Multiple sequence alignment - TraesCS3B01G386700

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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 TraesCS3B01G386700 chr3B 100.000 2792 0 0 1 2792 607386310 607383519 0.000000e+00 5156.0
1 TraesCS3B01G386700 chr3B 76.693 768 111 36 2007 2718 750206883 750207638 5.680000e-97 364.0
2 TraesCS3B01G386700 chr3B 72.479 476 116 12 158 626 592659430 592659897 3.750000e-29 139.0
3 TraesCS3B01G386700 chr3A 95.524 2145 68 9 676 2792 601555272 601557416 0.000000e+00 3404.0
4 TraesCS3B01G386700 chr3A 76.181 508 78 24 2312 2788 697748306 697748801 7.780000e-56 228.0
5 TraesCS3B01G386700 chr3A 81.119 286 32 14 2007 2275 697747895 697748175 2.820000e-50 209.0
6 TraesCS3B01G386700 chr3A 95.556 90 4 0 1 90 601552942 601553031 8.060000e-31 145.0
7 TraesCS3B01G386700 chr3A 97.436 78 2 0 79 156 601555208 601555285 1.740000e-27 134.0
8 TraesCS3B01G386700 chr3D 98.058 1493 27 1 657 2147 459468943 459467451 0.000000e+00 2595.0
9 TraesCS3B01G386700 chr3D 92.296 675 25 13 2144 2792 459467380 459466707 0.000000e+00 933.0
10 TraesCS3B01G386700 chr3D 97.431 545 13 1 1 544 459469488 459468944 0.000000e+00 928.0
11 TraesCS3B01G386700 chr3D 91.111 90 5 1 1 90 459471241 459471155 4.890000e-23 119.0
12 TraesCS3B01G386700 chr3D 100.000 34 0 0 1730 1763 459468068 459468035 2.320000e-06 63.9
13 TraesCS3B01G386700 chr6A 87.220 759 82 6 774 1524 22804505 22803754 0.000000e+00 850.0
14 TraesCS3B01G386700 chr6A 80.288 416 41 17 1650 2036 22695635 22695232 2.740000e-70 276.0
15 TraesCS3B01G386700 chr6A 77.593 482 47 28 1822 2274 22803393 22802944 4.650000e-58 235.0
16 TraesCS3B01G386700 chr6A 79.387 359 48 17 1940 2287 22695230 22694887 2.160000e-56 230.0
17 TraesCS3B01G386700 chr6A 81.081 148 19 2 1648 1795 22803636 22803498 2.940000e-20 110.0
18 TraesCS3B01G386700 chr6A 92.105 38 3 0 2225 2262 204739458 204739495 1.000000e-03 54.7
19 TraesCS3B01G386700 chr6B 87.088 759 86 7 774 1524 39339921 39339167 0.000000e+00 848.0
20 TraesCS3B01G386700 chr6B 88.205 585 66 3 830 1412 39199035 39198452 0.000000e+00 695.0
21 TraesCS3B01G386700 chr6B 79.612 412 44 21 1650 2034 39198248 39197850 2.760000e-65 259.0
22 TraesCS3B01G386700 chr6B 84.653 202 26 2 1940 2136 39197845 39197644 2.190000e-46 196.0
23 TraesCS3B01G386700 chr6B 81.333 150 15 5 1648 1795 39339049 39338911 2.940000e-20 110.0
24 TraesCS3B01G386700 chr6B 92.105 38 3 0 2225 2262 255672784 255672747 1.000000e-03 54.7
25 TraesCS3B01G386700 chr2A 85.030 835 112 8 693 1524 425813522 425812698 0.000000e+00 837.0
