Multiple sequence alignment - TraesCS2A01G281500

Loading Multiple Alignment...

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 TraesCS2A01G281500 chr2A 100.000 3692 0 0 1 3692 470429712 470433403 0.000000e+00 6818.0
1 TraesCS2A01G281500 chr2A 91.538 130 11 0 3411 3540 96153218 96153089 2.930000e-41 180.0
2 TraesCS2A01G281500 chr2A 93.333 120 7 1 3411 3529 391541375 391541256 3.790000e-40 176.0
3 TraesCS2A01G281500 chr2A 91.935 124 9 1 3394 3517 33060147 33060025 4.900000e-39 172.0
4 TraesCS2A01G281500 chr2D 96.346 2764 61 14 670 3413 352624325 352627068 0.000000e+00 4508.0
5 TraesCS2A01G281500 chr2D 89.184 490 30 12 1 473 352623394 352623877 1.140000e-164 590.0
6 TraesCS2A01G281500 chr2D 92.353 170 12 1 3523 3692 352627346 352627514 1.320000e-59 241.0
7 TraesCS2A01G281500 chr2D 91.176 68 6 0 530 597 352624228 352624295 3.930000e-15 93.5
8 TraesCS2A01G281500 chr2B 97.391 2568 44 12 781 3341 418775972 418778523 0.000000e+00 4349.0
9 TraesCS2A01G281500 chr2B 90.728 302 26 2 173 473 418774429 418774729 5.740000e-108 401.0
10 TraesCS2A01G281500 chr2B 89.222 167 15 3 1 165 418773937 418774102 4.830000e-49 206.0
11 TraesCS2A01G281500 chr2B 92.683 41 2 1 3539 3578 418778842 418778882 1.430000e-04 58.4
12 TraesCS2A01G281500 chr7D 95.614 114 5 0 3407 3520 379324241 379324128 2.260000e-42 183.0
13 TraesCS2A01G281500 chr7D 97.143 35 1 0 3341 3375 29688810 29688844 3.980000e-05 60.2
14 TraesCS2A01G281500 chr6B 95.652 115 4 1 3404 3517 705508980 705508866 2.260000e-42 183.0
15 TraesCS2A01G281500 chr5D 95.575 113 5 0 3407 3519 562099913 562099801 8.140000e-42 182.0
16 TraesCS2A01G281500 chr4A 95.575 113 5 0 3410 3522 59262034 59261922 8.140000e-42 182.0
17 TraesCS2A01G281500 chr4A 94.783 115 5 1 3408 3522 557549790 557549903 1.050000e-40 178.0
18 TraesCS2A01G281500 chr4A 95.455 44 2 0 3341 3384 136892295 136892338 1.840000e-08 71.3
19 TraesCS2A01G281500 chr3A 94.068 118 6 1 3403 3519 674679559 674679442 1.050000e-40 178.0
20 TraesCS2A01G281500 chr3A 88.889 90 10 0 3603 3692 355252632 355252721 1.080000e-20 111.0
21 TraesCS2A01G281500 chr4D 95.455 44 2 0 3344 3387 336225696 336225653 1.840000e-08 71.3
22 TraesCS2A01G281500 chr4D 94.737 38 1 1 3352 3388 9323821 9323858 1.430000e-04 58.4
23 TraesCS2A01G281500 chr4B 95.455 44 2 0 3344 3387 414218444 414218401 1.840000e-08 71.3
24 TraesCS2A01G281500 chr5B 95.238 42 2 0 3341 3382 681777675 681777716 2.380000e-07 67.6
25 TraesCS2A01G281500 chr5B 89.362 47 3 2 3349 3395 696621885 696621929 1.430000e-04 58.4
26 TraesCS2A01G281500 chr3B 95.122 41 1 1 3342 3381 17611574 17611534 3.080000e-06 63.9
