Multiple sequence alignment - TraesCS2B01G144500

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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 TraesCS2B01G144500 chr2B 100.000 3295 0 0 1 3295 110522380 110519086 0.000000e+00 6085.0
1 TraesCS2B01G144500 chr2B 97.887 710 15 0 1 710 110535132 110534423 0.000000e+00 1229.0
2 TraesCS2B01G144500 chr2B 90.884 735 42 4 1 710 223404104 223403370 0.000000e+00 963.0
3 TraesCS2B01G144500 chr2B 90.314 733 46 1 3 710 632229736 632230468 0.000000e+00 937.0
4 TraesCS2B01G144500 chr2B 85.253 712 103 2 1 710 523406313 523407024 0.000000e+00 732.0
5 TraesCS2B01G144500 chr2B 87.150 607 71 3 1514 2113 765562088 765562694 0.000000e+00 682.0
6 TraesCS2B01G144500 chr2B 80.657 548 98 8 1570 2110 765487532 765486986 5.090000e-113 418.0
7 TraesCS2B01G144500 chr2B 95.122 123 6 0 3116 3238 676132314 676132436 9.330000e-46 195.0
8 TraesCS2B01G144500 chr2B 80.137 146 28 1 1301 1445 765562099 765562244 1.250000e-19 108.0
9 TraesCS2B01G144500 chr2B 87.640 89 11 0 3207 3295 676132331 676132419 1.620000e-18 104.0
10 TraesCS2B01G144500 chr2D 90.608 2385 158 30 781 3118 73112714 73110349 0.000000e+00 3103.0
11 TraesCS2B01G144500 chr2D 82.896 877 114 25 1518 2378 616626691 616625835 0.000000e+00 756.0
12 TraesCS2B01G144500 chr2D 86.899 603 73 2 1514 2110 623791185 623791787 0.000000e+00 671.0
13 TraesCS2B01G144500 chr2D 83.533 583 85 10 1536 2110 129941611 129942190 4.840000e-148 534.0
14 TraesCS2B01G144500 chr2D 80.474 548 99 7 1570 2110 623497885 623497339 2.370000e-111 412.0
15 TraesCS2B01G144500 chr2D 79.577 142 29 0 1304 1445 623791200 623791341 5.820000e-18 102.0
16 TraesCS2B01G144500 chr2A 89.241 1580 109 19 1126 2658 71684332 71682767 0.000000e+00 1919.0
17 TraesCS2B01G144500 chr2A 86.765 612 73 4 1507 2110 755060837 755061448 0.000000e+00 675.0
18 TraesCS2B01G144500 chr2A 84.072 609 63 10 1518 2110 746840672 746840082 1.030000e-154 556.0
19 TraesCS2B01G144500 chr2A 82.906 585 85 14 1536 2110 137260111 137259532 2.270000e-141 512.0
20 TraesCS2B01G144500 chr2A 81.022 548 96 8 1570 2110 754709675 754709129 2.350000e-116 429.0
21 TraesCS2B01G144500 chr2A 88.327 257 30 0 950 1206 71690100 71689844 3.190000e-80 309.0
22 TraesCS2B01G144500 chr2A 90.286 175 12 2 2855 3029 71672488 71672319 1.190000e-54 224.0
23 TraesCS2B01G144500 chr2A 88.108 185 20 2 708 890 71690491 71690307 5.540000e-53 219.0
24 TraesCS2B01G144500 chr2A 97.849 93 2 0 2652 2744 71674182 71674090 9.460000e-36 161.0
25 TraesCS2B01G144500 chr2A 80.822 146 27 1 1301 1445 755060857 755061002 2.690000e-21 113.0
26 TraesCS2B01G144500 chr2A 94.872 39 2 0 1202 1240 71684332 71684294 9.870000e-06 62.1
27 TraesCS2B01G144500 chr4A 90.736 734 42 2 3 710 648743204 648742471 0.000000e+00 955.0
28 TraesCS2B01G144500 chr4A 90.340 735 46 9 1 710 699966836 699966102 0.000000e+00 941.0
29 TraesCS2B01G144500 chr7B 90.340 735 46 1 1 710 128846754 128846020 0.000000e+00 941.0
30 TraesCS2B01G144500 chr7B 82.882 701 88 17 3 702 234270404 234269735 4.700000e-168 601.0
31 TraesCS2B01G144500 chr7B 89.888 89 9 0 3207 3295 518873346 518873434 7.470000e-22 115.0
32 TraesCS2B01G144500 chr7B 93.243 74 5 0 3222 3295 298114005 298113932 3.480000e-20 110.0
33 TraesCS2B01G144500 chr7B 89.286 84 9 0 3212 3295 624663976 624663893 4.500000e-19 106.0
34 TraesCS2B01G144500 chr4B 90.340 735 46 1 1 710 102416175 102416909 0.000000e+00 941.0
35 TraesCS2B01G144500 chr4B 90.068 735 42 13 1 710 454027806 454027078 0.000000e+00 924.0
36 TraesCS2B01G144500 chr4B 89.660 735 51 2 1 710 48650404 48651138 0.000000e+00 913.0
37 TraesCS2B01G144500 chr4B 89.388 735 53 8 1 710 591187505 591188239 0.000000e+00 902.0
38 TraesCS2B01G144500 chr4B 89.736 721 49 4 1 696 520340028 520340748 0.000000e+00 898.0
39 TraesCS2B01G144500 chr4B 97.521 121 3 0 3118 3238 409252942 409252822 1.200000e-49 207.0
40 TraesCS2B01G144500 chr4B 95.798 119 5 0 3118 3236 79002018 79002136 3.360000e-45 193.0
41 TraesCS2B01G144500 chr4B 90.541 74 7 0 3222 3295 409252912 409252839 7.520000e-17 99.0
42 TraesCS2B01G144500 chr3B 89.796 735 50 1 1 710 744438541 744439275 0.000000e+00 918.0
43 TraesCS2B01G144500 chr1B 89.708 719 49 4 3 696 361996642 361997360 0.000000e+00 894.0
44 TraesCS2B01G144500 chr1B 97.391 115 3 0 3124 3238 42806469 42806355 2.590000e-46 196.0
45 TraesCS2B01G144500 chr1B 88.966 145 14 1 3096 3238 598091751 598091607 9.400000e-41 178.0
46 TraesCS2B01G144500 chr1B 91.892 74 6 0 3222 3295 42806445 42806372 1.620000e-18 104.0
47 TraesCS2B01G144500 chr1B 87.640 89 11 0 3207 3295 482840901 482840989 1.620000e-18 104.0
48 TraesCS2B01G144500 chr6B 88.784 633 45 4 1 608 145322234 145322865 0.000000e+00 752.0
49 TraesCS2B01G144500 chr6B 95.868 121 5 0 3118 3238 362152397 362152517 2.590000e-46 196.0
50 TraesCS2B01G144500 chr6B 95.161 124 6 0 3115 3238 600213376 600213499 2.590000e-46 196.0
51 TraesCS2B01G144500 chr7D 82.767 824 108 18 1514 2314 534655164 534654352 0.000000e+00 704.0
52 TraesCS2B01G144500 chr7D 82.877 146 24 1 1301 1445 534655153 534655008 2.670000e-26 130.0
53 TraesCS2B01G144500 chr5B 95.935 123 5 0 3116 3238 570446945 570446823 2.010000e-47 200.0
54 TraesCS2B01G144500 chr5D 95.868 121 5 0 3118 3238 420042497 420042377 2.590000e-46 196.0
