Multiple sequence alignment - TraesCS6B01G354900

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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 TraesCS6B01G354900 chr6B 100.000 4890 0 0 1 4890 623085291 623080402 0.000000e+00 9031.0
1 TraesCS6B01G354900 chr6D 90.986 3539 158 68 1 3472 413273546 413270102 0.000000e+00 4619.0
2 TraesCS6B01G354900 chr6D 91.013 1402 35 23 3523 4890 413270092 413268748 0.000000e+00 1807.0
3 TraesCS6B01G354900 chr6A 92.242 3029 139 39 513 3472 558789325 558786324 0.000000e+00 4204.0
4 TraesCS6B01G354900 chr6A 92.747 1034 29 25 3512 4517 558786327 558785312 0.000000e+00 1452.0
5 TraesCS6B01G354900 chr6A 88.565 446 21 8 1 426 558790179 558789744 9.390000e-142 514.0
6 TraesCS6B01G354900 chr6A 86.269 386 17 17 4527 4890 558784174 558783803 2.130000e-103 387.0
7 TraesCS6B01G354900 chr7A 77.824 478 87 17 2560 3028 124069305 124068838 1.340000e-70 278.0
8 TraesCS6B01G354900 chr7D 77.358 477 89 17 2560 3027 119567532 119567066 1.040000e-66 265.0
9 TraesCS6B01G354900 chr7D 86.702 188 18 6 1502 1687 119568516 119568334 8.300000e-48 202.0
10 TraesCS6B01G354900 chr7B 85.909 220 31 0 2560 2779 80661155 80660936 8.180000e-58 235.0
11 TraesCS6B01G354900 chr7B 80.000 140 28 0 2881 3020 80660833 80660694 2.410000e-18 104.0
12 TraesCS6B01G354900 chr1D 87.097 124 16 0 1182 1305 278109821 278109698 1.840000e-29 141.0
13 TraesCS6B01G354900 chr1B 86.290 124 17 0 1182 1305 377969156 377969033 8.540000e-28 135.0
14 TraesCS6B01G354900 chr1A 85.827 127 18 0 1182 1308 350400270 350400144 8.540000e-28 135.0
15 TraesCS6B01G354900 chr2A 87.302 63 7 1 1042 1104 715341510 715341449 2.440000e-08 71.3
16 TraesCS6B01G354900 chr2D 87.097 62 7 1 1042 1103 577156988 577156928 8.780000e-08 69.4


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 TraesCS6B01G354900 chr6B 623080402 623085291 4889 True 9031.00 9031 100.00000 1 4890 1 chr6B.!!$R1 4889
1 TraesCS6B01G354900 chr6D 413268748 413273546 4798 True 3213.00 4619 90.99950 1 4890 2 chr6D.!!$R1 4889
2 TraesCS6B01G354900 chr6A 558783803 558790179 6376 True 1639.25 4204 89.95575 1 4890 4 chr6A.!!$R1 4889
3 TraesCS6B01G354900 chr7D 119567066 119568516 1450 True 233.50 265 82.03000 1502 3027 2 chr7D.!!$R1 1525

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
431 463 0.032678 ACGAGGCCATAGATTGAGCG 59.967 55.0 5.01 0.0 0.00 5.03 F
438 470 0.042708 CATAGATTGAGCGCGTGTGC 60.043 55.0 8.43 0.0 37.91 4.57 F
1701 2187 0.167689 CTCAAAGAAGAGGCAAGCGC 59.832 55.0 0.00 0.0 37.44 5.92 F
2828 3397 0.109781 CACCATGTACTTTGCCGCAC 60.110 55.0 0.00 0.0 0.00 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1785 2272 0.312729 GCACCTAACCAAAACCACCG 59.687 55.0 0.00 0.00 0.0 4.94 R
2238 2794 0.671796 AGTCCATGAACGTGTCGACA 59.328 50.0 15.76 15.76 0.0 4.35 R
2846 3415 0.037790 TCCACACGCGTCATGAATCA 60.038 50.0 19.13 0.00 0.0 2.57 R
4403 5020 0.108377 TGCGGCTACACTACACCATG 60.108 55.0 0.00 0.00 0.0 3.66 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
45 46 7.368059 AGGCTTTGTTTAACTGTTAAGCATAC 58.632 34.615 24.04 17.42 39.66 2.39
68 69 1.123861 AGAAGCAGTGGAGCTGTGGA 61.124 55.000 0.00 0.00 45.89 4.02
69 70 0.035630 GAAGCAGTGGAGCTGTGGAT 60.036 55.000 0.00 0.00 45.89 3.41
285 303 1.962570 AATACTCCCTCCCTCCGGCT 61.963 60.000 0.00 0.00 0.00 5.52
291 309 0.764752 CCCTCCCTCCGGCTCTTAAT 60.765 60.000 0.00 0.00 0.00 1.40
308 326 1.865865 AATTCGCATCGGTTATCGCT 58.134 45.000 0.00 0.00 39.05 4.93
327 345 0.252103 TCCTCCTCCACACTGTACCC 60.252 60.000 0.00 0.00 0.00 3.69
334 352 2.030562 ACACTGTACCCGCACTGC 59.969 61.111 0.00 0.00 0.00 4.40
336 354 2.029288 CACTGTACCCGCACTGCAG 61.029 63.158 13.48 13.48 0.00 4.41
426 458 3.744660 GAATCCAACGAGGCCATAGATT 58.255 45.455 5.01 4.30 37.29 2.40
427 459 2.620251 TCCAACGAGGCCATAGATTG 57.380 50.000 5.01 1.68 37.29 2.67
428 460 2.115427 TCCAACGAGGCCATAGATTGA 58.885 47.619 5.01 0.00 37.29 2.57
429 461 2.103094 TCCAACGAGGCCATAGATTGAG 59.897 50.000 5.01 0.00 37.29 3.02
430 462 1.869767 CAACGAGGCCATAGATTGAGC 59.130 52.381 5.01 0.00 0.00 4.26
431 463 0.032678 ACGAGGCCATAGATTGAGCG 59.967 55.000 5.01 0.00 0.00 5.03
432 464 1.287730 CGAGGCCATAGATTGAGCGC 61.288 60.000 5.01 0.00 0.00 5.92