27 TraesCS2A01G281500 chr3B 93.023 43 3 0 3341 3383 624178755 624178797 3.080000e-06 63.9


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 TraesCS2A01G281500 chr2A 470429712 470433403 3691 False 6818.000 6818 100.00000 1 3692 1 chr2A.!!$F1 3691
1 TraesCS2A01G281500 chr2D 352623394 352627514 4120 False 1358.125 4508 92.26475 1 3692 4 chr2D.!!$F1 3691
2 TraesCS2A01G281500 chr2B 418773937 418778882 4945 False 1253.600 4349 92.50600 1 3578 4 chr2B.!!$F1 3577

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
765 2431 0.109342 ATCCACCGGATGAAGATGGC 59.891 55.0 9.46 0.0 41.43 4.40 F
1419 3096 0.889186 GCAAACTCCCGGAGAAGCAA 60.889 55.0 21.89 0.0 33.32 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1911 3588 2.551459 CAGCTTGAACTTCTCAGGGTTG 59.449 50.0 0.00 0.0 39.64 3.77 R
3231 4917 0.106918 TCACACCCTGGGAACACAAC 60.107 55.0 22.23 0.0 35.60 3.32 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
47 48 7.243091 TGTAGGATATGTGTATTACCCTGCTA 58.757 38.462 0.00 0.00 0.00 3.49
69 70 8.892723 TGCTAATATGATGTGTTAAGGTTCAAG 58.107 33.333 0.00 0.00 0.00 3.02
80 81 6.371825 GTGTTAAGGTTCAAGCTAGTAATGCT 59.628 38.462 0.00 0.00 43.32 3.79
99 100 3.687698 TGCTGGCTCCGAAATAAAACTAC 59.312 43.478 0.00 0.00 0.00 2.73
108 109 7.855904 GCTCCGAAATAAAACTACCATTATGTG 59.144 37.037 0.00 0.00 0.00 3.21
192 513 4.284485 CACATGAATATTGATGTGCCACG 58.716 43.478 27.59 10.44 43.68 4.94
200 521 0.540923 TGATGTGCCACGATGGATGA 59.459 50.000 8.04 0.00 40.96 2.92
217 538 1.825090 TGAATCACACTGGCCATGTC 58.175 50.000 5.51 0.00 0.00 3.06
262 583 3.087906 ACCCATACGCAGACCCCC 61.088 66.667 0.00 0.00 0.00 5.40
286 607 3.238597 AGCAAGTTTGAGGGCCAAAATA 58.761 40.909 6.18 0.00 45.40 1.40
296 617 1.751351 GGGCCAAAATAGAGCAGGTTC 59.249 52.381 4.39 0.00 0.00 3.62
306 627 8.470805 CAAAATAGAGCAGGTTCTAAGTCTAGA 58.529 37.037 0.00 0.00 33.64 2.43
570 1218 5.008316 CCTTAAAATAAGGACGTGCATACCC 59.992 44.000 10.52 0.00 39.81 3.69
587 1235 2.355363 CGGCGAACGTTCACCAGA 60.355 61.111 29.34 0.00 37.93 3.86
597 1245 0.524862 GTTCACCAGAAGCAGCATGG 59.475 55.000 9.23 9.23 40.10 3.66
603 1251 2.202570 GAAGCAGCATGGCAAGCG 60.203 61.111 9.26 5.69 37.04 4.68
604 1252 2.674033 AAGCAGCATGGCAAGCGA 60.674 55.556 9.26 0.00 37.04 4.93
615 1263 3.737172 CAAGCGAACGGCCTTGGG 61.737 66.667 0.00 0.00 45.17 4.12
639 1288 4.944930 TGGCAGTTATTAGGCGTTTTATGT 59.055 37.500 0.00 0.00 0.00 2.29
646 1295 0.965363 AGGCGTTTTATGTGGGCAGG 60.965 55.000 0.00 0.00 0.00 4.85
647 1296 1.510844 GCGTTTTATGTGGGCAGGG 59.489 57.895 0.00 0.00 0.00 4.45
648 1297 1.944234 GCGTTTTATGTGGGCAGGGG 61.944 60.000 0.00 0.00 0.00 4.79
649 1298 0.610785 CGTTTTATGTGGGCAGGGGT 60.611 55.000 0.00 0.00 0.00 4.95
