Multiple sequence alignment - TraesCS7A01G224400

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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 TraesCS7A01G224400 chr7A 100.000 3108 0 0 1 3108 193686810 193683703 0.000000e+00 5740.0
1 TraesCS7A01G224400 chr7A 81.000 200 13 13 144 319 131811911 131812109 5.410000e-28 135.0
2 TraesCS7A01G224400 chr7A 84.211 114 10 7 2827 2935 80325730 80325620 1.520000e-18 104.0
3 TraesCS7A01G224400 chr5A 97.173 1415 38 2 1 1415 567021441 567022853 0.000000e+00 2390.0
4 TraesCS7A01G224400 chr5A 98.378 1356 15 2 1585 2933 567022841 567024196 0.000000e+00 2375.0
5 TraesCS7A01G224400 chr5A 80.898 1136 138 37 310 1411 82300003 82301093 0.000000e+00 822.0
6 TraesCS7A01G224400 chr5A 88.143 447 51 2 1585 2030 82301084 82301529 5.900000e-147 531.0
7 TraesCS7A01G224400 chr5A 97.778 180 2 2 1407 1584 651552253 651552074 3.010000e-80 309.0
8 TraesCS7A01G224400 chr5A 81.283 187 21 9 2528 2710 81803729 81803905 4.180000e-29 139.0
9 TraesCS7A01G224400 chr5A 87.500 96 7 4 2839 2933 231064216 231064125 4.240000e-19 106.0
10 TraesCS7A01G224400 chr1A 95.206 1189 40 6 1 1183 590768245 590767068 0.000000e+00 1864.0
11 TraesCS7A01G224400 chr1A 93.704 810 24 9 2149 2933 590766034 590765227 0.000000e+00 1188.0
12 TraesCS7A01G224400 chr1A 97.509 562 12 2 1585 2145 590766702 590766142 0.000000e+00 959.0
13 TraesCS7A01G224400 chr1A 97.980 198 3 1 1218 1415 590766886 590766690 2.970000e-90 342.0
14 TraesCS7A01G224400 chr1A 99.432 176 1 0 1409 1584 20177452 20177627 1.390000e-83 320.0
15 TraesCS7A01G224400 chr5B 87.325 1144 73 28 307 1415 94048405 94049511 0.000000e+00 1243.0
16 TraesCS7A01G224400 chr5B 80.982 1141 139 41 310 1411 94087270 94088371 0.000000e+00 833.0
17 TraesCS7A01G224400 chr5B 93.960 447 25 2 1585 2030 94049499 94049944 0.000000e+00 675.0
18 TraesCS7A01G224400 chr5B 89.038 447 47 2 1585 2030 94088362 94088807 1.260000e-153 553.0
19 TraesCS7A01G224400 chr5B 91.329 173 15 0 2933 3105 278649879 278650051 1.440000e-58 237.0
20 TraesCS7A01G224400 chr5B 82.353 187 19 7 2528 2710 94050750 94050926 1.930000e-32 150.0
21 TraesCS7A01G224400 chr5B 100.000 43 0 0 2028 2070 94049963 94050005 2.570000e-11 80.5
22 TraesCS7A01G224400 chr5D 87.083 1138 59 20 307 1411 88465097 88466179 0.000000e+00 1206.0
23 TraesCS7A01G224400 chr5D 86.364 836 55 23 1585 2396 88466170 88466970 0.000000e+00 857.0
24 TraesCS7A01G224400 chr5D 81.212 1139 128 33 310 1411 88469812 88470901 0.000000e+00 839.0
25 TraesCS7A01G224400 chr5D 88.636 440 49 1 1585 2023 88470892 88471331 4.560000e-148 534.0
26 TraesCS7A01G224400 chr5D 87.069 116 14 1 2528 2643 88467483 88467597 2.520000e-26 130.0
27 TraesCS7A01G224400 chr5D 85.263 95 11 2 2840 2934 533113200 533113291 9.180000e-16 95.3
28 TraesCS7A01G224400 chr5D 92.308 65 5 0 2440 2504 88466981 88467045 3.300000e-15 93.5
29 TraesCS7A01G224400 chr2B 87.746 865 68 19 1 855 41474513 41473677 0.000000e+00 976.0
30 TraesCS7A01G224400 chr2B 89.474 665 44 11 2294 2933 41472723 41472060 0.000000e+00 817.0
31 TraesCS7A01G224400 chr2B 81.886 933 108 34 310 1198 745769228 745768313 0.000000e+00 730.0
32 TraesCS7A01G224400 chr2B 95.302 447 19 2 1585 2030 41473214 41472769 0.000000e+00 708.0
33 TraesCS7A01G224400 chr2B 90.909 363 19 10 1054 1415 41473551 41473202 2.800000e-130 475.0
34 TraesCS7A01G224400 chr2B 98.333 180 2 1 1409 1587 719157221 719157042 6.470000e-82 315.0
35 TraesCS7A01G224400 chr2B 86.391 169 18 5 1258 1422 745768293 745768126 2.460000e-41 180.0
36 TraesCS7A01G224400 chr2B 100.000 36 0 0 855 890 41473656 41473621 2.000000e-07 67.6
37 TraesCS7A01G224400 chr2A 79.500 1161 156 40 303 1415 743266929 743265803 0.000000e+00 750.0
38 TraesCS7A01G224400 chr2A 97.765 179 2 1 1408 1584 364400779 364400601 1.080000e-79 307.0
39 TraesCS7A01G224400 chr2A 79.828 233 27 7 2730 2945 38880638 38880409 5.370000e-33 152.0
40 TraesCS7A01G224400 chr2D 82.189 932 107 23 310 1198 610378132 610377217 0.000000e+00 747.0
41 TraesCS7A01G224400 chr2D 81.132 954 114 35 304 1207 610404580 610403643 0.000000e+00 704.0
