Multiple sequence alignment - TraesCS2B01G315400

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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 TraesCS2B01G315400 chr2B 100.000 2630 0 0 1 2630 450763928 450766557 0.000000e+00 4857.0
1 TraesCS2B01G315400 chr2D 87.935 2644 147 63 1 2544 379725252 379727823 0.000000e+00 2957.0
2 TraesCS2B01G315400 chr2D 92.245 490 25 10 2078 2564 379728348 379728827 0.000000e+00 682.0
3 TraesCS2B01G315400 chr2D 94.231 52 1 1 2579 2630 379728063 379728112 7.800000e-11 78.7
4 TraesCS2B01G315400 chr2D 100.000 42 0 0 2589 2630 379728818 379728859 7.800000e-11 78.7
5 TraesCS2B01G315400 chr2A 89.192 2128 118 45 486 2564 514773498 514775562 0.000000e+00 2553.0
6 TraesCS2B01G315400 chr2A 90.612 245 23 0 1 245 514763293 514763537 2.520000e-85 326.0
7 TraesCS2B01G315400 chr2A 95.050 101 5 0 234 334 514763562 514763662 2.710000e-35 159.0
8 TraesCS2B01G315400 chr2A 86.458 96 7 2 69 164 260843639 260843550 1.670000e-17 100.0
9 TraesCS2B01G315400 chr2A 95.082 61 3 0 373 433 514773309 514773369 2.150000e-16 97.1
10 TraesCS2B01G315400 chr2A 97.917 48 1 0 334 381 514763681 514763728 1.680000e-12 84.2
11 TraesCS2B01G315400 chr7D 88.542 96 5 2 69 164 46355615 46355526 7.690000e-21 111.0
12 TraesCS2B01G315400 chr4D 86.735 98 7 3 69 166 126505409 126505500 1.290000e-18 104.0
13 TraesCS2B01G315400 chr3B 86.170 94 7 2 71 164 271286747 271286834 2.150000e-16 97.1
14 TraesCS2B01G315400 chr1A 85.417 96 8 4 69 164 335997852 335997941 7.750000e-16 95.3


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 TraesCS2B01G315400 chr2B 450763928 450766557 2629 False 4857.00 4857 100.00000 1 2630 1 chr2B.!!$F1 2629
1 TraesCS2B01G315400 chr2D 379725252 379728859 3607 False 949.10 2957 93.60275 1 2630 4 chr2D.!!$F1 2629
2 TraesCS2B01G315400 chr2A 514773309 514775562 2253 False 1325.05 2553 92.13700 373 2564 2 chr2A.!!$F2 2191

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
319 324 0.107945 GCCAAAATATTTGCGGGGCA 60.108 50.0 20.05 0.0 39.66 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2117 2314 0.320374 TGTGGACCCAGACGTCAATC 59.68 55.0 19.5 8.91 34.24 2.67 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
46 47 5.479306 TCAGTCATCTAACAGGTGCTTTAC 58.521 41.667 0.00 0.00 0.00 2.01
60 61 1.407025 GCTTTACCCACTAGGACTGCC 60.407 57.143 0.00 0.00 39.89 4.85
