Multiple sequence alignment - TraesCS5A01G046600

Loading Multiple Alignment...

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 TraesCS5A01G046600 chr5A 100.000 3101 0 0 1 3101 41499165 41496065 0.000000e+00 5727.0
1 TraesCS5A01G046600 chr5A 91.429 350 25 4 211 559 543202868 543202523 2.800000e-130 475.0
2 TraesCS5A01G046600 chr5A 90.857 350 27 2 211 559 297614640 297614985 6.060000e-127 464.0
3 TraesCS5A01G046600 chr5A 94.074 135 7 1 265 398 677744385 677744251 1.460000e-48 204.0
4 TraesCS5A01G046600 chr5A 93.077 130 7 2 270 398 543601665 543601537 4.080000e-44 189.0
5 TraesCS5A01G046600 chr5A 86.585 82 7 3 2473 2553 41477317 41477239 1.530000e-13 87.9
6 TraesCS5A01G046600 chr5A 90.698 43 4 0 2321 2363 41474733 41474691 1.200000e-04 58.4
7 TraesCS5A01G046600 chr5B 91.855 2701 132 42 1 2639 55551676 55549002 0.000000e+00 3688.0
8 TraesCS5A01G046600 chr5B 87.500 96 10 2 3008 3101 55548482 55548387 3.270000e-20 110.0
9 TraesCS5A01G046600 chr5B 78.571 98 16 3 2269 2363 55538060 55537965 3.340000e-05 60.2
10 TraesCS5A01G046600 chr5B 80.000 80 13 2 2275 2351 55547429 55547350 4.320000e-04 56.5
11 TraesCS5A01G046600 chr5D 94.088 2402 80 20 433 2784 52401292 52398903 0.000000e+00 3592.0
12 TraesCS5A01G046600 chr5D 90.000 170 15 2 2933 3101 52398615 52398447 5.210000e-53 219.0
13 TraesCS5A01G046600 chr5D 89.809 157 11 3 281 432 52401482 52401326 2.440000e-46 196.0
14 TraesCS5A01G046600 chr5D 89.381 113 7 2 2824 2931 52398898 52398786 1.500000e-28 137.0
15 TraesCS5A01G046600 chr5D 95.714 70 3 0 212 281 52401578 52401509 2.530000e-21 113.0
16 TraesCS5A01G046600 chr5D 79.381 97 13 7 2271 2363 52393162 52393069 9.290000e-06 62.1
17 TraesCS5A01G046600 chr1A 90.512 527 39 8 36 559 370931455 370931973 0.000000e+00 686.0
18 TraesCS5A01G046600 chr7A 90.501 379 26 7 36 411 139583636 139584007 2.780000e-135 492.0
19 TraesCS5A01G046600 chr7A 88.889 153 13 3 407 559 139592672 139592820 5.280000e-43 185.0
20 TraesCS5A01G046600 chrUn 75.458 982 232 8 1130 2105 26989367 26988389 1.300000e-128 470.0
21 TraesCS5A01G046600 chrUn 75.100 1004 236 10 1112 2102 27045475 27046477 1.010000e-124 457.0
22 TraesCS5A01G046600 chr3A 90.878 296 22 2 265 559 425749636 425749927 2.900000e-105 392.0
23 TraesCS5A01G046600 chr6A 72.838 983 240 16 1130 2105 47645285 47644323 8.350000e-81 311.0


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 TraesCS5A01G046600 chr5A 41496065 41499165 3100 True 5727.000000 5727 100.000000 1 3101 1 chr5A.!!$R1 3100
