7777 0.511221 CGTTTGTAGGACCTTGTGCG 59.489 55.000 0.00 0.00 0.00 5.34
5643 7778 1.873698 TCGTTTGTAGGACCTTGTGC 58.126 50.000 0.00 0.00 0.00 4.57
5652 7788 3.395639 TGGCAGTTAGTTCGTTTGTAGG 58.604 45.455 0.00 0.00 0.00 3.18
5670 7806 4.874977 GGCGGAGTCGTAGCTGGC 62.875 72.222 0.00 0.00 38.89 4.85
5672 7808 2.103143 CAGGCGGAGTCGTAGCTG 59.897 66.667 0.00 0.00 36.95 4.24
5673 7809 3.827898 GCAGGCGGAGTCGTAGCT 61.828 66.667 0.00 0.00 36.95 3.32
5691 7827 6.314896 CCGATTTGAAGCTCTCTTTTAGATGT 59.685 38.462 0.00 0.00 32.41 3.06
5697 7833 6.173339 TCATACCGATTTGAAGCTCTCTTTT 58.827 36.000 0.00 0.00 31.48 2.27
5736 7872 2.810400 CGAGGAAGGAAAGACTTGGCAA 60.810 50.000 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.