42 TraesCS7A01G224400 chr2D 88.288 444 50 2 1588 2030 610403479 610403037 5.900000e-147 531.0
43 TraesCS7A01G224400 chr2D 82.133 347 26 18 1 322 590668783 590668448 6.610000e-67 265.0
44 TraesCS7A01G224400 chr2D 86.420 162 17 2 1258 1415 610377197 610377037 4.120000e-39 172.0
45 TraesCS7A01G224400 chr7B 94.860 214 7 3 1380 1593 661913142 661913351 6.420000e-87 331.0
46 TraesCS7A01G224400 chr7B 98.870 177 1 1 1409 1584 684563374 684563198 6.470000e-82 315.0
47 TraesCS7A01G224400 chr7B 98.305 177 1 1 1410 1584 745082888 745083064 3.010000e-80 309.0
48 TraesCS7A01G224400 chr7B 95.402 174 8 0 2933 3106 328594424 328594251 8.490000e-71 278.0
49 TraesCS7A01G224400 chr7B 91.329 173 15 0 2933 3105 329025845 329025673 1.440000e-58 237.0
50 TraesCS7A01G224400 chr7B 86.170 94 10 2 2840 2933 718078788 718078878 7.090000e-17 99.0
51 TraesCS7A01G224400 chr6B 99.438 178 0 1 1408 1584 603888153 603888330 3.870000e-84 322.0
52 TraesCS7A01G224400 chr6B 74.211 729 132 32 484 1172 150222099 150222811 1.430000e-63 254.0
53 TraesCS7A01G224400 chr1B 99.432 176 1 0 1409 1584 563993748 563993923 1.390000e-83 320.0
54 TraesCS7A01G224400 chr6A 83.476 351 29 5 201 551 579259 579580 1.810000e-77 300.0
55 TraesCS7A01G224400 chr6A 83.636 110 11 6 2829 2934 22038885 22038991 2.550000e-16 97.1
56 TraesCS7A01G224400 chr3A 82.301 226 23 6 2730 2940 722425964 722425741 2.460000e-41 180.0
57 TraesCS7A01G224400 chr7D 81.461 178 16 8 167 329 133199632 133199807 2.520000e-26 130.0


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 TraesCS7A01G224400 chr7A 193683703 193686810 3107 True 5740.000000 5740 100.00000 1 3108 1 chr7A.!!$R2 3107
1 TraesCS7A01G224400 chr5A 567021441 567024196 2755 False 2382.500000 2390 97.77550 1 2933 2 chr5A.!!$F3 2932
2 TraesCS7A01G224400 chr5A 82300003 82301529 1526 False 676.500000 822 84.52050 310 2030 2 chr5A.!!$F2 1720
3 TraesCS7A01G224400 chr1A 590765227 590768245 3018 True 1088.250000 1864 96.09975 1 2933 4 chr1A.!!$R1 2932
4 TraesCS7A01G224400 chr5B 94087270 94088807 1537 False 693.000000 833 85.01000 310 2030 2 chr5B.!!$F3 1720
5 TraesCS7A01G224400 chr5B 94048405 94050926 2521 False 537.125000 1243 90.90950 307 2710 4 chr5B.!!$F2 2403
6 TraesCS7A01G224400 chr5D 88465097 88471331 6234 False 609.916667 1206 87.11200 307 2643 6 chr5D.!!$F2 2336
7 TraesCS7A01G224400 chr2B 41472060 41474513 2453 True 608.720000 976 92.68620 1 2933 5 chr2B.!!$R2 2932
8 TraesCS7A01G224400 chr2B 745768126 745769228 1102 True 455.000000 730 84.13850 310 1422 2 chr2B.!!$R3 1112
9 TraesCS7A01G224400 chr2A 743265803 743266929 1126 True 750.000000 750 79.50000 303 1415 1 chr2A.!!$R3 1112
10 TraesCS7A01G224400 chr2D 610403037 610404580 1543 True 617.500000 704 84.71000 304 2030 2 chr2D.!!$R3 1726
11 TraesCS7A01G224400 chr2D 610377037 610378132 1095 True 459.500000 747 84.30450 310 1415 2 chr2D.!!$R2 1105
12 TraesCS7A01G224400 chr6B 150222099 150222811 712 False 254.000000 254 74.21100 484 1172 1 chr6B.!!$F1 688

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
968 1045 2.675423 CTGGGTCGACCGTCTCCA 60.675 66.667 27.68 18.02 44.64 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2964 8575 0.462581 CGCCTAGCTGAGAATTGGCA 60.463 55.0 0.0 0.0 40.27 4.92 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
968 1045 2.675423 CTGGGTCGACCGTCTCCA 60.675 66.667 27.68 18.02 44.64 3.86
1432 6429 4.168291 CGGAGCTTCTCAGGGGCC 62.168 72.222 0.00 0.00 31.08 5.80
1433 6430 3.011517 GGAGCTTCTCAGGGGCCA 61.012 66.667 4.39 0.00 31.08 5.36
1434 6431 2.606587 GGAGCTTCTCAGGGGCCAA 61.607 63.158 4.39 0.00 31.08 4.52
1435 6432 1.377856 GAGCTTCTCAGGGGCCAAC 60.378 63.158 4.39 0.00 0.00 3.77
1436 6433 2.361737 GCTTCTCAGGGGCCAACC 60.362 66.667 4.39 0.00 39.11 3.77
1437 6434 2.911926 GCTTCTCAGGGGCCAACCT 61.912 63.158 4.39 0.00 43.08 3.50
1466 6463 4.813907 CCCCCAGCCCATGATTTT 57.186 55.556 0.00 0.00 0.00 1.82
1467 6464 3.010627 CCCCCAGCCCATGATTTTT 57.989 52.632 0.00 0.00 0.00 1.94
1495 6492 4.464652 AATACCCCTTAGTATTTGGCCC 57.535 45.455 0.00 0.00 39.38 5.80
