Multiple sequence alignment - TraesCS4A01G498900

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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 TraesCS4A01G498900 chr4A 100.000 2935 0 0 1 2935 743985439 743988373 0.000000e+00 5421.0
1 TraesCS4A01G498900 chr4A 89.873 1649 92 35 810 2436 743831082 743829487 0.000000e+00 2050.0
2 TraesCS4A01G498900 chr4A 77.692 1161 203 39 826 1949 744221300 744222441 0.000000e+00 658.0
3 TraesCS4A01G498900 chr4A 77.700 1148 200 35 826 1936 742821991 742820863 0.000000e+00 651.0
4 TraesCS4A01G498900 chr4A 88.554 332 28 7 154 478 743831959 743831631 7.620000e-106 394.0
5 TraesCS4A01G498900 chr4A 83.776 339 38 7 475 812 743831459 743831137 3.670000e-79 305.0
6 TraesCS4A01G498900 chr4A 97.674 43 1 0 2665 2707 743828794 743828752 1.130000e-09 75.0
7 TraesCS4A01G498900 chr4A 100.000 28 0 0 2278 2305 743149550 743149523 5.000000e-03 52.8
8 TraesCS4A01G498900 chr7A 86.497 1496 113 31 946 2384 1281613 1280150 0.000000e+00 1561.0
9 TraesCS4A01G498900 chr7A 92.798 486 26 3 1 478 1282468 1281984 0.000000e+00 695.0
10 TraesCS4A01G498900 chr7A 93.868 212 10 3 689 899 1281840 1281631 1.700000e-82 316.0
11 TraesCS4A01G498900 chr7A 78.271 428 58 25 1290 1696 204160805 204160392 2.920000e-60 243.0
12 TraesCS4A01G498900 chr7A 86.000 150 21 0 1787 1936 204160329 204160180 8.420000e-36 161.0
13 TraesCS4A01G498900 chr7A 100.000 30 0 0 2638 2667 202848319 202848290 4.090000e-04 56.5
14 TraesCS4A01G498900 chr7D 91.604 1060 58 8 539 1571 1369393 1370448 0.000000e+00 1435.0
15 TraesCS4A01G498900 chr7D 87.026 1187 74 33 567 1697 1252889 1251727 0.000000e+00 1266.0
16 TraesCS4A01G498900 chr7D 86.850 654 30 9 1784 2415 1251709 1251090 0.000000e+00 680.0
17 TraesCS4A01G498900 chr7D 86.353 447 47 5 46 478 1368389 1368835 2.650000e-130 475.0
18 TraesCS4A01G498900 chr7D 90.217 276 14 6 1954 2220 1370781 1371052 6.020000e-92 348.0
19 TraesCS4A01G498900 chr7D 92.818 181 13 0 1784 1964 1370566 1370746 2.240000e-66 263.0
20 TraesCS4A01G498900 chr7D 85.333 150 22 0 1787 1936 194469712 194469563 3.920000e-34 156.0
21 TraesCS4A01G498900 chr7D 93.814 97 6 0 2839 2935 1373382 1373478 2.360000e-31 147.0
22 TraesCS4A01G498900 chr7D 93.617 47 2 1 1709 1754 126048692 126048646 5.250000e-08 69.4
23 TraesCS4A01G498900 chr7D 94.286 35 2 0 2633 2667 576889307 576889273 1.000000e-03 54.7
24 TraesCS4A01G498900 chrUn 77.692 1161 203 34 826 1949 288793676 288794817 0.000000e+00 658.0
25 TraesCS4A01G498900 chrUn 77.692 1161 203 34 826 1949 304117617 304118758 0.000000e+00 658.0
26 TraesCS4A01G498900 chrUn 100.000 31 0 0 2637 2667 327315723 327315693 1.140000e-04 58.4
27 TraesCS4A01G498900 chr7B 74.614 843 139 47 792 1601 158368662 158367862 4.750000e-78 302.0
28 TraesCS4A01G498900 chr7B 87.333 150 19 0 1787 1936 158367684 158367535 3.890000e-39 172.0
29 TraesCS4A01G498900 chr7B 95.122 41 2 0 1715 1755 423470218 423470178 6.790000e-07 65.8
30 TraesCS4A01G498900 chr5A 97.561 41 1 0 1714 1754 184232024 184231984 1.460000e-08 71.3
31 TraesCS4A01G498900 chr5B 97.500 40 1 0 1715 1754 702412842 702412803 5.250000e-08 69.4
32 TraesCS4A01G498900 chr3A 97.500 40 1 0 1715 1754 200126813 200126774 5.250000e-08 69.4
33 TraesCS4A01G498900 chr3A 100.000 33 0 0 2635 2667 600434843 600434875 8.780000e-06 62.1
34 TraesCS4A01G498900 chr1B 97.500 40 1 0 1715 1754 580216707 580216668 5.250000e-08 69.4
35 TraesCS4A01G498900 chr1B 97.500 40 1 0 1715 1754 678279840 678279879 5.250000e-08 69.4
36 TraesCS4A01G498900 chr4B 93.478 46 2 1 1715 1759 622477267 622477312 1.890000e-07 67.6
37 TraesCS4A01G498900 chr4B 97.143 35 0 1 2634 2667 86361027 86361061 1.140000e-04 58.4
38 TraesCS4A01G498900 chr5D 100.000 32 0 0 2636 2667 386671981 386672012 3.160000e-05 60.2
39 TraesCS4A01G498900 chr2B 100.000 31 0 0 2637 2667 358639791 358639761 1.140000e-04 58.4
40 TraesCS4A01G498900 chr2D 100.000 30 0 0 2638 2667 103466679 103466650 4.090000e-04 56.5
41 TraesCS4A01G498900 chr2D 100.000 30 0 0 2638 2667 463882432 463882461 4.090000e-04 56.5


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 TraesCS4A01G498900 chr4A 743985439 743988373 2934 False 5421.000000 5421 100.000000 1 2935 1 chr4A.!!$F1 2934
1 TraesCS4A01G498900 chr4A 743828752 743831959 3207 True 706.000000 2050 89.969250 154 2707 4 chr4A.!!$R3 2553
2 TraesCS4A01G498900 chr4A 744221300 744222441 1141 False 658.000000 658 77.692000 826 1949 1 chr4A.!!$F2 1123
3 TraesCS4A01G498900 chr4A 742820863 742821991 1128 True 651.000000 651 77.700000 826 1936 1 chr4A.!!$R1 1110
4 TraesCS4A01G498900 chr7A 1280150 1282468 2318 True 857.333333 1561 91.054333 1 2384 3 chr7A.!!$R2 2383