55 TraesCS2B01G144500 chr5D 90.541 74 7 0 3222 3295 265113312 265113239 7.520000e-17 99.0
56 TraesCS2B01G144500 chr4D 90.541 74 7 0 3222 3295 385441920 385441847 7.520000e-17 99.0


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 TraesCS2B01G144500 chr2B 110519086 110522380 3294 True 6085.00 6085 100.0000 1 3295 1 chr2B.!!$R1 3294
1 TraesCS2B01G144500 chr2B 110534423 110535132 709 True 1229.00 1229 97.8870 1 710 1 chr2B.!!$R2 709
2 TraesCS2B01G144500 chr2B 223403370 223404104 734 True 963.00 963 90.8840 1 710 1 chr2B.!!$R3 709
3 TraesCS2B01G144500 chr2B 632229736 632230468 732 False 937.00 937 90.3140 3 710 1 chr2B.!!$F2 707
4 TraesCS2B01G144500 chr2B 523406313 523407024 711 False 732.00 732 85.2530 1 710 1 chr2B.!!$F1 709
5 TraesCS2B01G144500 chr2B 765486986 765487532 546 True 418.00 418 80.6570 1570 2110 1 chr2B.!!$R4 540
6 TraesCS2B01G144500 chr2B 765562088 765562694 606 False 395.00 682 83.6435 1301 2113 2 chr2B.!!$F4 812
7 TraesCS2B01G144500 chr2D 73110349 73112714 2365 True 3103.00 3103 90.6080 781 3118 1 chr2D.!!$R1 2337
8 TraesCS2B01G144500 chr2D 616625835 616626691 856 True 756.00 756 82.8960 1518 2378 1 chr2D.!!$R2 860
9 TraesCS2B01G144500 chr2D 129941611 129942190 579 False 534.00 534 83.5330 1536 2110 1 chr2D.!!$F1 574
10 TraesCS2B01G144500 chr2D 623497339 623497885 546 True 412.00 412 80.4740 1570 2110 1 chr2D.!!$R3 540
11 TraesCS2B01G144500 chr2D 623791185 623791787 602 False 386.50 671 83.2380 1304 2110 2 chr2D.!!$F2 806
12 TraesCS2B01G144500 chr2A 71682767 71684332 1565 True 990.55 1919 92.0565 1126 2658 2 chr2A.!!$R5 1532
13 TraesCS2B01G144500 chr2A 746840082 746840672 590 True 556.00 556 84.0720 1518 2110 1 chr2A.!!$R2 592
14 TraesCS2B01G144500 chr2A 137259532 137260111 579 True 512.00 512 82.9060 1536 2110 1 chr2A.!!$R1 574
15 TraesCS2B01G144500 chr2A 754709129 754709675 546 True 429.00 429 81.0220 1570 2110 1 chr2A.!!$R3 540
16 TraesCS2B01G144500 chr2A 755060837 755061448 611 False 394.00 675 83.7935 1301 2110 2 chr2A.!!$F1 809
17 TraesCS2B01G144500 chr2A 71689844 71690491 647 True 264.00 309 88.2175 708 1206 2 chr2A.!!$R6 498
18 TraesCS2B01G144500 chr4A 648742471 648743204 733 True 955.00 955 90.7360 3 710 1 chr4A.!!$R1 707
19 TraesCS2B01G144500 chr4A 699966102 699966836 734 True 941.00 941 90.3400 1 710 1 chr4A.!!$R2 709
20 TraesCS2B01G144500 chr7B 128846020 128846754 734 True 941.00 941 90.3400 1 710 1 chr7B.!!$R1 709
21 TraesCS2B01G144500 chr7B 234269735 234270404 669 True 601.00 601 82.8820 3 702 1 chr7B.!!$R2 699
22 TraesCS2B01G144500 chr4B 102416175 102416909 734 False 941.00 941 90.3400 1 710 1 chr4B.!!$F3 709
23 TraesCS2B01G144500 chr4B 454027078 454027806 728 True 924.00 924 90.0680 1 710 1 chr4B.!!$R1 709
24 TraesCS2B01G144500 chr4B 48650404 48651138 734 False 913.00 913 89.6600 1 710 1 chr4B.!!$F1 709
25 TraesCS2B01G144500 chr4B 591187505 591188239 734 False 902.00 902 89.3880 1 710 1 chr4B.!!$F5 709
26 TraesCS2B01G144500 chr4B 520340028 520340748 720 False 898.00 898 89.7360 1 696 1 chr4B.!!$F4 695
27 TraesCS2B01G144500 chr3B 744438541 744439275 734 False 918.00 918 89.7960 1 710 1 chr3B.!!$F1 709
28 TraesCS2B01G144500 chr1B 361996642 361997360 718 False 894.00 894 89.7080 3 696 1 chr1B.!!$F1 693
29 TraesCS2B01G144500 chr6B 145322234 145322865 631 False 752.00 752 88.7840 1 608 1 chr6B.!!$F1 607
30 TraesCS2B01G144500 chr7D 534654352 534655164 812 True 417.00 704 82.8220 1301 2314 2 chr7D.!!$R1 1013

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
697 747 0.392706 TGACAGACGCCATCACAGTT 59.607 50.000 0.0 0.0 0.0 3.16 F
865 917 1.002468 CCAACGTTCTCCAGTTTGCAG 60.002 52.381 0.0 0.0 0.0 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2114 2476 0.813184 AATGGATCCAGTTTGCTGCG 59.187 50.0 21.33 0.00 41.26 5.18 R
2759 3170 0.104304 ACATTATCGGTCCACGGAGC 59.896 55.0 5.16 5.16 44.45 4.70 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
323 372 1.751351 GATCCATGAGTCCAGTCGACA 59.249 52.381 19.50 0.00 44.66 4.35
363 412 4.464008 CACCTAAGGTATACCGTACTCCA 58.536 47.826 16.31 0.00 42.08 3.86
697 747 0.392706 TGACAGACGCCATCACAGTT 59.607 50.000 0.00 0.00 0.00 3.16
705 755 2.743752 CCATCACAGTTGCGAGCGG 61.744 63.158 0.00 0.00 0.00 5.52
724 774 3.380142 CGGAGAGATGCTCTAAGCTTTC 58.620 50.000 3.20 0.00 41.35 2.62
726 776 4.679106 CGGAGAGATGCTCTAAGCTTTCAA 60.679 45.833 3.20 0.00 41.35 2.69
730 780 6.471146 AGAGATGCTCTAAGCTTTCAAGAAA 58.529 36.000 3.20 0.00 42.97 2.52
743 793 4.918810 TTCAAGAAAGAGTGCCTTTTCC 57.081 40.909 0.00 0.00 44.63 3.13
746 796 4.140536 CAAGAAAGAGTGCCTTTTCCTCT 58.859 43.478 0.00 0.00 44.63 3.69
747 797 4.445557 AGAAAGAGTGCCTTTTCCTCTT 57.554 40.909 0.00 0.00 44.63 2.85
748 798 4.393834 AGAAAGAGTGCCTTTTCCTCTTC 58.606 43.478 0.00 0.00 44.63 2.87
752 802 4.140536 AGAGTGCCTTTTCCTCTTCTTTG 58.859 43.478 0.00 0.00 31.64 2.77
753 803 2.625314 AGTGCCTTTTCCTCTTCTTTGC 59.375 45.455 0.00 0.00 0.00 3.68
795 847 1.069500 GCACACACATTCCCGTTGTAC 60.069 52.381 0.00 0.00 0.00 2.90
797 849 1.141254 ACACACATTCCCGTTGTACCA 59.859 47.619 0.00 0.00 0.00 3.25
803 855 3.700038 ACATTCCCGTTGTACCAAAACAA 59.300 39.130 0.00 0.00 37.03 2.83
827 879 1.019278 TCTTTGACCCATCTTCGCGC 61.019 55.000 0.00 0.00 0.00 6.86
865 917 1.002468 CCAACGTTCTCCAGTTTGCAG 60.002 52.381 0.00 0.00 0.00 4.41
