Multiple sequence alignment - TraesCS5D01G360100

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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 TraesCS5D01G360100 chr5D 100.000 4453 0 0 1 4453 439744194 439748646 0.000000e+00 8224.0
1 TraesCS5D01G360100 chr5D 95.353 624 11 2 783 1388 440067877 440068500 0.000000e+00 976.0
2 TraesCS5D01G360100 chr5D 94.479 489 24 3 1729 2217 440069424 440069909 0.000000e+00 750.0
3 TraesCS5D01G360100 chr5D 96.933 326 5 2 4132 4453 389415927 389416251 3.920000e-150 542.0
4 TraesCS5D01G360100 chr5D 96.626 326 6 2 4132 4453 20803489 20803165 1.820000e-148 536.0
5 TraesCS5D01G360100 chr5D 98.174 219 4 0 565 783 439739860 439740078 2.510000e-102 383.0
6 TraesCS5D01G360100 chr5D 76.686 682 121 25 1244 1894 440116557 440117231 1.190000e-90 344.0
7 TraesCS5D01G360100 chr5A 90.997 2277 121 32 783 2991 555638230 555640490 0.000000e+00 2992.0
8 TraesCS5D01G360100 chr5A 85.877 439 62 0 1 439 437351687 437352125 6.740000e-128 468.0
9 TraesCS5D01G360100 chr5A 80.000 165 23 10 592 752 437345416 437345574 3.640000e-21 113.0
10 TraesCS5D01G360100 chr5A 79.070 172 25 11 585 752 437352164 437352328 1.690000e-19 108.0
11 TraesCS5D01G360100 chr5B 89.981 2136 144 35 783 2882 534824509 534826610 0.000000e+00 2695.0
12 TraesCS5D01G360100 chr5B 92.468 1779 101 16 783 2545 534992655 534994416 0.000000e+00 2512.0
13 TraesCS5D01G360100 chr5B 92.539 697 44 3 1187 1881 535004799 535005489 0.000000e+00 992.0
14 TraesCS5D01G360100 chr5B 88.388 732 31 5 862 1590 534679383 534680063 0.000000e+00 832.0
15 TraesCS5D01G360100 chr5B 91.699 518 33 7 783 1298 534604647 534605156 0.000000e+00 710.0
16 TraesCS5D01G360100 chr5B 91.154 520 34 7 783 1298 534644034 534644545 0.000000e+00 695.0
17 TraesCS5D01G360100 chr5B 86.530 438 29 13 783 1191 535001641 535002077 5.250000e-124 455.0
18 TraesCS5D01G360100 chr5B 85.366 451 43 16 2548 2991 534994513 534994947 3.160000e-121 446.0
19 TraesCS5D01G360100 chr5B 91.080 213 17 2 3439 3650 534826741 534826952 2.030000e-73 287.0
20 TraesCS5D01G360100 chr5B 90.857 175 11 2 2375 2546 535021926 535022098 3.460000e-56 230.0
21 TraesCS5D01G360100 chr5B 92.857 140 9 1 2655 2794 535022133 535022271 7.550000e-48 202.0
22 TraesCS5D01G360100 chr5B 97.333 75 2 0 2257 2331 535005487 535005561 1.300000e-25 128.0
23 TraesCS5D01G360100 chr5B 88.660 97 10 1 783 878 534679273 534679369 2.810000e-22 117.0
24 TraesCS5D01G360100 chr1D 97.710 786 11 3 1 782 483043740 483044522 0.000000e+00 1345.0
25 TraesCS5D01G360100 chr1D 94.907 589 24 5 3651 4237 114647334 114647918 0.000000e+00 917.0
26 TraesCS5D01G360100 chr1D 96.933 326 5 2 4132 4453 451961045 451961369 3.920000e-150 542.0
27 TraesCS5D01G360100 chr1D 97.895 95 2 0 615 709 483039156 483039250 9.910000e-37 165.0
28 TraesCS5D01G360100 chr1D 92.453 53 1 2 565 617 483028790 483028839 6.180000e-09 73.1
29 TraesCS5D01G360100 chr3D 94.826 831 15 2 3651 4453 533348060 533348890 0.000000e+00 1271.0
30 TraesCS5D01G360100 chr3D 95.254 590 22 5 3651 4237 601997629 601997043 0.000000e+00 929.0
31 TraesCS5D01G360100 chr3D 96.933 326 4 3 4132 4453 108862012 108861689 3.920000e-150 542.0
32 TraesCS5D01G360100 chr3D 96.636 327 5 3 4132 4453 585317096 585317421 5.070000e-149 538.0
33 TraesCS5D01G360100 chr3D 96.626 326 6 2 4132 4453 597724759 597724435 1.820000e-148 536.0
34 TraesCS5D01G360100 chr6D 95.159 599 22 6 3650 4244 375376867 375376272 0.000000e+00 939.0
35 TraesCS5D01G360100 chr6D 94.352 602 16 14 3642 4241 12405415 12406000 0.000000e+00 907.0
36 TraesCS5D01G360100 chr4D 95.254 590 23 4 3650 4237 20524746 20524160 0.000000e+00 929.0
37 TraesCS5D01G360100 chr4D 96.626 326 6 3 4132 4453 489094748 489095072 1.820000e-148 536.0
38 TraesCS5D01G360100 chr7D 94.958 595 23 6 3649 4237 554307336 554306743 0.000000e+00 926.0
39 TraesCS5D01G360100 chr7D 96.636 327 5 3 4132 4453 38580924 38580599 5.070000e-149 538.0
