Multiple sequence alignment - TraesCS2B01G097500

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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 TraesCS2B01G097500 chr2B 100.000 2192 0 0 1 2192 57663625 57665816 0.000000e+00 4048
1 TraesCS2B01G097500 chr2B 90.155 1422 139 1 771 2192 57672448 57673868 0.000000e+00 1849
2 TraesCS2B01G097500 chr2B 86.021 1259 174 2 929 2186 706418483 706417226 0.000000e+00 1349
3 TraesCS2B01G097500 chr2B 85.130 269 36 3 3 271 373112464 373112728 2.770000e-69 272
4 TraesCS2B01G097500 chr2D 97.238 1557 43 0 636 2192 34987755 34989311 0.000000e+00 2638
5 TraesCS2B01G097500 chr2D 90.864 1423 127 3 771 2192 34994645 34996065 0.000000e+00 1905
6 TraesCS2B01G097500 chr2D 87.251 1255 158 2 929 2182 585477150 585475897 0.000000e+00 1430
7 TraesCS2B01G097500 chr2D 86.418 1259 164 7 929 2185 585517413 585516160 0.000000e+00 1371
8 TraesCS2B01G097500 chr2D 92.049 566 42 3 1 564 34987179 34987743 0.000000e+00 793
9 TraesCS2B01G097500 chr2D 80.062 321 58 6 20 335 489045962 489046281 1.310000e-57 233
10 TraesCS2B01G097500 chr2A 97.257 1422 39 0 771 2192 38309165 38310586 0.000000e+00 2410
11 TraesCS2B01G097500 chr2A 87.022 1256 156 6 929 2183 719541278 719540029 0.000000e+00 1410
12 TraesCS2B01G097500 chr2A 85.866 1224 145 17 963 2168 478762812 478761599 0.000000e+00 1277
13 TraesCS2B01G097500 chr2A 84.828 145 20 2 635 778 389627427 389627570 6.310000e-31 145
14 TraesCS2B01G097500 chr6A 84.615 273 39 2 1 270 9458807 9459079 3.590000e-68 268
15 TraesCS2B01G097500 chr4D 85.081 248 33 3 1 245 195014459 195014705 1.300000e-62 250
16 TraesCS2B01G097500 chr4D 85.020 247 34 2 2 245 391645806 391645560 4.670000e-62 248
17 TraesCS2B01G097500 chr1D 83.740 246 36 3 4 245 104576038 104575793 1.690000e-56 230
18 TraesCS2B01G097500 chr7D 82.331 266 40 7 9 270 512682984 512683246 7.880000e-55 224
19 TraesCS2B01G097500 chr7D 80.496 282 52 2 1 279 245416291 245416010 1.700000e-51 213
20 TraesCS2B01G097500 chr5D 81.935 155 25 3 182 335 465014722 465014874 6.350000e-26 128


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 TraesCS2B01G097500 chr2B 57663625 57665816 2191 False 4048.0 4048 100.0000 1 2192 1 chr2B.!!$F1 2191
1 TraesCS2B01G097500 chr2B 57672448 57673868 1420 False 1849.0 1849 90.1550 771 2192 1 chr2B.!!$F2 1421
