Multiple sequence alignment - TraesCS7B01G099900

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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 TraesCS7B01G099900 chr7B 100.000 3048 0 0 1 3048 114177573 114180620 0.000000e+00 5629.0
1 TraesCS7B01G099900 chr7B 80.525 1448 192 58 688 2095 113770229 113771626 0.000000e+00 1029.0
2 TraesCS7B01G099900 chr7B 78.750 160 34 0 1389 1548 581395682 581395523 1.160000e-19 108.0
3 TraesCS7B01G099900 chr7A 94.364 1650 55 16 504 2149 152539930 152541545 0.000000e+00 2497.0
4 TraesCS7B01G099900 chr7A 87.879 528 33 16 2137 2656 152541777 152542281 2.620000e-165 592.0
5 TraesCS7B01G099900 chr7A 94.444 324 9 2 1 317 152539392 152539713 9.820000e-135 490.0
6 TraesCS7B01G099900 chr7A 89.408 321 25 5 2726 3044 152542304 152542617 2.200000e-106 396.0
7 TraesCS7B01G099900 chr7A 79.375 160 33 0 1389 1548 620412451 620412292 2.480000e-21 113.0
8 TraesCS7B01G099900 chr7D 92.018 1541 59 28 693 2209 152120195 152121695 0.000000e+00 2106.0
9 TraesCS7B01G099900 chr7D 79.789 1425 200 59 716 2095 151940910 151939529 0.000000e+00 955.0
10 TraesCS7B01G099900 chr7D 79.665 895 115 41 718 1581 151856886 151856028 1.580000e-162 582.0
11 TraesCS7B01G099900 chr7D 78.970 913 124 44 716 1595 152099256 152098379 7.380000e-156 560.0
12 TraesCS7B01G099900 chr7D 87.859 453 46 4 1644 2090 152098292 152097843 9.680000e-145 523.0
13 TraesCS7B01G099900 chr7D 85.435 460 55 5 1644 2095 151855929 151855474 4.600000e-128 468.0
14 TraesCS7B01G099900 chr7D 80.566 530 45 29 203 703 152118651 152119151 3.740000e-94 355.0
15 TraesCS7B01G099900 chr7D 97.561 205 4 1 1 205 152118025 152118228 1.740000e-92 350.0
16 TraesCS7B01G099900 chr7D 86.154 325 19 3 2726 3048 152126834 152127134 8.150000e-86 327.0
17 TraesCS7B01G099900 chr7D 80.277 289 20 15 2205 2469 152125719 152125994 1.870000e-42 183.0
18 TraesCS7B01G099900 chr7D 87.681 138 5 8 2477 2608 152126208 152126339 1.890000e-32 150.0
19 TraesCS7B01G099900 chr7D 79.375 160 33 0 1389 1548 538895309 538895150 2.480000e-21 113.0
20 TraesCS7B01G099900 chr4D 94.545 55 3 0 451 505 277378548 277378602 5.410000e-13 86.1
21 TraesCS7B01G099900 chr4D 90.476 42 2 2 471 511 43284040 43284000 2.000000e-03 54.7
22 TraesCS7B01G099900 chr3D 100.000 38 0 0 448 485 8253750 8253787 1.520000e-08 71.3
23 TraesCS7B01G099900 chr6D 92.157 51 1 2 434 484 451906088 451906041 5.450000e-08 69.4
24 TraesCS7B01G099900 chr6D 97.143 35 1 0 450 484 32920262 32920228 3.280000e-05 60.2
