Multiple sequence alignment - TraesCS7B01G332400

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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 TraesCS7B01G332400 chr7B 100.000 3311 0 0 1 3311 587964299 587967609 0.000000e+00 6115.0
1 TraesCS7B01G332400 chr7B 90.213 705 49 12 2610 3311 111968979 111968292 0.000000e+00 902.0
2 TraesCS7B01G332400 chr7B 87.165 709 48 24 2608 3311 159000799 159001469 0.000000e+00 765.0
3 TraesCS7B01G332400 chr7B 77.736 530 77 22 1330 1859 693793832 693794320 1.500000e-73 287.0
4 TraesCS7B01G332400 chr7B 93.407 182 9 3 2385 2565 663485616 663485795 1.960000e-67 267.0
5 TraesCS7B01G332400 chr7D 90.713 2315 132 35 99 2381 544556712 544558975 0.000000e+00 3007.0
6 TraesCS7B01G332400 chr7D 92.917 720 35 3 2608 3311 45126790 45127509 0.000000e+00 1033.0
7 TraesCS7B01G332400 chr7A 89.366 1420 89 30 991 2381 625752777 625754163 0.000000e+00 1729.0
8 TraesCS7B01G332400 chr7A 87.520 625 38 16 171 773 625752145 625752751 0.000000e+00 686.0
9 TraesCS7B01G332400 chr7A 100.000 34 0 0 829 862 625752745 625752778 2.760000e-06 63.9
10 TraesCS7B01G332400 chr6A 87.141 1322 128 20 1076 2377 586817214 586815915 0.000000e+00 1461.0
11 TraesCS7B01G332400 chr6B 87.213 1306 119 25 1089 2381 663692353 663691083 0.000000e+00 1443.0
12 TraesCS7B01G332400 chr6B 91.389 720 38 9 2610 3311 695268324 695269037 0.000000e+00 965.0
13 TraesCS7B01G332400 chr6B 91.074 717 47 4 2609 3311 25970380 25971093 0.000000e+00 953.0
14 TraesCS7B01G332400 chr6B 78.947 285 36 15 1 273 663693517 663693245 4.390000e-39 172.0
15 TraesCS7B01G332400 chr6D 87.520 1250 119 18 1077 2314 438300351 438299127 0.000000e+00 1410.0
16 TraesCS7B01G332400 chr6D 80.071 281 38 11 1 273 438301850 438301580 3.370000e-45 193.0
17 TraesCS7B01G332400 chr6D 84.916 179 14 9 723 895 438300732 438300561 5.680000e-38 169.0
18 TraesCS7B01G332400 chr1B 92.618 718 37 5 2608 3311 456431957 456431242 0.000000e+00 1018.0
19 TraesCS7B01G332400 chr1B 91.353 717 46 4 2608 3311 90269262 90268549 0.000000e+00 966.0
20 TraesCS7B01G332400 chr1B 88.089 722 67 11 2607 3311 332764385 332763666 0.000000e+00 839.0
21 TraesCS7B01G332400 chr1B 91.951 410 16 4 2608 3000 623720513 623720104 2.890000e-155 558.0
22 TraesCS7B01G332400 chr1B 90.998 411 18 8 2608 3000 133266749 133266340 1.350000e-148 536.0
23 TraesCS7B01G332400 chr4B 91.377 719 43 7 2610 3311 498924700 498925416 0.000000e+00 966.0
24 TraesCS7B01G332400 chr4B 91.881 505 24 5 2608 3095 38636021 38636525 0.000000e+00 689.0
25 TraesCS7B01G332400 chr4B 94.752 343 15 3 2608 2948 527630068 527629727 6.290000e-147 531.0
26 TraesCS7B01G332400 chr4B 78.723 188 17 6 2386 2563 445242961 445242787 1.630000e-18 104.0
27 TraesCS7B01G332400 chrUn 90.678 708 47 12 2610 3311 39248892 39248198 0.000000e+00 924.0
28 TraesCS7B01G332400 chr3B 88.595 719 61 11 2611 3311 529409484 529408769 0.000000e+00 854.0
29 TraesCS7B01G332400 chr3B 90.441 408 21 4 2611 3000 284636256 284635849 3.790000e-144 521.0
30 TraesCS7B01G332400 chr2B 93.583 187 12 0 2379 2565 529593994 529593808 2.520000e-71 279.0
31 TraesCS7B01G332400 chr2B 93.956 182 10 1 2385 2565 582314998 582315179 1.170000e-69 274.0
32 TraesCS7B01G332400 chr2B 93.514 185 10 2 2385 2569 650478327 650478145 1.170000e-69 274.0
33 TraesCS7B01G332400 chr2B 93.923 181 10 1 2385 2565 772833259 772833080 4.210000e-69 272.0
34 TraesCS7B01G332400 chr2B 93.370 181 10 2 2385 2565 391452329 391452507 1.960000e-67 267.0
35 TraesCS7B01G332400 chr2B 93.855 179 8 3 2385 2563 474281061 474280886 1.960000e-67 267.0
36 TraesCS7B01G332400 chr2B 92.896 183 11 2 2386 2567 798983540 798983359 7.050000e-67 265.0
37 TraesCS7B01G332400 chr5B 93.889 180 8 3 2385 2562 34558165 34558343 5.450000e-68 268.0


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 TraesCS7B01G332400 chr7B 587964299 587967609 3310 False 6115.000000 6115 100.000000 1 3311 1 chr7B.!!$F2 3310
1 TraesCS7B01G332400 chr7B 111968292 111968979 687 True 902.000000 902 90.213000 2610 3311 1 chr7B.!!$R1 701
2 TraesCS7B01G332400 chr7B 159000799 159001469 670 False 765.000000 765 87.165000 2608 3311 1 chr7B.!!$F1 703
3 TraesCS7B01G332400 chr7D 544556712 544558975 2263 False 3007.000000 3007 90.713000 99 2381 1 chr7D.!!$F2 2282
4 TraesCS7B01G332400 chr7D 45126790 45127509 719 False 1033.000000 1033 92.917000 2608 3311 1 chr7D.!!$F1 703
5 TraesCS7B01G332400 chr7A 625752145 625754163 2018 False 826.300000 1729 92.295333 171 2381 3 chr7A.!!$F1 2210
6 TraesCS7B01G332400 chr6A 586815915 586817214 1299 True 1461.000000 1461 87.141000 1076 2377 1 chr6A.!!$R1 1301
7 TraesCS7B01G332400 chr6B 695268324 695269037 713 False 965.000000 965 91.389000 2610 3311 1 chr6B.!!$F2 701
8 TraesCS7B01G332400 chr6B 25970380 25971093 713 False 953.000000 953 91.074000 2609 3311 1 chr6B.!!$F1 702
9 TraesCS7B01G332400 chr6B 663691083 663693517 2434 True 807.500000 1443 83.080000 1 2381 2 chr6B.!!$R1 2380