2 TraesCS2B01G097500 chr2B 706417226 706418483 1257 True 1349.0 1349 86.0210 929 2186 1 chr2B.!!$R1 1257
3 TraesCS2B01G097500 chr2D 34994645 34996065 1420 False 1905.0 1905 90.8640 771 2192 1 chr2D.!!$F1 1421
4 TraesCS2B01G097500 chr2D 34987179 34989311 2132 False 1715.5 2638 94.6435 1 2192 2 chr2D.!!$F3 2191
5 TraesCS2B01G097500 chr2D 585475897 585477150 1253 True 1430.0 1430 87.2510 929 2182 1 chr2D.!!$R1 1253
6 TraesCS2B01G097500 chr2D 585516160 585517413 1253 True 1371.0 1371 86.4180 929 2185 1 chr2D.!!$R2 1256
7 TraesCS2B01G097500 chr2A 38309165 38310586 1421 False 2410.0 2410 97.2570 771 2192 1 chr2A.!!$F1 1421
8 TraesCS2B01G097500 chr2A 719540029 719541278 1249 True 1410.0 1410 87.0220 929 2183 1 chr2A.!!$R2 1254
9 TraesCS2B01G097500 chr2A 478761599 478762812 1213 True 1277.0 1277 85.8660 963 2168 1 chr2A.!!$R1 1205

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
609 612 0.038455 GAGGGAGAGATAGCGGGCTA 59.962 60.0 2.42 2.42 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1996 2005 0.975887 CCCCTTGTTTGGGTTCATGG 59.024 55.0 0.0 0.0 45.7 3.66 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
35 36 2.267006 CGCCATGCTGGAGACTGT 59.733 61.111 6.40 0.00 39.92 3.55
37 38 1.297689 GCCATGCTGGAGACTGTCA 59.702 57.895 10.88 0.00 40.96 3.58
66 67 1.739562 GAGGTGAGCTTGAGTGGCG 60.740 63.158 0.00 0.00 34.52 5.69
77 78 4.316823 AGTGGCGGAGGGGAGTGA 62.317 66.667 0.00 0.00 0.00 3.41
81 82 0.619255 TGGCGGAGGGGAGTGAAATA 60.619 55.000 0.00 0.00 0.00 1.40
102 103 0.770557 AGTGGCTAGGGTTTGGTCCA 60.771 55.000 0.00 0.00 0.00 4.02
104 105 1.378646 GGCTAGGGTTTGGTCCAGC 60.379 63.158 0.00 0.00 0.00 4.85
108 109 0.834687 TAGGGTTTGGTCCAGCGAGT 60.835 55.000 0.00 0.00 0.00 4.18
110 111 1.070786 GGTTTGGTCCAGCGAGTGA 59.929 57.895 0.00 0.00 0.00 3.41
123 124 1.959042 CGAGTGAATGGGGAGGAATG 58.041 55.000 0.00 0.00 0.00 2.67
223 224 1.372683 CTGGATATGAGGGGTGCCG 59.627 63.158 0.00 0.00 0.00 5.69
226 227 1.705997 GGATATGAGGGGTGCCGGTT 61.706 60.000 1.90 0.00 0.00 4.44
235 236 2.590092 GTGCCGGTTAGCCCAGAT 59.410 61.111 1.90 0.00 0.00 2.90
249 250 1.236616 CCAGATGTTTGAGGCGTGCA 61.237 55.000 0.00 0.00 0.00 4.57
253 254 2.093500 AGATGTTTGAGGCGTGCATCTA 60.093 45.455 8.06 0.00 42.82 1.98
286 287 3.207547 GACCAAGCCGTTTGCCCAC 62.208 63.158 0.00 0.00 42.71 4.61
288 289 3.591835 CAAGCCGTTTGCCCACGT 61.592 61.111 4.29 0.00 42.71 4.49