923 979 4.081531 AGAGAAGAGCTCACTGGAATTCAG 60.082 45.833 17.77 5.65 46.45 3.02
957 1173 2.291465 GAGCAACACATCACAAAGCTGA 59.709 45.455 0.00 0.00 0.00 4.26
1134 1356 4.465446 AGCTGGGCGGAGGAGCTA 62.465 66.667 0.00 0.00 41.33 3.32
1142 1364 3.459063 GGAGGAGCTACGGCGGTT 61.459 66.667 13.24 0.00 44.37 4.44
1143 1365 2.577593 GAGGAGCTACGGCGGTTT 59.422 61.111 13.24 0.00 44.37 3.27
1196 1508 4.316823 TCCGGTGGTGGAGAGGCT 62.317 66.667 0.00 0.00 33.05 4.58
1197 1509 3.775654 CCGGTGGTGGAGAGGCTC 61.776 72.222 6.34 6.34 0.00 4.70
1198 1510 4.135153 CGGTGGTGGAGAGGCTCG 62.135 72.222 9.22 0.00 0.00 5.03
1199 1511 3.775654 GGTGGTGGAGAGGCTCGG 61.776 72.222 9.22 0.00 0.00 4.63
1200 1512 3.775654 GTGGTGGAGAGGCTCGGG 61.776 72.222 9.22 0.00 0.00 5.14
1203 1515 4.779733 GTGGAGAGGCTCGGGGGA 62.780 72.222 9.22 0.00 0.00 4.81
1204 1516 4.465446 TGGAGAGGCTCGGGGGAG 62.465 72.222 9.22 0.00 0.00 4.30
1206 1518 4.144727 GAGAGGCTCGGGGGAGGA 62.145 72.222 9.22 0.00 0.00 3.71
1207 1519 4.150454 AGAGGCTCGGGGGAGGAG 62.150 72.222 9.22 0.00 34.62 3.69
1315 1636 2.340328 GCTTGGGATTCGCGGGTTT 61.340 57.895 6.13 0.00 0.00 3.27
1384 1705 2.622452 CCCATCAACCTCAAATCCAGCT 60.622 50.000 0.00 0.00 0.00 4.24
1467 1794 4.719369 GAGCGCGAGGACGTTGGT 62.719 66.667 12.10 0.00 41.98 3.67
1742 2069 3.764466 CGTGGAGCCGGAGAGCTT 61.764 66.667 5.05 0.00 45.15 3.74
1974 2336 1.239347 GGTGCAAGGAGTTCCAGAAC 58.761 55.000 2.19 2.19 41.45 3.01
2037 2399 2.646175 CCTCGTCGGCAGAAAGGGA 61.646 63.158 8.22 0.00 31.39 4.20
2114 2476 3.508744 CATGAAATGCAGGTACCAACC 57.491 47.619 15.94 1.92 41.53 3.77
2123 2485 1.284715 GGTACCAACCGCAGCAAAC 59.715 57.895 7.15 0.00 35.62 2.93
2155 2539 7.592533 CCATTCATCATGAACGTGAAATTATCC 59.407 37.037 12.86 0.00 39.45 2.59
2162 2546 2.822764 ACGTGAAATTATCCGAGCTCC 58.177 47.619 8.47 0.00 0.00 4.70
2166 2550 3.038280 TGAAATTATCCGAGCTCCTCCA 58.962 45.455 8.47 0.00 0.00 3.86
2167 2551 3.454447 TGAAATTATCCGAGCTCCTCCAA 59.546 43.478 8.47 0.00 0.00 3.53
2168 2552 4.080582 TGAAATTATCCGAGCTCCTCCAAA 60.081 41.667 8.47 0.00 0.00 3.28
2170 2554 1.414158 TATCCGAGCTCCTCCAAAGG 58.586 55.000 8.47 1.31 44.89 3.11
2213 2608 6.704512 TTAATTTGATTTTTCTCCGCTTGC 57.295 33.333 0.00 0.00 0.00 4.01
2321 2723 1.073319 TTGGTTGTGGAGGGAGGGA 60.073 57.895 0.00 0.00 0.00 4.20
2337 2739 1.220749 GGATCTTGCCACGCCACTA 59.779 57.895 0.00 0.00 0.00 2.74
2369 2771 3.119137 GGGTTCATCTTGGCCATGTTAAC 60.119 47.826 17.54 17.36 0.00 2.01
2378 2784 3.838565 TGGCCATGTTAACTTCCTGAAA 58.161 40.909 0.00 0.00 0.00 2.69
2475 2881 7.428020 TCCTTGACTCAAATCATTTCTTGTTG 58.572 34.615 0.00 0.00 0.00 3.33
2479 2885 8.114331 TGACTCAAATCATTTCTTGTTGCTAT 57.886 30.769 0.00 0.00 0.00 2.97
2534 2944 1.661112 GTTAGTGCATCTCCAACGCTC 59.339 52.381 0.00 0.00 0.00 5.03
2539 2949 1.448540 CATCTCCAACGCTCGCCTT 60.449 57.895 0.00 0.00 0.00 4.35
2552 2962 0.672401 TCGCCTTCAAATCGGACACC 60.672 55.000 0.00 0.00 0.00 4.16
2585 2995 0.987294 AATCATAGATGCGGGAGGGG 59.013 55.000 0.00 0.00 0.00 4.79
2587 2997 1.536418 CATAGATGCGGGAGGGGGA 60.536 63.158 0.00 0.00 0.00 4.81
2608 3018 4.220602 GGAAAGCCACACAACCTTAATCAT 59.779 41.667 0.00 0.00 0.00 2.45
2691 3102 2.878406 GGTGGATATGTATGTGGTGTGC 59.122 50.000 0.00 0.00 0.00 4.57
2716 3127 3.707316 TGGGAGGAGAGAGAGAAAAGAG 58.293 50.000 0.00 0.00 0.00 2.85
2718 3129 4.202727 TGGGAGGAGAGAGAGAAAAGAGAA 60.203 45.833 0.00 0.00 0.00 2.87
2727 3138 4.526650 AGAGAGAAAAGAGAAGAGGACCAC 59.473 45.833 0.00 0.00 0.00 4.16
2756 3167 3.490078 GCTTTTTGTTGGTGATGTTCGGA 60.490 43.478 0.00 0.00 0.00 4.55
2757 3168 3.701532 TTTTGTTGGTGATGTTCGGAC 57.298 42.857 0.00 0.00 0.00 4.79
2758 3169 1.600023 TTGTTGGTGATGTTCGGACC 58.400 50.000 0.00 0.00 0.00 4.46
2759 3170 0.601576 TGTTGGTGATGTTCGGACCG 60.602 55.000 7.84 7.84 31.87 4.79
2760 3171 1.669760 TTGGTGATGTTCGGACCGC 60.670 57.895 9.66 0.00 31.87 5.68
2761 3172 2.107041 TTGGTGATGTTCGGACCGCT 62.107 55.000 9.66 0.00 31.87 5.52
2762 3173 1.810030 GGTGATGTTCGGACCGCTC 60.810 63.158 9.66 5.08 0.00 5.03
2763 3174 1.810030 GTGATGTTCGGACCGCTCC 60.810 63.158 9.66 0.00 0.00 4.70
2776 3187 1.362717 CGCTCCGTGGACCGATAAT 59.637 57.895 0.00 0.00 39.56 1.28
2787 3198 3.198853 TGGACCGATAATGTCACCATTGA 59.801 43.478 0.00 0.00 41.37 2.57
2792 3203 5.296780 ACCGATAATGTCACCATTGAATGAC 59.703 40.000 6.76 11.85 44.56 3.06
2836 3247 4.624452 GTGGACACTACAATCGAAACCTAC 59.376 45.833 0.00 0.00 0.00 3.18
2848 3259 2.157085 CGAAACCTACACCGAAGCTTTC 59.843 50.000 0.00 0.00 0.00 2.62
2864 3275 2.039084 GCTTTCAGGTTCTCCTCTGGAA 59.961 50.000 0.00 0.00 43.07 3.53
2873 3284 0.914644 CTCCTCTGGAAATGCCCTCA 59.085 55.000 0.00 0.00 34.97 3.86
2888 3299 2.102578 CCCTCACCTAGGCATTTTTGG 58.897 52.381 9.30 1.77 45.03 3.28
2925 3336 7.478667 CGAAGAAACTTCCAATCTATTCAAACG 59.521 37.037 0.00 0.00 0.00 3.60
2932 3343 4.155826 TCCAATCTATTCAAACGTGCCAAG 59.844 41.667 0.00 0.00 0.00 3.61
2937 3348 4.927425 TCTATTCAAACGTGCCAAGTACTC 59.073 41.667 0.00 0.00 0.00 2.59
2939 3350 2.750948 TCAAACGTGCCAAGTACTCTC 58.249 47.619 0.00 0.00 0.00 3.20
2964 3375 2.203806 TGGAGACACACGACCACAA 58.796 52.632 0.00 0.00 33.40 3.33
2972 3383 1.525995 CACGACCACAAAGGCAGGT 60.526 57.895 0.00 0.00 43.14 4.00
2981 3392 1.021202 CAAAGGCAGGTCGACAAACA 58.979 50.000 18.91 0.00 0.00 2.83
2982 3393 1.021968 AAAGGCAGGTCGACAAACAC 58.978 50.000 18.91 3.16 0.00 3.32
