Multiple sequence alignment - TraesCS2B01G304300

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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 TraesCS2B01G304300 chr2B 100.000 4288 0 0 1 4288 432552770 432557057 0.000000e+00 7919
1 TraesCS2B01G304300 chr2D 93.424 4334 174 33 1 4288 364163012 364167280 0.000000e+00 6322
2 TraesCS2B01G304300 chr2D 79.362 470 84 11 2 462 52620479 52620944 6.920000e-83 318
3 TraesCS2B01G304300 chr2A 95.787 3584 97 20 745 4288 490659334 490662903 0.000000e+00 5733
4 TraesCS2B01G304300 chr2A 83.284 670 85 13 1 659 490614332 490614985 3.690000e-165 592
5 TraesCS2B01G304300 chr2A 76.709 468 86 19 1 458 480642519 480642973 5.540000e-59 239
6 TraesCS2B01G304300 chr3D 79.570 465 78 11 3 459 47347351 47347806 2.490000e-82 316
7 TraesCS2B01G304300 chr3A 79.025 472 74 13 3 462 59433516 59433974 2.510000e-77 300
8 TraesCS2B01G304300 chr3A 76.383 470 79 14 1 462 555444394 555444839 1.550000e-54 224
9 TraesCS2B01G304300 chr4D 78.261 483 91 12 1 474 391714922 391714445 9.010000e-77 298
10 TraesCS2B01G304300 chr4B 77.027 370 85 0 1 370 585665488 585665119 3.360000e-51 213
11 TraesCS2B01G304300 chr7B 76.053 380 81 8 4 377 709448909 709448534 5.660000e-44 189
12 TraesCS2B01G304300 chr3B 74.614 453 87 21 23 457 808045691 808046133 1.580000e-39 174


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 TraesCS2B01G304300 chr2B 432552770 432557057 4287 False 7919 7919 100.000 1 4288 1 chr2B.!!$F1 4287
1 TraesCS2B01G304300 chr2D 364163012 364167280 4268 False 6322 6322 93.424 1 4288 1 chr2D.!!$F2 4287
2 TraesCS2B01G304300 chr2A 490659334 490662903 3569 False 5733 5733 95.787 745 4288 1 chr2A.!!$F3 3543
3 TraesCS2B01G304300 chr2A 490614332 490614985 653 False 592 592 83.284 1 659 1 chr2A.!!$F2 658

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
503 512 0.030638 GCGCGGTCCGGTTATAAGTA 59.969 55.0 14.38 0.00 37.44 2.24 F
802 817 0.788391 GTGACGTTCTAGCCCGTTTG 59.212 55.0 7.75 0.00 37.44 2.93 F
1410 1425 0.906775 TTAGGGTTTCGATCGGCCTT 59.093 50.0 16.41 13.58 0.00 4.35 F
2788 2818 0.459934 CAGCAGCAGTAGCCTCTGAC 60.460 60.0 9.49 2.22 43.56 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1346 1361 0.760945 CTTCCTATGGTCCTCGCCCT 60.761 60.0 0.00 0.0 0.00 5.19 R
