Multiple sequence alignment - TraesCS3A01G457800

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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 TraesCS3A01G457800 chr3A 100.000 2800 0 0 797 3596 695130420 695133219 0.000000e+00 5171.0
1 TraesCS3A01G457800 chr3A 100.000 336 0 0 1 336 695129624 695129959 3.940000e-174 621.0
2 TraesCS3A01G457800 chr3A 81.305 567 58 11 1475 2041 695224150 695224668 2.000000e-112 416.0
3 TraesCS3A01G457800 chr3A 87.500 336 39 2 2289 2621 695239597 695239932 5.630000e-103 385.0
4 TraesCS3A01G457800 chr3A 90.189 265 21 4 2023 2285 695225732 695225993 1.240000e-89 340.0
5 TraesCS3A01G457800 chr3D 95.054 2770 101 17 797 3552 558784414 558787161 0.000000e+00 4324.0
6 TraesCS3A01G457800 chr3D 85.541 1155 116 25 1472 2621 558938753 558939861 0.000000e+00 1160.0
7 TraesCS3A01G457800 chr3D 84.982 273 41 0 1562 1834 559567712 559567440 9.830000e-71 278.0
8 TraesCS3A01G457800 chr3D 80.571 350 24 15 1 336 558783904 558784223 2.790000e-56 230.0
9 TraesCS3A01G457800 chr3D 95.918 49 2 0 3548 3596 255569437 255569485 2.980000e-11 80.5
10 TraesCS3A01G457800 chr3B 93.169 2752 139 26 824 3552 741601296 741604021 0.000000e+00 3995.0
11 TraesCS3A01G457800 chr3B 85.652 1150 111 18 1475 2621 741713577 741714675 0.000000e+00 1160.0
12 TraesCS3A01G457800 chr3B 80.059 677 124 7 1166 1834 742524634 742523961 3.230000e-135 492.0
13 TraesCS3A01G457800 chr3B 86.548 394 47 2 1056 1443 741713185 741713578 2.570000e-116 429.0
14 TraesCS3A01G457800 chr3B 85.788 387 52 2 2238 2621 742712806 742712420 1.200000e-109 407.0
15 TraesCS3A01G457800 chr3B 85.271 387 54 2 2238 2621 742550822 742550436 2.600000e-106 396.0
16 TraesCS3A01G457800 chr3B 83.590 390 58 4 2238 2621 742672368 742671979 9.490000e-96 361.0
17 TraesCS3A01G457800 chr3B 96.000 50 1 1 1 49 741600415 741600464 2.980000e-11 80.5
18 TraesCS3A01G457800 chr4A 80.049 1639 265 38 970 2598 113331714 113330128 0.000000e+00 1158.0
19 TraesCS3A01G457800 chr4D 79.526 1646 270 41 970 2598 352118512 352120107 0.000000e+00 1110.0
20 TraesCS3A01G457800 chr7B 85.308 633 81 8 2921 3551 552735211 552734589 0.000000e+00 643.0
21 TraesCS3A01G457800 chr7B 85.308 633 81 8 2921 3551 552776263 552775641 0.000000e+00 643.0
22 TraesCS3A01G457800 chr7B 94.737 57 2 1 3539 3595 118157762 118157817 1.780000e-13 87.9