2983 3394 0.180406 AAGGCAGGTCGACAAACACT 59.820 50.000 18.91 5.57 0.00 3.55
2994 3405 1.944709 GACAAACACTACACCCCACAC 59.055 52.381 0.00 0.00 0.00 3.82
3052 3463 1.338105 GCAAAGGAAACCCCATCAAGC 60.338 52.381 0.00 0.00 37.41 4.01
3089 3500 6.867662 AAGAGACAAATCGACAAAGTCAAT 57.132 33.333 10.48 0.00 32.09 2.57
3119 3530 3.608432 GCATCTGCTTCCAACCCC 58.392 61.111 0.00 0.00 38.21 4.95
3120 3531 1.000396 GCATCTGCTTCCAACCCCT 60.000 57.895 0.00 0.00 38.21 4.79
3121 3532 1.318158 GCATCTGCTTCCAACCCCTG 61.318 60.000 0.00 0.00 38.21 4.45
3122 3533 1.000396 ATCTGCTTCCAACCCCTGC 60.000 57.895 0.00 0.00 0.00 4.85
3123 3534 1.504275 ATCTGCTTCCAACCCCTGCT 61.504 55.000 0.00 0.00 0.00 4.24
3124 3535 1.676967 CTGCTTCCAACCCCTGCTC 60.677 63.158 0.00 0.00 0.00 4.26
3125 3536 2.416107 CTGCTTCCAACCCCTGCTCA 62.416 60.000 0.00 0.00 0.00 4.26
3126 3537 1.228552 GCTTCCAACCCCTGCTCAA 60.229 57.895 0.00 0.00 0.00 3.02
3127 3538 1.246737 GCTTCCAACCCCTGCTCAAG 61.247 60.000 0.00 0.00 0.00 3.02
3128 3539 0.401738 CTTCCAACCCCTGCTCAAGA 59.598 55.000 0.00 0.00 0.00 3.02
3129 3540 0.850100 TTCCAACCCCTGCTCAAGAA 59.150 50.000 0.00 0.00 0.00 2.52
3130 3541 1.075601 TCCAACCCCTGCTCAAGAAT 58.924 50.000 0.00 0.00 0.00 2.40
3131 3542 1.428912 TCCAACCCCTGCTCAAGAATT 59.571 47.619 0.00 0.00 0.00 2.17
3132 3543 1.821136 CCAACCCCTGCTCAAGAATTC 59.179 52.381 0.00 0.00 0.00 2.17
3133 3544 1.470098 CAACCCCTGCTCAAGAATTCG 59.530 52.381 0.00 0.00 0.00 3.34
3134 3545 0.693049 ACCCCTGCTCAAGAATTCGT 59.307 50.000 0.00 0.00 0.00 3.85
3135 3546 1.339151 ACCCCTGCTCAAGAATTCGTC 60.339 52.381 0.00 0.00 0.00 4.20
3136 3547 1.339055 CCCCTGCTCAAGAATTCGTCA 60.339 52.381 0.00 0.00 0.00 4.35
3137 3548 2.005451 CCCTGCTCAAGAATTCGTCAG 58.995 52.381 0.00 1.08 0.00 3.51
3138 3549 2.354103 CCCTGCTCAAGAATTCGTCAGA 60.354 50.000 9.24 2.36 0.00 3.27
3139 3550 3.529533 CCTGCTCAAGAATTCGTCAGAT 58.470 45.455 9.24 0.00 0.00 2.90
3140 3551 3.937706 CCTGCTCAAGAATTCGTCAGATT 59.062 43.478 9.24 0.00 0.00 2.40
3141 3552 5.111989 CCTGCTCAAGAATTCGTCAGATTA 58.888 41.667 9.24 0.00 0.00 1.75
3142 3553 5.582269 CCTGCTCAAGAATTCGTCAGATTAA 59.418 40.000 9.24 0.00 0.00 1.40
3143 3554 6.408858 TGCTCAAGAATTCGTCAGATTAAC 57.591 37.500 0.00 0.00 0.00 2.01
3144 3555 5.351465 TGCTCAAGAATTCGTCAGATTAACC 59.649 40.000 0.00 0.00 0.00 2.85
3145 3556 5.351465 GCTCAAGAATTCGTCAGATTAACCA 59.649 40.000 0.00 0.00 0.00 3.67
3146 3557 6.456181 GCTCAAGAATTCGTCAGATTAACCAG 60.456 42.308 0.00 0.00 0.00 4.00
3147 3558 6.464222 TCAAGAATTCGTCAGATTAACCAGT 58.536 36.000 0.00 0.00 0.00 4.00
3148 3559 6.934645 TCAAGAATTCGTCAGATTAACCAGTT 59.065 34.615 0.00 0.00 0.00 3.16
3149 3560 8.092068 TCAAGAATTCGTCAGATTAACCAGTTA 58.908 33.333 0.00 0.00 0.00 2.24
3150 3561 8.717821 CAAGAATTCGTCAGATTAACCAGTTAA 58.282 33.333 5.51 5.51 39.12 2.01
3151 3562 8.252964 AGAATTCGTCAGATTAACCAGTTAAC 57.747 34.615 5.16 0.00 37.80 2.01
3152 3563 8.095169 AGAATTCGTCAGATTAACCAGTTAACT 58.905 33.333 1.12 1.12 37.80 2.24
3153 3564 8.617290 AATTCGTCAGATTAACCAGTTAACTT 57.383 30.769 5.07 0.00 37.80 2.66
3154 3565 7.416154 TTCGTCAGATTAACCAGTTAACTTG 57.584 36.000 5.07 5.14 37.80 3.16
3155 3566 5.407387 TCGTCAGATTAACCAGTTAACTTGC 59.593 40.000 5.07 0.00 37.80 4.01
3156 3567 5.390567 CGTCAGATTAACCAGTTAACTTGCC 60.391 44.000 5.07 0.00 37.80 4.52
3157 3568 4.693566 TCAGATTAACCAGTTAACTTGCCG 59.306 41.667 5.07 0.00 37.80 5.69
3158 3569 4.693566 CAGATTAACCAGTTAACTTGCCGA 59.306 41.667 5.07 0.00 37.80 5.54
3159 3570 5.354234 CAGATTAACCAGTTAACTTGCCGAT 59.646 40.000 5.07 0.00 37.80 4.18
3160 3571 5.944007 AGATTAACCAGTTAACTTGCCGATT 59.056 36.000 5.07 0.00 37.80 3.34
3161 3572 7.065324 CAGATTAACCAGTTAACTTGCCGATTA 59.935 37.037 5.07 0.00 37.80 1.75
3162 3573 7.608761 AGATTAACCAGTTAACTTGCCGATTAA 59.391 33.333 5.07 4.36 37.80 1.40
3163 3574 5.366829 AACCAGTTAACTTGCCGATTAAC 57.633 39.130 5.07 5.95 40.21 2.01
3164 3575 3.754850 ACCAGTTAACTTGCCGATTAACC 59.245 43.478 5.07 0.00 40.60 2.85
3165 3576 3.128068 CCAGTTAACTTGCCGATTAACCC 59.872 47.826 5.07 0.00 40.60 4.11
3166 3577 3.128068 CAGTTAACTTGCCGATTAACCCC 59.872 47.826 5.07 0.00 40.60 4.95
3167 3578 3.009805 AGTTAACTTGCCGATTAACCCCT 59.990 43.478 1.12 0.00 40.60 4.79
3168 3579 4.225717 AGTTAACTTGCCGATTAACCCCTA 59.774 41.667 1.12 0.00 40.60 3.53
3169 3580 2.704464 ACTTGCCGATTAACCCCTAC 57.296 50.000 0.00 0.00 0.00 3.18
3170 3581 2.193993 ACTTGCCGATTAACCCCTACT 58.806 47.619 0.00 0.00 0.00 2.57
3171 3582 2.169978 ACTTGCCGATTAACCCCTACTC 59.830 50.000 0.00 0.00 0.00 2.59
3172 3583 0.748450 TGCCGATTAACCCCTACTCG 59.252 55.000 0.00 0.00 33.64 4.18
3173 3584 0.749049 GCCGATTAACCCCTACTCGT 59.251 55.000 0.00 0.00 32.34 4.18
3174 3585 1.956477 GCCGATTAACCCCTACTCGTA 59.044 52.381 0.00 0.00 32.34 3.43
3175 3586 2.030451 GCCGATTAACCCCTACTCGTAG 60.030 54.545 0.00 0.00 32.34 3.51
3183 3594 2.401967 CCTACTCGTAGGGTCACCG 58.598 63.158 14.08 0.00 46.96 4.94
3184 3595 0.107508 CCTACTCGTAGGGTCACCGA 60.108 60.000 14.08 0.00 46.96 4.69
3186 3597 4.315588 CTCGTAGGGTCACCGAGT 57.684 61.111 0.00 0.00 42.26 4.18
3187 3598 3.465990 CTCGTAGGGTCACCGAGTA 57.534 57.895 0.00 0.00 42.26 2.59
3188 3599 1.297664 CTCGTAGGGTCACCGAGTAG 58.702 60.000 0.00 0.00 42.26 2.57
3189 3600 0.745845 TCGTAGGGTCACCGAGTAGC 60.746 60.000 0.00 0.00 43.47 3.58
3190 3601 1.722636 CGTAGGGTCACCGAGTAGCC 61.723 65.000 0.00 0.00 43.47 3.93
