Multiple sequence alignment - TraesCS3B01G076800

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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 TraesCS3B01G076800 chr3B 100.000 3133 0 0 1 3133 47268828 47271960 0.000000e+00 5786.0
1 TraesCS3B01G076800 chr3B 76.262 1407 292 25 1088 2484 47211062 47209688 0.000000e+00 710.0
2 TraesCS3B01G076800 chr3B 74.580 1011 209 37 1088 2072 46254533 46255521 1.750000e-107 399.0
3 TraesCS3B01G076800 chr3B 78.244 262 43 11 1072 1326 46059653 46059907 4.180000e-34 156.0
4 TraesCS3B01G076800 chr3D 95.131 2177 85 10 964 3133 28275149 28277311 0.000000e+00 3413.0
5 TraesCS3B01G076800 chr3D 85.900 617 42 22 2 598 28270215 28270806 1.600000e-172 616.0
6 TraesCS3B01G076800 chr3D 75.715 1223 273 19 1030 2244 28217962 28216756 2.690000e-165 592.0
7 TraesCS3B01G076800 chr3D 77.854 876 151 30 1384 2244 28224437 28223590 1.300000e-138 503.0
8 TraesCS3B01G076800 chr3D 73.003 1252 267 57 1071 2280 4995443 4996665 1.060000e-99 374.0
9 TraesCS3B01G076800 chr3D 72.240 1250 264 62 1071 2280 9679325 9678119 3.030000e-80 309.0
10 TraesCS3B01G076800 chr3D 96.694 121 4 0 586 706 28274285 28274405 5.300000e-48 202.0
11 TraesCS3B01G076800 chr3D 91.150 113 7 3 783 892 28274674 28274786 1.950000e-32 150.0
12 TraesCS3B01G076800 chr2B 78.631 1198 217 27 1532 2715 787786730 787787902 0.000000e+00 758.0
13 TraesCS3B01G076800 chr3A 76.802 1401 280 29 1094 2484 38136565 38135200 0.000000e+00 745.0
14 TraesCS3B01G076800 chr3A 77.686 605 121 12 1557 2154 38160002 38159405 1.070000e-94 357.0
15 TraesCS3B01G076800 chr2A 79.356 1056 186 23 1522 2565 771970160 771971195 0.000000e+00 713.0
16 TraesCS3B01G076800 chr2D 81.343 804 131 13 1767 2565 650598191 650598980 1.230000e-178 636.0
17 TraesCS3B01G076800 chr1A 75.658 152 21 11 60 206 257188355 257188495 9.380000e-06 62.1


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 TraesCS3B01G076800 chr3B 47268828 47271960 3132 False 5786.00 5786 100.00000 1 3133 1 chr3B.!!$F3 3132
1 TraesCS3B01G076800 chr3B 47209688 47211062 1374 True 710.00 710 76.26200 1088 2484 1 chr3B.!!$R1 1396
2 TraesCS3B01G076800 chr3B 46254533 46255521 988 False 399.00 399 74.58000 1088 2072 1 chr3B.!!$F2 984
3 TraesCS3B01G076800 chr3D 28270215 28277311 7096 False 1095.25 3413 92.21875 2 3133 4 chr3D.!!$F2 3131
4 TraesCS3B01G076800 chr3D 28216756 28217962 1206 True 592.00 592 75.71500 1030 2244 1 chr3D.!!$R2 1214
5 TraesCS3B01G076800 chr3D 28223590 28224437 847 True 503.00 503 77.85400 1384 2244 1 chr3D.!!$R3 860