23 TraesCS3A01G457800 chr7B 100.000 46 0 0 3550 3595 12482189 12482234 6.400000e-13 86.1
24 TraesCS3A01G457800 chr7B 100.000 46 0 0 3550 3595 190964764 190964719 6.400000e-13 86.1
25 TraesCS3A01G457800 chr7B 97.826 46 1 0 3551 3596 213055785 213055830 2.980000e-11 80.5
26 TraesCS3A01G457800 chr7B 97.826 46 1 0 3550 3595 427540984 427540939 2.980000e-11 80.5
27 TraesCS3A01G457800 chr7B 93.478 46 3 0 3550 3595 745951225 745951180 6.440000e-08 69.4
28 TraesCS3A01G457800 chr1D 77.009 1170 217 39 1056 2211 22625530 22624399 1.100000e-174 623.0
29 TraesCS3A01G457800 chr1D 79.812 213 43 0 2378 2590 22624259 22624047 4.810000e-34 156.0
30 TraesCS3A01G457800 chr7A 84.227 634 85 11 2921 3551 595306703 595306082 1.430000e-168 603.0
31 TraesCS3A01G457800 chr2B 83.943 629 82 12 2929 3552 698948272 698947658 5.170000e-163 584.0
32 TraesCS3A01G457800 chr2B 97.826 46 1 0 3550 3595 434981005 434980960 2.980000e-11 80.5
33 TraesCS3A01G457800 chr2B 97.826 46 1 0 3550 3595 755678744 755678789 2.980000e-11 80.5
34 TraesCS3A01G457800 chr1A 78.750 800 149 18 1056 1843 23816674 23817464 1.910000e-142 516.0
35 TraesCS3A01G457800 chr2D 86.334 461 62 1 2917 3376 628998120 628998580 5.360000e-138 501.0
36 TraesCS3A01G457800 chr1B 80.236 678 120 13 1174 1843 38832656 38833327 6.930000e-137 497.0
37 TraesCS3A01G457800 chrUn 85.651 453 60 5 2916 3364 35355882 35355431 4.200000e-129 472.0
38 TraesCS3A01G457800 chrUn 85.651 453 60 5 2916 3364 263314121 263313670 4.200000e-129 472.0
39 TraesCS3A01G457800 chr7D 94.595 37 2 0 3371 3407 90636667 90636703 1.390000e-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 TraesCS3A01G457800 chr3A 695129624 695133219 3595 False 2896.00 5171 100.0000 1 3596 2 chr3A.!!$F2 3595
1 TraesCS3A01G457800 chr3A 695224150 695225993 1843 False 378.00 416 85.7470 1475 2285 2 chr3A.!!$F3 810
2 TraesCS3A01G457800 chr3D 558783904 558787161 3257 False 2277.00 4324 87.8125 1 3552 2 chr3D.!!$F3 3551
3 TraesCS3A01G457800 chr3D 558938753 558939861 1108 False 1160.00 1160 85.5410 1472 2621 1 chr3D.!!$F2 1149
4 TraesCS3A01G457800 chr3B 741600415 741604021 3606 False 2037.75 3995 94.5845 1 3552 2 chr3B.!!$F1 3551
5 TraesCS3A01G457800 chr3B 741713185 741714675 1490 False 794.50 1160 86.1000 1056 2621 2 chr3B.!!$F2 1565