433 465 1.287730 GAGGCCATAGATTGAGCGCG 61.288 60.000 5.01 0.00 0.00 6.86
434 466 1.595382 GGCCATAGATTGAGCGCGT 60.595 57.895 8.43 0.00 0.00 6.01
435 467 1.566563 GCCATAGATTGAGCGCGTG 59.433 57.895 8.43 0.00 0.00 5.34
436 468 1.154205 GCCATAGATTGAGCGCGTGT 61.154 55.000 8.43 0.00 0.00 4.49
437 469 0.578683 CCATAGATTGAGCGCGTGTG 59.421 55.000 8.43 0.00 0.00 3.82
438 470 0.042708 CATAGATTGAGCGCGTGTGC 60.043 55.000 8.43 0.00 37.91 4.57
439 471 1.154205 ATAGATTGAGCGCGTGTGCC 61.154 55.000 8.43 0.00 38.08 5.01
440 472 4.505217 GATTGAGCGCGTGTGCCG 62.505 66.667 8.43 0.00 38.08 5.69
493 901 5.468746 CGTTATAGTTGGAGAGAGAGAGAGG 59.531 48.000 0.00 0.00 0.00 3.69
494 902 6.597562 GTTATAGTTGGAGAGAGAGAGAGGA 58.402 44.000 0.00 0.00 0.00 3.71
495 903 3.652057 AGTTGGAGAGAGAGAGAGGAG 57.348 52.381 0.00 0.00 0.00 3.69
496 904 3.189606 AGTTGGAGAGAGAGAGAGGAGA 58.810 50.000 0.00 0.00 0.00 3.71
497 905 3.200825 AGTTGGAGAGAGAGAGAGGAGAG 59.799 52.174 0.00 0.00 0.00 3.20
498 906 3.129262 TGGAGAGAGAGAGAGGAGAGA 57.871 52.381 0.00 0.00 0.00 3.10
499 907 3.668821 TGGAGAGAGAGAGAGGAGAGAT 58.331 50.000 0.00 0.00 0.00 2.75
500 908 4.826616 TGGAGAGAGAGAGAGGAGAGATA 58.173 47.826 0.00 0.00 0.00 1.98
501 909 4.840680 TGGAGAGAGAGAGAGGAGAGATAG 59.159 50.000 0.00 0.00 0.00 2.08
502 910 4.223923 GGAGAGAGAGAGAGGAGAGATAGG 59.776 54.167 0.00 0.00 0.00 2.57
503 911 4.171234 AGAGAGAGAGAGGAGAGATAGGG 58.829 52.174 0.00 0.00 0.00 3.53
504 912 4.140447 AGAGAGAGAGAGGAGAGATAGGGA 60.140 50.000 0.00 0.00 0.00 4.20
505 913 4.171234 AGAGAGAGAGGAGAGATAGGGAG 58.829 52.174 0.00 0.00 0.00 4.30
506 914 3.260205 AGAGAGAGGAGAGATAGGGAGG 58.740 54.545 0.00 0.00 0.00 4.30
507 915 2.308866 GAGAGAGGAGAGATAGGGAGGG 59.691 59.091 0.00 0.00 0.00 4.30
508 916 2.070573 GAGAGGAGAGATAGGGAGGGT 58.929 57.143 0.00 0.00 0.00 4.34
509 917 1.786441 AGAGGAGAGATAGGGAGGGTG 59.214 57.143 0.00 0.00 0.00 4.61
510 918 1.501604 GAGGAGAGATAGGGAGGGTGT 59.498 57.143 0.00 0.00 0.00 4.16
605 1029 1.681486 CGGGGAAAGCTCCTCTCTCC 61.681 65.000 0.00 0.00 40.57 3.71
618 1042 3.202151 TCCTCTCTCCTCTCTTCTCTTCC 59.798 52.174 0.00 0.00 0.00 3.46
619 1043 3.053693 CCTCTCTCCTCTCTTCTCTTCCA 60.054 52.174 0.00 0.00 0.00 3.53
620 1044 4.386761 CCTCTCTCCTCTCTTCTCTTCCAT 60.387 50.000 0.00 0.00 0.00 3.41
621 1045 4.535781 TCTCTCCTCTCTTCTCTTCCATG 58.464 47.826 0.00 0.00 0.00 3.66
742 1182 2.018727 CTGGCTCGCTGCATCTCTCT 62.019 60.000 0.00 0.00 45.15 3.10
869 1313 2.582498 CGCGCCTGGTACTGCTAC 60.582 66.667 0.00 0.00 0.00 3.58
876 1320 2.032620 CCTGGTACTGCTACCACTAGG 58.967 57.143 0.78 0.00 46.53 3.02
904 1348 0.458025 GTAGCACCGCTCGCTTACTT 60.458 55.000 0.00 0.00 40.44 2.24
905 1349 0.245539 TAGCACCGCTCGCTTACTTT 59.754 50.000 0.00 0.00 40.44 2.66
906 1350 1.132640 GCACCGCTCGCTTACTTTG 59.867 57.895 0.00 0.00 0.00 2.77
963 1412 2.251371 GAAGCAAACGACGTGCCC 59.749 61.111 0.00 0.00 43.27 5.36
965 1414 2.711185 GAAGCAAACGACGTGCCCAC 62.711 60.000 0.00 0.00 43.27 4.61
970 1419 1.433837 AAACGACGTGCCCACAAGAC 61.434 55.000 0.00 0.00 0.00 3.01
971 1420 2.029073 CGACGTGCCCACAAGACT 59.971 61.111 0.00 0.00 0.00 3.24
1115 1574 2.059575 CGTACGTTCGCTTCCACTG 58.940 57.895 7.22 0.00 0.00 3.66
1123 1582 3.725895 CGTTCGCTTCCACTGATGAATTG 60.726 47.826 0.00 0.00 0.00 2.32
1129 1602 4.380233 GCTTCCACTGATGAATTGAACTGG 60.380 45.833 0.00 0.00 0.00 4.00
1131 1604 4.728772 TCCACTGATGAATTGAACTGGTT 58.271 39.130 0.00 0.00 0.00 3.67
1143 1616 4.982241 TGAACTGGTTTCTCCATCTTCT 57.018 40.909 0.00 0.00 46.12 2.85
1146 1619 3.931578 ACTGGTTTCTCCATCTTCTTCG 58.068 45.455 0.00 0.00 46.12 3.79
1153 1626 2.760650 TCTCCATCTTCTTCGCTTGCTA 59.239 45.455 0.00 0.00 0.00 3.49
1161 1634 5.105752 TCTTCTTCGCTTGCTAATCTTCTC 58.894 41.667 0.00 0.00 0.00 2.87
1163 1636 4.677584 TCTTCGCTTGCTAATCTTCTCTC 58.322 43.478 0.00 0.00 0.00 3.20
1175 1656 1.287730 CTTCTCTCCTGTGTGTGCGC 61.288 60.000 0.00 0.00 0.00 6.09
1226 1707 3.744719 CGGACGAGAACCAGCGGA 61.745 66.667 1.50 0.00 0.00 5.54
1237 1718 2.267006 CAGCGGATGCACCTCAGT 59.733 61.111 0.00 0.00 46.23 3.41
1244 1725 1.608717 GATGCACCTCAGTCGGGAGT 61.609 60.000 0.00 0.00 32.91 3.85