1 TraesCS5A01G046600 chr5B 55547350 55551676 4326 True 1284.833333 3688 86.451667 1 3101 3 chr5B.!!$R2 3100
2 TraesCS5A01G046600 chr5D 52398447 52401578 3131 True 851.400000 3592 91.798400 212 3101 5 chr5D.!!$R2 2889
3 TraesCS5A01G046600 chr1A 370931455 370931973 518 False 686.000000 686 90.512000 36 559 1 chr1A.!!$F1 523
4 TraesCS5A01G046600 chrUn 26988389 26989367 978 True 470.000000 470 75.458000 1130 2105 1 chrUn.!!$R1 975
5 TraesCS5A01G046600 chrUn 27045475 27046477 1002 False 457.000000 457 75.100000 1112 2102 1 chrUn.!!$F1 990
6 TraesCS5A01G046600 chr6A 47644323 47645285 962 True 311.000000 311 72.838000 1130 2105 1 chr6A.!!$R1 975

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
626 729 1.202336 GCTGAAATGCAATAGCGGCTT 60.202 47.619 8.26 0.0 46.23 4.35 F
1177 1283 0.468029 CACACCACCAAAGCCCTTCT 60.468 55.000 0.00 0.0 0.00 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1997 2115 1.359475 GACGCTGACCTCGGTATCC 59.641 63.158 0.0 0.0 0.0 2.59 R
2717 2987 0.415429 AGACAGATGAGGGGGTGACT 59.585 55.000 0.0 0.0 0.0 3.41 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
56 59 3.426117 CTAGGTGGCGGCGTGTAGG 62.426 68.421 9.37 0.00 0.00 3.18
105 108 1.710013 CGGTCACTACGATGCTGTTT 58.290 50.000 0.00 0.00 0.00 2.83
107 110 2.092211 CGGTCACTACGATGCTGTTTTC 59.908 50.000 0.00 0.00 0.00 2.29
327 394 1.614317 GGCTTGCCATCTTACCTGTGT 60.614 52.381 6.79 0.00 0.00 3.72
334 402 3.561725 GCCATCTTACCTGTGTTGCTATC 59.438 47.826 0.00 0.00 0.00 2.08
336 404 4.813161 CCATCTTACCTGTGTTGCTATCAG 59.187 45.833 0.00 0.00 0.00 2.90
342 410 2.947652 CCTGTGTTGCTATCAGAATGGG 59.052 50.000 5.30 0.00 36.16 4.00
403 471 1.211457 GAGGGATCACCAGACTGCAAT 59.789 52.381 0.00 0.00 43.89 3.56
425 495 2.158885 GGGTCCTAGCTGTTGGAATCTC 60.159 54.545 0.00 0.00 33.72 2.75
457 560 6.959639 ACTTGTTTGTGTGGTTGATAGATT 57.040 33.333 0.00 0.00 0.00 2.40
547 650 2.892374 CCGTGACAACAGATGATGCTA 58.108 47.619 0.00 0.00 0.00 3.49
626 729 1.202336 GCTGAAATGCAATAGCGGCTT 60.202 47.619 8.26 0.00 46.23 4.35
646 749 6.152379 GGCTTGTTTATCTTGGCATATAAGC 58.848 40.000 0.00 0.00 36.87 3.09
657 760 8.185506 TCTTGGCATATAAGCATCAATTTCAT 57.814 30.769 1.93 0.00 35.83 2.57
664 767 3.028094 AGCATCAATTTCATGGCTCCT 57.972 42.857 0.00 0.00 0.00 3.69
718 821 5.748152 GCATTTAAAGAACAAGTCAGTTGCA 59.252 36.000 0.00 0.00 40.15 4.08
928 1034 1.552792 GTTCCCCAGGAAGAGAGAGTG 59.447 57.143 0.00 0.00 42.88 3.51
1177 1283 0.468029 CACACCACCAAAGCCCTTCT 60.468 55.000 0.00 0.00 0.00 2.85