10 TraesCS7B01G332400 chr6D 438299127 438301850 2723 True 590.666667 1410 84.169000 1 2314 3 chr6D.!!$R1 2313
11 TraesCS7B01G332400 chr1B 456431242 456431957 715 True 1018.000000 1018 92.618000 2608 3311 1 chr1B.!!$R4 703
12 TraesCS7B01G332400 chr1B 90268549 90269262 713 True 966.000000 966 91.353000 2608 3311 1 chr1B.!!$R1 703
13 TraesCS7B01G332400 chr1B 332763666 332764385 719 True 839.000000 839 88.089000 2607 3311 1 chr1B.!!$R3 704
14 TraesCS7B01G332400 chr4B 498924700 498925416 716 False 966.000000 966 91.377000 2610 3311 1 chr4B.!!$F2 701
15 TraesCS7B01G332400 chr4B 38636021 38636525 504 False 689.000000 689 91.881000 2608 3095 1 chr4B.!!$F1 487
16 TraesCS7B01G332400 chrUn 39248198 39248892 694 True 924.000000 924 90.678000 2610 3311 1 chrUn.!!$R1 701
17 TraesCS7B01G332400 chr3B 529408769 529409484 715 True 854.000000 854 88.595000 2611 3311 1 chr3B.!!$R2 700

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
920 1484 0.034767 TCCGTCGTCCTCCACACTAT 60.035 55.0 0.0 0.0 0.0 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2445 3176 0.114364 GGGGTGGGAAGGTTTGTGAT 59.886 55.0 0.0 0.0 0.0 3.06 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
73 74 2.756840 ACCGGTTTACTAGTTCTGCC 57.243 50.000 0.00 0.00 0.00 4.85
76 77 3.072038 ACCGGTTTACTAGTTCTGCCTTT 59.928 43.478 0.00 0.00 0.00 3.11
79 80 4.153655 CGGTTTACTAGTTCTGCCTTTTCC 59.846 45.833 0.00 0.00 0.00 3.13
80 81 5.314529 GGTTTACTAGTTCTGCCTTTTCCT 58.685 41.667 0.00 0.00 0.00 3.36
81 82 5.768662 GGTTTACTAGTTCTGCCTTTTCCTT 59.231 40.000 0.00 0.00 0.00 3.36
82 83 6.294010 GGTTTACTAGTTCTGCCTTTTCCTTG 60.294 42.308 0.00 0.00 0.00 3.61
85 86 6.374417 ACTAGTTCTGCCTTTTCCTTGATA 57.626 37.500 0.00 0.00 0.00 2.15
86 87 6.174049 ACTAGTTCTGCCTTTTCCTTGATAC 58.826 40.000 0.00 0.00 0.00 2.24
96 97 7.933577 TGCCTTTTCCTTGATACTATGATAGTG 59.066 37.037 15.08 0.00 39.81 2.74
257 267 5.679734 ATAATTTATCCGCTGACTGCTTG 57.320 39.130 2.66 0.00 40.11 4.01
259 269 0.613260 TTATCCGCTGACTGCTTGGT 59.387 50.000 2.66 0.00 40.11 3.67
297 312 3.791973 AACTGAAATTTTGTCACGGCA 57.208 38.095 0.00 0.00 0.00 5.69
329 344 1.643292 CCTTGTACATGGCATCGCG 59.357 57.895 14.31 0.00 0.00 5.87
361 376 3.187211 GCGAGTGGCAGTATCTAGC 57.813 57.895 0.00 0.00 42.87 3.42
426 490 6.283161 ACGCTCACTCTTACAAAAACTTAC 57.717 37.500 0.00 0.00 0.00 2.34
464 737 6.588719 ATCCAAAGTGCAATAAACTAGCAA 57.411 33.333 0.00 0.00 40.35 3.91
465 738 5.768317 TCCAAAGTGCAATAAACTAGCAAC 58.232 37.500 0.00 0.00 40.35 4.17
466 739 5.300539 TCCAAAGTGCAATAAACTAGCAACA 59.699 36.000 0.00 0.00 40.35 3.33
467 740 5.402270 CCAAAGTGCAATAAACTAGCAACAC 59.598 40.000 0.00 0.00 40.35 3.32
468 741 6.208644 CAAAGTGCAATAAACTAGCAACACT 58.791 36.000 0.00 0.00 40.35 3.55
469 742 7.359595 CAAAGTGCAATAAACTAGCAACACTA 58.640 34.615 0.00 0.00 40.35 2.74
470 743 7.687941 AAGTGCAATAAACTAGCAACACTAT 57.312 32.000 0.00 0.00 40.35 2.12
471 744 7.076842 AGTGCAATAAACTAGCAACACTATG 57.923 36.000 0.00 0.00 40.35 2.23
472 745 5.739161 GTGCAATAAACTAGCAACACTATGC 59.261 40.000 0.00 0.00 46.78 3.14
481 754 2.821546 GCAACACTATGCGGATAGACA 58.178 47.619 28.14 0.00 36.45 3.41
482 755 2.540101 GCAACACTATGCGGATAGACAC 59.460 50.000 28.14 10.30 36.45 3.67
483 756 3.123804 CAACACTATGCGGATAGACACC 58.876 50.000 28.14 0.00 35.90 4.16
484 757 2.384828 ACACTATGCGGATAGACACCA 58.615 47.619 28.14 0.00 35.90 4.17
527 939 4.365505 TCCGTTGGATCACGCGCA 62.366 61.111 5.73 0.00 38.93 6.09
547 959 3.573598 CAGTTGGCATTGTAAATTCGCA 58.426 40.909 0.00 0.00 0.00 5.10
593 1009 2.171489 AAGCGCGCCGTCTCTTTTTC 62.171 55.000 30.33 0.00 0.00 2.29
597 1013 1.512156 GCGCCGTCTCTTTTTCCCAA 61.512 55.000 0.00 0.00 0.00 4.12
612 1028 1.379044 CCAACTGCTCCACATCCCC 60.379 63.158 0.00 0.00 0.00 4.81
651 1067 1.577922 TGTCTACGAGTGACACGGC 59.422 57.895 7.41 0.00 39.23 5.68
655 1071 2.137425 CTACGAGTGACACGGCCACA 62.137 60.000 2.24 0.00 37.01 4.17
657 1073 2.382746 CGAGTGACACGGCCACATG 61.383 63.158 2.24 0.00 37.01 3.21
658 1074 2.032528 AGTGACACGGCCACATGG 59.967 61.111 2.24 0.00 37.01 3.66
666 1082 1.218585 CGGCCACATGGGTACGTAA 59.781 57.895 2.24 0.00 39.65 3.18
686 1110 5.118050 CGTAACTCATTTTGTCTAGCGTGAA 59.882 40.000 0.00 0.00 0.00 3.18
693 1117 0.317160 TGTCTAGCGTGAACCACTGG 59.683 55.000 0.00 0.00 31.34 4.00
781 1341 4.631131 TCGATCCGACGACTAGGTAAATA 58.369 43.478 0.00 0.00 37.37 1.40
804 1368 2.586079 ATTCGCCGTGCAGATCCG 60.586 61.111 0.00 0.00 0.00 4.18
820 1384 4.467084 CGGATCGTGGGGTGGTGG 62.467 72.222 0.00 0.00 0.00 4.61
821 1385 4.109675 GGATCGTGGGGTGGTGGG 62.110 72.222 0.00 0.00 0.00 4.61
822 1386 4.796495 GATCGTGGGGTGGTGGGC 62.796 72.222 0.00 0.00 0.00 5.36
904 1468 4.980805 CCACCACCACCACGTCCG 62.981 72.222 0.00 0.00 0.00 4.79
905 1469 4.230002 CACCACCACCACGTCCGT 62.230 66.667 0.00 0.00 0.00 4.69
916 1480 3.359523 CGTCCGTCGTCCTCCACA 61.360 66.667 0.00 0.00 34.52 4.17
917 1481 2.257676 GTCCGTCGTCCTCCACAC 59.742 66.667 0.00 0.00 0.00 3.82
918 1482 2.114625 TCCGTCGTCCTCCACACT 59.885 61.111 0.00 0.00 0.00 3.55