6 TraesCS3A01G457800 chr3B 742523961 742524634 673 True 492.00 492 80.0590 1166 1834 1 chr3B.!!$R1 668
7 TraesCS3A01G457800 chr4A 113330128 113331714 1586 True 1158.00 1158 80.0490 970 2598 1 chr4A.!!$R1 1628
8 TraesCS3A01G457800 chr4D 352118512 352120107 1595 False 1110.00 1110 79.5260 970 2598 1 chr4D.!!$F1 1628
9 TraesCS3A01G457800 chr7B 552734589 552735211 622 True 643.00 643 85.3080 2921 3551 1 chr7B.!!$R3 630
10 TraesCS3A01G457800 chr7B 552775641 552776263 622 True 643.00 643 85.3080 2921 3551 1 chr7B.!!$R4 630
11 TraesCS3A01G457800 chr1D 22624047 22625530 1483 True 389.50 623 78.4105 1056 2590 2 chr1D.!!$R1 1534
12 TraesCS3A01G457800 chr7A 595306082 595306703 621 True 603.00 603 84.2270 2921 3551 1 chr7A.!!$R1 630
13 TraesCS3A01G457800 chr2B 698947658 698948272 614 True 584.00 584 83.9430 2929 3552 1 chr2B.!!$R2 623
14 TraesCS3A01G457800 chr1A 23816674 23817464 790 False 516.00 516 78.7500 1056 1843 1 chr1A.!!$F1 787
15 TraesCS3A01G457800 chr1B 38832656 38833327 671 False 497.00 497 80.2360 1174 1843 1 chr1B.!!$F1 669

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
174 190 0.034089 CTTTCCCTTCGCTCCCCATT 60.034 55.000 0.00 0.0 0.00 3.16 F
175 191 0.034477 TTTCCCTTCGCTCCCCATTC 60.034 55.000 0.00 0.0 0.00 2.67 F
176 192 1.921869 TTCCCTTCGCTCCCCATTCC 61.922 60.000 0.00 0.0 0.00 3.01 F
1479 1661 2.044946 GAGTTCCAGCGGGGCAAT 60.045 61.111 2.05 0.0 36.21 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1479 1661 2.052690 GCTGTAGGACAGGGCGAGA 61.053 63.158 8.61 0.00 46.01 4.04 R
1489 1671 2.674852 CGTCGTAGTTGTAGCTGTAGGA 59.325 50.000 0.00 0.00 0.00 2.94 R
1640 1822 3.119096 GGCGGACGAGCTTGAACC 61.119 66.667 8.31 9.66 37.29 3.62 R
3464 4805 0.167470 CAGAGCTGCAACACCAATCG 59.833 55.000 1.02 0.00 0.00 3.34 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
50 52 1.148273 AGCACGGGAGTCTGCAAAA 59.852 52.632 5.73 0.00 44.67 2.44
51 53 1.166531 AGCACGGGAGTCTGCAAAAC 61.167 55.000 5.73 0.00 44.67 2.43
54 56 2.954611 GGGAGTCTGCAAAACCGC 59.045 61.111 0.00 0.00 0.00 5.68
58 73 0.944386 GAGTCTGCAAAACCGCAAGA 59.056 50.000 0.00 0.00 42.45 3.02
62 77 0.040067 CTGCAAAACCGCAAGAGGAC 60.040 55.000 0.00 0.00 42.45 3.85
115 131 4.465512 CGCGTTCCACATGCCAGC 62.466 66.667 0.00 0.00 33.21 4.85
116 132 4.120331 GCGTTCCACATGCCAGCC 62.120 66.667 0.00 0.00 0.00 4.85
117 133 2.672651 CGTTCCACATGCCAGCCA 60.673 61.111 0.00 0.00 0.00 4.75