650 1299 1.639722 GTTTTATGTGGGCAGGGGTT 58.360 50.000 0.00 0.00 0.00 4.11
651 1300 1.275010 GTTTTATGTGGGCAGGGGTTG 59.725 52.381 0.00 0.00 0.00 3.77
652 1301 0.780637 TTTATGTGGGCAGGGGTTGA 59.219 50.000 0.00 0.00 0.00 3.18
653 1302 1.006813 TTATGTGGGCAGGGGTTGAT 58.993 50.000 0.00 0.00 0.00 2.57
654 1303 1.900254 TATGTGGGCAGGGGTTGATA 58.100 50.000 0.00 0.00 0.00 2.15
655 1304 0.552848 ATGTGGGCAGGGGTTGATAG 59.447 55.000 0.00 0.00 0.00 2.08
656 1305 0.844661 TGTGGGCAGGGGTTGATAGT 60.845 55.000 0.00 0.00 0.00 2.12
657 1306 0.331616 GTGGGCAGGGGTTGATAGTT 59.668 55.000 0.00 0.00 0.00 2.24
658 1307 0.623723 TGGGCAGGGGTTGATAGTTC 59.376 55.000 0.00 0.00 0.00 3.01
659 1308 0.919710 GGGCAGGGGTTGATAGTTCT 59.080 55.000 0.00 0.00 0.00 3.01
660 1309 1.285078 GGGCAGGGGTTGATAGTTCTT 59.715 52.381 0.00 0.00 0.00 2.52
661 1310 2.508300 GGGCAGGGGTTGATAGTTCTTA 59.492 50.000 0.00 0.00 0.00 2.10
662 1311 3.433740 GGGCAGGGGTTGATAGTTCTTAG 60.434 52.174 0.00 0.00 0.00 2.18
663 1312 3.454812 GGCAGGGGTTGATAGTTCTTAGA 59.545 47.826 0.00 0.00 0.00 2.10
664 1313 4.080526 GGCAGGGGTTGATAGTTCTTAGAA 60.081 45.833 0.00 0.00 0.00 2.10
665 1314 5.398012 GGCAGGGGTTGATAGTTCTTAGAAT 60.398 44.000 0.00 0.00 0.00 2.40
666 1315 6.183361 GGCAGGGGTTGATAGTTCTTAGAATA 60.183 42.308 0.00 0.00 0.00 1.75
667 1316 7.280356 GCAGGGGTTGATAGTTCTTAGAATAA 58.720 38.462 0.00 0.00 0.00 1.40
668 1317 7.773690 GCAGGGGTTGATAGTTCTTAGAATAAA 59.226 37.037 0.00 0.00 0.00 1.40
765 2431 0.109342 ATCCACCGGATGAAGATGGC 59.891 55.000 9.46 0.00 41.43 4.40
767 2433 1.153369 CACCGGATGAAGATGGCGT 60.153 57.895 9.46 0.00 0.00 5.68
802 2468 1.212751 GCTGGCATTTCGTTCCCAC 59.787 57.895 0.00 0.00 0.00 4.61
820 2486 2.434359 GGGGAACGTTCTCAGCCG 60.434 66.667 28.41 0.00 0.00 5.52
1131 2802 4.468689 CTCGCCGGTTCCCCCTTC 62.469 72.222 1.90 0.00 0.00 3.46
1222 2893 1.153168 CAGACCCCACTAATGGCCG 60.153 63.158 0.00 0.00 45.76 6.13
1223 2894 2.516225 GACCCCACTAATGGCCGC 60.516 66.667 0.00 0.00 45.76 6.53
1224 2895 4.483243 ACCCCACTAATGGCCGCG 62.483 66.667 0.00 0.00 45.76 6.46
1419 3096 0.889186 GCAAACTCCCGGAGAAGCAA 60.889 55.000 21.89 0.00 33.32 3.91
1494 3171 2.126031 GAGTTCGAGGCCCGTGTC 60.126 66.667 12.46 0.00 39.75 3.67
1593 3270 3.746492 GCATCTACGTCTTCAACACCTTT 59.254 43.478 0.00 0.00 0.00 3.11
1824 3501 2.290260 ACTGATCGTTTGGGAGAATGCA 60.290 45.455 0.00 0.00 0.00 3.96
2034 3711 2.685388 GGCAAAGAAGCTACAGAATCCC 59.315 50.000 0.00 0.00 34.17 3.85
2542 4219 6.228258 CCTGTAGGCTTCAGTTTGTTACTTA 58.772 40.000 18.22 0.00 33.85 2.24
2543 4220 6.879458 CCTGTAGGCTTCAGTTTGTTACTTAT 59.121 38.462 18.22 0.00 33.85 1.73