5 TraesCS4A01G498900 chr7A 204160180 204160805 625 True 202.000000 243 82.135500 1290 1936 2 chr7A.!!$R3 646
6 TraesCS4A01G498900 chr7D 1251090 1252889 1799 True 973.000000 1266 86.938000 567 2415 2 chr7D.!!$R4 1848
7 TraesCS4A01G498900 chr7D 1368389 1373478 5089 False 533.600000 1435 90.961200 46 2935 5 chr7D.!!$F1 2889
8 TraesCS4A01G498900 chrUn 288793676 288794817 1141 False 658.000000 658 77.692000 826 1949 1 chrUn.!!$F1 1123
9 TraesCS4A01G498900 chrUn 304117617 304118758 1141 False 658.000000 658 77.692000 826 1949 1 chrUn.!!$F2 1123
10 TraesCS4A01G498900 chr7B 158367535 158368662 1127 True 237.000000 302 80.973500 792 1936 2 chr7B.!!$R2 1144

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
130 133 1.137872 GATGCTATCCGCCTATCCCTG 59.862 57.143 0.0 0.0 38.05 4.45 F
1316 1991 0.469917 AGTCTTATGTGGATGCGGGG 59.530 55.000 0.0 0.0 0.00 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1816 2585 0.238289 GCATCCAACGTGTTCCTGTG 59.762 55.0 0.00 0.0 0.00 3.66 R
2464 3425 0.106708 ACTGCAGCTCCGAAACAGAA 59.893 50.0 15.27 0.0 32.67 3.02 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
130 133 1.137872 GATGCTATCCGCCTATCCCTG 59.862 57.143 0.00 0.00 38.05 4.45
200 203 1.453155 AGCACAAACTCAATAGCCCG 58.547 50.000 0.00 0.00 0.00 6.13
215 218 2.495084 AGCCCGAAAGAGTTCAGAAAC 58.505 47.619 0.00 0.00 32.89 2.78
227 230 2.363788 TCAGAAACTCGAACCATCCG 57.636 50.000 0.00 0.00 0.00 4.18
270 273 2.594303 TGTTGCGCAACCCTGGAG 60.594 61.111 41.29 0.00 40.46 3.86
380 396 1.203187 TGTGCTCTACTTCCCTCCACT 60.203 52.381 0.00 0.00 0.00 4.00
508 1075 1.675552 ACGCAATAAGTATGCACCCC 58.324 50.000 0.00 0.00 44.01 4.95
510 1077 1.675552 GCAATAAGTATGCACCCCGT 58.324 50.000 0.00 0.00 43.29 5.28
782 1349 5.324697 GGATTAACTAGCTGCGTTTTCAAG 58.675 41.667 8.27 0.00 0.00 3.02
808 1375 7.630924 CCGACTTATTTCATCATGGTTAACTC 58.369 38.462 5.42 0.00 0.00 3.01
850 1475 5.885352 TGTAACTACTAGTTGTATACGGCCA 59.115 40.000 10.43 0.00 39.11 5.36
869 1506 3.164268 CCAAATCAATCCTCCCACAACA 58.836 45.455 0.00 0.00 0.00 3.33
900 1538 5.048782 TCTCAGACAAATTCCAATTTCCACG 60.049 40.000 0.00 0.00 36.52 4.94
959 1599 6.509418 TGAAACAGTTGTCCCTTATTATGC 57.491 37.500 0.00 0.00 0.00 3.14
972 1612 5.824624 CCCTTATTATGCTGTCACATGAACT 59.175 40.000 0.00 0.00 0.00 3.01
1007 1647 4.707030 TGTCAATTGATGTGATGGAAGC 57.293 40.909 12.12 0.00 0.00 3.86
1061 1710 7.802738 TGTTTGTCCTTATTTGTTAGTCGATG 58.197 34.615 0.00 0.00 0.00 3.84
1062 1711 6.417191 TTGTCCTTATTTGTTAGTCGATGC 57.583 37.500 0.00 0.00 0.00 3.91
1063 1712 5.730550 TGTCCTTATTTGTTAGTCGATGCT 58.269 37.500 0.00 0.00 0.00 3.79
1064 1713 6.869695 TGTCCTTATTTGTTAGTCGATGCTA 58.130 36.000 0.00 0.00 0.00 3.49
1083 1732 1.952621 AGCTGCTCTTACCTTACCCA 58.047 50.000 0.00 0.00 0.00 4.51
1102 1751 3.374058 CCCAGCTGAATGTTTTACCGTAG 59.626 47.826 17.39 0.00 0.00 3.51
1252 1904 6.998802 AGATATTGTGAGTACTGATTAGGGC 58.001 40.000 0.00 0.00 0.00 5.19
1255 1929 5.435686 TTGTGAGTACTGATTAGGGCATT 57.564 39.130 0.00 0.00 0.00 3.56
1313 1988 5.794687 TTTTACAGTCTTATGTGGATGCG 57.205 39.130 0.00 0.00 34.56 4.73
1315 1990 1.134401 ACAGTCTTATGTGGATGCGGG 60.134 52.381 0.00 0.00 30.46 6.13
1316 1991 0.469917 AGTCTTATGTGGATGCGGGG 59.530 55.000 0.00 0.00 0.00 5.73
1806 2575 6.652900 GTCTTCCTAAAGCAATCTGAACTTCT 59.347 38.462 0.00 0.00 32.18 2.85
1807 2576 7.174080 GTCTTCCTAAAGCAATCTGAACTTCTT 59.826 37.037 0.00 0.00 32.18 2.52
1816 2585 5.563671 GCAATCTGAACTTCTTCCTTTGGTC 60.564 44.000 0.00 0.00 0.00 4.02
1860 2629 7.435068 TTCAACTGCTCCTTTTACTACAATC 57.565 36.000 0.00 0.00 0.00 2.67
2079 2902 9.360093 GTACTGAATGCTATAGCCTAATAACTG 57.640 37.037 21.84 11.88 41.18 3.16
2367 3317 7.137426 CCAAAATATATTGAGTCTTGCAGAGC 58.863 38.462 0.00 0.00 31.84 4.09
2395 3345 1.736681 CTTTCAAGCTGCTAGGAGTGC 59.263 52.381 13.28 0.00 0.00 4.40
2410 3360 4.876701 TGCGTCTTTTGGCACTCT 57.123 50.000 0.00 0.00 33.52 3.24
2436 3386 1.079503 GGTGGACGAAACAGAGCATC 58.920 55.000 0.00 0.00 0.00 3.91
2439 3389 1.338105 TGGACGAAACAGAGCATCCAG 60.338 52.381 0.00 0.00 33.66 3.86
2440 3390 0.723981 GACGAAACAGAGCATCCAGC 59.276 55.000 0.00 0.00 46.19 4.85
2464 3425 4.566426 AAAAATAGAGGAGCTGCTCTGT 57.434 40.909 38.99 32.54 0.00 3.41
2469 3430 0.607620 GAGGAGCTGCTCTGTTCTGT 59.392 55.000 26.40 5.53 0.00 3.41
2471 3432 1.419387 AGGAGCTGCTCTGTTCTGTTT 59.581 47.619 27.09 1.93 0.00 2.83
2472 3433 1.803555 GGAGCTGCTCTGTTCTGTTTC 59.196 52.381 27.09 4.69 0.00 2.78
2474 3435 0.514691 GCTGCTCTGTTCTGTTTCGG 59.485 55.000 0.00 0.00 0.00 4.30
2475 3436 1.873903 GCTGCTCTGTTCTGTTTCGGA 60.874 52.381 0.00 0.00 0.00 4.55
2476 3437 2.064762 CTGCTCTGTTCTGTTTCGGAG 58.935 52.381 0.00 0.00 39.32 4.63
