Multiple sequence alignment - TraesCS2D01G227000

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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 TraesCS2D01G227000 chr2D 100.000 3590 0 0 1 3590 195424384 195420795 0.000000e+00 6630.0
1 TraesCS2D01G227000 chr2D 82.687 1444 186 44 1102 2532 195995135 195996527 0.000000e+00 1223.0
2 TraesCS2D01G227000 chr2D 80.685 963 162 12 1129 2087 196001539 196002481 0.000000e+00 726.0
3 TraesCS2D01G227000 chr2D 85.031 481 68 4 1601 2079 196131003 196130525 1.500000e-133 486.0
4 TraesCS2D01G227000 chr2D 87.500 352 36 6 2180 2529 196002538 196002883 2.010000e-107 399.0
5 TraesCS2D01G227000 chr2D 87.077 325 34 3 2173 2496 196130321 196130004 9.480000e-96 361.0
6 TraesCS2D01G227000 chr2D 85.460 337 41 4 2183 2518 196223866 196223537 9.540000e-91 344.0
7 TraesCS2D01G227000 chr2D 100.000 29 0 0 202 230 150630758 150630730 2.000000e-03 54.7
8 TraesCS2D01G227000 chr2A 95.174 2611 79 17 260 2840 210752028 210749435 0.000000e+00 4080.0
9 TraesCS2D01G227000 chr2A 81.993 1455 195 45 1102 2532 211459936 211461347 0.000000e+00 1173.0
10 TraesCS2D01G227000 chr2A 86.364 352 40 6 2180 2529 211483528 211483873 9.410000e-101 377.0
11 TraesCS2D01G227000 chr2A 84.840 376 46 6 2173 2547 211694098 211693733 5.660000e-98 368.0
12 TraesCS2D01G227000 chr2A 89.811 265 24 2 1 265 210775245 210774984 1.600000e-88 337.0
13 TraesCS2D01G227000 chr2B 95.304 2023 43 17 759 2771 251771912 251769932 0.000000e+00 3162.0
14 TraesCS2D01G227000 chr2B 87.006 785 65 20 1 762 251772993 251772223 0.000000e+00 850.0
15 TraesCS2D01G227000 chr2B 84.148 675 102 3 2916 3587 206761273 206761945 0.000000e+00 649.0
16 TraesCS2D01G227000 chr2B 80.172 464 71 13 3130 3590 708183181 708182736 9.610000e-86 327.0
17 TraesCS2D01G227000 chr2B 82.474 97 13 4 3497 3590 84959408 84959313 8.260000e-12 82.4
18 TraesCS2D01G227000 chr5D 81.118 1467 204 43 1102 2535 565786795 565785369 0.000000e+00 1107.0
19 TraesCS2D01G227000 chr5D 88.397 655 62 6 2940 3585 414239838 414239189 0.000000e+00 776.0
20 TraesCS2D01G227000 chr5D 84.728 753 98 8 2840 3590 84827034 84826297 0.000000e+00 737.0
21 TraesCS2D01G227000 chr5D 85.260 692 89 9 2900 3587 457401580 457402262 0.000000e+00 701.0
22 TraesCS2D01G227000 chr4A 80.959 1460 201 48 1118 2535 607309180 607310604 0.000000e+00 1085.0
23 TraesCS2D01G227000 chr7A 78.667 1500 231 55 1129 2594 680629922 680628478 0.000000e+00 915.0