118 134 2.693762 CGTTCCACATGCCAGCCAG 61.694 63.158 0.00 0.00 0.00 4.85
119 135 2.677524 TTCCACATGCCAGCCAGC 60.678 61.111 0.00 0.00 0.00 4.85
120 136 4.746309 TCCACATGCCAGCCAGCC 62.746 66.667 0.00 0.00 0.00 4.85
122 138 3.449227 CACATGCCAGCCAGCCAG 61.449 66.667 0.00 0.00 0.00 4.85
151 167 1.794222 CCCGGAGTAAAAAGCAGCG 59.206 57.895 0.73 0.00 0.00 5.18
169 185 3.500642 GCGCTTTCCCTTCGCTCC 61.501 66.667 0.00 0.00 44.79 4.70
170 186 2.820037 CGCTTTCCCTTCGCTCCC 60.820 66.667 0.00 0.00 0.00 4.30
171 187 2.438614 GCTTTCCCTTCGCTCCCC 60.439 66.667 0.00 0.00 0.00 4.81
172 188 3.077907 CTTTCCCTTCGCTCCCCA 58.922 61.111 0.00 0.00 0.00 4.96
173 189 1.609783 CTTTCCCTTCGCTCCCCAT 59.390 57.895 0.00 0.00 0.00 4.00
174 190 0.034089 CTTTCCCTTCGCTCCCCATT 60.034 55.000 0.00 0.00 0.00 3.16
175 191 0.034477 TTTCCCTTCGCTCCCCATTC 60.034 55.000 0.00 0.00 0.00 2.67
176 192 1.921869 TTCCCTTCGCTCCCCATTCC 61.922 60.000 0.00 0.00 0.00 3.01
177 193 2.193248 CCTTCGCTCCCCATTCCC 59.807 66.667 0.00 0.00 0.00 3.97
178 194 2.193248 CTTCGCTCCCCATTCCCC 59.807 66.667 0.00 0.00 0.00 4.81
179 195 2.612430 TTCGCTCCCCATTCCCCA 60.612 61.111 0.00 0.00 0.00 4.96
180 196 2.615227 CTTCGCTCCCCATTCCCCAG 62.615 65.000 0.00 0.00 0.00 4.45
181 197 3.411517 CGCTCCCCATTCCCCAGT 61.412 66.667 0.00 0.00 0.00 4.00
182 198 2.597903 GCTCCCCATTCCCCAGTC 59.402 66.667 0.00 0.00 0.00 3.51
183 199 3.061905 GCTCCCCATTCCCCAGTCC 62.062 68.421 0.00 0.00 0.00 3.85
184 200 2.286885 TCCCCATTCCCCAGTCCC 60.287 66.667 0.00 0.00 0.00 4.46
185 201 2.616893 CCCCATTCCCCAGTCCCA 60.617 66.667 0.00 0.00 0.00 4.37
186 202 2.693871 CCCCATTCCCCAGTCCCAG 61.694 68.421 0.00 0.00 0.00 4.45
187 203 2.693871 CCCATTCCCCAGTCCCAGG 61.694 68.421 0.00 0.00 0.00 4.45
188 204 2.276740 CATTCCCCAGTCCCAGGC 59.723 66.667 0.00 0.00 0.00 4.85
189 205 3.023735 ATTCCCCAGTCCCAGGCC 61.024 66.667 0.00 0.00 0.00 5.19
271 297 2.060980 CCTCTCTTGTCCCCTCCGG 61.061 68.421 0.00 0.00 0.00 5.14
1473 1655 2.266055 GACCAGGAGTTCCAGCGG 59.734 66.667 0.00 0.77 38.89 5.52
1479 1661 2.044946 GAGTTCCAGCGGGGCAAT 60.045 61.111 2.05 0.00 36.21 3.56
1653 1835 2.357034 TGCCGGTTCAAGCTCGTC 60.357 61.111 1.90 0.00 0.00 4.20
2304 3613 3.515286 GGCATCGTCGACCCGAGA 61.515 66.667 10.58 1.18 40.68 4.04
2451 3772 0.103572 GGAACTTCGCGGCCTACATA 59.896 55.000 6.13 0.00 0.00 2.29