26 TraesCS3B01G386700 chr2A 88.679 53 3 2 149 199 572349064 572349115 8.350000e-06 62.1
27 TraesCS3B01G386700 chr6D 86.859 761 82 11 774 1524 24262751 24261999 0.000000e+00 835.0
28 TraesCS3B01G386700 chr6D 89.402 585 60 2 825 1408 24231379 24230796 0.000000e+00 736.0
29 TraesCS3B01G386700 chr6D 77.370 654 78 41 1434 2036 24230797 24230163 9.650000e-85 324.0
30 TraesCS3B01G386700 chr6D 86.139 202 23 2 1940 2136 24230161 24229960 2.180000e-51 213.0
31 TraesCS3B01G386700 chr6D 81.757 148 18 2 1648 1795 24261881 24261743 6.320000e-22 115.0
32 TraesCS3B01G386700 chr6D 88.462 78 7 2 2331 2407 24229809 24229733 2.960000e-15 93.5
33 TraesCS3B01G386700 chr6D 92.105 38 3 0 2225 2262 143647160 143647123 1.000000e-03 54.7
34 TraesCS3B01G386700 chr5A 84.809 836 112 9 693 1524 465110909 465111733 0.000000e+00 826.0
35 TraesCS3B01G386700 chr1D 78.062 743 129 20 2010 2721 3434619 3435358 3.300000e-119 438.0
36 TraesCS3B01G386700 chr5B 82.000 450 76 5 208 655 184771432 184770986 7.300000e-101 377.0
37 TraesCS3B01G386700 chr7B 72.985 459 111 11 174 626 13874947 13874496 6.230000e-32 148.0
38 TraesCS3B01G386700 chr7B 100.000 28 0 0 1845 1872 47335417 47335390 5.000000e-03 52.8
39 TraesCS3B01G386700 chr7B 100.000 28 0 0 1845 1872 47595216 47595189 5.000000e-03 52.8
40 TraesCS3B01G386700 chr5D 83.217 143 20 3 517 655 502180393 502180251 8.120000e-26 128.0
41 TraesCS3B01G386700 chr4D 89.362 47 3 2 1991 2036 381837069 381837114 1.080000e-04 58.4


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 TraesCS3B01G386700 chr3B 607383519 607386310 2791 True 5156.000000 5156 100.000000 1 2792 1 chr3B.!!$R1 2791
1 TraesCS3B01G386700 chr3B 750206883 750207638 755 False 364.000000 364 76.693000 2007 2718 1 chr3B.!!$F2 711
2 TraesCS3B01G386700 chr3A 601552942 601557416 4474 False 1227.666667 3404 96.172000 1 2792 3 chr3A.!!$F1 2791
3 TraesCS3B01G386700 chr3A 697747895 697748801 906 False 218.500000 228 78.650000 2007 2788 2 chr3A.!!$F2 781
4 TraesCS3B01G386700 chr3D 459466707 459471241 4534 True 927.780000 2595 95.779200 1 2792 5 chr3D.!!$R1 2791
5 TraesCS3B01G386700 chr6A 22802944 22804505 1561 True 398.333333 850 81.964667 774 2274 3 chr6A.!!$R2 1500
6 TraesCS3B01G386700 chr6A 22694887 22695635 748 True 253.000000 276 79.837500 1650 2287 2 chr6A.!!$R1 637
7 TraesCS3B01G386700 chr6B 39338911 39339921 1010 True 479.000000 848 84.210500 774 1795 2 chr6B.!!$R3 1021
8 TraesCS3B01G386700 chr6B 39197644 39199035 1391 True 383.333333 695 84.156667 830 2136 3 chr6B.!!$R2 1306