3191 3602 1.452651 TAGGGTCACCGAGTAGCCG 60.453 63.158 0.00 0.00 43.47 5.52
3192 3603 1.913951 TAGGGTCACCGAGTAGCCGA 61.914 60.000 0.00 0.00 43.47 5.54
3193 3604 2.125961 GGGTCACCGAGTAGCCGAT 61.126 63.158 0.00 0.00 0.00 4.18
3194 3605 0.820891 GGGTCACCGAGTAGCCGATA 60.821 60.000 0.00 0.00 0.00 2.92
3195 3606 1.027357 GGTCACCGAGTAGCCGATAA 58.973 55.000 0.00 0.00 0.00 1.75
3196 3607 1.406539 GGTCACCGAGTAGCCGATAAA 59.593 52.381 0.00 0.00 0.00 1.40
3197 3608 2.457970 GTCACCGAGTAGCCGATAAAC 58.542 52.381 0.00 0.00 0.00 2.01
3198 3609 1.406539 TCACCGAGTAGCCGATAAACC 59.593 52.381 0.00 0.00 0.00 3.27
3199 3610 1.135527 CACCGAGTAGCCGATAAACCA 59.864 52.381 0.00 0.00 0.00 3.67
3200 3611 1.826720 ACCGAGTAGCCGATAAACCAA 59.173 47.619 0.00 0.00 0.00 3.67
3201 3612 2.433239 ACCGAGTAGCCGATAAACCAAT 59.567 45.455 0.00 0.00 0.00 3.16
3202 3613 3.638160 ACCGAGTAGCCGATAAACCAATA 59.362 43.478 0.00 0.00 0.00 1.90
3203 3614 4.099881 ACCGAGTAGCCGATAAACCAATAA 59.900 41.667 0.00 0.00 0.00 1.40
3204 3615 5.051816 CCGAGTAGCCGATAAACCAATAAA 58.948 41.667 0.00 0.00 0.00 1.40
3205 3616 5.050567 CCGAGTAGCCGATAAACCAATAAAC 60.051 44.000 0.00 0.00 0.00 2.01
3206 3617 5.050567 CGAGTAGCCGATAAACCAATAAACC 60.051 44.000 0.00 0.00 0.00 3.27
3207 3618 4.812626 AGTAGCCGATAAACCAATAAACCG 59.187 41.667 0.00 0.00 0.00 4.44
3208 3619 3.613030 AGCCGATAAACCAATAAACCGT 58.387 40.909 0.00 0.00 0.00 4.83
3209 3620 3.624410 AGCCGATAAACCAATAAACCGTC 59.376 43.478 0.00 0.00 0.00 4.79
3210 3621 3.624410 GCCGATAAACCAATAAACCGTCT 59.376 43.478 0.00 0.00 0.00 4.18
3211 3622 4.495184 GCCGATAAACCAATAAACCGTCTG 60.495 45.833 0.00 0.00 0.00 3.51
3212 3623 4.871557 CCGATAAACCAATAAACCGTCTGA 59.128 41.667 0.00 0.00 0.00 3.27
3213 3624 5.526111 CCGATAAACCAATAAACCGTCTGAT 59.474 40.000 0.00 0.00 0.00 2.90
3214 3625 6.037830 CCGATAAACCAATAAACCGTCTGATT 59.962 38.462 0.00 0.00 0.00 2.57
3215 3626 7.225145 CCGATAAACCAATAAACCGTCTGATTA 59.775 37.037 0.00 0.00 0.00 1.75
3216 3627 8.605746 CGATAAACCAATAAACCGTCTGATTAA 58.394 33.333 0.00 0.00 0.00 1.40
3219 3630 8.980143 AAACCAATAAACCGTCTGATTAATTG 57.020 30.769 0.00 0.00 0.00 2.32
3220 3631 7.931578 ACCAATAAACCGTCTGATTAATTGA 57.068 32.000 0.00 0.00 0.00 2.57
3221 3632 8.519799 ACCAATAAACCGTCTGATTAATTGAT 57.480 30.769 0.00 0.00 0.00 2.57
3222 3633 8.966868 ACCAATAAACCGTCTGATTAATTGATT 58.033 29.630 0.00 0.00 0.00 2.57
3228 3639 9.801873 AAACCGTCTGATTAATTGATTAAATGG 57.198 29.630 0.73 2.65 36.02 3.16
3229 3640 7.425606 ACCGTCTGATTAATTGATTAAATGGC 58.574 34.615 0.73 0.00 36.02 4.40
3230 3641 6.863126 CCGTCTGATTAATTGATTAAATGGCC 59.137 38.462 0.00 0.00 36.02 5.36
3231 3642 6.578545 CGTCTGATTAATTGATTAAATGGCCG 59.421 38.462 0.00 0.00 36.02 6.13
3232 3643 7.519809 CGTCTGATTAATTGATTAAATGGCCGA 60.520 37.037 0.00 0.00 36.02 5.54
3233 3644 8.299570 GTCTGATTAATTGATTAAATGGCCGAT 58.700 33.333 0.00 0.00 36.02 4.18
3234 3645 8.859090 TCTGATTAATTGATTAAATGGCCGATT 58.141 29.630 0.00 0.00 36.02 3.34
3238 3649 9.705290 ATTAATTGATTAAATGGCCGATTAACC 57.295 29.630 13.26 6.28 36.02 2.85
3239 3650 5.523438 TTGATTAAATGGCCGATTAACCC 57.477 39.130 13.26 9.74 0.00 4.11
3240 3651 3.892588 TGATTAAATGGCCGATTAACCCC 59.107 43.478 13.26 7.89 0.00 4.95
3241 3652 3.673543 TTAAATGGCCGATTAACCCCT 57.326 42.857 8.31 0.00 0.00 4.79
3242 3653 4.792513 TTAAATGGCCGATTAACCCCTA 57.207 40.909 8.31 0.00 0.00 3.53
3243 3654 2.651382 AATGGCCGATTAACCCCTAC 57.349 50.000 0.00 0.00 0.00 3.18
3244 3655 1.815757 ATGGCCGATTAACCCCTACT 58.184 50.000 0.00 0.00 0.00 2.57
3245 3656 1.125633 TGGCCGATTAACCCCTACTC 58.874 55.000 0.00 0.00 0.00 2.59
3246 3657 0.033090 GGCCGATTAACCCCTACTCG 59.967 60.000 0.00 0.00 33.64 4.18
3247 3658 0.749049 GCCGATTAACCCCTACTCGT 59.251 55.000 0.00 0.00 32.34 4.18
3248 3659 1.956477 GCCGATTAACCCCTACTCGTA 59.044 52.381 0.00 0.00 32.34 3.43
3249 3660 2.030451 GCCGATTAACCCCTACTCGTAG 60.030 54.545 0.00 0.00 32.34 3.51
3258 3669 2.414994 CCTACTCGTAGGGTCACTGA 57.585 55.000 14.08 0.00 46.96 3.41
3259 3670 2.290464 CCTACTCGTAGGGTCACTGAG 58.710 57.143 14.08 0.00 46.96 3.35
3260 3671 2.355920 CCTACTCGTAGGGTCACTGAGT 60.356 54.545 14.08 1.11 46.96 3.41
3261 3672 3.118482 CCTACTCGTAGGGTCACTGAGTA 60.118 52.174 14.08 3.08 46.96 2.59
3262 3673 2.988570 ACTCGTAGGGTCACTGAGTAG 58.011 52.381 0.00 0.00 38.09 2.57
3263 3674 1.671845 CTCGTAGGGTCACTGAGTAGC 59.328 57.143 0.00 0.00 0.00 3.58
3264 3675 0.739561 CGTAGGGTCACTGAGTAGCC 59.260 60.000 0.00 0.00 0.00 3.93
3265 3676 0.739561 GTAGGGTCACTGAGTAGCCG 59.260 60.000 0.00 0.00 38.32 5.52
3266 3677 0.622136 TAGGGTCACTGAGTAGCCGA 59.378 55.000 0.00 0.00 38.32 5.54
3267 3678 0.033011 AGGGTCACTGAGTAGCCGAT 60.033 55.000 0.00 0.00 38.32 4.18
3268 3679 1.214673 AGGGTCACTGAGTAGCCGATA 59.785 52.381 0.00 0.00 38.32 2.92
3269 3680 2.029623 GGGTCACTGAGTAGCCGATAA 58.970 52.381 0.00 0.00 0.00 1.75
3270 3681 2.429610 GGGTCACTGAGTAGCCGATAAA 59.570 50.000 0.00 0.00 0.00 1.40
3271 3682 3.445857 GGTCACTGAGTAGCCGATAAAC 58.554 50.000 0.00 0.00 0.00 2.01
3272 3683 3.445857 GTCACTGAGTAGCCGATAAACC 58.554 50.000 0.00 0.00 0.00 3.27
3273 3684 3.093814 TCACTGAGTAGCCGATAAACCA 58.906 45.455 0.00 0.00 0.00 3.67
3274 3685 3.512329 TCACTGAGTAGCCGATAAACCAA 59.488 43.478 0.00 0.00 0.00 3.67
3275 3686 4.020928 TCACTGAGTAGCCGATAAACCAAA 60.021 41.667 0.00 0.00 0.00 3.28