1735 1754 1.660560 CCTGCGGCATTTCCCTTGAG 61.661 60.0 1.75 0.0 0.00 3.02 R
3258 3291 0.326264 ACTGCAGGGATGTTCTGTCC 59.674 55.0 19.93 0.0 34.89 4.02 R
3795 3829 1.686325 ATTACCGATGAGCCGCCACT 61.686 55.0 0.00 0.0 0.00 4.00 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
51 52 1.582610 GATTTTTGCCCGGCGTCTGA 61.583 55.000 6.01 0.00 0.00 3.27
76 77 2.028294 TGTTTAAATAGTGGGCCGACGA 60.028 45.455 12.67 7.82 0.00 4.20
101 102 2.330041 CAACCGGCGTTGTGTTCC 59.670 61.111 6.01 0.00 43.73 3.62
187 188 2.038975 AGGAAGGCGGGCAGTCTA 59.961 61.111 3.78 0.00 32.25 2.59
222 223 1.286260 GCGAGGAGACGTGTTCAGT 59.714 57.895 0.00 0.00 35.59 3.41
277 278 1.599518 ACCGCTTCAATGCCGACAA 60.600 52.632 0.00 0.00 0.00 3.18
279 280 1.013596 CCGCTTCAATGCCGACAATA 58.986 50.000 0.00 0.00 0.00 1.90
313 314 1.448119 TTTTGCACCGGCGTCAATGA 61.448 50.000 6.01 0.00 45.35 2.57
343 344 0.179065 CTCTCCAGCGGCATGAATGA 60.179 55.000 1.45 0.00 0.00 2.57
346 347 1.153107 CCAGCGGCATGAATGAGGA 60.153 57.895 1.45 0.00 0.00 3.71
350 351 0.745845 GCGGCATGAATGAGGACAGT 60.746 55.000 0.00 0.00 0.00 3.55
356 357 0.955428 TGAATGAGGACAGTTGGCGC 60.955 55.000 0.00 0.00 0.00 6.53
502 511 1.227060 GCGCGGTCCGGTTATAAGT 60.227 57.895 14.38 0.00 37.44 2.24
503 512 0.030638 GCGCGGTCCGGTTATAAGTA 59.969 55.000 14.38 0.00 37.44 2.24
506 515 2.227388 CGCGGTCCGGTTATAAGTAGAT 59.773 50.000 14.38 0.00 0.00 1.98
520 529 8.416329 GTTATAAGTAGATGGTTTAAGGGTCGA 58.584 37.037 0.00 0.00 0.00 4.20
528 537 3.181442 TGGTTTAAGGGTCGATGTTGGAA 60.181 43.478 0.00 0.00 0.00 3.53
534 543 1.463674 GGTCGATGTTGGAAATGCCT 58.536 50.000 0.00 0.00 37.63 4.75
546 555 5.146010 TGGAAATGCCTTTACATCCAAAC 57.854 39.130 0.00 0.00 37.63 2.93
558 567 2.762327 ACATCCAAACCCATCTGCAATC 59.238 45.455 0.00 0.00 0.00 2.67
575 584 3.306166 GCAATCATGTGCAAAATCTGAGC 59.694 43.478 3.55 0.00 44.29 4.26
581 595 5.648960 TCATGTGCAAAATCTGAGCTGATTA 59.351 36.000 0.00 0.00 35.82 1.75
605 619 4.806892 TGATTGATCCCATATGGCAAAGT 58.193 39.130 16.97 1.70 0.00 2.66
606 620 5.951204 TGATTGATCCCATATGGCAAAGTA 58.049 37.500 16.97 4.04 0.00 2.24
628 642 5.690464 ATAGGGGCTGATTGATCTGATAC 57.310 43.478 0.00 0.00 0.00 2.24
655 669 3.198827 AGTTTAGGGGCTGGTTTATCCT 58.801 45.455 0.00 0.00 37.07 3.24
662 676 4.079730 AGGGGCTGGTTTATCCTCTTTTAG 60.080 45.833 0.00 0.00 37.07 1.85