9 TraesCS3B01G386700 chr2A 425812698 425813522 824 True 837.000000 837 85.030000 693 1524 1 chr2A.!!$R1 831
10 TraesCS3B01G386700 chr6D 24261743 24262751 1008 True 475.000000 835 84.308000 774 1795 2 chr6D.!!$R3 1021
11 TraesCS3B01G386700 chr6D 24229733 24231379 1646 True 341.625000 736 85.343250 825 2407 4 chr6D.!!$R2 1582
12 TraesCS3B01G386700 chr5A 465110909 465111733 824 False 826.000000 826 84.809000 693 1524 1 chr5A.!!$F1 831
13 TraesCS3B01G386700 chr1D 3434619 3435358 739 False 438.000000 438 78.062000 2010 2721 1 chr1D.!!$F1 711

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
561 3368 0.240145 GCTTAGGGTCGTTTTGCCAC 59.76 55.0 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2275 5519 0.944386 TGCTTCCTTTTCTGACACGC 59.056 50.0 0.0 0.0 0.0 5.34 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
97 2903 4.034975 GCCTAGCTAAACTCTTGCTCATTG 59.965 45.833 0.00 0.00 38.15 2.82
131 2937 6.071952 GCTATCTCTTTAGGATCACTCTGGAG 60.072 46.154 0.00 0.00 0.00 3.86
219 3025 4.351054 CCCCGCTGCCTCCTTTGT 62.351 66.667 0.00 0.00 0.00 2.83
246 3052 3.606662 CCCGAGACGATCCGGCAT 61.607 66.667 0.00 0.00 44.07 4.40
339 3145 1.488705 TTCCAGGACACGAGGCCAAT 61.489 55.000 7.72 0.00 0.00 3.16
409 3215 0.609957 CAAGGCCCTGCAATCTGTCA 60.610 55.000 0.00 0.00 0.00 3.58
419 3225 1.741732 GCAATCTGTCACGCTCCTCAT 60.742 52.381 0.00 0.00 0.00 2.90
420 3226 1.931841 CAATCTGTCACGCTCCTCATG 59.068 52.381 0.00 0.00 0.00 3.07
546 3353 3.407967 CCGGGGCTCAAGGGCTTA 61.408 66.667 0.00 0.00 40.65 3.09
547 3354 2.190578 CGGGGCTCAAGGGCTTAG 59.809 66.667 0.00 0.00 40.65 2.18
548 3355 2.597903 GGGGCTCAAGGGCTTAGG 59.402 66.667 0.00 0.00 40.65 2.69
549 3356 2.597903 GGGCTCAAGGGCTTAGGG 59.402 66.667 0.00 0.00 40.65 3.53
550 3357 2.309504 GGGCTCAAGGGCTTAGGGT 61.310 63.158 0.00 0.00 40.65 4.34
551 3358 1.224870 GGCTCAAGGGCTTAGGGTC 59.775 63.158 0.00 0.00 37.53 4.46
552 3359 1.153349 GCTCAAGGGCTTAGGGTCG 60.153 63.158 0.00 0.00 0.00 4.79
553 3360 1.900545 GCTCAAGGGCTTAGGGTCGT 61.901 60.000 0.00 0.00 0.00 4.34
554 3361 0.613777 CTCAAGGGCTTAGGGTCGTT 59.386 55.000 0.00 0.00 0.00 3.85
555 3362 1.003233 CTCAAGGGCTTAGGGTCGTTT 59.997 52.381 0.00 0.00 0.00 3.60
556 3363 1.422402 TCAAGGGCTTAGGGTCGTTTT 59.578 47.619 0.00 0.00 0.00 2.43
557 3364 1.539827 CAAGGGCTTAGGGTCGTTTTG 59.460 52.381 0.00 0.00 0.00 2.44
558 3365 0.608308 AGGGCTTAGGGTCGTTTTGC 60.608 55.000 0.00 0.00 0.00 3.68
559 3366 1.592400 GGGCTTAGGGTCGTTTTGCC 61.592 60.000 0.00 0.00 38.28 4.52
560 3367 0.891904 GGCTTAGGGTCGTTTTGCCA 60.892 55.000 0.00 0.00 38.79 4.92
561 3368 0.240145 GCTTAGGGTCGTTTTGCCAC 59.760 55.000 0.00 0.00 0.00 5.01