1496 6493 1.688750 ACCCCTTAGTATTTGGCCCA 58.311 50.000 0.00 0.00 0.00 5.36
1497 6494 2.223174 ACCCCTTAGTATTTGGCCCAT 58.777 47.619 0.00 0.00 0.00 4.00
1498 6495 3.409159 ACCCCTTAGTATTTGGCCCATA 58.591 45.455 0.00 0.00 0.00 2.74
1499 6496 3.994384 ACCCCTTAGTATTTGGCCCATAT 59.006 43.478 0.00 0.00 0.00 1.78
1500 6497 4.044191 ACCCCTTAGTATTTGGCCCATATC 59.956 45.833 0.00 0.00 0.00 1.63
1501 6498 4.292306 CCCCTTAGTATTTGGCCCATATCT 59.708 45.833 0.00 0.00 0.00 1.98
1502 6499 5.501156 CCCTTAGTATTTGGCCCATATCTC 58.499 45.833 0.00 0.00 0.00 2.75
1503 6500 5.014123 CCCTTAGTATTTGGCCCATATCTCA 59.986 44.000 0.00 0.00 0.00 3.27
1504 6501 6.467194 CCCTTAGTATTTGGCCCATATCTCAA 60.467 42.308 0.00 0.00 0.00 3.02
1505 6502 6.656693 CCTTAGTATTTGGCCCATATCTCAAG 59.343 42.308 0.00 0.00 0.00 3.02
1506 6503 4.401925 AGTATTTGGCCCATATCTCAAGC 58.598 43.478 0.00 0.00 0.00 4.01
1507 6504 2.824689 TTTGGCCCATATCTCAAGCA 57.175 45.000 0.00 0.00 0.00 3.91
1508 6505 2.824689 TTGGCCCATATCTCAAGCAA 57.175 45.000 0.00 0.00 0.00 3.91
1509 6506 2.824689 TGGCCCATATCTCAAGCAAA 57.175 45.000 0.00 0.00 0.00 3.68
1510 6507 3.098774 TGGCCCATATCTCAAGCAAAA 57.901 42.857 0.00 0.00 0.00 2.44
1511 6508 3.645434 TGGCCCATATCTCAAGCAAAAT 58.355 40.909 0.00 0.00 0.00 1.82
1512 6509 3.638160 TGGCCCATATCTCAAGCAAAATC 59.362 43.478 0.00 0.00 0.00 2.17
1513 6510 3.638160 GGCCCATATCTCAAGCAAAATCA 59.362 43.478 0.00 0.00 0.00 2.57
1514 6511 4.261909 GGCCCATATCTCAAGCAAAATCAG 60.262 45.833 0.00 0.00 0.00 2.90
1515 6512 4.795308 GCCCATATCTCAAGCAAAATCAGC 60.795 45.833 0.00 0.00 0.00 4.26
1516 6513 4.261909 CCCATATCTCAAGCAAAATCAGCC 60.262 45.833 0.00 0.00 0.00 4.85
1517 6514 4.261909 CCATATCTCAAGCAAAATCAGCCC 60.262 45.833 0.00 0.00 0.00 5.19
1518 6515 2.291209 TCTCAAGCAAAATCAGCCCA 57.709 45.000 0.00 0.00 0.00 5.36
1519 6516 2.596346 TCTCAAGCAAAATCAGCCCAA 58.404 42.857 0.00 0.00 0.00 4.12
1520 6517 2.964464 TCTCAAGCAAAATCAGCCCAAA 59.036 40.909 0.00 0.00 0.00 3.28
1521 6518 3.387374 TCTCAAGCAAAATCAGCCCAAAA 59.613 39.130 0.00 0.00 0.00 2.44
1522 6519 4.040706 TCTCAAGCAAAATCAGCCCAAAAT 59.959 37.500 0.00 0.00 0.00 1.82
1523 6520 5.245751 TCTCAAGCAAAATCAGCCCAAAATA 59.754 36.000 0.00 0.00 0.00 1.40
1524 6521 5.237048 TCAAGCAAAATCAGCCCAAAATAC 58.763 37.500 0.00 0.00 0.00 1.89
1525 6522 4.888326 AGCAAAATCAGCCCAAAATACA 57.112 36.364 0.00 0.00 0.00 2.29
1526 6523 5.425196 AGCAAAATCAGCCCAAAATACAT 57.575 34.783 0.00 0.00 0.00 2.29
1527 6524 6.543430 AGCAAAATCAGCCCAAAATACATA 57.457 33.333 0.00 0.00 0.00 2.29
1528 6525 7.128234 AGCAAAATCAGCCCAAAATACATAT 57.872 32.000 0.00 0.00 0.00 1.78
1529 6526 7.567458 AGCAAAATCAGCCCAAAATACATATT 58.433 30.769 0.00 0.00 0.00 1.28
1530 6527 7.496591 AGCAAAATCAGCCCAAAATACATATTG 59.503 33.333 0.00 0.00 0.00 1.90
1531 6528 7.280652 GCAAAATCAGCCCAAAATACATATTGT 59.719 33.333 0.00 0.00 0.00 2.71
1532 6529 9.165035 CAAAATCAGCCCAAAATACATATTGTT 57.835 29.630 0.00 0.00 0.00 2.83
1533 6530 9.737844 AAAATCAGCCCAAAATACATATTGTTT 57.262 25.926 0.00 0.00 0.00 2.83
1534 6531 8.721019 AATCAGCCCAAAATACATATTGTTTG 57.279 30.769 0.00 0.00 0.00 2.93
1535 6532 6.105333 TCAGCCCAAAATACATATTGTTTGC 58.895 36.000 0.00 0.00 0.00 3.68
1536 6533 5.294060 CAGCCCAAAATACATATTGTTTGCC 59.706 40.000 0.00 0.00 0.00 4.52
1537 6534 4.574421 GCCCAAAATACATATTGTTTGCCC 59.426 41.667 0.00 0.00 0.00 5.36
1538 6535 5.122519 CCCAAAATACATATTGTTTGCCCC 58.877 41.667 0.00 0.00 0.00 5.80
1539 6536 5.122519 CCAAAATACATATTGTTTGCCCCC 58.877 41.667 0.00 0.00 0.00 5.40
1570 6567 2.632831 CCCCCTAGATTTCAGCCCA 58.367 57.895 0.00 0.00 0.00 5.36
1571 6568 0.926293 CCCCCTAGATTTCAGCCCAA 59.074 55.000 0.00 0.00 0.00 4.12
1572 6569 1.133668 CCCCCTAGATTTCAGCCCAAG 60.134 57.143 0.00 0.00 0.00 3.61
1573 6570 1.685148 CCCTAGATTTCAGCCCAAGC 58.315 55.000 0.00 0.00 40.32 4.01
1584 6581 4.020617 CCCAAGCTCCGCCACTGA 62.021 66.667 0.00 0.00 0.00 3.41
1585 6582 2.032528 CCAAGCTCCGCCACTGAA 59.967 61.111 0.00 0.00 0.00 3.02
1586 6583 2.328099 CCAAGCTCCGCCACTGAAC 61.328 63.158 0.00 0.00 0.00 3.18
1587 6584 2.357517 AAGCTCCGCCACTGAACG 60.358 61.111 0.00 0.00 0.00 3.95