2605 3929 2.718220 GATCAGTGATCGATCGGCG 58.282 57.895 20.03 0.00 42.69 6.46
2626 3953 3.061403 CGACGTTTCCTATATGTGCGTTC 60.061 47.826 0.00 0.00 0.00 3.95
2641 3968 3.081061 TGCGTTCTTCTGCCATTTACAT 58.919 40.909 0.00 0.00 0.00 2.29
2643 3970 4.022416 TGCGTTCTTCTGCCATTTACATTT 60.022 37.500 0.00 0.00 0.00 2.32
2644 3971 5.182190 TGCGTTCTTCTGCCATTTACATTTA 59.818 36.000 0.00 0.00 0.00 1.40
2645 3972 5.511729 GCGTTCTTCTGCCATTTACATTTAC 59.488 40.000 0.00 0.00 0.00 2.01
2706 4036 3.198409 TGTAGCATGGATGAAAGCGAT 57.802 42.857 0.00 0.00 0.00 4.58
2709 4039 1.142465 AGCATGGATGAAAGCGATCCT 59.858 47.619 0.00 0.00 40.26 3.24
2742 4072 4.773323 ACTGTATGCTTTGCTTTCCTTC 57.227 40.909 0.00 0.00 0.00 3.46
2797 4127 2.582052 TGTTCACATCCAACTTGTCCC 58.418 47.619 0.00 0.00 0.00 4.46
2804 4134 3.071892 ACATCCAACTTGTCCCGACTTAA 59.928 43.478 0.00 0.00 0.00 1.85
2805 4135 3.396260 TCCAACTTGTCCCGACTTAAG 57.604 47.619 0.00 0.00 0.00 1.85
2806 4136 2.038033 TCCAACTTGTCCCGACTTAAGG 59.962 50.000 7.53 0.00 0.00 2.69
2807 4137 2.038033 CCAACTTGTCCCGACTTAAGGA 59.962 50.000 7.53 0.00 0.00 3.36
2841 4175 4.411256 AACTGTCCGAGTTAAGTTCCAA 57.589 40.909 0.00 0.00 43.54 3.53
2848 4182 4.812626 TCCGAGTTAAGTTCCAAACACTTC 59.187 41.667 0.00 0.00 35.95 3.01
3032 4366 9.057089 AGTTCAGACGAATTAGAAACAAAAGAT 57.943 29.630 0.00 0.00 32.61 2.40
3120 4454 5.641209 GCAAAATCTGTAGCGAGATGGATAT 59.359 40.000 0.00 0.00 32.77 1.63
3236 4574 1.405872 TGCATCCAATTCTCCATGCC 58.594 50.000 0.00 0.00 40.86 4.40
3332 4672 8.744923 GTTGCTGCCAAAATAAAATTTTCTTTG 58.255 29.630 20.97 20.97 31.68 2.77
3453 4794 7.492669 TCCATGTATGAATCTCTTTTCGAACTC 59.507 37.037 0.00 0.00 0.00 3.01
3454 4795 7.254590 CCATGTATGAATCTCTTTTCGAACTCC 60.255 40.741 0.00 0.00 0.00 3.85
3455 4796 6.936279 TGTATGAATCTCTTTTCGAACTCCT 58.064 36.000 0.00 0.00 0.00 3.69
3456 4797 6.813649 TGTATGAATCTCTTTTCGAACTCCTG 59.186 38.462 0.00 0.00 0.00 3.86
3457 4798 5.215252 TGAATCTCTTTTCGAACTCCTGT 57.785 39.130 0.00 0.00 0.00 4.00
3460 4801 7.036220 TGAATCTCTTTTCGAACTCCTGTATC 58.964 38.462 0.00 0.00 0.00 2.24
3461 4802 5.977489 TCTCTTTTCGAACTCCTGTATCA 57.023 39.130 0.00 0.00 0.00 2.15
3462 4803 6.531503 TCTCTTTTCGAACTCCTGTATCAT 57.468 37.500 0.00 0.00 0.00 2.45
3463 4804 6.565234 TCTCTTTTCGAACTCCTGTATCATC 58.435 40.000 0.00 0.00 0.00 2.92