73 74 2.046023 CTGCCGCTGATGACCCAA 60.046 61.111 0.00 0.00 0.00 4.12
79 80 0.811616 CGCTGATGACCCAAGTAGCC 60.812 60.000 0.00 0.00 0.00 3.93
153 154 3.703556 TGCACTCAAAGTGGAAAAATGGA 59.296 39.130 9.01 0.00 43.66 3.41
166 167 7.840716 AGTGGAAAAATGGAGAATAATGATCCA 59.159 33.333 0.00 0.00 46.69 3.41
167 168 8.477256 GTGGAAAAATGGAGAATAATGATCCAA 58.523 33.333 0.00 0.00 45.82 3.53
175 176 8.066612 TGGAGAATAATGATCCAACTTTTTCC 57.933 34.615 0.00 0.00 40.13 3.13
195 196 3.890147 TCCTTCCTCTCTTAGTATTCGCC 59.110 47.826 0.00 0.00 0.00 5.54
216 217 2.223502 CGCAGTCCTTATCGCTTCTGTA 60.224 50.000 0.00 0.00 0.00 2.74
218 219 3.181485 GCAGTCCTTATCGCTTCTGTAGT 60.181 47.826 0.00 0.00 0.00 2.73
282 283 5.118990 TCTATACCAAGTTGCAGCTGATTC 58.881 41.667 20.43 6.12 0.00 2.52
287 288 2.399916 AGTTGCAGCTGATTCTCCTC 57.600 50.000 20.43 0.00 0.00 3.71
319 324 0.107945 GCCAAAATATTTGCGGGGCA 60.108 50.000 20.05 0.00 39.66 5.36
411 436 5.163513 CAGGAATGGCATGTCAGTAAAAAC 58.836 41.667 6.04 0.00 0.00 2.43
427 452 7.822334 TCAGTAAAAACTTGTTGTTCTCTCTCA 59.178 33.333 0.00 0.00 38.03 3.27
436 496 1.270826 TGTTCTCTCTCAGTGGCTTCG 59.729 52.381 0.00 0.00 0.00 3.79
456 550 2.333014 GCAAGTCACTGAGTGAGTAGC 58.667 52.381 22.09 17.82 44.28 3.58
457 551 2.928731 GCAAGTCACTGAGTGAGTAGCC 60.929 54.545 22.09 7.64 44.28 3.93
460 554 0.409876 TCACTGAGTGAGTAGCCCCT 59.590 55.000 11.93 0.00 37.67 4.79
461 555 0.534412 CACTGAGTGAGTAGCCCCTG 59.466 60.000 6.79 0.00 35.23 4.45
463 557 1.007721 ACTGAGTGAGTAGCCCCTGAT 59.992 52.381 0.00 0.00 30.86 2.90
465 559 1.007118 TGAGTGAGTAGCCCCTGATCA 59.993 52.381 0.00 0.00 0.00 2.92
466 560 2.111384 GAGTGAGTAGCCCCTGATCAA 58.889 52.381 0.00 0.00 0.00 2.57
467 561 2.703007 GAGTGAGTAGCCCCTGATCAAT 59.297 50.000 0.00 0.00 0.00 2.57
468 562 2.437281 AGTGAGTAGCCCCTGATCAATG 59.563 50.000 0.00 0.00 0.00 2.82
469 563 2.171448 GTGAGTAGCCCCTGATCAATGT 59.829 50.000 0.00 0.00 0.00 2.71
472 566 3.624777 AGTAGCCCCTGATCAATGTTTG 58.375 45.455 0.00 0.00 0.00 2.93
473 567 2.905415 AGCCCCTGATCAATGTTTGA 57.095 45.000 0.00 0.00 45.01 2.69
474 568 2.450476 AGCCCCTGATCAATGTTTGAC 58.550 47.619 0.00 0.00 43.48 3.18
475 569 2.042162 AGCCCCTGATCAATGTTTGACT 59.958 45.455 0.00 0.00 43.48 3.41
476 570 2.424956 GCCCCTGATCAATGTTTGACTC 59.575 50.000 0.00 0.00 43.48 3.36
477 571 3.689347 CCCCTGATCAATGTTTGACTCA 58.311 45.455 0.00 0.00 43.48 3.41