919 1483 0.957395 GTCCGTCGTCCTCCACACTA 60.957 60.000 0.00 0.00 0.00 2.74
920 1484 0.034767 TCCGTCGTCCTCCACACTAT 60.035 55.000 0.00 0.00 0.00 2.12
1579 2262 3.003173 CCGAGTGGAAGGAGGCCA 61.003 66.667 5.01 0.00 37.49 5.36
1716 2399 4.124351 CACGAGAACGGCGGCCTA 62.124 66.667 18.34 0.00 44.46 3.93
1717 2400 3.823330 ACGAGAACGGCGGCCTAG 61.823 66.667 18.34 10.42 44.46 3.02
1936 2619 1.756561 ACGGCAGCAACCCAAAAGT 60.757 52.632 0.00 0.00 0.00 2.66
1939 2625 1.398958 GGCAGCAACCCAAAAGTCCA 61.399 55.000 0.00 0.00 0.00 4.02
2228 2932 3.415212 CCATGAAGCACAAGAAGAGGAA 58.585 45.455 0.00 0.00 0.00 3.36
2232 2936 3.389329 TGAAGCACAAGAAGAGGAAGTCT 59.611 43.478 0.00 0.00 36.94 3.24
2250 2954 2.093783 GTCTGTTCTACGCAAATTCGGG 59.906 50.000 0.00 0.00 0.00 5.14
2256 2960 2.940410 TCTACGCAAATTCGGGGATTTC 59.060 45.455 1.85 0.00 0.00 2.17
2332 3062 1.352114 ATTTGTGTGATGCGCATTGC 58.648 45.000 26.12 19.73 46.70 3.56
2359 3090 5.745312 TTGCATGATACCCCTACTATGAG 57.255 43.478 0.00 0.00 0.00 2.90
2368 3099 2.161808 CCCCTACTATGAGATACACGCG 59.838 54.545 3.53 3.53 0.00 6.01
2381 3112 7.088272 TGAGATACACGCGTAATAAATGCTAT 58.912 34.615 13.44 0.00 38.02 2.97
2382 3113 7.597369 TGAGATACACGCGTAATAAATGCTATT 59.403 33.333 13.44 0.00 38.02 1.73
2383 3114 8.975410 AGATACACGCGTAATAAATGCTATTA 57.025 30.769 13.44 0.00 38.02 0.98
2384 3115 8.857216 AGATACACGCGTAATAAATGCTATTAC 58.143 33.333 13.44 4.89 38.02 1.89
2385 3116 6.831727 ACACGCGTAATAAATGCTATTACA 57.168 33.333 13.44 0.00 39.24 2.41
2386 3117 7.236674 ACACGCGTAATAAATGCTATTACAA 57.763 32.000 13.44 0.00 39.24 2.41
2387 3118 7.686519 ACACGCGTAATAAATGCTATTACAAA 58.313 30.769 13.44 0.00 39.24 2.83
2388 3119 8.176365 ACACGCGTAATAAATGCTATTACAAAA 58.824 29.630 13.44 0.00 39.24 2.44
2389 3120 9.001049 CACGCGTAATAAATGCTATTACAAAAA 57.999 29.630 13.44 0.00 39.24 1.94
2390 3121 9.724839 ACGCGTAATAAATGCTATTACAAAAAT 57.275 25.926 11.67 0.00 39.24 1.82
2391 3122 9.973049 CGCGTAATAAATGCTATTACAAAAATG 57.027 29.630 0.00 0.63 39.24 2.32
2392 3123 9.777843 GCGTAATAAATGCTATTACAAAAATGC 57.222 29.630 12.33 5.25 39.24 3.56
2402 3133 9.389755 TGCTATTACAAAAATGCTAGACATACA 57.610 29.630 0.00 0.00 38.34 2.29
2432 3163 8.760103 TTTGTAAAAACCTGTAAACTGTTTCC 57.240 30.769 9.38 0.00 0.00 3.13
2433 3164 7.463961 TGTAAAAACCTGTAAACTGTTTCCA 57.536 32.000 9.38 3.58 0.00 3.53
2434 3165 8.068892 TGTAAAAACCTGTAAACTGTTTCCAT 57.931 30.769 9.38 0.00 0.00 3.41
2435 3166 8.192110 TGTAAAAACCTGTAAACTGTTTCCATC 58.808 33.333 9.38 0.69 0.00 3.51
2436 3167 7.418337 AAAAACCTGTAAACTGTTTCCATCT 57.582 32.000 9.38 0.00 0.00 2.90
2437 3168 8.528044 AAAAACCTGTAAACTGTTTCCATCTA 57.472 30.769 9.38 0.00 0.00 1.98
2438 3169 8.528044 AAAACCTGTAAACTGTTTCCATCTAA 57.472 30.769 9.38 0.00 0.00 2.10
2439 3170 7.506328 AACCTGTAAACTGTTTCCATCTAAC 57.494 36.000 9.38 1.31 0.00 2.34
2440 3171 6.597562 ACCTGTAAACTGTTTCCATCTAACA 58.402 36.000 9.38 5.91 34.55 2.41
2441 3172 7.057894 ACCTGTAAACTGTTTCCATCTAACAA 58.942 34.615 9.38 0.00 35.28 2.83
2442 3173 7.012989 ACCTGTAAACTGTTTCCATCTAACAAC 59.987 37.037 9.38 0.00 35.28 3.32
2443 3174 7.266922 TGTAAACTGTTTCCATCTAACAACC 57.733 36.000 9.38 0.00 35.28 3.77
2444 3175 6.829298 TGTAAACTGTTTCCATCTAACAACCA 59.171 34.615 9.38 0.00 35.28 3.67
2445 3176 6.783708 AAACTGTTTCCATCTAACAACCAA 57.216 33.333 0.00 0.00 35.28 3.67
2446 3177 6.976934 AACTGTTTCCATCTAACAACCAAT 57.023 33.333 0.00 0.00 35.28 3.16
2447 3178 6.575162 ACTGTTTCCATCTAACAACCAATC 57.425 37.500 0.00 0.00 35.28 2.67
2448 3179 6.068010 ACTGTTTCCATCTAACAACCAATCA 58.932 36.000 0.00 0.00 35.28 2.57
2449 3180 6.016276 ACTGTTTCCATCTAACAACCAATCAC 60.016 38.462 0.00 0.00 35.28 3.06
2450 3181 5.830457 TGTTTCCATCTAACAACCAATCACA 59.170 36.000 0.00 0.00 32.89 3.58
2451 3182 6.322456 TGTTTCCATCTAACAACCAATCACAA 59.678 34.615 0.00 0.00 32.89 3.33
2452 3183 6.968263 TTCCATCTAACAACCAATCACAAA 57.032 33.333 0.00 0.00 0.00 2.83
2453 3184 6.325919 TCCATCTAACAACCAATCACAAAC 57.674 37.500 0.00 0.00 0.00 2.93
2454 3185 5.242838 TCCATCTAACAACCAATCACAAACC 59.757 40.000 0.00 0.00 0.00 3.27
2455 3186 5.243730 CCATCTAACAACCAATCACAAACCT 59.756 40.000 0.00 0.00 0.00 3.50
2456 3187 6.239289 CCATCTAACAACCAATCACAAACCTT 60.239 38.462 0.00 0.00 0.00 3.50
2457 3188 6.385649 TCTAACAACCAATCACAAACCTTC 57.614 37.500 0.00 0.00 0.00 3.46
2458 3189 4.400529 AACAACCAATCACAAACCTTCC 57.599 40.909 0.00 0.00 0.00 3.46
2459 3190 2.698274 ACAACCAATCACAAACCTTCCC 59.302 45.455 0.00 0.00 0.00 3.97
2460 3191 2.697751 CAACCAATCACAAACCTTCCCA 59.302 45.455 0.00 0.00 0.00 4.37
2461 3192 2.316108 ACCAATCACAAACCTTCCCAC 58.684 47.619 0.00 0.00 0.00 4.61
2462 3193 1.618343 CCAATCACAAACCTTCCCACC 59.382 52.381 0.00 0.00 0.00 4.61
2463 3194 1.618343 CAATCACAAACCTTCCCACCC 59.382 52.381 0.00 0.00 0.00 4.61
2464 3195 0.114364 ATCACAAACCTTCCCACCCC 59.886 55.000 0.00 0.00 0.00 4.95
2465 3196 0.996762 TCACAAACCTTCCCACCCCT 60.997 55.000 0.00 0.00 0.00 4.79
2466 3197 0.827507 CACAAACCTTCCCACCCCTG 60.828 60.000 0.00 0.00 0.00 4.45
2467 3198 0.996762 ACAAACCTTCCCACCCCTGA 60.997 55.000 0.00 0.00 0.00 3.86
