Multiple sequence alignment - TraesCS5B01G126800

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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 TraesCS5B01G126800 chr5B 100.000 2744 0 0 1 2744 231736036 231738779 0.000000e+00 5068.0
1 TraesCS5B01G126800 chr5D 92.245 2437 82 35 1 2385 215879603 215881984 0.000000e+00 3354.0
2 TraesCS5B01G126800 chr5D 92.614 176 13 0 2378 2553 215883508 215883683 1.260000e-63 254.0
3 TraesCS5B01G126800 chr5D 88.462 130 13 2 2534 2662 215883698 215883826 3.660000e-34 156.0
4 TraesCS5B01G126800 chr5A 93.709 1844 58 22 468 2266 284706713 284708543 0.000000e+00 2710.0
5 TraesCS5B01G126800 chr5A 88.060 402 44 4 2265 2665 284711028 284711426 8.890000e-130 473.0
6 TraesCS5B01G126800 chr5A 95.133 226 10 1 1 225 284705024 284705249 3.360000e-94 355.0
7 TraesCS5B01G126800 chr5A 90.943 265 5 3 218 482 284706451 284706696 3.380000e-89 339.0
8 TraesCS5B01G126800 chr4B 75.459 762 105 55 1006 1723 136532482 136533205 2.070000e-76 296.0
9 TraesCS5B01G126800 chr2D 93.023 86 6 0 2659 2744 269191015 269191100 2.870000e-25 126.0
10 TraesCS5B01G126800 chr1A 93.023 86 6 0 2659 2744 342235836 342235751 2.870000e-25 126.0
11 TraesCS5B01G126800 chr1A 93.023 86 6 0 2659 2744 342256158 342256073 2.870000e-25 126.0
12 TraesCS5B01G126800 chrUn 91.860 86 7 0 2659 2744 15263889 15263804 1.330000e-23 121.0
13 TraesCS5B01G126800 chrUn 91.860 86 7 0 2659 2744 15270131 15270046 1.330000e-23 121.0
14 TraesCS5B01G126800 chrUn 91.860 86 7 0 2659 2744 106461034 106461119 1.330000e-23 121.0
15 TraesCS5B01G126800 chrUn 91.860 86 7 0 2659 2744 106468116 106468201 1.330000e-23 121.0
16 TraesCS5B01G126800 chrUn 91.860 86 7 0 2659 2744 147735628 147735713 1.330000e-23 121.0
17 TraesCS5B01G126800 chrUn 91.860 86 7 0 2659 2744 150490285 150490200 1.330000e-23 121.0
18 TraesCS5B01G126800 chr3A 83.459 133 18 3 2529 2660 155416838 155416967 1.330000e-23 121.0
19 TraesCS5B01G126800 chr3B 96.970 33 1 0 6 38 622284857 622284889 3.820000e-04 56.5


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 TraesCS5B01G126800 chr5B 231736036 231738779 2743 False 5068.000000 5068 100.00000 1 2744 1 chr5B.!!$F1 2743
1 TraesCS5B01G126800 chr5D 215879603 215883826 4223 False 1254.666667 3354 91.10700 1 2662 3 chr5D.!!$F1 2661
2 TraesCS5B01G126800 chr5A 284705024 284711426 6402 False 969.250000 2710 91.96125 1 2665 4 chr5A.!!$F1 2664