2478 3439 2.447244 CTCTGTTCTGTTTCGGAGCT 57.553 50.000 0.00 0.00 31.68 4.09
2481 3442 0.179059 TGTTCTGTTTCGGAGCTGCA 60.179 50.000 5.91 0.00 0.00 4.41
2482 3443 0.514691 GTTCTGTTTCGGAGCTGCAG 59.485 55.000 10.11 10.11 0.00 4.41
2483 3444 0.106708 TTCTGTTTCGGAGCTGCAGT 59.893 50.000 16.64 1.59 0.00 4.40
2484 3445 0.106708 TCTGTTTCGGAGCTGCAGTT 59.893 50.000 16.64 9.79 0.00 3.16
2485 3446 0.236711 CTGTTTCGGAGCTGCAGTTG 59.763 55.000 16.64 2.95 0.00 3.16
2486 3447 1.081840 GTTTCGGAGCTGCAGTTGC 60.082 57.895 16.64 14.28 42.50 4.17
2512 3502 4.102681 AGAGCAGTTAACAGGGTAACAAGT 59.897 41.667 8.61 0.00 36.59 3.16
2520 3510 9.551734 AGTTAACAGGGTAACAAGTTTAACTAG 57.448 33.333 8.61 0.00 36.59 2.57
2525 3515 7.147602 ACAGGGTAACAAGTTTAACTAGTGACT 60.148 37.037 0.00 0.00 39.74 3.41
2528 3518 7.496920 GGGTAACAAGTTTAACTAGTGACTGTT 59.503 37.037 12.98 12.98 39.74 3.16
2532 3522 8.331730 ACAAGTTTAACTAGTGACTGTTTTGT 57.668 30.769 0.00 3.28 0.00 2.83
2533 3523 9.439500 ACAAGTTTAACTAGTGACTGTTTTGTA 57.561 29.630 0.00 0.00 28.17 2.41
2534 3524 9.698617 CAAGTTTAACTAGTGACTGTTTTGTAC 57.301 33.333 0.00 0.00 0.00 2.90
2537 3527 9.698617 GTTTAACTAGTGACTGTTTTGTACTTG 57.301 33.333 0.00 0.00 0.00 3.16
2539 3529 9.826574 TTAACTAGTGACTGTTTTGTACTTGAT 57.173 29.630 0.00 0.00 0.00 2.57
2540 3530 7.948278 ACTAGTGACTGTTTTGTACTTGATC 57.052 36.000 0.00 0.00 0.00 2.92
2546 3536 6.942005 TGACTGTTTTGTACTTGATCATGGAT 59.058 34.615 12.76 0.00 0.00 3.41
2551 3541 7.067372 TGTTTTGTACTTGATCATGGATGGATC 59.933 37.037 12.76 0.00 41.20 3.36
2552 3542 4.886579 TGTACTTGATCATGGATGGATCG 58.113 43.478 12.76 0.00 43.21 3.69
2565 3555 1.953559 TGGATCGCCAATAACAGAGC 58.046 50.000 0.00 0.00 42.49 4.09
2567 3557 1.869767 GGATCGCCAATAACAGAGCAG 59.130 52.381 0.00 0.00 0.00 4.24
2568 3558 2.555199 GATCGCCAATAACAGAGCAGT 58.445 47.619 0.00 0.00 0.00 4.40
2569 3559 2.472695 TCGCCAATAACAGAGCAGTT 57.527 45.000 0.00 0.00 35.55 3.16
2570 3560 2.778299 TCGCCAATAACAGAGCAGTTT 58.222 42.857 0.00 0.00 33.07 2.66
2571 3561 2.742053 TCGCCAATAACAGAGCAGTTTC 59.258 45.455 0.00 0.00 33.07 2.78
2572 3562 2.474526 CGCCAATAACAGAGCAGTTTCG 60.475 50.000 0.00 0.00 33.07 3.46
2573 3563 2.484264 GCCAATAACAGAGCAGTTTCGT 59.516 45.455 0.00 0.00 33.07 3.85
2575 3565 4.435651 GCCAATAACAGAGCAGTTTCGTAC 60.436 45.833 0.00 0.00 33.07 3.67
2577 3567 5.178623 CCAATAACAGAGCAGTTTCGTACAA 59.821 40.000 0.00 0.00 33.07 2.41
2602 3592 2.779755 TGCAGTACCAATGAACGGAT 57.220 45.000 0.00 0.00 0.00 4.18
2605 3595 3.055747 TGCAGTACCAATGAACGGATGTA 60.056 43.478 0.00 0.00 0.00 2.29
2607 3597 3.869246 CAGTACCAATGAACGGATGTACC 59.131 47.826 0.00 0.00 31.28 3.34
2633 5354 7.444183 CAGTAGGTTCCAACTGTTCAAATAAGA 59.556 37.037 0.00 0.00 38.62 2.10
2643 5364 9.057089 CAACTGTTCAAATAAGAAAGTACTCCT 57.943 33.333 0.00 0.00 0.00 3.69
2647 5368 7.386848 TGTTCAAATAAGAAAGTACTCCTTCCG 59.613 37.037 12.15 3.22 31.27 4.30
2650 5371 7.935210 TCAAATAAGAAAGTACTCCTTCCGTTT 59.065 33.333 12.15 9.96 31.27 3.60
2703 5445 2.435805 ACAACTGATCAGTGTGGTGTCT 59.564 45.455 28.52 7.86 41.58 3.41
2707 5449 3.257393 CTGATCAGTGTGGTGTCTAAGC 58.743 50.000 14.95 0.00 0.00 3.09
2708 5450 2.899900 TGATCAGTGTGGTGTCTAAGCT 59.100 45.455 0.00 0.00 0.00 3.74
2709 5451 2.820059 TCAGTGTGGTGTCTAAGCTG 57.180 50.000 0.00 0.00 0.00 4.24
2710 5452 2.316108 TCAGTGTGGTGTCTAAGCTGA 58.684 47.619 0.00 0.00 0.00 4.26
2711 5453 2.698274 TCAGTGTGGTGTCTAAGCTGAA 59.302 45.455 0.00 0.00 0.00 3.02
2712 5454 2.802816 CAGTGTGGTGTCTAAGCTGAAC 59.197 50.000 0.00 0.00 0.00 3.18
2713 5455 2.434336 AGTGTGGTGTCTAAGCTGAACA 59.566 45.455 0.00 0.00 0.00 3.18
2714 5456 2.544267 GTGTGGTGTCTAAGCTGAACAC 59.456 50.000 14.85 14.85 0.00 3.32
2715 5457 2.169561 TGTGGTGTCTAAGCTGAACACA 59.830 45.455 21.25 12.96 35.49 3.72
2716 5458 3.202906 GTGGTGTCTAAGCTGAACACAA 58.797 45.455 21.25 12.19 33.41 3.33
2717 5459 3.002348 GTGGTGTCTAAGCTGAACACAAC 59.998 47.826 21.25 18.05 33.41 3.32
2718 5460 2.548480 GGTGTCTAAGCTGAACACAACC 59.452 50.000 21.25 7.04 33.41 3.77
2719 5461 2.221055 GTGTCTAAGCTGAACACAACCG 59.779 50.000 17.14 0.00 0.00 4.44
2720 5462 2.101750 TGTCTAAGCTGAACACAACCGA 59.898 45.455 0.00 0.00 0.00 4.69
2721 5463 2.475487 GTCTAAGCTGAACACAACCGAC 59.525 50.000 0.00 0.00 0.00 4.79
2722 5464 2.364324 TCTAAGCTGAACACAACCGACT 59.636 45.455 0.00 0.00 0.00 4.18
2723 5465 2.902705 AAGCTGAACACAACCGACTA 57.097 45.000 0.00 0.00 0.00 2.59
2724 5466 2.902705 AGCTGAACACAACCGACTAA 57.097 45.000 0.00 0.00 0.00 2.24
2725 5467 3.402628 AGCTGAACACAACCGACTAAT 57.597 42.857 0.00 0.00 0.00 1.73
2726 5468 3.067106 AGCTGAACACAACCGACTAATG 58.933 45.455 0.00 0.00 0.00 1.90
2727 5469 2.159627 GCTGAACACAACCGACTAATGG 59.840 50.000 0.00 0.00 0.00 3.16