2693 4373 0.890996 GGTGCTGGTGGTTCTTGAGG 60.891 60.000 0.00 0.00 0.00 3.86
2694 4374 0.108585 GTGCTGGTGGTTCTTGAGGA 59.891 55.000 0.00 0.00 0.00 3.71
2695 4375 0.397941 TGCTGGTGGTTCTTGAGGAG 59.602 55.000 0.00 0.00 0.00 3.69
2789 4470 8.999431 GGTAGTGACAAGAAAATTGTTAGATGA 58.001 33.333 0.00 0.00 31.96 2.92
2942 4623 8.116651 TCTACTTATTTAAATGTGGCTGCAAA 57.883 30.769 11.05 0.00 0.00 3.68
3037 4719 0.250901 TGAGAAAGTGGGCCTTCTGC 60.251 55.000 10.92 4.50 40.16 4.26
3123 4809 6.049149 CGAGGATTATGATAACTGGTGTGTT 58.951 40.000 0.00 0.00 0.00 3.32
3133 4819 0.754957 CTGGTGTGTTTCTTGGGCCA 60.755 55.000 0.00 0.00 0.00 5.36
3375 5113 7.792364 AACGTCTTATATTATGGGATGGAGA 57.208 36.000 0.00 0.00 0.00 3.71
3387 5125 5.422214 TGGGATGGAGAGAGTACTTTTTC 57.578 43.478 0.00 0.00 0.00 2.29
3401 5139 2.032030 ACTTTTTCTGATGTTGCGACCG 60.032 45.455 0.45 0.00 0.00 4.79
3413 5151 0.961019 TGCGACCGGTTACTTGTACT 59.039 50.000 9.42 0.00 0.00 2.73
3414 5152 1.068333 TGCGACCGGTTACTTGTACTC 60.068 52.381 9.42 0.00 0.00 2.59
3415 5153 1.733718 GCGACCGGTTACTTGTACTCC 60.734 57.143 9.42 0.00 0.00 3.85
3418 5156 2.165234 GACCGGTTACTTGTACTCCCTC 59.835 54.545 9.42 0.00 0.00 4.30
3419 5157 1.479730 CCGGTTACTTGTACTCCCTCC 59.520 57.143 0.00 0.00 0.00 4.30
3421 5159 2.174360 GGTTACTTGTACTCCCTCCGT 58.826 52.381 0.00 0.00 0.00 4.69
3422 5160 2.564504 GGTTACTTGTACTCCCTCCGTT 59.435 50.000 0.00 0.00 0.00 4.44
3425 5163 3.446442 ACTTGTACTCCCTCCGTTCTA 57.554 47.619 0.00 0.00 0.00 2.10
3426 5164 3.771216 ACTTGTACTCCCTCCGTTCTAA 58.229 45.455 0.00 0.00 0.00 2.10
3427 5165 4.154942 ACTTGTACTCCCTCCGTTCTAAA 58.845 43.478 0.00 0.00 0.00 1.85
3430 5168 6.438425 ACTTGTACTCCCTCCGTTCTAAATTA 59.562 38.462 0.00 0.00 0.00 1.40
3431 5169 6.212888 TGTACTCCCTCCGTTCTAAATTAC 57.787 41.667 0.00 0.00 0.00 1.89
3437 5175 4.982916 CCCTCCGTTCTAAATTACTCATCG 59.017 45.833 0.00 0.00 0.00 3.84
3438 5176 4.444720 CCTCCGTTCTAAATTACTCATCGC 59.555 45.833 0.00 0.00 0.00 4.58
3439 5177 5.001237 TCCGTTCTAAATTACTCATCGCA 57.999 39.130 0.00 0.00 0.00 5.10
3441 5179 5.041287 CCGTTCTAAATTACTCATCGCAGA 58.959 41.667 0.00 0.00 45.75 4.26
3442 5180 5.518847 CCGTTCTAAATTACTCATCGCAGAA 59.481 40.000 0.00 0.00 43.58 3.02
3444 5182 7.254455 CCGTTCTAAATTACTCATCGCAGAAAT 60.254 37.037 0.00 0.00 43.58 2.17
3445 5183 7.580523 CGTTCTAAATTACTCATCGCAGAAATG 59.419 37.037 0.00 0.00 43.58 2.32
3447 5185 7.272244 TCTAAATTACTCATCGCAGAAATGGA 58.728 34.615 0.00 0.00 43.58 3.41
3449 5187 5.936686 ATTACTCATCGCAGAAATGGATG 57.063 39.130 0.00 0.00 43.58 3.51
3457 5195 7.216494 TCATCGCAGAAATGGATGTATTTAGA 58.784 34.615 0.80 0.00 43.58 2.10
3458 5196 7.714813 TCATCGCAGAAATGGATGTATTTAGAA 59.285 33.333 0.80 0.00 43.58 2.10