40 TraesCS5D01G360100 chrUn 94.907 589 25 4 3651 4237 345198441 345197856 0.000000e+00 917.0
41 TraesCS5D01G360100 chrUn 96.942 327 5 2 4131 4453 10639863 10639538 1.090000e-150 544.0
42 TraesCS5D01G360100 chr2D 94.631 596 23 9 3650 4241 601690664 601690074 0.000000e+00 915.0
43 TraesCS5D01G360100 chr7A 85.056 803 72 30 1 782 721386244 721387019 0.000000e+00 774.0
44 TraesCS5D01G360100 chr7A 85.068 221 19 9 570 783 721381908 721382121 3.490000e-51 213.0
45 TraesCS5D01G360100 chr3A 85.021 721 61 22 82 783 313507321 313508013 0.000000e+00 689.0
46 TraesCS5D01G360100 chr4A 79.765 766 101 36 4 752 731044346 731043618 1.430000e-139 507.0
47 TraesCS5D01G360100 chr4A 79.070 172 25 11 585 752 731057601 731057437 1.690000e-19 108.0


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 TraesCS5D01G360100 chr5D 439744194 439748646 4452 False 8224.0 8224 100.0000 1 4453 1 chr5D.!!$F3 4452
1 TraesCS5D01G360100 chr5D 440067877 440069909 2032 False 863.0 976 94.9160 783 2217 2 chr5D.!!$F5 1434
2 TraesCS5D01G360100 chr5D 440116557 440117231 674 False 344.0 344 76.6860 1244 1894 1 chr5D.!!$F4 650
3 TraesCS5D01G360100 chr5A 555638230 555640490 2260 False 2992.0 2992 90.9970 783 2991 1 chr5A.!!$F2 2208
4 TraesCS5D01G360100 chr5A 437351687 437352328 641 False 288.0 468 82.4735 1 752 2 chr5A.!!$F3 751
5 TraesCS5D01G360100 chr5B 534824509 534826952 2443 False 1491.0 2695 90.5305 783 3650 2 chr5B.!!$F4 2867
6 TraesCS5D01G360100 chr5B 534992655 534994947 2292 False 1479.0 2512 88.9170 783 2991 2 chr5B.!!$F5 2208
7 TraesCS5D01G360100 chr5B 534604647 534605156 509 False 710.0 710 91.6990 783 1298 1 chr5B.!!$F1 515
8 TraesCS5D01G360100 chr5B 534644034 534644545 511 False 695.0 695 91.1540 783 1298 1 chr5B.!!$F2 515
9 TraesCS5D01G360100 chr5B 535001641 535005561 3920 False 525.0 992 92.1340 783 2331 3 chr5B.!!$F6 1548
10 TraesCS5D01G360100 chr5B 534679273 534680063 790 False 474.5 832 88.5240 783 1590 2 chr5B.!!$F3 807
11 TraesCS5D01G360100 chr1D 483043740 483044522 782 False 1345.0 1345 97.7100 1 782 1 chr1D.!!$F5 781
12 TraesCS5D01G360100 chr1D 114647334 114647918 584 False 917.0 917 94.9070 3651 4237 1 chr1D.!!$F1 586
13 TraesCS5D01G360100 chr3D 533348060 533348890 830 False 1271.0 1271 94.8260 3651 4453 1 chr3D.!!$F1 802
14 TraesCS5D01G360100 chr3D 601997043 601997629 586 True 929.0 929 95.2540 3651 4237 1 chr3D.!!$R3 586
15 TraesCS5D01G360100 chr6D 375376272 375376867 595 True 939.0 939 95.1590 3650 4244 1 chr6D.!!$R1 594
16 TraesCS5D01G360100 chr6D 12405415 12406000 585 False 907.0 907 94.3520 3642 4241 1 chr6D.!!$F1 599
17 TraesCS5D01G360100 chr4D 20524160 20524746 586 True 929.0 929 95.2540 3650 4237 1 chr4D.!!$R1 587
18 TraesCS5D01G360100 chr7D 554306743 554307336 593 True 926.0 926 94.9580 3649 4237 1 chr7D.!!$R2 588
19 TraesCS5D01G360100 chrUn 345197856 345198441 585 True 917.0 917 94.9070 3651 4237 1 chrUn.!!$R2 586
20 TraesCS5D01G360100 chr2D 601690074 601690664 590 True 915.0 915 94.6310 3650 4241 1 chr2D.!!$R1 591
21 TraesCS5D01G360100 chr7A 721386244 721387019 775 False 774.0 774 85.0560 1 782 1 chr7A.!!$F2 781
22 TraesCS5D01G360100 chr3A 313507321 313508013 692 False 689.0 689 85.0210 82 783 1 chr3A.!!$F1 701
23 TraesCS5D01G360100 chr4A 731043618 731044346 728 True 507.0 507 79.7650 4 752 1 chr4A.!!$R1 748

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
422 424 0.750249 GAACAGAGAGGAGGCTAGCC 59.250 60.000 27.19 27.19 0.0 3.93 F
1665 5250 1.228894 CCTGGCGGCCTCCTATAGA 60.229 63.158 21.46 0.00 0.0 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1989 5606 0.537188 CTCCAACTACCGCCACATCT 59.463 55.000 0.00 0.00 0.00 2.90 R
3627 7380 1.259770 ACGTCTTTCGCTCGAAAAACC 59.740 47.619 16.67 7.94 42.61 3.27 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
278 280 4.337060 CTGCCGTCGACGTGGTCA 62.337 66.667 33.49 23.07 37.74 4.02
422 424 0.750249 GAACAGAGAGGAGGCTAGCC 59.250 60.000 27.19 27.19 0.00 3.93