478 572 4.081406 CCCCTGATCAATGTTTGACTCAA 58.919 43.478 0.00 0.00 43.48 3.02
480 574 5.163581 CCCCTGATCAATGTTTGACTCAATC 60.164 44.000 0.00 0.00 43.48 2.67
481 575 5.416639 CCCTGATCAATGTTTGACTCAATCA 59.583 40.000 0.00 5.24 43.48 2.57
484 585 4.771590 TCAATGTTTGACTCAATCAGGC 57.228 40.909 8.22 0.00 38.99 4.85
514 615 5.231702 ACCCACTCGTAAAGGTGAAATAA 57.768 39.130 0.00 0.00 35.69 1.40
518 619 8.050930 ACCCACTCGTAAAGGTGAAATAAATAT 58.949 33.333 0.00 0.00 35.69 1.28
639 764 8.552296 AGACAAGGTCTCATTCCATTTTATACT 58.448 33.333 0.00 0.00 38.71 2.12
665 790 2.549563 CGATCTCCTTGCCTGCATATGT 60.550 50.000 4.29 0.00 0.00 2.29
798 951 0.449388 GCCAGGAAGCATTTGTCTCG 59.551 55.000 0.00 0.00 0.00 4.04
805 958 1.098050 AGCATTTGTCTCGATTGGCC 58.902 50.000 0.00 0.00 0.00 5.36
806 959 1.098050 GCATTTGTCTCGATTGGCCT 58.902 50.000 3.32 0.00 0.00 5.19
852 1005 8.143835 CCTGCCCTACCAAATAAAATAATTCAG 58.856 37.037 0.00 0.00 0.00 3.02
908 1063 5.581085 GCCTATAAATACCTGAGCATAACCG 59.419 44.000 0.00 0.00 0.00 4.44
926 1081 1.429463 CGCGGCTTATGATTCTACCC 58.571 55.000 0.00 0.00 0.00 3.69
930 1085 1.003233 GGCTTATGATTCTACCCGGGG 59.997 57.143 27.92 12.73 0.00 5.73
961 1117 3.076621 CAGCAGCAATACAGAAAGACCA 58.923 45.455 0.00 0.00 0.00 4.02
963 1119 3.503748 AGCAGCAATACAGAAAGACCAAC 59.496 43.478 0.00 0.00 0.00 3.77
981 1137 4.338682 ACCAACTACGAAGCTAGATCGATT 59.661 41.667 20.79 11.23 42.76 3.34
1000 1156 1.937278 TCACGTTCTTTGCGGTTACA 58.063 45.000 0.00 0.00 0.00 2.41
1080 1251 1.276421 CACACTCCTTCATTCTCCGGT 59.724 52.381 0.00 0.00 0.00 5.28
1091 1262 4.785453 CTCCGGTCCAAGCCAGCC 62.785 72.222 0.00 0.00 0.00 4.85
1170 1341 1.144057 GGTCATGATCCTCGCCGTT 59.856 57.895 0.00 0.00 0.00 4.44
1347 1521 3.902086 GTCTACTCCGCGGGGCTC 61.902 72.222 28.82 9.42 0.00 4.70
1392 1566 2.037620 GCACCATCTGCCTCTCGGAT 62.038 60.000 0.00 0.00 41.40 4.18
1473 1647 1.746615 CATTGACCGGTGGCTCCTG 60.747 63.158 14.63 0.00 0.00 3.86
1515 1689 3.777925 CGCCAGTCCTTGTTCGCG 61.778 66.667 0.00 0.00 0.00 5.87
1639 1825 6.523201 CACGTATGATTTTTAGTTGCTTCCAC 59.477 38.462 0.00 0.00 0.00 4.02
1703 1889 3.864243 AGGTTGTGTTCACTCGTTGTTA 58.136 40.909 4.59 0.00 0.00 2.41
1731 1917 7.552458 CCAAAAACTGGCTTGAAGTAATTTT 57.448 32.000 0.00 0.00 38.76 1.82
1732 1918 7.630026 CCAAAAACTGGCTTGAAGTAATTTTC 58.370 34.615 0.00 0.00 38.76 2.29
1733 1919 7.495606 CCAAAAACTGGCTTGAAGTAATTTTCT 59.504 33.333 0.00 0.00 38.76 2.52