2468 3199 0.409484 CAAACCTTCCCACCCCTGAT 59.591 55.000 0.00 0.00 0.00 2.90
2469 3200 1.167033 AAACCTTCCCACCCCTGATT 58.833 50.000 0.00 0.00 0.00 2.57
2470 3201 1.167033 AACCTTCCCACCCCTGATTT 58.833 50.000 0.00 0.00 0.00 2.17
2471 3202 1.167033 ACCTTCCCACCCCTGATTTT 58.833 50.000 0.00 0.00 0.00 1.82
2472 3203 1.077169 ACCTTCCCACCCCTGATTTTC 59.923 52.381 0.00 0.00 0.00 2.29
2473 3204 1.077005 CCTTCCCACCCCTGATTTTCA 59.923 52.381 0.00 0.00 0.00 2.69
2474 3205 2.450476 CTTCCCACCCCTGATTTTCAG 58.550 52.381 0.00 0.00 43.91 3.02
2501 3232 4.003788 CCGTCCCGCTCACCTGTT 62.004 66.667 0.00 0.00 0.00 3.16
2502 3233 2.030562 CGTCCCGCTCACCTGTTT 59.969 61.111 0.00 0.00 0.00 2.83
2503 3234 2.317609 CGTCCCGCTCACCTGTTTG 61.318 63.158 0.00 0.00 0.00 2.93
2504 3235 2.281484 TCCCGCTCACCTGTTTGC 60.281 61.111 0.00 0.00 0.00 3.68
2505 3236 3.365265 CCCGCTCACCTGTTTGCC 61.365 66.667 0.00 0.00 0.00 4.52
2506 3237 2.594303 CCGCTCACCTGTTTGCCA 60.594 61.111 0.00 0.00 0.00 4.92
2507 3238 2.192861 CCGCTCACCTGTTTGCCAA 61.193 57.895 0.00 0.00 0.00 4.52
2508 3239 1.526575 CCGCTCACCTGTTTGCCAAT 61.527 55.000 0.00 0.00 0.00 3.16
2509 3240 1.164411 CGCTCACCTGTTTGCCAATA 58.836 50.000 0.00 0.00 0.00 1.90
2510 3241 1.539388 CGCTCACCTGTTTGCCAATAA 59.461 47.619 0.00 0.00 0.00 1.40
2511 3242 2.030363 CGCTCACCTGTTTGCCAATAAA 60.030 45.455 0.00 0.00 0.00 1.40
2512 3243 3.551863 CGCTCACCTGTTTGCCAATAAAA 60.552 43.478 0.00 0.00 0.00 1.52
2513 3244 4.376146 GCTCACCTGTTTGCCAATAAAAA 58.624 39.130 0.00 0.00 0.00 1.94
2514 3245 4.211164 GCTCACCTGTTTGCCAATAAAAAC 59.789 41.667 0.00 0.00 36.92 2.43
2515 3246 5.600696 CTCACCTGTTTGCCAATAAAAACT 58.399 37.500 0.00 0.00 37.22 2.66
2516 3247 6.716934 TCACCTGTTTGCCAATAAAAACTA 57.283 33.333 0.00 0.00 37.22 2.24
2517 3248 7.113658 TCACCTGTTTGCCAATAAAAACTAA 57.886 32.000 0.00 0.00 37.22 2.24
2518 3249 6.981559 TCACCTGTTTGCCAATAAAAACTAAC 59.018 34.615 0.00 0.00 37.22 2.34
2519 3250 6.201997 CACCTGTTTGCCAATAAAAACTAACC 59.798 38.462 0.00 0.00 37.22 2.85
2520 3251 5.699001 CCTGTTTGCCAATAAAAACTAACCC 59.301 40.000 0.00 0.00 37.22 4.11
2521 3252 6.235231 TGTTTGCCAATAAAAACTAACCCA 57.765 33.333 0.00 0.00 37.22 4.51
2522 3253 6.049790 TGTTTGCCAATAAAAACTAACCCAC 58.950 36.000 0.00 0.00 37.22 4.61
2523 3254 4.875561 TGCCAATAAAAACTAACCCACC 57.124 40.909 0.00 0.00 0.00 4.61
2524 3255 3.579151 TGCCAATAAAAACTAACCCACCC 59.421 43.478 0.00 0.00 0.00 4.61
2525 3256 3.835978 GCCAATAAAAACTAACCCACCCT 59.164 43.478 0.00 0.00 0.00 4.34
2526 3257 4.322424 GCCAATAAAAACTAACCCACCCTG 60.322 45.833 0.00 0.00 0.00 4.45
2527 3258 4.836175 CCAATAAAAACTAACCCACCCTGT 59.164 41.667 0.00 0.00 0.00 4.00
2528 3259 6.011481 CCAATAAAAACTAACCCACCCTGTA 58.989 40.000 0.00 0.00 0.00 2.74
2529 3260 6.494146 CCAATAAAAACTAACCCACCCTGTAA 59.506 38.462 0.00 0.00 0.00 2.41
2530 3261 7.015389 CCAATAAAAACTAACCCACCCTGTAAA 59.985 37.037 0.00 0.00 0.00 2.01
2531 3262 8.422566 CAATAAAAACTAACCCACCCTGTAAAA 58.577 33.333 0.00 0.00 0.00 1.52
2532 3263 5.857471 AAAACTAACCCACCCTGTAAAAC 57.143 39.130 0.00 0.00 0.00 2.43
2533 3264 3.513909 ACTAACCCACCCTGTAAAACC 57.486 47.619 0.00 0.00 0.00 3.27
2534 3265 2.108776 ACTAACCCACCCTGTAAAACCC 59.891 50.000 0.00 0.00 0.00 4.11
2535 3266 1.237661 AACCCACCCTGTAAAACCCT 58.762 50.000 0.00 0.00 0.00 4.34
2536 3267 0.481128 ACCCACCCTGTAAAACCCTG 59.519 55.000 0.00 0.00 0.00 4.45
2537 3268 0.481128 CCCACCCTGTAAAACCCTGT 59.519 55.000 0.00 0.00 0.00 4.00
2538 3269 1.706305 CCCACCCTGTAAAACCCTGTA 59.294 52.381 0.00 0.00 0.00 2.74
2539 3270 2.108601 CCCACCCTGTAAAACCCTGTAA 59.891 50.000 0.00 0.00 0.00 2.41
2540 3271 3.436761 CCCACCCTGTAAAACCCTGTAAA 60.437 47.826 0.00 0.00 0.00 2.01
2541 3272 3.570975 CCACCCTGTAAAACCCTGTAAAC 59.429 47.826 0.00 0.00 0.00 2.01
2542 3273 4.466827 CACCCTGTAAAACCCTGTAAACT 58.533 43.478 0.00 0.00 0.00 2.66
2543 3274 4.277423 CACCCTGTAAAACCCTGTAAACTG 59.723 45.833 0.00 0.00 0.00 3.16
2544 3275 4.079615 ACCCTGTAAAACCCTGTAAACTGT 60.080 41.667 0.00 0.00 0.00 3.55
2545 3276 4.891168 CCCTGTAAAACCCTGTAAACTGTT 59.109 41.667 0.00 0.00 0.00 3.16
2546 3277 5.361571 CCCTGTAAAACCCTGTAAACTGTTT 59.638 40.000 10.98 10.98 32.62 2.83
2547 3278 6.270064 CCTGTAAAACCCTGTAAACTGTTTG 58.730 40.000 15.69 1.33 31.73 2.93
2548 3279 6.127563 CCTGTAAAACCCTGTAAACTGTTTGT 60.128 38.462 15.69 1.96 31.73 2.83
2549 3280 7.067251 CCTGTAAAACCCTGTAAACTGTTTGTA 59.933 37.037 15.69 3.94 31.73 2.41
2550 3281 8.522542 TGTAAAACCCTGTAAACTGTTTGTAT 57.477 30.769 15.69 1.39 31.73 2.29
2551 3282 8.407064 TGTAAAACCCTGTAAACTGTTTGTATG 58.593 33.333 15.69 3.64 31.73 2.39
2552 3283 7.412853 AAAACCCTGTAAACTGTTTGTATGT 57.587 32.000 15.69 4.20 31.73 2.29
2553 3284 6.385649 AACCCTGTAAACTGTTTGTATGTG 57.614 37.500 15.69 3.17 0.00 3.21
2554 3285 5.442391 ACCCTGTAAACTGTTTGTATGTGT 58.558 37.500 15.69 3.74 0.00 3.72
2555 3286 6.593807 ACCCTGTAAACTGTTTGTATGTGTA 58.406 36.000 15.69 0.00 0.00 2.90
2556 3287 6.708949 ACCCTGTAAACTGTTTGTATGTGTAG 59.291 38.462 15.69 3.04 0.00 2.74