3 TraesCS5B01G126800 chr4B 136532482 136533205 723 False 296.000000 296 75.45900 1006 1723 1 chr4B.!!$F1 717

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
384 1599 1.442688 GTTGTCGACGTACCGGTCC 60.443 63.158 12.4 0.0 33.3 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1961 3287 0.955905 TGGCCGTGCTTTTTAACTCC 59.044 50.0 0.0 0.0 0.0 3.85 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
33 34 8.768397 TCACTTAAAGGGCAGATTCTATTCTAA 58.232 33.333 0.00 0.00 0.00 2.10
38 39 7.623999 AAGGGCAGATTCTATTCTAATCTCA 57.376 36.000 0.00 0.00 40.81 3.27
186 188 8.197988 AGCAGACGTAAATAATTTTCCTACAG 57.802 34.615 0.00 0.00 0.00 2.74
216 218 3.306641 GCCTGAACTGAACTCTCACTCAT 60.307 47.826 0.00 0.00 0.00 2.90
332 1547 8.343366 GTTTTCCTTCACTCTTTTCGTTATTCT 58.657 33.333 0.00 0.00 0.00 2.40
333 1548 7.653767 TTCCTTCACTCTTTTCGTTATTCTC 57.346 36.000 0.00 0.00 0.00 2.87
334 1549 6.755206 TCCTTCACTCTTTTCGTTATTCTCA 58.245 36.000 0.00 0.00 0.00 3.27
335 1550 6.868864 TCCTTCACTCTTTTCGTTATTCTCAG 59.131 38.462 0.00 0.00 0.00 3.35
336 1551 6.647067 CCTTCACTCTTTTCGTTATTCTCAGT 59.353 38.462 0.00 0.00 0.00 3.41
337 1552 7.148722 CCTTCACTCTTTTCGTTATTCTCAGTC 60.149 40.741 0.00 0.00 0.00 3.51
382 1597 2.252260 CGTTGTCGACGTACCGGT 59.748 61.111 13.98 13.98 46.49 5.28
383 1598 1.793613 CGTTGTCGACGTACCGGTC 60.794 63.158 12.40 1.44 46.49 4.79
384 1599 1.442688 GTTGTCGACGTACCGGTCC 60.443 63.158 12.40 0.00 33.30 4.46
385 1600 1.600636 TTGTCGACGTACCGGTCCT 60.601 57.895 12.40 0.00 33.30 3.85
386 1601 1.855213 TTGTCGACGTACCGGTCCTG 61.855 60.000 12.40 4.42 33.30 3.86
387 1602 2.747460 TCGACGTACCGGTCCTGG 60.747 66.667 12.40 0.68 33.30 4.45
388 1603 4.487412 CGACGTACCGGTCCTGGC 62.487 72.222 12.40 2.72 33.30 4.85
389 1604 3.376078 GACGTACCGGTCCTGGCA 61.376 66.667 12.40 0.00 0.00 4.92
390 1605 2.682494 ACGTACCGGTCCTGGCAT 60.682 61.111 12.40 0.00 0.00 4.40
502 1748 4.387026 TCATGGTCCCAAAAGACAGATT 57.613 40.909 0.00 0.00 38.59 2.40
654 1910 2.226962 AGCCACAGAAAATGCCTCAT 57.773 45.000 0.00 0.00 0.00 2.90
729 1986 7.330700 GCCTTTTCTCTGACTATATATGTGCTC 59.669 40.741 0.00 0.00 0.00 4.26
805 2070 4.610605 TCTTAACTTGTCCGGATTGACA 57.389 40.909 7.81 0.00 43.26 3.58
812 2077 1.683025 TCCGGATTGACAGCCCGTA 60.683 57.895 0.00 0.00 41.53 4.02
899 2164 5.587289 AGTGCAATTTCGTTTTAGCTGAAA 58.413 33.333 0.00 0.00 36.19 2.69