3276 3687 4.693566 CACTGAGTAGCCGATAAACCAAAA 59.306 41.667 0.00 0.00 0.00 2.44
3277 3688 5.180492 CACTGAGTAGCCGATAAACCAAAAA 59.820 40.000 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
323 372 0.467290 TGGAGGCGGAAAAAGCTGTT 60.467 50.000 0.00 0.00 34.52 3.16
363 412 1.446907 CAGCTGCGAGGTTCTGAATT 58.553 50.000 0.00 0.00 0.00 2.17
652 702 1.447140 GCCGAGGCACGTACAATGA 60.447 57.895 9.58 0.00 41.49 2.57
697 747 3.131196 GAGCATCTCTCCGCTCGCA 62.131 63.158 0.00 0.00 44.68 5.10
717 767 3.560105 AGGCACTCTTTCTTGAAAGCTT 58.440 40.909 15.90 0.00 0.00 3.74
718 768 3.220674 AGGCACTCTTTCTTGAAAGCT 57.779 42.857 15.90 6.37 0.00 3.74
724 774 4.140536 AGAGGAAAAGGCACTCTTTCTTG 58.859 43.478 0.00 0.00 44.30 3.02
726 776 4.445557 AAGAGGAAAAGGCACTCTTTCT 57.554 40.909 0.00 0.00 46.32 2.52
730 780 4.140536 CAAAGAAGAGGAAAAGGCACTCT 58.859 43.478 0.00 0.00 43.03 3.24
737 787 4.053983 GGCAAAGCAAAGAAGAGGAAAAG 58.946 43.478 0.00 0.00 0.00 2.27
738 788 3.450457 TGGCAAAGCAAAGAAGAGGAAAA 59.550 39.130 0.00 0.00 0.00 2.29
743 793 3.928727 TCATGGCAAAGCAAAGAAGAG 57.071 42.857 0.00 0.00 0.00 2.85
746 796 4.515944 CCAATTTCATGGCAAAGCAAAGAA 59.484 37.500 0.00 0.00 32.78 2.52
747 797 4.066490 CCAATTTCATGGCAAAGCAAAGA 58.934 39.130 0.00 0.00 32.78 2.52
748 798 3.816523 ACCAATTTCATGGCAAAGCAAAG 59.183 39.130 0.00 0.00 44.75 2.77
752 802 2.931969 GCTACCAATTTCATGGCAAAGC 59.068 45.455 0.00 0.00 44.75 3.51
753 803 4.178540 CTGCTACCAATTTCATGGCAAAG 58.821 43.478 0.00 0.00 44.75 2.77
795 847 4.099266 TGGGTCAAAGATGAGTTGTTTTGG 59.901 41.667 0.00 0.00 35.88 3.28
797 849 5.835280 AGATGGGTCAAAGATGAGTTGTTTT 59.165 36.000 0.00 0.00 35.88 2.43
803 855 3.866651 CGAAGATGGGTCAAAGATGAGT 58.133 45.455 0.00 0.00 35.88 3.41
827 879 3.966543 GTGGGGTGTGGGGACAGG 61.967 72.222 0.00 0.00 44.46 4.00
865 917 5.049405 TCTCTCTTCTTTTTGCAATTCCGTC 60.049 40.000 0.00 0.00 0.00 4.79
923 979 0.658536 GTTGCTCTGCTTTGTGACGC 60.659 55.000 0.00 0.00 0.00 5.19
1117 1339 4.465446 TAGCTCCTCCGCCCAGCT 62.465 66.667 0.00 0.00 45.59 4.24
1118 1340 4.228567 GTAGCTCCTCCGCCCAGC 62.229 72.222 0.00 0.00 0.00 4.85
1119 1341 3.905678 CGTAGCTCCTCCGCCCAG 61.906 72.222 0.00 0.00 0.00 4.45
1130 1352 1.673808 CCTCCTAAACCGCCGTAGCT 61.674 60.000 0.00 0.00 36.60 3.32
1134 1356 2.976356 GTCCTCCTAAACCGCCGT 59.024 61.111 0.00 0.00 0.00 5.68
1180 1492 3.775654 GAGCCTCTCCACCACCGG 61.776 72.222 0.00 0.00 0.00 5.28
1213 1525 4.131088 GTCGTCCTCCTCCACCGC 62.131 72.222 0.00 0.00 0.00 5.68
1214 1526 3.812019 CGTCGTCCTCCTCCACCG 61.812 72.222 0.00 0.00 0.00 4.94
1215 1527 3.450115 CCGTCGTCCTCCTCCACC 61.450 72.222 0.00 0.00 0.00 4.61
1216 1528 4.131088 GCCGTCGTCCTCCTCCAC 62.131 72.222 0.00 0.00 0.00 4.02
1298 1619 0.730840 GTAAACCCGCGAATCCCAAG 59.269 55.000 8.23 0.00 0.00 3.61
1299 1620 1.020333 CGTAAACCCGCGAATCCCAA 61.020 55.000 8.23 0.00 0.00 4.12
1629 1956 4.087892 ACGCAGCTCCGGCAGAAT 62.088 61.111 0.33 0.00 41.70 2.40
1674 2001 3.973516 ACGCGAGCGACCTTGTCA 61.974 61.111 24.72 0.00 42.83 3.58
1759 2086 3.827898 CCTGTCGAGGAGGTCCGC 61.828 72.222 2.65 0.00 42.93 5.54
1807 2134 1.913762 AGTACACCCTCTTGGCGCT 60.914 57.895 7.64 0.00 37.83 5.92
2031 2393 2.361610 CACCGCTGCCATCCCTTT 60.362 61.111 0.00 0.00 0.00 3.11
2114 2476 0.813184 AATGGATCCAGTTTGCTGCG 59.187 50.000 21.33 0.00 41.26 5.18
2123 2485 4.024302 CACGTTCATGATGAATGGATCCAG 60.024 45.833 25.97 3.70 45.20 3.86
2155 2539 1.301677 GCAACCTTTGGAGGAGCTCG 61.302 60.000 7.83 0.00 46.74 5.03
2162 2546 3.799281 TCAAACAAGCAACCTTTGGAG 57.201 42.857 0.00 0.00 0.00 3.86
2166 2550 3.493176 GGAGCATCAAACAAGCAACCTTT 60.493 43.478 0.00 0.00 36.25 3.11
2167 2551 2.036346 GGAGCATCAAACAAGCAACCTT 59.964 45.455 0.00 0.00 36.25 3.50
2168 2552 1.615392 GGAGCATCAAACAAGCAACCT 59.385 47.619 0.00 0.00 36.25 3.50
2170 2554 2.798976 TGGAGCATCAAACAAGCAAC 57.201 45.000 0.00 0.00 36.25 4.17
2203 2590 2.031012 CACACCTGCAAGCGGAGA 59.969 61.111 1.69 0.00 30.74 3.71
2213 2608 2.223572 GCAGAAACTGTTTCCACACCTG 60.224 50.000 25.22 17.77 40.54 4.00
2321 2723 1.078426 GGTAGTGGCGTGGCAAGAT 60.078 57.895 4.11 0.00 0.00 2.40
2337 2739 4.280819 CCAAGATGAACCCATGTATTGGT 58.719 43.478 0.00 0.00 44.83 3.67
2369 2771 8.652810 AGATTTTCATTTTGTGTTTCAGGAAG 57.347 30.769 0.00 0.00 0.00 3.46
2378 2784 7.230849 TCATGCCTAGATTTTCATTTTGTGT 57.769 32.000 0.00 0.00 0.00 3.72
2479 2885 3.492102 AGTAAAACTGAGGAAGCTGCA 57.508 42.857 1.02 0.00 0.00 4.41
2519 2929 2.815211 GCGAGCGTTGGAGATGCA 60.815 61.111 0.00 0.00 42.96 3.96
2534 2944 1.794222 GGTGTCCGATTTGAAGGCG 59.206 57.895 0.00 0.00 0.00 5.52
2552 2962 6.036517 GCATCTATGATTAAGGCTTGGATACG 59.963 42.308 10.69 0.00 42.51 3.06
2561 2971 3.265791 CTCCCGCATCTATGATTAAGGC 58.734 50.000 0.00 0.00 0.00 4.35
2585 2995 3.572255 TGATTAAGGTTGTGTGGCTTTCC 59.428 43.478 0.00 0.00 0.00 3.13
2587 2997 6.909550 TTATGATTAAGGTTGTGTGGCTTT 57.090 33.333 0.00 0.00 0.00 3.51
2691 3102 2.468301 TCTCTCTCTCCTCCCAATGG 57.532 55.000 0.00 0.00 0.00 3.16
2697 3108 5.261216 TCTTCTCTTTTCTCTCTCTCCTCC 58.739 45.833 0.00 0.00 0.00 4.30
2716 3127 1.149148 GCAACTTCGTGGTCCTCTTC 58.851 55.000 0.00 0.00 0.00 2.87
2718 3129 0.759346 AAGCAACTTCGTGGTCCTCT 59.241 50.000 0.00 0.00 0.00 3.69
2727 3138 3.506810 TCACCAACAAAAAGCAACTTCG 58.493 40.909 0.00 0.00 0.00 3.79
2759 3170 0.104304 ACATTATCGGTCCACGGAGC 59.896 55.000 5.16 5.16 44.45 4.70