663 677 4.079958 GGGGCTGGTTTATCCTCTTTTAGA 60.080 45.833 0.00 0.00 37.07 2.10
664 678 5.126779 GGGCTGGTTTATCCTCTTTTAGAG 58.873 45.833 0.00 0.00 41.96 2.43
665 679 5.339282 GGGCTGGTTTATCCTCTTTTAGAGT 60.339 44.000 3.27 0.00 40.72 3.24
666 680 6.181190 GGCTGGTTTATCCTCTTTTAGAGTT 58.819 40.000 3.27 0.00 40.72 3.01
667 681 6.316640 GGCTGGTTTATCCTCTTTTAGAGTTC 59.683 42.308 3.27 0.00 40.72 3.01
668 682 6.879458 GCTGGTTTATCCTCTTTTAGAGTTCA 59.121 38.462 3.27 0.00 40.72 3.18
669 683 7.554476 GCTGGTTTATCCTCTTTTAGAGTTCAT 59.446 37.037 3.27 0.00 40.72 2.57
670 684 9.454859 CTGGTTTATCCTCTTTTAGAGTTCATT 57.545 33.333 3.27 0.00 40.72 2.57
802 817 0.788391 GTGACGTTCTAGCCCGTTTG 59.212 55.000 7.75 0.00 37.44 2.93
816 831 1.515081 CGTTTGGTTACCGACACCAT 58.485 50.000 8.13 0.00 44.05 3.55
1346 1361 2.034878 CGAGGATGAGGAGGATGTGAA 58.965 52.381 0.00 0.00 0.00 3.18
1410 1425 0.906775 TTAGGGTTTCGATCGGCCTT 59.093 50.000 16.41 13.58 0.00 4.35
1517 1532 5.594926 CTTGTGGAAATTAGGGCATTGATC 58.405 41.667 0.00 0.00 0.00 2.92
1614 1633 6.187682 TGTAGAGTGTATTGATCTCCAGTCA 58.812 40.000 0.00 0.00 31.20 3.41
1624 1643 1.379977 CTCCAGTCACCTAGCGGGA 60.380 63.158 5.79 0.00 38.76 5.14
1722 1741 7.301068 TGTGATTTTCGCTTTTGATTTTTGT 57.699 28.000 0.00 0.00 0.00 2.83
1735 1754 8.669946 TTTTGATTTTTGTAATGGGGTCTTTC 57.330 30.769 0.00 0.00 0.00 2.62
1781 1800 7.870445 GGATGATAAGAGTCTATTCCACAGTTC 59.130 40.741 0.00 0.00 0.00 3.01
1821 1840 3.976169 TGTTCATTTCTTTTGAAGGCCG 58.024 40.909 0.00 0.00 39.88 6.13
1823 1842 3.915437 TCATTTCTTTTGAAGGCCGTC 57.085 42.857 12.27 12.27 39.88 4.79
2047 2068 6.080682 AGAGGAGGACAAATATGATAGAGCA 58.919 40.000 0.00 0.00 0.00 4.26
2239 2260 2.670414 GCTCAGAGAAGACAATGGTTCG 59.330 50.000 0.00 0.00 0.00 3.95
2321 2342 3.902467 AGCAATGAGAGCTCAGGATATCA 59.098 43.478 17.77 10.05 43.61 2.15
2323 2344 4.247258 CAATGAGAGCTCAGGATATCAGC 58.753 47.826 17.77 5.26 43.61 4.26
2585 2615 5.494618 CAGAGAGTACTGACGAATCTAACG 58.505 45.833 0.00 0.00 39.94 3.18
2741 2771 0.918983 TGAGGGCCCCAGATTTAGTG 59.081 55.000 21.43 0.00 0.00 2.74
2788 2818 0.459934 CAGCAGCAGTAGCCTCTGAC 60.460 60.000 9.49 2.22 43.56 3.51
2846 2876 1.973281 GCATCACCACCACCACCAG 60.973 63.158 0.00 0.00 0.00 4.00
2944 2977 0.529378 CTGGAGCCCTTTGTCAATGC 59.471 55.000 0.00 0.00 0.00 3.56