6 TraesCS3B01G076800 chr3D 4995443 4996665 1222 False 374.00 374 73.00300 1071 2280 1 chr3D.!!$F1 1209
7 TraesCS3B01G076800 chr3D 9678119 9679325 1206 True 309.00 309 72.24000 1071 2280 1 chr3D.!!$R1 1209
8 TraesCS3B01G076800 chr2B 787786730 787787902 1172 False 758.00 758 78.63100 1532 2715 1 chr2B.!!$F1 1183
9 TraesCS3B01G076800 chr3A 38135200 38136565 1365 True 745.00 745 76.80200 1094 2484 1 chr3A.!!$R1 1390
10 TraesCS3B01G076800 chr3A 38159405 38160002 597 True 357.00 357 77.68600 1557 2154 1 chr3A.!!$R2 597
11 TraesCS3B01G076800 chr2A 771970160 771971195 1035 False 713.00 713 79.35600 1522 2565 1 chr2A.!!$F1 1043
12 TraesCS3B01G076800 chr2D 650598191 650598980 789 False 636.00 636 81.34300 1767 2565 1 chr2D.!!$F1 798

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
870 4627 0.032615 AAAAGTGGGGCCAGTGAACA 60.033 50.0 4.39 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2557 6666 0.447801 GCTAGGGTGTCAAACATGCG 59.552 55.0 0.0 0.0 0.0 4.73 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
206 228 7.424227 TTGATGAACCTTTTCAAATTCATGC 57.576 32.000 2.76 0.00 45.01 4.06
215 237 8.149647 ACCTTTTCAAATTCATGCACATTTCTA 58.850 29.630 0.00 0.00 0.00 2.10
267 294 9.325198 GATGACCTTTTTCAATAAAAACAACCT 57.675 29.630 0.00 0.00 39.16 3.50
283 310 9.823647 AAAAACAACCTTTTTCCAAATTGTTTT 57.176 22.222 15.99 15.99 45.83 2.43
330 357 7.116662 AGCGATATAGTAAACGAGACTGAGTAG 59.883 40.741 0.00 0.00 0.00 2.57
367 394 7.378728 GGCTATATTGGTTCTAAAACAATTCGC 59.621 37.037 8.14 8.36 37.10 4.70
368 395 7.913297 GCTATATTGGTTCTAAAACAATTCGCA 59.087 33.333 8.14 0.00 37.10 5.10
376 403 7.913297 GGTTCTAAAACAATTCGCATTGCTATA 59.087 33.333 7.73 0.00 43.39 1.31
385 412 8.285394 ACAATTCGCATTGCTATAATTCAGTAG 58.715 33.333 7.73 1.83 43.39 2.57
390 417 6.074005 GCATTGCTATAATTCAGTAGCGTTC 58.926 40.000 0.16 1.09 44.81 3.95
403 430 3.759618 AGTAGCGTTCAGAAGCTCTAGTT 59.240 43.478 9.56 0.00 43.44 2.24
430 457 5.440610 AGCTAAACAATTCCAGGGATGTAG 58.559 41.667 0.00 0.00 0.00 2.74
442 469 2.577785 GATGTAGCGGCGCGAGTTC 61.578 63.158 27.59 17.98 0.00 3.01
490 525 4.343323 CCACCCACCACATCGGCA 62.343 66.667 0.00 0.00 39.03 5.69
528 563 8.489489 CCAGTCTGATATTTAGCCCATGTATAT 58.511 37.037 0.00 0.00 0.00 0.86
626 4152 3.445096 GCATTTATTGAACTGGTGGCTCT 59.555 43.478 0.00 0.00 0.00 4.09
655 4181 1.002366 CTGATGAAACCGAAGCTCCG 58.998 55.000 0.00 0.00 0.00 4.63
706 4232 1.780025 GCGAGCTCCTGCAATAAGCC 61.780 60.000 8.47 3.24 44.83 4.35
727 4481 4.518970 GCCTGAACTTCACTGGAATTAACA 59.481 41.667 1.97 0.00 31.34 2.41
