Multiple sequence alignment - TraesCS2B01G030600

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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 TraesCS2B01G030600 chr2B 100.000 4795 0 0 1 4795 13917145 13912351 0.000000e+00 8855.0
1 TraesCS2B01G030600 chr2B 92.217 2711 148 35 2101 4795 14334012 14336675 0.000000e+00 3779.0
2 TraesCS2B01G030600 chr2B 87.934 547 54 11 4252 4795 15464653 15464116 6.770000e-178 634.0
3 TraesCS2B01G030600 chr2B 90.987 466 30 6 4338 4795 14476564 14477025 6.820000e-173 617.0
4 TraesCS2B01G030600 chr2B 90.578 467 30 8 4338 4795 14503798 14504259 1.480000e-169 606.0
5 TraesCS2B01G030600 chr2B 85.119 336 36 10 3851 4175 14440786 14441118 9.950000e-87 331.0
6 TraesCS2B01G030600 chr2B 85.119 336 36 10 3851 4175 14466271 14466603 9.950000e-87 331.0
7 TraesCS2B01G030600 chr2A 91.590 3151 164 35 1587 4687 10729714 10732813 0.000000e+00 4257.0
8 TraesCS2B01G030600 chr2A 92.225 1029 50 13 2369 3376 10834538 10835557 0.000000e+00 1430.0
9 TraesCS2B01G030600 chr2A 85.406 1391 130 40 3419 4772 10733378 10734732 0.000000e+00 1376.0
10 TraesCS2B01G030600 chr2A 91.269 859 48 12 3374 4230 10842385 10843218 0.000000e+00 1146.0
11 TraesCS2B01G030600 chr2A 93.229 576 30 3 4226 4795 10843297 10843869 0.000000e+00 839.0
12 TraesCS2B01G030600 chr2A 87.537 682 41 19 781 1450 10728763 10729412 0.000000e+00 749.0
13 TraesCS2B01G030600 chr2A 80.786 687 80 22 1 647 10726426 10727100 1.550000e-134 490.0
14 TraesCS2B01G030600 chr2A 95.050 101 5 0 3281 3381 10733285 10733385 4.970000e-35 159.0
15 TraesCS2B01G030600 chr2D 90.073 2750 166 51 1587 4296 10427284 10429966 0.000000e+00 3467.0
16 TraesCS2B01G030600 chr2D 90.051 2171 137 44 2157 4296 10523600 10525722 0.000000e+00 2739.0
17 TraesCS2B01G030600 chr2D 93.793 435 24 1 1019 1450 10426548 10426982 0.000000e+00 651.0
18 TraesCS2B01G030600 chr2D 89.958 478 29 9 4336 4795 10528922 10529398 2.470000e-167 599.0
19 TraesCS2B01G030600 chr2D 89.562 479 30 9 4336 4795 10432506 10432983 1.490000e-164 590.0
20 TraesCS2B01G030600 chr2D 79.572 514 66 29 1 505 10425226 10425709 9.950000e-87 331.0
21 TraesCS2B01G030600 chr2D 88.163 245 23 3 687 925 10425932 10426176 2.180000e-73 287.0
22 TraesCS2B01G030600 chr2D 89.583 48 5 0 1789 1836 10427317 10427364 1.440000e-05 62.1
23 TraesCS2B01G030600 chr5A 84.575 1141 144 17 2534 3669 555070250 555069137 0.000000e+00 1103.0
24 TraesCS2B01G030600 chr5A 82.614 765 103 14 1667 2430 555074987 555074252 0.000000e+00 649.0
25 TraesCS2B01G030600 chr5A 77.232 448 58 26 997 1424 555075613 555075190 6.250000e-54 222.0
26 TraesCS2B01G030600 chrUn 90.792 467 29 8 4338 4795 461722828 461723289 3.170000e-171 612.0
27 TraesCS2B01G030600 chrUn 85.119 336 36 10 3851 4175 368709570 368709238 9.950000e-87 331.0
28 TraesCS2B01G030600 chr4B 81.520 487 63 13 982 1450 458893887 458894364 4.530000e-100 375.0
29 TraesCS2B01G030600 chr1D 80.325 493 65 17 979 1450 464870811 464870330 1.280000e-90 344.0
30 TraesCS2B01G030600 chr4D 78.448 464 49 23 980 1423 100202131 100202563 6.160000e-64 255.0
31 TraesCS2B01G030600 chr4D 90.476 42 2 2 39 78 502734328 502734369 2.000000e-03 54.7
32 TraesCS2B01G030600 chr6B 86.207 58 6 2 45 101 17722570 17722514 1.440000e-05 62.1
33 TraesCS2B01G030600 chr3B 81.250 80 10 5 2 79 620819683 620819607 5.180000e-05 60.2
34 TraesCS2B01G030600 chr3D 83.333 66 7 4 16 79 466818546 466818483 1.860000e-04 58.4
35 TraesCS2B01G030600 chr7D 96.875 32 1 0 47 78 556212954 556212923 2.000000e-03 54.7
36 TraesCS2B01G030600 chr7B 94.444 36 1 1 44 78 391105351 391105386 2.000000e-03 54.7
37 TraesCS2B01G030600 chr7B 78.824 85 12 6 51 131 603269206 603269124 9.000000e-03 52.8


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 TraesCS2B01G030600 chr2B 13912351 13917145 4794 True 8855.00 8855 100.0000 1 4795 1 chr2B.!!$R1 4794
1 TraesCS2B01G030600 chr2B 14334012 14336675 2663 False 3779.00 3779 92.2170 2101 4795 1 chr2B.!!$F1 2694