1248 1354 2.281091 CTCCATGGCTGGGGCATT 59.719 61.111 6.96 0.00 46.61 3.56
1256 1362 1.611965 GCTGGGGCATTCTCTCCTT 59.388 57.895 0.00 0.00 38.54 3.36
1335 1441 1.576356 GCTACCATGAGCTCTTTCCG 58.424 55.000 16.19 1.23 39.50 4.30
1473 1579 2.242965 TGACATGCTTCCCATTGGAGAT 59.757 45.455 3.62 0.00 43.07 2.75
1902 2020 2.915604 ACATGACATCTTCCTGAACCCT 59.084 45.455 0.00 0.00 0.00 4.34
1997 2115 1.208052 TCTCTTCAAGAAGATGGGGCG 59.792 52.381 12.50 1.35 45.40 6.13
2211 2329 7.843490 TGATGTGGAGCAGTAATAGTTTTAC 57.157 36.000 0.00 0.00 0.00 2.01
2212 2330 7.620880 TGATGTGGAGCAGTAATAGTTTTACT 58.379 34.615 0.60 0.60 35.76 2.24
2373 2503 6.695713 CAGGAAGCACATGAATGATGTAATTG 59.304 38.462 0.00 0.00 43.96 2.32
2374 2504 6.379133 AGGAAGCACATGAATGATGTAATTGT 59.621 34.615 0.00 0.00 43.96 2.71
2405 2536 6.773638 TCTAAATAAGGAGAGAATGATGCCC 58.226 40.000 0.00 0.00 0.00 5.36
2416 2547 2.725221 ATGATGCCCTTGTCTTCTCC 57.275 50.000 0.00 0.00 0.00 3.71
2451 2583 2.819608 GGAACAGGCTACAAATGCAGAA 59.180 45.455 0.00 0.00 0.00 3.02
2457 2589 5.476599 ACAGGCTACAAATGCAGAAATACAA 59.523 36.000 0.00 0.00 0.00 2.41
2459 2591 6.308766 CAGGCTACAAATGCAGAAATACAAAC 59.691 38.462 0.00 0.00 0.00 2.93
2460 2592 6.015519 AGGCTACAAATGCAGAAATACAAACA 60.016 34.615 0.00 0.00 0.00 2.83
2469 2601 5.032863 GCAGAAATACAAACATAGCTGCTG 58.967 41.667 13.43 0.00 42.91 4.41
2470 2602 5.163723 GCAGAAATACAAACATAGCTGCTGA 60.164 40.000 13.43 0.00 42.91 4.26
2471 2603 6.253746 CAGAAATACAAACATAGCTGCTGAC 58.746 40.000 13.43 0.00 0.00 3.51
2478 2617 6.820335 ACAAACATAGCTGCTGACTATATCA 58.180 36.000 13.43 0.00 35.45 2.15
2507 2646 7.997107 CATTGTTTGCATGCTAATCTATGTT 57.003 32.000 20.33 0.00 0.00 2.71
2595 2734 5.242393 ACTCACATGTTTCCCTCTCAAAATG 59.758 40.000 0.00 0.00 0.00 2.32
2696 2961 8.391075 TGTTTTCCTTAACCTAGAACATGAAG 57.609 34.615 0.00 0.00 0.00 3.02
2702 2967 4.917906 AACCTAGAACATGAAGAGCCTT 57.082 40.909 0.00 0.00 0.00 4.35
2764 3047 5.572896 GCTTGGAACTGTAAATGGAAAATCG 59.427 40.000 0.00 0.00 0.00 3.34
2780 3063 1.583054 ATCGGGAGAAAATGTAGCGC 58.417 50.000 0.00 0.00 45.37 5.92
2784 3067 2.565841 GGGAGAAAATGTAGCGCTGAT 58.434 47.619 22.90 9.24 0.00 2.90
2785 3068 3.728845 GGGAGAAAATGTAGCGCTGATA 58.271 45.455 22.90 6.33 0.00 2.15
2787 3070 5.479306 GGGAGAAAATGTAGCGCTGATATA 58.521 41.667 22.90 0.00 0.00 0.86
2788 3071 6.109359 GGGAGAAAATGTAGCGCTGATATAT 58.891 40.000 22.90 0.19 0.00 0.86
2789 3072 6.256757 GGGAGAAAATGTAGCGCTGATATATC 59.743 42.308 22.90 11.78 0.00 1.63