24 TraesCS2D01G227000 chr7A 88.455 589 55 7 2984 3570 674287387 674287964 0.000000e+00 699.0
25 TraesCS2D01G227000 chrUn 82.569 981 131 22 1118 2079 67470670 67469711 0.000000e+00 828.0
26 TraesCS2D01G227000 chrUn 83.476 351 50 4 2186 2535 67469583 67469240 1.610000e-83 320.0
27 TraesCS2D01G227000 chr5A 86.839 737 87 6 2858 3590 79208579 79207849 0.000000e+00 815.0
28 TraesCS2D01G227000 chr7D 84.676 757 99 10 2838 3587 83388384 83389130 0.000000e+00 739.0
29 TraesCS2D01G227000 chr6D 84.485 767 92 15 2833 3590 111072355 111071607 0.000000e+00 732.0
30 TraesCS2D01G227000 chr1D 86.520 638 74 9 2902 3537 376771884 376772511 0.000000e+00 691.0
31 TraesCS2D01G227000 chr5B 83.476 351 50 4 2186 2535 707359593 707359250 1.610000e-83 320.0
32 TraesCS2D01G227000 chr5B 83.193 357 52 4 2180 2535 707391272 707391621 1.610000e-83 320.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G227000 chr2D 195420795 195424384 3589 True 6630.0 6630 100.0000 1 3590 1 chr2D.!!$R2 3589
1 TraesCS2D01G227000 chr2D 195995135 195996527 1392 False 1223.0 1223 82.6870 1102 2532 1 chr2D.!!$F1 1430
2 TraesCS2D01G227000 chr2D 196001539 196002883 1344 False 562.5 726 84.0925 1129 2529 2 chr2D.!!$F2 1400
3 TraesCS2D01G227000 chr2D 196130004 196131003 999 True 423.5 486 86.0540 1601 2496 2 chr2D.!!$R4 895
4 TraesCS2D01G227000 chr2A 210749435 210752028 2593 True 4080.0 4080 95.1740 260 2840 1 chr2A.!!$R1 2580
5 TraesCS2D01G227000 chr2A 211459936 211461347 1411 False 1173.0 1173 81.9930 1102 2532 1 chr2A.!!$F1 1430
6 TraesCS2D01G227000 chr2B 251769932 251772993 3061 True 2006.0 3162 91.1550 1 2771 2 chr2B.!!$R3 2770
7 TraesCS2D01G227000 chr2B 206761273 206761945 672 False 649.0 649 84.1480 2916 3587 1 chr2B.!!$F1 671
8 TraesCS2D01G227000 chr5D 565785369 565786795 1426 True 1107.0 1107 81.1180 1102 2535 1 chr5D.!!$R3 1433
9 TraesCS2D01G227000 chr5D 414239189 414239838 649 True 776.0 776 88.3970 2940 3585 1 chr5D.!!$R2 645
10 TraesCS2D01G227000 chr5D 84826297 84827034 737 True 737.0 737 84.7280 2840 3590 1 chr5D.!!$R1 750
11 TraesCS2D01G227000 chr5D 457401580 457402262 682 False 701.0 701 85.2600 2900 3587 1 chr5D.!!$F1 687
12 TraesCS2D01G227000 chr4A 607309180 607310604 1424 False 1085.0 1085 80.9590 1118 2535 1 chr4A.!!$F1 1417
13 TraesCS2D01G227000 chr7A 680628478 680629922 1444 True 915.0 915 78.6670 1129 2594 1 chr7A.!!$R1 1465