2557 3288 6.348213 CCCTGTAAACTGTTTGTATGTGTAGC 60.348 42.308 15.69 0.00 0.00 3.58
2558 3289 6.203915 CCTGTAAACTGTTTGTATGTGTAGCA 59.796 38.462 15.69 0.00 0.00 3.49
2559 3290 7.094805 CCTGTAAACTGTTTGTATGTGTAGCAT 60.095 37.037 15.69 0.00 41.42 3.79
2560 3291 8.160521 TGTAAACTGTTTGTATGTGTAGCATT 57.839 30.769 15.69 0.00 38.94 3.56
2561 3292 8.073167 TGTAAACTGTTTGTATGTGTAGCATTG 58.927 33.333 15.69 0.00 38.94 2.82
2562 3293 5.046910 ACTGTTTGTATGTGTAGCATTGC 57.953 39.130 0.00 0.00 38.94 3.56
2563 3294 4.082787 ACTGTTTGTATGTGTAGCATTGCC 60.083 41.667 4.70 0.00 38.94 4.52
2564 3295 3.120025 TGTTTGTATGTGTAGCATTGCCG 60.120 43.478 4.70 0.00 38.94 5.69
2565 3296 2.682155 TGTATGTGTAGCATTGCCGA 57.318 45.000 4.70 0.00 38.94 5.54
2566 3297 3.192541 TGTATGTGTAGCATTGCCGAT 57.807 42.857 4.70 0.00 38.94 4.18
2567 3298 2.871633 TGTATGTGTAGCATTGCCGATG 59.128 45.455 4.70 0.00 38.94 3.84
2585 3316 7.984391 TGCCGATGCTATTATGTTTATAATGG 58.016 34.615 0.00 0.00 39.44 3.16
2586 3317 7.826744 TGCCGATGCTATTATGTTTATAATGGA 59.173 33.333 7.34 0.00 39.02 3.41
2587 3318 8.122952 GCCGATGCTATTATGTTTATAATGGAC 58.877 37.037 7.34 1.53 39.02 4.02
2588 3319 8.328146 CCGATGCTATTATGTTTATAATGGACG 58.672 37.037 7.34 8.30 39.02 4.79
2589 3320 7.846107 CGATGCTATTATGTTTATAATGGACGC 59.154 37.037 7.34 4.25 39.02 5.19
2590 3321 8.792830 ATGCTATTATGTTTATAATGGACGCT 57.207 30.769 7.34 0.00 39.02 5.07
2591 3322 8.028540 TGCTATTATGTTTATAATGGACGCTG 57.971 34.615 7.34 0.00 39.02 5.18
2592 3323 7.875554 TGCTATTATGTTTATAATGGACGCTGA 59.124 33.333 7.34 0.00 39.02 4.26
2593 3324 8.883731 GCTATTATGTTTATAATGGACGCTGAT 58.116 33.333 7.34 0.00 39.02 2.90
2597 3328 6.519353 TGTTTATAATGGACGCTGATAACG 57.481 37.500 0.00 0.00 0.00 3.18
2598 3329 5.050634 TGTTTATAATGGACGCTGATAACGC 60.051 40.000 0.00 0.00 0.00 4.84
2599 3330 1.860676 TAATGGACGCTGATAACGCC 58.139 50.000 0.00 0.00 0.00 5.68
2600 3331 0.814010 AATGGACGCTGATAACGCCC 60.814 55.000 0.00 0.00 33.18 6.13
2601 3332 2.185867 GGACGCTGATAACGCCCA 59.814 61.111 0.00 0.00 32.77 5.36
2602 3333 2.171725 GGACGCTGATAACGCCCAC 61.172 63.158 0.00 0.00 32.77 4.61
2603 3334 1.447140 GACGCTGATAACGCCCACA 60.447 57.895 0.00 0.00 0.00 4.17
2604 3335 1.693083 GACGCTGATAACGCCCACAC 61.693 60.000 0.00 0.00 0.00 3.82
2605 3336 2.798501 CGCTGATAACGCCCACACG 61.799 63.158 0.00 0.00 39.50 4.49
2654 3385 3.769300 GGTGTTTAAAAGGATCAGCCCAT 59.231 43.478 0.00 0.00 37.37 4.00
2785 3524 0.680061 GCCTCCTACCTTATGGTCCG 59.320 60.000 3.06 0.00 44.78 4.79
2993 3746 4.413760 AGTTGCCACCTACTAACACTAGA 58.586 43.478 0.00 0.00 0.00 2.43
3080 3837 2.100631 ATCTGCTTACGTGCACGCC 61.101 57.895 37.35 22.92 44.43 5.68
3081 3838 4.134187 CTGCTTACGTGCACGCCG 62.134 66.667 37.35 25.48 44.43 6.46
3287 4047 4.043750 CACTACAAAACACATGGCAACTG 58.956 43.478 0.00 0.00 37.61 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 7.049754 ACTAGTAAACCGGTTTCTTTTCTCAA 58.950 34.615 34.79 12.47 34.23 3.02
44 45 7.440556 AGAACTAGTAAACCGGTTTCTTTTCTC 59.559 37.037 34.79 23.36 34.23 2.87
45 46 7.226128 CAGAACTAGTAAACCGGTTTCTTTTCT 59.774 37.037 34.79 28.83 34.23 2.52
55 56 3.329929 AAGGCAGAACTAGTAAACCGG 57.670 47.619 0.00 0.00 0.00 5.28
56 57 4.153655 GGAAAAGGCAGAACTAGTAAACCG 59.846 45.833 0.00 0.00 0.00 4.44
57 58 5.314529 AGGAAAAGGCAGAACTAGTAAACC 58.685 41.667 0.00 0.00 0.00 3.27
81 82 9.807921 TGGTCTTGTATCACTATCATAGTATCA 57.192 33.333 0.00 0.00 37.23 2.15
85 86 6.551227 TGCTGGTCTTGTATCACTATCATAGT 59.449 38.462 0.00 0.00 40.28 2.12
86 87 6.986250 TGCTGGTCTTGTATCACTATCATAG 58.014 40.000 0.00 0.00 0.00 2.23
96 97 2.548067 CCCGGTATGCTGGTCTTGTATC 60.548 54.545 7.98 0.00 39.55 2.24
198 208 2.094659 CGCATGGTCACCACGACTC 61.095 63.158 0.00 0.00 44.70 3.36
257 267 3.825143 TTTATAGGCGGTCCAGTAACC 57.175 47.619 0.00 0.00 35.86 2.85
259 269 4.467082 TCAGTTTTATAGGCGGTCCAGTAA 59.533 41.667 0.00 0.00 33.74 2.24
297 312 0.831711 ACAAGGGAAAGCCGCCAATT 60.832 50.000 0.00 0.00 33.83 2.32
309 324 0.463654 GCGATGCCATGTACAAGGGA 60.464 55.000 18.34 16.25 0.00 4.20
361 376 5.689514 CGTCCTCAGCTTCATATTCTTGTAG 59.310 44.000 0.00 0.00 0.00 2.74
404 468 6.526566 AGTAAGTTTTTGTAAGAGTGAGCG 57.473 37.500 0.00 0.00 0.00 5.03
426 490 7.491372 TGCACTTTGGATCGACTTTTATACTAG 59.509 37.037 0.00 0.00 0.00 2.57
464 737 2.362397 CTGGTGTCTATCCGCATAGTGT 59.638 50.000 0.00 0.00 34.54 3.55
465 738 2.362397 ACTGGTGTCTATCCGCATAGTG 59.638 50.000 0.00 0.00 34.54 2.74
466 739 2.667470 ACTGGTGTCTATCCGCATAGT 58.333 47.619 0.00 0.00 34.54 2.12
467 740 3.365064 CGTACTGGTGTCTATCCGCATAG 60.365 52.174 0.00 0.00 34.24 2.23
468 741 2.551032 CGTACTGGTGTCTATCCGCATA 59.449 50.000 0.00 0.00 0.00 3.14
469 742 1.337071 CGTACTGGTGTCTATCCGCAT 59.663 52.381 0.00 0.00 0.00 4.73
470 743 0.736636 CGTACTGGTGTCTATCCGCA 59.263 55.000 0.00 0.00 0.00 5.69
471 744 0.737219 ACGTACTGGTGTCTATCCGC 59.263 55.000 0.00 0.00 0.00 5.54
472 745 3.201290 ACTACGTACTGGTGTCTATCCG 58.799 50.000 0.00 0.00 0.00 4.18
473 746 4.213059 GCTACTACGTACTGGTGTCTATCC 59.787 50.000 0.00 0.00 0.00 2.59