2790 3073 6.256757 GGAGAAAATGTAGCGCTGATATATCC 59.743 42.308 22.90 15.26 0.00 2.59
2791 3074 6.701340 AGAAAATGTAGCGCTGATATATCCA 58.299 36.000 22.90 3.86 0.00 3.41
2792 3075 6.591834 AGAAAATGTAGCGCTGATATATCCAC 59.408 38.462 22.90 7.25 0.00 4.02
2793 3076 3.487563 TGTAGCGCTGATATATCCACG 57.512 47.619 22.90 16.18 0.00 4.94
2794 3077 2.817844 TGTAGCGCTGATATATCCACGT 59.182 45.455 22.90 12.16 0.00 4.49
2795 3078 2.354109 AGCGCTGATATATCCACGTG 57.646 50.000 10.39 9.08 0.00 4.49
2796 3079 0.716108 GCGCTGATATATCCACGTGC 59.284 55.000 10.91 16.35 0.00 5.34
2797 3080 1.670087 GCGCTGATATATCCACGTGCT 60.670 52.381 10.91 1.67 0.00 4.40
2798 3081 1.988467 CGCTGATATATCCACGTGCTG 59.012 52.381 10.91 0.00 0.00 4.41
2799 3082 2.351738 CGCTGATATATCCACGTGCTGA 60.352 50.000 10.91 3.10 0.00 4.26
2800 3083 3.674410 CGCTGATATATCCACGTGCTGAT 60.674 47.826 10.91 11.16 0.00 2.90
2801 3084 4.438744 CGCTGATATATCCACGTGCTGATA 60.439 45.833 10.91 13.07 0.00 2.15
2802 3085 5.595885 GCTGATATATCCACGTGCTGATAT 58.404 41.667 22.61 22.61 37.76 1.63
2803 3086 6.513393 CGCTGATATATCCACGTGCTGATATA 60.513 42.308 24.45 24.45 39.49 0.86
2804 3087 7.374272 GCTGATATATCCACGTGCTGATATAT 58.626 38.462 28.70 28.70 44.22 0.86
2805 3088 7.869937 GCTGATATATCCACGTGCTGATATATT 59.130 37.037 28.81 20.16 42.77 1.28
2806 3089 9.755804 CTGATATATCCACGTGCTGATATATTT 57.244 33.333 28.81 18.89 42.77 1.40
2811 3094 7.658179 ATCCACGTGCTGATATATTTACTTG 57.342 36.000 10.91 0.00 0.00 3.16
2812 3095 5.989168 TCCACGTGCTGATATATTTACTTGG 59.011 40.000 10.91 0.00 0.00 3.61
2813 3096 5.989168 CCACGTGCTGATATATTTACTTGGA 59.011 40.000 10.91 0.00 31.42 3.53
2814 3097 6.481976 CCACGTGCTGATATATTTACTTGGAA 59.518 38.462 10.91 0.00 31.42 3.53
2815 3098 7.345192 CACGTGCTGATATATTTACTTGGAAC 58.655 38.462 0.82 0.00 0.00 3.62
2816 3099 7.224753 CACGTGCTGATATATTTACTTGGAACT 59.775 37.037 0.82 0.00 0.00 3.01
2817 3100 7.224753 ACGTGCTGATATATTTACTTGGAACTG 59.775 37.037 0.00 0.00 0.00 3.16
2818 3101 7.224753 CGTGCTGATATATTTACTTGGAACTGT 59.775 37.037 0.00 0.00 0.00 3.55
2819 3102 9.542462 GTGCTGATATATTTACTTGGAACTGTA 57.458 33.333 0.00 0.00 0.00 2.74
2834 3117 9.345517 CTTGGAACTGTAAATGACAACATAATG 57.654 33.333 0.00 0.00 37.70 1.90
2844 3127 5.375417 TGACAACATAATGCAGGAACAAG 57.625 39.130 0.00 0.00 0.00 3.16
2846 3129 3.056607 ACAACATAATGCAGGAACAAGCC 60.057 43.478 0.00 0.00 0.00 4.35
2919 3226 6.072838 TGTTCAGCAGAGAGTTTCATTTGATC 60.073 38.462 0.00 0.00 0.00 2.92