3006 3039 7.508687 TGATGCTACATGTGTTTAGTGGATAT 58.491 34.615 9.11 0.00 0.00 1.63
3042 3075 2.835605 TCGGTTTTGTGATCCGAGC 58.164 52.632 1.35 0.00 46.54 5.03
3110 3143 5.587043 TCACGTTTGAATTTCTTGTACTGGT 59.413 36.000 0.00 0.00 0.00 4.00
3121 3154 2.831685 TGTACTGGTAGCTGTGGTTG 57.168 50.000 13.97 0.00 0.00 3.77
3146 3179 3.373439 GCAGTTGCACTCCTAGAATTCAG 59.627 47.826 8.44 3.29 41.59 3.02
3149 3182 5.809562 CAGTTGCACTCCTAGAATTCAGTAG 59.190 44.000 8.44 1.58 0.00 2.57
3150 3183 5.717178 AGTTGCACTCCTAGAATTCAGTAGA 59.283 40.000 8.44 0.00 0.00 2.59
3160 3193 8.904834 TCCTAGAATTCAGTAGATTACAGTGAC 58.095 37.037 8.44 0.00 0.00 3.67
3197 3230 5.144100 TGAACCATCTTTTGCTTCCCTTTA 58.856 37.500 0.00 0.00 0.00 1.85
3198 3231 5.779771 TGAACCATCTTTTGCTTCCCTTTAT 59.220 36.000 0.00 0.00 0.00 1.40
3199 3232 6.269769 TGAACCATCTTTTGCTTCCCTTTATT 59.730 34.615 0.00 0.00 0.00 1.40
3200 3233 6.686484 ACCATCTTTTGCTTCCCTTTATTT 57.314 33.333 0.00 0.00 0.00 1.40
3201 3234 7.078249 ACCATCTTTTGCTTCCCTTTATTTT 57.922 32.000 0.00 0.00 0.00 1.82
3202 3235 8.201242 ACCATCTTTTGCTTCCCTTTATTTTA 57.799 30.769 0.00 0.00 0.00 1.52
3232 3265 7.956420 TCGTGACAAACATAATGTTCTACTT 57.044 32.000 0.00 0.00 40.14 2.24
3239 3272 9.195411 ACAAACATAATGTTCTACTTTGCATTG 57.805 29.630 0.00 0.00 40.14 2.82
3449 3482 6.920569 TCAGAACCAGTCTACAAGAAAAAC 57.079 37.500 0.00 0.00 33.56 2.43
3895 3929 1.602377 GGTAGCGCTGTTGTTTGTCTT 59.398 47.619 22.90 0.00 0.00 3.01
4023 4057 8.948631 TCAACTCTCATAAGCGAATCTAAAAT 57.051 30.769 0.00 0.00 0.00 1.82
4025 4059 9.643652 CAACTCTCATAAGCGAATCTAAAATTC 57.356 33.333 0.00 0.00 0.00 2.17
4027 4061 9.039870 ACTCTCATAAGCGAATCTAAAATTCTG 57.960 33.333 0.00 0.00 0.00 3.02
4030 4064 4.639135 AAGCGAATCTAAAATTCTGGGC 57.361 40.909 0.00 0.00 0.00 5.36
4031 4065 3.891049 AGCGAATCTAAAATTCTGGGCT 58.109 40.909 0.00 0.00 0.00 5.19
4032 4066 3.879892 AGCGAATCTAAAATTCTGGGCTC 59.120 43.478 0.00 0.00 0.00 4.70
4033 4067 3.879892 GCGAATCTAAAATTCTGGGCTCT 59.120 43.478 0.00 0.00 0.00 4.09
4034 4068 4.260948 GCGAATCTAAAATTCTGGGCTCTG 60.261 45.833 0.00 0.00 0.00 3.35
4076 4110 6.389830 TTCTTTGTGAGTTGCATGTTACAT 57.610 33.333 0.00 0.00 0.00 2.29
4114 4150 4.759693 TGTAAGACGATTTGGCAGTTCAAT 59.240 37.500 0.00 0.00 0.00 2.57
4115 4151 4.425577 AAGACGATTTGGCAGTTCAATC 57.574 40.909 0.00 0.51 0.00 2.67