735 4489 5.736951 TCACTGGAATTAACATTTTGGGG 57.263 39.130 0.00 0.00 0.00 4.96
736 4490 5.398236 TCACTGGAATTAACATTTTGGGGA 58.602 37.500 0.00 0.00 0.00 4.81
737 4491 5.480073 TCACTGGAATTAACATTTTGGGGAG 59.520 40.000 0.00 0.00 0.00 4.30
740 4494 6.556874 ACTGGAATTAACATTTTGGGGAGAAA 59.443 34.615 0.00 0.00 0.00 2.52
741 4495 7.071824 ACTGGAATTAACATTTTGGGGAGAAAA 59.928 33.333 0.00 0.00 0.00 2.29
742 4496 7.220740 TGGAATTAACATTTTGGGGAGAAAAC 58.779 34.615 0.00 0.00 0.00 2.43
744 4498 7.387673 GGAATTAACATTTTGGGGAGAAAACTG 59.612 37.037 0.00 0.00 0.00 3.16
746 4500 7.899648 TTAACATTTTGGGGAGAAAACTGTA 57.100 32.000 0.00 0.00 0.00 2.74
747 4501 5.784578 ACATTTTGGGGAGAAAACTGTAC 57.215 39.130 0.00 0.00 0.00 2.90
748 4502 5.205056 ACATTTTGGGGAGAAAACTGTACA 58.795 37.500 0.00 0.00 0.00 2.90
749 4503 5.659079 ACATTTTGGGGAGAAAACTGTACAA 59.341 36.000 0.00 0.00 0.00 2.41
750 4504 6.155393 ACATTTTGGGGAGAAAACTGTACAAA 59.845 34.615 0.00 0.00 0.00 2.83
751 4505 6.607004 TTTTGGGGAGAAAACTGTACAAAA 57.393 33.333 0.00 0.00 35.13 2.44
752 4506 5.585820 TTGGGGAGAAAACTGTACAAAAC 57.414 39.130 0.00 0.00 0.00 2.43
753 4507 3.955551 TGGGGAGAAAACTGTACAAAACC 59.044 43.478 0.00 0.00 0.00 3.27
754 4508 3.955551 GGGGAGAAAACTGTACAAAACCA 59.044 43.478 0.00 0.00 0.00 3.67
755 4509 4.403113 GGGGAGAAAACTGTACAAAACCAA 59.597 41.667 0.00 0.00 0.00 3.67
756 4510 5.345702 GGGAGAAAACTGTACAAAACCAAC 58.654 41.667 0.00 0.00 0.00 3.77
757 4511 5.126545 GGGAGAAAACTGTACAAAACCAACT 59.873 40.000 0.00 0.00 0.00 3.16
758 4512 6.350696 GGGAGAAAACTGTACAAAACCAACTT 60.351 38.462 0.00 0.00 0.00 2.66
759 4513 6.750501 GGAGAAAACTGTACAAAACCAACTTC 59.249 38.462 0.00 0.00 0.00 3.01
760 4514 7.362660 GGAGAAAACTGTACAAAACCAACTTCT 60.363 37.037 0.00 0.00 0.00 2.85
761 4515 7.892609 AGAAAACTGTACAAAACCAACTTCTT 58.107 30.769 0.00 0.00 0.00 2.52
762 4516 8.364894 AGAAAACTGTACAAAACCAACTTCTTT 58.635 29.630 0.00 0.00 0.00 2.52
763 4517 8.896320 AAAACTGTACAAAACCAACTTCTTTT 57.104 26.923 0.00 0.00 0.00 2.27
764 4518 8.896320 AAACTGTACAAAACCAACTTCTTTTT 57.104 26.923 0.00 0.00 0.00 1.94
841 4595 6.537301 TCTGACGAAACTGAACTACAATTGTT 59.463 34.615 17.78 0.00 0.00 2.83
844 4598 7.707464 TGACGAAACTGAACTACAATTGTTCTA 59.293 33.333 17.78 0.00 42.86 2.10
870 4627 0.032615 AAAAGTGGGGCCAGTGAACA 60.033 50.000 4.39 0.00 0.00 3.18
887 4644 1.973281 CAAACGAGGCCAGCACCAT 60.973 57.895 5.01 0.00 0.00 3.55
892 4649 1.604593 GAGGCCAGCACCATGTTGT 60.605 57.895 5.01 0.00 0.00 3.32
893 4650 1.589716 GAGGCCAGCACCATGTTGTC 61.590 60.000 5.01 0.00 0.00 3.18