2926 3233 7.623925 GCAGAGAGTTTCATTTGATCTTCAGAC 60.624 40.741 0.00 0.00 0.00 3.51
2931 3238 6.093219 AGTTTCATTTGATCTTCAGACCATCG 59.907 38.462 0.00 0.00 0.00 3.84
2938 3429 0.608130 CTTCAGACCATCGACCCACA 59.392 55.000 0.00 0.00 0.00 4.17
2956 3447 3.684788 CCACACATGTTAGCTTCTGGTAC 59.315 47.826 0.00 0.00 0.00 3.34
2977 3468 3.402366 ACATACATGGGCCCTATGGAAAT 59.598 43.478 27.53 18.59 0.00 2.17
2987 3478 4.502087 GGCCCTATGGAAATTTTGATCTGC 60.502 45.833 0.00 0.00 0.00 4.26
2999 3490 2.477845 TGATCTGCTTGCAGCTTGTA 57.522 45.000 16.91 0.84 42.97 2.41
3019 3510 4.640201 TGTAAACACTTTCTTCAAGCTGCT 59.360 37.500 0.00 0.00 35.65 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 2.511600 GATTGGTGGCTCGGACCG 60.512 66.667 7.84 7.84 36.12 4.79
56 59 2.767073 AGGCCGCCTTACCCTACC 60.767 66.667 5.94 0.00 0.00 3.18
105 108 8.826710 CCATTGCTGTTTCTATTATAGAACGAA 58.173 33.333 13.59 0.00 43.96 3.85
107 110 7.307989 CCCCATTGCTGTTTCTATTATAGAACG 60.308 40.741 13.59 7.28 43.96 3.95
235 245 2.597340 CAATCCGCATCCCCACCT 59.403 61.111 0.00 0.00 0.00 4.00
327 394 3.264193 ACTCACACCCATTCTGATAGCAA 59.736 43.478 0.00 0.00 0.00 3.91
334 402 2.226437 CGGAAAACTCACACCCATTCTG 59.774 50.000 0.00 0.00 0.00 3.02
336 404 1.068541 GCGGAAAACTCACACCCATTC 60.069 52.381 0.00 0.00 0.00 2.67
342 410 0.452784 GCGATGCGGAAAACTCACAC 60.453 55.000 0.00 0.00 0.00 3.82
403 471 1.559682 GATTCCAACAGCTAGGACCCA 59.440 52.381 1.49 0.00 32.62 4.51
425 495 5.812652 ACCACACAAACAAGTACGTATTTG 58.187 37.500 24.29 24.29 37.91 2.32
457 560 1.001020 CAACAGCATAGCCACCCCA 60.001 57.895 0.00 0.00 0.00 4.96
528 631 2.283617 GCTAGCATCATCTGTTGTCACG 59.716 50.000 10.63 0.00 0.00 4.35
536 639 2.297880 AGAGCAGAGCTAGCATCATCTG 59.702 50.000 21.47 21.47 39.88 2.90
547 650 1.406614 GCATAACACCAGAGCAGAGCT 60.407 52.381 0.00 0.00 43.88 4.09
626 729 8.462589 TTGATGCTTATATGCCAAGATAAACA 57.537 30.769 8.04 0.00 0.00 2.83
646 749 4.401519 AGACAAGGAGCCATGAAATTGATG 59.598 41.667 0.00 0.00 0.00 3.07
657 760 1.000506 GTACGACAAGACAAGGAGCCA 59.999 52.381 0.00 0.00 0.00 4.75
664 767 9.030301 CATTCATATACATGTACGACAAGACAA 57.970 33.333 7.96 0.00 33.57 3.18
928 1034 1.602311 CATATGAGAGTGCCCCAAGC 58.398 55.000 0.00 0.00 44.14 4.01
1177 1283 0.473755 TAGTAGTGCGGGATACGGGA 59.526 55.000 0.00 0.00 44.51 5.14
1248 1354 2.440430 CGGCGAGGGAAGGAGAGA 60.440 66.667 0.00 0.00 0.00 3.10
1256 1362 1.541310 ATCAAAGACACGGCGAGGGA 61.541 55.000 16.62 1.04 0.00 4.20
1473 1579 1.473257 CGGCGAGAATCAGGATCCAAA 60.473 52.381 15.82 0.82 33.17 3.28