4208 4258 7.228590 TGTAAAAATGAGGTACCAGCTAGTTT 58.771 34.615 15.94 9.31 0.00 2.66
4272 4331 7.984050 CAGTGAAGTGAATAGAGTGAATACCAT 59.016 37.037 0.00 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 2.774234 CACACTCCACTCCCATATCCTT 59.226 50.000 0.00 0.00 0.00 3.36
11 12 1.275666 CACCACACTCCACTCCCATA 58.724 55.000 0.00 0.00 0.00 2.74
51 52 2.089201 GGCCCACTATTTAAACAGCGT 58.911 47.619 0.00 0.00 0.00 5.07
55 56 2.028294 TCGTCGGCCCACTATTTAAACA 60.028 45.455 0.00 0.00 0.00 2.83
101 102 2.779951 TTCGTGAGCCACCCGTCATG 62.780 60.000 0.00 0.00 0.00 3.07
187 188 1.591183 GCCACATTCAAACGGCCAT 59.409 52.632 2.24 0.00 38.67 4.40
240 241 4.363990 CGCTGGCCGAGACAGTGT 62.364 66.667 10.97 0.00 43.46 3.55
277 278 2.234913 AAACGGCCGCGACCTCTTAT 62.235 55.000 28.58 0.00 0.00 1.73
279 280 3.819877 AAAACGGCCGCGACCTCTT 62.820 57.895 28.58 7.15 0.00 2.85
397 401 1.669440 GCACGTTCCTGACTACCCA 59.331 57.895 0.00 0.00 0.00 4.51
435 440 1.068588 GACAAAGTGAGGGGTTTTGCC 59.931 52.381 0.00 0.00 0.00 4.52
441 446 1.481056 CCGGAGACAAAGTGAGGGGT 61.481 60.000 0.00 0.00 0.00 4.95
482 491 0.311790 CTTATAACCGGACCGCGCTA 59.688 55.000 9.46 0.00 0.00 4.26
495 504 8.537728 TCGACCCTTAAACCATCTACTTATAA 57.462 34.615 0.00 0.00 0.00 0.98
497 506 7.070821 ACATCGACCCTTAAACCATCTACTTAT 59.929 37.037 0.00 0.00 0.00 1.73
502 511 5.424757 CAACATCGACCCTTAAACCATCTA 58.575 41.667 0.00 0.00 0.00 1.98
503 512 4.261801 CAACATCGACCCTTAAACCATCT 58.738 43.478 0.00 0.00 0.00 2.90
506 515 2.372504 TCCAACATCGACCCTTAAACCA 59.627 45.455 0.00 0.00 0.00 3.67
520 529 4.776837 TGGATGTAAAGGCATTTCCAACAT 59.223 37.500 9.75 9.75 37.54 2.71
528 537 3.515562 TGGGTTTGGATGTAAAGGCATT 58.484 40.909 0.00 0.00 0.00 3.56
534 543 3.772387 TGCAGATGGGTTTGGATGTAAA 58.228 40.909 0.00 0.00 0.00 2.01
546 555 3.959478 GCACATGATTGCAGATGGG 57.041 52.632 0.00 4.41 42.49 4.00
558 567 3.842732 TCAGCTCAGATTTTGCACATG 57.157 42.857 0.00 0.00 0.00 3.21
569 578 5.221601 GGGATCAATCAGTAATCAGCTCAGA 60.222 44.000 0.00 0.00 0.00 3.27
571 580 4.409901 TGGGATCAATCAGTAATCAGCTCA 59.590 41.667 0.00 0.00 0.00 4.26
572 581 4.965814 TGGGATCAATCAGTAATCAGCTC 58.034 43.478 0.00 0.00 0.00 4.09
573 582 5.579753 ATGGGATCAATCAGTAATCAGCT 57.420 39.130 0.00 0.00 0.00 4.24
574 583 6.318144 CCATATGGGATCAATCAGTAATCAGC 59.682 42.308 14.52 0.00 40.01 4.26