1734 1920 8.882736 CAAAAACTGGCTTGAAGTAATTTTCTT 58.117 29.630 0.00 0.00 0.00 2.52
1735 1921 8.424274 AAAACTGGCTTGAAGTAATTTTCTTG 57.576 30.769 0.00 0.00 0.00 3.02
1741 1927 7.015877 GGCTTGAAGTAATTTTCTTGTAGTCG 58.984 38.462 0.00 0.00 0.00 4.18
1751 1937 1.000506 TCTTGTAGTCGTGTTGCTCCC 59.999 52.381 0.00 0.00 0.00 4.30
1754 1940 1.007336 GTAGTCGTGTTGCTCCCGTG 61.007 60.000 0.00 0.00 0.00 4.94
1779 1965 5.447778 TTGTGTAGTCCCTAGCTAGTAGT 57.552 43.478 19.31 11.93 0.00 2.73
1780 1966 6.566079 TTGTGTAGTCCCTAGCTAGTAGTA 57.434 41.667 19.31 11.01 0.00 1.82
1781 1967 6.760440 TGTGTAGTCCCTAGCTAGTAGTAT 57.240 41.667 19.31 4.29 0.00 2.12
1782 1968 7.862274 TGTGTAGTCCCTAGCTAGTAGTATA 57.138 40.000 19.31 9.55 0.00 1.47
1783 1969 7.675062 TGTGTAGTCCCTAGCTAGTAGTATAC 58.325 42.308 19.31 18.79 43.47 1.47
1847 2033 5.389778 TGTGTTGATGTCAATTATTGCGAC 58.610 37.500 0.00 0.00 38.24 5.19
1890 2076 5.336150 TGAATGCCACTTTGTTGAAAAGA 57.664 34.783 4.91 0.00 0.00 2.52
1925 2115 4.375272 ACAAGATCGCAGGTCTAATCATG 58.625 43.478 0.00 0.00 0.00 3.07
2048 2239 3.973206 TTCTCGAGCCATTACCAAGAA 57.027 42.857 7.81 0.00 0.00 2.52
2049 2240 3.526931 TCTCGAGCCATTACCAAGAAG 57.473 47.619 7.81 0.00 0.00 2.85
2050 2241 3.096852 TCTCGAGCCATTACCAAGAAGA 58.903 45.455 7.81 0.00 0.00 2.87
2070 2261 2.102252 GAGATCAGGGCCTTGTAGTCTG 59.898 54.545 15.41 5.65 0.00 3.51
2105 2302 2.869192 GCTAAGCCTTAGTGATCAGTGC 59.131 50.000 13.54 8.18 35.66 4.40
2117 2314 0.111832 ATCAGTGCTATGGCCCCATG 59.888 55.000 10.02 1.94 37.82 3.66
2125 2322 0.843309 TATGGCCCCATGATTGACGT 59.157 50.000 10.02 0.00 37.82 4.34
2174 3374 2.755650 CCACTTCGGCTATATGTGTCC 58.244 52.381 0.00 0.00 0.00 4.02
2230 3430 1.226101 GCCAATGTCATGTGTCGCG 60.226 57.895 0.00 0.00 0.00 5.87
2248 3448 2.664568 CGCGTTGCTACTGCTTAACTAA 59.335 45.455 0.00 0.00 40.48 2.24
2386 3587 2.738480 CGGTTCCGTTGGACCAGA 59.262 61.111 2.82 0.00 0.00 3.86
2420 3621 8.339344 TGTCACAATGATTATGAGAATGTTGT 57.661 30.769 0.00 0.00 0.00 3.32
2430 3631 9.546909 GATTATGAGAATGTTGTAACAGTGTTG 57.453 33.333 18.90 0.00 43.04 3.33
2431 3632 5.749596 TGAGAATGTTGTAACAGTGTTGG 57.250 39.130 18.90 0.00 43.04 3.77
2440 3641 3.568007 TGTAACAGTGTTGGGAAGAATGC 59.432 43.478 18.90 0.00 0.00 3.56
2444 3645 2.227388 CAGTGTTGGGAAGAATGCAGTC 59.773 50.000 5.91 5.91 0.00 3.51
2456 3657 4.147321 AGAATGCAGTCATTGTTTCCTGT 58.853 39.130 17.53 0.00 42.60 4.00
