Multiple sequence alignment - TraesCS6A01G079700

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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 TraesCS6A01G079700 chr6A 100.000 2243 0 0 1 2243 48880186 48882428 0.000000e+00 4143
1 TraesCS6A01G079700 chr6A 78.728 865 133 35 595 1436 48870395 48871231 4.240000e-147 531
2 TraesCS6A01G079700 chr6A 78.590 383 59 11 943 1322 48912891 48913253 4.820000e-57 231
3 TraesCS6A01G079700 chr6D 88.677 786 31 23 926 1654 37460927 37461711 0.000000e+00 905
4 TraesCS6A01G079700 chr6D 80.308 909 125 31 770 1652 37454823 37455703 2.430000e-179 638
5 TraesCS6A01G079700 chr6D 91.400 407 27 5 1 404 37459007 37459408 3.260000e-153 551
6 TraesCS6A01G079700 chr6D 84.704 523 28 20 402 923 37460217 37460688 2.020000e-130 475
7 TraesCS6A01G079700 chr6D 87.821 312 30 8 1927 2234 37461707 37462014 2.120000e-95 359
8 TraesCS6A01G079700 chr6D 77.105 380 66 12 945 1322 37531554 37531914 1.360000e-47 200
9 TraesCS6A01G079700 chr6B 92.657 572 37 4 1085 1654 87630589 87631157 0.000000e+00 819
10 TraesCS6A01G079700 chr6B 93.058 533 28 4 1 527 87591257 87591786 0.000000e+00 771
11 TraesCS6A01G079700 chr6B 97.297 185 5 0 519 703 87591864 87592048 4.650000e-82 315
12 TraesCS6A01G079700 chr6B 86.644 292 21 7 801 1089 87597064 87597340 7.780000e-80 307
13 TraesCS6A01G079700 chr6B 77.119 590 81 30 595 1149 87585896 87586466 2.180000e-75 292
14 TraesCS6A01G079700 chr6B 88.444 225 22 3 1974 2198 87631203 87631423 3.670000e-68 268
15 TraesCS6A01G079700 chr6B 80.062 321 48 4 943 1263 87746258 87746562 8.060000e-55 224
16 TraesCS6A01G079700 chr6B 93.151 73 3 1 732 802 87592047 87592119 3.050000e-19 106
17 TraesCS6A01G079700 chr7B 96.774 279 9 0 1651 1929 164593515 164593237 1.210000e-127 466
18 TraesCS6A01G079700 chr7B 96.727 275 9 0 1654 1928 603479600 603479326 2.030000e-125 459
19 TraesCS6A01G079700 chr7A 96.774 279 9 0 1651 1929 729525444 729525166 1.210000e-127 466
20 TraesCS6A01G079700 chr7A 96.763 278 9 0 1652 1929 579768412 579768135 4.360000e-127 464
21 TraesCS6A01G079700 chr7A 95.105 286 12 2 1651 1936 691675287 691675004 1.220000e-122 449
22 TraesCS6A01G079700 chr5B 95.439 285 13 0 1645 1929 492255408 492255692 2.630000e-124 455
23 TraesCS6A01G079700 chrUn 96.043 278 11 0 1652 1929 31477254 31476977 9.440000e-124 453
24 TraesCS6A01G079700 chr2B 95.122 287 14 0 1643 1929 794914305 794914591 9.440000e-124 453
25 TraesCS6A01G079700 chr2B 93.624 298 16 3 1643 1939 133123239 133122944 2.040000e-120 442
26 TraesCS6A01G079700 chr1B 75.833 240 41 12 1427 1652 642403036 642403272 3.050000e-19 106


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 TraesCS6A01G079700 chr6A 48880186 48882428 2242 False 4143.000000 4143 100.0000 1 2243 1 chr6A.!!$F2 2242
1 TraesCS6A01G079700 chr6A 48870395 48871231 836 False 531.000000 531 78.7280 595 1436 1 chr6A.!!$F1 841
2 TraesCS6A01G079700 chr6D 37454823 37462014 7191 False 585.600000 905 86.5820 1 2234 5 chr6D.!!$F2 2233
3 TraesCS6A01G079700 chr6B 87630589 87631423 834 False 543.500000 819 90.5505 1085 2198 2 chr6B.!!$F5 1113
4 TraesCS6A01G079700 chr6B 87591257 87592119 862 False 397.333333 771 94.5020 1 802 3 chr6B.!!$F4 801
5 TraesCS6A01G079700 chr6B 87585896 87586466 570 False 292.000000 292 77.1190 595 1149 1 chr6B.!!$F1 554

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
728 5829 0.389391 AACAGCGAGCTATGGCGTAT 59.611 50.0 0.0 0.0 44.37 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1968 7418 0.031716 AGGAGCTCCTAGTGGCATGA 60.032 55.0 34.4 0.0 46.48 3.07 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
43 4229 7.201758 CCTTTATTTTTCCTACGATACCCAACC 60.202 40.741 0.00 0.00 0.00 3.77
50 4236 4.831155 TCCTACGATACCCAACCTTATCTG 59.169 45.833 0.00 0.00 0.00 2.90
226 4417 6.317391 GGATCCCTAACTATGCAATTCTATGC 59.683 42.308 0.00 0.00 46.58 3.14
229 4420 6.936900 TCCCTAACTATGCAATTCTATGCTTC 59.063 38.462 0.00 0.00 46.54 3.86
253 4444 9.753674 TTCCATATTCCTTTGTTCTAAGAATGT 57.246 29.630 0.00 0.00 0.00 2.71
291 4482 3.378427 GTCCTAAATGGCATCCACTGTTC 59.622 47.826 0.00 0.00 35.80 3.18
339 4530 7.355017 TGAGAGTGTCATTTCAAATTCTTTCG 58.645 34.615 0.00 0.00 0.00 3.46
344 4535 9.533253 AGTGTCATTTCAAATTCTTTCGAAATT 57.467 25.926 11.70 0.00 36.25 1.82
345 4536 9.571804 GTGTCATTTCAAATTCTTTCGAAATTG 57.428 29.630 11.70 12.70 40.01 2.32
404 4595 4.442192 GGAGTGCCAAGGTATAGACTCTTG 60.442 50.000 10.15 10.15 35.39 3.02
411 5413 4.628661 AGGTATAGACTCTTGAAGGGGT 57.371 45.455 0.00 0.00 0.00 4.95
423 5425 4.875301 AGGGGTTGGTGGTGGGGT 62.875 66.667 0.00 0.00 0.00 4.95
432 5434 1.125633 GGTGGTGGGGTATGATACGT 58.874 55.000 0.00 0.00 0.00 3.57
453 5456 6.617879 ACGTTTAAGGGATTTAACTTGCATC 58.382 36.000 0.00 0.00 31.11 3.91
490 5493 7.856145 AAGACATGAATAAAAGTAGGCTCAG 57.144 36.000 0.00 0.00 0.00 3.35