900 2165 6.039616 AGTGCAATTTCGTTTTAGCTGAAAA 58.960 32.000 5.08 1.58 35.46 2.29
947 2212 5.390461 CCTGATCAAGTGCGATTTCGTTTTA 60.390 40.000 0.00 0.00 42.22 1.52
1380 2681 1.472878 TCCATGAAGAAGAGTCCGTCG 59.527 52.381 0.00 0.00 0.00 5.12
1383 2684 1.176619 TGAAGAAGAGTCCGTCGGCA 61.177 55.000 6.34 0.00 0.00 5.69
1915 3241 9.952188 CTACTACATCAACGAATTCAGAATCTA 57.048 33.333 6.22 0.00 0.00 1.98
1916 3242 8.635877 ACTACATCAACGAATTCAGAATCTAC 57.364 34.615 6.22 0.00 0.00 2.59
1918 3244 7.531280 ACATCAACGAATTCAGAATCTACTG 57.469 36.000 6.22 0.00 39.02 2.74
1961 3287 2.671914 GCATGCCGCCATTATAATGTGG 60.672 50.000 21.20 21.29 38.55 4.17
1975 3301 9.301153 CATTATAATGTGGGAGTTAAAAAGCAC 57.699 33.333 16.03 0.00 0.00 4.40
1979 3305 0.242825 GGGAGTTAAAAAGCACGGCC 59.757 55.000 0.00 0.00 0.00 6.13
2001 3327 5.331902 CCACGTATACAAAGGAATGCTTTG 58.668 41.667 22.66 22.66 44.64 2.77
2012 3340 8.647143 CAAAGGAATGCTTTGTCTAAGAAAAA 57.353 30.769 17.40 0.00 37.12 1.94
2116 3449 6.854496 TTTTCACTAGTGCAATTAACGTCT 57.146 33.333 18.45 0.00 0.00 4.18
2254 3596 5.472148 CAGATAGTTTGGCAAAAGCAATCA 58.528 37.500 15.29 0.00 0.00 2.57
2266 3608 6.744537 GGCAAAAGCAATCATATACGATGATC 59.255 38.462 0.72 0.00 37.75 2.92
2306 6134 0.746563 ACCCGTTTGCCATACATCCG 60.747 55.000 0.00 0.00 0.00 4.18
2371 6199 2.029290 GCCTATCACACACCCTATACCG 60.029 54.545 0.00 0.00 0.00 4.02
2376 7735 0.905809 ACACACCCTATACCGTGGCA 60.906 55.000 0.00 0.00 34.18 4.92
2457 7816 2.028385 GGGGCCTATCACGTCGAATATT 60.028 50.000 0.84 0.00 0.00 1.28
2466 7825 5.966636 TCACGTCGAATATTCATTTCTGG 57.033 39.130 15.57 0.00 0.00 3.86
2480 7839 0.620556 TTCTGGACCCAAGCTCATCC 59.379 55.000 0.00 0.00 0.00 3.51
2492 7851 1.269174 AGCTCATCCGATGTCGATGAG 59.731 52.381 24.31 24.31 45.53 2.90
2497 7856 0.455815 TCCGATGTCGATGAGTGGTG 59.544 55.000 3.62 0.00 43.02 4.17
2547 7906 2.271800 CATCGCAGGTTCACCTAGTTC 58.728 52.381 0.00 0.00 46.65 3.01
2553 7912 3.254060 CAGGTTCACCTAGTTCGTCATG 58.746 50.000 0.00 0.00 46.65 3.07
2591 7983 4.292186 ACTTAGCTCTCAAATGAAGCCA 57.708 40.909 0.00 0.32 0.00 4.75
2602 7994 6.716628 TCTCAAATGAAGCCACTACAAAGAAT 59.283 34.615 0.00 0.00 0.00 2.40
2620 8012 7.147444 ACAAAGAATACCTATTTGGGTCCGATA 60.147 37.037 0.00 0.00 40.48 2.92
2662 8055 0.976641 AGAACAAGAGGTGGATGCGA 59.023 50.000 0.00 0.00 0.00 5.10
2663 8056 1.079503 GAACAAGAGGTGGATGCGAC 58.920 55.000 0.00 0.00 0.00 5.19