2459 3660 3.814625 TGCAGTCATTGTTTCCTGTACA 58.185 40.909 0.00 0.00 0.00 2.90
2471 3673 8.519799 TTGTTTCCTGTACAATTCTCTTTTCT 57.480 30.769 0.00 0.00 30.96 2.52
2520 3722 2.427095 GCCCCATTCACAGGATTTGTAC 59.573 50.000 0.00 0.00 38.16 2.90
2522 3724 4.627741 GCCCCATTCACAGGATTTGTACTA 60.628 45.833 0.00 0.00 38.16 1.82
2524 3726 4.881850 CCCATTCACAGGATTTGTACTACC 59.118 45.833 0.00 0.00 38.16 3.18
2532 3734 4.935808 CAGGATTTGTACTACCAAGTGGAC 59.064 45.833 3.83 0.00 36.36 4.02
2547 3749 6.721208 ACCAAGTGGACTTCATGTTATTGATT 59.279 34.615 3.83 0.00 38.94 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 3.077556 AGCGGCAGTCCTAGTGGG 61.078 66.667 1.45 0.00 0.00 4.61
60 61 0.811616 GGCTACTTGGGTCATCAGCG 60.812 60.000 0.00 0.00 0.00 5.18
73 74 5.652452 GGTGATTTGTCAAATAAGGGCTACT 59.348 40.000 10.80 0.00 0.00 2.57
79 80 4.096382 CGGAGGGTGATTTGTCAAATAAGG 59.904 45.833 10.80 0.00 0.00 2.69
153 154 8.753133 GGAAGGAAAAAGTTGGATCATTATTCT 58.247 33.333 0.00 0.00 0.00 2.40
166 167 9.727859 GAATACTAAGAGAGGAAGGAAAAAGTT 57.272 33.333 0.00 0.00 0.00 2.66
167 168 8.035984 CGAATACTAAGAGAGGAAGGAAAAAGT 58.964 37.037 0.00 0.00 0.00 2.66
173 174 3.890147 GGCGAATACTAAGAGAGGAAGGA 59.110 47.826 0.00 0.00 0.00 3.36
174 175 3.304794 CGGCGAATACTAAGAGAGGAAGG 60.305 52.174 0.00 0.00 0.00 3.46
175 176 3.854045 GCGGCGAATACTAAGAGAGGAAG 60.854 52.174 12.98 0.00 0.00 3.46
195 196 1.203928 CAGAAGCGATAAGGACTGCG 58.796 55.000 0.00 0.00 0.00 5.18
255 256 6.649155 TCAGCTGCAACTTGGTATAGAATTA 58.351 36.000 9.47 0.00 0.00 1.40
258 259 4.551702 TCAGCTGCAACTTGGTATAGAA 57.448 40.909 9.47 0.00 0.00 2.10
276 277 2.295909 GGACAGATCCGAGGAGAATCAG 59.704 54.545 0.00 0.00 33.03 2.90
319 324 5.163488 TGGATATGTTACGGATCGTGAAACT 60.163 40.000 3.03 0.00 41.39 2.66
411 436 2.805099 GCCACTGAGAGAGAACAACAAG 59.195 50.000 0.00 0.00 0.00 3.16
436 496 2.333014 GCTACTCACTCAGTGACTTGC 58.667 52.381 2.36 4.28 37.67 4.01
456 550 3.689347 TGAGTCAAACATTGATCAGGGG 58.311 45.455 0.00 0.00 42.47 4.79
457 551 5.416639 TGATTGAGTCAAACATTGATCAGGG 59.583 40.000 10.14 0.00 42.47 4.45
460 554 5.106038 GCCTGATTGAGTCAAACATTGATCA 60.106 40.000 15.30 9.10 42.47 2.92
461 555 5.338365 GCCTGATTGAGTCAAACATTGATC 58.662 41.667 15.30 5.06 42.47 2.92
463 557 3.507233 GGCCTGATTGAGTCAAACATTGA 59.493 43.478 15.30 0.00 36.14 2.57
465 559 3.760684 GAGGCCTGATTGAGTCAAACATT 59.239 43.478 12.00 0.00 36.14 2.71