894 4651 1.902918 GGCCAGCACCATGTTGTCA 60.903 57.895 0.00 0.00 0.00 3.58
895 4652 1.582968 GCCAGCACCATGTTGTCAG 59.417 57.895 0.00 0.00 0.00 3.51
896 4653 1.174712 GCCAGCACCATGTTGTCAGT 61.175 55.000 0.00 0.00 0.00 3.41
897 4654 0.877071 CCAGCACCATGTTGTCAGTC 59.123 55.000 0.00 0.00 0.00 3.51
898 4655 0.877071 CAGCACCATGTTGTCAGTCC 59.123 55.000 0.00 0.00 0.00 3.85
899 4656 0.603707 AGCACCATGTTGTCAGTCCG 60.604 55.000 0.00 0.00 0.00 4.79
900 4657 1.577328 GCACCATGTTGTCAGTCCGG 61.577 60.000 0.00 0.00 0.00 5.14
901 4658 0.250295 CACCATGTTGTCAGTCCGGT 60.250 55.000 0.00 0.00 0.00 5.28
902 4659 0.250295 ACCATGTTGTCAGTCCGGTG 60.250 55.000 0.00 0.00 0.00 4.94
903 4660 1.577328 CCATGTTGTCAGTCCGGTGC 61.577 60.000 0.00 0.00 0.00 5.01
904 4661 1.302511 ATGTTGTCAGTCCGGTGCC 60.303 57.895 0.00 0.00 0.00 5.01
905 4662 3.041940 GTTGTCAGTCCGGTGCCG 61.042 66.667 0.00 3.25 39.44 5.69
928 4685 0.099436 CCAATGCAACGAAGCTAGGC 59.901 55.000 0.00 0.00 34.99 3.93
941 4698 2.682494 TAGGCCTTCGCGAACCCT 60.682 61.111 28.84 28.84 35.02 4.34
942 4699 1.380246 TAGGCCTTCGCGAACCCTA 60.380 57.895 27.28 27.28 35.02 3.53
943 4700 1.389609 TAGGCCTTCGCGAACCCTAG 61.390 60.000 27.28 15.94 35.02 3.02
949 4706 2.418197 CCTTCGCGAACCCTAGATCAAA 60.418 50.000 19.38 0.00 0.00 2.69
950 4707 3.259064 CTTCGCGAACCCTAGATCAAAA 58.741 45.455 19.38 0.00 0.00 2.44
1257 5331 3.721706 CAGAAGCCGCCCCTCCTT 61.722 66.667 0.00 0.00 0.00 3.36
1285 5365 5.339990 TCATCCACATACGCATATACGATG 58.660 41.667 1.49 4.60 36.70 3.84
1422 5508 1.201429 ATGGCCGTGTCCTTCTCCTT 61.201 55.000 0.00 0.00 0.00 3.36
1455 5541 1.808390 GCGGCGTAAGGTCATCGTT 60.808 57.895 9.37 0.00 38.28 3.85
1491 5577 3.200593 GAGCAGCATGGCCTGTCG 61.201 66.667 3.32 0.00 35.86 4.35
1533 5619 1.238439 CATATGTCGTCAATGGGGCC 58.762 55.000 0.00 0.00 0.00 5.80
1536 5622 2.818274 GTCGTCAATGGGGCCGTC 60.818 66.667 0.00 0.00 0.00 4.79
1545 5632 3.075005 GGGGCCGTCTCTGTGCTA 61.075 66.667 0.00 0.00 0.00 3.49
1666 5756 4.518970 TGTTTACTCCTCAAAGATTGGCAC 59.481 41.667 0.00 0.00 0.00 5.01
1687 5777 1.644509 TGGGGTGATATCATCTCGGG 58.355 55.000 15.51 0.00 27.33 5.14
1730 5820 4.351874 TTTCGATCATATCCCTGGGTTC 57.648 45.455 13.56 1.18 0.00 3.62
1803 5893 7.541162 CATGCTTAAGTTTGATTTGGATGAGA 58.459 34.615 4.02 0.00 0.00 3.27
2222 6324 9.401058 CCAGGTGATTATTCATTCTTAGTCTTT 57.599 33.333 0.00 0.00 33.56 2.52
2491 6598 2.915604 AGTTGTCTTCATCCATGGGAGT 59.084 45.455 13.02 0.00 34.05 3.85
2557 6666 8.514594 TCAAATGTCAAATCACTAACTCATTCC 58.485 33.333 0.00 0.00 0.00 3.01