2 TraesCS2B01G030600 chr2B 15464116 15464653 537 True 634.00 634 87.9340 4252 4795 1 chr2B.!!$R2 543
3 TraesCS2B01G030600 chr2A 10834538 10835557 1019 False 1430.00 1430 92.2250 2369 3376 1 chr2A.!!$F1 1007
4 TraesCS2B01G030600 chr2A 10726426 10734732 8306 False 1406.20 4257 88.0738 1 4772 5 chr2A.!!$F2 4771
5 TraesCS2B01G030600 chr2A 10842385 10843869 1484 False 992.50 1146 92.2490 3374 4795 2 chr2A.!!$F3 1421
6 TraesCS2B01G030600 chr2D 10523600 10529398 5798 False 1669.00 2739 90.0045 2157 4795 2 chr2D.!!$F3 2638
7 TraesCS2B01G030600 chr2D 10425226 10429966 4740 False 959.62 3467 88.2368 1 4296 5 chr2D.!!$F2 4295
8 TraesCS2B01G030600 chr5A 555069137 555070250 1113 True 1103.00 1103 84.5750 2534 3669 1 chr5A.!!$R1 1135
9 TraesCS2B01G030600 chr5A 555074252 555075613 1361 True 435.50 649 79.9230 997 2430 2 chr5A.!!$R2 1433

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
716 2339 0.176910 CTCCTCTTCTTTCGGCCCTC 59.823 60.000 0.00 0.00 0.00 4.30 F
722 2345 0.183971 TTCTTTCGGCCCTCCAACAA 59.816 50.000 0.00 0.00 0.00 2.83 F
723 2346 0.250727 TCTTTCGGCCCTCCAACAAG 60.251 55.000 0.00 0.00 0.00 3.16 F
1477 3447 0.321653 ATCTGTCAGTTTCCACGGCC 60.322 55.000 0.00 0.00 0.00 6.13 F
1597 3792 0.397114 GCCCCCAAATCGGATCCTTT 60.397 55.000 10.75 1.28 36.56 3.11 F
1679 3888 1.002888 ACTGACACTCCAAGGATGCAG 59.997 52.381 0.00 0.00 0.00 4.41 F
3318 5564 1.734388 AAACTGGCTTTGCGGACCAC 61.734 55.000 0.00 0.00 0.00 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1578 3773 0.397114 AAAGGATCCGATTTGGGGGC 60.397 55.000 5.98 0.00 38.76 5.80 R
1859 4068 1.164411 TCGGCGTGAATTTTGCATCT 58.836 45.000 6.85 0.00 0.00 2.90 R
2292 4506 1.639298 GCATCGCACTGTCCTCAACC 61.639 60.000 0.00 0.00 0.00 3.77 R
2745 4985 1.453562 TTGTGCTGGCAGTTGCAGA 60.454 52.632 17.16 4.53 44.36 4.26 R
3497 5745 0.679002 ATCGCAGGCAACAAGCTGAT 60.679 50.000 0.00 0.00 44.79 2.90 R
3509 5757 1.871676 CATCAGGATTCACATCGCAGG 59.128 52.381 0.00 0.00 0.00 4.85 R
4558 11921 0.598065 AGACTTGCGTGAATTTGGCC 59.402 50.000 0.00 0.00 0.00 5.36 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
83 84 9.903682 TCTCAAATTCATGAACTTTTTCAGATC 57.096 29.630 11.07 0.00 45.07 2.75
90 91 7.310664 TCATGAACTTTTTCAGATCTGCAATC 58.689 34.615 18.36 8.45 45.07 2.67
294 336 9.699410 AATCTTTTTCCATTTTTCCCTTTTTCT 57.301 25.926 0.00 0.00 0.00 2.52
367 410 3.322254 ACCGGCAAACATTTGATAAACCA 59.678 39.130 0.00 0.00 40.55 3.67
372 415 5.405269 GGCAAACATTTGATAAACCAGTGAC 59.595 40.000 8.54 0.00 40.55 3.67
378 421 7.433680 ACATTTGATAAACCAGTGACCTTTTC 58.566 34.615 0.00 0.00 0.00 2.29
380 423 6.877611 TTGATAAACCAGTGACCTTTTCTC 57.122 37.500 0.00 0.00 0.00 2.87
390 434 6.433766 CAGTGACCTTTTCTCTTCATTTCAC 58.566 40.000 0.00 0.00 0.00 3.18
392 436 5.236478 GTGACCTTTTCTCTTCATTTCACGA 59.764 40.000 0.00 0.00 0.00 4.35
396 440 5.626955 CCTTTTCTCTTCATTTCACGAAAGC 59.373 40.000 0.00 0.00 33.32 3.51
408 452 4.145876 TCACGAAAGCATTCACAATCAC 57.854 40.909 2.22 0.00 35.15 3.06
431 475 3.660501 AAATCTTTTTCCCGAACCAGC 57.339 42.857 0.00 0.00 0.00 4.85
434 478 0.598065 CTTTTTCCCGAACCAGCTGG 59.402 55.000 31.60 31.60 42.17 4.85
439 483 1.228124 CCCGAACCAGCTGGACAAA 60.228 57.895 39.19 0.00 38.94 2.83
440 484 1.515521 CCCGAACCAGCTGGACAAAC 61.516 60.000 39.19 20.99 38.94 2.93
441 485 0.817634 CCGAACCAGCTGGACAAACA 60.818 55.000 39.19 0.00 38.94 2.83
442 486 0.588252 CGAACCAGCTGGACAAACAG 59.412 55.000 39.19 17.36 41.41 3.16
443 487 1.810031 CGAACCAGCTGGACAAACAGA 60.810 52.381 39.19 0.00 40.97 3.41
444 488 1.876156 GAACCAGCTGGACAAACAGAG 59.124 52.381 39.19 8.80 40.97 3.35
446 490 1.239968 CCAGCTGGACAAACAGAGCC 61.240 60.000 29.88 0.00 40.97 4.70
447 491 1.302033 AGCTGGACAAACAGAGCCG 60.302 57.895 0.00 0.00 40.97 5.52
448 492 1.301716 GCTGGACAAACAGAGCCGA 60.302 57.895 0.00 0.00 40.97 5.54
449 493 1.294659 GCTGGACAAACAGAGCCGAG 61.295 60.000 0.00 0.00 40.97 4.63
451 495 0.318441 TGGACAAACAGAGCCGAGAG 59.682 55.000 0.00 0.00 0.00 3.20
458 1556 2.447244 ACAGAGCCGAGAGAAAACAG 57.553 50.000 0.00 0.00 0.00 3.16