474 747 4.813161 TGCTACTACGTACTGGTGTCTATC 59.187 45.833 0.00 0.00 0.00 2.08
475 748 4.574013 GTGCTACTACGTACTGGTGTCTAT 59.426 45.833 0.00 0.00 0.00 1.98
476 749 3.935203 GTGCTACTACGTACTGGTGTCTA 59.065 47.826 0.00 0.00 0.00 2.59
477 750 2.746362 GTGCTACTACGTACTGGTGTCT 59.254 50.000 0.00 0.00 0.00 3.41
478 751 2.159462 GGTGCTACTACGTACTGGTGTC 60.159 54.545 0.00 0.00 0.00 3.67
479 752 1.815003 GGTGCTACTACGTACTGGTGT 59.185 52.381 0.00 0.00 0.00 4.16
480 753 1.133790 GGGTGCTACTACGTACTGGTG 59.866 57.143 0.00 0.00 0.00 4.17
481 754 1.467920 GGGTGCTACTACGTACTGGT 58.532 55.000 0.00 0.00 0.00 4.00
482 755 0.379669 CGGGTGCTACTACGTACTGG 59.620 60.000 0.00 0.00 0.00 4.00
483 756 1.063174 GACGGGTGCTACTACGTACTG 59.937 57.143 0.00 0.00 39.95 2.74
484 757 1.339055 TGACGGGTGCTACTACGTACT 60.339 52.381 0.00 0.00 39.95 2.73
527 939 3.932545 TGCGAATTTACAATGCCAACT 57.067 38.095 0.00 0.00 0.00 3.16
568 980 3.188786 GACGGCGCGCTTGATCTT 61.189 61.111 32.29 7.07 0.00 2.40
593 1009 1.379044 GGGATGTGGAGCAGTTGGG 60.379 63.158 0.00 0.00 0.00 4.12
597 1013 2.976490 GCTGGGGATGTGGAGCAGT 61.976 63.158 0.00 0.00 0.00 4.40
612 1028 1.333524 CGGAGCATGCTTAATTCGCTG 60.334 52.381 23.61 8.23 31.86 5.18
651 1067 3.536956 ATGAGTTACGTACCCATGTGG 57.463 47.619 0.00 0.00 41.37 4.17
655 1071 5.801380 AGACAAAATGAGTTACGTACCCAT 58.199 37.500 0.00 0.00 0.00 4.00
657 1073 5.290400 GCTAGACAAAATGAGTTACGTACCC 59.710 44.000 0.00 0.00 0.00 3.69
658 1074 5.004156 CGCTAGACAAAATGAGTTACGTACC 59.996 44.000 0.00 0.00 0.00 3.34
666 1082 3.746492 GGTTCACGCTAGACAAAATGAGT 59.254 43.478 0.00 0.00 0.00 3.41
686 1110 2.897969 AGTACACGAGATTTCCAGTGGT 59.102 45.455 9.54 0.00 38.78 4.16
693 1117 4.785975 GCGGTCTAGAGTACACGAGATTTC 60.786 50.000 6.42 0.68 0.00 2.17
781 1341 1.732941 TCTGCACGGCGAATGTTTAT 58.267 45.000 16.62 0.00 0.00 1.40
804 1368 4.109675 CCCACCACCCCACGATCC 62.110 72.222 0.00 0.00 0.00 3.36
873 1437 2.262915 GTGGTAGAGCTGCTGCGT 59.737 61.111 7.01 4.41 45.42 5.24
882 1446 1.292223 CGTGGTGGTGGTGGTAGAG 59.708 63.158 0.00 0.00 0.00 2.43
904 1468 3.429135 GGAAGAATAGTGTGGAGGACGAC 60.429 52.174 0.00 0.00 0.00 4.34
905 1469 2.758979 GGAAGAATAGTGTGGAGGACGA 59.241 50.000 0.00 0.00 0.00 4.20
907 1471 2.758979 TCGGAAGAATAGTGTGGAGGAC 59.241 50.000 0.00 0.00 37.03 3.85
909 1473 2.101582 CCTCGGAAGAATAGTGTGGAGG 59.898 54.545 0.00 0.00 41.32 4.30
913 1477 2.271800 GCACCTCGGAAGAATAGTGTG 58.728 52.381 0.00 0.00 41.32 3.82
914 1478 1.135083 CGCACCTCGGAAGAATAGTGT 60.135 52.381 0.00 0.00 41.32 3.55
915 1479 1.560923 CGCACCTCGGAAGAATAGTG 58.439 55.000 0.00 0.00 41.32 2.74
916 1480 0.179108 GCGCACCTCGGAAGAATAGT 60.179 55.000 0.30 0.00 41.32 2.12
917 1481 0.179111 TGCGCACCTCGGAAGAATAG 60.179 55.000 5.66 0.00 41.32 1.73
918 1482 0.459585 GTGCGCACCTCGGAAGAATA 60.460 55.000 30.12 0.00 41.10 1.75
919 1483 1.741770 GTGCGCACCTCGGAAGAAT 60.742 57.895 30.12 0.00 41.10 2.40
920 1484 2.357034 GTGCGCACCTCGGAAGAA 60.357 61.111 30.12 0.00 41.10 2.52
1351 2034 2.909965 GCTCCTCTCCTCGGCGAT 60.910 66.667 11.27 0.00 0.00 4.58
1406 2089 2.184020 CTTGGCCTCCATGGTGACGA 62.184 60.000 15.47 7.44 38.35 4.20
1893 2576 1.095807 GGTTGCTTAGATCCACGGCC 61.096 60.000 0.00 0.00 0.00 6.13
1923 2606 1.402787 CAGTGGACTTTTGGGTTGCT 58.597 50.000 0.00 0.00 0.00 3.91
1989 2684 1.160137 CGGCTTTCCACTTCTCCAAG 58.840 55.000 0.00 0.00 35.50 3.61
2067 2762 1.338136 ACATCCGATCCTTCCGGCTT 61.338 55.000 0.00 0.00 46.10 4.35
2148 2849 1.995484 TGGTCGAACTCGTAGTCGTAG 59.005 52.381 0.33 0.00 40.80 3.51
2228 2932 2.993899 CCGAATTTGCGTAGAACAGACT 59.006 45.455 0.00 0.00 0.00 3.24
2232 2936 1.002201 TCCCCGAATTTGCGTAGAACA 59.998 47.619 0.00 0.00 0.00 3.18
2250 2954 4.165180 AGGCTTCTCCTCCTAAAGAAATCC 59.835 45.833 0.00 0.00 43.20 3.01
2256 2960 1.556911 TGCAGGCTTCTCCTCCTAAAG 59.443 52.381 0.00 0.00 45.52 1.85
2277 2981 0.669318 CCGGCGCAAAGTCTGACTTA 60.669 55.000 22.30 0.00 37.47 2.24
2332 3062 1.750193 AGGGGTATCATGCAAACACG 58.250 50.000 0.00 0.00 0.00 4.49
2359 3090 8.641155 TGTAATAGCATTTATTACGCGTGTATC 58.359 33.333 24.59 3.10 41.08 2.24
2406 3137 9.373603 GGAAACAGTTTACAGGTTTTTACAAAT 57.626 29.630 3.06 0.00 35.08 2.32
2407 3138 8.365647 TGGAAACAGTTTACAGGTTTTTACAAA 58.634 29.630 6.87 0.00 35.08 2.83
2408 3139 7.893658 TGGAAACAGTTTACAGGTTTTTACAA 58.106 30.769 6.87 0.00 35.08 2.41
2409 3140 7.463961 TGGAAACAGTTTACAGGTTTTTACA 57.536 32.000 6.87 0.00 35.08 2.41
2427 3158 6.325919 TGTGATTGGTTGTTAGATGGAAAC 57.674 37.500 0.00 0.00 0.00 2.78
2428 3159 6.968263 TTGTGATTGGTTGTTAGATGGAAA 57.032 33.333 0.00 0.00 0.00 3.13
2429 3160 6.239176 GGTTTGTGATTGGTTGTTAGATGGAA 60.239 38.462 0.00 0.00 0.00 3.53
2430 3161 5.242838 GGTTTGTGATTGGTTGTTAGATGGA 59.757 40.000 0.00 0.00 0.00 3.41
2431 3162 5.243730 AGGTTTGTGATTGGTTGTTAGATGG 59.756 40.000 0.00 0.00 0.00 3.51
2432 3163 6.331369 AGGTTTGTGATTGGTTGTTAGATG 57.669 37.500 0.00 0.00 0.00 2.90
2433 3164 6.015434 GGAAGGTTTGTGATTGGTTGTTAGAT 60.015 38.462 0.00 0.00 0.00 1.98