292 293 2.802106 CCGTTTGCCCACGTGTTT 59.198 55.556 15.65 0.00 38.57 2.83
300 301 1.752198 CCCACGTGTTTGAGGAGGA 59.248 57.895 15.65 0.00 0.00 3.71
349 350 4.706842 AACGCATGGGAAGATAATACCT 57.293 40.909 17.76 0.00 0.00 3.08
352 353 4.287067 ACGCATGGGAAGATAATACCTGAT 59.713 41.667 17.76 0.00 0.00 2.90
360 361 5.696724 GGAAGATAATACCTGATGTTCGTGG 59.303 44.000 0.00 0.00 0.00 4.94
367 368 2.104111 ACCTGATGTTCGTGGTTCAAGA 59.896 45.455 0.00 0.00 0.00 3.02
377 378 1.992037 GGTTCAAGACCCCTCCTCC 59.008 63.158 0.00 0.00 43.06 4.30
398 401 6.990349 CCTCCCGCTACATTTCTTTCTATTTA 59.010 38.462 0.00 0.00 0.00 1.40
408 411 8.956426 ACATTTCTTTCTATTTATTTCTCCGCA 58.044 29.630 0.00 0.00 0.00 5.69
413 416 7.987458 TCTTTCTATTTATTTCTCCGCATCTGT 59.013 33.333 0.00 0.00 0.00 3.41
445 448 9.520515 AATATAATAGAATGTTTACCTGGGCAG 57.479 33.333 0.00 0.00 0.00 4.85
472 475 4.202151 ACACAAATTCTTCTGGTTTGGCTC 60.202 41.667 0.00 0.00 37.20 4.70
473 476 3.960102 ACAAATTCTTCTGGTTTGGCTCA 59.040 39.130 0.00 0.00 37.20 4.26
487 490 1.560860 GGCTCATTATCTCGCACGCC 61.561 60.000 0.00 0.00 0.00 5.68
492 495 0.747255 ATTATCTCGCACGCCTGACT 59.253 50.000 0.00 0.00 0.00 3.41
512 515 1.062488 AGTGCAAGGTCCCAGGTTCT 61.062 55.000 0.00 0.00 0.00 3.01
542 545 8.842358 TCCGTTGTTCTTTTCTAAGTCAATAT 57.158 30.769 0.00 0.00 33.19 1.28
564 567 3.589654 TTTCTCGCGCCCTCACTGG 62.590 63.158 0.00 0.00 0.00 4.00
577 580 2.450502 ACTGGCAAGTGGGTCCCT 60.451 61.111 10.00 0.00 34.48 4.20
578 581 2.352805 CTGGCAAGTGGGTCCCTC 59.647 66.667 10.00 5.53 0.00 4.30
579 582 3.612247 CTGGCAAGTGGGTCCCTCG 62.612 68.421 10.00 0.00 0.00 4.63
582 585 3.691342 CAAGTGGGTCCCTCGCGA 61.691 66.667 9.26 9.26 0.00 5.87
583 586 2.920912 AAGTGGGTCCCTCGCGAA 60.921 61.111 11.33 0.00 0.00 4.70
584 587 3.236003 AAGTGGGTCCCTCGCGAAC 62.236 63.158 11.33 5.42 0.00 3.95
585 588 3.998672 GTGGGTCCCTCGCGAACA 61.999 66.667 11.33 0.00 0.00 3.18
586 589 3.000819 TGGGTCCCTCGCGAACAT 61.001 61.111 11.33 0.00 0.00 2.71
587 590 2.511600 GGGTCCCTCGCGAACATG 60.512 66.667 11.33 0.00 0.00 3.21
588 591 2.511600 GGTCCCTCGCGAACATGG 60.512 66.667 11.33 7.82 0.00 3.66
589 592 2.577059 GTCCCTCGCGAACATGGA 59.423 61.111 11.33 11.16 0.00 3.41
590 593 1.519455 GTCCCTCGCGAACATGGAG 60.519 63.158 11.33 2.42 0.00 3.86
591 594 1.680989 TCCCTCGCGAACATGGAGA 60.681 57.895 11.33 4.84 0.00 3.71