494 1592 2.098870 GTTGAGCGAACGAACAAACAC 58.901 47.619 0.00 0.00 0.00 3.32
505 1603 2.733218 CAAACACCGAGCGAGCGA 60.733 61.111 0.00 0.00 0.00 4.93
506 1604 2.430921 AAACACCGAGCGAGCGAG 60.431 61.111 0.00 0.00 0.00 5.03
604 1702 3.845259 GGCGCTCGGATACCACCA 61.845 66.667 7.64 0.00 0.00 4.17
605 1703 2.585247 GCGCTCGGATACCACCAC 60.585 66.667 0.00 0.00 0.00 4.16
606 1704 2.106332 CGCTCGGATACCACCACC 59.894 66.667 0.00 0.00 0.00 4.61
610 1708 0.747255 CTCGGATACCACCACCTCTG 59.253 60.000 0.00 0.00 0.00 3.35
619 1717 3.721706 CCACCTCTGCCACCCTCC 61.722 72.222 0.00 0.00 0.00 4.30
652 1750 2.658422 GGCACCCAGGCACATTTG 59.342 61.111 0.00 0.00 43.51 2.32
653 1751 2.209315 GGCACCCAGGCACATTTGT 61.209 57.895 0.00 0.00 43.51 2.83
666 1764 2.936202 ACATTTGTGACAGGAAGCACT 58.064 42.857 0.00 0.00 36.05 4.40
667 1765 2.880890 ACATTTGTGACAGGAAGCACTC 59.119 45.455 0.00 0.00 36.05 3.51
675 1773 4.785453 GGAAGCACTCCGGCCCTG 62.785 72.222 0.00 0.00 33.37 4.45
680 1778 4.742201 CACTCCGGCCCTGACGTG 62.742 72.222 0.00 1.58 28.54 4.49
682 1780 4.003788 CTCCGGCCCTGACGTGTT 62.004 66.667 0.00 0.00 28.54 3.32
683 1781 3.530910 CTCCGGCCCTGACGTGTTT 62.531 63.158 0.00 0.00 28.54 2.83
684 1782 3.047877 CCGGCCCTGACGTGTTTC 61.048 66.667 0.00 0.00 28.54 2.78
685 1783 2.280524 CGGCCCTGACGTGTTTCA 60.281 61.111 0.00 0.00 0.00 2.69
699 2322 1.239347 GTTTCACACTTGGGCCTCTC 58.761 55.000 4.53 0.00 0.00 3.20
716 2339 0.176910 CTCCTCTTCTTTCGGCCCTC 59.823 60.000 0.00 0.00 0.00 4.30
721 2344 0.250727 CTTCTTTCGGCCCTCCAACA 60.251 55.000 0.00 0.00 0.00 3.33
722 2345 0.183971 TTCTTTCGGCCCTCCAACAA 59.816 50.000 0.00 0.00 0.00 2.83
723 2346 0.250727 TCTTTCGGCCCTCCAACAAG 60.251 55.000 0.00 0.00 0.00 3.16
725 2348 2.351924 TTTCGGCCCTCCAACAAGCT 62.352 55.000 0.00 0.00 0.00 3.74
727 2350 2.361737 GGCCCTCCAACAAGCTCC 60.362 66.667 0.00 0.00 0.00 4.70
728 2351 2.436109 GCCCTCCAACAAGCTCCA 59.564 61.111 0.00 0.00 0.00 3.86
729 2352 1.228552 GCCCTCCAACAAGCTCCAA 60.229 57.895 0.00 0.00 0.00 3.53
744 2372 2.255252 CAAACTTGGCGCGAAGGG 59.745 61.111 31.41 18.62 46.11 3.95
857 2487 1.933307 AAACCCCCATGGATCCCGAC 61.933 60.000 15.22 0.00 38.00 4.79
925 2566 3.962530 GATCCTCCACCCCACCCCA 62.963 68.421 0.00 0.00 0.00 4.96
926 2567 4.995058 TCCTCCACCCCACCCCAC 62.995 72.222 0.00 0.00 0.00 4.61
977 2618 1.721093 CCCAACCCTACCACAACCCA 61.721 60.000 0.00 0.00 0.00 4.51
983 2624 1.850755 CTACCACAACCCACCCCCT 60.851 63.158 0.00 0.00 0.00 4.79
988 2629 3.339093 CAACCCACCCCCTCCTCC 61.339 72.222 0.00 0.00 0.00 4.30
1425 3394 2.887568 CTGTCGCGGATCTGCACC 60.888 66.667 25.69 15.25 34.15 5.01
1446 3416 4.141018 ACCTACAGTTTCATCCCCTGTTTT 60.141 41.667 0.00 0.00 39.90 2.43
1450 3420 1.611491 GTTTCATCCCCTGTTTTCGCA 59.389 47.619 0.00 0.00 0.00 5.10
1451 3421 2.214376 TTCATCCCCTGTTTTCGCAT 57.786 45.000 0.00 0.00 0.00 4.73
1452 3422 1.462616 TCATCCCCTGTTTTCGCATG 58.537 50.000 0.00 0.00 0.00 4.06
1453 3423 1.004161 TCATCCCCTGTTTTCGCATGA 59.996 47.619 0.00 0.00 0.00 3.07
1455 3425 1.533625 TCCCCTGTTTTCGCATGAAG 58.466 50.000 0.00 0.00 35.06 3.02
1456 3426 0.527565 CCCCTGTTTTCGCATGAAGG 59.472 55.000 0.00 0.00 35.06 3.46
1457 3427 0.527565 CCCTGTTTTCGCATGAAGGG 59.472 55.000 0.00 0.00 35.06 3.95
1458 3428 1.533625 CCTGTTTTCGCATGAAGGGA 58.466 50.000 0.00 0.00 35.06 4.20
1461 3431 3.012518 CTGTTTTCGCATGAAGGGATCT 58.987 45.455 0.00 0.00 39.14 2.75
1465 3435 1.194218 TCGCATGAAGGGATCTGTCA 58.806 50.000 0.00 0.00 33.78 3.58
1466 3436 1.137675 TCGCATGAAGGGATCTGTCAG 59.862 52.381 0.00 0.00 33.78 3.51
1467 3437 1.134580 CGCATGAAGGGATCTGTCAGT 60.135 52.381 0.00 0.00 0.00 3.41
1470 3440 3.376546 GCATGAAGGGATCTGTCAGTTTC 59.623 47.826 0.00 0.00 0.00 2.78
1471 3441 3.703001 TGAAGGGATCTGTCAGTTTCC 57.297 47.619 13.21 13.21 0.00 3.13
1472 3442 2.978978 TGAAGGGATCTGTCAGTTTCCA 59.021 45.455 19.55 3.82 0.00 3.53
1473 3443 3.244561 TGAAGGGATCTGTCAGTTTCCAC 60.245 47.826 19.55 10.67 0.00 4.02
1474 3444 1.276421 AGGGATCTGTCAGTTTCCACG 59.724 52.381 19.55 0.00 0.00 4.94