548 551 2.415512 GGTTTGGATCGGAAAGAGAACG 59.584 50.000 0.00 0.00 0.00 3.95
602 622 5.063312 CACACGCACTGTATATTCATTCACA 59.937 40.000 0.00 0.00 0.00 3.58
603 623 5.641636 ACACGCACTGTATATTCATTCACAA 59.358 36.000 0.00 0.00 0.00 3.33
951 1068 3.119637 ACAAAAAGGTCAGAAACACACGG 60.120 43.478 0.00 0.00 0.00 4.94
952 1069 2.702592 AAAGGTCAGAAACACACGGA 57.297 45.000 0.00 0.00 0.00 4.69
955 1074 3.208747 AGGTCAGAAACACACGGAAAT 57.791 42.857 0.00 0.00 0.00 2.17
1665 5250 1.228894 CCTGGCGGCCTCCTATAGA 60.229 63.158 21.46 0.00 0.00 1.98
1672 5257 2.164624 GCGGCCTCCTATAGACACTATG 59.835 54.545 0.00 0.00 0.00 2.23
1917 5534 1.661509 GCCAAAAAGCTGCGTCACC 60.662 57.895 0.00 0.00 0.00 4.02
1989 5606 2.843545 GGCAGGTTTGTCTCCCCA 59.156 61.111 0.00 0.00 0.00 4.96
1992 5609 0.329596 GCAGGTTTGTCTCCCCAGAT 59.670 55.000 0.00 0.00 0.00 2.90
2250 5867 1.450211 CCCCGGAGTGACACTGTTT 59.550 57.895 14.14 0.00 0.00 2.83
2648 6367 6.648310 ACGAATGCACCATAGAATCAATCTAG 59.352 38.462 0.00 0.00 43.75 2.43
2796 6538 4.162888 TCAGAGAAATCCATGAAGCTAGCA 59.837 41.667 18.83 0.00 0.00 3.49
2815 6557 4.739046 GCATGCGCTTTGTATCTTCTAT 57.261 40.909 9.73 0.00 34.30 1.98
2851 6593 5.123979 GTCCTCTATTTTGTGTGGATGTTCC 59.876 44.000 0.00 0.00 36.96 3.62
2862 6604 5.305902 TGTGTGGATGTTCCTTACTGTAAGA 59.694 40.000 25.19 11.17 37.46 2.10
2864 6606 6.535508 GTGTGGATGTTCCTTACTGTAAGATC 59.464 42.308 25.19 18.95 37.46 2.75
2882 6624 5.037383 AGATCATGATGTTCTCAGCACAT 57.963 39.130 14.30 0.00 42.80 3.21
2913 6655 3.826157 TGTACCTTTTTGGATGCCTTCAG 59.174 43.478 0.00 0.00 39.71 3.02
2991 6733 8.299570 ACTTGATCCATGTTATTTTCTTGACAC 58.700 33.333 0.00 0.00 0.00 3.67
2992 6734 8.408043 TTGATCCATGTTATTTTCTTGACACT 57.592 30.769 0.00 0.00 0.00 3.55
2993 6735 8.408043 TGATCCATGTTATTTTCTTGACACTT 57.592 30.769 0.00 0.00 0.00 3.16
2994 6736 8.859090 TGATCCATGTTATTTTCTTGACACTTT 58.141 29.630 0.00 0.00 0.00 2.66
3005 6747 8.810652 TTTTCTTGACACTTTATTAATGGCAC 57.189 30.769 0.00 0.00 28.75 5.01
3006 6748 6.509418 TCTTGACACTTTATTAATGGCACC 57.491 37.500 0.00 0.00 28.75 5.01
3007 6749 6.007076 TCTTGACACTTTATTAATGGCACCA 58.993 36.000 0.00 0.00 28.75 4.17
3008 6750 5.637006 TGACACTTTATTAATGGCACCAC 57.363 39.130 0.00 0.00 0.00 4.16
3009 6751 5.321102 TGACACTTTATTAATGGCACCACT 58.679 37.500 0.00 0.00 0.00 4.00
3010 6752 6.477253 TGACACTTTATTAATGGCACCACTA 58.523 36.000 0.00 0.00 0.00 2.74
3011 6753 7.116075 TGACACTTTATTAATGGCACCACTAT 58.884 34.615 0.00 0.00 0.00 2.12
3012 6754 7.613801 TGACACTTTATTAATGGCACCACTATT 59.386 33.333 0.00 0.00 33.46 1.73
3013 6755 8.361169 ACACTTTATTAATGGCACCACTATTT 57.639 30.769 0.00 0.00 31.07 1.40
3014 6756 8.811994 ACACTTTATTAATGGCACCACTATTTT 58.188 29.630 0.00 0.00 31.07 1.82
3017 6759 9.463443 CTTTATTAATGGCACCACTATTTTAGC 57.537 33.333 0.00 0.00 31.07 3.09
3018 6760 8.526667 TTATTAATGGCACCACTATTTTAGCA 57.473 30.769 0.00 0.00 31.07 3.49
3019 6761 6.842437 TTAATGGCACCACTATTTTAGCAA 57.158 33.333 0.00 0.00 31.07 3.91
3020 6762 4.718940 ATGGCACCACTATTTTAGCAAC 57.281 40.909 0.00 0.00 0.00 4.17
3021 6763 2.823154 TGGCACCACTATTTTAGCAACC 59.177 45.455 0.00 0.00 0.00 3.77
3022 6764 2.823154 GGCACCACTATTTTAGCAACCA 59.177 45.455 0.00 0.00 0.00 3.67
3023 6765 3.447229 GGCACCACTATTTTAGCAACCAT 59.553 43.478 0.00 0.00 0.00 3.55
3024 6766 4.081697 GGCACCACTATTTTAGCAACCATT 60.082 41.667 0.00 0.00 0.00 3.16
3025 6767 5.478407 GCACCACTATTTTAGCAACCATTT 58.522 37.500 0.00 0.00 0.00 2.32
3026 6768 5.931724 GCACCACTATTTTAGCAACCATTTT 59.068 36.000 0.00 0.00 0.00 1.82
3027 6769 6.426633 GCACCACTATTTTAGCAACCATTTTT 59.573 34.615 0.00 0.00 0.00 1.94
3048 6790 5.537300 TTTTTCATTCATTGTCCCGGAAA 57.463 34.783 0.73 0.00 0.00 3.13
3049 6791 5.537300 TTTTCATTCATTGTCCCGGAAAA 57.463 34.783 0.73 0.00 32.31 2.29
3050 6792 5.537300 TTTCATTCATTGTCCCGGAAAAA 57.463 34.783 0.73 0.00 0.00 1.94
3051 6793 4.513198 TCATTCATTGTCCCGGAAAAAC 57.487 40.909 0.73 0.00 0.00 2.43