3489 5227 9.672673 AATACATCTAAATACATCCATACCTGC 57.327 33.333 0.00 0.00 0.00 4.85
3490 5228 6.166279 ACATCTAAATACATCCATACCTGCG 58.834 40.000 0.00 0.00 0.00 5.18
3491 5229 6.014584 ACATCTAAATACATCCATACCTGCGA 60.015 38.462 0.00 0.00 0.00 5.10
3492 5230 5.779922 TCTAAATACATCCATACCTGCGAC 58.220 41.667 0.00 0.00 0.00 5.19
3493 5231 4.415881 AAATACATCCATACCTGCGACA 57.584 40.909 0.00 0.00 0.00 4.35
3494 5232 4.415881 AATACATCCATACCTGCGACAA 57.584 40.909 0.00 0.00 0.00 3.18
3495 5233 2.315925 ACATCCATACCTGCGACAAG 57.684 50.000 0.00 0.00 0.00 3.16
3496 5234 1.555075 ACATCCATACCTGCGACAAGT 59.445 47.619 0.00 0.00 0.00 3.16
3497 5235 2.764010 ACATCCATACCTGCGACAAGTA 59.236 45.455 0.00 0.00 0.00 2.24
3498 5236 3.196901 ACATCCATACCTGCGACAAGTAA 59.803 43.478 0.00 0.00 0.00 2.24
3499 5237 4.141711 ACATCCATACCTGCGACAAGTAAT 60.142 41.667 0.00 0.00 0.00 1.89
3500 5238 4.481368 TCCATACCTGCGACAAGTAATT 57.519 40.909 0.00 0.00 0.00 1.40
3501 5239 4.439057 TCCATACCTGCGACAAGTAATTC 58.561 43.478 0.00 0.00 0.00 2.17
3502 5240 3.245284 CCATACCTGCGACAAGTAATTCG 59.755 47.826 0.00 0.00 38.31 3.34
3503 5241 1.722011 ACCTGCGACAAGTAATTCGG 58.278 50.000 0.00 0.00 35.73 4.30
3504 5242 1.274167 ACCTGCGACAAGTAATTCGGA 59.726 47.619 0.00 0.00 35.73 4.55
3506 5244 2.093783 CCTGCGACAAGTAATTCGGAAC 59.906 50.000 0.00 0.00 35.02 3.62
3526 5432 5.008514 GGAACGAAGGGAGTACATACTAGTC 59.991 48.000 0.00 0.00 36.50 2.59
3558 5464 2.539302 AGGGTTGATTGGGTCATTTGG 58.461 47.619 0.00 0.00 36.54 3.28
3663 5569 2.161855 GTGAATGGTGGATGAAGCACA 58.838 47.619 0.00 0.00 0.00 4.57
3667 5573 3.719268 ATGGTGGATGAAGCACAGTTA 57.281 42.857 0.00 0.00 0.00 2.24
3680 5586 2.423538 GCACAGTTACATGATTCCCACC 59.576 50.000 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 7.237679 AGCAGGGTAATACACATATCCTACAAT 59.762 37.037 0.00 0.00 0.00 2.71
22 23 6.082031 AGCAGGGTAATACACATATCCTACA 58.918 40.000 0.00 0.00 0.00 2.74
47 48 7.944729 AGCTTGAACCTTAACACATCATATT 57.055 32.000 0.00 0.00 0.00 1.28
54 55 6.148811 GCATTACTAGCTTGAACCTTAACACA 59.851 38.462 1.04 0.00 0.00 3.72
69 70 0.389391 TCGGAGCCAGCATTACTAGC 59.611 55.000 0.00 0.00 32.49 3.42
80 81 4.289238 TGGTAGTTTTATTTCGGAGCCA 57.711 40.909 0.00 0.00 0.00 4.75
99 100 2.346766 TGCACCCTAGCACATAATGG 57.653 50.000 0.00 0.00 40.11 3.16
108 109 1.076727 ACCCCTTTTGCACCCTAGC 59.923 57.895 0.00 0.00 0.00 3.42
179 500 1.951602 CATCCATCGTGGCACATCAAT 59.048 47.619 19.09 2.26 44.52 2.57
186 507 1.065564 TGTGATTCATCCATCGTGGCA 60.066 47.619 0.00 0.00 37.47 4.92
192 513 1.952296 GGCCAGTGTGATTCATCCATC 59.048 52.381 0.00 0.00 0.00 3.51
200 521 1.830279 CTGACATGGCCAGTGTGATT 58.170 50.000 20.93 0.00 0.00 2.57