1312 1793 3.242673 GGACTCAGATGAAGGTACGTACG 60.243 52.174 18.98 15.01 0.00 3.67
1314 1795 1.063027 TCAGATGAAGGTACGTACGCG 59.937 52.381 16.72 3.53 44.93 6.01
1324 1805 2.823147 CGTACGCGTCCTCCTCCT 60.823 66.667 18.63 0.00 0.00 3.69
1325 1806 2.821688 CGTACGCGTCCTCCTCCTC 61.822 68.421 18.63 0.00 0.00 3.71
1326 1807 2.513204 TACGCGTCCTCCTCCTCG 60.513 66.667 18.63 0.00 0.00 4.63
1327 1808 3.320879 TACGCGTCCTCCTCCTCGT 62.321 63.158 18.63 0.00 0.00 4.18
1328 1809 2.809861 TACGCGTCCTCCTCCTCGTT 62.810 60.000 18.63 0.00 0.00 3.85
1329 1810 2.490685 GCGTCCTCCTCCTCGTTC 59.509 66.667 0.00 0.00 0.00 3.95
1330 1811 2.047443 GCGTCCTCCTCCTCGTTCT 61.047 63.158 0.00 0.00 0.00 3.01
1331 1812 1.995646 GCGTCCTCCTCCTCGTTCTC 61.996 65.000 0.00 0.00 0.00 2.87
1332 1813 0.393267 CGTCCTCCTCCTCGTTCTCT 60.393 60.000 0.00 0.00 0.00 3.10
1333 1814 1.385528 GTCCTCCTCCTCGTTCTCTC 58.614 60.000 0.00 0.00 0.00 3.20
1334 1815 0.256464 TCCTCCTCCTCGTTCTCTCC 59.744 60.000 0.00 0.00 0.00 3.71
1345 1826 1.536922 CGTTCTCTCCCATCCATGTCG 60.537 57.143 0.00 0.00 0.00 4.35
1365 1846 1.970640 GGCAACCCATCTTTTTCACCT 59.029 47.619 0.00 0.00 0.00 4.00
1436 1917 1.363145 CGAGACGGCCGGCAATTAAA 61.363 55.000 36.60 0.00 0.00 1.52
1461 1942 5.062058 CCAAATTAATTCGTTCCATGTGTGC 59.938 40.000 0.10 0.00 0.00 4.57
1462 1943 5.643379 AATTAATTCGTTCCATGTGTGCT 57.357 34.783 0.00 0.00 0.00 4.40
1478 1959 2.029110 TGTGCTGCTTCTAATTTTGGCC 60.029 45.455 0.00 0.00 0.00 5.36
1701 2187 0.167689 CTCAAAGAAGAGGCAAGCGC 59.832 55.000 0.00 0.00 37.44 5.92
1702 2188 1.154338 CAAAGAAGAGGCAAGCGCG 60.154 57.895 0.00 0.00 39.92 6.86
1703 2189 2.970974 AAAGAAGAGGCAAGCGCGC 61.971 57.895 26.66 26.66 39.92 6.86
1723 2210 0.541863 CCTGCCTACCAACCTACCAG 59.458 60.000 0.00 0.00 0.00 4.00
1726 2213 1.203262 TGCCTACCAACCTACCAGTCT 60.203 52.381 0.00 0.00 0.00 3.24
1729 2216 1.899814 CTACCAACCTACCAGTCTGCA 59.100 52.381 0.00 0.00 0.00 4.41
1782 2269 2.125147 ACACCACGATCGGCATGG 60.125 61.111 20.98 19.69 39.57 3.66
1784 2271 1.142965 CACCACGATCGGCATGGTA 59.857 57.895 23.66 0.00 45.11 3.25
1785 2272 1.143183 ACCACGATCGGCATGGTAC 59.857 57.895 23.07 0.00 45.04 3.34
1786 2273 1.949133 CCACGATCGGCATGGTACG 60.949 63.158 20.98 0.00 0.00 3.67
1799 2286 3.147629 CATGGTACGGTGGTTTTGGTTA 58.852 45.455 0.00 0.00 0.00 2.85
1827 2314 4.394712 GACCGGGTGTCCAGCCTG 62.395 72.222 3.30 9.34 46.33 4.85
2070 2620 2.033911 TTCATCAGGCTGGCGCAA 59.966 55.556 15.73 0.00 38.10 4.85
2319 2875 1.565156 ATCGTTTGCGTGACGTGCAT 61.565 50.000 6.91 0.00 42.84 3.96
2377 2946 1.747355 GAGTTCTTCCCGACCATCGTA 59.253 52.381 0.00 0.00 38.40 3.43
2449 3018 2.288825 CGAGTCTTTGGTGCTGGTAAGA 60.289 50.000 0.00 0.00 0.00 2.10
2479 3048 1.154225 CCGACTCCATTTTGCACGC 60.154 57.895 0.00 0.00 0.00 5.34
2482 3051 0.793861 GACTCCATTTTGCACGCGTA 59.206 50.000 13.44 0.00 0.00 4.42
2490 3059 0.871722 TTTGCACGCGTAGATTGCTT 59.128 45.000 13.44 0.00 37.64 3.91
2493 3062 2.006772 CACGCGTAGATTGCTTCCC 58.993 57.895 13.44 0.00 0.00 3.97
2524 3093 1.356624 GTCATTAGGCGCACATGGC 59.643 57.895 10.83 5.57 39.90 4.40
2538 3107 2.230025 CACATGGCCGGACATTTTACAA 59.770 45.455 23.74 0.00 0.00 2.41
2828 3397 0.109781 CACCATGTACTTTGCCGCAC 60.110 55.000 0.00 0.00 0.00 5.34
2843 3412 3.490759 CACTGCGATCGGGTGTGC 61.491 66.667 18.30 0.00 0.00 4.57
2845 3414 4.758251 CTGCGATCGGGTGTGCCA 62.758 66.667 18.30 3.14 36.17 4.92
2846 3415 4.094646 TGCGATCGGGTGTGCCAT 62.095 61.111 18.30 0.00 36.17 4.40
2847 3416 3.576356 GCGATCGGGTGTGCCATG 61.576 66.667 18.30 0.00 36.17 3.66
2848 3417 2.186644 CGATCGGGTGTGCCATGA 59.813 61.111 7.38 0.00 36.17 3.07
2849 3418 1.227645 CGATCGGGTGTGCCATGAT 60.228 57.895 7.38 0.00 35.13 2.45
2956 3532 2.881539 TACCGCGACCTCGTCCTGAT 62.882 60.000 8.23 0.00 42.22 2.90
2960 3536 2.835705 CGACCTCGTCCTGATCGGG 61.836 68.421 15.09 15.09 34.11 5.14
3065 3641 3.069946 ATCGCCGGGGTGACGTTA 61.070 61.111 19.13 0.00 37.47 3.18
3287 3863 2.284625 ATCTGGCTCCCCGTGTCA 60.285 61.111 0.00 0.00 0.00 3.58
3453 4033 1.814394 TCGCCTAGCTCGTAACTTTGA 59.186 47.619 0.00 0.00 0.00 2.69
3468 4048 2.806244 ACTTTGACAATGGCAGACGTAC 59.194 45.455 6.09 0.00 0.00 3.67
3472 4052 0.669318 ACAATGGCAGACGTACGTGG 60.669 55.000 28.16 18.36 0.00 4.94