1475 3445 1.676014 GGGATCTGTCAGTTTCCACGG 60.676 57.143 19.55 0.00 0.00 4.94
1476 3446 1.079503 GATCTGTCAGTTTCCACGGC 58.920 55.000 0.00 0.00 0.00 5.68
1477 3447 0.321653 ATCTGTCAGTTTCCACGGCC 60.322 55.000 0.00 0.00 0.00 6.13
1478 3448 1.227823 CTGTCAGTTTCCACGGCCA 60.228 57.895 2.24 0.00 0.00 5.36
1480 3450 2.112297 TCAGTTTCCACGGCCACC 59.888 61.111 2.24 0.00 0.00 4.61
1481 3451 2.203280 CAGTTTCCACGGCCACCA 60.203 61.111 2.24 0.00 0.00 4.17
1482 3452 2.113139 AGTTTCCACGGCCACCAG 59.887 61.111 2.24 0.00 0.00 4.00
1483 3453 2.203294 GTTTCCACGGCCACCAGT 60.203 61.111 2.24 0.00 0.00 4.00
1484 3454 2.112297 TTTCCACGGCCACCAGTC 59.888 61.111 2.24 0.00 0.00 3.51
1488 3458 1.144057 CCACGGCCACCAGTCTATC 59.856 63.158 2.24 0.00 0.00 2.08
1490 3460 1.305802 ACGGCCACCAGTCTATCCA 60.306 57.895 2.24 0.00 0.00 3.41
1501 3519 7.473511 GCCACCAGTCTATCCATCTAGTAAAAT 60.474 40.741 0.00 0.00 0.00 1.82
1513 3531 9.739276 TCCATCTAGTAAAATCAACATCAAACT 57.261 29.630 0.00 0.00 0.00 2.66
1523 3541 9.612620 AAAATCAACATCAAACTAGAATCGTTC 57.387 29.630 0.00 0.00 0.00 3.95
1529 3724 5.319140 TCAAACTAGAATCGTTCGGATGA 57.681 39.130 0.00 0.00 34.93 2.92
1537 3732 4.332819 AGAATCGTTCGGATGAAAACATCC 59.667 41.667 16.41 16.41 45.79 3.51
1543 3738 4.128925 TCGGATGAAAACATCCTCTCTG 57.871 45.455 21.57 9.92 46.77 3.35
1548 3743 6.423302 CGGATGAAAACATCCTCTCTGATTAG 59.577 42.308 21.57 4.22 46.77 1.73
1574 3769 4.329462 GGATCTAGTCCGATTTCTTGCT 57.671 45.455 0.00 0.00 37.23 3.91
1575 3770 4.698575 GGATCTAGTCCGATTTCTTGCTT 58.301 43.478 0.00 0.00 37.23 3.91
1576 3771 4.509600 GGATCTAGTCCGATTTCTTGCTTG 59.490 45.833 0.00 0.00 37.23 4.01
1577 3772 3.262420 TCTAGTCCGATTTCTTGCTTGC 58.738 45.455 0.00 0.00 0.00 4.01
1578 3773 0.798776 AGTCCGATTTCTTGCTTGCG 59.201 50.000 0.00 0.00 0.00 4.85
1580 3775 1.514873 CCGATTTCTTGCTTGCGCC 60.515 57.895 4.18 0.00 34.43 6.53
1581 3776 1.514873 CGATTTCTTGCTTGCGCCC 60.515 57.895 4.18 0.00 34.43 6.13
1582 3777 1.153765 GATTTCTTGCTTGCGCCCC 60.154 57.895 4.18 0.00 34.43 5.80
1583 3778 2.563050 GATTTCTTGCTTGCGCCCCC 62.563 60.000 4.18 0.00 34.43 5.40
1584 3779 4.594854 TTCTTGCTTGCGCCCCCA 62.595 61.111 4.18 0.00 34.43 4.96
1585 3780 4.594854 TCTTGCTTGCGCCCCCAA 62.595 61.111 4.18 4.14 34.43 4.12
1586 3781 3.614698 CTTGCTTGCGCCCCCAAA 61.615 61.111 4.18 0.00 34.43 3.28
1587 3782 2.921972 TTGCTTGCGCCCCCAAAT 60.922 55.556 4.18 0.00 34.43 2.32
1588 3783 2.840717 CTTGCTTGCGCCCCCAAATC 62.841 60.000 4.18 0.00 34.43 2.17
1589 3784 4.496927 GCTTGCGCCCCCAAATCG 62.497 66.667 4.18 0.00 0.00 3.34
1590 3785 3.825611 CTTGCGCCCCCAAATCGG 61.826 66.667 4.18 0.00 0.00 4.18
1591 3786 4.352607 TTGCGCCCCCAAATCGGA 62.353 61.111 4.18 0.00 36.56 4.55
1592 3787 3.653664 TTGCGCCCCCAAATCGGAT 62.654 57.895 4.18 0.00 36.56 4.18
1593 3788 3.287520 GCGCCCCCAAATCGGATC 61.288 66.667 0.00 0.00 36.56 3.36
1594 3789 2.594592 CGCCCCCAAATCGGATCC 60.595 66.667 0.00 0.00 36.56 3.36
1595 3790 2.927056 GCCCCCAAATCGGATCCT 59.073 61.111 10.75 0.00 36.56 3.24
1596 3791 1.230212 GCCCCCAAATCGGATCCTT 59.770 57.895 10.75 0.00 36.56 3.36
1597 3792 0.397114 GCCCCCAAATCGGATCCTTT 60.397 55.000 10.75 1.28 36.56 3.11
1598 3793 1.964830 GCCCCCAAATCGGATCCTTTT 60.965 52.381 10.75 6.94 36.56 2.27
1617 3812 7.166167 TCCTTTTACTTAGTTTCAGACCATCC 58.834 38.462 0.00 0.00 0.00 3.51
1618 3813 6.374613 CCTTTTACTTAGTTTCAGACCATCCC 59.625 42.308 0.00 0.00 0.00 3.85
1642 3837 6.094464 CCTGAATCTGTGCATATTGTTTCTGA 59.906 38.462 0.00 0.00 0.00 3.27
1650 3845 5.886992 TGCATATTGTTTCTGAGATGCAAG 58.113 37.500 4.95 0.00 44.79 4.01
1679 3888 1.002888 ACTGACACTCCAAGGATGCAG 59.997 52.381 0.00 0.00 0.00 4.41
1725 3934 2.552315 TCTGGTCCGATTTCTTGTTTGC 59.448 45.455 0.00 0.00 0.00 3.68
1746 3955 2.418609 CGCCCCCAAATTGAATCCTTTC 60.419 50.000 0.00 0.00 0.00 2.62
1770 3979 5.062683 CACTTAGTTTCAGACCATCATCGTG 59.937 44.000 0.00 0.00 0.00 4.35
1777 3986 5.244785 TCAGACCATCATCGTGTTAGTAC 57.755 43.478 0.00 0.00 0.00 2.73
1798 4007 8.319143 AGTACAACCAACAACAATCTGTATAC 57.681 34.615 0.00 0.00 0.00 1.47