25 TraesCS7B01G099900 chr6A 100.000 35 0 0 450 484 3205679 3205645 7.050000e-07 65.8
26 TraesCS7B01G099900 chr6A 100.000 35 0 0 450 484 3237492 3237458 7.050000e-07 65.8
27 TraesCS7B01G099900 chr5A 97.368 38 1 0 447 484 461871465 461871428 7.050000e-07 65.8
28 TraesCS7B01G099900 chr2D 97.368 38 1 0 447 484 568785159 568785196 7.050000e-07 65.8
29 TraesCS7B01G099900 chr1A 95.000 40 1 1 445 484 297710095 297710057 9.120000e-06 62.1
30 TraesCS7B01G099900 chrUn 100.000 29 0 0 481 509 86842354 86842326 2.000000e-03 54.7
31 TraesCS7B01G099900 chr6B 92.308 39 1 2 471 508 121716530 121716493 2.000000e-03 54.7


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 TraesCS7B01G099900 chr7B 114177573 114180620 3047 False 5629.00 5629 100.000000 1 3048 1 chr7B.!!$F2 3047
1 TraesCS7B01G099900 chr7B 113770229 113771626 1397 False 1029.00 1029 80.525000 688 2095 1 chr7B.!!$F1 1407
2 TraesCS7B01G099900 chr7A 152539392 152542617 3225 False 993.75 2497 91.523750 1 3044 4 chr7A.!!$F1 3043
3 TraesCS7B01G099900 chr7D 151939529 151940910 1381 True 955.00 955 79.789000 716 2095 1 chr7D.!!$R1 1379
4 TraesCS7B01G099900 chr7D 152118025 152121695 3670 False 937.00 2106 90.048333 1 2209 3 chr7D.!!$F1 2208
5 TraesCS7B01G099900 chr7D 152097843 152099256 1413 True 541.50 560 83.414500 716 2090 2 chr7D.!!$R4 1374
6 TraesCS7B01G099900 chr7D 151855474 151856886 1412 True 525.00 582 82.550000 718 2095 2 chr7D.!!$R3 1377
7 TraesCS7B01G099900 chr7D 152125719 152127134 1415 False 220.00 327 84.704000 2205 3048 3 chr7D.!!$F2 843

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
862 2438 0.165944 GGACTGATCGGTTTTGCGTG 59.834 55.0 8.99 0.0 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2320 4298 0.80374 GAAGAGAGTGAGCCGTACGT 59.196 55.0 15.21 0.0 0.0 3.57 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
200 208 5.947228 TTATGAGTGACAAAAAGAGGCAG 57.053 39.130 0.00 0.00 0.00 4.85
211 643 5.009410 ACAAAAAGAGGCAGAGAACAATGAG 59.991 40.000 0.00 0.00 0.00 2.90
226 658 5.562506 ACAATGAGATGTCTTTCATGCAG 57.437 39.130 0.00 0.00 36.83 4.41
227 659 4.142447 ACAATGAGATGTCTTTCATGCAGC 60.142 41.667 0.00 0.00 36.83 5.25
264 696 3.499048 CAGGTGACGACACTACACATAC 58.501 50.000 17.14 0.00 45.32 2.39
272 704 4.280174 ACGACACTACACATACTCTTGGTT 59.720 41.667 0.00 0.00 0.00 3.67
326 758 8.892723 TGTATGGAAAGATATGACACAAATGAC 58.107 33.333 0.00 0.00 0.00 3.06
403 835 6.570672 ATCGCTCGATCACCTAAAGTAATA 57.429 37.500 0.00 0.00 0.00 0.98