3473 4053 1.079405 AATGGCAGACGTACGTGGG 60.079 57.895 28.16 17.98 0.00 4.61
3475 4055 1.823169 ATGGCAGACGTACGTGGGTT 61.823 55.000 28.16 5.54 0.00 4.11
3476 4056 1.735559 GGCAGACGTACGTGGGTTC 60.736 63.158 28.16 11.00 0.00 3.62
3477 4057 2.084681 GCAGACGTACGTGGGTTCG 61.085 63.158 28.16 8.18 41.91 3.95
3478 4058 1.575922 CAGACGTACGTGGGTTCGA 59.424 57.895 28.16 0.00 39.00 3.71
3479 4059 0.040157 CAGACGTACGTGGGTTCGAA 60.040 55.000 28.16 0.00 39.00 3.71
3480 4060 0.040067 AGACGTACGTGGGTTCGAAC 60.040 55.000 28.16 20.14 39.00 3.95
3481 4061 0.040067 GACGTACGTGGGTTCGAACT 60.040 55.000 28.16 10.03 39.00 3.01
3482 4062 0.385390 ACGTACGTGGGTTCGAACTT 59.615 50.000 26.32 9.57 39.00 2.66
3483 4063 1.055338 CGTACGTGGGTTCGAACTTC 58.945 55.000 26.32 18.78 39.00 3.01
3484 4064 1.600164 CGTACGTGGGTTCGAACTTCA 60.600 52.381 26.32 20.88 39.00 3.02
3485 4065 2.472816 GTACGTGGGTTCGAACTTCAA 58.527 47.619 26.32 8.24 34.70 2.69
3486 4066 2.027003 ACGTGGGTTCGAACTTCAAA 57.973 45.000 26.32 6.55 34.70 2.69
3487 4067 1.667212 ACGTGGGTTCGAACTTCAAAC 59.333 47.619 26.32 15.84 34.70 2.93
3488 4068 1.937899 CGTGGGTTCGAACTTCAAACT 59.062 47.619 26.32 0.00 0.00 2.66
3489 4069 3.125316 CGTGGGTTCGAACTTCAAACTA 58.875 45.455 26.32 5.17 0.00 2.24
3490 4070 3.744426 CGTGGGTTCGAACTTCAAACTAT 59.256 43.478 26.32 0.00 0.00 2.12
3491 4071 4.143179 CGTGGGTTCGAACTTCAAACTATC 60.143 45.833 26.32 11.47 0.00 2.08
3492 4072 4.753107 GTGGGTTCGAACTTCAAACTATCA 59.247 41.667 26.32 7.89 0.00 2.15
3493 4073 5.237779 GTGGGTTCGAACTTCAAACTATCAA 59.762 40.000 26.32 0.00 0.00 2.57
3494 4074 5.823570 TGGGTTCGAACTTCAAACTATCAAA 59.176 36.000 26.32 0.00 0.00 2.69
3495 4075 6.017440 TGGGTTCGAACTTCAAACTATCAAAG 60.017 38.462 26.32 0.00 0.00 2.77
3496 4076 6.204108 GGGTTCGAACTTCAAACTATCAAAGA 59.796 38.462 26.32 0.00 0.00 2.52
3497 4077 7.255001 GGGTTCGAACTTCAAACTATCAAAGAA 60.255 37.037 26.32 0.00 0.00 2.52
3498 4078 7.586664 GGTTCGAACTTCAAACTATCAAAGAAC 59.413 37.037 26.32 0.52 0.00 3.01
3499 4079 8.336080 GTTCGAACTTCAAACTATCAAAGAACT 58.664 33.333 20.97 0.00 31.91 3.01
3500 4080 9.537192 TTCGAACTTCAAACTATCAAAGAACTA 57.463 29.630 0.00 0.00 0.00 2.24
3501 4081 9.706691 TCGAACTTCAAACTATCAAAGAACTAT 57.293 29.630 0.00 0.00 0.00 2.12
3502 4082 9.746711 CGAACTTCAAACTATCAAAGAACTATG 57.253 33.333 0.00 0.00 0.00 2.23
3507 4087 9.958180 TTCAAACTATCAAAGAACTATGATGGA 57.042 29.630 6.19 0.00 36.86 3.41
3510 4090 9.911788 AAACTATCAAAGAACTATGATGGATGT 57.088 29.630 6.19 0.00 36.86 3.06
3511 4091 8.899427 ACTATCAAAGAACTATGATGGATGTG 57.101 34.615 6.19 0.00 36.86 3.21
3512 4092 7.935755 ACTATCAAAGAACTATGATGGATGTGG 59.064 37.037 6.19 0.00 36.86 4.17
3513 4093 6.065976 TCAAAGAACTATGATGGATGTGGT 57.934 37.500 0.00 0.00 0.00 4.16
3514 4094 5.882000 TCAAAGAACTATGATGGATGTGGTG 59.118 40.000 0.00 0.00 0.00 4.17
3515 4095 5.441718 AAGAACTATGATGGATGTGGTGT 57.558 39.130 0.00 0.00 0.00 4.16
3516 4096 5.441718 AGAACTATGATGGATGTGGTGTT 57.558 39.130 0.00 0.00 0.00 3.32
3517 4097 5.188434 AGAACTATGATGGATGTGGTGTTG 58.812 41.667 0.00 0.00 0.00 3.33
3518 4098 4.842531 ACTATGATGGATGTGGTGTTGA 57.157 40.909 0.00 0.00 0.00 3.18
3519 4099 4.517285 ACTATGATGGATGTGGTGTTGAC 58.483 43.478 0.00 0.00 0.00 3.18
3520 4100 3.726557 ATGATGGATGTGGTGTTGACT 57.273 42.857 0.00 0.00 0.00 3.41
3521 4101 2.781923 TGATGGATGTGGTGTTGACTG 58.218 47.619 0.00 0.00 0.00 3.51
3787 4367 4.340246 CTGGTGAGCAGCCTGCCA 62.340 66.667 14.25 8.45 46.52 4.92
4018 4601 1.598962 CCCGCGCATTCATGGAGAT 60.599 57.895 8.75 0.00 0.00 2.75
4048 4632 4.562425 CGTGGTGGTGGTGCTGGT 62.562 66.667 0.00 0.00 0.00 4.00
4049 4633 2.906897 GTGGTGGTGGTGCTGGTG 60.907 66.667 0.00 0.00 0.00 4.17
4050 4634 4.202574 TGGTGGTGGTGCTGGTGG 62.203 66.667 0.00 0.00 0.00 4.61
4120 4704 3.458163 GTCCGGTCGCTGGATGGA 61.458 66.667 0.00 0.00 41.38 3.41
4121 4705 2.682136 TCCGGTCGCTGGATGGAA 60.682 61.111 0.00 0.00 33.41 3.53
4170 4766 5.126061 TCCACGTTTGGTTAGGTATCTAGTC 59.874 44.000 0.00 0.00 44.35 2.59
4171 4767 5.126707 CCACGTTTGGTTAGGTATCTAGTCT 59.873 44.000 0.00 0.00 38.23 3.24
4172 4768 6.319658 CCACGTTTGGTTAGGTATCTAGTCTA 59.680 42.308 0.00 0.00 38.23 2.59