466 560 3.245016 TGAGGCCTGATTGAGTCAAACAT 60.245 43.478 12.00 1.86 36.14 2.71
467 561 2.106338 TGAGGCCTGATTGAGTCAAACA 59.894 45.455 12.00 14.34 36.14 2.83
468 562 2.783135 TGAGGCCTGATTGAGTCAAAC 58.217 47.619 12.00 7.99 36.14 2.93
469 563 3.009363 TCATGAGGCCTGATTGAGTCAAA 59.991 43.478 12.00 0.00 36.14 2.69
472 566 2.941720 GTTCATGAGGCCTGATTGAGTC 59.058 50.000 12.00 4.11 0.00 3.36
473 567 2.356535 GGTTCATGAGGCCTGATTGAGT 60.357 50.000 12.00 0.00 0.00 3.41
474 568 2.295885 GGTTCATGAGGCCTGATTGAG 58.704 52.381 12.00 0.00 0.00 3.02
475 569 1.064463 GGGTTCATGAGGCCTGATTGA 60.064 52.381 12.00 7.47 0.00 2.57
476 570 1.341285 TGGGTTCATGAGGCCTGATTG 60.341 52.381 12.00 4.68 0.00 2.67
477 571 1.002069 TGGGTTCATGAGGCCTGATT 58.998 50.000 12.00 0.00 0.00 2.57
478 572 0.257039 GTGGGTTCATGAGGCCTGAT 59.743 55.000 12.00 3.35 0.00 2.90
480 574 0.393537 GAGTGGGTTCATGAGGCCTG 60.394 60.000 12.00 0.00 0.00 4.85
481 575 1.903877 CGAGTGGGTTCATGAGGCCT 61.904 60.000 3.86 3.86 0.00 5.19
484 585 3.262420 CTTTACGAGTGGGTTCATGAGG 58.738 50.000 0.00 0.00 0.00 3.86
518 619 8.704668 TCAGCCTGATTGTAATGAAGTTCTATA 58.295 33.333 4.17 0.00 0.00 1.31
521 622 5.809001 TCAGCCTGATTGTAATGAAGTTCT 58.191 37.500 4.17 0.00 0.00 3.01
522 623 5.877012 TCTCAGCCTGATTGTAATGAAGTTC 59.123 40.000 0.00 0.00 0.00 3.01
523 624 5.809001 TCTCAGCCTGATTGTAATGAAGTT 58.191 37.500 0.00 0.00 0.00 2.66
524 625 5.426689 TCTCAGCCTGATTGTAATGAAGT 57.573 39.130 0.00 0.00 0.00 3.01
525 626 6.318144 ACATTCTCAGCCTGATTGTAATGAAG 59.682 38.462 18.33 6.15 31.12 3.02
526 627 6.182627 ACATTCTCAGCCTGATTGTAATGAA 58.817 36.000 18.33 8.67 31.12 2.57
534 635 5.279156 GGTTTTGAACATTCTCAGCCTGATT 60.279 40.000 0.00 0.00 0.00 2.57
540 641 3.552890 GGGTGGTTTTGAACATTCTCAGC 60.553 47.826 0.00 0.00 0.00 4.26
639 764 0.250234 CAGGCAAGGAGATCGGAACA 59.750 55.000 0.00 0.00 0.00 3.18
665 790 8.318412 TGTCTTGTCTGCCTGATAATAAAAGTA 58.682 33.333 0.00 0.00 0.00 2.24
798 951 4.321974 CCTTTTTGTCCTTACAGGCCAATC 60.322 45.833 5.01 0.00 32.75 2.67
805 958 3.253432 GGCTGACCTTTTTGTCCTTACAG 59.747 47.826 0.00 0.00 36.83 2.74
806 959 3.219281 GGCTGACCTTTTTGTCCTTACA 58.781 45.455 0.00 0.00 34.25 2.41
852 1005 0.250424 AAGGCTGCAACAAAATGGCC 60.250 50.000 0.50 0.00 39.82 5.36
908 1063 1.429463 CGGGTAGAATCATAAGCCGC 58.571 55.000 7.69 0.00 45.85 6.53
926 1081 2.203972 CTGCTGTGTGATTTGCCCCG 62.204 60.000 0.00 0.00 0.00 5.73
