Multiple sequence alignment - TraesCS7D01G066100

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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 TraesCS7D01G066100 chr7D 100.000 9676 0 0 1 9676 36751593 36741918 0.000000e+00 17869.0
1 TraesCS7D01G066100 chr7D 96.824 4376 115 12 3817 8179 37219215 37214851 0.000000e+00 7289.0
2 TraesCS7D01G066100 chr7D 96.240 1250 44 3 656 1904 37224483 37223236 0.000000e+00 2045.0
3 TraesCS7D01G066100 chr7D 79.421 2279 369 63 5451 7701 36496761 36494555 0.000000e+00 1519.0
4 TraesCS7D01G066100 chr7D 85.895 1425 126 43 2450 3818 37220683 37219278 0.000000e+00 1448.0
5 TraesCS7D01G066100 chr7D 80.594 1448 227 26 5523 6953 36680401 36678991 0.000000e+00 1068.0
6 TraesCS7D01G066100 chr7D 96.031 655 25 1 1 655 597484583 597483930 0.000000e+00 1064.0
7 TraesCS7D01G066100 chr7D 95.884 656 25 2 1 655 617590356 617591010 0.000000e+00 1061.0
8 TraesCS7D01G066100 chr7D 96.056 431 11 2 8293 8718 37213787 37213358 0.000000e+00 697.0
9 TraesCS7D01G066100 chr7D 96.078 153 4 2 2303 2454 37220873 37220722 2.090000e-61 248.0
10 TraesCS7D01G066100 chr7D 89.091 110 12 0 1793 1902 290798483 290798592 4.710000e-28 137.0
11 TraesCS7D01G066100 chr7D 89.320 103 11 0 1793 1895 290795322 290795220 7.890000e-26 130.0
12 TraesCS7D01G066100 chr7D 97.015 67 2 0 8211 8277 604570898 604570832 7.940000e-21 113.0
13 TraesCS7D01G066100 chr7D 97.015 67 2 0 8211 8277 609822723 609822789 7.940000e-21 113.0
14 TraesCS7D01G066100 chr7D 97.015 67 2 0 8211 8277 630271700 630271634 7.940000e-21 113.0
15 TraesCS7D01G066100 chr7D 96.970 66 2 0 8211 8276 604570986 604570921 2.860000e-20 111.0
16 TraesCS7D01G066100 chr7D 86.869 99 6 5 3684 3780 37219312 37219219 4.780000e-18 104.0
17 TraesCS7D01G066100 chr7D 94.444 36 1 1 5020 5054 36746545 36746510 5.000000e-03 54.7
18 TraesCS7D01G066100 chr7D 94.444 36 1 1 5049 5084 36746574 36746540 5.000000e-03 54.7
19 TraesCS7D01G066100 chr7D 94.444 36 1 1 5020 5054 37217978 37217943 5.000000e-03 54.7
20 TraesCS7D01G066100 chr4A 94.054 5735 251 44 2450 8133 689072514 689066819 0.000000e+00 8619.0
21 TraesCS7D01G066100 chr4A 93.917 5737 253 46 2450 8133 689095899 689090206 0.000000e+00 8573.0
22 TraesCS7D01G066100 chr4A 92.288 2762 175 10 5433 8179 688972810 688970072 0.000000e+00 3886.0
23 TraesCS7D01G066100 chr4A 94.010 1252 66 7 659 1904 689080998 689079750 0.000000e+00 1888.0
24 TraesCS7D01G066100 chr4A 80.093 2587 430 53 5463 8026 686593289 686590765 0.000000e+00 1845.0
25 TraesCS7D01G066100 chr4A 79.366 2588 447 57 5463 8026 686627346 686624822 0.000000e+00 1740.0
26 TraesCS7D01G066100 chr4A 94.867 974 41 6 935 1904 689100782 689099814 0.000000e+00 1513.0
27 TraesCS7D01G066100 chr4A 77.580 2636 498 51 5460 8065 688643980 688641408 0.000000e+00 1507.0
28 TraesCS7D01G066100 chr4A 79.617 2036 367 34 6013 8026 686572129 686570120 0.000000e+00 1417.0
29 TraesCS7D01G066100 chr4A 87.830 986 110 10 4075 5054 688974060 688973079 0.000000e+00 1147.0
30 TraesCS7D01G066100 chr4A 89.462 911 58 17 1001 1904 688984859 688983980 0.000000e+00 1116.0
31 TraesCS7D01G066100 chr4A 94.316 563 30 2 8398 8958 689066362 689065800 0.000000e+00 861.0
32 TraesCS7D01G066100 chr4A 93.428 563 35 2 8398 8958 689089749 689089187 0.000000e+00 833.0
33 TraesCS7D01G066100 chr4A 94.695 509 26 1 8446 8954 688968844 688968337 0.000000e+00 789.0
34 TraesCS7D01G066100 chr4A 91.682 541 29 10 1918 2454 689096466 689095938 0.000000e+00 736.0
35 TraesCS7D01G066100 chr4A 91.107 551 33 10 1910 2454 689073093 689072553 0.000000e+00 732.0
36 TraesCS7D01G066100 chr4A 86.689 586 55 14 2458 3026 688981925 688981346 6.380000e-176 628.0
37 TraesCS7D01G066100 chr4A 91.148 305 23 4 5049 5350 688973113 688972810 2.520000e-110 411.0
38 TraesCS7D01G066100 chr4A 91.753 194 16 0 3717 3910 688980908 688980715 4.450000e-68 270.0
39 TraesCS7D01G066100 chr4A 89.140 221 13 4 2233 2452 688982182 688981972 2.070000e-66 265.0
40 TraesCS7D01G066100 chr4A 95.181 83 4 0 3951 4033 688974154 688974072 2.190000e-26 132.0
41 TraesCS7D01G066100 chr4A 79.545 88 15 3 4215 4300 686594611 686594525 1.050000e-04 60.2
42 TraesCS7D01G066100 chr4A 81.818 66 12 0 4235 4300 686628647 686628582 1.000000e-03 56.5
43 TraesCS7D01G066100 chr4A 94.444 36 1 1 5049 5084 689069931 689069897 5.000000e-03 54.7
44 TraesCS7D01G066100 chr4A 94.444 36 1 1 5049 5084 689093314 689093280 5.000000e-03 54.7
45 TraesCS7D01G066100 chr1B 92.489 4540 292 22 3672 8179 567716561 567712039 0.000000e+00 6449.0