1902 2020 2.907458 TGACTCTCTGGATCCTGTCA 57.093 50.000 14.23 15.09 32.91 3.58
1997 2115 1.359475 GACGCTGACCTCGGTATCC 59.641 63.158 0.00 0.00 0.00 2.59
2211 2329 9.892130 AAGTTTCTACCATCCTATCTAAAACAG 57.108 33.333 0.00 0.00 0.00 3.16
2215 2333 9.667107 CACAAAGTTTCTACCATCCTATCTAAA 57.333 33.333 0.00 0.00 0.00 1.85
2216 2334 8.822805 ACACAAAGTTTCTACCATCCTATCTAA 58.177 33.333 0.00 0.00 0.00 2.10
2217 2335 8.258007 CACACAAAGTTTCTACCATCCTATCTA 58.742 37.037 0.00 0.00 0.00 1.98
2218 2336 7.106239 CACACAAAGTTTCTACCATCCTATCT 58.894 38.462 0.00 0.00 0.00 1.98
2405 2536 5.667539 TGATTCCAGTAGGAGAAGACAAG 57.332 43.478 0.00 0.00 46.74 3.16
2416 2547 3.629398 GCCTGTTCCATTGATTCCAGTAG 59.371 47.826 0.00 0.00 0.00 2.57
2451 2583 9.429359 GATATAGTCAGCAGCTATGTTTGTATT 57.571 33.333 0.00 0.00 32.15 1.89
2457 2589 7.321908 CAGATGATATAGTCAGCAGCTATGTT 58.678 38.462 0.00 0.00 45.62 2.71
2573 2712 5.384336 TCATTTTGAGAGGGAAACATGTGA 58.616 37.500 0.00 0.00 0.00 3.58
2638 2777 9.075678 GTACACCATGGACTTACTATATACTGT 57.924 37.037 21.47 9.38 0.00 3.55
2639 2778 9.298250 AGTACACCATGGACTTACTATATACTG 57.702 37.037 21.47 2.98 38.73 2.74
2702 2967 5.387788 GGGGTGACTTTAAGGGAGTAAAAA 58.612 41.667 0.00 0.00 0.00 1.94
2712 2982 3.264450 ACAGATGAGGGGGTGACTTTAAG 59.736 47.826 0.00 0.00 0.00 1.85
2713 2983 3.256704 ACAGATGAGGGGGTGACTTTAA 58.743 45.455 0.00 0.00 0.00 1.52
2716 2986 1.203364 AGACAGATGAGGGGGTGACTT 60.203 52.381 0.00 0.00 0.00 3.01
2717 2987 0.415429 AGACAGATGAGGGGGTGACT 59.585 55.000 0.00 0.00 0.00 3.41
2764 3047 2.024176 TCAGCGCTACATTTTCTCCC 57.976 50.000 10.99 0.00 0.00 4.30
2780 3063 9.755804 AAATATATCAGCACGTGGATATATCAG 57.244 33.333 28.56 9.32 43.65 2.90
2785 3068 9.371136 CAAGTAAATATATCAGCACGTGGATAT 57.629 33.333 22.61 22.61 39.41 1.63
2787 3070 6.650807 CCAAGTAAATATATCAGCACGTGGAT 59.349 38.462 18.88 14.48 37.62 3.41
2788 3071 5.989168 CCAAGTAAATATATCAGCACGTGGA 59.011 40.000 18.88 7.37 37.62 4.02
2789 3072 5.989168 TCCAAGTAAATATATCAGCACGTGG 59.011 40.000 18.88 0.92 37.03 4.94
2790 3073 7.224753 AGTTCCAAGTAAATATATCAGCACGTG 59.775 37.037 12.28 12.28 0.00 4.49
2791 3074 7.224753 CAGTTCCAAGTAAATATATCAGCACGT 59.775 37.037 0.00 0.00 0.00 4.49
2792 3075 7.224753 ACAGTTCCAAGTAAATATATCAGCACG 59.775 37.037 0.00 0.00 0.00 5.34
2793 3076 8.438676 ACAGTTCCAAGTAAATATATCAGCAC 57.561 34.615 0.00 0.00 0.00 4.40
2803 3086 8.908903 TGTTGTCATTTACAGTTCCAAGTAAAT 58.091 29.630 0.00 0.00 46.31 1.40