2664 8057 0.687354 AACAAGAGGTGGATGCGACT 59.313 50.000 0.00 0.00 0.00 4.18
2665 8058 1.557099 ACAAGAGGTGGATGCGACTA 58.443 50.000 0.00 0.00 0.00 2.59
2666 8059 1.478510 ACAAGAGGTGGATGCGACTAG 59.521 52.381 0.00 0.00 0.00 2.57
2667 8060 1.751351 CAAGAGGTGGATGCGACTAGA 59.249 52.381 0.00 0.00 0.00 2.43
2668 8061 2.145397 AGAGGTGGATGCGACTAGAA 57.855 50.000 0.00 0.00 0.00 2.10
2669 8062 2.672098 AGAGGTGGATGCGACTAGAAT 58.328 47.619 0.00 0.00 0.00 2.40
2670 8063 2.625790 AGAGGTGGATGCGACTAGAATC 59.374 50.000 0.00 0.00 33.94 2.52
2671 8064 2.625790 GAGGTGGATGCGACTAGAATCT 59.374 50.000 0.00 0.00 35.15 2.40
2672 8065 3.034635 AGGTGGATGCGACTAGAATCTT 58.965 45.455 0.00 0.00 35.15 2.40
2673 8066 3.452627 AGGTGGATGCGACTAGAATCTTT 59.547 43.478 0.00 0.00 35.15 2.52
2674 8067 4.080863 AGGTGGATGCGACTAGAATCTTTT 60.081 41.667 0.00 0.00 35.15 2.27
2675 8068 4.636206 GGTGGATGCGACTAGAATCTTTTT 59.364 41.667 0.00 0.00 35.15 1.94
2694 8087 5.373812 TTTTTGAGAGTTCACTTCCTCCT 57.626 39.130 0.00 0.00 31.71 3.69
2695 8088 5.373812 TTTTGAGAGTTCACTTCCTCCTT 57.626 39.130 0.00 0.00 31.71 3.36
2696 8089 6.494666 TTTTGAGAGTTCACTTCCTCCTTA 57.505 37.500 0.00 0.00 31.71 2.69
2697 8090 5.730296 TTGAGAGTTCACTTCCTCCTTAG 57.270 43.478 0.00 0.00 31.71 2.18
2698 8091 3.511934 TGAGAGTTCACTTCCTCCTTAGC 59.488 47.826 0.00 0.00 0.00 3.09
2699 8092 3.767131 GAGAGTTCACTTCCTCCTTAGCT 59.233 47.826 0.00 0.00 0.00 3.32
2700 8093 3.767131 AGAGTTCACTTCCTCCTTAGCTC 59.233 47.826 0.00 0.00 0.00 4.09
2701 8094 3.767131 GAGTTCACTTCCTCCTTAGCTCT 59.233 47.826 0.00 0.00 0.00 4.09
2702 8095 4.164204 AGTTCACTTCCTCCTTAGCTCTT 58.836 43.478 0.00 0.00 0.00 2.85
2703 8096 4.020662 AGTTCACTTCCTCCTTAGCTCTTG 60.021 45.833 0.00 0.00 0.00 3.02
2704 8097 3.511477 TCACTTCCTCCTTAGCTCTTGT 58.489 45.455 0.00 0.00 0.00 3.16
2705 8098 4.673968 TCACTTCCTCCTTAGCTCTTGTA 58.326 43.478 0.00 0.00 0.00 2.41
2706 8099 5.084519 TCACTTCCTCCTTAGCTCTTGTAA 58.915 41.667 0.00 0.00 0.00 2.41
2707 8100 5.721960 TCACTTCCTCCTTAGCTCTTGTAAT 59.278 40.000 0.00 0.00 0.00 1.89
2708 8101 6.045955 CACTTCCTCCTTAGCTCTTGTAATC 58.954 44.000 0.00 0.00 0.00 1.75
2709 8102 5.961421 ACTTCCTCCTTAGCTCTTGTAATCT 59.039 40.000 0.00 0.00 0.00 2.40
2710 8103 6.442244 ACTTCCTCCTTAGCTCTTGTAATCTT 59.558 38.462 0.00 0.00 0.00 2.40
2711 8104 6.227298 TCCTCCTTAGCTCTTGTAATCTTG 57.773 41.667 0.00 0.00 0.00 3.02