3052 6794 3.891977 TCATTCATTGTCCCGGAAAAACA 59.108 39.130 0.73 0.00 0.00 2.83
3053 6795 4.342378 TCATTCATTGTCCCGGAAAAACAA 59.658 37.500 0.73 8.59 37.32 2.83
3054 6796 3.719173 TCATTGTCCCGGAAAAACAAC 57.281 42.857 0.73 0.00 35.87 3.32
3055 6797 3.024547 TCATTGTCCCGGAAAAACAACA 58.975 40.909 0.73 0.00 35.87 3.33
3056 6798 3.447586 TCATTGTCCCGGAAAAACAACAA 59.552 39.130 0.73 2.16 35.87 2.83
3057 6799 4.100189 TCATTGTCCCGGAAAAACAACAAT 59.900 37.500 0.73 4.50 37.71 2.71
3058 6800 4.473477 TTGTCCCGGAAAAACAACAATT 57.527 36.364 0.73 0.00 0.00 2.32
3059 6801 4.473477 TGTCCCGGAAAAACAACAATTT 57.527 36.364 0.73 0.00 0.00 1.82
3060 6802 4.833390 TGTCCCGGAAAAACAACAATTTT 58.167 34.783 0.73 0.00 33.13 1.82
3061 6803 5.246307 TGTCCCGGAAAAACAACAATTTTT 58.754 33.333 0.73 0.00 42.94 1.94
3120 6862 9.733219 AAAATTAAACATTTGTGGCATTCTTTG 57.267 25.926 0.00 0.00 0.00 2.77
3121 6863 8.674263 AATTAAACATTTGTGGCATTCTTTGA 57.326 26.923 0.00 0.00 0.00 2.69
3122 6864 8.674263 ATTAAACATTTGTGGCATTCTTTGAA 57.326 26.923 0.00 0.00 0.00 2.69
3123 6865 6.998968 AAACATTTGTGGCATTCTTTGAAA 57.001 29.167 0.00 0.00 0.00 2.69
3124 6866 6.998968 AACATTTGTGGCATTCTTTGAAAA 57.001 29.167 0.00 0.00 0.00 2.29
3125 6867 6.607735 ACATTTGTGGCATTCTTTGAAAAG 57.392 33.333 0.00 0.00 37.36 2.27
3126 6868 5.007921 ACATTTGTGGCATTCTTTGAAAAGC 59.992 36.000 0.00 0.00 35.99 3.51
3127 6869 3.815856 TGTGGCATTCTTTGAAAAGCA 57.184 38.095 0.00 0.00 35.99 3.91
3128 6870 3.456280 TGTGGCATTCTTTGAAAAGCAC 58.544 40.909 0.00 1.75 35.99 4.40
3129 6871 3.132646 TGTGGCATTCTTTGAAAAGCACT 59.867 39.130 0.00 0.00 35.99 4.40
3130 6872 4.340666 TGTGGCATTCTTTGAAAAGCACTA 59.659 37.500 0.00 0.00 35.99 2.74
3131 6873 5.163468 TGTGGCATTCTTTGAAAAGCACTAA 60.163 36.000 0.00 0.00 35.99 2.24
3132 6874 5.928264 GTGGCATTCTTTGAAAAGCACTAAT 59.072 36.000 0.00 0.00 35.99 1.73
3133 6875 6.424812 GTGGCATTCTTTGAAAAGCACTAATT 59.575 34.615 0.00 0.00 35.99 1.40
3134 6876 6.991531 TGGCATTCTTTGAAAAGCACTAATTT 59.008 30.769 0.00 0.00 35.99 1.82
3135 6877 7.498570 TGGCATTCTTTGAAAAGCACTAATTTT 59.501 29.630 0.00 0.00 35.99 1.82
3136 6878 8.344831 GGCATTCTTTGAAAAGCACTAATTTTT 58.655 29.630 0.00 0.00 35.99 1.94
3172 6914 8.782533 ATTGAACTATCTTTGAAAACACGAAC 57.217 30.769 0.00 0.00 0.00 3.95
3173 6915 7.310072 TGAACTATCTTTGAAAACACGAACA 57.690 32.000 0.00 0.00 0.00 3.18
3174 6916 7.925993 TGAACTATCTTTGAAAACACGAACAT 58.074 30.769 0.00 0.00 0.00 2.71
3175 6917 8.402472 TGAACTATCTTTGAAAACACGAACATT 58.598 29.630 0.00 0.00 0.00 2.71
3176 6918 9.233232 GAACTATCTTTGAAAACACGAACATTT 57.767 29.630 0.00 0.00 0.00 2.32
3177 6919 9.581099 AACTATCTTTGAAAACACGAACATTTT 57.419 25.926 0.00 0.00 0.00 1.82
3178 6920 9.581099 ACTATCTTTGAAAACACGAACATTTTT 57.419 25.926 0.00 0.00 0.00 1.94
3180 6922 7.284518 TCTTTGAAAACACGAACATTTTTCC 57.715 32.000 0.00 0.00 38.10 3.13
3181 6923 5.688348 TTGAAAACACGAACATTTTTCCG 57.312 34.783 0.00 0.00 38.10 4.30
3182 6924 4.982999 TGAAAACACGAACATTTTTCCGA 58.017 34.783 0.00 0.00 38.10 4.55
3183 6925 5.583495 TGAAAACACGAACATTTTTCCGAT 58.417 33.333 0.00 0.00 38.10 4.18
3184 6926 6.037098 TGAAAACACGAACATTTTTCCGATT 58.963 32.000 0.00 0.00 38.10 3.34
3185 6927 7.194278 TGAAAACACGAACATTTTTCCGATTA 58.806 30.769 0.00 0.00 38.10 1.75
3186 6928 7.377397 TGAAAACACGAACATTTTTCCGATTAG 59.623 33.333 0.00 0.00 38.10 1.73
3187 6929 4.719040 ACACGAACATTTTTCCGATTAGC 58.281 39.130 0.00 0.00 0.00 3.09
3188 6930 4.095610 CACGAACATTTTTCCGATTAGCC 58.904 43.478 0.00 0.00 0.00 3.93
3189 6931 3.754323 ACGAACATTTTTCCGATTAGCCA 59.246 39.130 0.00 0.00 0.00 4.75
3190 6932 4.142687 ACGAACATTTTTCCGATTAGCCAG 60.143 41.667 0.00 0.00 0.00 4.85
3191 6933 3.782889 ACATTTTTCCGATTAGCCAGC 57.217 42.857 0.00 0.00 0.00 4.85
3192 6934 3.088532 ACATTTTTCCGATTAGCCAGCA 58.911 40.909 0.00 0.00 0.00 4.41
3193 6935 3.701040 ACATTTTTCCGATTAGCCAGCAT 59.299 39.130 0.00 0.00 0.00 3.79
3194 6936 4.887071 ACATTTTTCCGATTAGCCAGCATA 59.113 37.500 0.00 0.00 0.00 3.14