46 TraesCS7D01G066100 chr1B 93.825 1247 55 10 659 1904 567721847 567720622 0.000000e+00 1857.0
47 TraesCS7D01G066100 chr1B 92.674 546 31 4 1910 2454 567718448 567717911 0.000000e+00 778.0
48 TraesCS7D01G066100 chr1B 83.154 558 49 20 3001 3518 567717357 567716805 1.470000e-127 468.0
49 TraesCS7D01G066100 chr1B 83.271 532 60 24 2450 2960 567717872 567717349 6.850000e-126 462.0
50 TraesCS7D01G066100 chr7A 93.064 3114 185 16 5049 8156 36546031 36542943 0.000000e+00 4525.0
51 TraesCS7D01G066100 chr7A 94.779 1245 60 3 665 1904 36553722 36552478 0.000000e+00 1934.0
52 TraesCS7D01G066100 chr7A 78.771 2718 458 71 5352 8037 36371750 36369120 0.000000e+00 1712.0
53 TraesCS7D01G066100 chr7A 89.870 997 97 4 4060 5054 36546991 36545997 0.000000e+00 1279.0
54 TraesCS7D01G066100 chr7A 91.653 599 41 8 8363 8958 36538115 36537523 0.000000e+00 821.0
55 TraesCS7D01G066100 chr7A 88.419 544 56 6 1093 1631 36496067 36495526 0.000000e+00 649.0
56 TraesCS7D01G066100 chr7A 82.878 549 67 12 1092 1640 36334790 36334269 1.470000e-127 468.0
57 TraesCS7D01G066100 chr7A 81.958 521 64 13 2838 3332 36549059 36548543 1.940000e-111 414.0
58 TraesCS7D01G066100 chr7A 93.750 80 5 0 3941 4020 36547367 36547288 4.750000e-23 121.0
59 TraesCS7D01G066100 chr7A 77.193 228 33 11 4921 5143 36372289 36372076 2.210000e-21 115.0
60 TraesCS7D01G066100 chrUn 79.082 2768 477 59 5443 8175 135325940 135328640 0.000000e+00 1810.0
61 TraesCS7D01G066100 chrUn 80.000 1830 286 47 5443 7248 212198683 212200456 0.000000e+00 1279.0
62 TraesCS7D01G066100 chrUn 80.594 1381 208 28 5443 6803 245494471 245495811 0.000000e+00 1011.0
63 TraesCS7D01G066100 chrUn 88.419 544 56 6 1093 1631 82051427 82051968 0.000000e+00 649.0
64 TraesCS7D01G066100 chrUn 90.632 459 42 1 1171 1628 91112420 91111962 8.310000e-170 608.0
65 TraesCS7D01G066100 chrUn 86.396 419 34 15 3008 3412 477761236 477761645 4.150000e-118 436.0
66 TraesCS7D01G066100 chr6D 95.442 724 27 5 8956 9676 344313499 344314219 0.000000e+00 1149.0
67 TraesCS7D01G066100 chr6D 95.725 655 27 1 1 655 400778847 400779500 0.000000e+00 1053.0
68 TraesCS7D01G066100 chr5D 95.442 724 26 6 8956 9676 385831657 385832376 0.000000e+00 1147.0
69 TraesCS7D01G066100 chr5D 95.021 723 34 2 8955 9676 380142138 380142859 0.000000e+00 1134.0
70 TraesCS7D01G066100 chr5D 96.037 656 25 1 1 655 451154838 451155493 0.000000e+00 1066.0
71 TraesCS7D01G066100 chr5D 94.030 67 4 0 8211 8277 82197230 82197296 1.720000e-17 102.0
72 TraesCS7D01G066100 chr4D 95.423 721 29 3 8958 9676 28535503 28534785 0.000000e+00 1146.0
73 TraesCS7D01G066100 chr4D 95.732 656 27 1 1 655 450164549 450163894 0.000000e+00 1055.0
74 TraesCS7D01G066100 chr4D 95.725 655 27 1 1 655 505518076 505517423 0.000000e+00 1053.0
75 TraesCS7D01G066100 chr1D 95.304 724 29 4 8956 9676 227677852 227678573 0.000000e+00 1144.0
76 TraesCS7D01G066100 chr3D 95.278 720 31 3 8958 9676 343728862 343729579 0.000000e+00 1138.0
77 TraesCS7D01G066100 chr3D 95.278 720 31 3 8958 9676 594921477 594920760 0.000000e+00 1138.0
78 TraesCS7D01G066100 chr3D 95.021 723 34 2 8955 9676 374948216 374948937 0.000000e+00 1134.0
79 TraesCS7D01G066100 chr3D 95.613 661 24 4 1 661 14054907 14054252 0.000000e+00 1055.0
80 TraesCS7D01G066100 chr2D 95.152 722 29 6 8958 9676 75264395 75265113 0.000000e+00 1134.0
81 TraesCS7D01G066100 chr2D 95.878 655 26 1 1 655 651076099 651075446 0.000000e+00 1059.0
82 TraesCS7D01G066100 chr2D 95.181 664 30 2 1 664 12809132 12808471 0.000000e+00 1048.0
83 TraesCS7D01G066100 chr2D 94.030 67 4 0 8211 8277 13855168 13855102 1.720000e-17 102.0
84 TraesCS7D01G066100 chr2D 92.537 67 5 0 8211 8277 380933248 380933182 8.000000e-16 97.1
85 TraesCS7D01G066100 chr7B 87.719 114 14 0 1791 1904 361957171 361957284 6.100000e-27 134.0
86 TraesCS7D01G066100 chr3B 100.000 67 0 0 8211 8277 197767855 197767921 3.670000e-24 124.0
87 TraesCS7D01G066100 chr6B 95.522 67 3 0 8211 8277 526045980 526045914 3.700000e-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 TraesCS7D01G066100 chr7D 36741918 36751593 9675 True 17869.000000 17869 100.000000 1 9676 1 chr7D.!!$R3 9675
1 TraesCS7D01G066100 chr7D 37213358 37224483 11125 True 1697.957143 7289 93.200857 656 8718 7 chr7D.!!$R8 8062
2 TraesCS7D01G066100 chr7D 36494555 36496761 2206 True 1519.000000 1519 79.421000 5451 7701 1 chr7D.!!$R1 2250
3 TraesCS7D01G066100 chr7D 36678991 36680401 1410 True 1068.000000 1068 80.594000 5523 6953 1 chr7D.!!$R2 1430