2585 6698 5.938125 TGTTTGACACCCTAGCTAAATTCTC 59.062 40.000 0.00 0.00 0.00 2.87
2590 6703 6.615726 TGACACCCTAGCTAAATTCTCCTATT 59.384 38.462 0.00 0.00 0.00 1.73
2595 6708 7.348537 ACCCTAGCTAAATTCTCCTATTCAGTT 59.651 37.037 0.00 0.00 0.00 3.16
2657 6771 5.470098 ACACTTTAGTTGACTATGTGCCTTG 59.530 40.000 17.17 3.59 37.07 3.61
2719 6834 3.317993 TGCAAGTGACTAGCGCATCTATA 59.682 43.478 11.47 0.00 0.00 1.31
2727 6842 5.163550 TGACTAGCGCATCTATAACACAACT 60.164 40.000 11.47 0.00 0.00 3.16
2728 6843 5.282510 ACTAGCGCATCTATAACACAACTC 58.717 41.667 11.47 0.00 0.00 3.01
2729 6844 4.123497 AGCGCATCTATAACACAACTCA 57.877 40.909 11.47 0.00 0.00 3.41
2767 6883 4.774124 TGTCTCTAATCAGGCTCCATTTG 58.226 43.478 0.00 0.00 0.00 2.32
2776 6892 7.910441 AATCAGGCTCCATTTGTTTAATTTG 57.090 32.000 0.00 0.00 0.00 2.32
2899 7018 3.174375 CGCATCTTGCTTTCTTTTAGGC 58.826 45.455 0.00 0.00 42.25 3.93
2995 7114 5.010213 GGTTTTTATTTGGTGCCAGTAGTGA 59.990 40.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.927668 AATCACCGATTTTGAAATAAAGTTCAT 57.072 25.926 0.00 0.00 37.36 2.57
1 2 9.757227 AAATCACCGATTTTGAAATAAAGTTCA 57.243 25.926 0.00 0.00 38.89 3.18
222 244 9.617523 AGGTCATCAAATTTTGAAAAAGTTCAT 57.382 25.926 15.34 0.00 43.29 2.57
367 394 7.169813 TCTGAACGCTACTGAATTATAGCAATG 59.830 37.037 13.42 3.60 43.36 2.82
368 395 7.210174 TCTGAACGCTACTGAATTATAGCAAT 58.790 34.615 13.42 4.37 43.36 3.56
376 403 3.929610 GAGCTTCTGAACGCTACTGAATT 59.070 43.478 12.24 0.00 36.45 2.17
385 412 2.678324 ACAACTAGAGCTTCTGAACGC 58.322 47.619 0.00 4.38 0.00 4.84
390 417 6.868864 TGTTTAGCTAACAACTAGAGCTTCTG 59.131 38.462 5.45 0.00 44.08 3.02
403 430 5.249780 TCCCTGGAATTGTTTAGCTAACA 57.750 39.130 5.45 5.23 44.81 2.41
430 457 3.387603 CTATCGAACTCGCGCCGC 61.388 66.667 0.00 0.00 39.60 6.53
460 495 1.979155 GGGTGGCAAGAAGAAGGGC 60.979 63.158 0.00 0.00 0.00 5.19
490 525 2.443255 ATCAGACTGGTTCTGGTTGGTT 59.557 45.455 1.81 0.00 43.91 3.67
528 563 4.034858 CGCCGTCACTAGTACTTGATCTTA 59.965 45.833 11.43 0.00 0.00 2.10
529 564 3.181499 CGCCGTCACTAGTACTTGATCTT 60.181 47.826 11.43 0.00 0.00 2.40
626 4152 5.092554 TCGGTTTCATCAGGCAAACTATA 57.907 39.130 0.00 0.00 33.70 1.31
655 4181 0.317938 CGTCCAGGCGTATCTGCTAC 60.318 60.000 0.00 0.00 33.64 3.58
665 4191 2.356553 TTTCCGTTCGTCCAGGCG 60.357 61.111 0.00 0.00 0.00 5.52
699 4225 4.640771 TCCAGTGAAGTTCAGGCTTATT 57.359 40.909 5.62 0.00 0.00 1.40
706 4232 8.971321 CAAAATGTTAATTCCAGTGAAGTTCAG 58.029 33.333 5.62 0.00 33.05 3.02
727 4481 6.800072 TTTGTACAGTTTTCTCCCCAAAAT 57.200 33.333 0.00 0.00 0.00 1.82