512 5515 6.035843 CAGATGTGTACAAGCAAAACAAAGT 58.964 36.000 0.00 0.00 0.00 2.66
585 5675 2.033236 CGACGAGACAGAGAGATACAGC 60.033 54.545 0.00 0.00 0.00 4.40
666 5760 2.513753 TGCATCGGGAAACAAGTCAAT 58.486 42.857 0.00 0.00 0.00 2.57
703 5804 3.081061 TGCGAATCATACCCAATATGCC 58.919 45.455 0.00 0.00 40.62 4.40
707 5808 5.414454 GCGAATCATACCCAATATGCCTTAA 59.586 40.000 0.00 0.00 40.62 1.85
712 5813 6.427441 TCATACCCAATATGCCTTAACAACA 58.573 36.000 0.00 0.00 40.62 3.33
724 5825 1.651987 TAACAACAGCGAGCTATGGC 58.348 50.000 12.56 0.00 39.06 4.40
726 5827 1.811266 CAACAGCGAGCTATGGCGT 60.811 57.895 0.00 0.00 44.37 5.68
727 5828 0.527600 CAACAGCGAGCTATGGCGTA 60.528 55.000 0.00 0.00 44.37 4.42
728 5829 0.389391 AACAGCGAGCTATGGCGTAT 59.611 50.000 0.00 0.00 44.37 3.06
729 5830 0.389391 ACAGCGAGCTATGGCGTATT 59.611 50.000 0.00 0.00 44.37 1.89
730 5831 0.786581 CAGCGAGCTATGGCGTATTG 59.213 55.000 0.00 0.00 44.37 1.90
732 5833 1.901650 GCGAGCTATGGCGTATTGGC 61.902 60.000 0.00 0.00 44.37 4.52
828 5966 1.026182 TGCTCCATAACCGCAAGCTG 61.026 55.000 0.00 0.00 34.11 4.24
860 5999 3.093814 TCTTGTCATTCGCTGGTAGGTA 58.906 45.455 0.00 0.00 0.00 3.08
861 6000 2.953466 TGTCATTCGCTGGTAGGTAC 57.047 50.000 0.00 0.00 0.00 3.34
862 6001 2.453521 TGTCATTCGCTGGTAGGTACT 58.546 47.619 0.00 0.00 46.37 2.73
863 6002 2.426024 TGTCATTCGCTGGTAGGTACTC 59.574 50.000 0.00 0.00 41.75 2.59
864 6003 1.674441 TCATTCGCTGGTAGGTACTCG 59.326 52.381 0.00 0.00 41.75 4.18
865 6004 1.404391 CATTCGCTGGTAGGTACTCGT 59.596 52.381 0.00 0.00 41.75 4.18
866 6005 2.401583 TTCGCTGGTAGGTACTCGTA 57.598 50.000 0.00 0.00 41.75 3.43
867 6006 1.945387 TCGCTGGTAGGTACTCGTAG 58.055 55.000 0.00 0.00 41.75 3.51
868 6007 1.482182 TCGCTGGTAGGTACTCGTAGA 59.518 52.381 0.00 0.00 41.75 2.59
887 6026 7.201145 TCGTAGAAGACAAGCCATACTAATTC 58.799 38.462 0.00 0.00 0.00 2.17
903 6042 1.338107 ATTCCCGCATCCGTATCTCA 58.662 50.000 0.00 0.00 0.00 3.27
904 6043 1.338107 TTCCCGCATCCGTATCTCAT 58.662 50.000 0.00 0.00 0.00 2.90
913 6052 4.148348 GCATCCGTATCTCATTCGTTACAC 59.852 45.833 0.00 0.00 0.00 2.90
923 6062 7.915293 TCTCATTCGTTACACCAACAATTAT 57.085 32.000 0.00 0.00 36.92 1.28
926 6065 9.702726 CTCATTCGTTACACCAACAATTATTAG 57.297 33.333 0.00 0.00 36.92 1.73
927 6066 9.438228 TCATTCGTTACACCAACAATTATTAGA 57.562 29.630 0.00 0.00 36.92 2.10
1009 6403 1.134401 GCAAGTGATCGATGGGGAGAA 60.134 52.381 0.54 0.00 0.00 2.87
1221 6615 4.681978 GTCACGGGCTTGGTCGCT 62.682 66.667 0.00 0.00 0.00 4.93
1345 6757 2.364324 ACCAGTATACCACCGCTATGTG 59.636 50.000 0.00 0.00 35.98 3.21
1385 6797 6.000891 TCCGCATACATGAATGAAATAAGC 57.999 37.500 0.00 0.00 0.00 3.09
1402 6814 1.602311 AGCGCCATCCATCTCATTTC 58.398 50.000 2.29 0.00 0.00 2.17
1445 6889 1.589196 GAGGATAACGCGCGCTTCT 60.589 57.895 32.58 19.12 0.00 2.85
1448 6892 1.876714 GATAACGCGCGCTTCTCCA 60.877 57.895 32.58 1.39 0.00 3.86
1450 6894 2.829043 ATAACGCGCGCTTCTCCACA 62.829 55.000 32.58 7.54 0.00 4.17
1533 6979 6.344500 ACATTTTGGTTTTATCTGTGTTGCA 58.656 32.000 0.00 0.00 0.00 4.08
1557 7003 9.846248 GCATTGAGTTCTAATTATGTTCTGTTT 57.154 29.630 0.00 0.00 0.00 2.83
1598 7048 0.610687 GTTGGGTGCTGCTAGAGACT 59.389 55.000 0.00 0.00 0.00 3.24
1635 7085 8.482128 TGAGAGGAAAAATAAATTGTTTGGTGT 58.518 29.630 0.00 0.00 0.00 4.16
1638 7088 8.800370 AGGAAAAATAAATTGTTTGGTGTGTT 57.200 26.923 0.00 0.00 0.00 3.32
1650 7100 4.431416 TTGGTGTGTTCTTATGGTGTCT 57.569 40.909 0.00 0.00 0.00 3.41
1651 7101 4.431416 TGGTGTGTTCTTATGGTGTCTT 57.569 40.909 0.00 0.00 0.00 3.01
1652 7102 4.787551 TGGTGTGTTCTTATGGTGTCTTT 58.212 39.130 0.00 0.00 0.00 2.52
1653 7103 5.931294 TGGTGTGTTCTTATGGTGTCTTTA 58.069 37.500 0.00 0.00 0.00 1.85
1654 7104 5.995282 TGGTGTGTTCTTATGGTGTCTTTAG 59.005 40.000 0.00 0.00 0.00 1.85
1655 7105 5.411669 GGTGTGTTCTTATGGTGTCTTTAGG 59.588 44.000 0.00 0.00 0.00 2.69
1656 7106 5.001232 TGTGTTCTTATGGTGTCTTTAGGC 58.999 41.667 0.00 0.00 0.00 3.93
1657 7107 5.221843 TGTGTTCTTATGGTGTCTTTAGGCT 60.222 40.000 0.00 0.00 0.00 4.58
1658 7108 5.122396 GTGTTCTTATGGTGTCTTTAGGCTG 59.878 44.000 0.00 0.00 0.00 4.85
1659 7109 4.487714 TCTTATGGTGTCTTTAGGCTGG 57.512 45.455 0.00 0.00 0.00 4.85
1660 7110 3.844211 TCTTATGGTGTCTTTAGGCTGGT 59.156 43.478 0.00 0.00 0.00 4.00
1661 7111 4.288626 TCTTATGGTGTCTTTAGGCTGGTT 59.711 41.667 0.00 0.00 0.00 3.67
1662 7112 2.270352 TGGTGTCTTTAGGCTGGTTG 57.730 50.000 0.00 0.00 0.00 3.77
1663 7113 1.493022 TGGTGTCTTTAGGCTGGTTGT 59.507 47.619 0.00 0.00 0.00 3.32
1664 7114 2.706723 TGGTGTCTTTAGGCTGGTTGTA 59.293 45.455 0.00 0.00 0.00 2.41
1665 7115 3.136809 TGGTGTCTTTAGGCTGGTTGTAA 59.863 43.478 0.00 0.00 0.00 2.41
1666 7116 4.202524 TGGTGTCTTTAGGCTGGTTGTAAT 60.203 41.667 0.00 0.00 0.00 1.89
1667 7117 4.156008 GGTGTCTTTAGGCTGGTTGTAATG 59.844 45.833 0.00 0.00 0.00 1.90
1668 7118 4.156008 GTGTCTTTAGGCTGGTTGTAATGG 59.844 45.833 0.00 0.00 0.00 3.16