3195 6937 5.536161 ACATTTTTCCGATTAGCCAGCATAT 59.464 36.000 0.00 0.00 0.00 1.78
3196 6938 6.040842 ACATTTTTCCGATTAGCCAGCATATT 59.959 34.615 0.00 0.00 0.00 1.28
3197 6939 6.463995 TTTTTCCGATTAGCCAGCATATTT 57.536 33.333 0.00 0.00 0.00 1.40
3198 6940 6.463995 TTTTCCGATTAGCCAGCATATTTT 57.536 33.333 0.00 0.00 0.00 1.82
3199 6941 5.437289 TTCCGATTAGCCAGCATATTTTG 57.563 39.130 0.00 0.00 0.00 2.44
3200 6942 4.713553 TCCGATTAGCCAGCATATTTTGA 58.286 39.130 0.00 0.00 0.00 2.69
3201 6943 5.129634 TCCGATTAGCCAGCATATTTTGAA 58.870 37.500 0.00 0.00 0.00 2.69
3202 6944 5.592282 TCCGATTAGCCAGCATATTTTGAAA 59.408 36.000 0.00 0.00 0.00 2.69
3203 6945 6.096141 TCCGATTAGCCAGCATATTTTGAAAA 59.904 34.615 0.00 0.00 0.00 2.29
3204 6946 6.198966 CCGATTAGCCAGCATATTTTGAAAAC 59.801 38.462 0.00 0.00 0.00 2.43
3205 6947 6.075415 CGATTAGCCAGCATATTTTGAAAACG 60.075 38.462 0.00 0.00 0.00 3.60
3206 6948 4.782019 AGCCAGCATATTTTGAAAACGA 57.218 36.364 0.00 0.00 0.00 3.85
3207 6949 4.737054 AGCCAGCATATTTTGAAAACGAG 58.263 39.130 0.00 0.00 0.00 4.18
3208 6950 3.859386 GCCAGCATATTTTGAAAACGAGG 59.141 43.478 0.00 0.00 0.00 4.63
3209 6951 4.618227 GCCAGCATATTTTGAAAACGAGGT 60.618 41.667 0.00 0.00 0.00 3.85
3210 6952 5.469479 CCAGCATATTTTGAAAACGAGGTT 58.531 37.500 0.00 0.00 0.00 3.50
3211 6953 6.616947 CCAGCATATTTTGAAAACGAGGTTA 58.383 36.000 0.00 0.00 0.00 2.85
3212 6954 7.257722 CCAGCATATTTTGAAAACGAGGTTAT 58.742 34.615 0.00 0.00 0.00 1.89
3213 6955 7.759433 CCAGCATATTTTGAAAACGAGGTTATT 59.241 33.333 0.00 0.00 0.00 1.40
3214 6956 9.139174 CAGCATATTTTGAAAACGAGGTTATTT 57.861 29.630 0.00 0.00 0.00 1.40
3215 6957 9.705290 AGCATATTTTGAAAACGAGGTTATTTT 57.295 25.926 0.00 0.00 0.00 1.82
3334 7076 8.758633 TTTTGGAGTGTAAACGATTTTTGAAA 57.241 26.923 0.00 0.00 0.00 2.69
3335 7077 7.979115 TTGGAGTGTAAACGATTTTTGAAAG 57.021 32.000 0.00 0.00 0.00 2.62
3337 7079 7.414436 TGGAGTGTAAACGATTTTTGAAAGAG 58.586 34.615 0.00 0.00 0.00 2.85
3338 7080 6.359883 GGAGTGTAAACGATTTTTGAAAGAGC 59.640 38.462 0.00 0.00 0.00 4.09
3339 7081 6.791303 AGTGTAAACGATTTTTGAAAGAGCA 58.209 32.000 0.00 0.00 0.00 4.26
3342 7084 7.839358 GTGTAAACGATTTTTGAAAGAGCAAAC 59.161 33.333 0.00 0.00 37.48 2.93
3344 7086 7.538303 AAACGATTTTTGAAAGAGCAAACAT 57.462 28.000 0.00 0.00 37.48 2.71
3347 7089 6.925165 ACGATTTTTGAAAGAGCAAACATGAT 59.075 30.769 0.00 0.00 37.48 2.45
3348 7090 7.439056 ACGATTTTTGAAAGAGCAAACATGATT 59.561 29.630 0.00 0.00 37.48 2.57
3352 7094 9.761504 TTTTTGAAAGAGCAAACATGATTATGA 57.238 25.926 4.20 0.00 37.48 2.15
3353 7095 9.761504 TTTTGAAAGAGCAAACATGATTATGAA 57.238 25.926 4.20 0.00 37.48 2.57
3354 7096 8.746922 TTGAAAGAGCAAACATGATTATGAAC 57.253 30.769 4.20 0.00 37.73 3.18
3355 7097 8.114331 TGAAAGAGCAAACATGATTATGAACT 57.886 30.769 4.20 0.00 37.73 3.01
3356 7098 8.579006 TGAAAGAGCAAACATGATTATGAACTT 58.421 29.630 4.20 0.21 37.73 2.66
3357 7099 9.415544 GAAAGAGCAAACATGATTATGAACTTT 57.584 29.630 4.20 7.69 37.73 2.66
3358 7100 9.768662 AAAGAGCAAACATGATTATGAACTTTT 57.231 25.926 4.20 0.00 37.73 2.27
3496 7249 2.649816 AGGGTTCCTAGAACTGGCAAAT 59.350 45.455 7.36 0.00 28.47 2.32
3502 7255 5.450818 TCCTAGAACTGGCAAATAACCAT 57.549 39.130 0.00 0.00 36.36 3.55
3514 7267 6.377146 TGGCAAATAACCATCTAGAAAGTTCC 59.623 38.462 12.58 9.01 30.29 3.62
3535 7288 4.080015 TCCTAAAACCGGGATGTGATGAAT 60.080 41.667 6.32 0.00 0.00 2.57
3580 7333 3.081804 CCCATCTTACCTTTGTTCGCTT 58.918 45.455 0.00 0.00 0.00 4.68
3590 7343 1.165907 TTGTTCGCTTGGCTCCTGTG 61.166 55.000 0.00 0.00 0.00 3.66
3591 7344 2.669569 TTCGCTTGGCTCCTGTGC 60.670 61.111 0.00 0.00 0.00 4.57
3598 7351 2.281484 GGCTCCTGTGCGGAACAA 60.281 61.111 0.00 0.00 42.53 2.83
3610 7363 2.829720 TGCGGAACAACTACTACCTGAT 59.170 45.455 0.00 0.00 0.00 2.90
3617 7370 3.832490 ACAACTACTACCTGATGCAGTGA 59.168 43.478 0.00 0.00 0.00 3.41
3622 7375 2.106566 CTACCTGATGCAGTGAGGTCT 58.893 52.381 15.45 0.00 40.87 3.85