1874 4083 4.424061 TCTGGAAGATGCAAAATTCACG 57.576 40.909 10.06 0.00 38.67 4.35
1876 4085 2.262211 GGAAGATGCAAAATTCACGCC 58.738 47.619 10.06 0.00 0.00 5.68
2268 4482 1.783031 GCTGCATGAAGCCGGATCTG 61.783 60.000 15.54 0.00 44.83 2.90
2426 4643 7.693952 TCTTGTATCTTTCACACTTTCAACAC 58.306 34.615 0.00 0.00 0.00 3.32
2433 4650 6.428465 TCTTTCACACTTTCAACACAGTTACA 59.572 34.615 0.00 0.00 0.00 2.41
2489 4706 5.671493 AGTAACTGTATGATTACTGGTGCC 58.329 41.667 0.00 0.00 39.58 5.01
2592 4832 3.248602 GCTGCCGTATCCATTTACTCAAG 59.751 47.826 0.00 0.00 0.00 3.02
2702 4942 1.830368 TTGCACTGTCGCACATGTCG 61.830 55.000 0.00 3.20 42.87 4.35
2717 4957 2.154854 TGTCGCAGTCTTTCAAGAGG 57.845 50.000 0.00 0.00 35.32 3.69
2729 4969 4.408921 TCTTTCAAGAGGAGGTTCTCACAA 59.591 41.667 0.00 0.00 36.30 3.33
2745 4985 4.070716 CTCACAAAGATCTTCAACCTGCT 58.929 43.478 8.78 0.00 0.00 4.24
2981 5221 2.222013 ACCGAACCTTGAGACCCCC 61.222 63.158 0.00 0.00 0.00 5.40
3203 5447 6.851837 CGGTAAGTTCTTACTCATACTGATCG 59.148 42.308 18.19 8.58 30.48 3.69
3205 5449 7.856894 GGTAAGTTCTTACTCATACTGATCGTC 59.143 40.741 18.19 0.00 31.99 4.20
3246 5490 4.042062 TCCTCTGTGAACAAAGGATGACAT 59.958 41.667 1.20 0.00 33.00 3.06
3303 5547 9.011201 AAGAGAACTTTGGAGGAGAAGGAAACT 62.011 40.741 0.00 0.00 35.72 2.66
3318 5564 1.734388 AAACTGGCTTTGCGGACCAC 61.734 55.000 0.00 0.00 0.00 4.16
3497 5745 3.398406 TGTGCTTTCTATCTTTGTCGCA 58.602 40.909 0.00 0.00 0.00 5.10
3509 5757 0.040157 TTGTCGCATCAGCTTGTTGC 60.040 50.000 2.84 2.84 39.13 4.17
3658 5907 7.450014 TCTTTGCTGGTAAACATTTCTTATCCA 59.550 33.333 0.00 0.00 0.00 3.41
3835 6084 8.062065 TGTTTCTCCTTGTTTAGAAATGTTGT 57.938 30.769 0.00 0.00 42.11 3.32
4005 6258 5.869344 TGATTGACATGTGTAGCTGAAGTAC 59.131 40.000 1.15 0.00 0.00 2.73
4008 6261 4.767409 TGACATGTGTAGCTGAAGTACTCT 59.233 41.667 1.15 0.00 0.00 3.24
4175 6432 8.553459 TCTTCTCTAAGACCAAGCATAAAAAG 57.447 34.615 0.00 0.00 36.80 2.27
4176 6433 8.375506 TCTTCTCTAAGACCAAGCATAAAAAGA 58.624 33.333 0.00 0.00 36.80 2.52
4181 6438 9.295825 TCTAAGACCAAGCATAAAAAGATGAAA 57.704 29.630 0.00 0.00 0.00 2.69
4183 6440 8.767478 AAGACCAAGCATAAAAAGATGAAATG 57.233 30.769 0.00 0.00 0.00 2.32
4184 6441 8.125978 AGACCAAGCATAAAAAGATGAAATGA 57.874 30.769 0.00 0.00 0.00 2.57
4185 6442 8.755977 AGACCAAGCATAAAAAGATGAAATGAT 58.244 29.630 0.00 0.00 0.00 2.45
4186 6443 8.712285 ACCAAGCATAAAAAGATGAAATGATG 57.288 30.769 0.00 0.00 0.00 3.07
4187 6444 8.316214 ACCAAGCATAAAAAGATGAAATGATGT 58.684 29.630 0.00 0.00 0.00 3.06
4188 6445 9.158233 CCAAGCATAAAAAGATGAAATGATGTT 57.842 29.630 0.00 0.00 0.00 2.71
4191 6448 9.715121 AGCATAAAAAGATGAAATGATGTTTGT 57.285 25.926 0.00 0.00 0.00 2.83
4215 6472 9.219603 TGTTATCTCTTTGAAACAAGGATACAG 57.780 33.333 0.00 0.00 41.41 2.74
4264 6605 5.303333 TGAAAATTTCTAACAACTGGTCCCC 59.697 40.000 7.29 0.00 0.00 4.81
4282 6623 2.814336 CCCCTCTTGTTACAGAGCAAAC 59.186 50.000 6.38 0.00 39.33 2.93
4290 6631 7.045416 TCTTGTTACAGAGCAAACTAAACTCA 58.955 34.615 0.00 0.00 32.71 3.41
4301 9772 8.567285 AGCAAACTAAACTCAATACTAAGCAT 57.433 30.769 0.00 0.00 0.00 3.79
4503 10024 9.392021 CAACTCTCTAATTTGCTTTTTCTTCTC 57.608 33.333 0.00 0.00 0.00 2.87
4558 11921 4.454161 TGGTAAACACAATGTGAGATTCGG 59.546 41.667 21.34 0.00 36.96 4.30
4612 11975 9.206870 GATCTAGAAAATTGGCAATGTTTGAAA 57.793 29.630 16.45 4.75 0.00 2.69
4633 11996 8.716646 TGAAAGCATCTTCATTAATCGACTTA 57.283 30.769 0.00 0.00 30.31 2.24
4687 12050 0.036858 GGGACTCTTGCTCACTGGAC 60.037 60.000 0.00 0.00 0.00 4.02
4708 12071 2.674852 CCTGTTCTCCGACATGTGAATG 59.325 50.000 1.15 0.00 0.00 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 84 6.145048 GTGTCTGAATTTGAAAAGGATTGCAG 59.855 38.462 0.00 0.00 0.00 4.41
217 255 9.317936 GGAAATCACAAATTTGAGAAAAGTTCT 57.682 29.630 24.64 2.75 44.21 3.01
351 394 6.976934 AGGTCACTGGTTTATCAAATGTTT 57.023 33.333 0.00 0.00 0.00 2.83
367 410 5.237344 CGTGAAATGAAGAGAAAAGGTCACT 59.763 40.000 0.00 0.00 32.59 3.41
372 415 5.626955 GCTTTCGTGAAATGAAGAGAAAAGG 59.373 40.000 0.00 0.00 43.75 3.11