562 3369 1.600023 CTTAGGGTCGTTTTGCCACA 58.400 50.000 0.00 0.00 0.00 4.17
563 3370 1.950909 CTTAGGGTCGTTTTGCCACAA 59.049 47.619 0.00 0.00 0.00 3.33
564 3371 2.279935 TAGGGTCGTTTTGCCACAAT 57.720 45.000 0.00 0.00 0.00 2.71
565 3372 0.958822 AGGGTCGTTTTGCCACAATC 59.041 50.000 0.00 0.00 0.00 2.67
566 3373 0.671251 GGGTCGTTTTGCCACAATCA 59.329 50.000 0.00 0.00 0.00 2.57
567 3374 1.272212 GGGTCGTTTTGCCACAATCAT 59.728 47.619 0.00 0.00 0.00 2.45
568 3375 2.327568 GGTCGTTTTGCCACAATCATG 58.672 47.619 0.00 0.00 0.00 3.07
569 3376 2.327568 GTCGTTTTGCCACAATCATGG 58.672 47.619 0.00 0.00 43.26 3.66
570 3377 1.271934 TCGTTTTGCCACAATCATGGG 59.728 47.619 0.00 0.00 40.43 4.00
571 3378 1.271934 CGTTTTGCCACAATCATGGGA 59.728 47.619 0.00 0.00 40.43 4.37
572 3379 2.094078 CGTTTTGCCACAATCATGGGAT 60.094 45.455 0.00 0.00 40.18 3.85
573 3380 3.264104 GTTTTGCCACAATCATGGGATG 58.736 45.455 0.00 0.00 40.18 3.51
574 3381 2.234896 TTGCCACAATCATGGGATGT 57.765 45.000 0.00 0.00 40.18 3.06
575 3382 1.766494 TGCCACAATCATGGGATGTC 58.234 50.000 0.00 0.00 40.43 3.06
576 3383 1.035139 GCCACAATCATGGGATGTCC 58.965 55.000 0.00 0.00 40.43 4.02
588 3395 3.657610 TGGGATGTCCACTGATCATAGT 58.342 45.455 0.00 0.00 41.46 2.12
589 3396 3.389002 TGGGATGTCCACTGATCATAGTG 59.611 47.826 7.88 7.88 45.93 2.74
590 3397 3.389329 GGGATGTCCACTGATCATAGTGT 59.611 47.826 12.58 0.00 45.12 3.55
591 3398 4.141620 GGGATGTCCACTGATCATAGTGTT 60.142 45.833 12.58 0.00 45.12 3.32
592 3399 5.070446 GGGATGTCCACTGATCATAGTGTTA 59.930 44.000 12.58 0.46 45.12 2.41
593 3400 6.219473 GGATGTCCACTGATCATAGTGTTAG 58.781 44.000 12.58 0.60 45.12 2.34
594 3401 5.011090 TGTCCACTGATCATAGTGTTAGC 57.989 43.478 12.58 2.95 45.12 3.09
595 3402 4.141937 TGTCCACTGATCATAGTGTTAGCC 60.142 45.833 12.58 0.00 45.12 3.93
596 3403 4.030216 TCCACTGATCATAGTGTTAGCCA 58.970 43.478 12.58 0.00 45.12 4.75
597 3404 4.655649 TCCACTGATCATAGTGTTAGCCAT 59.344 41.667 12.58 0.00 45.12 4.40
598 3405 4.753610 CCACTGATCATAGTGTTAGCCATG 59.246 45.833 12.58 0.00 45.12 3.66
599 3406 5.363101 CACTGATCATAGTGTTAGCCATGT 58.637 41.667 6.88 0.00 42.38 3.21
600 3407 6.462909 CCACTGATCATAGTGTTAGCCATGTA 60.463 42.308 12.58 0.00 45.12 2.29
601 3408 6.986231 CACTGATCATAGTGTTAGCCATGTAA 59.014 38.462 6.88 0.00 42.38 2.41
602 3409 7.658982 CACTGATCATAGTGTTAGCCATGTAAT 59.341 37.037 6.88 0.00 42.38 1.89
603 3410 8.213679 ACTGATCATAGTGTTAGCCATGTAATT 58.786 33.333 0.00 0.00 0.00 1.40
604 3411 8.607441 TGATCATAGTGTTAGCCATGTAATTC 57.393 34.615 0.00 0.00 0.00 2.17
605 3412 8.432013 TGATCATAGTGTTAGCCATGTAATTCT 58.568 33.333 0.00 0.00 0.00 2.40