14 TraesCS2D01G227000 chr7A 674287387 674287964 577 False 699.0 699 88.4550 2984 3570 1 chr7A.!!$F1 586
15 TraesCS2D01G227000 chrUn 67469240 67470670 1430 True 574.0 828 83.0225 1118 2535 2 chrUn.!!$R1 1417
16 TraesCS2D01G227000 chr5A 79207849 79208579 730 True 815.0 815 86.8390 2858 3590 1 chr5A.!!$R1 732
17 TraesCS2D01G227000 chr7D 83388384 83389130 746 False 739.0 739 84.6760 2838 3587 1 chr7D.!!$F1 749
18 TraesCS2D01G227000 chr6D 111071607 111072355 748 True 732.0 732 84.4850 2833 3590 1 chr6D.!!$R1 757
19 TraesCS2D01G227000 chr1D 376771884 376772511 627 False 691.0 691 86.5200 2902 3537 1 chr1D.!!$F1 635

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
211 212 0.179023 TTTGTTTAGGTCGCCCCGTT 60.179 50.0 0.00 0.0 38.74 4.44 F
1725 2125 0.108804 TCTTCATGAACGAGGGTCGC 60.109 55.0 3.38 0.0 45.12 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1787 2190 1.292223 GTGACGGCCTGCTTGAGTA 59.708 57.895 0.0 0.0 0.00 2.59 R
2794 3366 0.250467 TGACTGGTGAAGCTCTTGGC 60.250 55.000 0.0 0.0 42.19 4.52 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
96 97 2.644299 AGGACATGACAGACCAAATGGA 59.356 45.455 6.42 0.00 38.94 3.41
103 104 1.819632 AGACCAAATGGATCGCGCC 60.820 57.895 6.42 0.00 38.94 6.53
131 132 0.949105 CACGGACCAGAAAAGGACGG 60.949 60.000 0.00 0.00 37.07 4.79
168 169 4.792066 CCACCTGGCCATCCAAAT 57.208 55.556 5.51 0.00 42.91 2.32
170 171 0.615544 CCACCTGGCCATCCAAATGT 60.616 55.000 5.51 0.00 42.91 2.71
171 172 1.341877 CCACCTGGCCATCCAAATGTA 60.342 52.381 5.51 0.00 42.91 2.29
174 175 2.849943 ACCTGGCCATCCAAATGTACTA 59.150 45.455 5.51 0.00 42.91 1.82
179 180 6.279513 TGGCCATCCAAATGTACTAAAAAG 57.720 37.500 0.00 0.00 39.99 2.27
184 185 8.903820 GCCATCCAAATGTACTAAAAAGTAGAT 58.096 33.333 0.00 0.00 30.81 1.98
208 209 1.268625 CTTGTTTGTTTAGGTCGCCCC 59.731 52.381 0.00 0.00 0.00 5.80
211 212 0.179023 TTTGTTTAGGTCGCCCCGTT 60.179 50.000 0.00 0.00 38.74 4.44
213 214 1.004679 GTTTAGGTCGCCCCGTTGA 60.005 57.895 0.00 0.00 38.74 3.18
226 227 0.521735 CCGTTGAAGTTGCCCTTAGC 59.478 55.000 0.00 0.00 44.14 3.09
248 249 1.067635 GTGGCATTCGTTGGAAGCAAT 60.068 47.619 0.00 0.00 35.19 3.56
249 250 1.617850 TGGCATTCGTTGGAAGCAATT 59.382 42.857 0.00 0.00 35.19 2.32
255 256 4.909696 TTCGTTGGAAGCAATTTTCTGA 57.090 36.364 0.00 0.00 0.00 3.27
293 294 2.807967 CTCACGAGAGCCATTCAAAACA 59.192 45.455 0.00 0.00 34.61 2.83
309 310 2.309528 AACAGACACTTGTTCGCTCA 57.690 45.000 0.00 0.00 36.60 4.26