4 TraesCS7D01G066100 chr7D 597483930 597484583 653 True 1064.000000 1064 96.031000 1 655 1 chr7D.!!$R5 654
5 TraesCS7D01G066100 chr7D 617590356 617591010 654 False 1061.000000 1061 95.884000 1 655 1 chr7D.!!$F3 654
6 TraesCS7D01G066100 chr4A 689065800 689073093 7293 True 2566.675000 8619 93.480250 1910 8958 4 chr4A.!!$R8 7048
7 TraesCS7D01G066100 chr4A 689089187 689100782 11595 True 2341.940000 8573 93.667600 935 8958 5 chr4A.!!$R9 8023
8 TraesCS7D01G066100 chr4A 689079750 689080998 1248 True 1888.000000 1888 94.010000 659 1904 1 chr4A.!!$R3 1245
9 TraesCS7D01G066100 chr4A 688641408 688643980 2572 True 1507.000000 1507 77.580000 5460 8065 1 chr4A.!!$R2 2605
10 TraesCS7D01G066100 chr4A 686570120 686572129 2009 True 1417.000000 1417 79.617000 6013 8026 1 chr4A.!!$R1 2013
11 TraesCS7D01G066100 chr4A 688968337 688974154 5817 True 1273.000000 3886 92.228400 3951 8954 5 chr4A.!!$R6 5003
12 TraesCS7D01G066100 chr4A 686590765 686594611 3846 True 952.600000 1845 79.819000 4215 8026 2 chr4A.!!$R4 3811
13 TraesCS7D01G066100 chr4A 686624822 686628647 3825 True 898.250000 1740 80.592000 4235 8026 2 chr4A.!!$R5 3791
14 TraesCS7D01G066100 chr4A 688980715 688984859 4144 True 569.750000 1116 89.261000 1001 3910 4 chr4A.!!$R7 2909
15 TraesCS7D01G066100 chr1B 567712039 567721847 9808 True 2002.800000 6449 89.082600 659 8179 5 chr1B.!!$R1 7520
16 TraesCS7D01G066100 chr7A 36542943 36553722 10779 True 1654.600000 4525 90.684200 665 8156 5 chr7A.!!$R5 7491
17 TraesCS7D01G066100 chr7A 36369120 36372289 3169 True 913.500000 1712 77.982000 4921 8037 2 chr7A.!!$R4 3116
18 TraesCS7D01G066100 chr7A 36537523 36538115 592 True 821.000000 821 91.653000 8363 8958 1 chr7A.!!$R3 595
19 TraesCS7D01G066100 chr7A 36495526 36496067 541 True 649.000000 649 88.419000 1093 1631 1 chr7A.!!$R2 538
20 TraesCS7D01G066100 chr7A 36334269 36334790 521 True 468.000000 468 82.878000 1092 1640 1 chr7A.!!$R1 548
21 TraesCS7D01G066100 chrUn 135325940 135328640 2700 False 1810.000000 1810 79.082000 5443 8175 1 chrUn.!!$F2 2732
22 TraesCS7D01G066100 chrUn 212198683 212200456 1773 False 1279.000000 1279 80.000000 5443 7248 1 chrUn.!!$F3 1805
23 TraesCS7D01G066100 chrUn 245494471 245495811 1340 False 1011.000000 1011 80.594000 5443 6803 1 chrUn.!!$F4 1360
24 TraesCS7D01G066100 chrUn 82051427 82051968 541 False 649.000000 649 88.419000 1093 1631 1 chrUn.!!$F1 538
25 TraesCS7D01G066100 chr6D 344313499 344314219 720 False 1149.000000 1149 95.442000 8956 9676 1 chr6D.!!$F1 720
26 TraesCS7D01G066100 chr6D 400778847 400779500 653 False 1053.000000 1053 95.725000 1 655 1 chr6D.!!$F2 654
27 TraesCS7D01G066100 chr5D 385831657 385832376 719 False 1147.000000 1147 95.442000 8956 9676 1 chr5D.!!$F3 720
28 TraesCS7D01G066100 chr5D 380142138 380142859 721 False 1134.000000 1134 95.021000 8955 9676 1 chr5D.!!$F2 721
29 TraesCS7D01G066100 chr5D 451154838 451155493 655 False 1066.000000 1066 96.037000 1 655 1 chr5D.!!$F4 654
30 TraesCS7D01G066100 chr4D 28534785 28535503 718 True 1146.000000 1146 95.423000 8958 9676 1 chr4D.!!$R1 718
31 TraesCS7D01G066100 chr4D 450163894 450164549 655 True 1055.000000 1055 95.732000 1 655 1 chr4D.!!$R2 654
32 TraesCS7D01G066100 chr4D 505517423 505518076 653 True 1053.000000 1053 95.725000 1 655 1 chr4D.!!$R3 654
33 TraesCS7D01G066100 chr1D 227677852 227678573 721 False 1144.000000 1144 95.304000 8956 9676 1 chr1D.!!$F1 720
34 TraesCS7D01G066100 chr3D 343728862 343729579 717 False 1138.000000 1138 95.278000 8958 9676 1 chr3D.!!$F1 718
35 TraesCS7D01G066100 chr3D 594920760 594921477 717 True 1138.000000 1138 95.278000 8958 9676 1 chr3D.!!$R2 718
36 TraesCS7D01G066100 chr3D 374948216 374948937 721 False 1134.000000 1134 95.021000 8955 9676 1 chr3D.!!$F2 721
37 TraesCS7D01G066100 chr3D 14054252 14054907 655 True 1055.000000 1055 95.613000 1 661 1 chr3D.!!$R1 660
38 TraesCS7D01G066100 chr2D 75264395 75265113 718 False 1134.000000 1134 95.152000 8958 9676 1 chr2D.!!$F1 718
39 TraesCS7D01G066100 chr2D 651075446 651076099 653 True 1059.000000 1059 95.878000 1 655 1 chr2D.!!$R4 654
40 TraesCS7D01G066100 chr2D 12808471 12809132 661 True 1048.000000 1048 95.181000 1 664 1 chr2D.!!$R1 663

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
893 898 0.471591 AACCAAGCCAAGCCAATCCA 60.472 50.000 0.00 0.00 0.00 3.41 F
904 909 1.142465 AGCCAATCCAGCTTGATCGAT 59.858 47.619 0.00 0.00 37.24 3.59 F
2279 7802 1.043116 TACCGATCTGGCAGTCCCTG 61.043 60.000 15.27 3.53 43.94 4.45 F
3528 9278 1.745087 CGCAACATGGCCTAATCAACT 59.255 47.619 3.32 0.00 0.00 3.16 F