1669 7119 4.042311 TGTCTTTAGGCTGGTTGTAATGGA 59.958 41.667 0.00 0.00 0.00 3.41
1670 7120 4.636206 GTCTTTAGGCTGGTTGTAATGGAG 59.364 45.833 0.00 0.00 0.00 3.86
1671 7121 4.534500 TCTTTAGGCTGGTTGTAATGGAGA 59.466 41.667 0.00 0.00 0.00 3.71
1672 7122 4.487714 TTAGGCTGGTTGTAATGGAGAG 57.512 45.455 0.00 0.00 0.00 3.20
1673 7123 2.269940 AGGCTGGTTGTAATGGAGAGT 58.730 47.619 0.00 0.00 0.00 3.24
1674 7124 3.450904 AGGCTGGTTGTAATGGAGAGTA 58.549 45.455 0.00 0.00 0.00 2.59
1675 7125 4.040755 AGGCTGGTTGTAATGGAGAGTAT 58.959 43.478 0.00 0.00 0.00 2.12
1676 7126 4.101741 AGGCTGGTTGTAATGGAGAGTATC 59.898 45.833 0.00 0.00 0.00 2.24
1677 7127 4.141711 GGCTGGTTGTAATGGAGAGTATCA 60.142 45.833 0.00 0.00 37.82 2.15
1678 7128 5.455326 GGCTGGTTGTAATGGAGAGTATCAT 60.455 44.000 0.00 0.00 37.82 2.45
1679 7129 6.239600 GGCTGGTTGTAATGGAGAGTATCATA 60.240 42.308 0.00 0.00 37.82 2.15
1680 7130 7.390027 GCTGGTTGTAATGGAGAGTATCATAT 58.610 38.462 0.00 0.00 37.82 1.78
1681 7131 8.531982 GCTGGTTGTAATGGAGAGTATCATATA 58.468 37.037 0.00 0.00 37.82 0.86
1682 7132 9.862371 CTGGTTGTAATGGAGAGTATCATATAC 57.138 37.037 0.00 0.00 37.82 1.47
1683 7133 9.601810 TGGTTGTAATGGAGAGTATCATATACT 57.398 33.333 0.00 0.00 37.82 2.12
1723 7173 9.736414 TGATACTAGTGTATGATACTACCTTCC 57.264 37.037 5.39 0.00 39.29 3.46
1724 7174 9.962809 GATACTAGTGTATGATACTACCTTCCT 57.037 37.037 5.39 0.00 39.29 3.36
1729 7179 7.897864 AGTGTATGATACTACCTTCCTAATGC 58.102 38.462 4.03 0.00 0.00 3.56
1730 7180 7.509318 AGTGTATGATACTACCTTCCTAATGCA 59.491 37.037 4.03 0.00 0.00 3.96
1731 7181 8.314751 GTGTATGATACTACCTTCCTAATGCAT 58.685 37.037 4.03 0.00 0.00 3.96
1732 7182 9.541884 TGTATGATACTACCTTCCTAATGCATA 57.458 33.333 0.00 0.00 0.00 3.14
1734 7184 8.671987 ATGATACTACCTTCCTAATGCATAGT 57.328 34.615 0.00 0.00 0.00 2.12
1735 7185 9.769677 ATGATACTACCTTCCTAATGCATAGTA 57.230 33.333 0.00 0.81 0.00 1.82
1736 7186 9.769677 TGATACTACCTTCCTAATGCATAGTAT 57.230 33.333 11.08 11.08 37.18 2.12
1738 7188 9.769677 ATACTACCTTCCTAATGCATAGTATCA 57.230 33.333 0.00 0.00 31.76 2.15
1739 7189 8.671987 ACTACCTTCCTAATGCATAGTATCAT 57.328 34.615 0.00 0.00 0.00 2.45
1740 7190 9.769677 ACTACCTTCCTAATGCATAGTATCATA 57.230 33.333 0.00 0.00 0.00 2.15
1776 7226 9.398170 CATGTACTACTTTATTTATTGCCATGC 57.602 33.333 0.00 0.00 0.00 4.06
1777 7227 8.512966 TGTACTACTTTATTTATTGCCATGCA 57.487 30.769 0.00 0.00 36.47 3.96
1778 7228 9.130661 TGTACTACTTTATTTATTGCCATGCAT 57.869 29.630 0.00 0.00 38.76 3.96
1779 7229 9.398170 GTACTACTTTATTTATTGCCATGCATG 57.602 33.333 20.19 20.19 38.76 4.06
1780 7230 8.236585 ACTACTTTATTTATTGCCATGCATGA 57.763 30.769 28.31 8.76 38.76 3.07
1781 7231 8.137437 ACTACTTTATTTATTGCCATGCATGAC 58.863 33.333 28.31 17.77 38.76 3.06
1782 7232 6.876155 ACTTTATTTATTGCCATGCATGACA 58.124 32.000 28.31 20.53 38.76 3.58
1783 7233 6.757947 ACTTTATTTATTGCCATGCATGACAC 59.242 34.615 28.31 16.49 38.76 3.67
1784 7234 4.739587 ATTTATTGCCATGCATGACACA 57.260 36.364 28.31 18.81 38.76 3.72
1785 7235 4.532314 TTTATTGCCATGCATGACACAA 57.468 36.364 28.31 25.14 38.76 3.33
1786 7236 4.532314 TTATTGCCATGCATGACACAAA 57.468 36.364 28.31 15.45 38.76 2.83
1787 7237 2.442212 TTGCCATGCATGACACAAAG 57.558 45.000 28.31 10.23 38.76 2.77
1788 7238 1.330234 TGCCATGCATGACACAAAGT 58.670 45.000 28.31 0.00 31.71 2.66
1789 7239 2.512705 TGCCATGCATGACACAAAGTA 58.487 42.857 28.31 5.91 31.71 2.24
1790 7240 2.488937 TGCCATGCATGACACAAAGTAG 59.511 45.455 28.31 8.01 31.71 2.57
1791 7241 2.733227 GCCATGCATGACACAAAGTAGC 60.733 50.000 28.31 14.15 0.00 3.58
1792 7242 2.488937 CCATGCATGACACAAAGTAGCA 59.511 45.455 28.31 0.00 37.13 3.49
1793 7243 3.129813 CCATGCATGACACAAAGTAGCAT 59.870 43.478 28.31 0.00 41.24 3.79
1794 7244 4.336153 CCATGCATGACACAAAGTAGCATA 59.664 41.667 28.31 0.00 39.67 3.14
1795 7245 5.163632 CCATGCATGACACAAAGTAGCATAA 60.164 40.000 28.31 0.00 39.67 1.90
1796 7246 5.295431 TGCATGACACAAAGTAGCATAAC 57.705 39.130 0.00 0.00 30.65 1.89
1797 7247 4.759183 TGCATGACACAAAGTAGCATAACA 59.241 37.500 0.00 0.00 30.65 2.41
1798 7248 5.415389 TGCATGACACAAAGTAGCATAACAT 59.585 36.000 0.00 0.00 30.65 2.71
1799 7249 6.072008 TGCATGACACAAAGTAGCATAACATT 60.072 34.615 0.00 0.00 30.65 2.71
1800 7250 6.808212 GCATGACACAAAGTAGCATAACATTT 59.192 34.615 0.00 0.00 0.00 2.32
1801 7251 7.967854 GCATGACACAAAGTAGCATAACATTTA 59.032 33.333 0.00 0.00 0.00 1.40
1838 7288 5.908590 TCATGATATGATACTCCACCCTCT 58.091 41.667 0.00 0.00 33.59 3.69
1839 7289 5.954752 TCATGATATGATACTCCACCCTCTC 59.045 44.000 0.00 0.00 33.59 3.20
1840 7290 5.607168 TGATATGATACTCCACCCTCTCT 57.393 43.478 0.00 0.00 0.00 3.10
1841 7291 5.970289 TGATATGATACTCCACCCTCTCTT 58.030 41.667 0.00 0.00 0.00 2.85
1842 7292 6.385443 TGATATGATACTCCACCCTCTCTTT 58.615 40.000 0.00 0.00 0.00 2.52
1843 7293 6.495181 TGATATGATACTCCACCCTCTCTTTC 59.505 42.308 0.00 0.00 0.00 2.62