338 340 3.506096 GGAAAACGCCGGCTAGCC 61.506 66.667 26.68 24.75 0.00 3.93
387 390 7.436118 TCGAATACAACAAGGTGTACTAAAGT 58.564 34.615 0.00 0.00 36.83 2.66
401 404 8.164790 GGTGTACTAAAGTAGCGACAATTTAAC 58.835 37.037 0.00 0.00 29.88 2.01
402 405 8.702438 GTGTACTAAAGTAGCGACAATTTAACA 58.298 33.333 0.00 0.00 29.88 2.41
456 461 9.026074 AGTTTTTATCATTTTCTTTTTCGCGAA 57.974 25.926 19.38 19.38 0.00 4.70
467 472 6.833342 TCTTTTTCGCGAATAGTATAACCC 57.167 37.500 24.05 0.00 0.00 4.11
551 572 2.794981 CGCTTAATCGATCGGTGTGACT 60.795 50.000 16.41 0.00 0.00 3.41
570 592 3.086282 ACTGGAACAAGTGGACGTTTTT 58.914 40.909 0.00 0.00 38.70 1.94
621 643 6.177610 GTGACCTAATTAAATCACTGGTCCA 58.822 40.000 16.35 0.00 41.04 4.02
669 691 8.515414 GTTGTAGAATATTGCAAGAAACCTCTT 58.485 33.333 4.94 0.00 42.96 2.85
691 713 2.734591 GATCATACGAGGCCGGCA 59.265 61.111 30.85 7.48 40.78 5.69
818 1157 5.048846 TCTTCAGCAAAGGTAAAGGAAGT 57.951 39.130 0.00 0.00 35.54 3.01
822 1161 2.445525 AGCAAAGGTAAAGGAAGTGGGA 59.554 45.455 0.00 0.00 0.00 4.37
878 1227 6.373495 AGTTGAAGGACGATTGGGTATTAAAC 59.627 38.462 0.00 0.00 0.00 2.01
879 1228 5.806818 TGAAGGACGATTGGGTATTAAACA 58.193 37.500 0.00 0.00 0.00 2.83
880 1229 5.878116 TGAAGGACGATTGGGTATTAAACAG 59.122 40.000 0.00 0.00 0.00 3.16
881 1230 4.196971 AGGACGATTGGGTATTAAACAGC 58.803 43.478 0.00 0.00 0.00 4.40
882 1231 3.314357 GGACGATTGGGTATTAAACAGCC 59.686 47.826 0.00 2.51 0.00 4.85
883 1232 3.284617 ACGATTGGGTATTAAACAGCCC 58.715 45.455 6.29 0.00 41.42 5.19
884 1233 3.053917 ACGATTGGGTATTAAACAGCCCT 60.054 43.478 6.29 0.00 41.59 5.19
885 1234 4.164604 ACGATTGGGTATTAAACAGCCCTA 59.835 41.667 6.29 0.00 41.59 3.53
886 1235 5.127491 CGATTGGGTATTAAACAGCCCTAA 58.873 41.667 6.29 0.00 41.59 2.69
887 1236 5.591067 CGATTGGGTATTAAACAGCCCTAAA 59.409 40.000 6.29 0.00 41.59 1.85
990 1343 2.163010 GGTGGTAGAACTTCGTCGATCA 59.837 50.000 0.00 0.00 0.00 2.92
1017 1372 3.274288 GGAAATGAACCCTAGAGCACTG 58.726 50.000 0.00 0.00 0.00 3.66
1725 2125 0.108804 TCTTCATGAACGAGGGTCGC 60.109 55.000 3.38 0.00 45.12 5.19
1728 2128 1.215382 CATGAACGAGGGTCGCTCA 59.785 57.895 16.37 5.01 46.87 4.26
1749 2152 2.342650 GCACGGCATCAACCACCAT 61.343 57.895 0.00 0.00 0.00 3.55
1787 2190 2.443952 TCTCGCCATGGATCCGGT 60.444 61.111 18.40 0.00 0.00 5.28
2205 2748 2.032528 TCCGGGCTGCTCAACTTG 59.967 61.111 0.00 0.00 0.00 3.16
2601 3144 5.776173 AGGCAATGTAGCAGTAGTAGTAG 57.224 43.478 0.00 0.00 35.83 2.57
2615 3158 7.066043 GCAGTAGTAGTAGTATTCAGTGTCAGT 59.934 40.741 0.00 0.00 0.00 3.41