3464 4805 5.661458 TCTTTTCGAACTCCTGTATCATCC 58.339 41.667 0.00 0.00 0.00 3.51
3465 4806 3.710326 TTCGAACTCCTGTATCATCCG 57.290 47.619 0.00 0.00 0.00 4.18
3466 4807 2.927028 TCGAACTCCTGTATCATCCGA 58.073 47.619 0.00 0.00 0.00 4.55
3490 4831 0.664761 TGTTGCAGCTCTGACAAAGC 59.335 50.000 1.17 0.00 40.14 3.51
3520 4862 4.874966 CCAAAACTTTGATTGAAACAGCCA 59.125 37.500 3.72 0.00 40.55 4.75
3552 4894 4.968080 AGCTCCTGTATCATCTCTCCTTTT 59.032 41.667 0.00 0.00 0.00 2.27
3553 4895 5.428131 AGCTCCTGTATCATCTCTCCTTTTT 59.572 40.000 0.00 0.00 0.00 1.94
3575 4917 6.539649 TTTTTGAACGATGAAGACAGTAGG 57.460 37.500 0.00 0.00 0.00 3.18
3576 4918 5.462530 TTTGAACGATGAAGACAGTAGGA 57.537 39.130 0.00 0.00 0.00 2.94
3577 4919 4.703645 TGAACGATGAAGACAGTAGGAG 57.296 45.455 0.00 0.00 0.00 3.69
3578 4920 4.332828 TGAACGATGAAGACAGTAGGAGA 58.667 43.478 0.00 0.00 0.00 3.71
3579 4921 4.396478 TGAACGATGAAGACAGTAGGAGAG 59.604 45.833 0.00 0.00 0.00 3.20
3580 4922 3.283751 ACGATGAAGACAGTAGGAGAGG 58.716 50.000 0.00 0.00 0.00 3.69
3581 4923 2.034053 CGATGAAGACAGTAGGAGAGGC 59.966 54.545 0.00 0.00 0.00 4.70
3582 4924 2.909504 TGAAGACAGTAGGAGAGGCT 57.090 50.000 0.00 0.00 0.00 4.58
3583 4925 2.729194 TGAAGACAGTAGGAGAGGCTC 58.271 52.381 6.34 6.34 0.00 4.70
3592 4934 2.410466 GGAGAGGCTCCTACTGACG 58.590 63.158 11.71 0.00 46.41 4.35
3593 4935 0.394625 GGAGAGGCTCCTACTGACGT 60.395 60.000 11.71 0.00 46.41 4.34
3594 4936 1.465794 GAGAGGCTCCTACTGACGTT 58.534 55.000 11.71 0.00 0.00 3.99
3595 4937 2.641305 GAGAGGCTCCTACTGACGTTA 58.359 52.381 11.71 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 52 2.100879 GACAGGTGTCCTCTTGCGGT 62.101 60.000 0.00 0.00 39.07 5.68
51 53 1.374758 GACAGGTGTCCTCTTGCGG 60.375 63.158 0.00 0.00 39.07 5.69
54 56 3.961480 TGTATGACAGGTGTCCTCTTG 57.039 47.619 7.64 0.00 44.15 3.02
58 73 4.081642 GTGTGTATGTATGACAGGTGTCCT 60.082 45.833 7.64 0.57 44.15 3.85
62 77 3.857665 GTCGTGTGTATGTATGACAGGTG 59.142 47.826 0.00 0.00 33.95 4.00
130 146 1.644786 CTGCTTTTTACTCCGGGCCG 61.645 60.000 21.46 21.46 0.00 6.13
156 172 0.034477 GAATGGGGAGCGAAGGGAAA 60.034 55.000 0.00 0.00 0.00 3.13
163 179 3.089874 CTGGGGAATGGGGAGCGA 61.090 66.667 0.00 0.00 0.00 4.93
165 181 2.597903 GACTGGGGAATGGGGAGC 59.402 66.667 0.00 0.00 0.00 4.70
168 184 2.616893 TGGGACTGGGGAATGGGG 60.617 66.667 0.00 0.00 0.00 4.96