735 4489 7.535997 AGAAGTTGGTTTTGTACAGTTTTCTC 58.464 34.615 0.00 0.00 0.00 2.87
736 4490 7.462571 AGAAGTTGGTTTTGTACAGTTTTCT 57.537 32.000 0.00 0.00 0.00 2.52
737 4491 8.528917 AAAGAAGTTGGTTTTGTACAGTTTTC 57.471 30.769 0.00 0.00 0.00 2.29
768 4522 5.881443 TGGTTTTGTACTCCTTTTCGAAAGA 59.119 36.000 10.98 5.23 39.20 2.52
769 4523 6.126568 TGGTTTTGTACTCCTTTTCGAAAG 57.873 37.500 10.98 1.67 0.00 2.62
770 4524 6.151480 AGTTGGTTTTGTACTCCTTTTCGAAA 59.849 34.615 6.47 6.47 0.00 3.46
771 4525 5.648960 AGTTGGTTTTGTACTCCTTTTCGAA 59.351 36.000 0.00 0.00 0.00 3.71
772 4526 5.187687 AGTTGGTTTTGTACTCCTTTTCGA 58.812 37.500 0.00 0.00 0.00 3.71
773 4527 5.494632 AGTTGGTTTTGTACTCCTTTTCG 57.505 39.130 0.00 0.00 0.00 3.46
774 4528 6.859017 TGAAGTTGGTTTTGTACTCCTTTTC 58.141 36.000 0.00 0.18 0.00 2.29
775 4529 6.844097 TGAAGTTGGTTTTGTACTCCTTTT 57.156 33.333 0.00 0.00 0.00 2.27
776 4530 8.706322 ATATGAAGTTGGTTTTGTACTCCTTT 57.294 30.769 0.00 0.00 0.00 3.11
777 4531 9.975218 ATATATGAAGTTGGTTTTGTACTCCTT 57.025 29.630 0.00 0.00 0.00 3.36
821 4575 9.710979 TTTTAGAACAATTGTAGTTCAGTTTCG 57.289 29.630 12.39 0.00 45.93 3.46
851 4605 0.032615 TGTTCACTGGCCCCACTTTT 60.033 50.000 0.00 0.00 0.00 2.27
855 4609 1.739667 GTTTGTTCACTGGCCCCAC 59.260 57.895 0.00 0.00 0.00 4.61
856 4610 1.826054 CGTTTGTTCACTGGCCCCA 60.826 57.895 0.00 0.00 0.00 4.96
860 4617 1.282875 GCCTCGTTTGTTCACTGGC 59.717 57.895 0.00 0.00 0.00 4.85
862 4619 0.588252 CTGGCCTCGTTTGTTCACTG 59.412 55.000 3.32 0.00 0.00 3.66
870 4627 1.973281 CATGGTGCTGGCCTCGTTT 60.973 57.895 3.32 0.00 0.00 3.60
887 4644 2.110213 GGCACCGGACTGACAACA 59.890 61.111 9.46 0.00 0.00 3.33
904 4661 3.340953 CTTCGTTGCATTGGGCCCG 62.341 63.158 19.37 3.55 43.89 6.13
905 4662 2.573340 CTTCGTTGCATTGGGCCC 59.427 61.111 17.59 17.59 43.89 5.80
906 4663 1.312371 TAGCTTCGTTGCATTGGGCC 61.312 55.000 0.00 0.00 43.89 5.80
907 4664 0.099436 CTAGCTTCGTTGCATTGGGC 59.901 55.000 0.00 0.00 45.13 5.36
908 4665 0.734889 CCTAGCTTCGTTGCATTGGG 59.265 55.000 0.00 0.00 34.99 4.12
909 4666 0.099436 GCCTAGCTTCGTTGCATTGG 59.901 55.000 0.00 5.13 34.99 3.16
910 4667 0.099436 GGCCTAGCTTCGTTGCATTG 59.901 55.000 0.00 0.00 34.99 2.82
911 4668 0.035056 AGGCCTAGCTTCGTTGCATT 60.035 50.000 1.29 0.00 34.99 3.56
912 4669 0.035056 AAGGCCTAGCTTCGTTGCAT 60.035 50.000 5.16 0.00 34.99 3.96
913 4670 0.673644 GAAGGCCTAGCTTCGTTGCA 60.674 55.000 5.16 0.00 34.99 4.08
914 4671 1.696832 CGAAGGCCTAGCTTCGTTGC 61.697 60.000 18.78 1.21 44.88 4.17
915 4672 2.373938 CGAAGGCCTAGCTTCGTTG 58.626 57.895 18.78 0.00 44.88 4.10