1588 6585 3.165160 AAGCTCCGCCACTGAACGT 62.165 57.895 0.00 0.00 0.00 3.99
1589 6586 3.112709 GCTCCGCCACTGAACGTC 61.113 66.667 0.00 0.00 0.00 4.34
2373 7517 0.951558 AAACGCCAGCAAAATCGACT 59.048 45.000 0.00 0.00 0.00 4.18
2616 8196 6.016276 ACGCTCTTTTATTGACTGGTGATTTT 60.016 34.615 0.00 0.00 0.00 1.82
2830 8441 8.701908 ATGTACTTTGAGCATGATGGAATAAT 57.298 30.769 0.00 0.00 0.00 1.28
2933 8544 1.196104 TGGCGCCCCAACTACTAGTT 61.196 55.000 26.77 0.00 39.39 2.24
2934 8545 0.826062 GGCGCCCCAACTACTAGTTA 59.174 55.000 18.11 0.00 36.03 2.24
2935 8546 1.202498 GGCGCCCCAACTACTAGTTAG 60.202 57.143 18.11 0.00 36.03 2.34
2936 8547 1.753073 GCGCCCCAACTACTAGTTAGA 59.247 52.381 0.00 0.00 36.03 2.10
2937 8548 2.223758 GCGCCCCAACTACTAGTTAGAG 60.224 54.545 0.00 0.00 36.03 2.43
2938 8549 3.022406 CGCCCCAACTACTAGTTAGAGT 58.978 50.000 0.00 0.00 36.03 3.24
2939 8550 3.181489 CGCCCCAACTACTAGTTAGAGTG 60.181 52.174 0.00 1.80 36.03 3.51
2940 8551 3.430513 GCCCCAACTACTAGTTAGAGTGC 60.431 52.174 0.00 0.00 36.03 4.40
2941 8552 3.767673 CCCCAACTACTAGTTAGAGTGCA 59.232 47.826 0.00 0.00 36.03 4.57
2942 8553 4.222145 CCCCAACTACTAGTTAGAGTGCAA 59.778 45.833 0.00 0.00 36.03 4.08
2943 8554 5.279809 CCCCAACTACTAGTTAGAGTGCAAA 60.280 44.000 0.00 0.00 36.03 3.68
2944 8555 5.869888 CCCAACTACTAGTTAGAGTGCAAAG 59.130 44.000 0.00 0.00 36.03 2.77
2945 8556 6.295123 CCCAACTACTAGTTAGAGTGCAAAGA 60.295 42.308 0.00 0.00 36.03 2.52
2946 8557 6.809196 CCAACTACTAGTTAGAGTGCAAAGAG 59.191 42.308 0.00 0.00 36.03 2.85
2947 8558 7.309255 CCAACTACTAGTTAGAGTGCAAAGAGA 60.309 40.741 0.00 0.00 36.03 3.10
2948 8559 7.948034 ACTACTAGTTAGAGTGCAAAGAGAT 57.052 36.000 0.00 0.00 0.00 2.75
2949 8560 7.767261 ACTACTAGTTAGAGTGCAAAGAGATG 58.233 38.462 0.00 0.00 0.00 2.90
2950 8561 5.415221 ACTAGTTAGAGTGCAAAGAGATGC 58.585 41.667 0.00 0.00 46.58 3.91
2951 8562 4.550076 AGTTAGAGTGCAAAGAGATGCT 57.450 40.909 0.00 0.00 46.54 3.79
2952 8563 4.904241 AGTTAGAGTGCAAAGAGATGCTT 58.096 39.130 0.00 0.00 46.54 3.91
2953 8564 4.934602 AGTTAGAGTGCAAAGAGATGCTTC 59.065 41.667 0.00 0.00 46.54 3.86
2954 8565 3.413846 AGAGTGCAAAGAGATGCTTCA 57.586 42.857 2.07 0.00 46.54 3.02
2955 8566 3.748083 AGAGTGCAAAGAGATGCTTCAA 58.252 40.909 2.07 0.00 46.54 2.69
2956 8567 4.333690 AGAGTGCAAAGAGATGCTTCAAT 58.666 39.130 2.07 0.00 46.54 2.57
2957 8568 4.156190 AGAGTGCAAAGAGATGCTTCAATG 59.844 41.667 2.07 0.00 46.54 2.82
2958 8569 4.077108 AGTGCAAAGAGATGCTTCAATGA 58.923 39.130 2.07 0.00 46.54 2.57
2959 8570 4.156190 AGTGCAAAGAGATGCTTCAATGAG 59.844 41.667 2.07 0.00 46.54 2.90
2960 8571 3.442625 TGCAAAGAGATGCTTCAATGAGG 59.557 43.478 2.07 0.00 46.54 3.86
2961 8572 3.181489 GCAAAGAGATGCTTCAATGAGGG 60.181 47.826 2.07 0.00 43.06 4.30
2962 8573 4.015084 CAAAGAGATGCTTCAATGAGGGT 58.985 43.478 2.07 0.00 35.24 4.34
2963 8574 3.278668 AGAGATGCTTCAATGAGGGTG 57.721 47.619 2.07 0.00 0.00 4.61
2964 8575 2.575279 AGAGATGCTTCAATGAGGGTGT 59.425 45.455 2.07 0.00 0.00 4.16
2965 8576 2.681848 GAGATGCTTCAATGAGGGTGTG 59.318 50.000 2.07 0.00 0.00 3.82
2966 8577 1.133790 GATGCTTCAATGAGGGTGTGC 59.866 52.381 0.00 0.00 0.00 4.57
2967 8578 0.895100 TGCTTCAATGAGGGTGTGCC 60.895 55.000 0.00 0.00 0.00 5.01
2968 8579 0.895100 GCTTCAATGAGGGTGTGCCA 60.895 55.000 0.00 0.00 36.17 4.92
2969 8580 1.619654 CTTCAATGAGGGTGTGCCAA 58.380 50.000 0.00 0.00 36.17 4.52
2970 8581 2.173519 CTTCAATGAGGGTGTGCCAAT 58.826 47.619 0.00 0.00 36.17 3.16
2971 8582 2.307496 TCAATGAGGGTGTGCCAATT 57.693 45.000 0.00 0.00 36.17 2.32
2972 8583 2.170166 TCAATGAGGGTGTGCCAATTC 58.830 47.619 0.00 0.00 36.17 2.17
2973 8584 2.173519 CAATGAGGGTGTGCCAATTCT 58.826 47.619 0.00 0.00 36.17 2.40
2974 8585 2.134789 ATGAGGGTGTGCCAATTCTC 57.865 50.000 0.00 0.00 36.17 2.87
2975 8586 0.770499 TGAGGGTGTGCCAATTCTCA 59.230 50.000 0.00 0.00 36.17 3.27
2976 8587 1.271543 TGAGGGTGTGCCAATTCTCAG 60.272 52.381 0.00 0.00 36.17 3.35
2977 8588 0.610232 AGGGTGTGCCAATTCTCAGC 60.610 55.000 0.00 0.00 36.17 4.26
2978 8589 0.610232 GGGTGTGCCAATTCTCAGCT 60.610 55.000 0.00 0.00 36.17 4.24
2979 8590 1.340017 GGGTGTGCCAATTCTCAGCTA 60.340 52.381 0.00 0.00 36.17 3.32