1844 7294 4.338795 TGATACTCCACCCTCTCTTTCT 57.661 45.455 0.00 0.00 0.00 2.52
1845 7295 4.689062 TGATACTCCACCCTCTCTTTCTT 58.311 43.478 0.00 0.00 0.00 2.52
1846 7296 4.712337 TGATACTCCACCCTCTCTTTCTTC 59.288 45.833 0.00 0.00 0.00 2.87
1847 7297 2.977808 ACTCCACCCTCTCTTTCTTCA 58.022 47.619 0.00 0.00 0.00 3.02
1848 7298 3.525862 ACTCCACCCTCTCTTTCTTCAT 58.474 45.455 0.00 0.00 0.00 2.57
1849 7299 3.913163 ACTCCACCCTCTCTTTCTTCATT 59.087 43.478 0.00 0.00 0.00 2.57
1850 7300 4.352298 ACTCCACCCTCTCTTTCTTCATTT 59.648 41.667 0.00 0.00 0.00 2.32
1851 7301 5.548056 ACTCCACCCTCTCTTTCTTCATTTA 59.452 40.000 0.00 0.00 0.00 1.40
1852 7302 6.044404 ACTCCACCCTCTCTTTCTTCATTTAA 59.956 38.462 0.00 0.00 0.00 1.52
1853 7303 7.032598 TCCACCCTCTCTTTCTTCATTTAAT 57.967 36.000 0.00 0.00 0.00 1.40
1854 7304 6.886459 TCCACCCTCTCTTTCTTCATTTAATG 59.114 38.462 0.00 0.00 0.00 1.90
1855 7305 6.405176 CCACCCTCTCTTTCTTCATTTAATGC 60.405 42.308 0.00 0.00 0.00 3.56
1856 7306 6.376581 CACCCTCTCTTTCTTCATTTAATGCT 59.623 38.462 0.00 0.00 0.00 3.79
1857 7307 7.554118 CACCCTCTCTTTCTTCATTTAATGCTA 59.446 37.037 0.00 0.00 0.00 3.49
1858 7308 8.277918 ACCCTCTCTTTCTTCATTTAATGCTAT 58.722 33.333 0.00 0.00 0.00 2.97
1859 7309 8.566260 CCCTCTCTTTCTTCATTTAATGCTATG 58.434 37.037 0.00 0.00 0.00 2.23
1860 7310 9.334947 CCTCTCTTTCTTCATTTAATGCTATGA 57.665 33.333 0.00 0.00 0.00 2.15
1862 7312 9.671279 TCTCTTTCTTCATTTAATGCTATGACA 57.329 29.630 0.00 0.00 30.89 3.58
1863 7313 9.713740 CTCTTTCTTCATTTAATGCTATGACAC 57.286 33.333 0.00 0.00 30.89 3.67
1864 7314 8.677300 TCTTTCTTCATTTAATGCTATGACACC 58.323 33.333 0.00 0.00 30.89 4.16
1865 7315 8.579850 TTTCTTCATTTAATGCTATGACACCT 57.420 30.769 0.00 0.00 30.89 4.00
1866 7316 7.792374 TCTTCATTTAATGCTATGACACCTC 57.208 36.000 0.00 0.00 30.89 3.85
1867 7317 7.337938 TCTTCATTTAATGCTATGACACCTCA 58.662 34.615 0.00 0.00 30.89 3.86
1868 7318 7.994911 TCTTCATTTAATGCTATGACACCTCAT 59.005 33.333 0.00 0.00 40.47 2.90
1869 7319 7.734924 TCATTTAATGCTATGACACCTCATC 57.265 36.000 0.00 0.00 38.21 2.92
1870 7320 7.281841 TCATTTAATGCTATGACACCTCATCA 58.718 34.615 0.00 0.00 38.21 3.07
1871 7321 7.774625 TCATTTAATGCTATGACACCTCATCAA 59.225 33.333 0.00 0.00 38.21 2.57
1872 7322 7.936496 TTTAATGCTATGACACCTCATCAAA 57.064 32.000 0.00 0.00 38.21 2.69
1873 7323 7.936496 TTAATGCTATGACACCTCATCAAAA 57.064 32.000 0.00 0.00 38.21 2.44
1874 7324 8.523915 TTAATGCTATGACACCTCATCAAAAT 57.476 30.769 0.00 0.00 38.21 1.82
1875 7325 7.414222 AATGCTATGACACCTCATCAAAATT 57.586 32.000 0.00 0.00 38.21 1.82
1876 7326 6.198650 TGCTATGACACCTCATCAAAATTG 57.801 37.500 0.00 0.00 38.21 2.32
1877 7327 5.039333 GCTATGACACCTCATCAAAATTGC 58.961 41.667 0.00 0.00 38.21 3.56
1878 7328 3.940209 TGACACCTCATCAAAATTGCC 57.060 42.857 0.00 0.00 0.00 4.52
1879 7329 3.499338 TGACACCTCATCAAAATTGCCT 58.501 40.909 0.00 0.00 0.00 4.75
1880 7330 4.661222 TGACACCTCATCAAAATTGCCTA 58.339 39.130 0.00 0.00 0.00 3.93
1881 7331 4.701651 TGACACCTCATCAAAATTGCCTAG 59.298 41.667 0.00 0.00 0.00 3.02
1882 7332 4.666512 ACACCTCATCAAAATTGCCTAGT 58.333 39.130 0.00 0.00 0.00 2.57
1883 7333 5.079643 ACACCTCATCAAAATTGCCTAGTT 58.920 37.500 0.00 0.00 0.00 2.24
1884 7334 5.047802 ACACCTCATCAAAATTGCCTAGTTG 60.048 40.000 0.00 0.00 0.00 3.16
1885 7335 4.463891 ACCTCATCAAAATTGCCTAGTTGG 59.536 41.667 0.00 0.00 39.35 3.77
1898 7348 3.748083 CCTAGTTGGCATGCATGATACT 58.252 45.455 30.64 26.11 0.00 2.12
1899 7349 4.898320 CCTAGTTGGCATGCATGATACTA 58.102 43.478 30.64 25.87 0.00 1.82
1900 7350 4.934001 CCTAGTTGGCATGCATGATACTAG 59.066 45.833 31.40 31.40 36.03 2.57
1901 7351 3.144506 AGTTGGCATGCATGATACTAGC 58.855 45.455 30.64 12.56 0.00 3.42
1902 7352 3.144506 GTTGGCATGCATGATACTAGCT 58.855 45.455 30.64 0.00 0.00 3.32
1903 7353 4.040829 AGTTGGCATGCATGATACTAGCTA 59.959 41.667 30.64 7.90 0.00 3.32
1904 7354 4.831674 TGGCATGCATGATACTAGCTAT 57.168 40.909 30.64 0.00 0.00 2.97
1905 7355 4.510571 TGGCATGCATGATACTAGCTATG 58.489 43.478 30.64 0.23 0.00 2.23
1906 7356 4.223477 TGGCATGCATGATACTAGCTATGA 59.777 41.667 30.64 0.00 0.00 2.15
1907 7357 5.104652 TGGCATGCATGATACTAGCTATGAT 60.105 40.000 30.64 0.00 0.00 2.45
1908 7358 6.098695 TGGCATGCATGATACTAGCTATGATA 59.901 38.462 30.64 0.00 0.00 2.15
1909 7359 6.423302 GGCATGCATGATACTAGCTATGATAC 59.577 42.308 30.64 5.71 0.00 2.24
1910 7360 7.208777 GCATGCATGATACTAGCTATGATACT 58.791 38.462 30.64 0.00 0.00 2.12
1911 7361 8.355913 GCATGCATGATACTAGCTATGATACTA 58.644 37.037 30.64 0.00 0.00 1.82
1912 7362 9.676195 CATGCATGATACTAGCTATGATACTAC 57.324 37.037 22.59 0.00 0.00 2.73
1913 7363 8.226819 TGCATGATACTAGCTATGATACTACC 57.773 38.462 0.00 0.00 0.00 3.18
1914 7364 7.834181 TGCATGATACTAGCTATGATACTACCA 59.166 37.037 0.00 0.00 0.00 3.25
1915 7365 8.855110 GCATGATACTAGCTATGATACTACCAT 58.145 37.037 0.00 0.00 0.00 3.55
1922 7372 9.111613 ACTAGCTATGATACTACCATTACGATC 57.888 37.037 0.00 0.00 0.00 3.69