4173 4769 7.416022 CACGTTTGGTTAGGTATCTAGTCTAG 58.584 42.308 0.00 0.00 0.00 2.43
4174 4770 7.066766 CACGTTTGGTTAGGTATCTAGTCTAGT 59.933 40.741 6.77 0.00 0.00 2.57
4176 4772 8.465201 CGTTTGGTTAGGTATCTAGTCTAGTTT 58.535 37.037 6.77 0.00 0.00 2.66
4177 4773 9.800433 GTTTGGTTAGGTATCTAGTCTAGTTTC 57.200 37.037 6.77 0.00 0.00 2.78
4178 4774 8.530804 TTGGTTAGGTATCTAGTCTAGTTTCC 57.469 38.462 6.77 6.21 0.00 3.13
4184 4786 8.415950 AGGTATCTAGTCTAGTTTCCATGATG 57.584 38.462 13.30 0.00 0.00 3.07
4390 5007 4.226168 TCTTCTTCTCCTCCCTTTTGATCC 59.774 45.833 0.00 0.00 0.00 3.36
4400 5017 2.423947 CCCTTTTGATCCTCCTCCCATG 60.424 54.545 0.00 0.00 0.00 3.66
4401 5018 2.423947 CCTTTTGATCCTCCTCCCATGG 60.424 54.545 4.14 4.14 0.00 3.66
4402 5019 0.552848 TTTGATCCTCCTCCCATGGC 59.447 55.000 6.09 0.00 0.00 4.40
4403 5020 1.355718 TTGATCCTCCTCCCATGGCC 61.356 60.000 6.09 0.00 0.00 5.36
4404 5021 1.771746 GATCCTCCTCCCATGGCCA 60.772 63.158 8.56 8.56 0.00 5.36
4405 5022 1.072380 ATCCTCCTCCCATGGCCAT 60.072 57.895 14.09 14.09 0.00 4.40
4406 5023 1.432852 ATCCTCCTCCCATGGCCATG 61.433 60.000 34.82 34.82 38.51 3.66
4517 5134 3.044235 GGTTTTCCTTTGCCCAAGATG 57.956 47.619 0.00 0.00 33.80 2.90
4519 5136 5.984153 GGTTTTCCTTTGCCCAAGATGGC 62.984 52.174 0.00 0.00 43.63 4.40
4561 6306 3.829948 CTGGTACCAGTACAACGTGTAG 58.170 50.000 30.57 4.20 39.10 2.74
4562 6307 3.221771 TGGTACCAGTACAACGTGTAGT 58.778 45.455 11.60 0.00 36.99 2.73
4563 6308 4.393834 TGGTACCAGTACAACGTGTAGTA 58.606 43.478 11.60 0.00 34.48 1.82
4587 6332 4.694233 AGCTGGCGCTGTGGAGTG 62.694 66.667 7.64 0.00 46.86 3.51
4619 6364 2.484770 GCTCATCATTGCCATTTGCCAT 60.485 45.455 0.00 0.00 40.16 4.40
4726 6471 0.028770 GATGAGAGCGAGTGAGACGG 59.971 60.000 0.00 0.00 0.00 4.79
4730 6475 3.384014 GAGCGAGTGAGACGGACGG 62.384 68.421 0.00 0.00 0.00 4.79
4740 6485 4.347453 ACGGACGGACGTTTCCCG 62.347 66.667 18.00 18.00 46.25 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 84 0.601558 TTCTCCGTCCACAGCACTAC 59.398 55.000 0.00 0.00 0.00 2.73
285 303 3.427528 GCGATAACCGATGCGAATTAAGA 59.572 43.478 0.00 0.00 41.76 2.10
291 309 0.596600 GGAGCGATAACCGATGCGAA 60.597 55.000 0.00 0.00 41.76 4.70
308 326 0.252103 GGGTACAGTGTGGAGGAGGA 60.252 60.000 5.88 0.00 0.00 3.71
327 345 2.034317 TATGGTGTGCTGCAGTGCG 61.034 57.895 16.64 6.61 35.36 5.34
334 352 1.131693 TCGTACTCGTATGGTGTGCTG 59.868 52.381 0.00 0.00 38.33 4.41
336 354 2.267188 TTCGTACTCGTATGGTGTGC 57.733 50.000 0.00 0.00 38.33 4.57
471 522 6.617784 TCTCCTCTCTCTCTCTCCAACTATAA 59.382 42.308 0.00 0.00 0.00 0.98
493 901 2.717515 TCCTACACCCTCCCTATCTCTC 59.282 54.545 0.00 0.00 0.00 3.20
494 902 2.719705 CTCCTACACCCTCCCTATCTCT 59.280 54.545 0.00 0.00 0.00 3.10
495 903 2.447811 ACTCCTACACCCTCCCTATCTC 59.552 54.545 0.00 0.00 0.00 2.75
496 904 2.515791 ACTCCTACACCCTCCCTATCT 58.484 52.381 0.00 0.00 0.00 1.98
497 905 3.331718 AACTCCTACACCCTCCCTATC 57.668 52.381 0.00 0.00 0.00 2.08
498 906 4.388804 CCTTAACTCCTACACCCTCCCTAT 60.389 50.000 0.00 0.00 0.00 2.57
499 907 3.052338 CCTTAACTCCTACACCCTCCCTA 60.052 52.174 0.00 0.00 0.00 3.53
500 908 2.292984 CCTTAACTCCTACACCCTCCCT 60.293 54.545 0.00 0.00 0.00 4.20
501 909 2.117051 CCTTAACTCCTACACCCTCCC 58.883 57.143 0.00 0.00 0.00 4.30
502 910 3.111741 TCCTTAACTCCTACACCCTCC 57.888 52.381 0.00 0.00 0.00 4.30
503 911 3.451540 CCTTCCTTAACTCCTACACCCTC 59.548 52.174 0.00 0.00 0.00 4.30
504 912 3.451890 CCTTCCTTAACTCCTACACCCT 58.548 50.000 0.00 0.00 0.00 4.34
505 913 2.093075 GCCTTCCTTAACTCCTACACCC 60.093 54.545 0.00 0.00 0.00 4.61
506 914 2.418334 CGCCTTCCTTAACTCCTACACC 60.418 54.545 0.00 0.00 0.00 4.16
507 915 2.418334 CCGCCTTCCTTAACTCCTACAC 60.418 54.545 0.00 0.00 0.00 2.90
508 916 1.829222 CCGCCTTCCTTAACTCCTACA 59.171 52.381 0.00 0.00 0.00 2.74
509 917 1.138464 CCCGCCTTCCTTAACTCCTAC 59.862 57.143 0.00 0.00 0.00 3.18
510 918 1.492764 CCCGCCTTCCTTAACTCCTA 58.507 55.000 0.00 0.00 0.00 2.94
605 1029 5.278463 GCTAGCTACATGGAAGAGAAGAGAG 60.278 48.000 7.70 0.00 0.00 3.20
618 1042 1.892474 GGAGAGGGAGCTAGCTACATG 59.108 57.143 28.11 0.00 0.00 3.21
619 1043 1.786441 AGGAGAGGGAGCTAGCTACAT 59.214 52.381 28.11 22.54 0.00 2.29
620 1044 1.227249 AGGAGAGGGAGCTAGCTACA 58.773 55.000 28.11 0.00 0.00 2.74