2980 8591 2.012673 GGTGTGCCAATTCTCAGCTAG 58.987 52.381 0.00 0.00 34.09 3.42
2981 8592 2.012673 GTGTGCCAATTCTCAGCTAGG 58.987 52.381 0.00 0.00 0.00 3.02
2982 8593 1.020437 GTGCCAATTCTCAGCTAGGC 58.980 55.000 0.00 0.00 42.32 3.93
2983 8594 0.462581 TGCCAATTCTCAGCTAGGCG 60.463 55.000 0.00 0.00 44.83 5.52
2984 8595 1.780025 GCCAATTCTCAGCTAGGCGC 61.780 60.000 0.00 0.00 39.57 6.53
2995 8606 2.527442 GCTAGGCGCTTTTGTAGTTG 57.473 50.000 7.64 0.00 35.14 3.16
2996 8607 2.073816 GCTAGGCGCTTTTGTAGTTGA 58.926 47.619 7.64 0.00 35.14 3.18
2997 8608 2.159693 GCTAGGCGCTTTTGTAGTTGAC 60.160 50.000 7.64 0.00 35.14 3.18
2998 8609 1.961793 AGGCGCTTTTGTAGTTGACA 58.038 45.000 7.64 0.00 35.78 3.58
2999 8610 2.504367 AGGCGCTTTTGTAGTTGACAT 58.496 42.857 7.64 0.00 38.07 3.06
3000 8611 3.670625 AGGCGCTTTTGTAGTTGACATA 58.329 40.909 7.64 0.00 38.07 2.29
3001 8612 4.261801 AGGCGCTTTTGTAGTTGACATAT 58.738 39.130 7.64 0.00 38.07 1.78
3002 8613 4.700213 AGGCGCTTTTGTAGTTGACATATT 59.300 37.500 7.64 0.00 38.07 1.28
3003 8614 5.878116 AGGCGCTTTTGTAGTTGACATATTA 59.122 36.000 7.64 0.00 38.07 0.98
3004 8615 6.037172 AGGCGCTTTTGTAGTTGACATATTAG 59.963 38.462 7.64 0.00 38.07 1.73
3005 8616 6.036735 GGCGCTTTTGTAGTTGACATATTAGA 59.963 38.462 7.64 0.00 38.07 2.10
3006 8617 7.254795 GGCGCTTTTGTAGTTGACATATTAGAT 60.255 37.037 7.64 0.00 38.07 1.98
3007 8618 7.584123 GCGCTTTTGTAGTTGACATATTAGATG 59.416 37.037 0.00 0.00 38.07 2.90
3008 8619 8.604035 CGCTTTTGTAGTTGACATATTAGATGT 58.396 33.333 0.00 0.00 38.07 3.06
3035 8646 6.837471 ACTAATAGGAAGCTAGATAACCCG 57.163 41.667 0.00 0.00 0.00 5.28
3036 8647 6.313324 ACTAATAGGAAGCTAGATAACCCGT 58.687 40.000 0.00 0.00 0.00 5.28
3037 8648 5.470047 AATAGGAAGCTAGATAACCCGTG 57.530 43.478 0.00 0.00 0.00 4.94
3038 8649 2.040178 AGGAAGCTAGATAACCCGTGG 58.960 52.381 0.00 0.00 0.00 4.94
3039 8650 1.540580 GGAAGCTAGATAACCCGTGGC 60.541 57.143 0.00 0.00 0.00 5.01
3040 8651 0.468648 AAGCTAGATAACCCGTGGCC 59.531 55.000 0.00 0.00 0.00 5.36
3041 8652 0.398664 AGCTAGATAACCCGTGGCCT 60.399 55.000 3.32 0.00 0.00 5.19
3042 8653 0.249911 GCTAGATAACCCGTGGCCTG 60.250 60.000 3.32 0.00 0.00 4.85
3043 8654 1.120530 CTAGATAACCCGTGGCCTGT 58.879 55.000 3.32 0.00 0.00 4.00
3044 8655 2.313317 CTAGATAACCCGTGGCCTGTA 58.687 52.381 3.32 0.00 0.00 2.74
3045 8656 0.828677 AGATAACCCGTGGCCTGTAC 59.171 55.000 3.32 0.00 0.00 2.90
3046 8657 0.538118 GATAACCCGTGGCCTGTACA 59.462 55.000 3.32 0.00 0.00 2.90
3047 8658 0.985760 ATAACCCGTGGCCTGTACAA 59.014 50.000 3.32 0.00 0.00 2.41
3048 8659 0.985760 TAACCCGTGGCCTGTACAAT 59.014 50.000 3.32 0.00 0.00 2.71
3049 8660 0.985760 AACCCGTGGCCTGTACAATA 59.014 50.000 3.32 0.00 0.00 1.90
3050 8661 1.209621 ACCCGTGGCCTGTACAATAT 58.790 50.000 3.32 0.00 0.00 1.28
3051 8662 1.140252 ACCCGTGGCCTGTACAATATC 59.860 52.381 3.32 0.00 0.00 1.63
3052 8663 1.140052 CCCGTGGCCTGTACAATATCA 59.860 52.381 3.32 0.00 0.00 2.15
3053 8664 2.224523 CCCGTGGCCTGTACAATATCAT 60.225 50.000 3.32 0.00 0.00 2.45
3054 8665 3.007506 CCCGTGGCCTGTACAATATCATA 59.992 47.826 3.32 0.00 0.00 2.15
3055 8666 4.504165 CCCGTGGCCTGTACAATATCATAA 60.504 45.833 3.32 0.00 0.00 1.90
3056 8667 5.245531 CCGTGGCCTGTACAATATCATAAT 58.754 41.667 3.32 0.00 0.00 1.28
3057 8668 5.705441 CCGTGGCCTGTACAATATCATAATT 59.295 40.000 3.32 0.00 0.00 1.40
3058 8669 6.128282 CCGTGGCCTGTACAATATCATAATTC 60.128 42.308 3.32 0.00 0.00 2.17
3059 8670 6.426633 CGTGGCCTGTACAATATCATAATTCA 59.573 38.462 3.32 0.00 0.00 2.57
3060 8671 7.041440 CGTGGCCTGTACAATATCATAATTCAA 60.041 37.037 3.32 0.00 0.00 2.69
3061 8672 8.629158 GTGGCCTGTACAATATCATAATTCAAA 58.371 33.333 3.32 0.00 0.00 2.69
3062 8673 9.194972 TGGCCTGTACAATATCATAATTCAAAA 57.805 29.630 3.32 0.00 0.00 2.44
3104 8715 6.579666 ACTGTTGCAGTTTCATATTCACAT 57.420 33.333 0.00 0.00 42.59 3.21
3105 8716 6.985117 ACTGTTGCAGTTTCATATTCACATT 58.015 32.000 0.00 0.00 42.59 2.71
3106 8717 7.086376 ACTGTTGCAGTTTCATATTCACATTC 58.914 34.615 0.00 0.00 42.59 2.67
3107 8718 7.040201 ACTGTTGCAGTTTCATATTCACATTCT 60.040 33.333 0.00 0.00 42.59 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