2434 3165 5.300792 GGAAGGTTTGTGATTGGTTGTTAGA 59.699 40.000 0.00 0.00 0.00 2.10
2435 3166 5.508994 GGGAAGGTTTGTGATTGGTTGTTAG 60.509 44.000 0.00 0.00 0.00 2.34
2436 3167 4.342665 GGGAAGGTTTGTGATTGGTTGTTA 59.657 41.667 0.00 0.00 0.00 2.41
2437 3168 3.133901 GGGAAGGTTTGTGATTGGTTGTT 59.866 43.478 0.00 0.00 0.00 2.83
2438 3169 2.698274 GGGAAGGTTTGTGATTGGTTGT 59.302 45.455 0.00 0.00 0.00 3.32
2439 3170 2.697751 TGGGAAGGTTTGTGATTGGTTG 59.302 45.455 0.00 0.00 0.00 3.77
2440 3171 2.698274 GTGGGAAGGTTTGTGATTGGTT 59.302 45.455 0.00 0.00 0.00 3.67
2441 3172 2.316108 GTGGGAAGGTTTGTGATTGGT 58.684 47.619 0.00 0.00 0.00 3.67
2442 3173 1.618343 GGTGGGAAGGTTTGTGATTGG 59.382 52.381 0.00 0.00 0.00 3.16
2443 3174 1.618343 GGGTGGGAAGGTTTGTGATTG 59.382 52.381 0.00 0.00 0.00 2.67
2444 3175 1.482365 GGGGTGGGAAGGTTTGTGATT 60.482 52.381 0.00 0.00 0.00 2.57
2445 3176 0.114364 GGGGTGGGAAGGTTTGTGAT 59.886 55.000 0.00 0.00 0.00 3.06
2446 3177 0.996762 AGGGGTGGGAAGGTTTGTGA 60.997 55.000 0.00 0.00 0.00 3.58
2447 3178 0.827507 CAGGGGTGGGAAGGTTTGTG 60.828 60.000 0.00 0.00 0.00 3.33
2448 3179 0.996762 TCAGGGGTGGGAAGGTTTGT 60.997 55.000 0.00 0.00 0.00 2.83
2449 3180 0.409484 ATCAGGGGTGGGAAGGTTTG 59.591 55.000 0.00 0.00 0.00 2.93
2450 3181 1.167033 AATCAGGGGTGGGAAGGTTT 58.833 50.000 0.00 0.00 0.00 3.27
2451 3182 1.167033 AAATCAGGGGTGGGAAGGTT 58.833 50.000 0.00 0.00 0.00 3.50
2452 3183 1.077169 GAAAATCAGGGGTGGGAAGGT 59.923 52.381 0.00 0.00 0.00 3.50
2453 3184 1.077005 TGAAAATCAGGGGTGGGAAGG 59.923 52.381 0.00 0.00 0.00 3.46
2454 3185 2.450476 CTGAAAATCAGGGGTGGGAAG 58.550 52.381 0.00 0.00 40.71 3.46
2455 3186 2.603075 CTGAAAATCAGGGGTGGGAA 57.397 50.000 0.00 0.00 40.71 3.97
2486 3217 2.617274 GCAAACAGGTGAGCGGGAC 61.617 63.158 0.00 0.00 0.00 4.46
2487 3218 2.281484 GCAAACAGGTGAGCGGGA 60.281 61.111 0.00 0.00 0.00 5.14
2488 3219 3.365265 GGCAAACAGGTGAGCGGG 61.365 66.667 0.00 0.00 0.00 6.13
2489 3220 1.526575 ATTGGCAAACAGGTGAGCGG 61.527 55.000 3.01 0.00 0.00 5.52
2490 3221 1.164411 TATTGGCAAACAGGTGAGCG 58.836 50.000 3.01 0.00 0.00 5.03
2491 3222 3.658757 TTTATTGGCAAACAGGTGAGC 57.341 42.857 3.01 0.00 0.00 4.26
2492 3223 5.600696 AGTTTTTATTGGCAAACAGGTGAG 58.399 37.500 3.01 0.00 35.66 3.51
2493 3224 5.606348 AGTTTTTATTGGCAAACAGGTGA 57.394 34.783 3.01 0.00 35.66 4.02
2494 3225 6.201997 GGTTAGTTTTTATTGGCAAACAGGTG 59.798 38.462 3.01 0.00 35.66 4.00
2495 3226 6.285224 GGTTAGTTTTTATTGGCAAACAGGT 58.715 36.000 3.01 0.00 35.66 4.00
2496 3227 5.699001 GGGTTAGTTTTTATTGGCAAACAGG 59.301 40.000 3.01 0.00 35.66 4.00
2497 3228 6.201997 GTGGGTTAGTTTTTATTGGCAAACAG 59.798 38.462 3.01 0.00 35.66 3.16
2498 3229 6.049790 GTGGGTTAGTTTTTATTGGCAAACA 58.950 36.000 3.01 0.00 35.66 2.83
2499 3230 5.467399 GGTGGGTTAGTTTTTATTGGCAAAC 59.533 40.000 3.01 0.00 33.75 2.93
2500 3231 5.454897 GGGTGGGTTAGTTTTTATTGGCAAA 60.455 40.000 3.01 0.00 0.00 3.68
2501 3232 4.040584 GGGTGGGTTAGTTTTTATTGGCAA 59.959 41.667 0.68 0.68 0.00 4.52
2502 3233 3.579151 GGGTGGGTTAGTTTTTATTGGCA 59.421 43.478 0.00 0.00 0.00 4.92
2503 3234 3.835978 AGGGTGGGTTAGTTTTTATTGGC 59.164 43.478 0.00 0.00 0.00 4.52
2504 3235 4.836175 ACAGGGTGGGTTAGTTTTTATTGG 59.164 41.667 0.00 0.00 0.00 3.16
2505 3236 7.527568 TTACAGGGTGGGTTAGTTTTTATTG 57.472 36.000 0.00 0.00 0.00 1.90
2506 3237 8.423349 GTTTTACAGGGTGGGTTAGTTTTTATT 58.577 33.333 0.00 0.00 0.00 1.40
2507 3238 7.015487 GGTTTTACAGGGTGGGTTAGTTTTTAT 59.985 37.037 0.00 0.00 0.00 1.40
2508 3239 6.323482 GGTTTTACAGGGTGGGTTAGTTTTTA 59.677 38.462 0.00 0.00 0.00 1.52
2509 3240 5.129155 GGTTTTACAGGGTGGGTTAGTTTTT 59.871 40.000 0.00 0.00 0.00 1.94
2510 3241 4.650588 GGTTTTACAGGGTGGGTTAGTTTT 59.349 41.667 0.00 0.00 0.00 2.43
2511 3242 4.217510 GGTTTTACAGGGTGGGTTAGTTT 58.782 43.478 0.00 0.00 0.00 2.66
2512 3243 3.436906 GGGTTTTACAGGGTGGGTTAGTT 60.437 47.826 0.00 0.00 0.00 2.24
2513 3244 2.108776 GGGTTTTACAGGGTGGGTTAGT 59.891 50.000 0.00 0.00 0.00 2.24
2514 3245 2.377531 AGGGTTTTACAGGGTGGGTTAG 59.622 50.000 0.00 0.00 0.00 2.34
2515 3246 2.108601 CAGGGTTTTACAGGGTGGGTTA 59.891 50.000 0.00 0.00 0.00 2.85
2516 3247 1.133294 CAGGGTTTTACAGGGTGGGTT 60.133 52.381 0.00 0.00 0.00 4.11
2517 3248 0.481128 CAGGGTTTTACAGGGTGGGT 59.519 55.000 0.00 0.00 0.00 4.51
2518 3249 0.481128 ACAGGGTTTTACAGGGTGGG 59.519 55.000 0.00 0.00 0.00 4.61
2519 3250 3.512219 TTACAGGGTTTTACAGGGTGG 57.488 47.619 0.00 0.00 0.00 4.61
2520 3251 4.277423 CAGTTTACAGGGTTTTACAGGGTG 59.723 45.833 0.00 0.00 0.00 4.61
2521 3252 4.079615 ACAGTTTACAGGGTTTTACAGGGT 60.080 41.667 0.00 0.00 0.00 4.34
2522 3253 4.466827 ACAGTTTACAGGGTTTTACAGGG 58.533 43.478 0.00 0.00 0.00 4.45
2523 3254 6.127563 ACAAACAGTTTACAGGGTTTTACAGG 60.128 38.462 0.00 0.00 31.57 4.00
2524 3255 6.859017 ACAAACAGTTTACAGGGTTTTACAG 58.141 36.000 0.00 0.00 31.57 2.74
2525 3256 6.837471 ACAAACAGTTTACAGGGTTTTACA 57.163 33.333 0.00 0.00 31.57 2.41
2526 3257 8.407832 ACATACAAACAGTTTACAGGGTTTTAC 58.592 33.333 0.00 0.00 31.57 2.01
2527 3258 8.407064 CACATACAAACAGTTTACAGGGTTTTA 58.593 33.333 0.00 0.00 31.57 1.52