4332 11341 0.249447 CGCATCATCCGCTAGTTCCA 60.249 55.000 0.00 0.00 0.00 3.53 F
5921 13192 0.251742 CATGCCAACCCCAAGAGGAA 60.252 55.000 0.00 0.00 38.24 3.36 F
6109 13382 0.314302 CTTCCCTCGACGACAACACT 59.686 55.000 0.00 0.00 0.00 3.55 F
6628 13901 2.166459 CTCCGTGAGCTGGAAGTATTGA 59.834 50.000 0.00 0.00 34.44 2.57 F
8162 15469 2.046009 ATGGTGTGTACGGGTGTGCA 62.046 55.000 0.00 0.00 38.46 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2193 7715 0.551396 GTGGTAGGGGGCTTGCTTAT 59.449 55.000 0.00 0.00 0.00 1.73 R
2292 7815 1.395635 TGAATCCCAGTGCATGATGC 58.604 50.000 11.12 11.12 45.29 3.91 R
3558 9337 2.680841 GGTCAAAGGCGTACATTGCATA 59.319 45.455 0.00 0.00 0.00 3.14 R
4492 11501 0.988678 GGTTACAGGCTCCCCCTCAT 60.989 60.000 0.00 0.00 44.09 2.90 R
6090 13363 0.314302 AGTGTTGTCGTCGAGGGAAG 59.686 55.000 5.12 0.00 0.00 3.46 R
7695 14986 2.203294 ACCGTGCCCCTTGTGAAC 60.203 61.111 0.00 0.00 0.00 3.18 R
7989 15293 3.861886 GCAAGCCAAATAGCACACACAAT 60.862 43.478 0.00 0.00 34.23 2.71 R
8304 16789 2.169832 AGCACGCACTTGTATGAACT 57.830 45.000 0.00 0.00 0.00 3.01 R
9235 17764 0.249868 CACCTCCGAGTTCAGCACAA 60.250 55.000 0.00 0.00 0.00 3.33 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
31 32 9.204570 GAACCATCGCACTATATAATAACAAGT 57.795 33.333 0.00 0.00 0.00 3.16
127 130 2.140792 AAGAGGCTCACCACGGTGT 61.141 57.895 18.26 0.00 45.55 4.16
190 193 4.112341 GGGACGAGACGTGACGGG 62.112 72.222 10.66 0.00 41.37 5.28
338 341 2.677228 CAAATGCCCTCCCCTCGT 59.323 61.111 0.00 0.00 0.00 4.18
425 428 2.878406 CTCATTTGTCCAAGTTCGTGGT 59.122 45.455 4.88 0.00 39.88 4.16
480 483 2.760477 CCCATTGGTCCCGGTTCA 59.240 61.111 0.00 0.00 0.00 3.18
528 531 3.053896 GAACCGGGACCAAAGCCG 61.054 66.667 6.32 0.00 0.00 5.52
675 678 5.667626 AGTGGTAGTATGAAGGATTCCACAT 59.332 40.000 15.90 15.90 46.93 3.21
734 737 9.469807 TGCTATACACCACAAAAATTAAACAAG 57.530 29.630 0.00 0.00 0.00 3.16
781 786 6.664515 TGCTTAAACTGAAAGATTAACCGTG 58.335 36.000 0.00 0.00 36.45 4.94
865 870 1.551452 AGAAAGTAGGCTCAGCTCGT 58.449 50.000 0.00 0.00 0.00 4.18
893 898 0.471591 AACCAAGCCAAGCCAATCCA 60.472 50.000 0.00 0.00 0.00 3.41
904 909 1.142465 AGCCAATCCAGCTTGATCGAT 59.858 47.619 0.00 0.00 37.24 3.59
918 923 5.277731 GCTTGATCGATCAATTCTCTTTCCC 60.278 44.000 34.40 13.19 44.92 3.97
1420 1434 2.297895 TGGATGAACCAGGTCCGGG 61.298 63.158 6.49 6.49 44.64 5.73
1786 1801 5.535406 CCTATGTAGGTACACCTTCTACCTG 59.465 48.000 6.17 0.00 46.09 4.00
1832 1853 8.884323 AGATCCATGCTATCCTTGTATAGAAAA 58.116 33.333 0.00 0.00 32.13 2.29
1835 1856 9.866655 TCCATGCTATCCTTGTATAGAAAATTT 57.133 29.630 0.00 0.00 32.13 1.82
1883 1904 6.267471 AGAGGGCATTTGACATTGAAACTTTA 59.733 34.615 0.00 0.00 0.00 1.85
1904 1925 8.036575 ACTTTACAAGTCAACTACACACAAGTA 58.963 33.333 0.00 0.00 37.02 2.24
1908 5596 5.756195 AGTCAACTACACACAAGTACGTA 57.244 39.130 0.00 0.00 0.00 3.57
1979 7496 3.950397 TCGAGCAAAATATTCCACTGGT 58.050 40.909 0.00 0.00 0.00 4.00
2215 7737 2.998949 CAAGCCCCCTACCACTCC 59.001 66.667 0.00 0.00 0.00 3.85
2279 7802 1.043116 TACCGATCTGGCAGTCCCTG 61.043 60.000 15.27 3.53 43.94 4.45
2291 7814 3.784511 CAGTCCCTGCTATGGAATCAT 57.215 47.619 0.00 0.00 37.40 2.45
2292 7815 3.409570 CAGTCCCTGCTATGGAATCATG 58.590 50.000 0.00 0.00 34.96 3.07
2293 7816 2.157738 GTCCCTGCTATGGAATCATGC 58.842 52.381 0.00 0.00 34.96 4.06
2294 7817 1.776063 TCCCTGCTATGGAATCATGCA 59.224 47.619 0.00 0.00 36.62 3.96
2295 7818 2.377531 TCCCTGCTATGGAATCATGCAT 59.622 45.455 0.00 0.00 41.00 3.96
2296 7819 2.753452 CCCTGCTATGGAATCATGCATC 59.247 50.000 0.00 0.00 38.66 3.91
2297 7820 3.418047 CCTGCTATGGAATCATGCATCA 58.582 45.455 0.00 0.00 38.66 3.07
2565 8135 9.753674 AAATAAGTGGAACAATCTAGGATTTCA 57.246 29.630 0.00 0.00 44.16 2.69
2570 8140 6.655003 GTGGAACAATCTAGGATTTCAACTGA 59.345 38.462 0.00 0.00 44.16 3.41
2616 8188 3.884037 AGGAAGTTGTGGGACAATTCT 57.116 42.857 0.00 0.00 44.16 2.40
2631 8206 8.170061 TGGGACAATTCTGGATTATTATTAGGG 58.830 37.037 0.00 0.00 31.92 3.53
2795 8400 2.170397 ACAAAAAGGAAGCCAACTTGGG 59.830 45.455 9.95 0.00 38.19 4.12
2825 8430 6.263617 TCCATAGTAAGTGGTGGAACAAAAAC 59.736 38.462 0.00 0.00 44.16 2.43
2858 8464 7.462109 TGCAACAATTCAATACAACTTGTTC 57.538 32.000 0.00 0.00 37.80 3.18
2859 8465 7.264221 TGCAACAATTCAATACAACTTGTTCT 58.736 30.769 0.00 0.00 37.80 3.01
2925 8532 8.801882 TTATATTCGGACAAGAAAAGTGGAAT 57.198 30.769 0.00 0.00 33.43 3.01
3011 8622 7.884877 ACTGGAACAAATTACTCATGATGAAGA 59.115 33.333 0.00 0.00 38.70 2.87