618 639 1.078988 TGGTCCGCCCGTAAATGAC 60.079 57.895 0.00 0.00 35.15 3.06
968 1045 2.742372 CTTACAAGCGCCGCCTGT 60.742 61.111 18.23 18.23 37.05 4.00
1061 1145 1.183549 GCCCTTCTTCTCCACGTCTA 58.816 55.000 0.00 0.00 0.00 2.59
1407 6404 4.400961 AGAAGCTCCGCCACTGCC 62.401 66.667 0.00 0.00 0.00 4.85
1408 6405 2.817396 GAGAAGCTCCGCCACTGC 60.817 66.667 0.00 0.00 0.00 4.40
1409 6406 1.447489 CTGAGAAGCTCCGCCACTG 60.447 63.158 0.00 0.00 0.00 3.66
1410 6407 2.654079 CCTGAGAAGCTCCGCCACT 61.654 63.158 0.00 0.00 0.00 4.00
1411 6408 2.125350 CCTGAGAAGCTCCGCCAC 60.125 66.667 0.00 0.00 0.00 5.01
1412 6409 3.393970 CCCTGAGAAGCTCCGCCA 61.394 66.667 0.00 0.00 0.00 5.69
1413 6410 4.168291 CCCCTGAGAAGCTCCGCC 62.168 72.222 0.00 0.00 0.00 6.13
1414 6411 4.847444 GCCCCTGAGAAGCTCCGC 62.847 72.222 0.00 0.00 0.00 5.54
1415 6412 4.168291 GGCCCCTGAGAAGCTCCG 62.168 72.222 0.00 0.00 0.00 4.63
1416 6413 2.606587 TTGGCCCCTGAGAAGCTCC 61.607 63.158 0.00 0.00 0.00 4.70
1417 6414 1.377856 GTTGGCCCCTGAGAAGCTC 60.378 63.158 0.00 0.00 0.00 4.09
1418 6415 2.759795 GTTGGCCCCTGAGAAGCT 59.240 61.111 0.00 0.00 0.00 3.74
1419 6416 2.361737 GGTTGGCCCCTGAGAAGC 60.362 66.667 0.00 0.00 0.00 3.86
1420 6417 3.500635 AGGTTGGCCCCTGAGAAG 58.499 61.111 0.00 0.00 32.11 2.85
1449 6446 3.010627 AAAAATCATGGGCTGGGGG 57.989 52.632 0.00 0.00 0.00 5.40
1466 6463 9.250246 CCAAATACTAAGGGGTATTTCAGAAAA 57.750 33.333 0.00 0.00 45.12 2.29
1467 6464 7.340999 GCCAAATACTAAGGGGTATTTCAGAAA 59.659 37.037 0.00 0.00 45.12 2.52
1468 6465 6.831868 GCCAAATACTAAGGGGTATTTCAGAA 59.168 38.462 8.92 0.00 45.12 3.02
1469 6466 6.362248 GCCAAATACTAAGGGGTATTTCAGA 58.638 40.000 8.92 0.00 45.12 3.27
1470 6467 5.535030 GGCCAAATACTAAGGGGTATTTCAG 59.465 44.000 0.00 6.17 45.12 3.02
1471 6468 5.451354 GGCCAAATACTAAGGGGTATTTCA 58.549 41.667 0.00 0.00 45.12 2.69
1472 6469 4.831155 GGGCCAAATACTAAGGGGTATTTC 59.169 45.833 4.39 1.82 45.12 2.17
1473 6470 4.233287 TGGGCCAAATACTAAGGGGTATTT 59.767 41.667 2.13 6.74 46.72 1.40
1474 6471 3.794971 TGGGCCAAATACTAAGGGGTATT 59.205 43.478 2.13 0.00 42.15 1.89
1475 6472 3.409159 TGGGCCAAATACTAAGGGGTAT 58.591 45.455 2.13 0.00 34.29 2.73
1476 6473 2.861261 TGGGCCAAATACTAAGGGGTA 58.139 47.619 2.13 0.00 0.00 3.69
1477 6474 1.688750 TGGGCCAAATACTAAGGGGT 58.311 50.000 2.13 0.00 0.00 4.95
1478 6475 4.292306 AGATATGGGCCAAATACTAAGGGG 59.708 45.833 11.89 0.00 0.00 4.79
1479 6476 5.014123 TGAGATATGGGCCAAATACTAAGGG 59.986 44.000 11.89 0.00 0.00 3.95
1480 6477 6.126863 TGAGATATGGGCCAAATACTAAGG 57.873 41.667 11.89 0.00 0.00 2.69
1481 6478 6.150140 GCTTGAGATATGGGCCAAATACTAAG 59.850 42.308 11.89 12.84 0.00 2.18
1482 6479 6.003950 GCTTGAGATATGGGCCAAATACTAA 58.996 40.000 11.89 1.71 0.00 2.24
1483 6480 5.073008 TGCTTGAGATATGGGCCAAATACTA 59.927 40.000 11.89 0.00 0.00 1.82
1484 6481 4.141181 TGCTTGAGATATGGGCCAAATACT 60.141 41.667 11.89 8.01 0.00 2.12
1485 6482 4.144297 TGCTTGAGATATGGGCCAAATAC 58.856 43.478 11.89 2.52 0.00 1.89
1486 6483 4.451891 TGCTTGAGATATGGGCCAAATA 57.548 40.909 11.89 0.00 0.00 1.40
1487 6484 3.317455 TGCTTGAGATATGGGCCAAAT 57.683 42.857 11.89 0.00 0.00 2.32
1488 6485 2.824689 TGCTTGAGATATGGGCCAAA 57.175 45.000 11.89 0.00 0.00 3.28
1489 6486 2.824689 TTGCTTGAGATATGGGCCAA 57.175 45.000 11.89 0.00 0.00 4.52
1490 6487 2.824689 TTTGCTTGAGATATGGGCCA 57.175 45.000 9.61 9.61 0.00 5.36
1491 6488 3.638160 TGATTTTGCTTGAGATATGGGCC 59.362 43.478 0.00 0.00 0.00 5.80
1492 6489 4.795308 GCTGATTTTGCTTGAGATATGGGC 60.795 45.833 0.00 0.00 0.00 5.36
1493 6490 4.261909 GGCTGATTTTGCTTGAGATATGGG 60.262 45.833 0.00 0.00 0.00 4.00
1494 6491 4.261909 GGGCTGATTTTGCTTGAGATATGG 60.262 45.833 0.00 0.00 0.00 2.74
1495 6492 4.340097 TGGGCTGATTTTGCTTGAGATATG 59.660 41.667 0.00 0.00 0.00 1.78
1496 6493 4.539726 TGGGCTGATTTTGCTTGAGATAT 58.460 39.130 0.00 0.00 0.00 1.63
1497 6494 3.966979 TGGGCTGATTTTGCTTGAGATA 58.033 40.909 0.00 0.00 0.00 1.98
1498 6495 2.811410 TGGGCTGATTTTGCTTGAGAT 58.189 42.857 0.00 0.00 0.00 2.75
1499 6496 2.291209 TGGGCTGATTTTGCTTGAGA 57.709 45.000 0.00 0.00 0.00 3.27