404 836 6.381481 TCGCTCGATCACCTAAAGTAATAA 57.619 37.500 0.00 0.00 0.00 1.40
405 837 6.978338 TCGCTCGATCACCTAAAGTAATAAT 58.022 36.000 0.00 0.00 0.00 1.28
412 844 7.333672 CGATCACCTAAAGTAATAATAAGGGGC 59.666 40.741 0.00 0.00 0.00 5.80
413 845 7.454553 TCACCTAAAGTAATAATAAGGGGCA 57.545 36.000 0.00 0.00 0.00 5.36
417 853 9.723760 ACCTAAAGTAATAATAAGGGGCAAAAT 57.276 29.630 0.00 0.00 0.00 1.82
475 911 5.011738 ACTTCCTCCGTCTCAAAATAAGTGA 59.988 40.000 0.00 0.00 0.00 3.41
476 912 4.817517 TCCTCCGTCTCAAAATAAGTGAC 58.182 43.478 0.00 0.00 0.00 3.67
497 980 5.997746 TGACTCAACTTATTTTGGGACAGAG 59.002 40.000 0.00 0.00 42.39 3.35
508 1003 2.285707 TGGGACAGAGGGAGTAGTACT 58.714 52.381 1.37 1.37 0.00 2.73
509 1004 3.467843 TGGGACAGAGGGAGTAGTACTA 58.532 50.000 1.88 0.00 0.00 1.82
510 1005 4.052922 TGGGACAGAGGGAGTAGTACTAT 58.947 47.826 5.75 0.00 0.00 2.12
529 1024 7.776030 AGTACTATGTACTACTGCTCATGACTT 59.224 37.037 8.43 0.00 0.00 3.01
536 1031 3.708403 ACTGCTCATGACTTTGGATCA 57.292 42.857 0.00 0.00 0.00 2.92
540 1035 4.591929 TGCTCATGACTTTGGATCATTGA 58.408 39.130 0.00 0.00 34.49 2.57
559 1054 7.648142 TCATTGAGAGTGTTTTTATGTTGTCC 58.352 34.615 0.00 0.00 0.00 4.02
615 1110 0.535335 CGTCTAAGCCCTAAGCCACA 59.465 55.000 0.00 0.00 45.47 4.17
618 1113 1.490490 TCTAAGCCCTAAGCCACATGG 59.510 52.381 0.00 0.00 45.47 3.66
648 1143 1.209504 TGCCCTAATCAAAGACCGAGG 59.790 52.381 0.00 0.00 0.00 4.63
655 1150 4.819105 AATCAAAGACCGAGGATGTACA 57.181 40.909 0.00 0.00 0.00 2.90
795 2350 1.202110 ACGATGACGACGACACCATAC 60.202 52.381 0.00 0.00 42.66 2.39
796 2351 1.202098 CGATGACGACGACACCATACA 60.202 52.381 0.00 0.00 42.66 2.29
797 2352 2.540973 CGATGACGACGACACCATACAT 60.541 50.000 0.00 0.00 42.66 2.29
798 2353 3.303526 CGATGACGACGACACCATACATA 60.304 47.826 0.00 0.00 42.66 2.29
844 2420 4.481112 GCAGAATTGCGTGGCCGG 62.481 66.667 0.00 0.00 41.13 6.13
845 2421 2.745884 CAGAATTGCGTGGCCGGA 60.746 61.111 5.05 0.00 33.68 5.14
846 2422 2.746277 AGAATTGCGTGGCCGGAC 60.746 61.111 5.05 0.56 32.65 4.79
847 2423 2.746277 GAATTGCGTGGCCGGACT 60.746 61.111 9.82 0.00 32.65 3.85
848 2424 3.039202 GAATTGCGTGGCCGGACTG 62.039 63.158 9.82 1.22 32.65 3.51
849 2425 3.545124 AATTGCGTGGCCGGACTGA 62.545 57.895 9.82 0.00 32.65 3.41
850 2426 2.819984 AATTGCGTGGCCGGACTGAT 62.820 55.000 9.82 0.00 32.65 2.90
851 2427 3.950794 TTGCGTGGCCGGACTGATC 62.951 63.158 9.82 0.00 32.65 2.92
859 2435 1.794222 CCGGACTGATCGGTTTTGC 59.206 57.895 8.99 0.00 42.33 3.68