2804 3087 8.282455 TGTTGTCATTTACAGTTCCAAGTAAA 57.718 30.769 0.00 0.00 42.39 2.01
2805 3088 7.867305 TGTTGTCATTTACAGTTCCAAGTAA 57.133 32.000 0.00 0.00 39.87 2.24
2806 3089 9.562408 TTATGTTGTCATTTACAGTTCCAAGTA 57.438 29.630 0.00 0.00 39.87 2.24
2807 3090 6.959639 ATGTTGTCATTTACAGTTCCAAGT 57.040 33.333 0.00 0.00 39.87 3.16
2808 3091 9.345517 CATTATGTTGTCATTTACAGTTCCAAG 57.654 33.333 0.00 0.00 39.87 3.61
2809 3092 7.812191 GCATTATGTTGTCATTTACAGTTCCAA 59.188 33.333 0.00 0.00 39.87 3.53
2810 3093 7.040132 TGCATTATGTTGTCATTTACAGTTCCA 60.040 33.333 0.00 0.00 39.87 3.53
2811 3094 7.312154 TGCATTATGTTGTCATTTACAGTTCC 58.688 34.615 0.00 0.00 39.87 3.62
2812 3095 7.485913 CCTGCATTATGTTGTCATTTACAGTTC 59.514 37.037 0.00 0.00 39.87 3.01
2813 3096 7.176515 TCCTGCATTATGTTGTCATTTACAGTT 59.823 33.333 0.00 0.00 39.87 3.16
2814 3097 6.658816 TCCTGCATTATGTTGTCATTTACAGT 59.341 34.615 0.00 0.00 39.87 3.55
2815 3098 7.087409 TCCTGCATTATGTTGTCATTTACAG 57.913 36.000 0.00 0.00 39.87 2.74
2816 3099 7.040132 TGTTCCTGCATTATGTTGTCATTTACA 60.040 33.333 0.00 0.00 35.70 2.41
2817 3100 7.312154 TGTTCCTGCATTATGTTGTCATTTAC 58.688 34.615 0.00 0.00 35.70 2.01
2818 3101 7.459795 TGTTCCTGCATTATGTTGTCATTTA 57.540 32.000 0.00 0.00 35.70 1.40
2819 3102 6.343716 TGTTCCTGCATTATGTTGTCATTT 57.656 33.333 0.00 0.00 35.70 2.32
2820 3103 5.981088 TGTTCCTGCATTATGTTGTCATT 57.019 34.783 0.00 0.00 35.70 2.57
2821 3104 5.622914 GCTTGTTCCTGCATTATGTTGTCAT 60.623 40.000 0.00 0.00 38.00 3.06
2822 3105 4.321156 GCTTGTTCCTGCATTATGTTGTCA 60.321 41.667 0.00 0.00 0.00 3.58
2834 3117 2.602257 AGTTTTTGGCTTGTTCCTGC 57.398 45.000 0.00 0.00 0.00 4.85
2844 3127 3.824414 AGCACGTGTATAGTTTTTGGC 57.176 42.857 18.38 0.00 0.00 4.52
2846 3129 4.491924 CGGCTAGCACGTGTATAGTTTTTG 60.492 45.833 18.24 6.16 0.00 2.44
2919 3226 0.608130 TGTGGGTCGATGGTCTGAAG 59.392 55.000 0.00 0.00 0.00 3.02
2926 3233 2.279741 CTAACATGTGTGGGTCGATGG 58.720 52.381 0.00 0.00 0.00 3.51
2931 3238 2.744202 CAGAAGCTAACATGTGTGGGTC 59.256 50.000 0.00 0.00 0.00 4.46
2938 3429 6.294361 TGTATGTACCAGAAGCTAACATGT 57.706 37.500 0.00 0.00 33.15 3.21
2956 3447 3.524095 TTTCCATAGGGCCCATGTATG 57.476 47.619 27.56 22.08 0.00 2.39
2987 3478 4.925068 AGAAAGTGTTTACAAGCTGCAAG 58.075 39.130 1.02 0.00 0.00 4.01
2999 3490 3.696051 TGAGCAGCTTGAAGAAAGTGTTT 59.304 39.130 0.00 0.00 38.25 2.83
3019 3510 5.068987 AGTTAGATTTGCCAGCAACTTTTGA 59.931 36.000 4.18 0.00 35.46 2.69


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

AutoCloner maintained by Alex Coulton.