930 1085 2.074547 ATTGCTGCTGTGTGATTTGC 57.925 45.000 0.00 0.00 0.00 3.68
961 1117 5.512473 GTGAATCGATCTAGCTTCGTAGTT 58.488 41.667 0.00 1.35 37.82 2.24
963 1119 4.145276 CGTGAATCGATCTAGCTTCGTAG 58.855 47.826 0.00 0.00 42.86 3.51
981 1137 1.937278 TGTAACCGCAAAGAACGTGA 58.063 45.000 0.00 0.00 0.00 4.35
1000 1156 6.545298 GGTAATCTTTCTTCAGAATCCTGCAT 59.455 38.462 0.00 0.00 40.20 3.96
1155 1326 0.598680 GGAGAACGGCGAGGATCATG 60.599 60.000 16.62 0.00 33.17 3.07
1170 1341 3.131196 GATGAGCGCGCAGAGGAGA 62.131 63.158 35.10 8.51 0.00 3.71
1347 1521 2.949106 CAGGCGGTGTTGAGCTTG 59.051 61.111 0.00 0.00 34.30 4.01
1413 1587 1.002011 GCACTTGGGGAGGACCTTC 60.002 63.158 0.00 0.00 40.03 3.46
1639 1825 3.189080 TCCGTCATCTTTCATGCAACAAG 59.811 43.478 0.00 0.00 0.00 3.16
1722 1908 7.012044 AGCAACACGACTACAAGAAAATTACTT 59.988 33.333 0.00 0.00 0.00 2.24
1726 1912 5.277828 GGAGCAACACGACTACAAGAAAATT 60.278 40.000 0.00 0.00 0.00 1.82
1727 1913 4.213482 GGAGCAACACGACTACAAGAAAAT 59.787 41.667 0.00 0.00 0.00 1.82
1731 1917 1.000506 GGGAGCAACACGACTACAAGA 59.999 52.381 0.00 0.00 0.00 3.02
1732 1918 1.429463 GGGAGCAACACGACTACAAG 58.571 55.000 0.00 0.00 0.00 3.16
1733 1919 3.599412 GGGAGCAACACGACTACAA 57.401 52.632 0.00 0.00 0.00 2.41
1751 1937 2.540515 CTAGGGACTACACAATGCACG 58.459 52.381 0.00 0.00 41.75 5.34
1754 1940 2.990066 AGCTAGGGACTACACAATGC 57.010 50.000 0.00 0.00 41.75 3.56
1780 1966 9.178758 GAGGAAATGTACAATTTCTTCCAGTAT 57.821 33.333 20.10 7.10 37.84 2.12
1781 1967 8.561738 GAGGAAATGTACAATTTCTTCCAGTA 57.438 34.615 20.10 0.00 37.84 2.74
1782 1968 7.454260 GAGGAAATGTACAATTTCTTCCAGT 57.546 36.000 20.10 7.79 37.84 4.00
1847 2033 3.729526 AATGTGATTCGCAGAAACTCG 57.270 42.857 6.05 0.00 45.90 4.18
1904 2094 4.210746 CACATGATTAGACCTGCGATCTTG 59.789 45.833 0.00 0.00 32.84 3.02
1910 2100 0.940126 GCCACATGATTAGACCTGCG 59.060 55.000 0.00 0.00 0.00 5.18
1944 2134 4.767578 ATCACAGTCATAATGCTGGACT 57.232 40.909 0.00 0.00 42.32 3.85
2048 2239 2.023501 AGACTACAAGGCCCTGATCTCT 60.024 50.000 8.77 1.18 0.00 3.10
2049 2240 2.102252 CAGACTACAAGGCCCTGATCTC 59.898 54.545 8.77 0.00 0.00 2.75
2050 2241 2.114616 CAGACTACAAGGCCCTGATCT 58.885 52.381 8.77 5.11 0.00 2.75
2105 2302 1.202806 ACGTCAATCATGGGGCCATAG 60.203 52.381 4.39 0.00 34.91 2.23
2117 2314 0.320374 TGTGGACCCAGACGTCAATC 59.680 55.000 19.50 8.91 34.24 2.67