1923 7373 7.939784 AGCTATGATACTACCATTACGATCA 57.060 36.000 0.00 0.00 0.00 2.92
1924 7374 7.990917 AGCTATGATACTACCATTACGATCAG 58.009 38.462 0.00 0.00 0.00 2.90
1925 7375 6.693545 GCTATGATACTACCATTACGATCAGC 59.306 42.308 0.00 0.00 0.00 4.26
1926 7376 5.386958 TGATACTACCATTACGATCAGCC 57.613 43.478 0.00 0.00 0.00 4.85
1944 7394 9.003658 CGATCAGCCTTTATATATTTTGGTCTT 57.996 33.333 0.00 0.00 0.00 3.01
1957 7407 6.783708 ATTTTGGTCTTGGTGTTAGTGAAA 57.216 33.333 0.00 0.00 0.00 2.69
1958 7408 6.783708 TTTTGGTCTTGGTGTTAGTGAAAT 57.216 33.333 0.00 0.00 0.00 2.17
1959 7409 6.385649 TTTGGTCTTGGTGTTAGTGAAATC 57.614 37.500 0.00 0.00 0.00 2.17
1960 7410 4.062293 TGGTCTTGGTGTTAGTGAAATCG 58.938 43.478 0.00 0.00 0.00 3.34
1962 7412 3.496884 GTCTTGGTGTTAGTGAAATCGCA 59.503 43.478 0.00 0.00 0.00 5.10
1963 7413 3.745975 TCTTGGTGTTAGTGAAATCGCAG 59.254 43.478 0.00 0.00 0.00 5.18
1964 7414 3.394674 TGGTGTTAGTGAAATCGCAGA 57.605 42.857 0.00 0.00 45.75 4.26
1966 7416 3.244078 TGGTGTTAGTGAAATCGCAGAGT 60.244 43.478 0.00 0.00 43.63 3.24
1967 7417 4.021807 TGGTGTTAGTGAAATCGCAGAGTA 60.022 41.667 0.00 0.00 43.63 2.59
1968 7418 5.109903 GGTGTTAGTGAAATCGCAGAGTAT 58.890 41.667 0.00 0.00 43.63 2.12
1969 7419 5.232414 GGTGTTAGTGAAATCGCAGAGTATC 59.768 44.000 0.00 0.00 43.63 2.24
1970 7420 5.805486 GTGTTAGTGAAATCGCAGAGTATCA 59.195 40.000 0.00 0.00 43.63 2.15
1971 7421 6.477033 GTGTTAGTGAAATCGCAGAGTATCAT 59.523 38.462 0.00 0.00 43.63 2.45
2017 7470 8.702438 CCACACTGAAATCATGAATTTGTAAAC 58.298 33.333 0.00 0.00 37.70 2.01
2049 7502 3.265791 CATGGGTCAGTTCACTAAGCTC 58.734 50.000 0.00 0.00 0.00 4.09
2052 7505 1.903183 GGTCAGTTCACTAAGCTCCCT 59.097 52.381 0.00 0.00 0.00 4.20
2054 7507 1.819288 TCAGTTCACTAAGCTCCCTCG 59.181 52.381 0.00 0.00 0.00 4.63
2064 7517 1.562783 AGCTCCCTCGAACTTAGCTT 58.437 50.000 0.00 0.00 40.52 3.74
2175 7628 8.553459 TTTGAAAAGGTTTGTTAAATCAAGCA 57.447 26.923 0.00 0.00 31.79 3.91
2242 7695 8.693542 AGATTTTGCAAAGAATACAACATAGC 57.306 30.769 12.41 0.00 0.00 2.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 4229 9.751542 AAACTACAAGATACCGAATCAGATAAG 57.248 33.333 0.00 0.00 37.03 1.73
50 4236 7.605410 TTGGAAAACTACAAGATACCGAATC 57.395 36.000 0.00 0.00 34.52 2.52
82 4268 1.146982 GGCATGCCCCCTTTAATCCTA 59.853 52.381 27.24 0.00 0.00 2.94
83 4269 0.105504 GGCATGCCCCCTTTAATCCT 60.106 55.000 27.24 0.00 0.00 3.24
253 4444 7.779798 CCATTTAGGACCATCTTTATTGAGGAA 59.220 37.037 0.00 0.00 41.22 3.36
265 4456 2.887152 GTGGATGCCATTTAGGACCATC 59.113 50.000 0.00 0.00 41.22 3.51
315 4506 7.576236 TCGAAAGAATTTGAAATGACACTCTC 58.424 34.615 0.00 0.00 39.27 3.20
339 4530 6.631238 TGTTTCTCGTCGAAATGTTCAATTTC 59.369 34.615 0.00 1.53 43.08 2.17
344 4535 5.692654 TGTATGTTTCTCGTCGAAATGTTCA 59.307 36.000 0.00 0.00 43.08 3.18
345 4536 6.148270 TGTATGTTTCTCGTCGAAATGTTC 57.852 37.500 0.00 0.00 43.08 3.18
404 4595 2.117423 CCCACCACCAACCCCTTC 59.883 66.667 0.00 0.00 0.00 3.46
411 5413 1.487142 CGTATCATACCCCACCACCAA 59.513 52.381 0.00 0.00 0.00 3.67
449 5452 8.861033 TCATGTCTTTAATTTGCTTATGATGC 57.139 30.769 0.00 0.00 0.00 3.91
490 5493 7.043656 GGTTACTTTGTTTTGCTTGTACACATC 60.044 37.037 0.00 0.00 0.00 3.06
512 5515 6.041523 GGAGGGCTGCATATTTAAAATGGTTA 59.958 38.462 0.50 0.00 0.00 2.85
585 5675 6.636666 TTAGCTTAAACACTTATCGGTTCG 57.363 37.500 0.00 0.00 0.00 3.95
666 5760 3.603158 TCGCATTGTAAACTGAGCCTA 57.397 42.857 0.00 0.00 0.00 3.93
703 5804 2.030946 GCCATAGCTCGCTGTTGTTAAG 59.969 50.000 0.85 0.00 35.50 1.85
707 5808 1.811266 CGCCATAGCTCGCTGTTGT 60.811 57.895 0.85 0.00 36.60 3.32
712 5813 0.319900 CCAATACGCCATAGCTCGCT 60.320 55.000 0.00 0.00 36.60 4.93
724 5825 0.457166 TCGACTCCAACGCCAATACG 60.457 55.000 0.00 0.00 39.50 3.06
726 5827 2.093921 TGATTCGACTCCAACGCCAATA 60.094 45.455 0.00 0.00 0.00 1.90
727 5828 1.338674 TGATTCGACTCCAACGCCAAT 60.339 47.619 0.00 0.00 0.00 3.16
728 5829 0.034198 TGATTCGACTCCAACGCCAA 59.966 50.000 0.00 0.00 0.00 4.52
729 5830 0.249120 ATGATTCGACTCCAACGCCA 59.751 50.000 0.00 0.00 0.00 5.69
730 5831 1.859080 GTATGATTCGACTCCAACGCC 59.141 52.381 0.00 0.00 0.00 5.68
732 5833 2.159156 TGGGTATGATTCGACTCCAACG 60.159 50.000 0.00 0.00 0.00 4.10
733 5834 3.536956 TGGGTATGATTCGACTCCAAC 57.463 47.619 0.00 0.00 0.00 3.77
734 5835 4.703897 GATTGGGTATGATTCGACTCCAA 58.296 43.478 0.00 0.00 37.24 3.53
735 5836 3.243737 CGATTGGGTATGATTCGACTCCA 60.244 47.826 0.00 0.00 31.74 3.86
774 5875 7.201875 CCCGGAGTACATATATATACATGTGCA 60.202 40.741 20.03 0.00 39.40 4.57
798 5936 1.789523 TATGGAGCAGACAGGTACCC 58.210 55.000 8.74 0.00 0.00 3.69
812 5950 1.748879 GGCAGCTTGCGGTTATGGA 60.749 57.895 0.00 0.00 46.21 3.41
828 5966 3.669023 CGAATGACAAGAAGAAAGCAGGC 60.669 47.826 0.00 0.00 0.00 4.85
860 5999 4.017808 AGTATGGCTTGTCTTCTACGAGT 58.982 43.478 0.00 0.00 41.19 4.18