1500 6497 3.389925 TTTGGGCTGATTTTGCTTGAG 57.610 42.857 0.00 0.00 0.00 3.02
1501 6498 3.834489 TTTTGGGCTGATTTTGCTTGA 57.166 38.095 0.00 0.00 0.00 3.02
1502 6499 4.996122 TGTATTTTGGGCTGATTTTGCTTG 59.004 37.500 0.00 0.00 0.00 4.01
1503 6500 5.226194 TGTATTTTGGGCTGATTTTGCTT 57.774 34.783 0.00 0.00 0.00 3.91
1504 6501 4.888326 TGTATTTTGGGCTGATTTTGCT 57.112 36.364 0.00 0.00 0.00 3.91
1505 6502 7.280652 ACAATATGTATTTTGGGCTGATTTTGC 59.719 33.333 1.27 0.00 0.00 3.68
1506 6503 8.721019 ACAATATGTATTTTGGGCTGATTTTG 57.279 30.769 1.27 0.00 0.00 2.44
1507 6504 9.737844 AAACAATATGTATTTTGGGCTGATTTT 57.262 25.926 1.27 0.00 0.00 1.82
1508 6505 9.165035 CAAACAATATGTATTTTGGGCTGATTT 57.835 29.630 1.27 0.00 0.00 2.17
1509 6506 7.280652 GCAAACAATATGTATTTTGGGCTGATT 59.719 33.333 0.00 0.00 0.00 2.57
1510 6507 6.762661 GCAAACAATATGTATTTTGGGCTGAT 59.237 34.615 0.00 0.00 0.00 2.90
1511 6508 6.105333 GCAAACAATATGTATTTTGGGCTGA 58.895 36.000 0.00 0.00 0.00 4.26
1512 6509 5.294060 GGCAAACAATATGTATTTTGGGCTG 59.706 40.000 0.00 0.00 0.00 4.85
1513 6510 5.427378 GGCAAACAATATGTATTTTGGGCT 58.573 37.500 0.00 0.00 0.00 5.19
1514 6511 4.574421 GGGCAAACAATATGTATTTTGGGC 59.426 41.667 0.00 0.00 0.00 5.36
1515 6512 5.122519 GGGGCAAACAATATGTATTTTGGG 58.877 41.667 0.00 0.00 0.00 4.12
1516 6513 5.122519 GGGGGCAAACAATATGTATTTTGG 58.877 41.667 0.00 0.00 0.00 3.28
1552 6549 0.926293 TTGGGCTGAAATCTAGGGGG 59.074 55.000 0.00 0.00 0.00 5.40
1553 6550 1.752084 GCTTGGGCTGAAATCTAGGGG 60.752 57.143 0.00 0.00 35.22 4.79
1554 6551 1.685148 GCTTGGGCTGAAATCTAGGG 58.315 55.000 0.00 0.00 35.22 3.53
1573 6570 2.805353 CGACGTTCAGTGGCGGAG 60.805 66.667 11.47 3.04 0.00 4.63
1574 6571 4.351938 CCGACGTTCAGTGGCGGA 62.352 66.667 0.00 0.00 41.22 5.54
1577 6574 2.742372 ATGCCGACGTTCAGTGGC 60.742 61.111 9.01 9.01 43.02 5.01
1578 6575 2.390599 CCATGCCGACGTTCAGTGG 61.391 63.158 0.00 0.00 0.00 4.00
1579 6576 2.390599 CCCATGCCGACGTTCAGTG 61.391 63.158 0.00 0.00 0.00 3.66
1580 6577 2.047274 CCCATGCCGACGTTCAGT 60.047 61.111 0.00 0.00 0.00 3.41
1581 6578 3.499737 GCCCATGCCGACGTTCAG 61.500 66.667 0.00 0.00 0.00 3.02
2373 7517 7.877003 TCTTACCGACTTTGCAAATTTTGATA 58.123 30.769 13.23 0.00 0.00 2.15
2616 8196 9.747898 AGGTATATTTGTTGTGTCTAAATCCAA 57.252 29.630 0.00 0.00 0.00 3.53
2750 8361 4.520111 AGAGATGTGCAAAAGCAATACACA 59.480 37.500 0.00 0.00 44.56 3.72
2804 8415 9.797642 ATTATTCCATCATGCTCAAAGTACATA 57.202 29.630 0.00 0.00 0.00 2.29
2830 8441 6.001460 CACTTTCTTGTTTGTATCAGGGGTA 58.999 40.000 0.00 0.00 0.00 3.69
2933 8544 4.541973 TGAAGCATCTCTTTGCACTCTA 57.458 40.909 0.00 0.00 45.23 2.43
2934 8545 3.413846 TGAAGCATCTCTTTGCACTCT 57.586 42.857 0.00 0.00 45.23 3.24
2935 8546 4.155462 TCATTGAAGCATCTCTTTGCACTC 59.845 41.667 0.00 0.00 45.23 3.51
2936 8547 4.077108 TCATTGAAGCATCTCTTTGCACT 58.923 39.130 0.00 0.00 45.23 4.40
2937 8548 4.413087 CTCATTGAAGCATCTCTTTGCAC 58.587 43.478 0.00 0.00 45.23 4.57
2938 8549 3.442625 CCTCATTGAAGCATCTCTTTGCA 59.557 43.478 0.00 0.00 45.23 4.08
2939 8550 3.181489 CCCTCATTGAAGCATCTCTTTGC 60.181 47.826 0.00 0.00 43.09 3.68
2940 8551 4.015084 ACCCTCATTGAAGCATCTCTTTG 58.985 43.478 0.00 0.00 34.56 2.77
2941 8552 4.015084 CACCCTCATTGAAGCATCTCTTT 58.985 43.478 0.00 0.00 34.56 2.52
2942 8553 3.009916 ACACCCTCATTGAAGCATCTCTT 59.990 43.478 0.00 0.00 37.83 2.85
2943 8554 2.575279 ACACCCTCATTGAAGCATCTCT 59.425 45.455 0.00 0.00 0.00 3.10
2944 8555 2.681848 CACACCCTCATTGAAGCATCTC 59.318 50.000 0.00 0.00 0.00 2.75
2945 8556 2.719739 CACACCCTCATTGAAGCATCT 58.280 47.619 0.00 0.00 0.00 2.90
2946 8557 1.133790 GCACACCCTCATTGAAGCATC 59.866 52.381 0.00 0.00 0.00 3.91
2947 8558 1.180029 GCACACCCTCATTGAAGCAT 58.820 50.000 0.00 0.00 0.00 3.79
2948 8559 0.895100 GGCACACCCTCATTGAAGCA 60.895 55.000 0.00 0.00 0.00 3.91
2949 8560 0.895100 TGGCACACCCTCATTGAAGC 60.895 55.000 0.00 0.00 33.59 3.86
2950 8561 1.619654 TTGGCACACCCTCATTGAAG 58.380 50.000 0.00 0.00 39.29 3.02
2951 8562 2.307496 ATTGGCACACCCTCATTGAA 57.693 45.000 0.00 0.00 39.29 2.69
2952 8563 2.170166 GAATTGGCACACCCTCATTGA 58.830 47.619 0.00 0.00 39.29 2.57