606 3413 9.277783 GATCATAGTGTTAGCCATGTAATTCTT 57.722 33.333 0.00 0.00 0.00 2.52
608 3415 9.542462 TCATAGTGTTAGCCATGTAATTCTTAC 57.458 33.333 0.00 0.00 36.67 2.34
609 3416 8.774586 CATAGTGTTAGCCATGTAATTCTTACC 58.225 37.037 0.00 0.00 35.25 2.85
610 3417 6.958767 AGTGTTAGCCATGTAATTCTTACCT 58.041 36.000 0.00 0.00 35.25 3.08
611 3418 7.048512 AGTGTTAGCCATGTAATTCTTACCTC 58.951 38.462 0.00 0.00 35.25 3.85
612 3419 6.260271 GTGTTAGCCATGTAATTCTTACCTCC 59.740 42.308 0.00 0.00 35.25 4.30
613 3420 6.157994 TGTTAGCCATGTAATTCTTACCTCCT 59.842 38.462 0.00 0.00 35.25 3.69
614 3421 7.346175 TGTTAGCCATGTAATTCTTACCTCCTA 59.654 37.037 0.00 0.00 35.25 2.94
615 3422 6.426646 AGCCATGTAATTCTTACCTCCTAG 57.573 41.667 0.00 0.00 35.25 3.02
616 3423 5.308237 AGCCATGTAATTCTTACCTCCTAGG 59.692 44.000 0.82 0.82 42.49 3.02
617 3424 5.307196 GCCATGTAATTCTTACCTCCTAGGA 59.693 44.000 11.98 11.98 37.67 2.94
618 3425 6.519213 GCCATGTAATTCTTACCTCCTAGGAG 60.519 46.154 29.27 29.27 37.67 3.69
630 3437 3.917300 CTCCTAGGAGGATTGTACCTGT 58.083 50.000 28.68 0.00 44.81 4.00
631 3438 5.063017 CTCCTAGGAGGATTGTACCTGTA 57.937 47.826 28.68 0.00 44.81 2.74
632 3439 4.801164 TCCTAGGAGGATTGTACCTGTAC 58.199 47.826 7.62 0.45 40.06 2.90
633 3440 4.481280 TCCTAGGAGGATTGTACCTGTACT 59.519 45.833 7.62 0.00 40.06 2.73
634 3441 4.828387 CCTAGGAGGATTGTACCTGTACTC 59.172 50.000 1.05 0.00 40.73 2.59
635 3442 3.644335 AGGAGGATTGTACCTGTACTCC 58.356 50.000 10.92 10.92 40.73 3.85
636 3443 2.699321 GGAGGATTGTACCTGTACTCCC 59.301 54.545 8.75 7.00 40.73 4.30
637 3444 3.630311 GGAGGATTGTACCTGTACTCCCT 60.630 52.174 8.75 10.83 40.73 4.20
638 3445 4.387211 GGAGGATTGTACCTGTACTCCCTA 60.387 50.000 8.75 0.00 40.73 3.53
639 3446 5.395611 GAGGATTGTACCTGTACTCCCTAT 58.604 45.833 8.75 0.00 40.73 2.57
640 3447 5.789535 AGGATTGTACCTGTACTCCCTATT 58.210 41.667 8.75 0.00 39.01 1.73
641 3448 6.210522 AGGATTGTACCTGTACTCCCTATTT 58.789 40.000 8.75 0.00 39.01 1.40
642 3449 6.677076 AGGATTGTACCTGTACTCCCTATTTT 59.323 38.462 8.75 0.00 39.01 1.82
643 3450 7.184022 AGGATTGTACCTGTACTCCCTATTTTT 59.816 37.037 8.75 0.00 39.01 1.94
644 3451 7.282450 GGATTGTACCTGTACTCCCTATTTTTG 59.718 40.741 8.75 0.00 37.00 2.44
645 3452 5.493809 TGTACCTGTACTCCCTATTTTTGC 58.506 41.667 8.75 0.00 37.00 3.68
646 3453 4.650972 ACCTGTACTCCCTATTTTTGCA 57.349 40.909 0.00 0.00 0.00 4.08
647 3454 4.993028 ACCTGTACTCCCTATTTTTGCAA 58.007 39.130 0.00 0.00 0.00 4.08
648 3455 5.580022 ACCTGTACTCCCTATTTTTGCAAT 58.420 37.500 0.00 0.00 0.00 3.56
649 3456 5.418840 ACCTGTACTCCCTATTTTTGCAATG 59.581 40.000 0.00 0.00 0.00 2.82