2712 8105 4.813697 CCTCCTTAGCTCTTGTAATCTTGC 59.186 45.833 0.00 0.00 0.00 4.01
2713 8106 4.770795 TCCTTAGCTCTTGTAATCTTGCC 58.229 43.478 0.00 0.00 0.00 4.52
2714 8107 4.471386 TCCTTAGCTCTTGTAATCTTGCCT 59.529 41.667 0.00 0.00 0.00 4.75
2715 8108 5.045578 TCCTTAGCTCTTGTAATCTTGCCTT 60.046 40.000 0.00 0.00 0.00 4.35
2716 8109 5.065731 CCTTAGCTCTTGTAATCTTGCCTTG 59.934 44.000 0.00 0.00 0.00 3.61
2717 8110 4.026356 AGCTCTTGTAATCTTGCCTTGT 57.974 40.909 0.00 0.00 0.00 3.16
2718 8111 3.755378 AGCTCTTGTAATCTTGCCTTGTG 59.245 43.478 0.00 0.00 0.00 3.33
2719 8112 3.119708 GCTCTTGTAATCTTGCCTTGTGG 60.120 47.826 0.00 0.00 0.00 4.17
2720 8113 3.420893 TCTTGTAATCTTGCCTTGTGGG 58.579 45.455 0.00 0.00 38.36 4.61
2721 8114 3.073798 TCTTGTAATCTTGCCTTGTGGGA 59.926 43.478 0.00 0.00 37.23 4.37
2722 8115 3.071874 TGTAATCTTGCCTTGTGGGAG 57.928 47.619 0.00 0.00 37.23 4.30
2723 8116 2.290896 TGTAATCTTGCCTTGTGGGAGG 60.291 50.000 0.00 0.00 39.93 4.30
2731 8124 2.115343 CCTTGTGGGAGGCTAAACTC 57.885 55.000 0.00 0.00 37.23 3.01
2732 8125 1.351017 CCTTGTGGGAGGCTAAACTCA 59.649 52.381 0.00 0.00 39.27 3.41
2733 8126 2.427506 CTTGTGGGAGGCTAAACTCAC 58.572 52.381 0.00 0.00 41.33 3.51
2734 8127 1.729586 TGTGGGAGGCTAAACTCACT 58.270 50.000 6.30 0.00 41.52 3.41
2735 8128 2.054799 TGTGGGAGGCTAAACTCACTT 58.945 47.619 6.30 0.00 41.52 3.16
2736 8129 2.038557 TGTGGGAGGCTAAACTCACTTC 59.961 50.000 6.30 0.00 41.52 3.01
2737 8130 1.275291 TGGGAGGCTAAACTCACTTCG 59.725 52.381 0.00 0.00 41.52 3.79
2738 8131 1.275573 GGGAGGCTAAACTCACTTCGT 59.724 52.381 0.00 0.00 37.90 3.85
2739 8132 2.338500 GGAGGCTAAACTCACTTCGTG 58.662 52.381 0.00 0.00 39.27 4.35
2740 8133 2.029290 GGAGGCTAAACTCACTTCGTGA 60.029 50.000 0.00 0.00 40.50 4.35
2741 8134 3.368531 GGAGGCTAAACTCACTTCGTGAT 60.369 47.826 0.00 0.00 41.94 3.06
2742 8135 4.246458 GAGGCTAAACTCACTTCGTGATT 58.754 43.478 0.00 0.00 41.94 2.57
2743 8136 4.642429 AGGCTAAACTCACTTCGTGATTT 58.358 39.130 0.00 0.00 41.94 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 6.072199 AGAAGGATAAAAAGTGGCTGAGAT 57.928 37.500 0.00 0.00 0.00 2.75
38 39 7.462590 AGAAACTAGAAGGATAAAAAGTGGCT 58.537 34.615 0.00 0.00 0.00 4.75
186 188 3.406764 AGTTCAGTTCAGGCAGTTCATC 58.593 45.455 0.00 0.00 0.00 2.92
216 218 3.489355 CCATATTGCCATGGCTCAGTAA 58.511 45.455 35.53 22.16 39.18 2.24
332 1547 4.314440 GCGGTGCACTGGGACTGA 62.314 66.667 26.55 0.00 43.83 3.41