2728 5470 2.742053 CTGAACACAACCGACTAATGGG 59.258 50.000 0.00 0.00 0.00 4.00
2729 5471 1.467342 GAACACAACCGACTAATGGGC 59.533 52.381 0.00 0.00 0.00 5.36
2730 5472 0.690762 ACACAACCGACTAATGGGCT 59.309 50.000 0.00 0.00 0.00 5.19
2731 5473 1.073284 ACACAACCGACTAATGGGCTT 59.927 47.619 0.00 0.00 0.00 4.35
2732 5474 1.737793 CACAACCGACTAATGGGCTTC 59.262 52.381 0.00 0.00 0.00 3.86
2733 5475 1.628846 ACAACCGACTAATGGGCTTCT 59.371 47.619 0.00 0.00 0.00 2.85
2734 5476 2.039879 ACAACCGACTAATGGGCTTCTT 59.960 45.455 0.00 0.00 0.00 2.52
2735 5477 2.678336 CAACCGACTAATGGGCTTCTTC 59.322 50.000 0.00 0.00 0.00 2.87
2736 5478 1.134788 ACCGACTAATGGGCTTCTTCG 60.135 52.381 0.00 0.00 0.00 3.79
2737 5479 0.931005 CGACTAATGGGCTTCTTCGC 59.069 55.000 0.00 0.00 0.00 4.70
2738 5480 1.739035 CGACTAATGGGCTTCTTCGCA 60.739 52.381 0.00 0.00 0.00 5.10
2739 5481 2.565841 GACTAATGGGCTTCTTCGCAT 58.434 47.619 0.00 0.00 40.69 4.73
2740 5482 2.289002 GACTAATGGGCTTCTTCGCATG 59.711 50.000 0.00 0.00 39.21 4.06
2741 5483 2.292267 CTAATGGGCTTCTTCGCATGT 58.708 47.619 0.00 0.00 39.21 3.21
2742 5484 1.549203 AATGGGCTTCTTCGCATGTT 58.451 45.000 0.00 0.00 39.21 2.71
2743 5485 0.813184 ATGGGCTTCTTCGCATGTTG 59.187 50.000 0.00 0.00 38.07 3.33
2744 5486 1.243342 TGGGCTTCTTCGCATGTTGG 61.243 55.000 0.00 0.00 0.00 3.77
2745 5487 1.153958 GGCTTCTTCGCATGTTGGC 60.154 57.895 0.00 0.00 0.00 4.52
2746 5488 1.589716 GGCTTCTTCGCATGTTGGCT 61.590 55.000 0.00 0.00 0.00 4.75
2747 5489 0.179179 GCTTCTTCGCATGTTGGCTC 60.179 55.000 0.00 0.00 0.00 4.70
2748 5490 1.446907 CTTCTTCGCATGTTGGCTCT 58.553 50.000 0.00 0.00 0.00 4.09
2749 5491 1.808945 CTTCTTCGCATGTTGGCTCTT 59.191 47.619 0.00 0.00 0.00 2.85
2750 5492 1.159285 TCTTCGCATGTTGGCTCTTG 58.841 50.000 0.00 0.00 0.00 3.02
2751 5493 1.159285 CTTCGCATGTTGGCTCTTGA 58.841 50.000 0.00 0.00 0.00 3.02
2752 5494 1.129998 CTTCGCATGTTGGCTCTTGAG 59.870 52.381 0.00 0.00 0.00 3.02
2753 5495 0.674581 TCGCATGTTGGCTCTTGAGG 60.675 55.000 0.00 0.00 0.00 3.86
2754 5496 0.957395 CGCATGTTGGCTCTTGAGGT 60.957 55.000 0.00 0.00 0.00 3.85
2755 5497 0.807496 GCATGTTGGCTCTTGAGGTC 59.193 55.000 0.00 0.00 0.00 3.85
2756 5498 1.457346 CATGTTGGCTCTTGAGGTCC 58.543 55.000 0.00 0.00 0.00 4.46
2757 5499 0.329596 ATGTTGGCTCTTGAGGTCCC 59.670 55.000 0.00 0.00 0.00 4.46
2758 5500 1.059584 TGTTGGCTCTTGAGGTCCCA 61.060 55.000 0.00 0.00 0.00 4.37
2759 5501 0.110486 GTTGGCTCTTGAGGTCCCAA 59.890 55.000 0.00 2.57 33.47 4.12
2760 5502 0.110486 TTGGCTCTTGAGGTCCCAAC 59.890 55.000 0.00 0.00 31.09 3.77
2761 5503 1.059584 TGGCTCTTGAGGTCCCAACA 61.060 55.000 0.00 0.00 0.00 3.33
2762 5504 0.606673 GGCTCTTGAGGTCCCAACAC 60.607 60.000 0.00 0.00 0.00 3.32
2763 5505 0.606673 GCTCTTGAGGTCCCAACACC 60.607 60.000 0.00 0.00 36.58 4.16
2764 5506 0.764890 CTCTTGAGGTCCCAACACCA 59.235 55.000 0.00 0.00 39.16 4.17
2765 5507 0.472471 TCTTGAGGTCCCAACACCAC 59.528 55.000 0.00 0.00 39.16 4.16
2766 5508 0.537371 CTTGAGGTCCCAACACCACC 60.537 60.000 0.00 0.00 39.16 4.61
2767 5509 2.032071 GAGGTCCCAACACCACCG 59.968 66.667 0.00 0.00 39.16 4.94
2768 5510 3.546714 GAGGTCCCAACACCACCGG 62.547 68.421 0.00 0.00 39.16 5.28
2770 5512 4.572571 GTCCCAACACCACCGGCA 62.573 66.667 0.00 0.00 0.00 5.69
2771 5513 4.263572 TCCCAACACCACCGGCAG 62.264 66.667 0.00 0.00 0.00 4.85
2773 5515 4.954970 CCAACACCACCGGCAGCT 62.955 66.667 0.00 0.00 0.00 4.24
2774 5516 2.031919 CAACACCACCGGCAGCTA 59.968 61.111 0.00 0.00 0.00 3.32
2775 5517 2.034879 CAACACCACCGGCAGCTAG 61.035 63.158 0.00 0.00 0.00 3.42
2776 5518 2.516888 AACACCACCGGCAGCTAGT 61.517 57.895 0.00 0.00 0.00 2.57
2777 5519 1.189524 AACACCACCGGCAGCTAGTA 61.190 55.000 0.00 0.00 0.00 1.82
2778 5520 1.141881 CACCACCGGCAGCTAGTAG 59.858 63.158 0.00 0.00 0.00 2.57
2779 5521 1.305046 ACCACCGGCAGCTAGTAGT 60.305 57.895 0.00 0.00 0.00 2.73
2780 5522 0.903454 ACCACCGGCAGCTAGTAGTT 60.903 55.000 0.00 0.00 0.00 2.24
2781 5523 0.179108 CCACCGGCAGCTAGTAGTTC 60.179 60.000 0.00 0.00 0.00 3.01
2782 5524 0.530744 CACCGGCAGCTAGTAGTTCA 59.469 55.000 0.00 0.00 0.00 3.18
2783 5525 1.137086 CACCGGCAGCTAGTAGTTCAT 59.863 52.381 0.00 0.00 0.00 2.57
2784 5526 2.361119 CACCGGCAGCTAGTAGTTCATA 59.639 50.000 0.00 0.00 0.00 2.15
2785 5527 2.361438 ACCGGCAGCTAGTAGTTCATAC 59.639 50.000 0.00 0.00 34.30 2.39
2786 5528 2.288273 CCGGCAGCTAGTAGTTCATACC 60.288 54.545 0.00 0.00 34.67 2.73
2787 5529 2.623889 CGGCAGCTAGTAGTTCATACCT 59.376 50.000 0.00 0.00 34.67 3.08
2788 5530 3.551046 CGGCAGCTAGTAGTTCATACCTG 60.551 52.174 0.00 0.00 34.67 4.00
2789 5531 3.243907 GGCAGCTAGTAGTTCATACCTGG 60.244 52.174 0.00 0.00 34.67 4.45
2790 5532 3.243907 GCAGCTAGTAGTTCATACCTGGG 60.244 52.174 0.00 0.00 34.67 4.45