592 595 1.227089 CCCTCGCGAACATGGAGAG 60.227 63.158 11.33 0.00 0.00 3.20
593 596 1.227089 CCTCGCGAACATGGAGAGG 60.227 63.158 11.33 0.00 43.45 3.69
594 597 1.227089 CTCGCGAACATGGAGAGGG 60.227 63.158 11.33 0.00 0.00 4.30
595 598 1.667154 CTCGCGAACATGGAGAGGGA 61.667 60.000 11.33 0.00 0.00 4.20
596 599 1.227089 CGCGAACATGGAGAGGGAG 60.227 63.158 0.00 0.00 0.00 4.30
597 600 1.667154 CGCGAACATGGAGAGGGAGA 61.667 60.000 0.00 0.00 0.00 3.71
598 601 0.103937 GCGAACATGGAGAGGGAGAG 59.896 60.000 0.00 0.00 0.00 3.20
599 602 1.769026 CGAACATGGAGAGGGAGAGA 58.231 55.000 0.00 0.00 0.00 3.10
600 603 2.315176 CGAACATGGAGAGGGAGAGAT 58.685 52.381 0.00 0.00 0.00 2.75
601 604 3.491342 CGAACATGGAGAGGGAGAGATA 58.509 50.000 0.00 0.00 0.00 1.98
602 605 3.505680 CGAACATGGAGAGGGAGAGATAG 59.494 52.174 0.00 0.00 0.00 2.08
603 606 2.888212 ACATGGAGAGGGAGAGATAGC 58.112 52.381 0.00 0.00 0.00 2.97
604 607 1.818060 CATGGAGAGGGAGAGATAGCG 59.182 57.143 0.00 0.00 0.00 4.26
605 608 0.111446 TGGAGAGGGAGAGATAGCGG 59.889 60.000 0.00 0.00 0.00 5.52
606 609 0.610785 GGAGAGGGAGAGATAGCGGG 60.611 65.000 0.00 0.00 0.00 6.13
607 610 1.228737 AGAGGGAGAGATAGCGGGC 60.229 63.158 0.00 0.00 0.00 6.13
608 611 1.228737 GAGGGAGAGATAGCGGGCT 60.229 63.158 0.00 0.00 0.00 5.19
609 612 0.038455 GAGGGAGAGATAGCGGGCTA 59.962 60.000 2.42 2.42 0.00 3.93
610 613 0.251430 AGGGAGAGATAGCGGGCTAC 60.251 60.000 1.91 0.00 0.00 3.58
611 614 0.251430 GGGAGAGATAGCGGGCTACT 60.251 60.000 1.91 2.89 0.00 2.57
612 615 0.885196 GGAGAGATAGCGGGCTACTG 59.115 60.000 1.91 0.00 0.00 2.74
619 622 4.457496 GCGGGCTACTGCTGCAGA 62.457 66.667 34.28 17.28 45.70 4.26
620 623 2.503061 CGGGCTACTGCTGCAGAT 59.497 61.111 34.28 20.47 39.59 2.90
621 624 1.742146 CGGGCTACTGCTGCAGATA 59.258 57.895 34.28 20.49 39.59 1.98
622 625 0.104855 CGGGCTACTGCTGCAGATAA 59.895 55.000 34.28 17.97 39.59 1.75
623 626 1.587547 GGGCTACTGCTGCAGATAAC 58.412 55.000 34.28 20.18 39.59 1.89
624 627 1.134401 GGGCTACTGCTGCAGATAACA 60.134 52.381 34.28 13.12 39.59 2.41
625 628 2.486191 GGGCTACTGCTGCAGATAACAT 60.486 50.000 34.28 14.46 39.59 2.71
626 629 2.547211 GGCTACTGCTGCAGATAACATG 59.453 50.000 34.28 15.87 39.59 3.21
627 630 2.032204 GCTACTGCTGCAGATAACATGC 60.032 50.000 34.28 20.55 44.11 4.06
650 653 2.360553 TAACGCCGTCGGATTTAACA 57.639 45.000 17.49 0.00 40.69 2.41