169 185 2.693871 CCTGGGACTGGGGAATGGG 61.694 68.421 0.00 0.00 44.20 4.00
170 186 3.010144 CCTGGGACTGGGGAATGG 58.990 66.667 0.00 0.00 44.20 3.16
960 1124 2.202892 GGGCGCTTCCTAACCGAG 60.203 66.667 7.64 0.00 34.39 4.63
1479 1661 2.052690 GCTGTAGGACAGGGCGAGA 61.053 63.158 8.61 0.00 46.01 4.04
1488 1670 3.484886 CGTCGTAGTTGTAGCTGTAGGAC 60.485 52.174 0.00 1.20 0.00 3.85
1489 1671 2.674852 CGTCGTAGTTGTAGCTGTAGGA 59.325 50.000 0.00 0.00 0.00 2.94
1640 1822 3.119096 GGCGGACGAGCTTGAACC 61.119 66.667 8.31 9.66 37.29 3.62
1696 1879 4.459089 GGTGAGGTCTCTGGCGGC 62.459 72.222 0.00 0.00 0.00 6.53
2304 3613 2.032071 CACCTCGGCGGGAACTTT 59.968 61.111 9.18 0.00 36.97 2.66
2605 3929 4.110482 AGAACGCACATATAGGAAACGTC 58.890 43.478 0.00 0.00 0.00 4.34
2626 3953 9.853555 TGTAAATGTAAATGTAAATGGCAGAAG 57.146 29.630 0.00 0.00 0.00 2.85
2641 3968 8.031864 ACGATTCATGGCAAATGTAAATGTAAA 58.968 29.630 0.00 0.00 0.00 2.01
2643 3970 7.094508 ACGATTCATGGCAAATGTAAATGTA 57.905 32.000 0.00 0.00 0.00 2.29
2644 3971 5.964758 ACGATTCATGGCAAATGTAAATGT 58.035 33.333 0.00 0.00 0.00 2.71
2645 3972 6.753279 AGAACGATTCATGGCAAATGTAAATG 59.247 34.615 0.00 0.00 0.00 2.32
2706 4036 0.251386 ACAGTTCAGCGAGAGGAGGA 60.251 55.000 0.00 0.00 0.00 3.71
2709 4039 1.135139 GCATACAGTTCAGCGAGAGGA 59.865 52.381 0.00 0.00 0.00 3.71
2742 4072 7.655328 AGACTGAGAAAATTTACAGACACAGAG 59.345 37.037 19.50 0.00 34.88 3.35
2804 4134 7.391620 TCGGACAGTTATTATTTTGAAGTCCT 58.608 34.615 0.00 0.00 40.52 3.85
2805 4135 7.333672 ACTCGGACAGTTATTATTTTGAAGTCC 59.666 37.037 0.00 0.00 39.58 3.85
2806 4136 8.252964 ACTCGGACAGTTATTATTTTGAAGTC 57.747 34.615 0.00 0.00 26.56 3.01
2807 4137 8.617290 AACTCGGACAGTTATTATTTTGAAGT 57.383 30.769 0.00 0.00 44.13 3.01
2810 4140 9.715121 ACTTAACTCGGACAGTTATTATTTTGA 57.285 29.630 0.00 0.00 45.34 2.69
2841 4175 6.884836 ACTGGAACTGTTCTAAAAGAAGTGTT 59.115 34.615 19.05 6.82 37.12 3.32
2848 4182 7.013274 TGGAATTGACTGGAACTGTTCTAAAAG 59.987 37.037 19.05 13.60 41.64 2.27
2949 4283 4.909305 CCACATTGTAAACGACATGTCAAC 59.091 41.667 24.93 16.24 38.07 3.18
3032 4366 7.548075 GTGGTTGCTGATAACTTAGCTAAACTA 59.452 37.037 7.74 2.39 40.52 2.24
3120 4454 4.101430 TGATGTGGCAGTGATAGCTGAATA 59.899 41.667 0.00 0.00 38.70 1.75
3236 4574 3.703001 ATTCGGAATGGCCTATACCTG 57.297 47.619 3.32 0.12 0.00 4.00