378 421 5.566774 GTGAATGCTTTCGTGAAATGAAGAG 59.433 40.000 7.73 0.00 43.75 2.85
380 423 5.214417 TGTGAATGCTTTCGTGAAATGAAG 58.786 37.500 7.73 0.00 43.75 3.02
390 434 5.886715 TTTTGTGATTGTGAATGCTTTCG 57.113 34.783 7.73 0.00 34.39 3.46
392 436 8.441312 AAGATTTTTGTGATTGTGAATGCTTT 57.559 26.923 0.00 0.00 0.00 3.51
396 440 9.654417 GGAAAAAGATTTTTGTGATTGTGAATG 57.346 29.630 7.96 0.00 40.21 2.67
408 452 4.211164 GCTGGTTCGGGAAAAAGATTTTTG 59.789 41.667 7.96 0.00 40.21 2.44
431 475 0.318441 TCTCGGCTCTGTTTGTCCAG 59.682 55.000 0.00 0.00 0.00 3.86
434 478 2.440539 TTCTCTCGGCTCTGTTTGTC 57.559 50.000 0.00 0.00 0.00 3.18
439 483 1.001406 CCTGTTTTCTCTCGGCTCTGT 59.999 52.381 0.00 0.00 0.00 3.41
440 484 1.273606 TCCTGTTTTCTCTCGGCTCTG 59.726 52.381 0.00 0.00 0.00 3.35
441 485 1.273886 GTCCTGTTTTCTCTCGGCTCT 59.726 52.381 0.00 0.00 0.00 4.09
442 486 1.673329 GGTCCTGTTTTCTCTCGGCTC 60.673 57.143 0.00 0.00 0.00 4.70
443 487 0.321996 GGTCCTGTTTTCTCTCGGCT 59.678 55.000 0.00 0.00 0.00 5.52
444 488 1.014564 CGGTCCTGTTTTCTCTCGGC 61.015 60.000 0.00 0.00 0.00 5.54
446 490 1.540267 TCTCGGTCCTGTTTTCTCTCG 59.460 52.381 0.00 0.00 0.00 4.04
447 491 3.662247 TTCTCGGTCCTGTTTTCTCTC 57.338 47.619 0.00 0.00 0.00 3.20
448 492 3.244249 CCTTTCTCGGTCCTGTTTTCTCT 60.244 47.826 0.00 0.00 0.00 3.10
449 493 3.067833 CCTTTCTCGGTCCTGTTTTCTC 58.932 50.000 0.00 0.00 0.00 2.87
451 495 1.535896 GCCTTTCTCGGTCCTGTTTTC 59.464 52.381 0.00 0.00 0.00 2.29
458 1556 1.014564 CAACTCGCCTTTCTCGGTCC 61.015 60.000 0.00 0.00 0.00 4.46
505 1603 0.721718 GTCGCACATTAAGCTTCGCT 59.278 50.000 0.00 0.00 42.56 4.93
506 1604 0.584054 CGTCGCACATTAAGCTTCGC 60.584 55.000 0.00 0.00 0.00 4.70
604 1702 2.284995 GAGGAGGGTGGCAGAGGT 60.285 66.667 0.00 0.00 0.00 3.85
605 1703 3.465403 CGAGGAGGGTGGCAGAGG 61.465 72.222 0.00 0.00 0.00 3.69
606 1704 3.465403 CCGAGGAGGGTGGCAGAG 61.465 72.222 0.00 0.00 35.97 3.35
619 1717 4.559063 CCCATGGAGGCTGCCGAG 62.559 72.222 15.22 2.58 35.39 4.63
647 1745 2.227388 GGAGTGCTTCCTGTCACAAATG 59.773 50.000 1.11 0.00 43.16 2.32
648 1746 2.508526 GGAGTGCTTCCTGTCACAAAT 58.491 47.619 1.11 0.00 43.16 2.32
649 1747 1.810031 CGGAGTGCTTCCTGTCACAAA 60.810 52.381 6.32 0.00 44.41 2.83
650 1748 0.249868 CGGAGTGCTTCCTGTCACAA 60.250 55.000 6.32 0.00 44.41 3.33
651 1749 1.367471 CGGAGTGCTTCCTGTCACA 59.633 57.895 6.32 0.00 44.41 3.58
652 1750 1.374758 CCGGAGTGCTTCCTGTCAC 60.375 63.158 0.00 0.00 44.41 3.67
653 1751 3.059982 CCGGAGTGCTTCCTGTCA 58.940 61.111 0.00 0.00 44.41 3.58
654 1752 2.435059 GCCGGAGTGCTTCCTGTC 60.435 66.667 5.05 0.00 44.41 3.51
656 1754 4.785453 GGGCCGGAGTGCTTCCTG 62.785 72.222 5.05 1.54 44.41 3.86
659 1757 3.706373 TCAGGGCCGGAGTGCTTC 61.706 66.667 5.05 0.00 0.00 3.86
663 1761 4.742201 CACGTCAGGGCCGGAGTG 62.742 72.222 5.05 13.30 0.00 3.51
666 1764 3.524648 GAAACACGTCAGGGCCGGA 62.525 63.158 5.05 0.91 0.00 5.14
667 1765 3.047877 GAAACACGTCAGGGCCGG 61.048 66.667 0.00 0.00 0.00 6.13
670 1768 4.134623 TGTGAAACACGTCAGGGC 57.865 55.556 0.00 0.00 45.67 5.19
680 1778 1.239347 GAGAGGCCCAAGTGTGAAAC 58.761 55.000 0.00 0.00 37.35 2.78
682 1780 0.768221 AGGAGAGGCCCAAGTGTGAA 60.768 55.000 0.00 0.00 37.37 3.18
683 1781 1.152030 AGGAGAGGCCCAAGTGTGA 60.152 57.895 0.00 0.00 37.37 3.58
684 1782 1.197430 AGAGGAGAGGCCCAAGTGTG 61.197 60.000 0.00 0.00 37.37 3.82
685 1783 0.474660 AAGAGGAGAGGCCCAAGTGT 60.475 55.000 0.00 0.00 37.37 3.55
699 2322 1.222113 GGAGGGCCGAAAGAAGAGG 59.778 63.158 0.00 0.00 0.00 3.69
727 2350 2.255252 CCCTTCGCGCCAAGTTTG 59.745 61.111 13.79 0.00 0.00 2.93
728 2351 3.670377 GCCCTTCGCGCCAAGTTT 61.670 61.111 13.79 0.00 0.00 2.66
814 2443 3.760035 GAGGCAACGGCGAGGAGA 61.760 66.667 16.62 0.00 46.39 3.71
1017 2954 2.754375 GTCCGGGGCTTCTTGGAA 59.246 61.111 0.00 0.00 31.04 3.53
1161 3125 3.839432 GGCTCCGTCTTCTCCGGG 61.839 72.222 0.00 0.00 45.51 5.73
1415 3382 3.334583 TGAAACTGTAGGTGCAGATCC 57.665 47.619 1.74 0.00 39.62 3.36
1425 3394 4.154195 CGAAAACAGGGGATGAAACTGTAG 59.846 45.833 0.00 0.00 44.08 2.74