861 6000 4.640789 AGTATGGCTTGTCTTCTACGAG 57.359 45.455 0.00 0.00 41.94 4.18
862 6001 6.710597 ATTAGTATGGCTTGTCTTCTACGA 57.289 37.500 0.00 0.00 0.00 3.43
863 6002 6.421202 GGAATTAGTATGGCTTGTCTTCTACG 59.579 42.308 0.00 0.00 0.00 3.51
864 6003 6.706716 GGGAATTAGTATGGCTTGTCTTCTAC 59.293 42.308 0.00 0.00 0.00 2.59
865 6004 6.462487 CGGGAATTAGTATGGCTTGTCTTCTA 60.462 42.308 0.00 0.00 0.00 2.10
866 6005 5.685075 CGGGAATTAGTATGGCTTGTCTTCT 60.685 44.000 0.00 0.00 0.00 2.85
867 6006 4.511826 CGGGAATTAGTATGGCTTGTCTTC 59.488 45.833 0.00 0.00 0.00 2.87
868 6007 4.451900 CGGGAATTAGTATGGCTTGTCTT 58.548 43.478 0.00 0.00 0.00 3.01
887 6026 1.714794 GAATGAGATACGGATGCGGG 58.285 55.000 12.44 0.00 0.00 6.13
903 6042 9.444600 ACTCTAATAATTGTTGGTGTAACGAAT 57.555 29.630 4.59 0.00 42.34 3.34
904 6043 8.836268 ACTCTAATAATTGTTGGTGTAACGAA 57.164 30.769 4.59 0.00 42.34 3.85
950 6328 3.873952 GCTGCAAAATACCAACCAACAAA 59.126 39.130 0.00 0.00 0.00 2.83
1209 6603 2.435059 GTCTGAGCGACCAAGCCC 60.435 66.667 0.00 0.00 36.62 5.19
1276 6686 3.572539 ACGCAGGCACACAACACG 61.573 61.111 0.00 0.00 0.00 4.49
1345 6757 3.181507 TGCGGATCACGTAGTACAGTAAC 60.182 47.826 0.38 0.00 41.61 2.50
1385 6797 2.842457 TGAGAAATGAGATGGATGGCG 58.158 47.619 0.00 0.00 0.00 5.69
1424 6868 0.101759 AAGCGCGCGTTATCCTCTAA 59.898 50.000 32.35 0.00 0.00 2.10
1445 6889 4.006989 CCATAAATGAAGAACGGTGTGGA 58.993 43.478 0.00 0.00 0.00 4.02
1448 6892 4.295141 TCCCATAAATGAAGAACGGTGT 57.705 40.909 0.00 0.00 0.00 4.16
1450 6894 5.261216 ACAATCCCATAAATGAAGAACGGT 58.739 37.500 0.00 0.00 0.00 4.83
1569 7019 2.731968 GCAGCACCCAACATGAAATACG 60.732 50.000 0.00 0.00 0.00 3.06
1635 7085 5.245531 CAGCCTAAAGACACCATAAGAACA 58.754 41.667 0.00 0.00 0.00 3.18
1638 7088 3.844211 ACCAGCCTAAAGACACCATAAGA 59.156 43.478 0.00 0.00 0.00 2.10
1650 7100 4.288626 ACTCTCCATTACAACCAGCCTAAA 59.711 41.667 0.00 0.00 0.00 1.85
1651 7101 3.844211 ACTCTCCATTACAACCAGCCTAA 59.156 43.478 0.00 0.00 0.00 2.69
1652 7102 3.450904 ACTCTCCATTACAACCAGCCTA 58.549 45.455 0.00 0.00 0.00 3.93
1653 7103 2.269940 ACTCTCCATTACAACCAGCCT 58.730 47.619 0.00 0.00 0.00 4.58
1654 7104 2.789409 ACTCTCCATTACAACCAGCC 57.211 50.000 0.00 0.00 0.00 4.85
1655 7105 5.023533 TGATACTCTCCATTACAACCAGC 57.976 43.478 0.00 0.00 0.00 4.85
1656 7106 9.862371 GTATATGATACTCTCCATTACAACCAG 57.138 37.037 0.00 0.00 0.00 4.00
1657 7107 9.601810 AGTATATGATACTCTCCATTACAACCA 57.398 33.333 0.00 0.00 0.00 3.67
1697 7147 9.736414 GGAAGGTAGTATCATACACTAGTATCA 57.264 37.037 0.00 0.00 38.88 2.15
1698 7148 9.962809 AGGAAGGTAGTATCATACACTAGTATC 57.037 37.037 0.00 0.00 38.88 2.24
1703 7153 9.021807 GCATTAGGAAGGTAGTATCATACACTA 57.978 37.037 0.00 0.00 0.00 2.74
1704 7154 7.509318 TGCATTAGGAAGGTAGTATCATACACT 59.491 37.037 0.00 0.00 0.00 3.55
1705 7155 7.667557 TGCATTAGGAAGGTAGTATCATACAC 58.332 38.462 0.00 0.00 0.00 2.90
1706 7156 7.849322 TGCATTAGGAAGGTAGTATCATACA 57.151 36.000 0.00 0.00 0.00 2.29
1708 7158 9.769677 ACTATGCATTAGGAAGGTAGTATCATA 57.230 33.333 3.54 0.00 31.68 2.15
1709 7159 8.671987 ACTATGCATTAGGAAGGTAGTATCAT 57.328 34.615 3.54 0.00 31.68 2.45
1710 7160 9.769677 ATACTATGCATTAGGAAGGTAGTATCA 57.230 33.333 3.54 0.00 31.70 2.15
1712 7162 9.769677 TGATACTATGCATTAGGAAGGTAGTAT 57.230 33.333 3.54 8.56 36.89 2.12
1713 7163 9.769677 ATGATACTATGCATTAGGAAGGTAGTA 57.230 33.333 3.54 3.44 31.68 1.82
1714 7164 8.671987 ATGATACTATGCATTAGGAAGGTAGT 57.328 34.615 3.54 0.88 31.68 2.73
1750 7200 9.398170 GCATGGCAATAAATAAAGTAGTACATG 57.602 33.333 2.52 0.00 34.30 3.21
1751 7201 9.130661 TGCATGGCAATAAATAAAGTAGTACAT 57.869 29.630 2.52 0.00 34.76 2.29
1752 7202 8.512966 TGCATGGCAATAAATAAAGTAGTACA 57.487 30.769 2.52 0.00 34.76 2.90
1753 7203 9.398170 CATGCATGGCAATAAATAAAGTAGTAC 57.602 33.333 19.40 0.00 43.62 2.73
1754 7204 9.348476 TCATGCATGGCAATAAATAAAGTAGTA 57.652 29.630 25.97 0.00 43.62 1.82
1755 7205 8.137437 GTCATGCATGGCAATAAATAAAGTAGT 58.863 33.333 26.04 0.00 43.62 2.73
1756 7206 8.136800 TGTCATGCATGGCAATAAATAAAGTAG 58.863 33.333 30.82 0.00 43.62 2.57
1757 7207 7.920151 GTGTCATGCATGGCAATAAATAAAGTA 59.080 33.333 34.01 5.25 44.94 2.24
1758 7208 6.757947 GTGTCATGCATGGCAATAAATAAAGT 59.242 34.615 34.01 0.00 44.94 2.66
1759 7209 6.757478 TGTGTCATGCATGGCAATAAATAAAG 59.243 34.615 34.01 0.00 44.94 1.85
1760 7210 6.637657 TGTGTCATGCATGGCAATAAATAAA 58.362 32.000 34.01 6.82 44.94 1.40
1761 7211 6.218108 TGTGTCATGCATGGCAATAAATAA 57.782 33.333 34.01 7.61 44.94 1.40
1762 7212 5.848833 TGTGTCATGCATGGCAATAAATA 57.151 34.783 34.01 14.13 44.94 1.40
1763 7213 4.739587 TGTGTCATGCATGGCAATAAAT 57.260 36.364 34.01 0.00 44.94 1.40
1764 7214 4.532314 TTGTGTCATGCATGGCAATAAA 57.468 36.364 34.01 24.20 44.94 1.40
1765 7215 4.021280 ACTTTGTGTCATGCATGGCAATAA 60.021 37.500 34.01 26.82 44.94 1.40
1766 7216 3.510753 ACTTTGTGTCATGCATGGCAATA 59.489 39.130 34.01 22.99 44.94 1.90