650 3457 5.323371 TGTACTCCCTATTTTTGCAATGC 57.677 39.130 0.00 0.00 0.00 3.56
651 3458 4.769488 TGTACTCCCTATTTTTGCAATGCA 59.231 37.500 2.72 2.72 36.47 3.96
1049 3868 3.072211 CAGACACTGCATCTGTTGTCAT 58.928 45.455 7.51 0.00 39.04 3.06
1444 4289 4.746535 TCATCGCAAGGAACTAATGGTA 57.253 40.909 0.00 0.00 38.49 3.25
1527 4375 4.697756 TTGCTTCAGGCGTCCCCG 62.698 66.667 0.00 0.00 45.43 5.73
1556 4404 1.622811 AGAGACTGTCAGGGCAGAAAG 59.377 52.381 8.06 0.00 39.62 2.62
1660 4556 9.416794 GAACTATATCAGTATCAGGTGACATTG 57.583 37.037 0.00 0.00 36.04 2.82
1995 5095 3.358111 TGAAATTCTTCGGGTATGGCA 57.642 42.857 0.00 0.00 33.94 4.92
2115 5227 7.942341 TCCACAATAGAAAACACCTGTAGATTT 59.058 33.333 0.00 0.00 0.00 2.17
2275 5519 3.868757 TGTGTCCGAATCTACAAGAGG 57.131 47.619 0.00 0.00 0.00 3.69
2299 5635 4.023707 CGTGTCAGAAAAGGAAGCAAAGAT 60.024 41.667 0.00 0.00 0.00 2.40
2353 5699 1.568504 ATACCTTGCTTCCGGAGACA 58.431 50.000 3.34 4.01 0.00 3.41
2458 5804 2.609459 GGTGAGGTAATTGTGCATCTCG 59.391 50.000 0.00 0.00 0.00 4.04
2484 5837 8.915057 ATGACATTCTGCATATTACTTTAGCT 57.085 30.769 0.00 0.00 0.00 3.32
2490 5846 8.425577 TTCTGCATATTACTTTAGCTCAGTTC 57.574 34.615 3.89 0.00 0.00 3.01
2522 5894 6.595326 TGCGACTAGACAAAGATGAAATTGAT 59.405 34.615 0.00 0.00 0.00 2.57
2737 6112 6.582636 TCAGTTATGTTACCTCCATTAGCTG 58.417 40.000 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
131 2937 9.236006 AGGTTCCAGACAATATGATAATTATGC 57.764 33.333 1.78 0.00 0.00 3.14
219 3025 3.311110 GTCTCGGGTGCCTGGTCA 61.311 66.667 0.00 0.00 0.00 4.02
246 3052 2.646175 GGGGCACACGAGCAGTAGA 61.646 63.158 0.00 0.00 35.83 2.59
257 3063 4.966787 GACGGGCAAAGGGGCACA 62.967 66.667 0.00 0.00 45.66 4.57
339 3145 0.253044 GCAGCCACCAGTCCATAAGA 59.747 55.000 0.00 0.00 0.00 2.10
409 3215 3.790437 CCAGGGCATGAGGAGCGT 61.790 66.667 0.00 0.00 0.00 5.07
419 3225 2.353357 CTTTCATAGCATCCAGGGCA 57.647 50.000 0.00 0.00 0.00 5.36
544 3351 2.054232 TTGTGGCAAAACGACCCTAA 57.946 45.000 0.00 0.00 0.00 2.69
545 3352 2.156098 GATTGTGGCAAAACGACCCTA 58.844 47.619 0.00 0.00 0.00 3.53
546 3353 0.958822 GATTGTGGCAAAACGACCCT 59.041 50.000 0.00 0.00 0.00 4.34
547 3354 0.671251 TGATTGTGGCAAAACGACCC 59.329 50.000 0.00 0.00 0.00 4.46
548 3355 2.327568 CATGATTGTGGCAAAACGACC 58.672 47.619 0.00 0.00 0.00 4.79
549 3356 2.327568 CCATGATTGTGGCAAAACGAC 58.672 47.619 0.00 0.00 31.43 4.34
550 3357 1.271934 CCCATGATTGTGGCAAAACGA 59.728 47.619 0.00 0.00 37.96 3.85
551 3358 1.271934 TCCCATGATTGTGGCAAAACG 59.728 47.619 0.00 0.00 37.96 3.60
552 3359 3.264104 CATCCCATGATTGTGGCAAAAC 58.736 45.455 0.00 0.00 37.96 2.43