2624 3168 4.762289 ATTCAGTGTCAGTATCCCCTTC 57.238 45.455 0.00 0.00 0.00 3.46
2672 3219 4.615949 AGATGAAGTGATCGAGTATGTGC 58.384 43.478 0.00 0.00 0.00 4.57
2673 3220 2.797491 TGAAGTGATCGAGTATGTGCG 58.203 47.619 0.00 0.00 0.00 5.34
2774 3324 5.699915 TCAGATGCTTCAGTTCTTCTTCTTG 59.300 40.000 2.07 0.00 0.00 3.02
2776 3326 6.648310 CAGATGCTTCAGTTCTTCTTCTTGTA 59.352 38.462 2.07 0.00 0.00 2.41
2777 3327 6.648725 AGATGCTTCAGTTCTTCTTCTTGTAC 59.351 38.462 2.07 0.00 0.00 2.90
2779 3329 5.986135 TGCTTCAGTTCTTCTTCTTGTACTC 59.014 40.000 0.00 0.00 0.00 2.59
2780 3330 5.117897 GCTTCAGTTCTTCTTCTTGTACTCG 59.882 44.000 0.00 0.00 0.00 4.18
2791 3363 2.299013 TCTTGTACTCGTGGCAAGTCAT 59.701 45.455 17.32 0.00 40.14 3.06
2794 3366 1.654105 GTACTCGTGGCAAGTCATTCG 59.346 52.381 0.00 0.00 0.00 3.34
2846 3418 2.860062 GCACAAAGCACTTAGAGCATG 58.140 47.619 4.27 5.33 44.79 4.06
2874 3447 2.675032 CGGACCCTTAAACCCGTCTTAC 60.675 54.545 0.00 0.00 37.40 2.34
2887 3460 1.904865 TCTTACACGTCCGGGCAGT 60.905 57.895 6.96 6.62 0.00 4.40
2976 3550 3.636231 CTGACCGGCACCTCCCAA 61.636 66.667 0.00 0.00 0.00 4.12
3039 3615 4.021925 GCCACCTCAGAACCGGCT 62.022 66.667 0.00 0.00 39.73 5.52
3108 3684 1.780919 AGACCAAACCCTAGCCACTTT 59.219 47.619 0.00 0.00 0.00 2.66
3161 3747 1.990614 GGCTCCTTCCGGTCCTCTT 60.991 63.158 0.00 0.00 0.00 2.85
3203 3789 3.024547 CCGAGTCTTTCACCTCCAGATA 58.975 50.000 0.00 0.00 0.00 1.98
3204 3790 3.639094 CCGAGTCTTTCACCTCCAGATAT 59.361 47.826 0.00 0.00 0.00 1.63
3340 3926 1.322538 ATCCATTGCTTCCGCCCAAC 61.323 55.000 0.00 0.00 34.43 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 5.221501 CCATTTGGTCTGTCATGTCCTTTTT 60.222 40.000 0.00 0.00 0.00 1.94
83 84 1.369091 GCGCGATCCATTTGGTCTGT 61.369 55.000 12.10 0.00 36.34 3.41
103 104 4.920112 TGGTCCGTGCACCCAACG 62.920 66.667 12.15 0.00 35.26 4.10
131 132 1.219522 CCACACGTTCGGTCCTTGTC 61.220 60.000 0.00 0.00 0.00 3.18
179 180 8.114905 GCGACCTAAACAAACAAGAATATCTAC 58.885 37.037 0.00 0.00 0.00 2.59
184 185 5.616488 GGCGACCTAAACAAACAAGAATA 57.384 39.130 0.00 0.00 0.00 1.75
208 209 0.165944 CGCTAAGGGCAACTTCAACG 59.834 55.000 0.00 0.00 40.64 4.10
211 212 0.605319 CACCGCTAAGGGCAACTTCA 60.605 55.000 0.00 0.00 46.96 3.02
213 214 1.303317 CCACCGCTAAGGGCAACTT 60.303 57.895 0.00 0.00 46.96 2.66
226 227 1.501741 CTTCCAACGAATGCCACCG 59.498 57.895 0.00 0.00 0.00 4.94
248 249 7.382110 AGAGAAGAGATCGTTCATTCAGAAAA 58.618 34.615 11.92 0.00 38.13 2.29