651 654 1.510776 AACGCCGTCGGATTTAACAA 58.489 45.000 17.49 0.00 40.69 2.83
661 664 7.469260 CCGTCGGATTTAACAAAATTGTATCT 58.531 34.615 4.91 0.00 41.31 1.98
697 700 6.775594 AAGCAAGTTGAAGGACTACTTTTT 57.224 33.333 7.16 0.00 41.13 1.94
741 744 2.688958 CGTTTTGTTCCCTTGGGTACAA 59.311 45.455 21.68 21.68 34.87 2.41
859 862 7.112122 TGCCATGATACTCTAACAAAGAATGT 58.888 34.615 0.00 0.00 46.82 2.71
860 863 7.066163 TGCCATGATACTCTAACAAAGAATGTG 59.934 37.037 0.00 0.00 42.99 3.21
910 913 4.098349 AGCTATTGTTGTATTGCCATGGTG 59.902 41.667 14.67 0.00 0.00 4.17
984 987 6.049790 CCTCTACTTTCAGCCATAGGTAAAC 58.950 44.000 0.00 0.00 0.00 2.01
1109 1112 2.032681 ACCCGCAAACTCCTCTGC 59.967 61.111 0.00 0.00 35.14 4.26
1152 1155 5.630121 TCCCATACAAACAAGATGACAGTT 58.370 37.500 0.00 0.00 0.00 3.16
1197 1200 6.469782 AAGTATGCCCCAATGTAAAATGAG 57.530 37.500 0.00 0.00 0.00 2.90
1233 1236 1.312815 GGAGCGGGATGAATTTGGAG 58.687 55.000 0.00 0.00 0.00 3.86
1663 1667 4.524802 AGGCCAATCTTTCCATATGTGA 57.475 40.909 5.01 0.00 0.00 3.58
1787 1791 5.885912 GTGGGAATATCATTGGTACTGTTGT 59.114 40.000 0.00 0.00 0.00 3.32
1898 1902 7.553881 TTTCCTCGACTGATAATTTGGAATC 57.446 36.000 0.00 0.00 33.19 2.52
1923 1927 9.866655 TCCTTATCATCTGCAATTATAAAAGGT 57.133 29.630 9.69 0.00 32.37 3.50
2061 2070 7.588854 CGTGCATTCATTATTTCCTTGATAGTG 59.411 37.037 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 1.098869 GCGATCTCTGACAGTCTCCA 58.901 55.000 1.59 0.00 0.00 3.86
35 36 2.121538 CACCTCCGGCGATCTCTGA 61.122 63.158 9.30 0.00 0.00 3.27
37 38 1.826054 CTCACCTCCGGCGATCTCT 60.826 63.158 9.30 0.00 0.00 3.10
66 67 3.621558 CCACTTTATTTCACTCCCCTCC 58.378 50.000 0.00 0.00 0.00 4.30
77 78 4.747583 ACCAAACCCTAGCCACTTTATTT 58.252 39.130 0.00 0.00 0.00 1.40
81 82 1.203013 GGACCAAACCCTAGCCACTTT 60.203 52.381 0.00 0.00 0.00 2.66
102 103 0.909610 TTCCTCCCCATTCACTCGCT 60.910 55.000 0.00 0.00 0.00 4.93
104 105 1.210478 ACATTCCTCCCCATTCACTCG 59.790 52.381 0.00 0.00 0.00 4.18
108 109 3.117550 CCACATACATTCCTCCCCATTCA 60.118 47.826 0.00 0.00 0.00 2.57
110 111 2.177669 CCCACATACATTCCTCCCCATT 59.822 50.000 0.00 0.00 0.00 3.16
123 124 2.587889 CCACCCGACCCCACATAC 59.412 66.667 0.00 0.00 0.00 2.39
223 224 2.369394 CCTCAAACATCTGGGCTAACC 58.631 52.381 0.00 0.00 40.81 2.85
226 227 0.107703 CGCCTCAAACATCTGGGCTA 60.108 55.000 0.00 0.00 40.52 3.93