2174 3374 2.125685 CATGTAGACGAGCAGCAGATG 58.874 52.381 0.00 0.00 0.00 2.90
2210 3410 1.585267 GCGACACATGACATTGGCCA 61.585 55.000 0.00 0.00 0.00 5.36
2230 3430 8.257830 AGAAAGATTAGTTAAGCAGTAGCAAC 57.742 34.615 0.00 0.00 45.49 4.17
2386 3587 8.339344 TCATAATCATTGTGACATTGAAGTGT 57.661 30.769 13.32 2.20 34.39 3.55
2420 3621 3.820467 CTGCATTCTTCCCAACACTGTTA 59.180 43.478 0.00 0.00 0.00 2.41
2430 3631 4.488879 GAAACAATGACTGCATTCTTCCC 58.511 43.478 5.59 0.00 42.66 3.97
2431 3632 4.219288 AGGAAACAATGACTGCATTCTTCC 59.781 41.667 11.77 11.77 44.57 3.46
2440 3641 7.173907 AGAGAATTGTACAGGAAACAATGACTG 59.826 37.037 0.00 0.00 44.66 3.51
2444 3645 9.185192 GAAAAGAGAATTGTACAGGAAACAATG 57.815 33.333 0.00 0.00 44.66 2.82
2456 3657 8.840321 CAACTTTCCTCAGAAAAGAGAATTGTA 58.160 33.333 0.00 0.00 41.40 2.41
2459 3660 7.888250 ACAACTTTCCTCAGAAAAGAGAATT 57.112 32.000 0.00 0.00 41.40 2.17
2520 3722 6.878923 TCAATAACATGAAGTCCACTTGGTAG 59.121 38.462 0.00 0.00 36.11 3.18
2522 3724 5.630121 TCAATAACATGAAGTCCACTTGGT 58.370 37.500 0.00 0.00 36.11 3.67
2524 3726 8.729756 TGTAATCAATAACATGAAGTCCACTTG 58.270 33.333 0.00 0.00 36.11 3.16
2575 3777 9.952030 CCCTTTACCCATTACATTGTAATTTTT 57.048 29.630 17.42 8.44 0.00 1.94
2576 3778 9.106977 ACCCTTTACCCATTACATTGTAATTTT 57.893 29.630 17.42 8.73 0.00 1.82
2577 3779 8.673456 ACCCTTTACCCATTACATTGTAATTT 57.327 30.769 17.42 9.02 0.00 1.82
2578 3780 8.119891 AGACCCTTTACCCATTACATTGTAATT 58.880 33.333 17.42 8.04 0.00 1.40
2579 3781 7.648770 AGACCCTTTACCCATTACATTGTAAT 58.351 34.615 14.87 14.87 0.00 1.89
2580 3782 7.034967 AGACCCTTTACCCATTACATTGTAA 57.965 36.000 11.47 11.47 0.00 2.41
2581 3783 6.630863 CGAGACCCTTTACCCATTACATTGTA 60.631 42.308 0.00 0.00 0.00 2.41
2582 3784 5.506708 GAGACCCTTTACCCATTACATTGT 58.493 41.667 0.00 0.00 0.00 2.71
2583 3785 4.574828 CGAGACCCTTTACCCATTACATTG 59.425 45.833 0.00 0.00 0.00 2.82
2584 3786 4.226620 ACGAGACCCTTTACCCATTACATT 59.773 41.667 0.00 0.00 0.00 2.71
2585 3787 3.778629 ACGAGACCCTTTACCCATTACAT 59.221 43.478 0.00 0.00 0.00 2.29
2586 3788 3.175594 ACGAGACCCTTTACCCATTACA 58.824 45.455 0.00 0.00 0.00 2.41
2587 3789 3.900966 ACGAGACCCTTTACCCATTAC 57.099 47.619 0.00 0.00 0.00 1.89
2588 3790 3.839490 TCAACGAGACCCTTTACCCATTA 59.161 43.478 0.00 0.00 0.00 1.90
2589 3791 2.640826 TCAACGAGACCCTTTACCCATT 59.359 45.455 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.