217 538 3.181499 GCATGTTTCATCTCCTTGAGCTG 60.181 47.826 0.00 0.00 0.00 4.24
262 583 0.038166 TGGCCCTCAAACTTGCTAGG 59.962 55.000 0.00 0.00 0.00 3.02
286 607 6.014012 AGTTTCTAGACTTAGAACCTGCTCT 58.986 40.000 0.00 0.00 43.72 4.09
296 617 8.819643 AGTTGCAGTTTAGTTTCTAGACTTAG 57.180 34.615 0.00 0.00 0.00 2.18
306 627 8.903820 ACTTATCAAGAAGTTGCAGTTTAGTTT 58.096 29.630 0.00 0.00 36.19 2.66
525 848 0.899720 TTCGTTCGGTTGGAGCCTAT 59.100 50.000 0.00 0.00 0.00 2.57
527 850 1.301479 GTTCGTTCGGTTGGAGCCT 60.301 57.895 0.00 0.00 0.00 4.58
587 1235 2.270257 TTCGCTTGCCATGCTGCTT 61.270 52.632 0.00 0.00 0.00 3.91
597 1245 4.404654 CCAAGGCCGTTCGCTTGC 62.405 66.667 0.00 0.00 37.74 4.01
615 1263 3.842732 AAAACGCCTAATAACTGCCAC 57.157 42.857 0.00 0.00 0.00 5.01
639 1288 0.623723 GAACTATCAACCCCTGCCCA 59.376 55.000 0.00 0.00 0.00 5.36
646 1295 8.272889 ACCCTTTATTCTAAGAACTATCAACCC 58.727 37.037 0.00 0.00 0.00 4.11
647 1296 9.110502 CACCCTTTATTCTAAGAACTATCAACC 57.889 37.037 0.00 0.00 0.00 3.77
648 1297 9.886132 TCACCCTTTATTCTAAGAACTATCAAC 57.114 33.333 0.00 0.00 0.00 3.18
649 1298 9.886132 GTCACCCTTTATTCTAAGAACTATCAA 57.114 33.333 0.00 0.00 0.00 2.57
650 1299 9.042450 TGTCACCCTTTATTCTAAGAACTATCA 57.958 33.333 0.00 0.00 0.00 2.15
651 1300 9.535878 CTGTCACCCTTTATTCTAAGAACTATC 57.464 37.037 0.00 0.00 0.00 2.08
652 1301 9.047947 ACTGTCACCCTTTATTCTAAGAACTAT 57.952 33.333 0.00 0.00 0.00 2.12
653 1302 8.431910 ACTGTCACCCTTTATTCTAAGAACTA 57.568 34.615 0.00 0.00 0.00 2.24
654 1303 7.317722 ACTGTCACCCTTTATTCTAAGAACT 57.682 36.000 0.00 0.00 0.00 3.01
655 1304 7.981102 AACTGTCACCCTTTATTCTAAGAAC 57.019 36.000 0.00 0.00 0.00 3.01
656 1305 8.990163 AAAACTGTCACCCTTTATTCTAAGAA 57.010 30.769 0.00 0.00 0.00 2.52
657 1306 8.990163 AAAAACTGTCACCCTTTATTCTAAGA 57.010 30.769 0.00 0.00 0.00 2.10
661 1310 8.990163 TTCTAAAAACTGTCACCCTTTATTCT 57.010 30.769 0.00 0.00 0.00 2.40
662 1311 9.459640 GTTTCTAAAAACTGTCACCCTTTATTC 57.540 33.333 0.00 0.00 41.32 1.75
765 2431 0.944311 CGAACCACCTCTGAACCACG 60.944 60.000 0.00 0.00 0.00 4.94
767 2433 1.070786 GCGAACCACCTCTGAACCA 59.929 57.895 0.00 0.00 0.00 3.67
802 2468 2.434359 GGCTGAGAACGTTCCCCG 60.434 66.667 24.22 10.75 44.03 5.73
803 2469 2.434359 CGGCTGAGAACGTTCCCC 60.434 66.667 24.22 17.29 0.00 4.81
820 2486 7.326789 GCTTTAAGGTTGTTTTACGGAAATACC 59.673 37.037 10.18 10.18 36.13 2.73
1011 2682 1.535202 GTTGGGATTGGGGTTGCCA 60.535 57.895 0.00 0.00 32.13 4.92
1131 2802 3.036431 GGTGTGGAAAAGACCCTGG 57.964 57.895 0.00 0.00 36.15 4.45
1911 3588 2.551459 CAGCTTGAACTTCTCAGGGTTG 59.449 50.000 0.00 0.00 39.64 3.77
2034 3711 4.625742 CACATAAAGTACGAAGGGTCACTG 59.374 45.833 0.00 0.00 0.00 3.66