2791 5533 4.215908 CAGCTAGTAGTTCATACCTGGGA 58.784 47.826 0.00 0.00 34.67 4.37
2792 5534 4.279671 CAGCTAGTAGTTCATACCTGGGAG 59.720 50.000 0.00 0.00 34.67 4.30
2793 5535 4.079096 AGCTAGTAGTTCATACCTGGGAGT 60.079 45.833 0.00 0.00 34.67 3.85
2794 5536 4.038162 GCTAGTAGTTCATACCTGGGAGTG 59.962 50.000 0.00 0.00 34.67 3.51
2795 5537 4.332683 AGTAGTTCATACCTGGGAGTGA 57.667 45.455 0.00 0.00 34.67 3.41
2796 5538 4.684724 AGTAGTTCATACCTGGGAGTGAA 58.315 43.478 0.00 2.69 34.67 3.18
2797 5539 4.712337 AGTAGTTCATACCTGGGAGTGAAG 59.288 45.833 9.84 0.00 34.67 3.02
2798 5540 2.237392 AGTTCATACCTGGGAGTGAAGC 59.763 50.000 9.84 6.65 31.84 3.86
2799 5541 2.237392 GTTCATACCTGGGAGTGAAGCT 59.763 50.000 9.84 0.00 31.84 3.74
2800 5542 2.551270 TCATACCTGGGAGTGAAGCTT 58.449 47.619 0.00 0.00 0.00 3.74
2801 5543 2.501723 TCATACCTGGGAGTGAAGCTTC 59.498 50.000 19.89 19.89 0.00 3.86
2802 5544 1.276622 TACCTGGGAGTGAAGCTTCC 58.723 55.000 23.42 14.41 43.57 3.46
2803 5545 0.474660 ACCTGGGAGTGAAGCTTCCT 60.475 55.000 23.42 18.70 43.66 3.36
2804 5546 0.695347 CCTGGGAGTGAAGCTTCCTT 59.305 55.000 23.42 11.54 43.66 3.36
2805 5547 1.909302 CCTGGGAGTGAAGCTTCCTTA 59.091 52.381 23.42 2.13 43.66 2.69
2806 5548 2.355209 CCTGGGAGTGAAGCTTCCTTAC 60.355 54.545 23.42 14.83 43.66 2.34
2807 5549 2.303022 CTGGGAGTGAAGCTTCCTTACA 59.697 50.000 23.42 18.07 43.66 2.41
2808 5550 2.708861 TGGGAGTGAAGCTTCCTTACAA 59.291 45.455 23.42 3.27 43.66 2.41
2809 5551 3.075148 GGGAGTGAAGCTTCCTTACAAC 58.925 50.000 23.42 13.40 39.91 3.32
2810 5552 2.737252 GGAGTGAAGCTTCCTTACAACG 59.263 50.000 23.42 0.00 0.00 4.10
2811 5553 3.554337 GGAGTGAAGCTTCCTTACAACGA 60.554 47.826 23.42 0.00 0.00 3.85
2812 5554 4.246458 GAGTGAAGCTTCCTTACAACGAT 58.754 43.478 23.42 0.00 0.00 3.73
2813 5555 3.997021 AGTGAAGCTTCCTTACAACGATG 59.003 43.478 23.42 0.00 0.00 3.84
2814 5556 3.994392 GTGAAGCTTCCTTACAACGATGA 59.006 43.478 23.42 0.00 0.00 2.92
2815 5557 3.994392 TGAAGCTTCCTTACAACGATGAC 59.006 43.478 23.42 0.00 0.00 3.06
2816 5558 3.963428 AGCTTCCTTACAACGATGACT 57.037 42.857 0.00 0.00 0.00 3.41
2817 5559 4.273148 AGCTTCCTTACAACGATGACTT 57.727 40.909 0.00 0.00 0.00 3.01
2818 5560 4.642429 AGCTTCCTTACAACGATGACTTT 58.358 39.130 0.00 0.00 0.00 2.66
2819 5561 4.452455 AGCTTCCTTACAACGATGACTTTG 59.548 41.667 0.00 0.00 0.00 2.77
2820 5562 4.712763 CTTCCTTACAACGATGACTTTGC 58.287 43.478 0.00 0.00 0.00 3.68
2821 5563 4.002906 TCCTTACAACGATGACTTTGCT 57.997 40.909 0.00 0.00 0.00 3.91
2822 5564 3.745975 TCCTTACAACGATGACTTTGCTG 59.254 43.478 0.00 0.00 0.00 4.41
2823 5565 3.498397 CCTTACAACGATGACTTTGCTGT 59.502 43.478 0.00 0.00 0.00 4.40
2824 5566 4.377431 CCTTACAACGATGACTTTGCTGTC 60.377 45.833 0.00 0.00 37.47 3.51
2851 5654 1.227205 GAGGTGCAGCTCATCTCCG 60.227 63.158 34.86 0.00 45.21 4.63
2929 5732 1.227527 CACGAGCACCTGACCAACA 60.228 57.895 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 7.775561 ACAGAAAAGAAGAACAGTTACCTCAAT 59.224 33.333 0.00 0.00 0.00 2.57
7 8 7.110155 ACAGAAAAGAAGAACAGTTACCTCAA 58.890 34.615 0.00 0.00 0.00 3.02
92 93 3.858238 GCATCTCAAAATCTTGCTCAAGC 59.142 43.478 4.81 0.00 38.28 4.01
130 133 4.025313 GGATAACATCTCGAAAGCTTGCTC 60.025 45.833 0.00 0.00 0.00 4.26
227 230 7.068716 ACAGCCTATTCCTAATGAATTTCCAAC 59.931 37.037 0.00 0.00 40.92 3.77
270 273 2.223758 CCTAGGACGCTAGTTTAGTGCC 60.224 54.545 1.05 0.78 39.86 5.01
318 322 5.245531 CCTCTTATAAGGTTGTGTTGCTCA 58.754 41.667 12.54 0.00 0.00 4.26
380 396 1.598882 TGCTATGAACAAACACGGCA 58.401 45.000 0.00 0.00 0.00 5.69
508 1075 7.694388 TGTTCTCGGATCTATCAATAAAACG 57.306 36.000 0.00 0.00 0.00 3.60
510 1077 8.978539 CGAATGTTCTCGGATCTATCAATAAAA 58.021 33.333 0.00 0.00 35.14 1.52
590 1157 1.401539 GGCTCTTTTTCATGGTGCGAC 60.402 52.381 0.00 0.00 0.00 5.19
714 1281 4.215109 CCATTTTATCGGGGTTCCAGAAT 58.785 43.478 0.00 0.00 0.00 2.40
782 1349 4.900635 AACCATGATGAAATAAGTCGGC 57.099 40.909 0.00 0.00 0.00 5.54
831 1456 6.509656 TGATTTGGCCGTATACAACTAGTAG 58.490 40.000 3.32 0.00 35.85 2.57
850 1475 3.165071 GGTGTTGTGGGAGGATTGATTT 58.835 45.455 0.00 0.00 0.00 2.17
869 1506 6.627087 TTGGAATTTGTCTGAGAGATAGGT 57.373 37.500 0.00 0.00 0.00 3.08
922 1560 7.974675 ACAACTGTTTCATTGATTATAGACGG 58.025 34.615 0.00 0.00 0.00 4.79
959 1599 9.208022 TGACTAATTTCTAAGTTCATGTGACAG 57.792 33.333 0.00 0.00 0.00 3.51
1007 1647 6.075762 TGTCACAATTTCACTTCCAAGATG 57.924 37.500 0.00 0.00 0.00 2.90
1061 1710 2.224090 GGGTAAGGTAAGAGCAGCTAGC 60.224 54.545 6.62 6.62 46.19 3.42
1062 1711 3.031736 TGGGTAAGGTAAGAGCAGCTAG 58.968 50.000 0.00 0.00 0.00 3.42
1063 1712 3.031736 CTGGGTAAGGTAAGAGCAGCTA 58.968 50.000 0.00 0.00 0.00 3.32
1064 1713 1.834263 CTGGGTAAGGTAAGAGCAGCT 59.166 52.381 0.00 0.00 0.00 4.24