3453 4794 3.475566 ACACCAATCGGATGATACAGG 57.524 47.619 0.00 0.00 33.40 4.00
3454 4795 3.002656 GCAACACCAATCGGATGATACAG 59.997 47.826 0.00 0.00 33.40 2.74
3455 4796 2.942376 GCAACACCAATCGGATGATACA 59.058 45.455 0.00 0.00 33.40 2.29
3456 4797 2.942376 TGCAACACCAATCGGATGATAC 59.058 45.455 0.00 0.00 33.40 2.24
3457 4798 3.205338 CTGCAACACCAATCGGATGATA 58.795 45.455 0.00 0.00 33.40 2.15
3460 4801 0.179156 GCTGCAACACCAATCGGATG 60.179 55.000 0.00 0.00 35.59 3.51
3461 4802 0.322816 AGCTGCAACACCAATCGGAT 60.323 50.000 1.02 0.00 35.59 4.18
3462 4803 0.955428 GAGCTGCAACACCAATCGGA 60.955 55.000 1.02 0.00 35.59 4.55
3463 4804 0.957395 AGAGCTGCAACACCAATCGG 60.957 55.000 1.02 0.00 38.77 4.18
3464 4805 0.167470 CAGAGCTGCAACACCAATCG 59.833 55.000 1.02 0.00 0.00 3.34
3465 4806 1.198637 GTCAGAGCTGCAACACCAATC 59.801 52.381 1.02 0.00 0.00 2.67
3466 4807 1.242076 GTCAGAGCTGCAACACCAAT 58.758 50.000 1.02 0.00 0.00 3.16
3520 4862 2.432146 TGATACAGGAGCTTGATCGCTT 59.568 45.455 0.00 0.00 41.08 4.68
3552 4894 6.285224 TCCTACTGTCTTCATCGTTCAAAAA 58.715 36.000 0.00 0.00 0.00 1.94
3553 4895 5.849510 TCCTACTGTCTTCATCGTTCAAAA 58.150 37.500 0.00 0.00 0.00 2.44
3554 4896 5.243060 TCTCCTACTGTCTTCATCGTTCAAA 59.757 40.000 0.00 0.00 0.00 2.69
3555 4897 4.765339 TCTCCTACTGTCTTCATCGTTCAA 59.235 41.667 0.00 0.00 0.00 2.69
3556 4898 4.332828 TCTCCTACTGTCTTCATCGTTCA 58.667 43.478 0.00 0.00 0.00 3.18
3557 4899 4.201970 CCTCTCCTACTGTCTTCATCGTTC 60.202 50.000 0.00 0.00 0.00 3.95
3558 4900 3.697045 CCTCTCCTACTGTCTTCATCGTT 59.303 47.826 0.00 0.00 0.00 3.85
3559 4901 3.283751 CCTCTCCTACTGTCTTCATCGT 58.716 50.000 0.00 0.00 0.00 3.73
3560 4902 2.034053 GCCTCTCCTACTGTCTTCATCG 59.966 54.545 0.00 0.00 0.00 3.84
3561 4903 3.295973 AGCCTCTCCTACTGTCTTCATC 58.704 50.000 0.00 0.00 0.00 2.92
3562 4904 3.295973 GAGCCTCTCCTACTGTCTTCAT 58.704 50.000 0.00 0.00 0.00 2.57
3563 4905 2.621929 GGAGCCTCTCCTACTGTCTTCA 60.622 54.545 5.65 0.00 46.41 3.02
3564 4906 2.028876 GGAGCCTCTCCTACTGTCTTC 58.971 57.143 5.65 0.00 46.41 2.87
3565 4907 2.153034 GGAGCCTCTCCTACTGTCTT 57.847 55.000 5.65 0.00 46.41 3.01
3566 4908 3.915993 GGAGCCTCTCCTACTGTCT 57.084 57.895 5.65 0.00 46.41 3.41
3575 4917 1.465794 AACGTCAGTAGGAGCCTCTC 58.534 55.000 0.00 0.00 0.00 3.20
3576 4918 2.803030 TAACGTCAGTAGGAGCCTCT 57.197 50.000 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.