553 3360 2.905085 ACATCCCATGATTGTGGCAAAA 59.095 40.909 0.00 0.00 37.96 2.44
554 3361 2.496871 GACATCCCATGATTGTGGCAAA 59.503 45.455 0.00 0.00 37.96 3.68
555 3362 2.101783 GACATCCCATGATTGTGGCAA 58.898 47.619 0.00 0.00 37.96 4.52
556 3363 1.685803 GGACATCCCATGATTGTGGCA 60.686 52.381 0.00 0.00 37.96 4.92
557 3364 1.035139 GGACATCCCATGATTGTGGC 58.965 55.000 0.00 0.00 37.96 5.01
558 3365 2.440517 TGGACATCCCATGATTGTGG 57.559 50.000 0.00 0.00 40.82 4.17
567 3374 3.389002 CACTATGATCAGTGGACATCCCA 59.611 47.826 0.09 0.00 41.88 4.37
568 3375 4.000331 CACTATGATCAGTGGACATCCC 58.000 50.000 0.09 0.00 41.88 3.85
577 3384 5.620738 ACATGGCTAACACTATGATCAGT 57.379 39.130 0.09 0.00 0.00 3.41
578 3385 8.613060 AATTACATGGCTAACACTATGATCAG 57.387 34.615 0.09 0.00 0.00 2.90
579 3386 8.432013 AGAATTACATGGCTAACACTATGATCA 58.568 33.333 0.00 0.00 0.00 2.92
580 3387 8.839310 AGAATTACATGGCTAACACTATGATC 57.161 34.615 0.00 0.00 0.00 2.92
593 3400 9.366213 CCTCCTAGGAGGTAAGAATTACATGGC 62.366 48.148 39.96 0.00 46.61 4.40
594 3401 6.014156 CCTCCTAGGAGGTAAGAATTACATGG 60.014 46.154 39.96 17.01 46.61 3.66
595 3402 6.998802 CCTCCTAGGAGGTAAGAATTACATG 58.001 44.000 39.96 16.48 46.61 3.21
606 3413 9.283912 GTACAGGTACAATCCTCCTAGGAGGTA 62.284 48.148 43.56 33.39 46.05 3.08
607 3414 8.570403 GTACAGGTACAATCCTCCTAGGAGGT 62.570 50.000 43.56 32.09 46.05 3.85
608 3415 6.215305 GTACAGGTACAATCCTCCTAGGAGG 61.215 52.000 41.88 41.88 46.56 4.30
609 3416 4.828387 GTACAGGTACAATCCTCCTAGGAG 59.172 50.000 29.27 29.27 40.67 3.69
610 3417 4.481280 AGTACAGGTACAATCCTCCTAGGA 59.519 45.833 11.98 11.98 42.59 2.94
611 3418 4.805744 AGTACAGGTACAATCCTCCTAGG 58.194 47.826 0.82 0.82 38.48 3.02
612 3419 4.828387 GGAGTACAGGTACAATCCTCCTAG 59.172 50.000 11.78 0.00 38.48 3.02
613 3420 4.387211 GGGAGTACAGGTACAATCCTCCTA 60.387 50.000 11.78 0.00 38.48 2.94
614 3421 3.630311 GGGAGTACAGGTACAATCCTCCT 60.630 52.174 11.78 0.00 38.48 3.69
615 3422 2.699321 GGGAGTACAGGTACAATCCTCC 59.301 54.545 11.78 8.78 38.48 4.30
616 3423 3.644335 AGGGAGTACAGGTACAATCCTC 58.356 50.000 11.78 5.66 38.48 3.71
617 3424 3.778622 AGGGAGTACAGGTACAATCCT 57.221 47.619 11.78 11.03 38.48 3.24
618 3425 6.496144 AAATAGGGAGTACAGGTACAATCC 57.504 41.667 11.78 10.01 38.48 3.01
619 3426 7.201705 GCAAAAATAGGGAGTACAGGTACAATC 60.202 40.741 11.78 2.04 38.48 2.67
620 3427 6.602009 GCAAAAATAGGGAGTACAGGTACAAT 59.398 38.462 11.78 0.00 38.48 2.71
621 3428 5.941647 GCAAAAATAGGGAGTACAGGTACAA 59.058 40.000 11.78 0.00 38.48 2.41
622 3429 5.013287 TGCAAAAATAGGGAGTACAGGTACA 59.987 40.000 11.78 0.00 38.48 2.90