2760 3171 1.407618 TGACATTATCGGTCCACGGAG 59.592 52.381 0.00 0.00 44.45 4.63
2761 3172 1.135527 GTGACATTATCGGTCCACGGA 59.864 52.381 0.00 0.00 44.45 4.69
2762 3173 1.567504 GTGACATTATCGGTCCACGG 58.432 55.000 0.00 0.00 44.45 4.94
2763 3174 1.134936 TGGTGACATTATCGGTCCACG 60.135 52.381 0.00 0.00 39.00 4.94
2764 3175 2.684001 TGGTGACATTATCGGTCCAC 57.316 50.000 0.00 0.00 34.36 4.02
2798 3209 5.061920 GTGTCCACACCACTTTTGTTAAA 57.938 39.130 0.00 0.00 40.85 1.52
2799 3210 4.705337 GTGTCCACACCACTTTTGTTAA 57.295 40.909 0.00 0.00 40.85 2.01
2811 3222 3.185797 GGTTTCGATTGTAGTGTCCACAC 59.814 47.826 1.28 1.28 46.77 3.82
2812 3223 3.070446 AGGTTTCGATTGTAGTGTCCACA 59.930 43.478 0.00 0.00 0.00 4.17
2813 3224 3.660865 AGGTTTCGATTGTAGTGTCCAC 58.339 45.455 0.00 0.00 0.00 4.02
2814 3225 4.281435 TGTAGGTTTCGATTGTAGTGTCCA 59.719 41.667 0.00 0.00 0.00 4.02
2836 3247 1.801178 GAGAACCTGAAAGCTTCGGTG 59.199 52.381 13.73 1.12 36.92 4.94
2848 3259 2.943199 GGCATTTCCAGAGGAGAACCTG 60.943 54.545 0.00 0.00 39.86 4.00
2857 3268 0.622665 AGGTGAGGGCATTTCCAGAG 59.377 55.000 0.00 0.00 36.21 3.35
2859 3270 1.133976 CCTAGGTGAGGGCATTTCCAG 60.134 57.143 0.00 0.00 42.39 3.86
2896 3307 6.429692 TGAATAGATTGGAAGTTTCTTCGCAA 59.570 34.615 12.15 12.15 0.00 4.85
2898 3309 6.422776 TGAATAGATTGGAAGTTTCTTCGC 57.577 37.500 3.88 0.00 0.00 4.70
2925 3336 3.232213 TGATTCGAGAGTACTTGGCAC 57.768 47.619 0.00 0.00 0.00 5.01
2932 3343 4.096532 TGTGTCTCCATGATTCGAGAGTAC 59.903 45.833 0.00 1.35 35.84 2.73
2937 3348 2.159379 TCGTGTGTCTCCATGATTCGAG 60.159 50.000 0.00 0.00 0.00 4.04
2939 3350 1.920574 GTCGTGTGTCTCCATGATTCG 59.079 52.381 0.00 0.00 33.22 3.34
2964 3375 0.180406 AGTGTTTGTCGACCTGCCTT 59.820 50.000 14.12 0.00 0.00 4.35
2972 3383 1.121378 TGGGGTGTAGTGTTTGTCGA 58.879 50.000 0.00 0.00 0.00 4.20
2981 3392 5.190677 GCATTAATAAGTGTGGGGTGTAGT 58.809 41.667 0.00 0.00 0.00 2.73
2982 3393 4.578928 GGCATTAATAAGTGTGGGGTGTAG 59.421 45.833 0.00 0.00 0.00 2.74
2983 3394 4.228666 AGGCATTAATAAGTGTGGGGTGTA 59.771 41.667 0.00 0.00 0.00 2.90
2994 3405 4.580580 GTGTTGGGGAGAGGCATTAATAAG 59.419 45.833 0.00 0.00 0.00 1.73
3052 3463 1.069636 GTCTCTTTCAAGTTGCAGCGG 60.070 52.381 0.00 0.00 0.00 5.52
3089 3500 2.426522 GCAGATGCTTGGTTGTGTCTA 58.573 47.619 0.00 0.00 38.21 2.59
3104 3515 1.000396 GCAGGGGTTGGAAGCAGAT 60.000 57.895 0.00 0.00 0.00 2.90
3118 3529 2.964740 TCTGACGAATTCTTGAGCAGG 58.035 47.619 3.52 0.00 0.00 4.85
3119 3530 6.456181 GGTTAATCTGACGAATTCTTGAGCAG 60.456 42.308 3.52 4.15 0.00 4.24
3120 3531 5.351465 GGTTAATCTGACGAATTCTTGAGCA 59.649 40.000 3.52 0.00 0.00 4.26
3121 3532 5.351465 TGGTTAATCTGACGAATTCTTGAGC 59.649 40.000 3.52 0.00 0.00 4.26
3122 3533 6.591834 ACTGGTTAATCTGACGAATTCTTGAG 59.408 38.462 3.52 0.00 0.00 3.02
3123 3534 6.464222 ACTGGTTAATCTGACGAATTCTTGA 58.536 36.000 3.52 0.00 0.00 3.02
3124 3535 6.727824 ACTGGTTAATCTGACGAATTCTTG 57.272 37.500 3.52 0.00 0.00 3.02
3125 3536 8.718734 GTTAACTGGTTAATCTGACGAATTCTT 58.281 33.333 3.52 0.00 37.37 2.52
3126 3537 8.095169 AGTTAACTGGTTAATCTGACGAATTCT 58.905 33.333 7.48 0.00 37.37 2.40
3127 3538 8.252964 AGTTAACTGGTTAATCTGACGAATTC 57.747 34.615 7.48 0.00 37.37 2.17
3128 3539 8.504005 CAAGTTAACTGGTTAATCTGACGAATT 58.496 33.333 9.34 0.00 37.37 2.17
3129 3540 7.360946 GCAAGTTAACTGGTTAATCTGACGAAT 60.361 37.037 9.34 0.00 37.37 3.34
3130 3541 6.073440 GCAAGTTAACTGGTTAATCTGACGAA 60.073 38.462 9.34 0.00 37.37 3.85
3131 3542 5.407387 GCAAGTTAACTGGTTAATCTGACGA 59.593 40.000 9.34 0.00 37.37 4.20
3132 3543 5.390567 GGCAAGTTAACTGGTTAATCTGACG 60.391 44.000 9.34 0.00 37.37 4.35
3133 3544 5.390567 CGGCAAGTTAACTGGTTAATCTGAC 60.391 44.000 9.34 2.07 37.37 3.51
3134 3545 4.693566 CGGCAAGTTAACTGGTTAATCTGA 59.306 41.667 9.34 0.00 37.37 3.27
3135 3546 4.693566 TCGGCAAGTTAACTGGTTAATCTG 59.306 41.667 9.34 2.07 37.37 2.90
3136 3547 4.901868 TCGGCAAGTTAACTGGTTAATCT 58.098 39.130 9.34 6.06 37.37 2.40
3137 3548 5.813080 ATCGGCAAGTTAACTGGTTAATC 57.187 39.130 9.34 0.00 37.37 1.75
3138 3549 7.362315 GGTTAATCGGCAAGTTAACTGGTTAAT 60.362 37.037 9.34 0.00 39.53 1.40
3139 3550 6.072563 GGTTAATCGGCAAGTTAACTGGTTAA 60.073 38.462 9.34 6.92 39.53 2.01
3140 3551 5.412286 GGTTAATCGGCAAGTTAACTGGTTA 59.588 40.000 9.34 0.65 39.53 2.85
3141 3552 4.216902 GGTTAATCGGCAAGTTAACTGGTT 59.783 41.667 9.34 1.66 39.53 3.67
3142 3553 3.754850 GGTTAATCGGCAAGTTAACTGGT 59.245 43.478 9.34 0.00 39.53 4.00
3143 3554 3.128068 GGGTTAATCGGCAAGTTAACTGG 59.872 47.826 9.34 7.35 39.53 4.00
3144 3555 3.128068 GGGGTTAATCGGCAAGTTAACTG 59.872 47.826 9.34 4.88 39.53 3.16
3145 3556 3.009805 AGGGGTTAATCGGCAAGTTAACT 59.990 43.478 1.12 1.12 39.53 2.24
3146 3557 3.349927 AGGGGTTAATCGGCAAGTTAAC 58.650 45.455 0.00 0.00 39.11 2.01
3147 3558 3.724732 AGGGGTTAATCGGCAAGTTAA 57.275 42.857 0.00 0.00 0.00 2.01
3148 3559 3.776417 AGTAGGGGTTAATCGGCAAGTTA 59.224 43.478 0.00 0.00 0.00 2.24
3149 3560 2.574824 AGTAGGGGTTAATCGGCAAGTT 59.425 45.455 0.00 0.00 0.00 2.66
3150 3561 2.169978 GAGTAGGGGTTAATCGGCAAGT 59.830 50.000 0.00 0.00 0.00 3.16
3151 3562 2.802057 CGAGTAGGGGTTAATCGGCAAG 60.802 54.545 0.00 0.00 43.89 4.01
3152 3563 1.137479 CGAGTAGGGGTTAATCGGCAA 59.863 52.381 0.00 0.00 43.89 4.52
3153 3564 0.748450 CGAGTAGGGGTTAATCGGCA 59.252 55.000 0.00 0.00 43.89 5.69
3154 3565 3.582743 CGAGTAGGGGTTAATCGGC 57.417 57.895 0.00 0.00 43.89 5.54