916 4673 4.913126 CGAAGGCCTAGCTTCGTT 57.087 55.556 18.78 0.00 44.88 3.85
928 4685 0.744874 TGATCTAGGGTTCGCGAAGG 59.255 55.000 24.13 10.21 0.00 3.46
957 4714 1.439679 CCGCGAAGACCTAGCTTTTT 58.560 50.000 8.23 0.00 0.00 1.94
958 4715 1.019805 GCCGCGAAGACCTAGCTTTT 61.020 55.000 8.23 0.00 0.00 2.27
959 4716 1.448013 GCCGCGAAGACCTAGCTTT 60.448 57.895 8.23 0.00 0.00 3.51
960 4717 2.184579 GCCGCGAAGACCTAGCTT 59.815 61.111 8.23 0.00 0.00 3.74
961 4718 4.194720 CGCCGCGAAGACCTAGCT 62.195 66.667 8.23 0.00 0.00 3.32
1257 5331 0.251634 TGCGTATGTGGATGAAGCCA 59.748 50.000 0.00 0.00 35.02 4.75
1264 5338 5.324784 ACATCGTATATGCGTATGTGGAT 57.675 39.130 21.02 5.71 34.23 3.41
1285 5365 2.612221 CCAGAACAGGGGTAAAGACGAC 60.612 54.545 0.00 0.00 0.00 4.34
1326 5406 1.880340 CAGGTCGAATCGCTGAGGC 60.880 63.158 4.62 0.00 0.00 4.70
1349 5429 2.452813 CCACTTTCGACATCGCGGG 61.453 63.158 6.13 0.81 39.60 6.13
1356 5436 2.202946 TGCGTGCCACTTTCGACA 60.203 55.556 0.00 0.00 0.00 4.35
1422 5508 2.041115 CCGCTCTGTCTCCGTGAGA 61.041 63.158 0.11 0.11 36.22 3.27
1433 5519 0.872021 GATGACCTTACGCCGCTCTG 60.872 60.000 0.00 0.00 0.00 3.35
1436 5522 2.104331 CGATGACCTTACGCCGCT 59.896 61.111 0.00 0.00 0.00 5.52
1491 5577 1.334689 CCTTCGAACTTTGGCGGAAAC 60.335 52.381 0.00 0.00 0.00 2.78
1533 5619 1.154016 CGGTGGTAGCACAGAGACG 60.154 63.158 25.23 15.37 0.00 4.18
1536 5622 0.732880 CGTTCGGTGGTAGCACAGAG 60.733 60.000 25.23 15.79 31.52 3.35
1545 5632 2.107546 GTGGTCACGTTCGGTGGT 59.892 61.111 0.00 0.00 46.96 4.16
1666 5756 2.093288 CCCGAGATGATATCACCCCATG 60.093 54.545 7.78 0.00 0.00 3.66
1730 5820 4.082245 CAGTAAAGGGCATTACCAACAAGG 60.082 45.833 8.32 0.00 42.05 3.61
1803 5893 2.417924 CGTTGATCACAGCTAGGCTCTT 60.418 50.000 0.00 0.00 36.40 2.85
2130 6232 6.606395 GGGTATTCACAGAGTTTCCTAGACTA 59.394 42.308 0.00 0.00 0.00 2.59
2182 6284 0.831307 ACCTGGCGGATAGAAACTCC 59.169 55.000 0.00 0.00 0.00 3.85
2250 6355 3.865446 TGAGCATCCATGTACAGAACAG 58.135 45.455 0.33 0.00 42.70 3.16
2557 6666 0.447801 GCTAGGGTGTCAAACATGCG 59.552 55.000 0.00 0.00 0.00 4.73
2634 6748 5.470098 ACAAGGCACATAGTCAACTAAAGTG 59.530 40.000 15.94 15.94 39.47 3.16
2776 6892 6.478344 TGCCAACAAAAGTTGTGACAATATTC 59.522 34.615 0.00 0.00 44.59 1.75
2800 6916 7.887996 ACACATGCCAAAACTTGTATAATTG 57.112 32.000 0.00 0.00 0.00 2.32
2899 7018 8.682936 AGCTACCTCATAATGGTGAATTTTAG 57.317 34.615 0.00 0.00 38.42 1.85
3063 7182 7.125507 ACAAATGAATATGGGAAGGCAACAATA 59.874 33.333 0.00 0.00 41.41 1.90


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

AutoCloner maintained by Alex Coulton.