623 3430 5.493809 TGCAAAAATAGGGAGTACAGGTAC 58.506 41.667 1.33 1.33 36.35 3.34
624 3431 5.765576 TGCAAAAATAGGGAGTACAGGTA 57.234 39.130 0.00 0.00 0.00 3.08
625 3432 4.650972 TGCAAAAATAGGGAGTACAGGT 57.349 40.909 0.00 0.00 0.00 4.00
626 3433 5.679638 GCATTGCAAAAATAGGGAGTACAGG 60.680 44.000 1.71 0.00 0.00 4.00
627 3434 5.105797 TGCATTGCAAAAATAGGGAGTACAG 60.106 40.000 9.33 0.00 34.76 2.74
628 3435 4.769488 TGCATTGCAAAAATAGGGAGTACA 59.231 37.500 9.33 0.00 34.76 2.90
629 3436 5.323371 TGCATTGCAAAAATAGGGAGTAC 57.677 39.130 9.33 0.00 34.76 2.73
630 3437 5.991933 TTGCATTGCAAAAATAGGGAGTA 57.008 34.783 21.24 0.00 45.96 2.59
631 3438 4.888326 TTGCATTGCAAAAATAGGGAGT 57.112 36.364 21.24 0.00 45.96 3.85
649 3456 8.123224 TTTTCGAGAAAACGCAAAGACATTGC 62.123 38.462 5.32 5.32 45.65 3.56
650 3457 3.872354 TCGAGAAAACGCAAAGACATTG 58.128 40.909 0.00 0.00 42.21 2.82
651 3458 4.545823 TTCGAGAAAACGCAAAGACATT 57.454 36.364 0.00 0.00 0.00 2.71
652 3459 4.545823 TTTCGAGAAAACGCAAAGACAT 57.454 36.364 0.00 0.00 0.00 3.06
653 3460 4.343811 TTTTCGAGAAAACGCAAAGACA 57.656 36.364 6.89 0.00 35.57 3.41
654 3461 5.866503 ATTTTTCGAGAAAACGCAAAGAC 57.133 34.783 10.18 0.00 39.70 3.01
655 3462 7.646130 ACAATATTTTTCGAGAAAACGCAAAGA 59.354 29.630 10.18 0.00 39.70 2.52
737 3544 6.437477 AGGTATCATGTCATGGTATGTATCGT 59.563 38.462 12.90 0.00 0.00 3.73
738 3545 6.753744 CAGGTATCATGTCATGGTATGTATCG 59.246 42.308 12.90 0.00 0.00 2.92
771 3578 4.908687 AGCACGGCACTTCGCACA 62.909 61.111 0.00 0.00 45.17 4.57
951 3769 5.944007 GGATTTAGCTAGAAACAACCTGGAA 59.056 40.000 0.00 0.00 0.00 3.53
1527 4375 2.740981 CCTGACAGTCTCTGCATTTGAC 59.259 50.000 1.31 0.00 34.37 3.18
1556 4404 1.552337 TGGAGGTCTGCATCTTCAGTC 59.448 52.381 0.00 0.00 35.63 3.51
2129 5244 9.429359 GCAGATTTATACTAGACAGTGCAATAT 57.571 33.333 0.00 0.00 36.14 1.28
2275 5519 0.944386 TGCTTCCTTTTCTGACACGC 59.056 50.000 0.00 0.00 0.00 5.34
2299 5635 6.670902 TCTGCATTCTCATCTGATCCCATATA 59.329 38.462 0.00 0.00 0.00 0.86
2353 5699 4.148128 TGCCAAAAATGGTGTTGACATT 57.852 36.364 0.00 0.00 40.07 2.71
2458 5804 8.997323 AGCTAAAGTAATATGCAGAATGTCATC 58.003 33.333 0.00 0.00 39.31 2.92
2484 5837 6.289064 TGTCTAGTCGCATCTATAGAACTGA 58.711 40.000 6.52 1.99 0.00 3.41
2490 5846 7.811653 TCATCTTTGTCTAGTCGCATCTATAG 58.188 38.462 0.00 0.00 0.00 1.31
2522 5894 6.542735 AGCGTACTTATCTCACTCTGACATTA 59.457 38.462 0.00 0.00 0.00 1.90
2526 5898 4.095185 ACAGCGTACTTATCTCACTCTGAC 59.905 45.833 0.00 0.00 31.22 3.51


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

AutoCloner maintained by Alex Coulton.