1767 7217 2.300723 ACTTTGTGTCATGCATGGCAAT 59.699 40.909 34.01 15.19 44.94 3.56
1768 7218 1.687660 ACTTTGTGTCATGCATGGCAA 59.312 42.857 34.01 25.74 44.94 4.52
1769 7219 1.330234 ACTTTGTGTCATGCATGGCA 58.670 45.000 29.45 29.45 44.86 4.92
1770 7220 2.733227 GCTACTTTGTGTCATGCATGGC 60.733 50.000 24.40 24.40 0.00 4.40
1771 7221 2.488937 TGCTACTTTGTGTCATGCATGG 59.511 45.455 25.97 10.76 0.00 3.66
1772 7222 3.835378 TGCTACTTTGTGTCATGCATG 57.165 42.857 21.07 21.07 0.00 4.06
1773 7223 5.415389 TGTTATGCTACTTTGTGTCATGCAT 59.585 36.000 0.00 0.00 40.50 3.96
1774 7224 4.759183 TGTTATGCTACTTTGTGTCATGCA 59.241 37.500 0.00 0.00 35.34 3.96
1775 7225 5.295431 TGTTATGCTACTTTGTGTCATGC 57.705 39.130 0.00 0.00 0.00 4.06
1815 7265 5.908590 AGAGGGTGGAGTATCATATCATGA 58.091 41.667 0.00 0.00 44.55 3.07
1816 7266 5.957168 AGAGAGGGTGGAGTATCATATCATG 59.043 44.000 0.00 0.00 36.25 3.07
1817 7267 6.164425 AGAGAGGGTGGAGTATCATATCAT 57.836 41.667 0.00 0.00 36.25 2.45
1818 7268 5.607168 AGAGAGGGTGGAGTATCATATCA 57.393 43.478 0.00 0.00 36.25 2.15
1819 7269 6.723977 AGAAAGAGAGGGTGGAGTATCATATC 59.276 42.308 0.00 0.00 36.25 1.63
1820 7270 6.629156 AGAAAGAGAGGGTGGAGTATCATAT 58.371 40.000 0.00 0.00 36.25 1.78
1821 7271 6.031964 AGAAAGAGAGGGTGGAGTATCATA 57.968 41.667 0.00 0.00 36.25 2.15
1822 7272 4.889780 AGAAAGAGAGGGTGGAGTATCAT 58.110 43.478 0.00 0.00 36.25 2.45
1823 7273 4.338795 AGAAAGAGAGGGTGGAGTATCA 57.661 45.455 0.00 0.00 36.25 2.15
1824 7274 4.712337 TGAAGAAAGAGAGGGTGGAGTATC 59.288 45.833 0.00 0.00 0.00 2.24
1825 7275 4.689062 TGAAGAAAGAGAGGGTGGAGTAT 58.311 43.478 0.00 0.00 0.00 2.12
1826 7276 4.127918 TGAAGAAAGAGAGGGTGGAGTA 57.872 45.455 0.00 0.00 0.00 2.59
1827 7277 2.977808 TGAAGAAAGAGAGGGTGGAGT 58.022 47.619 0.00 0.00 0.00 3.85
1828 7278 4.566426 AATGAAGAAAGAGAGGGTGGAG 57.434 45.455 0.00 0.00 0.00 3.86
1829 7279 6.448369 TTAAATGAAGAAAGAGAGGGTGGA 57.552 37.500 0.00 0.00 0.00 4.02
1830 7280 6.405176 GCATTAAATGAAGAAAGAGAGGGTGG 60.405 42.308 0.00 0.00 0.00 4.61
1831 7281 6.376581 AGCATTAAATGAAGAAAGAGAGGGTG 59.623 38.462 0.00 0.00 0.00 4.61
1832 7282 6.488715 AGCATTAAATGAAGAAAGAGAGGGT 58.511 36.000 0.00 0.00 0.00 4.34
1833 7283 8.566260 CATAGCATTAAATGAAGAAAGAGAGGG 58.434 37.037 0.00 0.00 0.00 4.30
1834 7284 9.334947 TCATAGCATTAAATGAAGAAAGAGAGG 57.665 33.333 0.00 0.00 0.00 3.69
1836 7286 9.671279 TGTCATAGCATTAAATGAAGAAAGAGA 57.329 29.630 0.00 0.00 34.06 3.10
1837 7287 9.713740 GTGTCATAGCATTAAATGAAGAAAGAG 57.286 33.333 0.00 0.00 34.06 2.85
1838 7288 8.677300 GGTGTCATAGCATTAAATGAAGAAAGA 58.323 33.333 0.00 0.00 34.06 2.52
1839 7289 8.680903 AGGTGTCATAGCATTAAATGAAGAAAG 58.319 33.333 0.00 0.00 34.06 2.62
1840 7290 8.579850 AGGTGTCATAGCATTAAATGAAGAAA 57.420 30.769 0.00 0.00 34.06 2.52
1841 7291 7.828717 TGAGGTGTCATAGCATTAAATGAAGAA 59.171 33.333 0.00 0.00 34.06 2.52
1842 7292 7.337938 TGAGGTGTCATAGCATTAAATGAAGA 58.662 34.615 0.00 0.00 34.06 2.87
1843 7293 7.558161 TGAGGTGTCATAGCATTAAATGAAG 57.442 36.000 0.00 0.00 34.06 3.02
1844 7294 7.774625 TGATGAGGTGTCATAGCATTAAATGAA 59.225 33.333 0.00 0.00 43.92 2.57
1845 7295 7.281841 TGATGAGGTGTCATAGCATTAAATGA 58.718 34.615 0.00 0.00 43.92 2.57
1846 7296 7.500720 TGATGAGGTGTCATAGCATTAAATG 57.499 36.000 0.00 0.00 43.92 2.32
1847 7297 8.523915 TTTGATGAGGTGTCATAGCATTAAAT 57.476 30.769 0.00 0.00 43.92 1.40
1848 7298 7.936496 TTTGATGAGGTGTCATAGCATTAAA 57.064 32.000 0.00 0.00 43.92 1.52
1849 7299 7.936496 TTTTGATGAGGTGTCATAGCATTAA 57.064 32.000 0.00 0.00 43.92 1.40
1850 7300 8.407832 CAATTTTGATGAGGTGTCATAGCATTA 58.592 33.333 0.00 0.00 43.92 1.90
1851 7301 7.262772 CAATTTTGATGAGGTGTCATAGCATT 58.737 34.615 0.00 0.00 43.92 3.56
1852 7302 6.682113 GCAATTTTGATGAGGTGTCATAGCAT 60.682 38.462 0.00 0.00 43.92 3.79
1853 7303 5.393352 GCAATTTTGATGAGGTGTCATAGCA 60.393 40.000 0.00 0.00 43.92 3.49
1854 7304 5.039333 GCAATTTTGATGAGGTGTCATAGC 58.961 41.667 0.00 0.00 43.92 2.97
1855 7305 5.359009 AGGCAATTTTGATGAGGTGTCATAG 59.641 40.000 0.00 0.00 43.92 2.23
1856 7306 5.263599 AGGCAATTTTGATGAGGTGTCATA 58.736 37.500 0.00 0.00 43.92 2.15
1857 7307 4.091549 AGGCAATTTTGATGAGGTGTCAT 58.908 39.130 0.00 0.00 46.75 3.06
1858 7308 3.499338 AGGCAATTTTGATGAGGTGTCA 58.501 40.909 0.00 0.00 37.02 3.58
1859 7309 4.702131 ACTAGGCAATTTTGATGAGGTGTC 59.298 41.667 0.00 0.00 0.00 3.67
1860 7310 4.666512 ACTAGGCAATTTTGATGAGGTGT 58.333 39.130 0.00 0.00 0.00 4.16
1861 7311 5.404946 CAACTAGGCAATTTTGATGAGGTG 58.595 41.667 0.00 0.00 0.00 4.00
1862 7312 4.463891 CCAACTAGGCAATTTTGATGAGGT 59.536 41.667 0.00 0.00 0.00 3.85
1863 7313 5.002464 CCAACTAGGCAATTTTGATGAGG 57.998 43.478 0.00 0.00 0.00 3.86
1877 7327 3.748083 AGTATCATGCATGCCAACTAGG 58.252 45.455 22.25 0.00 41.84 3.02
1878 7328 4.391216 GCTAGTATCATGCATGCCAACTAG 59.609 45.833 32.38 32.38 37.27 2.57