2953 8564 2.165030 GAGAATTGGCACACCCTCATTG 59.835 50.000 0.00 0.00 39.29 2.82
2954 8565 2.225091 TGAGAATTGGCACACCCTCATT 60.225 45.455 0.00 0.00 39.29 2.57
2955 8566 1.355381 TGAGAATTGGCACACCCTCAT 59.645 47.619 0.00 0.00 39.29 2.90
2956 8567 0.770499 TGAGAATTGGCACACCCTCA 59.230 50.000 0.00 0.00 39.29 3.86
2957 8568 1.457346 CTGAGAATTGGCACACCCTC 58.543 55.000 0.00 0.00 39.29 4.30
2958 8569 0.610232 GCTGAGAATTGGCACACCCT 60.610 55.000 0.00 0.00 39.29 4.34
2959 8570 0.610232 AGCTGAGAATTGGCACACCC 60.610 55.000 0.00 0.00 39.29 4.61
2960 8571 2.012673 CTAGCTGAGAATTGGCACACC 58.987 52.381 0.00 0.00 39.29 4.16
2961 8572 2.012673 CCTAGCTGAGAATTGGCACAC 58.987 52.381 0.00 0.00 39.29 3.82
2962 8573 1.679944 GCCTAGCTGAGAATTGGCACA 60.680 52.381 0.00 0.00 40.04 4.57
2963 8574 1.020437 GCCTAGCTGAGAATTGGCAC 58.980 55.000 0.00 0.00 40.04 5.01
2964 8575 0.462581 CGCCTAGCTGAGAATTGGCA 60.463 55.000 0.00 0.00 40.27 4.92
2965 8576 1.780025 GCGCCTAGCTGAGAATTGGC 61.780 60.000 0.00 0.00 44.04 4.52
2966 8577 2.315246 GCGCCTAGCTGAGAATTGG 58.685 57.895 0.00 0.00 44.04 3.16
2976 8587 4.655607 TGTCAACTACAAAAGCGCCTAGC 61.656 47.826 2.29 0.00 40.04 3.42
2977 8588 3.064207 TGTCAACTACAAAAGCGCCTAG 58.936 45.455 2.29 0.00 34.29 3.02
2978 8589 3.114668 TGTCAACTACAAAAGCGCCTA 57.885 42.857 2.29 0.00 34.29 3.93
2979 8590 1.961793 TGTCAACTACAAAAGCGCCT 58.038 45.000 2.29 0.00 34.29 5.52
2980 8591 2.989422 ATGTCAACTACAAAAGCGCC 57.011 45.000 2.29 0.00 42.70 6.53
2981 8592 7.000575 TCTAATATGTCAACTACAAAAGCGC 57.999 36.000 0.00 0.00 42.70 5.92
2982 8593 8.604035 ACATCTAATATGTCAACTACAAAAGCG 58.396 33.333 0.00 0.00 42.70 4.68
3009 8620 9.624373 CGGGTTATCTAGCTTCCTATTAGTATA 57.376 37.037 0.00 0.00 0.00 1.47
3010 8621 8.114743 ACGGGTTATCTAGCTTCCTATTAGTAT 58.885 37.037 0.00 0.00 0.00 2.12
3011 8622 7.392673 CACGGGTTATCTAGCTTCCTATTAGTA 59.607 40.741 0.00 0.00 0.00 1.82
3012 8623 6.208994 CACGGGTTATCTAGCTTCCTATTAGT 59.791 42.308 0.00 0.00 0.00 2.24
3013 8624 6.350277 CCACGGGTTATCTAGCTTCCTATTAG 60.350 46.154 0.00 0.00 0.00 1.73
3014 8625 5.479375 CCACGGGTTATCTAGCTTCCTATTA 59.521 44.000 0.00 0.00 0.00 0.98
3015 8626 4.283722 CCACGGGTTATCTAGCTTCCTATT 59.716 45.833 0.00 0.00 0.00 1.73
3016 8627 3.833070 CCACGGGTTATCTAGCTTCCTAT 59.167 47.826 0.00 0.00 0.00 2.57
3017 8628 3.228453 CCACGGGTTATCTAGCTTCCTA 58.772 50.000 0.00 0.00 0.00 2.94
3018 8629 2.040178 CCACGGGTTATCTAGCTTCCT 58.960 52.381 0.00 0.00 0.00 3.36
3019 8630 1.540580 GCCACGGGTTATCTAGCTTCC 60.541 57.143 0.00 0.00 0.00 3.46
3020 8631 1.540580 GGCCACGGGTTATCTAGCTTC 60.541 57.143 0.00 0.00 0.00 3.86
3021 8632 0.468648 GGCCACGGGTTATCTAGCTT 59.531 55.000 0.00 0.00 0.00 3.74
3022 8633 0.398664 AGGCCACGGGTTATCTAGCT 60.399 55.000 5.01 0.00 0.00 3.32
3023 8634 0.249911 CAGGCCACGGGTTATCTAGC 60.250 60.000 5.01 0.00 0.00 3.42
3024 8635 1.120530 ACAGGCCACGGGTTATCTAG 58.879 55.000 5.01 0.00 0.00 2.43
3025 8636 2.034124 GTACAGGCCACGGGTTATCTA 58.966 52.381 5.01 0.00 0.00 1.98
3026 8637 0.828677 GTACAGGCCACGGGTTATCT 59.171 55.000 5.01 0.00 0.00 1.98
3027 8638 0.538118 TGTACAGGCCACGGGTTATC 59.462 55.000 5.01 0.00 0.00 1.75
3028 8639 0.985760 TTGTACAGGCCACGGGTTAT 59.014 50.000 5.01 0.00 0.00 1.89
3029 8640 0.985760 ATTGTACAGGCCACGGGTTA 59.014 50.000 5.01 0.00 0.00 2.85
3030 8641 0.985760 TATTGTACAGGCCACGGGTT 59.014 50.000 5.01 0.00 0.00 4.11
3031 8642 1.140252 GATATTGTACAGGCCACGGGT 59.860 52.381 5.01 0.00 0.00 5.28
3032 8643 1.140052 TGATATTGTACAGGCCACGGG 59.860 52.381 5.01 0.00 0.00 5.28
3033 8644 2.613026 TGATATTGTACAGGCCACGG 57.387 50.000 5.01 0.00 0.00 4.94
3034 8645 6.426633 TGAATTATGATATTGTACAGGCCACG 59.573 38.462 5.01 0.00 0.00 4.94
3035 8646 7.744087 TGAATTATGATATTGTACAGGCCAC 57.256 36.000 5.01 0.00 0.00 5.01
3036 8647 8.759481 TTTGAATTATGATATTGTACAGGCCA 57.241 30.769 5.01 0.00 0.00 5.36
3057 8668 9.979578 AGTTGCACTGAATATTGTAATTTTTGA 57.020 25.926 0.00 0.00 0.00 2.69
3082 8693 7.310664 AGAATGTGAATATGAAACTGCAACAG 58.689 34.615 0.00 0.00 37.52 3.16
3083 8694 7.218228 AGAATGTGAATATGAAACTGCAACA 57.782 32.000 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.