1083 1732 3.933332 GCTCTACGGTAAAACATTCAGCT 59.067 43.478 0.00 0.00 0.00 4.24
1229 1881 6.759272 TGCCCTAATCAGTACTCACAATATC 58.241 40.000 0.00 0.00 0.00 1.63
1313 1988 1.267574 TGACTGCATGAGGACTCCCC 61.268 60.000 0.00 0.00 0.00 4.81
1315 1990 1.002430 TGTTGACTGCATGAGGACTCC 59.998 52.381 0.00 0.00 0.00 3.85
1316 1991 2.072298 GTGTTGACTGCATGAGGACTC 58.928 52.381 0.00 0.00 0.00 3.36
1597 2301 7.934120 AGTTATGATCCTAAGCTGGAACAATAC 59.066 37.037 7.07 8.04 41.20 1.89
1641 2362 5.408299 GGGTGTTGTGCCTTGAAAATATTTC 59.592 40.000 0.10 0.00 0.00 2.17
1713 2450 2.698797 ACATTATGGGACGGAGGTAGTG 59.301 50.000 0.00 0.00 0.00 2.74
1717 2454 4.021719 CGTATTACATTATGGGACGGAGGT 60.022 45.833 0.00 0.00 0.00 3.85
1807 2576 1.474320 CGTGTTCCTGTGACCAAAGGA 60.474 52.381 4.83 4.83 40.91 3.36
1816 2585 0.238289 GCATCCAACGTGTTCCTGTG 59.762 55.000 0.00 0.00 0.00 3.66
1860 2629 2.704725 AAATTGCTGTAGTTGCCGTG 57.295 45.000 0.00 0.00 0.00 4.94
2395 3345 3.246619 GACTCTAGAGTGCCAAAAGACG 58.753 50.000 29.84 0.00 42.66 4.18
2447 3408 2.694628 CAGAACAGAGCAGCTCCTCTAT 59.305 50.000 19.40 0.00 40.11 1.98
2448 3409 2.098614 CAGAACAGAGCAGCTCCTCTA 58.901 52.381 19.40 0.00 40.11 2.43
2464 3425 0.106708 ACTGCAGCTCCGAAACAGAA 59.893 50.000 15.27 0.00 32.67 3.02
2469 3430 3.343972 GCAACTGCAGCTCCGAAA 58.656 55.556 15.27 0.00 41.59 3.46
2485 3446 2.230660 ACCCTGTTAACTGCTCTTTGC 58.769 47.619 7.22 0.00 43.25 3.68
2486 3447 4.819630 TGTTACCCTGTTAACTGCTCTTTG 59.180 41.667 7.22 0.00 0.00 2.77
2488 3449 4.699925 TGTTACCCTGTTAACTGCTCTT 57.300 40.909 7.22 0.00 0.00 2.85
2489 3450 4.102681 ACTTGTTACCCTGTTAACTGCTCT 59.897 41.667 7.22 0.00 0.00 4.09
2490 3451 4.386711 ACTTGTTACCCTGTTAACTGCTC 58.613 43.478 7.22 0.00 0.00 4.26
2491 3452 4.432980 ACTTGTTACCCTGTTAACTGCT 57.567 40.909 7.22 0.00 0.00 4.24
2492 3453 5.509716 AAACTTGTTACCCTGTTAACTGC 57.490 39.130 7.22 0.00 0.00 4.40
2493 3454 8.217131 AGTTAAACTTGTTACCCTGTTAACTG 57.783 34.615 7.22 6.33 0.00 3.16
2495 3456 9.330063 ACTAGTTAAACTTGTTACCCTGTTAAC 57.670 33.333 0.00 0.00 30.24 2.01
2498 3459 7.496920 GTCACTAGTTAAACTTGTTACCCTGTT 59.503 37.037 0.00 0.00 32.07 3.16
2499 3460 6.988580 GTCACTAGTTAAACTTGTTACCCTGT 59.011 38.462 0.00 0.00 32.07 4.00
2500 3461 7.170998 CAGTCACTAGTTAAACTTGTTACCCTG 59.829 40.741 0.00 0.00 32.07 4.45
2512 3502 9.656040 TCAAGTACAAAACAGTCACTAGTTAAA 57.344 29.630 0.00 0.00 0.00 1.52
2520 3510 6.204688 TCCATGATCAAGTACAAAACAGTCAC 59.795 38.462 0.00 0.00 0.00 3.67
2525 3515 6.244654 TCCATCCATGATCAAGTACAAAACA 58.755 36.000 0.00 0.00 0.00 2.83
2528 3518 5.759763 CGATCCATCCATGATCAAGTACAAA 59.240 40.000 0.00 0.00 0.00 2.83
2530 3520 4.800582 GCGATCCATCCATGATCAAGTACA 60.801 45.833 0.00 0.00 0.00 2.90
2531 3521 3.681897 GCGATCCATCCATGATCAAGTAC 59.318 47.826 0.00 0.00 0.00 2.73
2532 3522 3.306989 GGCGATCCATCCATGATCAAGTA 60.307 47.826 0.00 0.00 0.00 2.24
2533 3523 2.551721 GGCGATCCATCCATGATCAAGT 60.552 50.000 0.00 0.00 0.00 3.16
2534 3524 2.082231 GGCGATCCATCCATGATCAAG 58.918 52.381 0.00 0.00 0.00 3.02
2537 3527 2.189594 TTGGCGATCCATCCATGATC 57.810 50.000 0.00 0.00 43.05 2.92
2539 3529 3.181446 TGTTATTGGCGATCCATCCATGA 60.181 43.478 0.00 0.00 43.05 3.07
2540 3530 3.148412 TGTTATTGGCGATCCATCCATG 58.852 45.455 0.00 0.00 43.05 3.66
2546 3536 1.209261 TGCTCTGTTATTGGCGATCCA 59.791 47.619 0.00 0.00 41.55 3.41
2551 3541 2.474526 CGAAACTGCTCTGTTATTGGCG 60.475 50.000 0.00 0.00 0.00 5.69
2552 3542 2.484264 ACGAAACTGCTCTGTTATTGGC 59.516 45.455 0.00 0.00 0.00 4.52
2556 3546 5.539048 AGTTGTACGAAACTGCTCTGTTAT 58.461 37.500 0.00 0.00 38.95 1.89
2557 3547 4.940463 AGTTGTACGAAACTGCTCTGTTA 58.060 39.130 0.00 0.00 38.95 2.41
2558 3548 3.793559 AGTTGTACGAAACTGCTCTGTT 58.206 40.909 0.00 0.00 38.95 3.16
2559 3549 3.454371 AGTTGTACGAAACTGCTCTGT 57.546 42.857 0.00 0.00 38.95 3.41
2581 3571 3.066291 TCCGTTCATTGGTACTGCAAT 57.934 42.857 0.00 0.00 0.00 3.56
2582 3572 2.552599 TCCGTTCATTGGTACTGCAA 57.447 45.000 0.00 0.00 0.00 4.08
2586 3576 3.516300 TGGTACATCCGTTCATTGGTACT 59.484 43.478 0.00 0.00 39.52 2.73
2587 3577 3.864243 TGGTACATCCGTTCATTGGTAC 58.136 45.455 0.00 0.00 39.52 3.34
2588 3578 3.516300 ACTGGTACATCCGTTCATTGGTA 59.484 43.478 0.00 0.00 38.20 3.25
2592 3582 3.773119 ACCTACTGGTACATCCGTTCATT 59.227 43.478 0.00 0.00 46.43 2.57
2594 3584 2.811410 ACCTACTGGTACATCCGTTCA 58.189 47.619 0.00 0.00 46.43 3.18
2602 3592 3.712733 AACAGTTGGAACCTACTGGTACA 59.287 43.478 28.22 0.00 45.05 2.90
2633 5354 6.954487 ATTTTGAAACGGAAGGAGTACTTT 57.046 33.333 0.00 0.00 40.21 2.66
2643 5364 6.934645 AGTGAGTCATCTATTTTGAAACGGAA 59.065 34.615 0.00 0.00 0.00 4.30
2647 5368 6.072508 TGCCAGTGAGTCATCTATTTTGAAAC 60.073 38.462 0.00 0.00 0.00 2.78