232 233 1.089920 GATGCACGCCTCAAACATCT 58.910 50.000 0.00 0.00 35.39 2.90
235 236 1.275010 TCTAGATGCACGCCTCAAACA 59.725 47.619 0.00 0.00 0.00 2.83
286 287 1.812571 CCCAAATCCTCCTCAAACACG 59.187 52.381 0.00 0.00 0.00 4.49
288 289 1.549950 GCCCCAAATCCTCCTCAAACA 60.550 52.381 0.00 0.00 0.00 2.83
292 293 1.910580 GACGCCCCAAATCCTCCTCA 61.911 60.000 0.00 0.00 0.00 3.86
315 316 3.804325 CCCATGCGTTAGAACATCTACAG 59.196 47.826 0.00 0.00 0.00 2.74
320 321 3.531538 TCTTCCCATGCGTTAGAACATC 58.468 45.455 0.00 0.00 0.00 3.06
360 361 1.900545 CGGGAGGAGGGGTCTTGAAC 61.901 65.000 0.00 0.00 0.00 3.18
367 368 2.547123 AATGTAGCGGGAGGAGGGGT 62.547 60.000 0.00 0.00 0.00 4.95
398 401 2.768253 TGTCACAGATGCGGAGAAAT 57.232 45.000 0.00 0.00 0.00 2.17
445 448 4.918810 AACCAGAAGAATTTGTGTGACC 57.081 40.909 0.00 0.00 0.00 4.02
472 475 0.855349 GTCAGGCGTGCGAGATAATG 59.145 55.000 0.35 0.00 0.00 1.90
473 476 0.747255 AGTCAGGCGTGCGAGATAAT 59.253 50.000 0.35 0.00 0.00 1.28
487 490 0.976641 TGGGACCTTGCACTAGTCAG 59.023 55.000 11.00 0.00 31.99 3.51
492 495 0.690762 GAACCTGGGACCTTGCACTA 59.309 55.000 0.00 0.00 0.00 2.74
512 515 7.765360 TGACTTAGAAAAGAACAACGGAAGTTA 59.235 33.333 0.00 0.00 43.52 2.24
542 545 0.949105 GTGAGGGCGCGAGAAAGAAA 60.949 55.000 12.10 0.00 0.00 2.52
565 568 3.234630 TTCGCGAGGGACCCACTTG 62.235 63.158 14.60 1.46 0.00 3.16
566 569 2.920912 TTCGCGAGGGACCCACTT 60.921 61.111 14.60 0.00 0.00 3.16
568 571 3.310860 ATGTTCGCGAGGGACCCAC 62.311 63.158 14.60 5.39 0.00 4.61
569 572 3.000819 ATGTTCGCGAGGGACCCA 61.001 61.111 14.60 1.02 0.00 4.51
572 575 1.519455 CTCCATGTTCGCGAGGGAC 60.519 63.158 9.59 5.57 0.00 4.46
573 576 1.667154 CTCTCCATGTTCGCGAGGGA 61.667 60.000 9.59 14.07 0.00 4.20
574 577 1.227089 CTCTCCATGTTCGCGAGGG 60.227 63.158 9.59 10.30 0.00 4.30
575 578 1.227089 CCTCTCCATGTTCGCGAGG 60.227 63.158 9.59 7.43 35.75 4.63
576 579 1.227089 CCCTCTCCATGTTCGCGAG 60.227 63.158 9.59 0.00 0.00 5.03
577 580 1.667154 CTCCCTCTCCATGTTCGCGA 61.667 60.000 3.71 3.71 0.00 5.87
578 581 1.227089 CTCCCTCTCCATGTTCGCG 60.227 63.158 0.00 0.00 0.00 5.87
579 582 0.103937 CTCTCCCTCTCCATGTTCGC 59.896 60.000 0.00 0.00 0.00 4.70
580 583 1.769026 TCTCTCCCTCTCCATGTTCG 58.231 55.000 0.00 0.00 0.00 3.95
581 584 3.258123 GCTATCTCTCCCTCTCCATGTTC 59.742 52.174 0.00 0.00 0.00 3.18
582 585 3.238597 GCTATCTCTCCCTCTCCATGTT 58.761 50.000 0.00 0.00 0.00 2.71