2528 3259 7.093684 ACACATACAAACAGTTTACAGGGTTTT 60.094 33.333 0.00 0.00 31.57 2.43
2529 3260 6.378848 ACACATACAAACAGTTTACAGGGTTT 59.621 34.615 0.00 0.00 34.03 3.27
2530 3261 5.889289 ACACATACAAACAGTTTACAGGGTT 59.111 36.000 0.00 0.00 0.00 4.11
2531 3262 5.442391 ACACATACAAACAGTTTACAGGGT 58.558 37.500 0.00 0.00 0.00 4.34
2532 3263 6.348213 GCTACACATACAAACAGTTTACAGGG 60.348 42.308 0.00 0.00 0.00 4.45
2533 3264 6.203915 TGCTACACATACAAACAGTTTACAGG 59.796 38.462 0.00 0.00 0.00 4.00
2534 3265 7.184800 TGCTACACATACAAACAGTTTACAG 57.815 36.000 0.00 0.00 0.00 2.74
2535 3266 7.737972 ATGCTACACATACAAACAGTTTACA 57.262 32.000 0.00 0.00 37.17 2.41
2536 3267 7.060633 GCAATGCTACACATACAAACAGTTTAC 59.939 37.037 0.00 0.00 38.34 2.01
2537 3268 7.081349 GCAATGCTACACATACAAACAGTTTA 58.919 34.615 0.00 0.00 38.34 2.01
2538 3269 5.920273 GCAATGCTACACATACAAACAGTTT 59.080 36.000 0.00 0.00 38.34 2.66
2539 3270 5.460646 GCAATGCTACACATACAAACAGTT 58.539 37.500 0.00 0.00 38.34 3.16
2540 3271 4.082787 GGCAATGCTACACATACAAACAGT 60.083 41.667 4.82 0.00 38.34 3.55
2541 3272 4.414852 GGCAATGCTACACATACAAACAG 58.585 43.478 4.82 0.00 38.34 3.16
2542 3273 3.120025 CGGCAATGCTACACATACAAACA 60.120 43.478 4.82 0.00 38.34 2.83
2543 3274 3.126171 TCGGCAATGCTACACATACAAAC 59.874 43.478 4.82 0.00 38.34 2.93
2544 3275 3.339141 TCGGCAATGCTACACATACAAA 58.661 40.909 4.82 0.00 38.34 2.83
2545 3276 2.979240 TCGGCAATGCTACACATACAA 58.021 42.857 4.82 0.00 38.34 2.41
2546 3277 2.682155 TCGGCAATGCTACACATACA 57.318 45.000 4.82 0.00 38.34 2.29
2547 3278 3.526385 CATCGGCAATGCTACACATAC 57.474 47.619 4.82 0.00 38.34 2.39
2559 3290 8.458052 CCATTATAAACATAATAGCATCGGCAA 58.542 33.333 0.00 0.00 44.61 4.52
2560 3291 7.826744 TCCATTATAAACATAATAGCATCGGCA 59.173 33.333 0.00 0.00 44.61 5.69
2561 3292 8.122952 GTCCATTATAAACATAATAGCATCGGC 58.877 37.037 0.00 0.00 41.61 5.54
2562 3293 8.328146 CGTCCATTATAAACATAATAGCATCGG 58.672 37.037 0.00 0.00 0.00 4.18
2563 3294 7.846107 GCGTCCATTATAAACATAATAGCATCG 59.154 37.037 0.00 0.00 0.00 3.84
2564 3295 8.883731 AGCGTCCATTATAAACATAATAGCATC 58.116 33.333 0.00 0.00 0.00 3.91
2565 3296 8.668353 CAGCGTCCATTATAAACATAATAGCAT 58.332 33.333 0.00 0.00 0.00 3.79
2566 3297 7.875554 TCAGCGTCCATTATAAACATAATAGCA 59.124 33.333 0.00 0.00 0.00 3.49
2567 3298 8.251750 TCAGCGTCCATTATAAACATAATAGC 57.748 34.615 0.00 0.00 0.00 2.97
2571 3302 8.705134 CGTTATCAGCGTCCATTATAAACATAA 58.295 33.333 0.00 0.00 0.00 1.90
2572 3303 7.148705 GCGTTATCAGCGTCCATTATAAACATA 60.149 37.037 0.00 0.00 0.00 2.29
2573 3304 6.347402 GCGTTATCAGCGTCCATTATAAACAT 60.347 38.462 0.00 0.00 0.00 2.71
2574 3305 5.050634 GCGTTATCAGCGTCCATTATAAACA 60.051 40.000 0.00 0.00 0.00 2.83
2575 3306 5.371629 GCGTTATCAGCGTCCATTATAAAC 58.628 41.667 0.00 0.00 0.00 2.01
2576 3307 4.449743 GGCGTTATCAGCGTCCATTATAAA 59.550 41.667 0.00 0.00 35.00 1.40
2577 3308 3.991773 GGCGTTATCAGCGTCCATTATAA 59.008 43.478 0.00 0.00 35.00 0.98
2578 3309 3.581755 GGCGTTATCAGCGTCCATTATA 58.418 45.455 0.00 0.00 35.00 0.98
2579 3310 2.413837 GGCGTTATCAGCGTCCATTAT 58.586 47.619 0.00 0.00 35.00 1.28
2580 3311 1.860676 GGCGTTATCAGCGTCCATTA 58.139 50.000 0.00 0.00 35.00 1.90
2581 3312 2.690326 GGCGTTATCAGCGTCCATT 58.310 52.632 0.00 0.00 35.00 3.16
2582 3313 4.438346 GGCGTTATCAGCGTCCAT 57.562 55.556 0.00 0.00 35.00 3.41
2585 3316 1.447140 TGTGGGCGTTATCAGCGTC 60.447 57.895 0.00 0.00 35.00 5.19
2586 3317 1.740296 GTGTGGGCGTTATCAGCGT 60.740 57.895 0.00 0.00 35.00 5.07
2587 3318 2.798501 CGTGTGGGCGTTATCAGCG 61.799 63.158 0.00 0.00 35.00 5.18
2588 3319 0.458889 TACGTGTGGGCGTTATCAGC 60.459 55.000 0.00 0.00 43.04 4.26
2589 3320 1.556564 CTACGTGTGGGCGTTATCAG 58.443 55.000 0.00 0.00 43.04 2.90
2590 3321 0.173935 CCTACGTGTGGGCGTTATCA 59.826 55.000 0.00 0.00 43.04 2.15
2591 3322 0.529119 CCCTACGTGTGGGCGTTATC 60.529 60.000 14.21 0.00 43.04 1.75
2592 3323 1.518774 CCCTACGTGTGGGCGTTAT 59.481 57.895 14.21 0.00 43.04 1.89
2593 3324 2.648143 CCCCTACGTGTGGGCGTTA 61.648 63.158 19.36 0.00 43.04 3.18
2594 3325 4.011517 CCCCTACGTGTGGGCGTT 62.012 66.667 19.36 0.00 43.04 4.84
2596 3327 4.446413 GACCCCTACGTGTGGGCG 62.446 72.222 20.67 15.85 46.43 6.13
2597 3328 3.001406 AGACCCCTACGTGTGGGC 61.001 66.667 20.67 10.36 46.43 5.36
2599 3330 2.264794 GCAGACCCCTACGTGTGG 59.735 66.667 0.00 0.00 0.00 4.17
2600 3331 2.264794 GGCAGACCCCTACGTGTG 59.735 66.667 0.00 0.00 0.00 3.82
2641 3372 1.451936 GGCGTATGGGCTGATCCTT 59.548 57.895 0.00 0.00 38.40 3.36
2993 3746 2.105477 ACATGGCAACTCTCTCAACTGT 59.895 45.455 0.00 0.00 37.61 3.55
3080 3837 1.024579 GGTACATGACAACTGCCCCG 61.025 60.000 0.00 0.00 0.00 5.73
3081 3838 0.037590 TGGTACATGACAACTGCCCC 59.962 55.000 0.00 0.00 0.00 5.80
3173 3930 0.600782 GCCATGTGTTTTGCAGGGTG 60.601 55.000 0.00 0.00 39.69 4.61
3269 4029 1.473080 GCCAGTTGCCATGTGTTTTGT 60.473 47.619 0.00 0.00 0.00 2.83
3287 4047 1.379044 CTCCCACACCCAATCTGCC 60.379 63.158 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.