3091 8703 9.665719 AACTGGAACAAAAATAAAATTGTCAGT 57.334 25.926 6.99 6.99 42.01 3.41
3121 8738 9.626045 AAAAACTCAACTAGTGAAACAGAAAAG 57.374 29.630 0.00 0.00 41.43 2.27
3178 8818 3.191791 CCACGATTACCGGTGGAAAATTT 59.808 43.478 19.93 0.00 43.93 1.82
3378 9103 6.479972 ACGACACTTAATATGGAATGGAGA 57.520 37.500 0.00 0.00 0.00 3.71
3469 9199 5.411361 ACACATACAAACGCATGTATCACTT 59.589 36.000 9.94 0.00 43.00 3.16
3470 9200 6.592220 ACACATACAAACGCATGTATCACTTA 59.408 34.615 9.94 0.00 43.00 2.24
3471 9201 7.279981 ACACATACAAACGCATGTATCACTTAT 59.720 33.333 9.94 0.00 43.00 1.73
3528 9278 1.745087 CGCAACATGGCCTAATCAACT 59.255 47.619 3.32 0.00 0.00 3.16
3558 9337 4.092116 GGATATAGTCCAGCTGCCTTTT 57.908 45.455 8.66 0.75 46.96 2.27
3595 9374 3.678056 TGACCTTACTCGCTTGACATT 57.322 42.857 0.00 0.00 0.00 2.71
3858 9751 4.163078 ACTGGCAGCACTTAGATGAATACT 59.837 41.667 15.89 0.00 35.00 2.12
3890 9783 3.067106 TGAAATGACAAACTCTCGGCTC 58.933 45.455 0.00 0.00 0.00 4.70
3999 10714 5.347342 TGCGAAAACATTGTCAAAACATCT 58.653 33.333 0.00 0.00 34.73 2.90
4208 11184 2.621055 GTTGTGGCTACATGGTTGAACA 59.379 45.455 2.83 0.00 36.53 3.18
4278 11254 4.697756 CGGTGAAGGAGGCGGCAA 62.698 66.667 13.08 0.00 0.00 4.52
4332 11341 0.249447 CGCATCATCCGCTAGTTCCA 60.249 55.000 0.00 0.00 0.00 3.53
4492 11501 3.268603 CGCACAACGCCACACTGA 61.269 61.111 0.00 0.00 37.30 3.41
4508 11517 0.399091 CTGATGAGGGGGAGCCTGTA 60.399 60.000 0.00 0.00 0.00 2.74
4580 11589 1.131315 GAAGGAAGCTTCGGCAATGTC 59.869 52.381 19.91 3.80 44.74 3.06
5422 12594 6.294397 GCAGGAAGACAAATCTGTGAAGAAAT 60.294 38.462 0.00 0.00 35.30 2.17
5423 12595 7.094634 GCAGGAAGACAAATCTGTGAAGAAATA 60.095 37.037 0.00 0.00 35.30 1.40
5424 12596 8.449397 CAGGAAGACAAATCTGTGAAGAAATAG 58.551 37.037 0.00 0.00 35.30 1.73
5425 12597 8.378565 AGGAAGACAAATCTGTGAAGAAATAGA 58.621 33.333 0.00 0.00 35.30 1.98
5426 12598 9.171877 GGAAGACAAATCTGTGAAGAAATAGAT 57.828 33.333 0.00 0.00 35.30 1.98
5438 12655 8.321353 TGTGAAGAAATAGATACAGTTGATGGT 58.679 33.333 0.00 0.00 0.00 3.55
5514 12778 1.135199 TCGGGAAATAGAGTGCACGAC 60.135 52.381 12.01 10.03 0.00 4.34
5637 12907 3.335183 TGGGTATCTAGATGGGAGGAGAG 59.665 52.174 15.79 0.00 0.00 3.20
5638 12908 3.335484 GGGTATCTAGATGGGAGGAGAGT 59.665 52.174 15.79 0.00 0.00 3.24
5921 13192 0.251742 CATGCCAACCCCAAGAGGAA 60.252 55.000 0.00 0.00 38.24 3.36
5938 13209 2.092699 AGGAACCATGAAGAGCTAAGCC 60.093 50.000 0.00 0.00 0.00 4.35
6000 13273 2.559668 CACATCTGGGCACAACTCATTT 59.440 45.455 0.00 0.00 0.00 2.32
6109 13382 0.314302 CTTCCCTCGACGACAACACT 59.686 55.000 0.00 0.00 0.00 3.55
6628 13901 2.166459 CTCCGTGAGCTGGAAGTATTGA 59.834 50.000 0.00 0.00 34.44 2.57
6641 13914 6.837312 TGGAAGTATTGAATATTCGGGACAT 58.163 36.000 10.80 1.66 0.00 3.06
7451 14742 7.054491 ACAAGCTTTCATTATTTGACAAGGT 57.946 32.000 0.00 0.00 36.07 3.50
7627 14918 7.406031 AGTCTCAACCTTCTTATTGTCGATA 57.594 36.000 0.00 0.00 0.00 2.92
7695 14986 3.937706 AGCTTGAGAAAATCATCTGGTCG 59.062 43.478 0.00 0.00 37.89 4.79
7805 15102 6.860023 CCTGTTGAGTTGAAAGAAGCAATTAG 59.140 38.462 0.00 0.00 0.00 1.73
8162 15469 2.046009 ATGGTGTGTACGGGTGTGCA 62.046 55.000 0.00 0.00 38.46 4.57
8175 15482 3.064931 GGGTGTGCACTGTAACTAAGAC 58.935 50.000 19.41 3.15 0.00 3.01
8179 15486 4.681942 GTGTGCACTGTAACTAAGACTGAG 59.318 45.833 19.41 0.00 0.00 3.35
8180 15487 4.583073 TGTGCACTGTAACTAAGACTGAGA 59.417 41.667 19.41 0.00 0.00 3.27
8182 15489 5.402867 GTGCACTGTAACTAAGACTGAGAAC 59.597 44.000 10.32 0.00 0.00 3.01
8183 15490 4.924462 GCACTGTAACTAAGACTGAGAACC 59.076 45.833 0.00 0.00 0.00 3.62
8184 15491 5.509163 GCACTGTAACTAAGACTGAGAACCA 60.509 44.000 0.00 0.00 0.00 3.67
8185 15492 6.692486 CACTGTAACTAAGACTGAGAACCAT 58.308 40.000 0.00 0.00 0.00 3.55
8186 15493 6.809196 CACTGTAACTAAGACTGAGAACCATC 59.191 42.308 0.00 0.00 0.00 3.51
8188 15495 7.179338 ACTGTAACTAAGACTGAGAACCATCAT 59.821 37.037 0.00 0.00 0.00 2.45
8189 15496 7.548097 TGTAACTAAGACTGAGAACCATCATC 58.452 38.462 0.00 0.00 0.00 2.92
8190 15497 6.865834 AACTAAGACTGAGAACCATCATCT 57.134 37.500 0.00 0.00 0.00 2.90
8191 15498 6.865834 ACTAAGACTGAGAACCATCATCTT 57.134 37.500 0.00 0.00 34.44 2.40
8192 15499 6.872920 ACTAAGACTGAGAACCATCATCTTC 58.127 40.000 0.00 0.00 33.30 2.87
8193 15500 5.752036 AAGACTGAGAACCATCATCTTCA 57.248 39.130 0.00 0.00 29.12 3.02
8194 15501 5.752036 AGACTGAGAACCATCATCTTCAA 57.248 39.130 0.00 0.00 0.00 2.69
8195 15502 6.310764 AGACTGAGAACCATCATCTTCAAT 57.689 37.500 0.00 0.00 0.00 2.57
8198 15505 8.324306 AGACTGAGAACCATCATCTTCAATAAA 58.676 33.333 0.00 0.00 0.00 1.40