3627 7380 4.343526 ACCTGATGCAGTGAGGTCTAATAG 59.656 45.833 8.02 0.00 40.87 1.73
3643 7396 6.455246 GGTCTAATAGGTTTTTCGAGCGAAAG 60.455 42.308 16.25 4.04 43.75 2.62
3644 7397 6.309737 GTCTAATAGGTTTTTCGAGCGAAAGA 59.690 38.462 16.25 10.67 43.75 2.52
3645 7398 4.923264 ATAGGTTTTTCGAGCGAAAGAC 57.077 40.909 22.83 22.83 43.75 3.01
3646 7399 1.525619 AGGTTTTTCGAGCGAAAGACG 59.474 47.619 23.50 0.00 44.81 4.18
3647 7400 1.259770 GGTTTTTCGAGCGAAAGACGT 59.740 47.619 23.50 0.00 44.81 4.34
3945 7698 3.948719 GTCCCACCTCGCCAACCA 61.949 66.667 0.00 0.00 0.00 3.67
4354 8191 0.527817 CCACGGCCTGAATACGACTC 60.528 60.000 0.00 0.00 0.00 3.36
4423 8260 1.237285 CCCACAGGCAAAGAGAACGG 61.237 60.000 0.00 0.00 0.00 4.44
4446 8283 2.956987 CCCGAAAGCCTGCAGTTG 59.043 61.111 13.81 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
278 280 5.478332 TCTCTTCATGTCATACGGCATCTAT 59.522 40.000 0.00 0.00 0.00 1.98
504 506 3.009115 CTTCCGCCTCCCTCCCAA 61.009 66.667 0.00 0.00 0.00 4.12
566 569 0.943673 TGCGTGTGATTGTTCCACTG 59.056 50.000 0.00 0.00 35.66 3.66
808 844 1.273327 CCACTTTTCACTGAATGGGCC 59.727 52.381 0.00 0.00 0.00 5.80
924 1038 5.411977 TGTGTTTCTGACCTTTTTGTAACGA 59.588 36.000 0.00 0.00 0.00 3.85
928 1045 4.095185 CCGTGTGTTTCTGACCTTTTTGTA 59.905 41.667 0.00 0.00 0.00 2.41
952 1069 9.887406 TCGCGTTTTCTTCTTTCTATAAAATTT 57.113 25.926 5.77 0.00 0.00 1.82
955 1074 7.013529 GCTCGCGTTTTCTTCTTTCTATAAAA 58.986 34.615 5.77 0.00 0.00 1.52
1341 4211 1.301401 CCGGAACTTGAAGGCGTCA 60.301 57.895 0.00 0.00 0.00 4.35
1611 5196 2.187163 GGGAGCTTGACGGTAGCC 59.813 66.667 0.00 0.00 39.47 3.93
1917 5534 2.027625 GCCGAAGTGAACCACGGAG 61.028 63.158 16.37 0.00 46.94 4.63
1989 5606 0.537188 CTCCAACTACCGCCACATCT 59.463 55.000 0.00 0.00 0.00 2.90
1992 5609 2.345991 GCTCCAACTACCGCCACA 59.654 61.111 0.00 0.00 0.00 4.17
2044 5661 1.891060 GATCGAATCCATGTCGCCGC 61.891 60.000 0.00 0.00 38.39 6.53
2250 5867 3.985279 CCTTCGTGAAATTAGTCGACACA 59.015 43.478 19.50 3.43 32.14 3.72
2625 6344 7.976135 ACTAGATTGATTCTATGGTGCATTC 57.024 36.000 0.00 0.00 36.35 2.67
2796 6538 7.559590 AAAGAATAGAAGATACAAAGCGCAT 57.440 32.000 11.47 0.00 0.00 4.73
2815 6557 9.436957 CACAAAATAGAGGACTAGCTAAAAGAA 57.563 33.333 0.00 0.00 31.78 2.52
2851 6593 9.247126 CTGAGAACATCATGATCTTACAGTAAG 57.753 37.037 13.53 13.53 37.28 2.34
2862 6604 5.061853 GGTATGTGCTGAGAACATCATGAT 58.938 41.667 9.85 1.18 39.05 2.45
2864 6606 3.562973 GGGTATGTGCTGAGAACATCATG 59.437 47.826 9.85 0.00 39.05 3.07
2882 6624 5.586155 TCCAAAAAGGTACATCAAGGGTA 57.414 39.130 0.00 0.00 39.02 3.69
2991 6733 9.463443 GCTAAAATAGTGGTGCCATTAATAAAG 57.537 33.333 0.00 0.00 0.00 1.85
2992 6734 8.972127 TGCTAAAATAGTGGTGCCATTAATAAA 58.028 29.630 0.00 0.00 0.00 1.40
2993 6735 8.526667 TGCTAAAATAGTGGTGCCATTAATAA 57.473 30.769 0.00 0.00 0.00 1.40
2994 6736 8.410141 GTTGCTAAAATAGTGGTGCCATTAATA 58.590 33.333 0.00 0.00 0.00 0.98
2995 6737 7.264947 GTTGCTAAAATAGTGGTGCCATTAAT 58.735 34.615 0.00 0.00 0.00 1.40
2996 6738 6.350612 GGTTGCTAAAATAGTGGTGCCATTAA 60.351 38.462 0.00 0.00 0.00 1.40
2997 6739 5.126384 GGTTGCTAAAATAGTGGTGCCATTA 59.874 40.000 0.00 0.00 0.00 1.90
2998 6740 4.081697 GGTTGCTAAAATAGTGGTGCCATT 60.082 41.667 0.00 0.00 0.00 3.16
2999 6741 3.447229 GGTTGCTAAAATAGTGGTGCCAT 59.553 43.478 0.00 0.00 0.00 4.40
3000 6742 2.823154 GGTTGCTAAAATAGTGGTGCCA 59.177 45.455 0.00 0.00 0.00 4.92
3001 6743 2.823154 TGGTTGCTAAAATAGTGGTGCC 59.177 45.455 0.00 0.00 0.00 5.01
3002 6744 4.718940 ATGGTTGCTAAAATAGTGGTGC 57.281 40.909 0.00 0.00 0.00 5.01
3003 6745 7.961325 AAAAATGGTTGCTAAAATAGTGGTG 57.039 32.000 0.00 0.00 0.00 4.17
3026 6768 5.537300 TTTCCGGGACAATGAATGAAAAA 57.463 34.783 0.00 0.00 0.00 1.94
3027 6769 5.537300 TTTTCCGGGACAATGAATGAAAA 57.463 34.783 0.00 0.00 0.00 2.29
3028 6770 5.163405 TGTTTTTCCGGGACAATGAATGAAA 60.163 36.000 0.00 0.00 0.00 2.69
3029 6771 4.342378 TGTTTTTCCGGGACAATGAATGAA 59.658 37.500 0.00 0.00 0.00 2.57