249 250 6.929625 AGAGAAGAGATCGTTCATTCAGAAA 58.070 36.000 11.92 0.00 38.13 2.52
255 256 4.396478 TCGTGAGAGAAGAGATCGTTCATT 59.604 41.667 11.92 1.79 34.84 2.57
286 287 3.006940 AGCGAACAAGTGTCTGTTTTGA 58.993 40.909 0.00 0.00 39.63 2.69
293 294 0.753262 ACCTGAGCGAACAAGTGTCT 59.247 50.000 0.00 0.00 0.00 3.41
338 340 7.253618 CGAATTAACTATTTTTGGACGCCAATG 60.254 37.037 11.30 4.33 43.55 2.82
356 358 8.715088 AGTACACCTTGTTGTATTCGAATTAAC 58.285 33.333 17.19 20.02 34.50 2.01
357 359 8.836268 AGTACACCTTGTTGTATTCGAATTAA 57.164 30.769 17.19 9.48 34.50 1.40
387 390 6.741109 TCCGATCTATGTTAAATTGTCGCTA 58.259 36.000 0.00 0.00 0.00 4.26
401 404 8.237949 ACAACGATTTATACTCTCCGATCTATG 58.762 37.037 0.00 0.00 0.00 2.23
402 405 8.338072 ACAACGATTTATACTCTCCGATCTAT 57.662 34.615 0.00 0.00 0.00 1.98
456 461 4.532521 GCTGGAGGTGATGGGTTATACTAT 59.467 45.833 0.00 0.00 0.00 2.12
462 467 0.616395 TCGCTGGAGGTGATGGGTTA 60.616 55.000 0.00 0.00 0.00 2.85
467 472 2.584418 CGCTCGCTGGAGGTGATG 60.584 66.667 0.00 0.00 40.80 3.07
551 572 3.349022 AGAAAAACGTCCACTTGTTCCA 58.651 40.909 0.00 0.00 0.00 3.53
570 592 5.051508 GCTGTAAAAAGTCGTCGTGTTAAGA 60.052 40.000 0.00 0.00 0.00 2.10
645 667 9.905713 ATAAGAGGTTTCTTGCAATATTCTACA 57.094 29.630 0.00 0.00 43.41 2.74
669 691 0.170339 CGGCCTCGTATGATCGCATA 59.830 55.000 0.00 0.00 35.94 3.14
691 713 2.289072 ACGCAGCACAGTACATCTTTCT 60.289 45.455 0.00 0.00 0.00 2.52
878 1227 1.546476 AGTCGTCTCTGTTTAGGGCTG 59.454 52.381 0.00 0.00 0.00 4.85
879 1228 1.819903 GAGTCGTCTCTGTTTAGGGCT 59.180 52.381 2.19 0.00 37.68 5.19
880 1229 1.544691 TGAGTCGTCTCTGTTTAGGGC 59.455 52.381 10.95 0.00 40.98 5.19
881 1230 2.416162 GCTGAGTCGTCTCTGTTTAGGG 60.416 54.545 15.53 0.00 40.98 3.53
882 1231 2.490115 AGCTGAGTCGTCTCTGTTTAGG 59.510 50.000 15.53 0.00 40.98 2.69
883 1232 3.497118 CAGCTGAGTCGTCTCTGTTTAG 58.503 50.000 8.42 4.52 40.98 1.85
884 1233 2.229062 CCAGCTGAGTCGTCTCTGTTTA 59.771 50.000 17.39 0.00 40.98 2.01
885 1234 1.000283 CCAGCTGAGTCGTCTCTGTTT 60.000 52.381 17.39 4.77 40.98 2.83
886 1235 0.600557 CCAGCTGAGTCGTCTCTGTT 59.399 55.000 17.39 8.76 40.98 3.16
887 1236 0.250945 TCCAGCTGAGTCGTCTCTGT 60.251 55.000 17.39 3.24 40.98 3.41
990 1343 5.191722 TGCTCTAGGGTTCATTTCCAGTTAT 59.808 40.000 0.00 0.00 0.00 1.89
1017 1372 1.881973 TCCACGCCTCGTATATGTACC 59.118 52.381 0.00 0.00 38.32 3.34
1725 2125 1.430632 GTTGATGCCGTGCCATGAG 59.569 57.895 0.00 0.00 0.00 2.90