2693 4373 5.412904 CCAAGGGAACTACAACAATCTTCTC 59.587 44.000 0.00 0.00 42.68 2.87
2694 4374 5.163088 ACCAAGGGAACTACAACAATCTTCT 60.163 40.000 0.00 0.00 42.68 2.85
2695 4375 5.048713 CACCAAGGGAACTACAACAATCTTC 60.049 44.000 0.00 0.00 42.68 2.87
2789 4470 3.329889 TGCCAGGTTCCTCCGCAT 61.330 61.111 6.16 0.00 41.99 4.73
2865 4546 3.290710 CATTTACCATGACAAGGAGGGG 58.709 50.000 3.17 0.00 0.00 4.79
2942 4623 3.071479 CACACGCCATACAAACCTAACT 58.929 45.455 0.00 0.00 0.00 2.24
2973 4654 0.478072 ACATGGTGCCCAGTGAGAAA 59.522 50.000 0.00 0.00 36.75 2.52
3037 4719 2.226437 CCTCCACTTCCACGTTCAAATG 59.774 50.000 0.00 0.00 0.00 2.32
3133 4819 4.718961 CCACGGATAAAAGAGAATGGGAT 58.281 43.478 0.00 0.00 0.00 3.85
3137 4823 3.877508 GGACCCACGGATAAAAGAGAATG 59.122 47.826 0.00 0.00 0.00 2.67
3220 4906 1.522258 GGAACACAACATGCAAAAGCG 59.478 47.619 0.00 0.00 0.00 4.68
3231 4917 0.106918 TCACACCCTGGGAACACAAC 60.107 55.000 22.23 0.00 35.60 3.32
3353 5091 7.340743 ACTCTCTCCATCCCATAATATAAGACG 59.659 40.741 0.00 0.00 0.00 4.18
3370 5108 6.672266 ACATCAGAAAAAGTACTCTCTCCA 57.328 37.500 0.00 0.00 0.00 3.86
3375 5113 5.177696 GTCGCAACATCAGAAAAAGTACTCT 59.822 40.000 0.00 0.00 0.00 3.24
3387 5125 0.719465 GTAACCGGTCGCAACATCAG 59.281 55.000 8.04 0.00 0.00 2.90
3401 5139 2.174360 ACGGAGGGAGTACAAGTAACC 58.826 52.381 0.00 0.00 0.00 2.85
3413 5151 5.221185 CGATGAGTAATTTAGAACGGAGGGA 60.221 44.000 0.00 0.00 0.00 4.20
3414 5152 4.982916 CGATGAGTAATTTAGAACGGAGGG 59.017 45.833 0.00 0.00 0.00 4.30
3415 5153 4.444720 GCGATGAGTAATTTAGAACGGAGG 59.555 45.833 0.00 0.00 0.00 4.30
3418 5156 5.041287 TCTGCGATGAGTAATTTAGAACGG 58.959 41.667 0.00 0.00 0.00 4.44
3419 5157 6.569228 TTCTGCGATGAGTAATTTAGAACG 57.431 37.500 0.00 0.00 0.00 3.95
3421 5159 7.768582 TCCATTTCTGCGATGAGTAATTTAGAA 59.231 33.333 0.00 0.00 0.00 2.10
3422 5160 7.272244 TCCATTTCTGCGATGAGTAATTTAGA 58.728 34.615 0.00 0.00 0.00 2.10
3425 5163 6.319658 ACATCCATTTCTGCGATGAGTAATTT 59.680 34.615 3.44 0.00 35.42 1.82
3426 5164 5.824624 ACATCCATTTCTGCGATGAGTAATT 59.175 36.000 3.44 0.00 35.42 1.40
3427 5165 5.371526 ACATCCATTTCTGCGATGAGTAAT 58.628 37.500 3.44 0.00 35.42 1.89
3430 5168 3.272574 ACATCCATTTCTGCGATGAGT 57.727 42.857 3.44 0.00 35.42 3.41
3431 5169 5.936686 AATACATCCATTTCTGCGATGAG 57.063 39.130 3.44 0.00 35.42 2.90
3464 5202 7.981789 CGCAGGTATGGATGTATTTAGATGTAT 59.018 37.037 0.00 0.00 0.00 2.29
3467 5205 6.311445 GTCGCAGGTATGGATGTATTTAGATG 59.689 42.308 0.00 0.00 0.00 2.90
3469 5207 5.303333 TGTCGCAGGTATGGATGTATTTAGA 59.697 40.000 0.00 0.00 0.00 2.10
3470 5208 5.538118 TGTCGCAGGTATGGATGTATTTAG 58.462 41.667 0.00 0.00 0.00 1.85