2650 5371 5.164620 TGCCAGTGAGTCATCTATTTTGA 57.835 39.130 0.00 0.00 0.00 2.69
2703 5445 2.902705 AGTCGGTTGTGTTCAGCTTA 57.097 45.000 0.00 0.00 0.00 3.09
2707 5449 2.742053 CCCATTAGTCGGTTGTGTTCAG 59.258 50.000 0.00 0.00 0.00 3.02
2708 5450 2.773487 CCCATTAGTCGGTTGTGTTCA 58.227 47.619 0.00 0.00 0.00 3.18
2709 5451 1.467342 GCCCATTAGTCGGTTGTGTTC 59.533 52.381 0.00 0.00 0.00 3.18
2710 5452 1.073284 AGCCCATTAGTCGGTTGTGTT 59.927 47.619 0.00 0.00 0.00 3.32
2711 5453 0.690762 AGCCCATTAGTCGGTTGTGT 59.309 50.000 0.00 0.00 0.00 3.72
2712 5454 1.737793 GAAGCCCATTAGTCGGTTGTG 59.262 52.381 0.00 0.00 0.00 3.33
2713 5455 1.628846 AGAAGCCCATTAGTCGGTTGT 59.371 47.619 0.00 0.00 0.00 3.32
2714 5456 2.403252 AGAAGCCCATTAGTCGGTTG 57.597 50.000 0.00 0.00 0.00 3.77
2715 5457 2.677037 CGAAGAAGCCCATTAGTCGGTT 60.677 50.000 0.00 0.00 0.00 4.44
2716 5458 1.134788 CGAAGAAGCCCATTAGTCGGT 60.135 52.381 0.00 0.00 0.00 4.69
2717 5459 1.571919 CGAAGAAGCCCATTAGTCGG 58.428 55.000 0.00 0.00 0.00 4.79
2718 5460 0.931005 GCGAAGAAGCCCATTAGTCG 59.069 55.000 0.00 0.00 32.85 4.18
2719 5461 2.024176 TGCGAAGAAGCCCATTAGTC 57.976 50.000 0.00 0.00 36.02 2.59
2720 5462 2.292267 CATGCGAAGAAGCCCATTAGT 58.708 47.619 0.00 0.00 36.02 2.24
2721 5463 2.292267 ACATGCGAAGAAGCCCATTAG 58.708 47.619 0.00 0.00 36.02 1.73
2722 5464 2.418368 ACATGCGAAGAAGCCCATTA 57.582 45.000 0.00 0.00 36.02 1.90
2723 5465 1.203052 CAACATGCGAAGAAGCCCATT 59.797 47.619 0.00 0.00 36.02 3.16
2724 5466 0.813184 CAACATGCGAAGAAGCCCAT 59.187 50.000 0.00 0.00 36.02 4.00
2725 5467 1.243342 CCAACATGCGAAGAAGCCCA 61.243 55.000 0.00 0.00 36.02 5.36
2726 5468 1.508088 CCAACATGCGAAGAAGCCC 59.492 57.895 0.00 0.00 36.02 5.19
2727 5469 1.153958 GCCAACATGCGAAGAAGCC 60.154 57.895 0.00 0.00 36.02 4.35
2728 5470 0.179179 GAGCCAACATGCGAAGAAGC 60.179 55.000 0.00 0.00 36.02 3.86
2729 5471 1.446907 AGAGCCAACATGCGAAGAAG 58.553 50.000 0.00 0.00 36.02 2.85
2730 5472 1.536766 CAAGAGCCAACATGCGAAGAA 59.463 47.619 0.00 0.00 36.02 2.52
2731 5473 1.159285 CAAGAGCCAACATGCGAAGA 58.841 50.000 0.00 0.00 36.02 2.87
2732 5474 1.129998 CTCAAGAGCCAACATGCGAAG 59.870 52.381 0.00 0.00 36.02 3.79
2733 5475 1.159285 CTCAAGAGCCAACATGCGAA 58.841 50.000 0.00 0.00 36.02 4.70
2734 5476 0.674581 CCTCAAGAGCCAACATGCGA 60.675 55.000 0.00 0.00 36.02 5.10
2735 5477 0.957395 ACCTCAAGAGCCAACATGCG 60.957 55.000 0.00 0.00 36.02 4.73
2736 5478 0.807496 GACCTCAAGAGCCAACATGC 59.193 55.000 0.00 0.00 0.00 4.06
2737 5479 1.457346 GGACCTCAAGAGCCAACATG 58.543 55.000 0.00 0.00 0.00 3.21
2738 5480 0.329596 GGGACCTCAAGAGCCAACAT 59.670 55.000 0.00 0.00 0.00 2.71
2739 5481 1.059584 TGGGACCTCAAGAGCCAACA 61.060 55.000 0.00 0.00 0.00 3.33
2740 5482 0.110486 TTGGGACCTCAAGAGCCAAC 59.890 55.000 4.25 0.00 0.00 3.77
2741 5483 0.110486 GTTGGGACCTCAAGAGCCAA 59.890 55.000 4.25 4.25 0.00 4.52
2742 5484 1.059584 TGTTGGGACCTCAAGAGCCA 61.060 55.000 0.00 0.00 0.00 4.75
2743 5485 0.606673 GTGTTGGGACCTCAAGAGCC 60.607 60.000 0.00 0.00 0.00 4.70
2744 5486 0.606673 GGTGTTGGGACCTCAAGAGC 60.607 60.000 6.38 6.38 32.78 4.09
2745 5487 0.764890 TGGTGTTGGGACCTCAAGAG 59.235 55.000 0.00 0.00 36.88 2.85
2746 5488 0.472471 GTGGTGTTGGGACCTCAAGA 59.528 55.000 0.00 0.00 36.88 3.02
2747 5489 0.537371 GGTGGTGTTGGGACCTCAAG 60.537 60.000 0.00 0.00 36.88 3.02
2748 5490 1.534697 GGTGGTGTTGGGACCTCAA 59.465 57.895 0.00 0.00 36.88 3.02
2749 5491 2.813726 CGGTGGTGTTGGGACCTCA 61.814 63.158 0.00 0.00 36.88 3.86
2750 5492 2.032071 CGGTGGTGTTGGGACCTC 59.968 66.667 0.00 0.00 36.88 3.85
2751 5493 3.566210 CCGGTGGTGTTGGGACCT 61.566 66.667 0.00 0.00 36.88 3.85
2753 5495 4.572571 TGCCGGTGGTGTTGGGAC 62.573 66.667 1.90 0.00 0.00 4.46
2754 5496 4.263572 CTGCCGGTGGTGTTGGGA 62.264 66.667 1.90 0.00 0.00 4.37
2756 5498 3.545124 TAGCTGCCGGTGGTGTTGG 62.545 63.158 1.90 0.00 0.00 3.77
2757 5499 2.031919 TAGCTGCCGGTGGTGTTG 59.968 61.111 1.90 0.00 0.00 3.33
2758 5500 1.189524 TACTAGCTGCCGGTGGTGTT 61.190 55.000 1.90 0.00 34.13 3.32
2759 5501 1.605058 CTACTAGCTGCCGGTGGTGT 61.605 60.000 1.90 6.28 34.13 4.16
2760 5502 1.141881 CTACTAGCTGCCGGTGGTG 59.858 63.158 1.90 0.66 34.13 4.17
2761 5503 0.903454 AACTACTAGCTGCCGGTGGT 60.903 55.000 1.90 4.82 36.31 4.16
2762 5504 0.179108 GAACTACTAGCTGCCGGTGG 60.179 60.000 1.90 0.03 0.00 4.61
2763 5505 0.530744 TGAACTACTAGCTGCCGGTG 59.469 55.000 1.90 0.00 0.00 4.94
2764 5506 1.486211 ATGAACTACTAGCTGCCGGT 58.514 50.000 1.90 0.00 0.00 5.28
2765 5507 2.288273 GGTATGAACTACTAGCTGCCGG 60.288 54.545 0.00 0.00 0.00 6.13
2766 5508 2.623889 AGGTATGAACTACTAGCTGCCG 59.376 50.000 0.00 0.00 0.00 5.69
2767 5509 3.243907 CCAGGTATGAACTACTAGCTGCC 60.244 52.174 0.00 0.00 40.45 4.85