583 586 2.817463 CGCTATCTCTCCCTCTCCATGT 60.817 54.545 0.00 0.00 0.00 3.21
584 587 1.818060 CGCTATCTCTCCCTCTCCATG 59.182 57.143 0.00 0.00 0.00 3.66
585 588 1.272425 CCGCTATCTCTCCCTCTCCAT 60.272 57.143 0.00 0.00 0.00 3.41
586 589 0.111446 CCGCTATCTCTCCCTCTCCA 59.889 60.000 0.00 0.00 0.00 3.86
587 590 0.610785 CCCGCTATCTCTCCCTCTCC 60.611 65.000 0.00 0.00 0.00 3.71
588 591 1.248101 GCCCGCTATCTCTCCCTCTC 61.248 65.000 0.00 0.00 0.00 3.20
589 592 1.228737 GCCCGCTATCTCTCCCTCT 60.229 63.158 0.00 0.00 0.00 3.69
590 593 0.038455 TAGCCCGCTATCTCTCCCTC 59.962 60.000 0.00 0.00 0.00 4.30
591 594 0.251430 GTAGCCCGCTATCTCTCCCT 60.251 60.000 0.00 0.00 0.00 4.20
592 595 0.251430 AGTAGCCCGCTATCTCTCCC 60.251 60.000 0.00 0.00 0.00 4.30
593 596 0.885196 CAGTAGCCCGCTATCTCTCC 59.115 60.000 0.00 0.00 0.00 3.71
594 597 0.242555 GCAGTAGCCCGCTATCTCTC 59.757 60.000 0.00 0.00 33.58 3.20
595 598 0.178975 AGCAGTAGCCCGCTATCTCT 60.179 55.000 0.00 0.00 43.56 3.10
596 599 0.038709 CAGCAGTAGCCCGCTATCTC 60.039 60.000 0.00 0.00 43.56 2.75
597 600 2.045280 CAGCAGTAGCCCGCTATCT 58.955 57.895 0.00 0.00 43.56 1.98
598 601 1.666234 GCAGCAGTAGCCCGCTATC 60.666 63.158 0.00 0.00 43.56 2.08
599 602 2.374830 CTGCAGCAGTAGCCCGCTAT 62.375 60.000 14.90 0.00 43.56 2.97
600 603 3.074369 TGCAGCAGTAGCCCGCTA 61.074 61.111 0.00 0.00 43.56 4.26
601 604 4.463879 CTGCAGCAGTAGCCCGCT 62.464 66.667 14.90 0.00 43.56 5.52
602 605 2.369257 TATCTGCAGCAGTAGCCCGC 62.369 60.000 22.10 0.00 43.56 6.13
603 606 0.104855 TTATCTGCAGCAGTAGCCCG 59.895 55.000 22.10 0.00 43.56 6.13
604 607 1.134401 TGTTATCTGCAGCAGTAGCCC 60.134 52.381 22.10 8.32 43.56 5.19
605 608 2.315925 TGTTATCTGCAGCAGTAGCC 57.684 50.000 22.10 9.64 43.56 3.93
606 609 2.032204 GCATGTTATCTGCAGCAGTAGC 60.032 50.000 22.10 14.90 39.46 3.58
607 610 3.200483 TGCATGTTATCTGCAGCAGTAG 58.800 45.455 22.10 0.00 44.30 2.57
608 611 3.264998 TGCATGTTATCTGCAGCAGTA 57.735 42.857 22.10 10.91 44.30 2.74
609 612 2.118313 TGCATGTTATCTGCAGCAGT 57.882 45.000 22.10 11.89 44.30 4.40
615 618 3.730715 GGCGTTAATTGCATGTTATCTGC 59.269 43.478 0.00 0.00 40.10 4.26
616 619 3.968096 CGGCGTTAATTGCATGTTATCTG 59.032 43.478 0.00 0.00 0.00 2.90
617 620 3.625764 ACGGCGTTAATTGCATGTTATCT 59.374 39.130 6.77 0.00 0.00 1.98
618 621 3.947626 ACGGCGTTAATTGCATGTTATC 58.052 40.909 6.77 0.00 0.00 1.75