3030 6772 3.891977 TGTTTTTCCGGGACAATGAATGA 59.108 39.130 0.00 0.00 0.00 2.57
3031 6773 4.250116 TGTTTTTCCGGGACAATGAATG 57.750 40.909 0.00 0.00 0.00 2.67
3032 6774 4.100189 TGTTGTTTTTCCGGGACAATGAAT 59.900 37.500 0.00 0.00 35.91 2.57
3033 6775 3.447586 TGTTGTTTTTCCGGGACAATGAA 59.552 39.130 0.00 0.00 35.91 2.57
3034 6776 3.024547 TGTTGTTTTTCCGGGACAATGA 58.975 40.909 0.00 0.00 35.91 2.57
3035 6777 3.444703 TGTTGTTTTTCCGGGACAATG 57.555 42.857 0.00 0.00 35.91 2.82
3036 6778 4.681074 ATTGTTGTTTTTCCGGGACAAT 57.319 36.364 0.00 0.00 35.91 2.71
3037 6779 4.473477 AATTGTTGTTTTTCCGGGACAA 57.527 36.364 0.00 5.57 0.00 3.18
3038 6780 4.473477 AAATTGTTGTTTTTCCGGGACA 57.527 36.364 0.00 0.00 0.00 4.02
3039 6781 5.804692 AAAAATTGTTGTTTTTCCGGGAC 57.195 34.783 0.00 0.00 36.79 4.46
3099 6841 8.498054 TTTTCAAAGAATGCCACAAATGTTTA 57.502 26.923 0.00 0.00 0.00 2.01
3105 6847 4.332268 GTGCTTTTCAAAGAATGCCACAAA 59.668 37.500 3.35 0.00 38.28 2.83
3106 6848 3.870419 GTGCTTTTCAAAGAATGCCACAA 59.130 39.130 3.35 0.00 38.28 3.33
3107 6849 3.132646 AGTGCTTTTCAAAGAATGCCACA 59.867 39.130 3.35 0.00 38.28 4.17
3108 6850 3.721035 AGTGCTTTTCAAAGAATGCCAC 58.279 40.909 3.35 1.98 38.28 5.01
3109 6851 5.528043 TTAGTGCTTTTCAAAGAATGCCA 57.472 34.783 3.35 0.00 38.28 4.92
3110 6852 7.425577 AAATTAGTGCTTTTCAAAGAATGCC 57.574 32.000 3.35 0.00 38.28 4.40
3146 6888 9.872757 GTTCGTGTTTTCAAAGATAGTTCAATA 57.127 29.630 0.00 0.00 0.00 1.90
3147 6889 8.402472 TGTTCGTGTTTTCAAAGATAGTTCAAT 58.598 29.630 0.00 0.00 0.00 2.57
3148 6890 7.753659 TGTTCGTGTTTTCAAAGATAGTTCAA 58.246 30.769 0.00 0.00 0.00 2.69
3149 6891 7.310072 TGTTCGTGTTTTCAAAGATAGTTCA 57.690 32.000 0.00 0.00 0.00 3.18
3150 6892 8.782533 AATGTTCGTGTTTTCAAAGATAGTTC 57.217 30.769 0.00 0.00 0.00 3.01
3151 6893 9.581099 AAAATGTTCGTGTTTTCAAAGATAGTT 57.419 25.926 0.00 0.00 0.00 2.24
3152 6894 9.581099 AAAAATGTTCGTGTTTTCAAAGATAGT 57.419 25.926 0.00 0.00 0.00 2.12
3154 6896 9.026074 GGAAAAATGTTCGTGTTTTCAAAGATA 57.974 29.630 9.54 0.00 41.11 1.98
3155 6897 7.253950 CGGAAAAATGTTCGTGTTTTCAAAGAT 60.254 33.333 9.54 0.00 41.11 2.40
3156 6898 6.034044 CGGAAAAATGTTCGTGTTTTCAAAGA 59.966 34.615 9.54 0.00 41.11 2.52
3157 6899 6.034044 TCGGAAAAATGTTCGTGTTTTCAAAG 59.966 34.615 9.54 2.45 41.11 2.77
3158 6900 5.862323 TCGGAAAAATGTTCGTGTTTTCAAA 59.138 32.000 9.54 0.00 41.11 2.69
3159 6901 5.399858 TCGGAAAAATGTTCGTGTTTTCAA 58.600 33.333 9.54 0.00 41.11 2.69
3160 6902 4.982999 TCGGAAAAATGTTCGTGTTTTCA 58.017 34.783 9.54 0.00 41.11 2.69
3161 6903 6.505039 AATCGGAAAAATGTTCGTGTTTTC 57.495 33.333 0.00 0.00 39.46 2.29
3162 6904 6.143278 GCTAATCGGAAAAATGTTCGTGTTTT 59.857 34.615 0.00 0.00 0.00 2.43
3163 6905 5.627780 GCTAATCGGAAAAATGTTCGTGTTT 59.372 36.000 0.00 0.00 0.00 2.83
3164 6906 5.151389 GCTAATCGGAAAAATGTTCGTGTT 58.849 37.500 0.00 0.00 0.00 3.32
3165 6907 4.379082 GGCTAATCGGAAAAATGTTCGTGT 60.379 41.667 0.00 0.00 0.00 4.49
3166 6908 4.095610 GGCTAATCGGAAAAATGTTCGTG 58.904 43.478 0.00 0.00 0.00 4.35
3167 6909 3.754323 TGGCTAATCGGAAAAATGTTCGT 59.246 39.130 0.00 0.00 0.00 3.85
3168 6910 4.342772 CTGGCTAATCGGAAAAATGTTCG 58.657 43.478 0.00 0.00 0.00 3.95
3169 6911 4.105486 GCTGGCTAATCGGAAAAATGTTC 58.895 43.478 0.00 0.00 0.00 3.18
3170 6912 3.509575 TGCTGGCTAATCGGAAAAATGTT 59.490 39.130 0.00 0.00 0.00 2.71
3171 6913 3.088532 TGCTGGCTAATCGGAAAAATGT 58.911 40.909 0.00 0.00 0.00 2.71
3172 6914 3.781079 TGCTGGCTAATCGGAAAAATG 57.219 42.857 0.00 0.00 0.00 2.32
3173 6915 6.655078 AATATGCTGGCTAATCGGAAAAAT 57.345 33.333 0.00 0.00 0.00 1.82
3174 6916 6.463995 AAATATGCTGGCTAATCGGAAAAA 57.536 33.333 0.00 0.00 0.00 1.94
3175 6917 6.096141 TCAAAATATGCTGGCTAATCGGAAAA 59.904 34.615 0.00 0.00 0.00 2.29
3176 6918 5.592282 TCAAAATATGCTGGCTAATCGGAAA 59.408 36.000 0.00 0.00 0.00 3.13
3177 6919 5.129634 TCAAAATATGCTGGCTAATCGGAA 58.870 37.500 0.00 0.00 0.00 4.30
3178 6920 4.713553 TCAAAATATGCTGGCTAATCGGA 58.286 39.130 0.00 0.00 0.00 4.55