575 584 6.318144 GCCATATGGGATCAATCAGTAATCAG 59.682 42.308 23.30 0.00 40.01 2.90
581 595 4.458256 TTGCCATATGGGATCAATCAGT 57.542 40.909 23.30 0.00 40.01 3.41
605 619 5.360999 CGTATCAGATCAATCAGCCCCTATA 59.639 44.000 0.00 0.00 0.00 1.31
606 620 4.161189 CGTATCAGATCAATCAGCCCCTAT 59.839 45.833 0.00 0.00 0.00 2.57
628 642 1.595093 CCAGCCCCTAAACTTTGCCG 61.595 60.000 0.00 0.00 0.00 5.69
758 772 8.893727 ACATGCACAGTTAATACTCCTATTTTC 58.106 33.333 0.00 0.00 30.26 2.29
759 773 8.677300 CACATGCACAGTTAATACTCCTATTTT 58.323 33.333 0.00 0.00 30.26 1.82
763 777 6.338146 GTCACATGCACAGTTAATACTCCTA 58.662 40.000 0.00 0.00 30.26 2.94
765 779 4.032900 CGTCACATGCACAGTTAATACTCC 59.967 45.833 0.00 0.00 30.26 3.85
766 780 4.625742 ACGTCACATGCACAGTTAATACTC 59.374 41.667 0.00 0.00 30.26 2.59
802 817 0.179065 GGGCTATGGTGTCGGTAACC 60.179 60.000 0.00 0.00 38.26 2.85
1346 1361 0.760945 CTTCCTATGGTCCTCGCCCT 60.761 60.000 0.00 0.00 0.00 5.19
1410 1425 3.920031 CGATCCAGAGTCGGGTCA 58.080 61.111 9.29 0.00 35.76 4.02
1468 1483 2.033801 ACAGCATCGAATAGCAAATGGC 59.966 45.455 9.96 0.00 45.30 4.40
1614 1633 3.681874 GCACTTTTTCTATCCCGCTAGGT 60.682 47.826 0.00 0.00 36.75 3.08
1624 1643 6.159751 TCCCCCATACTTAGCACTTTTTCTAT 59.840 38.462 0.00 0.00 0.00 1.98
1722 1741 3.537337 TCCCTTGAGAAAGACCCCATTA 58.463 45.455 0.00 0.00 0.00 1.90
1735 1754 1.660560 CCTGCGGCATTTCCCTTGAG 61.661 60.000 1.75 0.00 0.00 3.02
1759 1778 7.113658 TGGAACTGTGGAATAGACTCTTATC 57.886 40.000 0.00 0.00 0.00 1.75
1760 1779 7.496346 TTGGAACTGTGGAATAGACTCTTAT 57.504 36.000 0.00 0.00 0.00 1.73
1761 1780 6.928348 TTGGAACTGTGGAATAGACTCTTA 57.072 37.500 0.00 0.00 0.00 2.10
1781 1800 4.034285 ACAGTCCTTAAGGTTCCATTGG 57.966 45.455 21.04 0.00 36.34 3.16
1821 1840 8.705048 AGTACTAGTAATTAGCAAAAGCAGAC 57.295 34.615 3.61 0.00 32.25 3.51
2239 2260 5.046663 TGGAGAATGAAGGCCAATTTTAACC 60.047 40.000 5.01 0.35 0.00 2.85
2321 2342 4.142138 CCTCTTCAGTATAGGTTTCACGCT 60.142 45.833 0.00 0.00 0.00 5.07
2323 2344 5.578005 TCCTCTTCAGTATAGGTTTCACG 57.422 43.478 0.00 0.00 0.00 4.35
2741 2771 2.134789 ATGAGAGATGGGTTTGCACC 57.865 50.000 0.00 0.00 43.37 5.01
2788 2818 2.455674 TCTCACATTGGTCAGTTCCG 57.544 50.000 0.00 0.00 0.00 4.30
2973 3006 4.115516 ACACATGTAGCATCATCGAGAAC 58.884 43.478 0.00 0.00 0.00 3.01