2768 5510 3.243907 CCCAGGTATGAACTACTAGCTGC 60.244 52.174 0.00 0.00 40.45 5.25
2769 5511 4.215908 TCCCAGGTATGAACTACTAGCTG 58.784 47.826 0.00 0.00 41.11 4.24
2770 5512 4.079096 ACTCCCAGGTATGAACTACTAGCT 60.079 45.833 0.00 0.00 0.00 3.32
2771 5513 4.038162 CACTCCCAGGTATGAACTACTAGC 59.962 50.000 0.00 0.00 0.00 3.42
2772 5514 5.446860 TCACTCCCAGGTATGAACTACTAG 58.553 45.833 0.00 0.00 0.00 2.57
2773 5515 5.461516 TCACTCCCAGGTATGAACTACTA 57.538 43.478 0.00 0.00 0.00 1.82
2774 5516 4.332683 TCACTCCCAGGTATGAACTACT 57.667 45.455 0.00 0.00 0.00 2.57
2775 5517 4.680975 GCTTCACTCCCAGGTATGAACTAC 60.681 50.000 2.50 0.00 0.00 2.73
2776 5518 3.451178 GCTTCACTCCCAGGTATGAACTA 59.549 47.826 2.50 0.00 0.00 2.24
2777 5519 2.237392 GCTTCACTCCCAGGTATGAACT 59.763 50.000 2.50 0.00 0.00 3.01
2778 5520 2.237392 AGCTTCACTCCCAGGTATGAAC 59.763 50.000 2.50 1.75 0.00 3.18
2779 5521 2.551270 AGCTTCACTCCCAGGTATGAA 58.449 47.619 5.61 5.61 0.00 2.57
2780 5522 2.254152 AGCTTCACTCCCAGGTATGA 57.746 50.000 0.00 0.00 0.00 2.15
2781 5523 2.420687 GGAAGCTTCACTCCCAGGTATG 60.421 54.545 27.02 0.00 0.00 2.39
2782 5524 1.840635 GGAAGCTTCACTCCCAGGTAT 59.159 52.381 27.02 0.00 0.00 2.73
2783 5525 1.203313 AGGAAGCTTCACTCCCAGGTA 60.203 52.381 27.02 0.00 0.00 3.08
2784 5526 0.474660 AGGAAGCTTCACTCCCAGGT 60.475 55.000 27.02 0.00 0.00 4.00
2785 5527 0.695347 AAGGAAGCTTCACTCCCAGG 59.305 55.000 27.02 0.00 0.00 4.45
2786 5528 2.303022 TGTAAGGAAGCTTCACTCCCAG 59.697 50.000 27.02 0.00 0.00 4.45
2787 5529 2.334977 TGTAAGGAAGCTTCACTCCCA 58.665 47.619 27.02 16.68 0.00 4.37
2788 5530 3.075148 GTTGTAAGGAAGCTTCACTCCC 58.925 50.000 27.02 10.81 0.00 4.30
2789 5531 2.737252 CGTTGTAAGGAAGCTTCACTCC 59.263 50.000 27.02 11.47 0.00 3.85
2790 5532 3.650139 TCGTTGTAAGGAAGCTTCACTC 58.350 45.455 27.02 10.70 0.00 3.51
2791 5533 3.746045 TCGTTGTAAGGAAGCTTCACT 57.254 42.857 27.02 18.19 0.00 3.41
2792 5534 3.994392 TCATCGTTGTAAGGAAGCTTCAC 59.006 43.478 27.02 17.13 0.00 3.18
2793 5535 3.994392 GTCATCGTTGTAAGGAAGCTTCA 59.006 43.478 27.02 4.75 0.00 3.02
2794 5536 4.246458 AGTCATCGTTGTAAGGAAGCTTC 58.754 43.478 18.54 18.54 0.00 3.86
2795 5537 4.273148 AGTCATCGTTGTAAGGAAGCTT 57.727 40.909 0.00 0.00 0.00 3.74
2796 5538 3.963428 AGTCATCGTTGTAAGGAAGCT 57.037 42.857 0.00 0.00 0.00 3.74
2797 5539 4.712763 CAAAGTCATCGTTGTAAGGAAGC 58.287 43.478 0.00 0.00 0.00 3.86
2798 5540 4.452455 AGCAAAGTCATCGTTGTAAGGAAG 59.548 41.667 0.00 0.00 35.92 3.46
2799 5541 4.213270 CAGCAAAGTCATCGTTGTAAGGAA 59.787 41.667 0.00 0.00 35.92 3.36
2800 5542 3.745975 CAGCAAAGTCATCGTTGTAAGGA 59.254 43.478 0.00 0.00 35.92 3.36
2801 5543 3.498397 ACAGCAAAGTCATCGTTGTAAGG 59.502 43.478 0.00 0.00 35.92 2.69
2802 5544 4.211164 TGACAGCAAAGTCATCGTTGTAAG 59.789 41.667 2.98 0.00 43.18 2.34
2803 5545 4.123506 TGACAGCAAAGTCATCGTTGTAA 58.876 39.130 2.98 0.00 43.18 2.41
2804 5546 3.723260 TGACAGCAAAGTCATCGTTGTA 58.277 40.909 2.98 0.00 43.18 2.41
2805 5547 2.545526 CTGACAGCAAAGTCATCGTTGT 59.454 45.455 7.05 0.00 46.51 3.32
2806 5548 2.545526 ACTGACAGCAAAGTCATCGTTG 59.454 45.455 1.25 0.00 46.51 4.10
2807 5549 2.802816 GACTGACAGCAAAGTCATCGTT 59.197 45.455 1.25 0.00 46.51 3.85
2808 5550 2.224042 TGACTGACAGCAAAGTCATCGT 60.224 45.455 1.25 3.61 45.97 3.73
2809 5551 2.407090 TGACTGACAGCAAAGTCATCG 58.593 47.619 1.25 0.86 45.97 3.84
2813 5555 1.517242 CCCTGACTGACAGCAAAGTC 58.483 55.000 1.25 0.00 44.52 3.01
2814 5556 0.109342 CCCCTGACTGACAGCAAAGT 59.891 55.000 1.25 0.00 44.52 2.66
2815 5557 0.397941 TCCCCTGACTGACAGCAAAG 59.602 55.000 1.25 0.00 44.52 2.77
2816 5558 0.397941 CTCCCCTGACTGACAGCAAA 59.602 55.000 1.25 0.00 44.52 3.68
2817 5559 1.483595 CCTCCCCTGACTGACAGCAA 61.484 60.000 1.25 0.00 44.52 3.91
2818 5560 1.915266 CCTCCCCTGACTGACAGCA 60.915 63.158 1.25 0.91 44.52 4.41
2819 5561 1.915769 ACCTCCCCTGACTGACAGC 60.916 63.158 1.25 0.00 44.52 4.40
2820 5562 1.978473 CACCTCCCCTGACTGACAG 59.022 63.158 0.00 0.00 45.36 3.51
2821 5563 2.217038 GCACCTCCCCTGACTGACA 61.217 63.158 0.00 0.00 0.00 3.58
2822 5564 2.177594 CTGCACCTCCCCTGACTGAC 62.178 65.000 0.00 0.00 0.00 3.51
2823 5565 1.915266 CTGCACCTCCCCTGACTGA 60.915 63.158 0.00 0.00 0.00 3.41
2824 5566 2.667418 CTGCACCTCCCCTGACTG 59.333 66.667 0.00 0.00 0.00 3.51
2825 5567 3.325753 GCTGCACCTCCCCTGACT 61.326 66.667 0.00 0.00 0.00 3.41
2826 5568 3.322318 GAGCTGCACCTCCCCTGAC 62.322 68.421 1.02 0.00 0.00 3.51
2827 5569 3.005539 GAGCTGCACCTCCCCTGA 61.006 66.667 1.02 0.00 0.00 3.86
2828 5570 2.605854 GATGAGCTGCACCTCCCCTG 62.606 65.000 6.57 0.00 0.00 4.45
2829 5571 2.285969 ATGAGCTGCACCTCCCCT 60.286 61.111 6.57 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.