621 1045 2.235891 GAAGGAGAGGGAGCTAGCTAC 58.764 57.143 19.51 19.51 0.00 3.58
869 1313 0.875728 CTACGATCGAGGCCTAGTGG 59.124 60.000 24.34 1.91 0.00 4.00
876 1320 2.353607 CGGTGCTACGATCGAGGC 60.354 66.667 24.34 23.19 35.47 4.70
963 1412 0.107945 GCCTGCCTCCTAGTCTTGTG 60.108 60.000 0.00 0.00 0.00 3.33
965 1414 1.142748 CGCCTGCCTCCTAGTCTTG 59.857 63.158 0.00 0.00 0.00 3.02
1115 1574 5.964958 TGGAGAAACCAGTTCAATTCATC 57.035 39.130 0.00 0.00 44.64 2.92
1129 1602 3.425492 GCAAGCGAAGAAGATGGAGAAAC 60.425 47.826 0.00 0.00 0.00 2.78
1131 1604 2.027745 AGCAAGCGAAGAAGATGGAGAA 60.028 45.455 0.00 0.00 0.00 2.87
1143 1616 3.449018 AGGAGAGAAGATTAGCAAGCGAA 59.551 43.478 0.00 0.00 0.00 4.70
1146 1619 3.870419 CACAGGAGAGAAGATTAGCAAGC 59.130 47.826 0.00 0.00 0.00 4.01
1153 1626 2.611473 CGCACACACAGGAGAGAAGATT 60.611 50.000 0.00 0.00 0.00 2.40
1175 1656 4.505217 GAACATCCTGCACGCGCG 62.505 66.667 30.96 30.96 42.97 6.86
1177 1658 1.133253 CTTGAACATCCTGCACGCG 59.867 57.895 3.53 3.53 0.00 6.01
1181 1662 1.883638 GCACTCCTTGAACATCCTGCA 60.884 52.381 0.00 0.00 0.00 4.41
1226 1707 1.194781 AACTCCCGACTGAGGTGCAT 61.195 55.000 0.00 0.00 36.66 3.96
1237 1718 4.649705 TCCAGCCCCAACTCCCGA 62.650 66.667 0.00 0.00 0.00 5.14
1258 1739 2.777832 ACCAGAACTTGATCTGCCTC 57.222 50.000 2.86 0.00 44.43 4.70
1312 1793 1.995646 GAGAACGAGGAGGAGGACGC 61.996 65.000 0.00 0.00 0.00 5.19
1314 1795 1.385528 GAGAGAACGAGGAGGAGGAC 58.614 60.000 0.00 0.00 0.00 3.85
1318 1799 0.631753 ATGGGAGAGAACGAGGAGGA 59.368 55.000 0.00 0.00 0.00 3.71
1319 1800 1.036707 GATGGGAGAGAACGAGGAGG 58.963 60.000 0.00 0.00 0.00 4.30
1320 1801 1.036707 GGATGGGAGAGAACGAGGAG 58.963 60.000 0.00 0.00 0.00 3.69
1321 1802 0.335019 TGGATGGGAGAGAACGAGGA 59.665 55.000 0.00 0.00 0.00 3.71
1322 1803 1.069823 CATGGATGGGAGAGAACGAGG 59.930 57.143 0.00 0.00 0.00 4.63
1323 1804 1.759445 ACATGGATGGGAGAGAACGAG 59.241 52.381 0.00 0.00 0.00 4.18
1324 1805 1.757118 GACATGGATGGGAGAGAACGA 59.243 52.381 0.00 0.00 0.00 3.85
1325 1806 1.536922 CGACATGGATGGGAGAGAACG 60.537 57.143 0.00 0.00 0.00 3.95
1326 1807 1.202580 CCGACATGGATGGGAGAGAAC 60.203 57.143 0.00 0.00 42.00 3.01
1327 1808 1.123077 CCGACATGGATGGGAGAGAA 58.877 55.000 0.00 0.00 42.00 2.87
1328 1809 1.402896 GCCGACATGGATGGGAGAGA 61.403 60.000 0.00 0.00 42.00 3.10
1329 1810 1.070445 GCCGACATGGATGGGAGAG 59.930 63.158 0.00 0.00 42.00 3.20
1330 1811 1.271127 TTGCCGACATGGATGGGAGA 61.271 55.000 0.00 0.00 42.00 3.71
1331 1812 1.097547 GTTGCCGACATGGATGGGAG 61.098 60.000 0.00 0.00 42.00 4.30
1332 1813 1.077787 GTTGCCGACATGGATGGGA 60.078 57.895 0.00 0.00 42.00 4.37
1333 1814 2.120909 GGTTGCCGACATGGATGGG 61.121 63.158 0.00 0.00 42.00 4.00
1334 1815 2.120909 GGGTTGCCGACATGGATGG 61.121 63.158 0.00 0.00 42.00 3.51
1345 1826 1.970640 AGGTGAAAAAGATGGGTTGCC 59.029 47.619 0.00 0.00 0.00 4.52
1365 1846 1.050204 TCCCGTTCCGAAAGAAGGAA 58.950 50.000 0.00 0.00 41.88 3.36
1382 1863 3.306641 CGAAGAGGGATCAGGAATCATCC 60.307 52.174 0.00 0.00 46.98 3.51
1436 1917 6.155827 CACACATGGAACGAATTAATTTGGT 58.844 36.000 17.84 12.54 0.00 3.67
1461 1942 2.417787 GCCAGGCCAAAATTAGAAGCAG 60.418 50.000 5.01 0.00 0.00 4.24
1462 1943 1.550072 GCCAGGCCAAAATTAGAAGCA 59.450 47.619 5.01 0.00 0.00 3.91
1701 2187 2.363975 TAGGTTGGTAGGCAGGGCG 61.364 63.158 0.00 0.00 0.00 6.13
1702 2188 1.223763 GTAGGTTGGTAGGCAGGGC 59.776 63.158 0.00 0.00 0.00 5.19
1703 2189 0.912487 TGGTAGGTTGGTAGGCAGGG 60.912 60.000 0.00 0.00 0.00 4.45
1705 2191 1.207329 GACTGGTAGGTTGGTAGGCAG 59.793 57.143 0.00 0.00 0.00 4.85
1706 2192 1.203262 AGACTGGTAGGTTGGTAGGCA 60.203 52.381 0.00 0.00 0.00 4.75
1707 2193 1.207329 CAGACTGGTAGGTTGGTAGGC 59.793 57.143 0.00 0.00 0.00 3.93
1709 2195 1.899814 TGCAGACTGGTAGGTTGGTAG 59.100 52.381 4.26 0.00 0.00 3.18
1710 2196 2.018355 TGCAGACTGGTAGGTTGGTA 57.982 50.000 4.26 0.00 0.00 3.25
1711 2197 1.279271 GATGCAGACTGGTAGGTTGGT 59.721 52.381 4.26 0.00 0.00 3.67
1714 2201 1.556911 CAGGATGCAGACTGGTAGGTT 59.443 52.381 11.51 0.00 0.00 3.50
1782 2269 2.549329 CACCTAACCAAAACCACCGTAC 59.451 50.000 0.00 0.00 0.00 3.67
1783 2270 2.848691 CACCTAACCAAAACCACCGTA 58.151 47.619 0.00 0.00 0.00 4.02