1446 3416 1.137675 CTGACAGATCCCTTCATGCGA 59.862 52.381 0.00 0.00 0.00 5.10
1450 3420 3.588842 TGGAAACTGACAGATCCCTTCAT 59.411 43.478 21.43 0.00 0.00 2.57
1451 3421 2.978978 TGGAAACTGACAGATCCCTTCA 59.021 45.455 21.43 7.33 0.00 3.02
1452 3422 3.339141 GTGGAAACTGACAGATCCCTTC 58.661 50.000 21.43 12.57 0.00 3.46
1453 3423 2.289694 CGTGGAAACTGACAGATCCCTT 60.290 50.000 21.43 0.62 0.00 3.95
1455 3425 1.676014 CCGTGGAAACTGACAGATCCC 60.676 57.143 21.43 13.87 0.00 3.85
1456 3426 1.726853 CCGTGGAAACTGACAGATCC 58.273 55.000 19.04 19.04 0.00 3.36
1457 3427 1.079503 GCCGTGGAAACTGACAGATC 58.920 55.000 10.08 6.95 0.00 2.75
1458 3428 0.321653 GGCCGTGGAAACTGACAGAT 60.322 55.000 10.08 0.00 0.00 2.90
1461 3431 1.525077 GTGGCCGTGGAAACTGACA 60.525 57.895 0.00 0.00 0.00 3.58
1465 3435 2.113139 CTGGTGGCCGTGGAAACT 59.887 61.111 0.00 0.00 0.00 2.66
1466 3436 2.203294 ACTGGTGGCCGTGGAAAC 60.203 61.111 0.00 0.00 0.00 2.78
1467 3437 1.122632 TAGACTGGTGGCCGTGGAAA 61.123 55.000 0.00 0.00 0.00 3.13
1470 3440 1.144057 GATAGACTGGTGGCCGTGG 59.856 63.158 0.00 0.00 0.00 4.94
1471 3441 1.144057 GGATAGACTGGTGGCCGTG 59.856 63.158 0.00 0.00 0.00 4.94
1472 3442 0.691078 ATGGATAGACTGGTGGCCGT 60.691 55.000 0.00 0.00 0.00 5.68
1473 3443 0.034059 GATGGATAGACTGGTGGCCG 59.966 60.000 0.00 0.00 0.00 6.13
1474 3444 1.428869 AGATGGATAGACTGGTGGCC 58.571 55.000 0.00 0.00 0.00 5.36
1475 3445 3.235200 ACTAGATGGATAGACTGGTGGC 58.765 50.000 0.00 0.00 0.00 5.01
1476 3446 6.978674 TTTACTAGATGGATAGACTGGTGG 57.021 41.667 0.00 0.00 0.00 4.61
1477 3447 8.642432 TGATTTTACTAGATGGATAGACTGGTG 58.358 37.037 0.00 0.00 0.00 4.17
1478 3448 8.783660 TGATTTTACTAGATGGATAGACTGGT 57.216 34.615 0.00 0.00 0.00 4.00
1501 3519 5.347635 CCGAACGATTCTAGTTTGATGTTGA 59.652 40.000 0.00 0.00 35.54 3.18
1511 3529 5.475719 TGTTTTCATCCGAACGATTCTAGT 58.524 37.500 0.00 0.00 0.00 2.57
1529 3724 5.091261 ACGCTAATCAGAGAGGATGTTTT 57.909 39.130 0.00 0.00 0.00 2.43
1537 3732 4.582701 AGATCCAACGCTAATCAGAGAG 57.417 45.455 0.00 0.00 0.00 3.20
1574 3769 3.653664 ATCCGATTTGGGGGCGCAA 62.654 57.895 10.83 0.00 38.76 4.85
1575 3770 4.122149 ATCCGATTTGGGGGCGCA 62.122 61.111 10.83 0.00 38.76 6.09
1576 3771 3.287520 GATCCGATTTGGGGGCGC 61.288 66.667 0.00 0.00 38.76 6.53
1577 3772 2.594592 GGATCCGATTTGGGGGCG 60.595 66.667 0.00 0.00 38.76 6.13
1578 3773 0.397114 AAAGGATCCGATTTGGGGGC 60.397 55.000 5.98 0.00 38.76 5.80
1580 3775 3.898482 AGTAAAAGGATCCGATTTGGGG 58.102 45.455 21.80 0.00 38.76 4.96
1581 3776 6.120220 ACTAAGTAAAAGGATCCGATTTGGG 58.880 40.000 21.80 12.50 38.76 4.12
1582 3777 7.625828 AACTAAGTAAAAGGATCCGATTTGG 57.374 36.000 21.80 10.63 40.09 3.28
1583 3778 8.726988 TGAAACTAAGTAAAAGGATCCGATTTG 58.273 33.333 21.80 11.47 0.00 2.32
1584 3779 8.857694 TGAAACTAAGTAAAAGGATCCGATTT 57.142 30.769 18.62 18.62 0.00 2.17
1585 3780 8.319146 TCTGAAACTAAGTAAAAGGATCCGATT 58.681 33.333 5.98 8.17 0.00 3.34
1586 3781 7.764901 GTCTGAAACTAAGTAAAAGGATCCGAT 59.235 37.037 5.98 0.00 0.00 4.18
1587 3782 7.095270 GTCTGAAACTAAGTAAAAGGATCCGA 58.905 38.462 5.98 0.00 0.00 4.55
1588 3783 6.313164 GGTCTGAAACTAAGTAAAAGGATCCG 59.687 42.308 5.98 0.00 0.00 4.18
1589 3784 7.166167 TGGTCTGAAACTAAGTAAAAGGATCC 58.834 38.462 2.48 2.48 0.00 3.36
1590 3785 8.794335 ATGGTCTGAAACTAAGTAAAAGGATC 57.206 34.615 0.00 0.00 0.00 3.36
1591 3786 7.829706 GGATGGTCTGAAACTAAGTAAAAGGAT 59.170 37.037 0.00 0.00 0.00 3.24
1592 3787 7.166167 GGATGGTCTGAAACTAAGTAAAAGGA 58.834 38.462 0.00 0.00 0.00 3.36
1593 3788 6.374613 GGGATGGTCTGAAACTAAGTAAAAGG 59.625 42.308 0.00 0.00 0.00 3.11
1594 3789 7.119846 CAGGGATGGTCTGAAACTAAGTAAAAG 59.880 40.741 0.00 0.00 34.36 2.27
1595 3790 6.940298 CAGGGATGGTCTGAAACTAAGTAAAA 59.060 38.462 0.00 0.00 34.36 1.52
1596 3791 6.271391 TCAGGGATGGTCTGAAACTAAGTAAA 59.729 38.462 0.00 0.00 38.20 2.01
1597 3792 5.783360 TCAGGGATGGTCTGAAACTAAGTAA 59.217 40.000 0.00 0.00 38.20 2.24
1598 3793 5.338632 TCAGGGATGGTCTGAAACTAAGTA 58.661 41.667 0.00 0.00 38.20 2.24