8199 15506 8.868522 ACTGAGAACCATCATCTTCAATAAAA 57.131 30.769 0.00 0.00 0.00 1.52
8200 15507 8.734386 ACTGAGAACCATCATCTTCAATAAAAC 58.266 33.333 0.00 0.00 0.00 2.43
8201 15508 8.634335 TGAGAACCATCATCTTCAATAAAACA 57.366 30.769 0.00 0.00 0.00 2.83
8202 15509 8.514594 TGAGAACCATCATCTTCAATAAAACAC 58.485 33.333 0.00 0.00 0.00 3.32
8203 15510 7.830739 AGAACCATCATCTTCAATAAAACACC 58.169 34.615 0.00 0.00 0.00 4.16
8205 15512 5.943416 ACCATCATCTTCAATAAAACACCGA 59.057 36.000 0.00 0.00 0.00 4.69
8207 15514 6.914215 CCATCATCTTCAATAAAACACCGATG 59.086 38.462 0.00 0.00 0.00 3.84
8208 15515 6.435430 TCATCTTCAATAAAACACCGATGG 57.565 37.500 0.00 0.00 0.00 3.51
8210 15517 6.432783 TCATCTTCAATAAAACACCGATGGTT 59.567 34.615 0.00 0.00 37.33 3.67
8212 15519 5.533154 TCTTCAATAAAACACCGATGGTTGT 59.467 36.000 0.00 0.00 35.30 3.32
8213 15520 6.711194 TCTTCAATAAAACACCGATGGTTGTA 59.289 34.615 0.00 0.00 35.30 2.41
8214 15521 6.879276 TCAATAAAACACCGATGGTTGTAA 57.121 33.333 0.00 0.00 35.30 2.41
8216 15523 7.887381 TCAATAAAACACCGATGGTTGTAATT 58.113 30.769 0.00 0.00 35.30 1.40
8217 15524 8.361139 TCAATAAAACACCGATGGTTGTAATTT 58.639 29.630 0.00 0.00 35.30 1.82
8218 15525 8.643752 CAATAAAACACCGATGGTTGTAATTTC 58.356 33.333 0.00 0.00 35.30 2.17
8220 15527 6.399639 AAACACCGATGGTTGTAATTTCTT 57.600 33.333 0.00 0.00 33.20 2.52
8222 15529 5.768317 ACACCGATGGTTGTAATTTCTTTG 58.232 37.500 0.00 0.00 31.02 2.77
8223 15530 4.621034 CACCGATGGTTGTAATTTCTTTGC 59.379 41.667 0.00 0.00 31.02 3.68
8224 15531 3.851403 CCGATGGTTGTAATTTCTTTGCG 59.149 43.478 0.00 0.00 0.00 4.85
8225 15532 4.378978 CCGATGGTTGTAATTTCTTTGCGA 60.379 41.667 0.00 0.00 0.00 5.10
8226 15533 4.553429 CGATGGTTGTAATTTCTTTGCGAC 59.447 41.667 0.00 0.00 34.51 5.19
8227 15534 4.902443 TGGTTGTAATTTCTTTGCGACA 57.098 36.364 0.00 0.00 36.37 4.35
8228 15535 5.250235 TGGTTGTAATTTCTTTGCGACAA 57.750 34.783 0.00 0.00 36.37 3.18
8229 15536 5.277825 TGGTTGTAATTTCTTTGCGACAAG 58.722 37.500 0.00 0.00 36.37 3.16
8245 15552 3.297979 CGACAAGCATATCAACGTTTTGC 59.702 43.478 0.00 6.12 32.17 3.68
8248 15555 4.023279 ACAAGCATATCAACGTTTTGCTGA 60.023 37.500 19.46 7.33 42.50 4.26
8252 16567 5.402270 AGCATATCAACGTTTTGCTGAAAAC 59.598 36.000 18.55 3.00 45.13 2.43
8256 16571 4.109050 TCAACGTTTTGCTGAAAACCATC 58.891 39.130 0.00 0.00 45.61 3.51
8285 16600 6.909550 TTTTGCTGGAACCACTATTGTAAT 57.090 33.333 0.00 0.00 0.00 1.89
8287 16602 6.909550 TTGCTGGAACCACTATTGTAATTT 57.090 33.333 0.00 0.00 0.00 1.82
8288 16603 6.509418 TGCTGGAACCACTATTGTAATTTC 57.491 37.500 0.00 0.00 0.00 2.17
8290 16605 6.719370 TGCTGGAACCACTATTGTAATTTCTT 59.281 34.615 0.00 0.00 0.00 2.52
8335 16838 1.083489 TGCGTGCTAATGGTTGCTAC 58.917 50.000 0.00 0.00 0.00 3.58
8635 17160 5.416013 TCTCGTGAATTCTGTAGAGACATGT 59.584 40.000 7.05 0.00 34.24 3.21
8888 17416 9.855021 AAAAGTATAATTTACACATGTGAAGGC 57.145 29.630 31.94 11.14 0.00 4.35
9126 17655 1.589196 GTAGCGGTGCTTAGGCGAG 60.589 63.158 0.00 0.00 40.44 5.03
9229 17758 1.374343 TTCGAGGGACGTCATCGAGG 61.374 60.000 30.77 13.20 45.23 4.63
9235 17764 0.526662 GGACGTCATCGAGGTGAACT 59.473 55.000 18.91 0.00 40.62 3.01
9336 17865 1.468520 GTGCTAATGCTTCCGCTTTCA 59.531 47.619 0.00 0.00 40.48 2.69
9354 17883 2.867624 TCAGTCTACAAGGGTACGTGT 58.132 47.619 0.00 1.72 42.06 4.49
9407 17937 2.874086 CCATGATCATGTGTGTGCGTAT 59.126 45.455 29.23 0.00 37.11 3.06
9499 18032 3.550233 GCACGAGTAGAACACAAGTGAGA 60.550 47.826 7.28 0.00 38.37 3.27
9512 18045 0.385751 AGTGAGATGTGGGCGATACG 59.614 55.000 0.00 0.00 0.00 3.06
9624 18157 1.445582 CTGGTTCTACCGACGTGCC 60.446 63.158 0.00 0.00 42.58 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 130 4.847516 CGATCTCGTCGCCGGCAA 62.848 66.667 28.98 4.39 44.33 4.52
190 193 4.260253 CGAGATTTTTCTAGGTTTAGCGGC 60.260 45.833 0.00 0.00 0.00 6.53
355 358 0.605083 CAGAGCACTCCACACTGCTA 59.395 55.000 0.00 0.00 43.94 3.49
415 418 1.519408 CCGATTCCAACCACGAACTT 58.481 50.000 0.00 0.00 0.00 2.66
416 419 0.321298 CCCGATTCCAACCACGAACT 60.321 55.000 0.00 0.00 0.00 3.01
425 428 0.995803 TCCATTGGTCCCGATTCCAA 59.004 50.000 1.86 7.39 45.82 3.53
480 483 2.871096 TTTGTTCCGGTTCTAGGCAT 57.129 45.000 0.00 0.00 0.00 4.40
576 579 0.903924 TACGAACCGGGACCAATGGA 60.904 55.000 6.16 0.00 0.00 3.41
627 630 2.661718 AGAAAAAGGGGCTTTCGTTCA 58.338 42.857 0.00 0.00 37.76 3.18
781 786 4.454728 TGCAAGATCAATTTTGTAGCCC 57.545 40.909 0.00 0.00 0.00 5.19
865 870 0.260230 TTGGCTTGGTTTGGTGGAGA 59.740 50.000 0.00 0.00 0.00 3.71
904 909 2.436417 CAAGGCGGGAAAGAGAATTGA 58.564 47.619 0.00 0.00 0.00 2.57