3179 6921 5.437289 TTCAAAATATGCTGGCTAATCGG 57.563 39.130 0.00 0.00 0.00 4.18
3180 6922 6.075415 CGTTTTCAAAATATGCTGGCTAATCG 60.075 38.462 0.00 0.00 0.00 3.34
3181 6923 6.972328 TCGTTTTCAAAATATGCTGGCTAATC 59.028 34.615 0.00 0.00 0.00 1.75
3182 6924 6.862209 TCGTTTTCAAAATATGCTGGCTAAT 58.138 32.000 0.00 0.00 0.00 1.73
3183 6925 6.260870 TCGTTTTCAAAATATGCTGGCTAA 57.739 33.333 0.00 0.00 0.00 3.09
3184 6926 5.163663 CCTCGTTTTCAAAATATGCTGGCTA 60.164 40.000 0.00 0.00 0.00 3.93
3185 6927 4.380867 CCTCGTTTTCAAAATATGCTGGCT 60.381 41.667 0.00 0.00 0.00 4.75
3186 6928 3.859386 CCTCGTTTTCAAAATATGCTGGC 59.141 43.478 0.00 0.00 0.00 4.85
3187 6929 5.059404 ACCTCGTTTTCAAAATATGCTGG 57.941 39.130 0.00 0.00 0.00 4.85
3188 6930 8.687824 AATAACCTCGTTTTCAAAATATGCTG 57.312 30.769 0.00 0.00 0.00 4.41
3189 6931 9.705290 AAAATAACCTCGTTTTCAAAATATGCT 57.295 25.926 0.00 0.00 0.00 3.79
3308 7050 8.758633 TTCAAAAATCGTTTACACTCCAAAAA 57.241 26.923 0.00 0.00 0.00 1.94
3309 7051 8.758633 TTTCAAAAATCGTTTACACTCCAAAA 57.241 26.923 0.00 0.00 0.00 2.44
3310 7052 8.244802 TCTTTCAAAAATCGTTTACACTCCAAA 58.755 29.630 0.00 0.00 0.00 3.28
3311 7053 7.763356 TCTTTCAAAAATCGTTTACACTCCAA 58.237 30.769 0.00 0.00 0.00 3.53
3312 7054 7.323049 TCTTTCAAAAATCGTTTACACTCCA 57.677 32.000 0.00 0.00 0.00 3.86
3313 7055 6.359883 GCTCTTTCAAAAATCGTTTACACTCC 59.640 38.462 0.00 0.00 0.00 3.85
3314 7056 6.910433 TGCTCTTTCAAAAATCGTTTACACTC 59.090 34.615 0.00 0.00 0.00 3.51
3315 7057 6.791303 TGCTCTTTCAAAAATCGTTTACACT 58.209 32.000 0.00 0.00 0.00 3.55
3316 7058 7.444558 TTGCTCTTTCAAAAATCGTTTACAC 57.555 32.000 0.00 0.00 0.00 2.90
3317 7059 7.542477 TGTTTGCTCTTTCAAAAATCGTTTACA 59.458 29.630 0.00 0.00 37.65 2.41
3318 7060 7.890763 TGTTTGCTCTTTCAAAAATCGTTTAC 58.109 30.769 0.00 0.00 37.65 2.01
3319 7061 8.538856 CATGTTTGCTCTTTCAAAAATCGTTTA 58.461 29.630 0.00 0.00 37.65 2.01
3320 7062 6.959671 TGTTTGCTCTTTCAAAAATCGTTT 57.040 29.167 0.00 0.00 37.65 3.60
3321 7063 6.756074 TCATGTTTGCTCTTTCAAAAATCGTT 59.244 30.769 0.00 0.00 37.65 3.85
3322 7064 6.272318 TCATGTTTGCTCTTTCAAAAATCGT 58.728 32.000 0.00 0.00 37.65 3.73
3323 7065 6.752335 TCATGTTTGCTCTTTCAAAAATCG 57.248 33.333 0.00 0.00 37.65 3.34
3485 7238 7.121315 ACTTTCTAGATGGTTATTTGCCAGTTC 59.879 37.037 0.00 0.00 39.65 3.01
3496 7249 7.820872 CGGTTTTAGGAACTTTCTAGATGGTTA 59.179 37.037 9.77 0.00 41.75 2.85
3502 7255 4.840115 TCCCGGTTTTAGGAACTTTCTAGA 59.160 41.667 0.00 0.00 41.75 2.43
3514 7267 4.881273 TCATTCATCACATCCCGGTTTTAG 59.119 41.667 0.00 0.00 0.00 1.85
3535 7288 5.364778 CCGGTCCATGTAAGATGTTATTCA 58.635 41.667 0.00 0.00 0.00 2.57
3590 7343 3.187700 CATCAGGTAGTAGTTGTTCCGC 58.812 50.000 0.00 0.00 0.00 5.54
3591 7344 3.187700 GCATCAGGTAGTAGTTGTTCCG 58.812 50.000 0.00 0.00 0.00 4.30
3598 7351 3.027412 CCTCACTGCATCAGGTAGTAGT 58.973 50.000 0.00 0.00 40.80 2.73
3610 7363 5.499004 AAAACCTATTAGACCTCACTGCA 57.501 39.130 0.00 0.00 0.00 4.41
3617 7370 4.159135 TCGCTCGAAAAACCTATTAGACCT 59.841 41.667 0.00 0.00 0.00 3.85
3622 7375 5.061311 CGTCTTTCGCTCGAAAAACCTATTA 59.939 40.000 16.67 0.00 42.61 0.98
3627 7380 1.259770 ACGTCTTTCGCTCGAAAAACC 59.740 47.619 16.67 7.94 42.61 3.27
3643 7396 5.392286 CCAGTTTTCTACTAGTGAGACGTC 58.608 45.833 7.70 7.70 34.56 4.34
3644 7397 4.217983 CCCAGTTTTCTACTAGTGAGACGT 59.782 45.833 5.39 0.00 34.56 4.34
3645 7398 4.734917 CCCAGTTTTCTACTAGTGAGACG 58.265 47.826 5.39 0.00 34.56 4.18
3646 7399 4.221041 AGCCCAGTTTTCTACTAGTGAGAC 59.779 45.833 5.39 4.68 34.56 3.36
3647 7400 4.417437 AGCCCAGTTTTCTACTAGTGAGA 58.583 43.478 5.39 1.93 34.56 3.27
3801 7554 2.079911 ACCAACCGGGACCAAAGGA 61.080 57.895 6.32 0.00 41.15 3.36
3945 7698 2.281761 CTGGTGTGAGCGCCCTTT 60.282 61.111 2.29 0.00 44.42 3.11
4320 8157 3.646715 TGGTGGCCCAGTAGGTGC 61.647 66.667 0.00 0.00 35.17 5.01
4375 8212 1.821332 CCTTCTGCGGGCCTGAATC 60.821 63.158 18.31 0.00 32.01 2.52


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

AutoCloner maintained by Alex Coulton.