1784 2271 1.682740 CACCTAACCAAAACCACCGT 58.317 50.000 0.00 0.00 0.00 4.83
1785 2272 0.312729 GCACCTAACCAAAACCACCG 59.687 55.000 0.00 0.00 0.00 4.94
1786 2273 1.339929 CTGCACCTAACCAAAACCACC 59.660 52.381 0.00 0.00 0.00 4.61
1799 2286 4.335647 CCCGGTCAAGCTGCACCT 62.336 66.667 11.63 0.00 0.00 4.00
1827 2314 1.595357 CCCCAGGTACTTGGACGTC 59.405 63.158 24.80 7.13 45.22 4.34
2001 2551 3.983494 ATCGGCCGCTCCATCTCG 61.983 66.667 23.51 0.00 34.01 4.04
2136 2692 1.153168 GGGCTTGGCGAAGATGCTA 60.153 57.895 13.20 0.00 34.52 3.49
2238 2794 0.671796 AGTCCATGAACGTGTCGACA 59.328 50.000 15.76 15.76 0.00 4.35
2319 2875 1.135915 GACACACACAACAATGGCCAA 59.864 47.619 10.96 0.00 0.00 4.52
2377 2946 4.742201 ATCGTGCGCGCTCTGGTT 62.742 61.111 33.29 9.33 38.14 3.67
2479 3048 6.984474 TGACTAAATTAGGGAAGCAATCTACG 59.016 38.462 4.92 0.00 0.00 3.51
2482 3051 7.349598 ACATGACTAAATTAGGGAAGCAATCT 58.650 34.615 0.00 0.00 0.00 2.40
2490 3059 7.224297 GCCTAATGACATGACTAAATTAGGGA 58.776 38.462 22.35 0.00 45.25 4.20
2493 3062 6.202762 TGCGCCTAATGACATGACTAAATTAG 59.797 38.462 4.18 3.49 32.85 1.73
2555 3124 1.589993 CCTCGTACATCTGCAGCGG 60.590 63.158 9.47 5.83 0.00 5.52
2734 3303 4.615815 GCGATGAGGCAGCCCGAT 62.616 66.667 8.22 0.00 35.76 4.18
2795 3364 0.981183 ATGGTGGTGAACTAAGCCGA 59.019 50.000 0.00 0.00 0.00 5.54
2828 3397 4.758251 TGGCACACCCGATCGCAG 62.758 66.667 10.32 5.66 35.87 5.18
2843 3412 1.009078 ACACGCGTCATGAATCATGG 58.991 50.000 21.58 8.95 41.66 3.66
2845 3414 1.009078 CCACACGCGTCATGAATCAT 58.991 50.000 19.13 0.00 0.00 2.45
2846 3415 0.037790 TCCACACGCGTCATGAATCA 60.038 50.000 19.13 0.00 0.00 2.57
2847 3416 1.075542 TTCCACACGCGTCATGAATC 58.924 50.000 19.13 0.00 0.00 2.52
2848 3417 1.737838 ATTCCACACGCGTCATGAAT 58.262 45.000 19.13 17.74 0.00 2.57
2849 3418 1.196581 CAATTCCACACGCGTCATGAA 59.803 47.619 19.13 16.44 0.00 2.57
3065 3641 0.619832 TCATGCTCCTCTTGCCCTCT 60.620 55.000 0.00 0.00 0.00 3.69
3404 3980 2.499289 TCTGAGCAAGGAGATGGAGTTC 59.501 50.000 0.00 0.00 0.00 3.01
3453 4033 0.669318 CCACGTACGTCTGCCATTGT 60.669 55.000 19.94 0.00 0.00 2.71
3468 4048 1.937899 AGTTTGAAGTTCGAACCCACG 59.062 47.619 25.91 0.00 40.76 4.94
3472 4052 7.186021 TCTTTGATAGTTTGAAGTTCGAACC 57.814 36.000 25.91 15.01 40.76 3.62
3473 4053 8.336080 AGTTCTTTGATAGTTTGAAGTTCGAAC 58.664 33.333 23.33 23.33 40.30 3.95
3475 4055 9.706691 ATAGTTCTTTGATAGTTTGAAGTTCGA 57.293 29.630 0.00 0.00 0.00 3.71
3476 4056 9.746711 CATAGTTCTTTGATAGTTTGAAGTTCG 57.253 33.333 0.00 0.00 0.00 3.95
3481 4061 9.958180 TCCATCATAGTTCTTTGATAGTTTGAA 57.042 29.630 5.68 0.00 31.50 2.69
3484 4064 9.911788 ACATCCATCATAGTTCTTTGATAGTTT 57.088 29.630 5.68 0.00 31.50 2.66
3485 4065 9.334947 CACATCCATCATAGTTCTTTGATAGTT 57.665 33.333 5.68 0.00 31.50 2.24
3486 4066 7.935755 CCACATCCATCATAGTTCTTTGATAGT 59.064 37.037 5.68 1.94 31.50 2.12
3487 4067 7.935755 ACCACATCCATCATAGTTCTTTGATAG 59.064 37.037 5.68 0.61 31.50 2.08
3488 4068 7.716560 CACCACATCCATCATAGTTCTTTGATA 59.283 37.037 5.68 0.00 31.50 2.15
3489 4069 6.544931 CACCACATCCATCATAGTTCTTTGAT 59.455 38.462 1.11 1.11 32.87 2.57
3490 4070 5.882000 CACCACATCCATCATAGTTCTTTGA 59.118 40.000 0.00 0.00 0.00 2.69
3491 4071 5.649395 ACACCACATCCATCATAGTTCTTTG 59.351 40.000 0.00 0.00 0.00 2.77
3492 4072 5.819991 ACACCACATCCATCATAGTTCTTT 58.180 37.500 0.00 0.00 0.00 2.52
3493 4073 5.441718 ACACCACATCCATCATAGTTCTT 57.558 39.130 0.00 0.00 0.00 2.52
3494 4074 5.045651 TCAACACCACATCCATCATAGTTCT 60.046 40.000 0.00 0.00 0.00 3.01
3495 4075 5.065218 GTCAACACCACATCCATCATAGTTC 59.935 44.000 0.00 0.00 0.00 3.01
3496 4076 4.943705 GTCAACACCACATCCATCATAGTT 59.056 41.667 0.00 0.00 0.00 2.24
3497 4077 4.225942 AGTCAACACCACATCCATCATAGT 59.774 41.667 0.00 0.00 0.00 2.12
3498 4078 4.573607 CAGTCAACACCACATCCATCATAG 59.426 45.833 0.00 0.00 0.00 2.23
3499 4079 4.224818 TCAGTCAACACCACATCCATCATA 59.775 41.667 0.00 0.00 0.00 2.15
3500 4080 3.009363 TCAGTCAACACCACATCCATCAT 59.991 43.478 0.00 0.00 0.00 2.45
3501 4081 2.371510 TCAGTCAACACCACATCCATCA 59.628 45.455 0.00 0.00 0.00 3.07
3502 4082 2.744202 GTCAGTCAACACCACATCCATC 59.256 50.000 0.00 0.00 0.00 3.51
3503 4083 2.783135 GTCAGTCAACACCACATCCAT 58.217 47.619 0.00 0.00 0.00 3.41