379 1594 2.124983 CAGGTGATGCCAGGACCG 60.125 66.667 0.00 0.00 40.61 4.79
380 1595 0.038166 TTTCAGGTGATGCCAGGACC 59.962 55.000 0.00 0.00 40.61 4.46
381 1596 2.019984 GATTTCAGGTGATGCCAGGAC 58.980 52.381 0.00 0.00 40.61 3.85
382 1597 1.064463 GGATTTCAGGTGATGCCAGGA 60.064 52.381 0.00 0.00 40.61 3.86
383 1598 1.396653 GGATTTCAGGTGATGCCAGG 58.603 55.000 0.00 0.00 40.61 4.45
384 1599 1.064166 AGGGATTTCAGGTGATGCCAG 60.064 52.381 0.00 0.00 40.61 4.85
385 1600 1.002069 AGGGATTTCAGGTGATGCCA 58.998 50.000 0.00 0.00 40.61 4.92
386 1601 1.396653 CAGGGATTTCAGGTGATGCC 58.603 55.000 0.00 0.00 34.31 4.40
387 1602 1.396653 CCAGGGATTTCAGGTGATGC 58.603 55.000 0.00 0.00 0.00 3.91
388 1603 1.064166 AGCCAGGGATTTCAGGTGATG 60.064 52.381 0.00 0.00 0.00 3.07
389 1604 1.064166 CAGCCAGGGATTTCAGGTGAT 60.064 52.381 0.00 0.00 0.00 3.06
390 1605 0.329261 CAGCCAGGGATTTCAGGTGA 59.671 55.000 0.00 0.00 0.00 4.02
434 1649 0.034574 TGCTTTCAGTGTGGGTGTGT 60.035 50.000 0.00 0.00 0.00 3.72
475 1721 4.523943 TGTCTTTTGGGACCATGAAATCTG 59.476 41.667 0.00 0.00 35.54 2.90
502 1748 5.393866 TCACATGGGTAGATAGTGCTATGA 58.606 41.667 0.00 0.00 0.00 2.15
729 1986 3.777925 CACTTGCGAGGAACGGCG 61.778 66.667 4.80 4.80 42.83 6.46
788 2048 1.523758 GCTGTCAATCCGGACAAGTT 58.476 50.000 6.12 0.00 46.36 2.66
805 2070 1.119574 AGTGAACACCTGTACGGGCT 61.120 55.000 21.25 5.56 36.97 5.19
834 2099 3.139850 GCCATGGAGAGATGATCACTTG 58.860 50.000 18.40 0.00 0.00 3.16
947 2212 0.957362 GCACTGCAAAGAGGAAGCTT 59.043 50.000 0.00 0.00 0.00 3.74
1215 2498 1.814793 GAACAAGAGGAGGTGAAGGC 58.185 55.000 0.00 0.00 0.00 4.35
1380 2681 4.479993 AGCAGCAGGGACGATGCC 62.480 66.667 0.00 0.00 44.97 4.40
1383 2684 2.898738 CAGAGCAGCAGGGACGAT 59.101 61.111 0.00 0.00 0.00 3.73
1894 3220 6.036517 GCAGTAGATTCTGAATTCGTTGATGT 59.963 38.462 4.11 0.00 37.61 3.06
1895 3221 6.417327 GCAGTAGATTCTGAATTCGTTGATG 58.583 40.000 4.11 0.20 37.61 3.07
1915 3241 2.893895 CGAGCCATGATGCGCAGT 60.894 61.111 18.32 3.82 36.02 4.40
1916 3242 2.466982 AACGAGCCATGATGCGCAG 61.467 57.895 18.32 2.01 36.02 5.18
1918 3244 2.023741 CAACGAGCCATGATGCGC 59.976 61.111 0.00 0.00 36.02 6.09
1953 3279 5.105917 CCGTGCTTTTTAACTCCCACATTAT 60.106 40.000 0.00 0.00 0.00 1.28
1961 3287 0.955905 TGGCCGTGCTTTTTAACTCC 59.044 50.000 0.00 0.00 0.00 3.85
1975 3301 2.012937 TTCCTTTGTATACGTGGCCG 57.987 50.000 0.00 0.00 40.83 6.13