3166 3577 1.297664 CTCGGTGACCCTACGAGTAG 58.702 60.000 0.00 3.39 46.43 2.57
3167 3578 3.465990 CTCGGTGACCCTACGAGTA 57.534 57.895 0.00 0.00 46.43 2.59
3168 3579 4.315588 CTCGGTGACCCTACGAGT 57.684 61.111 0.00 0.00 46.43 4.18
3170 3581 0.745845 GCTACTCGGTGACCCTACGA 60.746 60.000 0.00 0.00 35.14 3.43
3171 3582 1.722636 GGCTACTCGGTGACCCTACG 61.723 65.000 0.00 0.00 0.00 3.51
3172 3583 1.722636 CGGCTACTCGGTGACCCTAC 61.723 65.000 0.00 0.00 0.00 3.18
3173 3584 1.452651 CGGCTACTCGGTGACCCTA 60.453 63.158 0.00 0.00 0.00 3.53
3174 3585 2.569218 ATCGGCTACTCGGTGACCCT 62.569 60.000 0.00 0.00 0.00 4.34
3175 3586 0.820891 TATCGGCTACTCGGTGACCC 60.821 60.000 0.00 0.00 0.00 4.46
3176 3587 1.027357 TTATCGGCTACTCGGTGACC 58.973 55.000 0.00 0.00 0.00 4.02
3177 3588 2.457970 GTTTATCGGCTACTCGGTGAC 58.542 52.381 0.00 0.00 0.00 3.67
3178 3589 1.406539 GGTTTATCGGCTACTCGGTGA 59.593 52.381 0.00 0.00 0.00 4.02
3179 3590 1.135527 TGGTTTATCGGCTACTCGGTG 59.864 52.381 0.00 0.00 0.00 4.94
3180 3591 1.477553 TGGTTTATCGGCTACTCGGT 58.522 50.000 0.00 0.00 0.00 4.69
3181 3592 2.589798 TTGGTTTATCGGCTACTCGG 57.410 50.000 0.00 0.00 0.00 4.63
3182 3593 5.050567 GGTTTATTGGTTTATCGGCTACTCG 60.051 44.000 0.00 0.00 0.00 4.18
3183 3594 5.050567 CGGTTTATTGGTTTATCGGCTACTC 60.051 44.000 0.00 0.00 0.00 2.59
3184 3595 4.812626 CGGTTTATTGGTTTATCGGCTACT 59.187 41.667 0.00 0.00 0.00 2.57
3185 3596 4.571984 ACGGTTTATTGGTTTATCGGCTAC 59.428 41.667 0.00 0.00 0.00 3.58
3186 3597 4.768583 ACGGTTTATTGGTTTATCGGCTA 58.231 39.130 0.00 0.00 0.00 3.93
3187 3598 3.613030 ACGGTTTATTGGTTTATCGGCT 58.387 40.909 0.00 0.00 0.00 5.52
3188 3599 3.624410 AGACGGTTTATTGGTTTATCGGC 59.376 43.478 0.00 0.00 0.00 5.54
3189 3600 4.871557 TCAGACGGTTTATTGGTTTATCGG 59.128 41.667 0.00 0.00 0.00 4.18
3190 3601 6.598753 ATCAGACGGTTTATTGGTTTATCG 57.401 37.500 0.00 0.00 0.00 2.92
3194 3605 8.798402 TCAATTAATCAGACGGTTTATTGGTTT 58.202 29.630 0.00 0.00 0.00 3.27
3195 3606 8.343168 TCAATTAATCAGACGGTTTATTGGTT 57.657 30.769 0.00 0.00 0.00 3.67
3196 3607 7.931578 TCAATTAATCAGACGGTTTATTGGT 57.068 32.000 0.00 0.00 0.00 3.67
3202 3613 9.801873 CCATTTAATCAATTAATCAGACGGTTT 57.198 29.630 0.00 0.00 32.78 3.27
3203 3614 7.920682 GCCATTTAATCAATTAATCAGACGGTT 59.079 33.333 0.00 0.00 32.78 4.44
3204 3615 7.425606 GCCATTTAATCAATTAATCAGACGGT 58.574 34.615 0.00 0.00 32.78 4.83
3205 3616 6.863126 GGCCATTTAATCAATTAATCAGACGG 59.137 38.462 0.00 0.00 32.78 4.79
3206 3617 6.578545 CGGCCATTTAATCAATTAATCAGACG 59.421 38.462 2.24 0.00 32.78 4.18
3207 3618 7.648142 TCGGCCATTTAATCAATTAATCAGAC 58.352 34.615 2.24 0.00 32.78 3.51
3208 3619 7.815840 TCGGCCATTTAATCAATTAATCAGA 57.184 32.000 2.24 0.00 32.78 3.27
3212 3623 9.705290 GGTTAATCGGCCATTTAATCAATTAAT 57.295 29.630 2.24 0.00 32.78 1.40
3213 3624 8.145122 GGGTTAATCGGCCATTTAATCAATTAA 58.855 33.333 15.78 4.54 0.00 1.40
3214 3625 7.256012 GGGGTTAATCGGCCATTTAATCAATTA 60.256 37.037 15.78 0.00 0.00 1.40
3215 3626 6.463755 GGGGTTAATCGGCCATTTAATCAATT 60.464 38.462 15.78 0.47 0.00 2.32
3216 3627 5.011635 GGGGTTAATCGGCCATTTAATCAAT 59.988 40.000 15.78 0.00 0.00 2.57
3217 3628 4.342665 GGGGTTAATCGGCCATTTAATCAA 59.657 41.667 15.78 0.25 0.00 2.57
3218 3629 3.892588 GGGGTTAATCGGCCATTTAATCA 59.107 43.478 15.78 0.00 0.00 2.57
3219 3630 4.149598 AGGGGTTAATCGGCCATTTAATC 58.850 43.478 2.24 6.34 0.00 1.75
3220 3631 4.193240 AGGGGTTAATCGGCCATTTAAT 57.807 40.909 2.24 0.00 0.00 1.40
3221 3632 3.673543 AGGGGTTAATCGGCCATTTAA 57.326 42.857 2.24 3.07 0.00 1.52
3222 3633 3.717913 AGTAGGGGTTAATCGGCCATTTA 59.282 43.478 2.24 0.00 0.00 1.40
3223 3634 2.512476 AGTAGGGGTTAATCGGCCATTT 59.488 45.455 2.24 0.00 0.00 2.32
3224 3635 2.105993 GAGTAGGGGTTAATCGGCCATT 59.894 50.000 2.24 4.55 0.00 3.16
3225 3636 1.697982 GAGTAGGGGTTAATCGGCCAT 59.302 52.381 2.24 0.00 0.00 4.40
3226 3637 1.125633 GAGTAGGGGTTAATCGGCCA 58.874 55.000 2.24 0.00 0.00 5.36
3227 3638 0.033090 CGAGTAGGGGTTAATCGGCC 59.967 60.000 0.00 0.00 43.89 6.13
3228 3639 3.582743 CGAGTAGGGGTTAATCGGC 57.417 57.895 0.00 0.00 43.89 5.54
3240 3651 2.988570 ACTCAGTGACCCTACGAGTAG 58.011 52.381 3.39 3.39 34.84 2.57
3241 3652 3.681034 GCTACTCAGTGACCCTACGAGTA 60.681 52.174 0.00 0.00 36.54 2.59
3242 3653 2.940527 GCTACTCAGTGACCCTACGAGT 60.941 54.545 0.00 0.00 37.78 4.18
3243 3654 1.671845 GCTACTCAGTGACCCTACGAG 59.328 57.143 0.00 0.00 0.00 4.18
3244 3655 1.681166 GGCTACTCAGTGACCCTACGA 60.681 57.143 0.00 0.00 0.00 3.43
3245 3656 0.739561 GGCTACTCAGTGACCCTACG 59.260 60.000 0.00 0.00 0.00 3.51
3246 3657 0.739561 CGGCTACTCAGTGACCCTAC 59.260 60.000 0.00 0.00 0.00 3.18
3247 3658 0.622136 TCGGCTACTCAGTGACCCTA 59.378 55.000 0.00 0.00 0.00 3.53
3248 3659 0.033011 ATCGGCTACTCAGTGACCCT 60.033 55.000 0.00 0.00 0.00 4.34
3249 3660 1.688772 TATCGGCTACTCAGTGACCC 58.311 55.000 0.00 0.00 0.00 4.46
3250 3661 3.445857 GTTTATCGGCTACTCAGTGACC 58.554 50.000 0.00 0.00 0.00 4.02
3251 3662 3.119245 TGGTTTATCGGCTACTCAGTGAC 60.119 47.826 0.00 0.00 0.00 3.67
3252 3663 3.093814 TGGTTTATCGGCTACTCAGTGA 58.906 45.455 0.00 0.00 0.00 3.41
3253 3664 3.520290 TGGTTTATCGGCTACTCAGTG 57.480 47.619 0.00 0.00 0.00 3.66
3254 3665 4.546829 TTTGGTTTATCGGCTACTCAGT 57.453 40.909 0.00 0.00 0.00 3.41
3255 3666 5.873179 TTTTTGGTTTATCGGCTACTCAG 57.127 39.130 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.