1728 2128 2.035469 TGGTTGATGCCGTGCCAT 59.965 55.556 0.00 0.00 0.00 4.40
1787 2190 1.292223 GTGACGGCCTGCTTGAGTA 59.708 57.895 0.00 0.00 0.00 2.59
2205 2748 2.202756 GACCACAGCCCGTCGATC 60.203 66.667 0.00 0.00 0.00 3.69
2363 2906 4.987408 TCGTCCACGAGGTGATAATTTA 57.013 40.909 0.00 0.00 44.22 1.40
2364 2907 3.880047 TCGTCCACGAGGTGATAATTT 57.120 42.857 0.00 0.00 44.22 1.82
2601 3144 5.128827 TGAAGGGGATACTGACACTGAATAC 59.871 44.000 0.00 0.00 0.00 1.89
2642 3186 4.138290 TCGATCACTTCATCTACTCCTCC 58.862 47.826 0.00 0.00 0.00 4.30
2643 3187 4.819630 ACTCGATCACTTCATCTACTCCTC 59.180 45.833 0.00 0.00 0.00 3.71
2644 3188 4.787551 ACTCGATCACTTCATCTACTCCT 58.212 43.478 0.00 0.00 0.00 3.69
2645 3189 6.205853 ACATACTCGATCACTTCATCTACTCC 59.794 42.308 0.00 0.00 0.00 3.85
2672 3219 3.494626 CCCGACATAAATGATGACCTTCG 59.505 47.826 0.00 0.00 39.06 3.79
2673 3220 4.703897 TCCCGACATAAATGATGACCTTC 58.296 43.478 0.00 0.00 39.06 3.46
2774 3324 1.654105 CGAATGACTTGCCACGAGTAC 59.346 52.381 0.00 0.00 0.00 2.73
2776 3326 1.291877 GCGAATGACTTGCCACGAGT 61.292 55.000 0.00 0.00 0.00 4.18
2777 3327 1.421485 GCGAATGACTTGCCACGAG 59.579 57.895 0.00 0.00 0.00 4.18
2794 3366 0.250467 TGACTGGTGAAGCTCTTGGC 60.250 55.000 0.00 0.00 42.19 4.52
2846 3418 0.594602 GTTTAAGGGTCCGGTTGCAC 59.405 55.000 0.00 0.00 0.00 4.57
2891 3464 4.664677 GATCGGGCGGTGATCGGG 62.665 72.222 0.00 0.00 39.69 5.14
2895 3468 0.397941 AATCATGATCGGGCGGTGAT 59.602 50.000 9.06 0.00 0.00 3.06
2958 3532 4.954118 TGGGAGGTGCCGGTCAGT 62.954 66.667 1.90 0.00 37.63 3.41
2971 3545 5.128033 TCATATTTGAGCTGGATTTGGGA 57.872 39.130 0.00 0.00 0.00 4.37
2976 3550 3.144506 CGCCTCATATTTGAGCTGGATT 58.855 45.455 7.59 0.00 46.76 3.01
3088 3664 1.446016 AAGTGGCTAGGGTTTGGTCT 58.554 50.000 0.00 0.00 0.00 3.85
3108 3684 4.153330 GCGGAGGGGAGGGGAGTA 62.153 72.222 0.00 0.00 0.00 2.59
3203 3789 1.739338 GATGAGCTCGGGGTCGACAT 61.739 60.000 18.91 0.00 42.30 3.06
3204 3790 2.362503 ATGAGCTCGGGGTCGACA 60.363 61.111 18.91 0.00 42.30 4.35
3240 3826 1.682684 AAGCCGGACGACCATCTCT 60.683 57.895 5.05 0.00 35.59 3.10
3309 3895 2.644299 AGCAATGGATTCCCGATGGATA 59.356 45.455 0.00 0.00 41.40 2.59
3340 3926 4.962836 GCCGGATCCATGCCCCAG 62.963 72.222 13.41 0.00 0.00 4.45
3454 4040 2.802724 CCCATGGTGCGTCCCGATA 61.803 63.158 11.73 0.00 34.77 2.92
3478 4064 4.659172 TGCCTTGGCCTTGTCGGG 62.659 66.667 3.32 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.