918 923 1.202533 ACCGTCATAGATTCCAAGGCG 60.203 52.381 0.00 0.00 0.00 5.52
991 996 4.906618 TGTTCCTAGCTTTTCCTTCGAAT 58.093 39.130 0.00 0.00 0.00 3.34
1140 1145 1.945394 CTGTATTGGAGATGCACTGGC 59.055 52.381 0.00 0.00 41.68 4.85
1560 1574 4.738998 CCCAGTTGGATGGCCGCA 62.739 66.667 0.00 0.00 39.17 5.69
1786 1801 2.728690 TGATGCAAACTGAATGGTGC 57.271 45.000 0.00 0.00 37.51 5.01
1851 1872 4.846779 TGTCAAATGCCCTCTTGTTTAC 57.153 40.909 0.00 0.00 0.00 2.01
1852 1873 5.538053 TCAATGTCAAATGCCCTCTTGTTTA 59.462 36.000 0.00 0.00 0.00 2.01
1883 1904 4.802039 CGTACTTGTGTGTAGTTGACTTGT 59.198 41.667 0.00 0.00 0.00 3.16
1979 7496 8.950208 ATTTTTCCGTTCAGTTTTATTTTCCA 57.050 26.923 0.00 0.00 0.00 3.53
2193 7715 0.551396 GTGGTAGGGGGCTTGCTTAT 59.449 55.000 0.00 0.00 0.00 1.73
2215 7737 3.840124 AACCCTCCTTCCTAATAAGCG 57.160 47.619 0.00 0.00 0.00 4.68
2279 7802 3.770666 GCATGATGCATGATTCCATAGC 58.229 45.455 13.36 4.24 43.81 2.97
2292 7815 1.395635 TGAATCCCAGTGCATGATGC 58.604 50.000 11.12 11.12 45.29 3.91
2293 7816 3.977427 CATTGAATCCCAGTGCATGATG 58.023 45.455 0.00 0.00 0.00 3.07
2304 7827 1.683385 GGCCTTAGTGCATTGAATCCC 59.317 52.381 0.00 0.00 0.00 3.85
2494 8063 8.031277 GGATTATTTATTGATTCCAGCATGACC 58.969 37.037 0.00 0.00 39.69 4.02
2616 8188 9.753674 CTAATTCCTTGCCCTAATAATAATCCA 57.246 33.333 0.00 0.00 0.00 3.41
2631 8206 8.888579 TTGCTCTACTTATACTAATTCCTTGC 57.111 34.615 0.00 0.00 0.00 4.01
2795 8400 5.353394 TCCACCACTTACTATGGATTGTC 57.647 43.478 0.00 0.00 39.87 3.18
2825 8430 7.482474 TGTATTGAATTGTTGCATGGTGATAG 58.518 34.615 0.00 0.00 0.00 2.08
2935 8542 7.993183 ACTAATCTTGAATTATTCCACCGTGAT 59.007 33.333 0.00 0.00 0.00 3.06
3067 8678 8.550376 CCACTGACAATTTTATTTTTGTTCCAG 58.450 33.333 0.00 0.00 36.25 3.86
3148 8768 3.063452 CACCGGTAATCGTGGATTTCTTG 59.937 47.826 6.87 0.00 33.95 3.02
3178 8818 6.093495 CGCACCACTTAATCCTTTTTCAGATA 59.907 38.462 0.00 0.00 0.00 1.98
3378 9103 8.463930 TTGTGAGGAAAATTGTTCATTACTCT 57.536 30.769 1.72 0.00 0.00 3.24
3555 9334 5.157781 GTCAAAGGCGTACATTGCATAAAA 58.842 37.500 0.00 0.00 0.00 1.52
3558 9337 2.680841 GGTCAAAGGCGTACATTGCATA 59.319 45.455 0.00 0.00 0.00 3.14
3627 9406 3.320826 ACCAAAACGCCAGAAATTAAGCT 59.679 39.130 0.00 0.00 0.00 3.74
3710 9539 5.068198 AGGCTGACATTTAATTGTAGCATGG 59.932 40.000 20.66 5.17 32.57 3.66
3791 9620 4.703299 AGCATATGATTCCTCCCCTCATA 58.297 43.478 6.97 0.00 36.58 2.15
4073 11046 6.071984 AGTCAAAATGGTGTGGTGGTTTATA 58.928 36.000 0.00 0.00 0.00 0.98
4297 11273 2.586245 CGGATGCTTGCTCCTCCA 59.414 61.111 8.59 0.00 0.00 3.86
4332 11341 6.260936 TCGTTGCTCTTTTCTTTTTCATCTCT 59.739 34.615 0.00 0.00 0.00 3.10
4431 11440 3.097614 GCTTCACCCTAGTGTTCTCCTA 58.902 50.000 0.00 0.00 44.83 2.94
4492 11501 0.988678 GGTTACAGGCTCCCCCTCAT 60.989 60.000 0.00 0.00 44.09 2.90
4508 11517 1.002624 ACAATGGCGACCGATGGTT 60.003 52.632 0.00 0.00 35.25 3.67
4580 11589 1.339610 TGCTGGGACAATGTTTTTCCG 59.660 47.619 0.00 0.00 38.70 4.30
5350 12522 2.305635 TGGATTTGTCTTCCTGCAGCTA 59.694 45.455 8.66 0.00 34.17 3.32
5423 12595 8.704668 TGACATTGTATACCATCAACTGTATCT 58.295 33.333 0.00 0.00 0.00 1.98
5424 12596 8.887036 TGACATTGTATACCATCAACTGTATC 57.113 34.615 0.00 0.00 0.00 2.24
5425 12597 8.704668 TCTGACATTGTATACCATCAACTGTAT 58.295 33.333 0.00 0.00 0.00 2.29
5426 12598 8.073467 TCTGACATTGTATACCATCAACTGTA 57.927 34.615 0.00 0.00 0.00 2.74
5427 12599 6.946340 TCTGACATTGTATACCATCAACTGT 58.054 36.000 0.00 0.00 0.00 3.55
5428 12600 8.340443 CAATCTGACATTGTATACCATCAACTG 58.660 37.037 0.00 0.00 0.00 3.16
5445 12662 3.134623 AGCATCCGGAATACAATCTGACA 59.865 43.478 9.01 0.00 0.00 3.58
5446 12663 3.733337 AGCATCCGGAATACAATCTGAC 58.267 45.455 9.01 0.00 0.00 3.51
5447 12664 3.643320 AGAGCATCCGGAATACAATCTGA 59.357 43.478 9.01 0.00 33.66 3.27
5448 12665 4.000331 AGAGCATCCGGAATACAATCTG 58.000 45.455 9.01 0.00 33.66 2.90
5514 12778 1.205655 TGATCTGGAGCTGGTCTTTCG 59.794 52.381 6.83 0.00 0.00 3.46
5637 12907 5.703876 CTGAAAGCATTTTTGGTCTCCTAC 58.296 41.667 0.00 0.00 39.27 3.18
5638 12908 5.964958 CTGAAAGCATTTTTGGTCTCCTA 57.035 39.130 0.00 0.00 39.27 2.94
5921 13192 1.912043 ACTGGCTTAGCTCTTCATGGT 59.088 47.619 3.59 0.00 0.00 3.55
5938 13209 1.300388 GCAGGGCTTTGTGCAACTG 60.300 57.895 0.00 0.00 45.10 3.16
6090 13363 0.314302 AGTGTTGTCGTCGAGGGAAG 59.686 55.000 5.12 0.00 0.00 3.46
6109 13382 0.400213 ATCAAGGTTGACCGCCTGAA 59.600 50.000 0.00 0.00 40.49 3.02
6281 13554 7.716560 TGGTTATGAATCCATGAACTACATCAG 59.283 37.037 0.00 0.00 37.07 2.90
6628 13901 3.149196 GCACATGGATGTCCCGAATATT 58.851 45.455 0.00 0.00 39.39 1.28