619 622 3.545228 CGACGGCGTTAATTGCATGTTAT 60.545 43.478 16.19 0.00 0.00 1.89
620 623 2.222841 CGACGGCGTTAATTGCATGTTA 60.223 45.455 16.19 0.00 0.00 2.41
621 624 1.465020 CGACGGCGTTAATTGCATGTT 60.465 47.619 16.19 0.00 0.00 2.71
622 625 0.096281 CGACGGCGTTAATTGCATGT 59.904 50.000 16.19 3.12 0.00 3.21
623 626 0.588730 CCGACGGCGTTAATTGCATG 60.589 55.000 16.19 0.00 35.23 4.06
624 627 0.741574 TCCGACGGCGTTAATTGCAT 60.742 50.000 16.19 0.00 35.23 3.96
625 628 0.741574 ATCCGACGGCGTTAATTGCA 60.742 50.000 16.19 0.00 35.23 4.08
626 629 0.375803 AATCCGACGGCGTTAATTGC 59.624 50.000 16.19 0.00 35.23 3.56
627 630 2.817538 AAATCCGACGGCGTTAATTG 57.182 45.000 16.19 1.95 35.23 2.32
628 631 3.683822 TGTTAAATCCGACGGCGTTAATT 59.316 39.130 16.19 11.59 35.23 1.40
629 632 3.260740 TGTTAAATCCGACGGCGTTAAT 58.739 40.909 16.19 5.40 35.23 1.40
630 633 2.681706 TGTTAAATCCGACGGCGTTAA 58.318 42.857 16.19 12.67 35.23 2.01
631 634 2.360553 TGTTAAATCCGACGGCGTTA 57.639 45.000 16.19 7.00 35.23 3.18
632 635 1.510776 TTGTTAAATCCGACGGCGTT 58.489 45.000 16.19 8.05 35.23 4.84
633 636 1.510776 TTTGTTAAATCCGACGGCGT 58.489 45.000 14.65 14.65 35.23 5.68
634 637 2.598000 TTTTGTTAAATCCGACGGCG 57.402 45.000 9.66 1.94 37.24 6.46
661 664 8.134895 CCTTCAACTTGCTTAACAGAACATTTA 58.865 33.333 0.00 0.00 0.00 1.40
707 710 5.296531 GGGAACAAAACGGTACAAGAACTAA 59.703 40.000 0.00 0.00 0.00 2.24
721 724 4.316205 CTTGTACCCAAGGGAACAAAAC 57.684 45.455 13.15 1.03 43.62 2.43
859 862 7.869937 TGTTCATTTTGTTTGTGTCTTCTTTCA 59.130 29.630 0.00 0.00 0.00 2.69
860 863 8.238481 TGTTCATTTTGTTTGTGTCTTCTTTC 57.762 30.769 0.00 0.00 0.00 2.62
984 987 2.009051 TGCATGTACTTCAAGCCATCG 58.991 47.619 0.00 0.00 39.63 3.84
1152 1155 2.538037 CGCGATTGACATGTTTATCGGA 59.462 45.455 29.00 4.04 40.01 4.55
1233 1236 2.427506 GATGTCACCCCAAACAGTCTC 58.572 52.381 0.00 0.00 0.00 3.36
1663 1667 5.079643 ACTAACAGATTGGAACCTTGCATT 58.920 37.500 0.00 0.00 0.00 3.56
1787 1791 2.029110 GGCCTTGCAGCAATTTCAACTA 60.029 45.455 8.67 0.00 0.00 2.24
1923 1927 9.498176 CATACATCATGGATCTCATCTTGTTTA 57.502 33.333 0.00 1.13 33.02 2.01
1996 2005 0.975887 CCCCTTGTTTGGGTTCATGG 59.024 55.000 0.00 0.00 45.70 3.66
2034 2043 5.895636 TCAAGGAAATAATGAATGCACGT 57.104 34.783 0.00 0.00 0.00 4.49
2061 2070 9.598517 TTTAACCTCATCAAAATCATTTATGCC 57.401 29.630 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.