3006 3039 3.244630 ACCGAGGCATAGGTACAACAAAA 60.245 43.478 0.00 0.00 39.30 2.44
3042 3075 4.142902 CCGTAATTAACAACAGCTGGTCAG 60.143 45.833 19.93 2.58 0.00 3.51
3105 3138 1.611673 GCATCAACCACAGCTACCAGT 60.612 52.381 0.00 0.00 0.00 4.00
3110 3143 2.153645 CAACTGCATCAACCACAGCTA 58.846 47.619 0.00 0.00 34.72 3.32
3146 3179 4.099120 CACTGCTCGTCACTGTAATCTAC 58.901 47.826 0.00 0.00 0.00 2.59
3149 3182 2.947852 ACACTGCTCGTCACTGTAATC 58.052 47.619 0.00 0.00 0.00 1.75
3150 3183 4.424626 CATACACTGCTCGTCACTGTAAT 58.575 43.478 0.00 0.00 31.12 1.89
3202 3235 8.999431 AGAACATTATGTTTGTCACGAAACTAT 58.001 29.630 12.13 0.00 41.28 2.12
3222 3255 8.114331 TGATTCTTCAATGCAAAGTAGAACAT 57.886 30.769 11.23 0.58 0.00 2.71
3227 3260 8.077991 TCAAGTTGATTCTTCAATGCAAAGTAG 58.922 33.333 0.08 0.00 43.49 2.57
3232 3265 7.041635 TCTTCAAGTTGATTCTTCAATGCAA 57.958 32.000 6.36 0.00 43.49 4.08
3239 3272 5.308825 TGTCCCTCTTCAAGTTGATTCTTC 58.691 41.667 6.36 0.00 0.00 2.87
3258 3291 0.326264 ACTGCAGGGATGTTCTGTCC 59.674 55.000 19.93 0.00 34.89 4.02
3259 3292 1.677217 GGACTGCAGGGATGTTCTGTC 60.677 57.143 19.93 2.63 34.89 3.51
3795 3829 1.686325 ATTACCGATGAGCCGCCACT 61.686 55.000 0.00 0.00 0.00 4.00
3989 4023 5.220117 CGCTTATGAGAGTTGAGAAGAAACG 60.220 44.000 0.00 0.00 32.65 3.60
4023 4057 3.869912 GCATAAGAACACAGAGCCCAGAA 60.870 47.826 0.00 0.00 0.00 3.02
4025 4059 2.012673 GCATAAGAACACAGAGCCCAG 58.987 52.381 0.00 0.00 0.00 4.45
4027 4061 2.409948 AGCATAAGAACACAGAGCCC 57.590 50.000 0.00 0.00 0.00 5.19
4030 4064 8.295288 AGAAATCAAAAGCATAAGAACACAGAG 58.705 33.333 0.00 0.00 0.00 3.35
4031 4065 8.169977 AGAAATCAAAAGCATAAGAACACAGA 57.830 30.769 0.00 0.00 0.00 3.41
4032 4066 8.807667 AAGAAATCAAAAGCATAAGAACACAG 57.192 30.769 0.00 0.00 0.00 3.66
4033 4067 9.033481 CAAAGAAATCAAAAGCATAAGAACACA 57.967 29.630 0.00 0.00 0.00 3.72
4034 4068 9.034544 ACAAAGAAATCAAAAGCATAAGAACAC 57.965 29.630 0.00 0.00 0.00 3.32
4076 4110 7.153217 TCGTCTTACATTAGTGAACAGATGA 57.847 36.000 0.00 0.00 0.00 2.92
4179 4229 5.648092 AGCTGGTACCTCATTTTTACATGTC 59.352 40.000 14.36 0.00 0.00 3.06
4208 4258 7.834681 TGACTCTAGTCTCTTCCTTTGCTTATA 59.165 37.037 11.22 0.00 44.99 0.98
4229 4288 5.003692 TCACTGACAATCTAGCATGACTC 57.996 43.478 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.