1879 7329 4.040829 AGCTAGTATCATGCATGCCAACTA 59.959 41.667 22.25 22.70 0.00 2.24
1880 7330 3.144506 GCTAGTATCATGCATGCCAACT 58.855 45.455 22.25 22.78 0.00 3.16
1881 7331 3.144506 AGCTAGTATCATGCATGCCAAC 58.855 45.455 22.25 17.59 0.00 3.77
1882 7332 3.497103 AGCTAGTATCATGCATGCCAA 57.503 42.857 22.25 5.34 0.00 4.52
1883 7333 4.223477 TCATAGCTAGTATCATGCATGCCA 59.777 41.667 22.25 8.84 0.00 4.92
1884 7334 4.763073 TCATAGCTAGTATCATGCATGCC 58.237 43.478 22.25 11.72 0.00 4.40
1885 7335 7.208777 AGTATCATAGCTAGTATCATGCATGC 58.791 38.462 22.25 11.82 0.00 4.06
1886 7336 9.676195 GTAGTATCATAGCTAGTATCATGCATG 57.324 37.037 21.07 21.07 0.00 4.06
1887 7337 8.855110 GGTAGTATCATAGCTAGTATCATGCAT 58.145 37.037 0.00 0.00 0.00 3.96
1888 7338 7.834181 TGGTAGTATCATAGCTAGTATCATGCA 59.166 37.037 0.00 0.00 0.00 3.96
1889 7339 8.226819 TGGTAGTATCATAGCTAGTATCATGC 57.773 38.462 0.00 0.00 0.00 4.06
1896 7346 9.111613 GATCGTAATGGTAGTATCATAGCTAGT 57.888 37.037 0.00 0.00 0.00 2.57
1897 7347 9.110502 TGATCGTAATGGTAGTATCATAGCTAG 57.889 37.037 0.00 0.00 0.00 3.42
1898 7348 9.110502 CTGATCGTAATGGTAGTATCATAGCTA 57.889 37.037 0.00 0.00 0.00 3.32
1899 7349 7.415765 GCTGATCGTAATGGTAGTATCATAGCT 60.416 40.741 0.00 0.00 0.00 3.32
1900 7350 6.693545 GCTGATCGTAATGGTAGTATCATAGC 59.306 42.308 0.00 0.00 0.00 2.97
1901 7351 7.067615 AGGCTGATCGTAATGGTAGTATCATAG 59.932 40.741 0.00 0.00 0.00 2.23
1902 7352 6.890268 AGGCTGATCGTAATGGTAGTATCATA 59.110 38.462 0.00 0.00 0.00 2.15
1903 7353 5.717178 AGGCTGATCGTAATGGTAGTATCAT 59.283 40.000 0.00 0.00 0.00 2.45
1904 7354 5.077564 AGGCTGATCGTAATGGTAGTATCA 58.922 41.667 0.00 0.00 0.00 2.15
1905 7355 5.646577 AGGCTGATCGTAATGGTAGTATC 57.353 43.478 0.00 0.00 0.00 2.24
1906 7356 6.420913 AAAGGCTGATCGTAATGGTAGTAT 57.579 37.500 0.00 0.00 0.00 2.12
1907 7357 5.864418 AAAGGCTGATCGTAATGGTAGTA 57.136 39.130 0.00 0.00 0.00 1.82
1908 7358 4.755266 AAAGGCTGATCGTAATGGTAGT 57.245 40.909 0.00 0.00 0.00 2.73
1911 7361 9.959721 AAATATATAAAGGCTGATCGTAATGGT 57.040 29.630 0.00 0.00 0.00 3.55
1915 7365 9.787435 ACCAAAATATATAAAGGCTGATCGTAA 57.213 29.630 0.00 0.00 0.00 3.18
1916 7366 9.431887 GACCAAAATATATAAAGGCTGATCGTA 57.568 33.333 0.00 0.00 0.00 3.43
1917 7367 8.157476 AGACCAAAATATATAAAGGCTGATCGT 58.843 33.333 0.00 0.00 0.00 3.73
1918 7368 8.553459 AGACCAAAATATATAAAGGCTGATCG 57.447 34.615 0.00 0.00 0.00 3.69
1920 7370 9.082313 CCAAGACCAAAATATATAAAGGCTGAT 57.918 33.333 0.00 0.00 0.00 2.90
1921 7371 8.058847 ACCAAGACCAAAATATATAAAGGCTGA 58.941 33.333 0.00 0.00 0.00 4.26
1922 7372 8.137437 CACCAAGACCAAAATATATAAAGGCTG 58.863 37.037 0.00 0.00 0.00 4.85
1923 7373 7.839200 ACACCAAGACCAAAATATATAAAGGCT 59.161 33.333 0.00 0.00 0.00 4.58
1924 7374 8.007405 ACACCAAGACCAAAATATATAAAGGC 57.993 34.615 0.00 0.00 0.00 4.35
1938 7388 4.062293 CGATTTCACTAACACCAAGACCA 58.938 43.478 0.00 0.00 0.00 4.02
1944 7394 3.244078 ACTCTGCGATTTCACTAACACCA 60.244 43.478 0.00 0.00 0.00 4.17
1954 7404 3.059325 GTGGCATGATACTCTGCGATTTC 60.059 47.826 0.00 0.00 39.30 2.17
1957 7407 1.690893 AGTGGCATGATACTCTGCGAT 59.309 47.619 0.00 0.00 39.30 4.58
1958 7408 1.114627 AGTGGCATGATACTCTGCGA 58.885 50.000 0.00 0.00 39.30 5.10
1959 7409 2.608998 CCTAGTGGCATGATACTCTGCG 60.609 54.545 0.00 0.00 39.30 5.18
1960 7410 2.630098 TCCTAGTGGCATGATACTCTGC 59.370 50.000 0.00 0.00 37.66 4.26
1962 7412 2.896685 GCTCCTAGTGGCATGATACTCT 59.103 50.000 0.00 0.00 0.00 3.24
1963 7413 2.896685 AGCTCCTAGTGGCATGATACTC 59.103 50.000 0.00 0.00 0.00 2.59
1964 7414 2.896685 GAGCTCCTAGTGGCATGATACT 59.103 50.000 0.87 1.87 0.00 2.12
1966 7416 2.158249 AGGAGCTCCTAGTGGCATGATA 60.158 50.000 34.40 0.00 46.48 2.15
1967 7417 1.055040 GGAGCTCCTAGTGGCATGAT 58.945 55.000 26.25 0.00 0.00 2.45
1968 7418 0.031716 AGGAGCTCCTAGTGGCATGA 60.032 55.000 34.40 0.00 46.48 3.07
1969 7419 1.709578 TAGGAGCTCCTAGTGGCATG 58.290 55.000 34.33 0.00 46.48 4.06
2017 7470 5.415389 TGAACTGACCCATGTGAATGTTATG 59.585 40.000 0.00 0.00 0.00 1.90
2049 7502 2.347731 GAACCAAGCTAAGTTCGAGGG 58.652 52.381 11.71 0.00 33.65 4.30
2052 7505 3.070446 TCAAGGAACCAAGCTAAGTTCGA 59.930 43.478 17.79 10.12 42.67 3.71
2054 7507 4.396478 GGATCAAGGAACCAAGCTAAGTTC 59.604 45.833 16.70 16.70 41.34 3.01
2064 7517 2.501723 GAGCTAGTGGATCAAGGAACCA 59.498 50.000 0.00 0.00 32.11 3.67
2132 7585 7.601705 TTTCAAAAGAAAATGATCCCTGACT 57.398 32.000 0.00 0.00 0.00 3.41
2138 7591 8.892723 ACAAACCTTTTCAAAAGAAAATGATCC 58.107 29.630 11.73 0.00 34.11 3.36
2152 7605 7.277539 CACTGCTTGATTTAACAAACCTTTTCA 59.722 33.333 0.00 0.00 0.00 2.69
2158 7611 6.039616 TGAACACTGCTTGATTTAACAAACC 58.960 36.000 0.00 0.00 0.00 3.27
2162 7615 5.534278 TCCATGAACACTGCTTGATTTAACA 59.466 36.000 0.00 0.00 0.00 2.41
2217 7670 8.693542 GCTATGTTGTATTCTTTGCAAAATCT 57.306 30.769 13.84 3.02 31.21 2.40


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

AutoCloner maintained by Alex Coulton.