3504 4084 1.540146 CGTCAGTCAACACCACATCCA 60.540 52.381 0.00 0.00 0.00 3.41
3505 4085 1.148310 CGTCAGTCAACACCACATCC 58.852 55.000 0.00 0.00 0.00 3.51
3506 4086 2.061773 CTCGTCAGTCAACACCACATC 58.938 52.381 0.00 0.00 0.00 3.06
3507 4087 1.270305 CCTCGTCAGTCAACACCACAT 60.270 52.381 0.00 0.00 0.00 3.21
3508 4088 0.104120 CCTCGTCAGTCAACACCACA 59.896 55.000 0.00 0.00 0.00 4.17
3509 4089 0.104304 ACCTCGTCAGTCAACACCAC 59.896 55.000 0.00 0.00 0.00 4.16
3510 4090 0.104120 CACCTCGTCAGTCAACACCA 59.896 55.000 0.00 0.00 0.00 4.17
3511 4091 0.104304 ACACCTCGTCAGTCAACACC 59.896 55.000 0.00 0.00 0.00 4.16
3512 4092 1.859080 GAACACCTCGTCAGTCAACAC 59.141 52.381 0.00 0.00 0.00 3.32
3513 4093 1.535226 CGAACACCTCGTCAGTCAACA 60.535 52.381 0.00 0.00 42.89 3.33
3514 4094 1.129326 CGAACACCTCGTCAGTCAAC 58.871 55.000 0.00 0.00 42.89 3.18
3515 4095 3.562639 CGAACACCTCGTCAGTCAA 57.437 52.632 0.00 0.00 42.89 3.18
3677 4257 3.916544 CGGCAGCAGCGGGATAGA 61.917 66.667 0.34 0.00 43.41 1.98
3679 4259 4.221422 GACGGCAGCAGCGGGATA 62.221 66.667 13.10 0.00 44.54 2.59
3805 4385 1.296715 GACCGTGGCCACTGATTCT 59.703 57.895 31.24 10.94 0.00 2.40
3808 4388 1.302511 GTTGACCGTGGCCACTGAT 60.303 57.895 31.24 17.73 0.00 2.90
3949 4532 1.405463 GGTTCGCCTTGAATGGGAATC 59.595 52.381 3.59 0.00 39.21 2.52
4044 4628 2.357517 GAGCGACACCACCACCAG 60.358 66.667 0.00 0.00 0.00 4.00
4178 4774 4.202020 CCTGCAAACCAAGAGATCATCATG 60.202 45.833 0.00 0.00 0.00 3.07
4184 4786 2.206576 ACCCTGCAAACCAAGAGATC 57.793 50.000 0.00 0.00 0.00 2.75
4246 4848 1.444553 CCAACTCCGAGACGTGCTC 60.445 63.158 1.33 0.00 40.38 4.26
4258 4860 1.471684 CTCATGCAAAGCCTCCAACTC 59.528 52.381 0.00 0.00 0.00 3.01
4400 5017 0.463833 GGCTACACTACACCATGGCC 60.464 60.000 13.04 0.00 0.00 5.36
4401 5018 0.810031 CGGCTACACTACACCATGGC 60.810 60.000 13.04 0.00 0.00 4.40
4402 5019 0.810031 GCGGCTACACTACACCATGG 60.810 60.000 11.19 11.19 0.00 3.66
4403 5020 0.108377 TGCGGCTACACTACACCATG 60.108 55.000 0.00 0.00 0.00 3.66
4404 5021 0.175760 CTGCGGCTACACTACACCAT 59.824 55.000 0.00 0.00 0.00 3.55
4405 5022 1.589630 CTGCGGCTACACTACACCA 59.410 57.895 0.00 0.00 0.00 4.17
4406 5023 1.810030 GCTGCGGCTACACTACACC 60.810 63.158 11.21 0.00 35.22 4.16
4407 5024 1.078759 CTGCTGCGGCTACACTACAC 61.079 60.000 20.27 0.00 39.59 2.90
4408 5025 1.215382 CTGCTGCGGCTACACTACA 59.785 57.895 20.27 0.00 39.59 2.74
4409 5026 0.526524 CTCTGCTGCGGCTACACTAC 60.527 60.000 20.27 0.00 39.59 2.73
4410 5027 1.667154 CCTCTGCTGCGGCTACACTA 61.667 60.000 20.27 0.00 39.59 2.74
4411 5028 2.575993 CTCTGCTGCGGCTACACT 59.424 61.111 20.27 0.00 39.59 3.55
4517 5134 2.037772 TCTGAAGAGACTTTGGAGTGCC 59.962 50.000 0.00 0.00 35.88 5.01
4519 5136 3.006752 AGCTCTGAAGAGACTTTGGAGTG 59.993 47.826 11.56 0.00 44.74 3.51
4521 5138 3.587923 CAGCTCTGAAGAGACTTTGGAG 58.412 50.000 11.56 0.00 44.74 3.86
4522 5139 2.301296 CCAGCTCTGAAGAGACTTTGGA 59.699 50.000 11.56 0.00 44.74 3.53
4587 6332 3.059051 GCAATGATGAGCGAAAGAGATCC 60.059 47.826 0.00 0.00 0.00 3.36
4619 6364 2.666190 GCAGCGAGCAGGTCACAA 60.666 61.111 0.00 0.00 44.79 3.33
4735 6480 1.301087 CACCACAAGCGTACGGGAA 60.301 57.895 18.39 0.00 0.00 3.97
4736 6481 2.030490 AACACCACAAGCGTACGGGA 62.030 55.000 18.39 0.00 0.00 5.14
4737 6482 1.562575 GAACACCACAAGCGTACGGG 61.563 60.000 18.39 11.60 0.00 5.28
4738 6483 1.857364 GAACACCACAAGCGTACGG 59.143 57.895 18.39 2.64 0.00 4.02
4739 6484 1.485514 CGAACACCACAAGCGTACG 59.514 57.895 11.84 11.84 0.00 3.67
4740 6485 0.598158 TCCGAACACCACAAGCGTAC 60.598 55.000 0.00 0.00 0.00 3.67
4741 6486 0.598158 GTCCGAACACCACAAGCGTA 60.598 55.000 0.00 0.00 0.00 4.42
4742 6487 1.885850 GTCCGAACACCACAAGCGT 60.886 57.895 0.00 0.00 0.00 5.07
4743 6488 1.157870 AAGTCCGAACACCACAAGCG 61.158 55.000 0.00 0.00 0.00 4.68
4744 6489 0.307760 CAAGTCCGAACACCACAAGC 59.692 55.000 0.00 0.00 0.00 4.01
4745 6490 1.948104 TCAAGTCCGAACACCACAAG 58.052 50.000 0.00 0.00 0.00 3.16
4747 6492 1.474320 CCTTCAAGTCCGAACACCACA 60.474 52.381 0.00 0.00 0.00 4.17
4816 6577 4.799473 CATGCTGCGACGCGTTGG 62.799 66.667 27.02 16.85 0.00 3.77


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

AutoCloner maintained by Alex Coulton.