6641 13914 1.297689 GCAGACTCAGGCACATGGA 59.702 57.895 0.00 0.00 0.00 3.41
7451 14742 4.855340 AGTCACCTTGGAAACTTTCTCAA 58.145 39.130 1.57 4.06 0.00 3.02
7627 14918 3.776969 TCTATCTTGGTGATGGCAGAACT 59.223 43.478 0.00 0.00 36.65 3.01
7695 14986 2.203294 ACCGTGCCCCTTGTGAAC 60.203 61.111 0.00 0.00 0.00 3.18
7829 15126 7.589958 TGGTTTTCTGGTTTGTTGTGTATAT 57.410 32.000 0.00 0.00 0.00 0.86
7989 15293 3.861886 GCAAGCCAAATAGCACACACAAT 60.862 43.478 0.00 0.00 34.23 2.71
8162 15469 6.493802 TGATGGTTCTCAGTCTTAGTTACAGT 59.506 38.462 0.00 0.00 0.00 3.55
8175 15482 8.733458 TGTTTTATTGAAGATGATGGTTCTCAG 58.267 33.333 0.00 0.00 0.00 3.35
8179 15486 6.747280 CGGTGTTTTATTGAAGATGATGGTTC 59.253 38.462 0.00 0.00 0.00 3.62
8180 15487 6.432783 TCGGTGTTTTATTGAAGATGATGGTT 59.567 34.615 0.00 0.00 0.00 3.67
8182 15489 6.435430 TCGGTGTTTTATTGAAGATGATGG 57.565 37.500 0.00 0.00 0.00 3.51
8183 15490 6.914215 CCATCGGTGTTTTATTGAAGATGATG 59.086 38.462 0.00 0.00 37.12 3.07
8184 15491 6.603201 ACCATCGGTGTTTTATTGAAGATGAT 59.397 34.615 0.00 0.00 37.12 2.45
8185 15492 5.943416 ACCATCGGTGTTTTATTGAAGATGA 59.057 36.000 0.00 0.00 37.12 2.92
8186 15493 6.194796 ACCATCGGTGTTTTATTGAAGATG 57.805 37.500 0.00 0.00 32.98 2.90
8188 15495 5.533154 ACAACCATCGGTGTTTTATTGAAGA 59.467 36.000 0.00 0.00 35.34 2.87
8189 15496 5.768317 ACAACCATCGGTGTTTTATTGAAG 58.232 37.500 0.00 0.00 35.34 3.02
8190 15497 5.776173 ACAACCATCGGTGTTTTATTGAA 57.224 34.783 0.00 0.00 35.34 2.69
8191 15498 6.879276 TTACAACCATCGGTGTTTTATTGA 57.121 33.333 0.00 0.00 35.34 2.57
8192 15499 8.527567 AAATTACAACCATCGGTGTTTTATTG 57.472 30.769 0.00 0.00 35.34 1.90
8193 15500 8.581578 AGAAATTACAACCATCGGTGTTTTATT 58.418 29.630 0.00 0.00 35.34 1.40
8194 15501 8.117813 AGAAATTACAACCATCGGTGTTTTAT 57.882 30.769 0.00 0.00 35.34 1.40
8195 15502 7.513371 AGAAATTACAACCATCGGTGTTTTA 57.487 32.000 0.00 0.00 35.34 1.52
8198 15505 6.212955 CAAAGAAATTACAACCATCGGTGTT 58.787 36.000 0.00 0.00 35.34 3.32
8199 15506 5.768317 CAAAGAAATTACAACCATCGGTGT 58.232 37.500 0.00 0.00 35.34 4.16
8200 15507 4.621034 GCAAAGAAATTACAACCATCGGTG 59.379 41.667 0.00 0.00 35.34 4.94
8201 15508 4.614993 CGCAAAGAAATTACAACCATCGGT 60.615 41.667 0.00 0.00 37.65 4.69
8202 15509 3.851403 CGCAAAGAAATTACAACCATCGG 59.149 43.478 0.00 0.00 0.00 4.18
8203 15510 4.553429 GTCGCAAAGAAATTACAACCATCG 59.447 41.667 0.00 0.00 0.00 3.84
8205 15512 5.446143 TGTCGCAAAGAAATTACAACCAT 57.554 34.783 0.00 0.00 0.00 3.55
8207 15514 4.148174 GCTTGTCGCAAAGAAATTACAACC 59.852 41.667 1.56 0.00 38.92 3.77
8208 15515 5.237419 GCTTGTCGCAAAGAAATTACAAC 57.763 39.130 1.56 0.00 38.92 3.32
8218 15525 9.622990 CAAAACGTTGATATGCTTGTCGCAAAG 62.623 40.741 0.00 0.00 44.26 2.77
8220 15527 6.563674 CAAAACGTTGATATGCTTGTCGCAA 61.564 40.000 0.00 0.00 44.26 4.85
8222 15529 2.806288 AACGTTGATATGCTTGTCGC 57.194 45.000 0.00 0.00 39.77 5.19
8223 15530 3.297979 GCAAAACGTTGATATGCTTGTCG 59.702 43.478 16.61 0.00 36.83 4.35
8224 15531 4.321745 CAGCAAAACGTTGATATGCTTGTC 59.678 41.667 21.29 9.36 44.43 3.18
8225 15532 4.023279 TCAGCAAAACGTTGATATGCTTGT 60.023 37.500 21.29 5.98 44.43 3.16
8226 15533 4.475028 TCAGCAAAACGTTGATATGCTTG 58.525 39.130 21.29 17.41 44.43 4.01
8227 15534 4.764679 TCAGCAAAACGTTGATATGCTT 57.235 36.364 21.29 9.85 44.43 3.91
8229 15536 5.598783 GTTTTCAGCAAAACGTTGATATGC 58.401 37.500 16.30 16.30 41.50 3.14
8240 15547 7.862512 AAAAATGAGATGGTTTTCAGCAAAA 57.137 28.000 0.00 0.00 33.49 2.44
8267 16582 8.576442 ACAAAGAAATTACAATAGTGGTTCCAG 58.424 33.333 0.00 0.00 0.00 3.86
8268 16583 8.472007 ACAAAGAAATTACAATAGTGGTTCCA 57.528 30.769 0.00 0.00 0.00 3.53
8304 16789 2.169832 AGCACGCACTTGTATGAACT 57.830 45.000 0.00 0.00 0.00 3.01
8635 17160 1.412710 CTAATGGCCTTCGAGGTAGCA 59.587 52.381 3.32 0.00 37.80 3.49
8803 17330 2.544267 GGTTCAGTTGTCTTTCGTCCAG 59.456 50.000 0.00 0.00 0.00 3.86
8813 17340 2.548057 TCGATTGCAAGGTTCAGTTGTC 59.452 45.455 4.94 0.00 0.00 3.18
9229 17758 1.261619 CCGAGTTCAGCACAAGTTCAC 59.738 52.381 0.00 0.00 0.00 3.18
9235 17764 0.249868 CACCTCCGAGTTCAGCACAA 60.250 55.000 0.00 0.00 0.00 3.33
9336 17865 3.503748 GTGTACACGTACCCTTGTAGACT 59.496 47.826 10.84 0.00 38.70 3.24
9354 17883 0.697079 ACGAGAGGGGAGAGTGTGTA 59.303 55.000 0.00 0.00 0.00 2.90
9499 18032 1.040646 ATGACTCGTATCGCCCACAT 58.959 50.000 0.00 0.00 0.00 3.21
9624 18157 2.558286 CCAGCCACCTGTGTGCAAG 61.558 63.158 11.51 0.00 41.35 4.01


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

AutoCloner maintained by Alex Coulton.