2001 3327 5.955488 GGAAAGCATCCCTTTTTCTTAGAC 58.045 41.667 0.00 0.00 43.64 2.59
2116 3449 3.377798 GGGGATTTTAACCGTAATGCGAA 59.622 43.478 0.00 0.00 44.77 4.70
2161 3494 2.173669 CACATCATCGTGGGACGGC 61.174 63.158 0.00 0.00 42.81 5.68
2162 3495 2.173669 GCACATCATCGTGGGACGG 61.174 63.158 0.00 0.00 42.81 4.79
2223 3564 2.239402 TGCCAAACTATCTGCATCCTGA 59.761 45.455 0.00 0.00 0.00 3.86
2254 3596 3.058501 TCACGTGTGCGATCATCGTATAT 60.059 43.478 16.51 0.00 42.81 0.86
2266 3608 1.135373 ACCTCTAGAATCACGTGTGCG 60.135 52.381 16.51 0.00 44.93 5.34
2306 6134 2.160013 CGGACGAAACATTCAAGACGTC 60.160 50.000 7.70 7.70 45.64 4.34
2371 6199 1.130955 CATCGCAAACTTTGTGCCAC 58.869 50.000 9.79 0.00 40.84 5.01
2376 7735 1.032014 AGGTGCATCGCAAACTTTGT 58.968 45.000 3.48 0.00 41.47 2.83
2457 7816 1.704628 TGAGCTTGGGTCCAGAAATGA 59.295 47.619 0.00 0.00 0.00 2.57
2466 7825 0.179000 ACATCGGATGAGCTTGGGTC 59.821 55.000 23.98 0.00 0.00 4.46
2480 7839 2.278026 TTCACCACTCATCGACATCG 57.722 50.000 0.00 0.00 41.45 3.84
2522 7881 0.321653 GGTGAACCTGCGATGTCCTT 60.322 55.000 0.00 0.00 0.00 3.36
2573 7965 3.988976 AGTGGCTTCATTTGAGAGCTA 57.011 42.857 11.68 6.00 0.00 3.32
2591 7983 7.344134 GGACCCAAATAGGTATTCTTTGTAGT 58.656 38.462 0.00 0.00 41.42 2.73
2602 7994 5.662208 TCTTGTTATCGGACCCAAATAGGTA 59.338 40.000 0.00 0.00 41.42 3.08
2620 8012 1.745232 TGTTTGGCACGACTCTTGTT 58.255 45.000 0.00 0.00 0.00 2.83
2672 8065 5.373812 AGGAGGAAGTGAACTCTCAAAAA 57.626 39.130 0.00 0.00 34.22 1.94
2673 8066 5.373812 AAGGAGGAAGTGAACTCTCAAAA 57.626 39.130 0.00 0.00 34.22 2.44
2674 8067 5.511545 GCTAAGGAGGAAGTGAACTCTCAAA 60.512 44.000 0.00 0.00 34.22 2.69
2675 8068 4.021016 GCTAAGGAGGAAGTGAACTCTCAA 60.021 45.833 0.00 0.00 34.22 3.02
2676 8069 3.511934 GCTAAGGAGGAAGTGAACTCTCA 59.488 47.826 0.00 0.00 34.22 3.27
2677 8070 3.767131 AGCTAAGGAGGAAGTGAACTCTC 59.233 47.826 0.00 0.00 34.22 3.20
2678 8071 3.767131 GAGCTAAGGAGGAAGTGAACTCT 59.233 47.826 0.00 0.00 34.22 3.24
2679 8072 3.767131 AGAGCTAAGGAGGAAGTGAACTC 59.233 47.826 0.00 0.00 0.00 3.01
2680 8073 3.785364 AGAGCTAAGGAGGAAGTGAACT 58.215 45.455 0.00 0.00 0.00 3.01
2681 8074 4.249661 CAAGAGCTAAGGAGGAAGTGAAC 58.750 47.826 0.00 0.00 0.00 3.18
2682 8075 3.904339 ACAAGAGCTAAGGAGGAAGTGAA 59.096 43.478 0.00 0.00 0.00 3.18
2683 8076 3.511477 ACAAGAGCTAAGGAGGAAGTGA 58.489 45.455 0.00 0.00 0.00 3.41
2684 8077 3.971245 ACAAGAGCTAAGGAGGAAGTG 57.029 47.619 0.00 0.00 0.00 3.16