1617 3812 6.094464 TCAGAAACAATATGCACAGATTCAGG 59.906 38.462 0.00 0.00 0.00 3.86
1618 3813 7.065443 TCTCAGAAACAATATGCACAGATTCAG 59.935 37.037 0.00 0.00 0.00 3.02
1650 3845 2.833794 TGGAGTGTCAGTTGCAGTAAC 58.166 47.619 0.00 0.00 39.65 2.50
1679 3888 4.922692 CCATCGCTAATCAGAGAAGATGTC 59.077 45.833 0.00 0.00 34.04 3.06
1725 3934 1.194218 AAGGATTCAATTTGGGGGCG 58.806 50.000 0.00 0.00 0.00 6.13
1746 3955 5.062683 CACGATGATGGTCTGAAACTAAGTG 59.937 44.000 0.00 0.00 0.00 3.16
1770 3979 7.023197 ACAGATTGTTGTTGGTTGTACTAAC 57.977 36.000 0.00 0.00 39.62 2.34
1798 4007 8.589629 GCAGTAAATTGCATCACAGAAATAAAG 58.410 33.333 0.00 0.00 43.53 1.85
1857 4066 1.913403 CGGCGTGAATTTTGCATCTTC 59.087 47.619 0.00 0.00 0.00 2.87
1858 4067 1.539388 TCGGCGTGAATTTTGCATCTT 59.461 42.857 6.85 0.00 0.00 2.40
1859 4068 1.164411 TCGGCGTGAATTTTGCATCT 58.836 45.000 6.85 0.00 0.00 2.90
1874 4083 8.082242 AGTAAAAATATGCTGGAAATTATCGGC 58.918 33.333 5.18 5.18 0.00 5.54
1876 4085 8.905702 GCAGTAAAAATATGCTGGAAATTATCG 58.094 33.333 0.00 0.00 37.00 2.92
2230 4444 2.016704 AAGTCTTGTCGTCGCGCAG 61.017 57.895 8.75 0.00 0.00 5.18
2292 4506 1.639298 GCATCGCACTGTCCTCAACC 61.639 60.000 0.00 0.00 0.00 3.77
2426 4643 8.518151 TGACAATAAATTTGCACATGTAACTG 57.482 30.769 0.00 0.00 0.00 3.16
2489 4706 6.785488 TCAACTAGTACATTTGCTTGACTG 57.215 37.500 0.00 0.00 0.00 3.51
2592 4832 2.294233 TCTGAGCCACACTTGATTTTGC 59.706 45.455 0.00 0.00 0.00 3.68
2702 4942 2.849294 ACCTCCTCTTGAAAGACTGC 57.151 50.000 0.00 0.00 0.00 4.40
2717 4957 5.180304 GGTTGAAGATCTTTGTGAGAACCTC 59.820 44.000 9.87 0.00 38.06 3.85
2729 4969 2.039480 TGCAGAGCAGGTTGAAGATCTT 59.961 45.455 7.95 7.95 33.32 2.40
2745 4985 1.453562 TTGTGCTGGCAGTTGCAGA 60.454 52.632 17.16 4.53 44.36 4.26
2981 5221 2.636893 AGTAGCAGATATTGGCCTCTGG 59.363 50.000 18.51 4.07 39.42 3.86
3203 5447 3.555518 GAGCAAAAATGAGTTGACCGAC 58.444 45.455 0.00 0.00 0.00 4.79
3205 5449 2.554032 AGGAGCAAAAATGAGTTGACCG 59.446 45.455 0.00 0.00 32.79 4.79
3303 5547 4.555709 ACGTGGTCCGCAAAGCCA 62.556 61.111 2.76 0.00 41.42 4.75
3318 5564 2.734673 GAGCTTCTGCCGCTGAACG 61.735 63.158 8.49 6.79 37.96 3.95
3497 5745 0.679002 ATCGCAGGCAACAAGCTGAT 60.679 50.000 0.00 0.00 44.79 2.90
3509 5757 1.871676 CATCAGGATTCACATCGCAGG 59.128 52.381 0.00 0.00 0.00 4.85
3737 5986 0.391130 GGCTCAGTGCGGTATTGACA 60.391 55.000 0.00 0.00 44.05 3.58
4005 6258 3.937706 CCAACCTCATCAGCTGTTAAGAG 59.062 47.826 14.67 15.20 0.00 2.85
4008 6261 2.879756 GCCCAACCTCATCAGCTGTTAA 60.880 50.000 14.67 0.00 0.00 2.01
4182 6439 9.734620 CTTGTTTCAAAGAGATAACAAACATCA 57.265 29.630 0.00 0.00 37.09 3.07
4183 6440 9.185192 CCTTGTTTCAAAGAGATAACAAACATC 57.815 33.333 0.00 0.00 37.09 3.06
4184 6441 8.912988 TCCTTGTTTCAAAGAGATAACAAACAT 58.087 29.630 0.00 0.00 37.09 2.71
4185 6442 8.287439 TCCTTGTTTCAAAGAGATAACAAACA 57.713 30.769 0.00 0.00 37.09 2.83
4188 6445 9.567776 TGTATCCTTGTTTCAAAGAGATAACAA 57.432 29.630 0.00 0.00 36.16 2.83
4193 6450 8.160106 ACTTCTGTATCCTTGTTTCAAAGAGAT 58.840 33.333 0.00 0.00 0.00 2.75
4197 6454 7.012327 TCACACTTCTGTATCCTTGTTTCAAAG 59.988 37.037 0.00 0.00 0.00 2.77
4215 6472 7.278868 CAGGAATCATAAAGTACCTCACACTTC 59.721 40.741 0.00 0.00 35.19 3.01
4264 6605 7.224753 TGAGTTTAGTTTGCTCTGTAACAAGAG 59.775 37.037 0.00 0.00 45.52 2.85
4290 6631 9.177608 TGCTCTTGATTTACAATGCTTAGTATT 57.822 29.630 0.00 0.00 38.07 1.89
4301 9772 5.782047 CCATTTGGTGCTCTTGATTTACAA 58.218 37.500 0.00 0.00 36.97 2.41
4436 9957 5.411361 CGAGTGAGAAACATTAAATGGTGGA 59.589 40.000 0.00 0.00 33.60 4.02
4558 11921 0.598065 AGACTTGCGTGAATTTGGCC 59.402 50.000 0.00 0.00 0.00 5.36
4612 11975 6.703607 CCTGTAAGTCGATTAATGAAGATGCT 59.296 38.462 0.00 0.00 0.00 3.79
4633 11996 3.118531 AGATCTTACCATGGAAGCCTGT 58.881 45.455 21.47 0.00 0.00 4.00
4687 12050 2.455674 TTCACATGTCGGAGAACAGG 57.544 50.000 0.00 0.00 39.69 4.00
4708 12071 2.490903 GGATGCACCATCATCAATAGCC 59.509 50.000 7.43 0.00 43.44 3.93


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

AutoCloner maintained by Alex Coulton.