3472 5210 4.415881 TGTCGCAGGTATGGATGTATTT 57.584 40.909 0.00 0.00 0.00 1.40
3474 5212 3.388024 ACTTGTCGCAGGTATGGATGTAT 59.612 43.478 0.00 0.00 0.00 2.29
3475 5213 2.764010 ACTTGTCGCAGGTATGGATGTA 59.236 45.455 0.00 0.00 0.00 2.29
3477 5215 2.315925 ACTTGTCGCAGGTATGGATG 57.684 50.000 0.00 0.00 0.00 3.51
3479 5217 4.439057 GAATTACTTGTCGCAGGTATGGA 58.561 43.478 3.46 0.00 0.00 3.41
3483 5221 2.492881 TCCGAATTACTTGTCGCAGGTA 59.507 45.455 0.00 0.00 35.93 3.08
3484 5222 1.274167 TCCGAATTACTTGTCGCAGGT 59.726 47.619 0.00 0.91 35.93 4.00
3486 5224 2.222508 CGTTCCGAATTACTTGTCGCAG 60.223 50.000 0.00 0.00 35.93 5.18
3487 5225 1.722464 CGTTCCGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 35.93 5.10
3488 5226 1.987770 TCGTTCCGAATTACTTGTCGC 59.012 47.619 0.00 0.00 35.93 5.19
3489 5227 3.060363 CCTTCGTTCCGAATTACTTGTCG 59.940 47.826 0.00 0.00 44.85 4.35
3490 5228 3.370061 CCCTTCGTTCCGAATTACTTGTC 59.630 47.826 0.00 0.00 44.85 3.18
3491 5229 3.007182 TCCCTTCGTTCCGAATTACTTGT 59.993 43.478 0.00 0.00 44.85 3.16
3492 5230 3.592059 TCCCTTCGTTCCGAATTACTTG 58.408 45.455 0.00 0.00 44.85 3.16
3493 5231 3.260128 ACTCCCTTCGTTCCGAATTACTT 59.740 43.478 0.00 0.00 44.85 2.24
3494 5232 2.830321 ACTCCCTTCGTTCCGAATTACT 59.170 45.455 0.00 0.00 44.85 2.24
3495 5233 3.242549 ACTCCCTTCGTTCCGAATTAC 57.757 47.619 0.00 0.00 44.85 1.89
3496 5234 3.763360 TGTACTCCCTTCGTTCCGAATTA 59.237 43.478 0.00 0.00 44.85 1.40
3497 5235 2.564062 TGTACTCCCTTCGTTCCGAATT 59.436 45.455 0.00 0.00 44.85 2.17
3498 5236 2.173519 TGTACTCCCTTCGTTCCGAAT 58.826 47.619 0.00 0.00 44.85 3.34
3499 5237 1.619654 TGTACTCCCTTCGTTCCGAA 58.380 50.000 0.00 0.00 43.75 4.30
3500 5238 1.843368 ATGTACTCCCTTCGTTCCGA 58.157 50.000 0.00 0.00 0.00 4.55
3501 5239 2.686915 AGTATGTACTCCCTTCGTTCCG 59.313 50.000 0.00 0.00 0.00 4.30
3502 5240 4.886489 ACTAGTATGTACTCCCTTCGTTCC 59.114 45.833 0.00 0.00 37.73 3.62
3503 5241 5.821995 AGACTAGTATGTACTCCCTTCGTTC 59.178 44.000 0.00 0.00 37.73 3.95
3504 5242 5.753716 AGACTAGTATGTACTCCCTTCGTT 58.246 41.667 0.00 0.00 37.73 3.85
3506 5244 6.765036 TGTTAGACTAGTATGTACTCCCTTCG 59.235 42.308 0.00 0.00 37.73 3.79
3507 5245 8.694581 ATGTTAGACTAGTATGTACTCCCTTC 57.305 38.462 0.00 0.00 37.73 3.46
3526 5432 7.676004 ACCCAATCAACCCTTTTTAATGTTAG 58.324 34.615 0.00 0.00 0.00 2.34
3558 5464 2.593128 ACCTAGCGGTTCCCTTCTC 58.407 57.895 0.00 0.00 42.13 2.87
3578 5484 2.092914 TCAGTAGTCTGATCTCTGGCGA 60.093 50.000 0.00 0.00 44.58 5.54
3663 5569 2.919602 ACAGGGTGGGAATCATGTAACT 59.080 45.455 0.00 0.00 0.00 2.24
3667 5573 2.242196 CCTAACAGGGTGGGAATCATGT 59.758 50.000 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.