2685 8078 5.961421 AGATTACAAGAGCTAAGGAGGAAGT 59.039 40.000 0.00 0.00 0.00 3.01
2686 8079 6.478512 AGATTACAAGAGCTAAGGAGGAAG 57.521 41.667 0.00 0.00 0.00 3.46
2687 8080 6.644347 CAAGATTACAAGAGCTAAGGAGGAA 58.356 40.000 0.00 0.00 0.00 3.36
2688 8081 5.395768 GCAAGATTACAAGAGCTAAGGAGGA 60.396 44.000 0.00 0.00 0.00 3.71
2689 8082 4.813697 GCAAGATTACAAGAGCTAAGGAGG 59.186 45.833 0.00 0.00 0.00 4.30
2690 8083 4.813697 GGCAAGATTACAAGAGCTAAGGAG 59.186 45.833 0.00 0.00 0.00 3.69
2691 8084 4.471386 AGGCAAGATTACAAGAGCTAAGGA 59.529 41.667 0.00 0.00 0.00 3.36
2692 8085 4.775236 AGGCAAGATTACAAGAGCTAAGG 58.225 43.478 0.00 0.00 0.00 2.69
2693 8086 5.645497 ACAAGGCAAGATTACAAGAGCTAAG 59.355 40.000 0.00 0.00 0.00 2.18
2694 8087 5.412594 CACAAGGCAAGATTACAAGAGCTAA 59.587 40.000 0.00 0.00 0.00 3.09
2695 8088 4.937620 CACAAGGCAAGATTACAAGAGCTA 59.062 41.667 0.00 0.00 0.00 3.32
2696 8089 3.755378 CACAAGGCAAGATTACAAGAGCT 59.245 43.478 0.00 0.00 0.00 4.09
2697 8090 3.119708 CCACAAGGCAAGATTACAAGAGC 60.120 47.826 0.00 0.00 0.00 4.09
2698 8091 3.441572 CCCACAAGGCAAGATTACAAGAG 59.558 47.826 0.00 0.00 0.00 2.85
2699 8092 3.073798 TCCCACAAGGCAAGATTACAAGA 59.926 43.478 0.00 0.00 34.51 3.02
2700 8093 3.420893 TCCCACAAGGCAAGATTACAAG 58.579 45.455 0.00 0.00 34.51 3.16
2701 8094 3.420893 CTCCCACAAGGCAAGATTACAA 58.579 45.455 0.00 0.00 34.51 2.41
2702 8095 2.290896 CCTCCCACAAGGCAAGATTACA 60.291 50.000 0.00 0.00 34.51 2.41
2703 8096 2.369394 CCTCCCACAAGGCAAGATTAC 58.631 52.381 0.00 0.00 34.51 1.89
2704 8097 2.806945 CCTCCCACAAGGCAAGATTA 57.193 50.000 0.00 0.00 34.51 1.75
2705 8098 3.677963 CCTCCCACAAGGCAAGATT 57.322 52.632 0.00 0.00 34.51 2.40
2712 8105 1.351017 TGAGTTTAGCCTCCCACAAGG 59.649 52.381 0.00 0.00 39.62 3.61
2713 8106 2.039084 AGTGAGTTTAGCCTCCCACAAG 59.961 50.000 0.00 0.00 0.00 3.16
2714 8107 2.054799 AGTGAGTTTAGCCTCCCACAA 58.945 47.619 0.00 0.00 0.00 3.33
2715 8108 1.729586 AGTGAGTTTAGCCTCCCACA 58.270 50.000 0.00 0.00 0.00 4.17
2716 8109 2.701107 GAAGTGAGTTTAGCCTCCCAC 58.299 52.381 0.00 0.00 0.00 4.61
2717 8110 1.275291 CGAAGTGAGTTTAGCCTCCCA 59.725 52.381 0.00 0.00 0.00 4.37
2718 8111 1.275573 ACGAAGTGAGTTTAGCCTCCC 59.724 52.381 0.00 0.00 42.51 4.30
2719 8112 2.745515 ACGAAGTGAGTTTAGCCTCC 57.254 50.000 0.00 0.00 42.51 4.30


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

AutoCloner maintained by Alex Coulton.