860 2436 1.419922 CGGACTGATCGGTTTTGCG 59.580 57.895 8.99 0.00 0.00 4.85
861 2437 1.289109 CGGACTGATCGGTTTTGCGT 61.289 55.000 8.99 0.00 0.00 5.24
862 2438 0.165944 GGACTGATCGGTTTTGCGTG 59.834 55.000 8.99 0.00 0.00 5.34
872 2448 0.234884 GTTTTGCGTGGTCGAGAAGG 59.765 55.000 0.00 0.00 39.71 3.46
924 2509 0.955905 TGCACACTAGACACGCAGTA 59.044 50.000 0.00 0.00 41.61 2.74
956 2541 6.320164 TCCACATTACATGGCCAAGTATAAAC 59.680 38.462 20.80 0.00 37.13 2.01
994 2580 1.683917 ACATCTCGTGGCTAAGCTAGG 59.316 52.381 0.00 0.00 0.00 3.02
1442 3054 1.811266 CGGCGAGAACATCACCCTG 60.811 63.158 0.00 0.00 0.00 4.45
1547 3161 3.700038 AGTACAAGATACTCTGGAACCCG 59.300 47.826 0.00 0.00 0.00 5.28
1590 3231 5.111989 GCCTCCATTTCCAAGAAAATAAGC 58.888 41.667 0.00 0.00 0.00 3.09
1629 3347 5.640189 ACTTGCATTGAAATCTGAAGAGG 57.360 39.130 0.00 0.00 0.00 3.69
1846 3564 2.027625 GTTCCAGGGCTTCGACGTG 61.028 63.158 0.00 0.00 0.00 4.49
2000 3718 1.148157 CTACTGCGCCGACAAGGATG 61.148 60.000 4.18 0.00 45.00 3.51
2112 3839 5.014858 AGATGGCTATGCATGATTAAAGGG 58.985 41.667 10.16 0.00 0.00 3.95
2131 3858 1.544314 GGAGGTCCTCAGCCAATATGC 60.544 57.143 20.72 0.00 31.08 3.14
2176 4150 2.969628 ACATGTGGGATCGTCTCTTC 57.030 50.000 0.00 0.00 0.00 2.87
2268 4245 2.308722 CCATGGGTGGTGGGCTAGT 61.309 63.158 2.85 0.00 40.83 2.57
2319 4297 8.366359 AGCCCAATTAATTTCAACACTTCTAT 57.634 30.769 0.00 0.00 0.00 1.98
2320 4298 9.474313 AGCCCAATTAATTTCAACACTTCTATA 57.526 29.630 0.00 0.00 0.00 1.31
2321 4299 9.516314 GCCCAATTAATTTCAACACTTCTATAC 57.484 33.333 0.00 0.00 0.00 1.47
2327 4327 7.515957 AATTTCAACACTTCTATACGTACGG 57.484 36.000 21.06 1.09 0.00 4.02
2328 4328 4.019919 TCAACACTTCTATACGTACGGC 57.980 45.455 21.06 0.00 0.00 5.68
2329 4329 3.691118 TCAACACTTCTATACGTACGGCT 59.309 43.478 21.06 8.64 0.00 5.52
2341 4341 1.202087 CGTACGGCTCACTCTCTTCTG 60.202 57.143 7.57 0.00 0.00 3.02
2365 4365 3.603158 AAAAACGCACTTCCCAAAACT 57.397 38.095 0.00 0.00 0.00 2.66
2366 4366 3.603158 AAAACGCACTTCCCAAAACTT 57.397 38.095 0.00 0.00 0.00 2.66
2367 4367 4.722361 AAAACGCACTTCCCAAAACTTA 57.278 36.364 0.00 0.00 0.00 2.24
2368 4368 4.722361 AAACGCACTTCCCAAAACTTAA 57.278 36.364 0.00 0.00 0.00 1.85
2369 4369 4.722361 AACGCACTTCCCAAAACTTAAA 57.278 36.364 0.00 0.00 0.00 1.52
2370 4370 4.722361 ACGCACTTCCCAAAACTTAAAA 57.278 36.364 0.00 0.00 0.00 1.52
2371 4371 5.074584 ACGCACTTCCCAAAACTTAAAAA 57.925 34.783 0.00 0.00 0.00 1.94
2372 4372 5.106442 ACGCACTTCCCAAAACTTAAAAAG 58.894 37.500 0.00 0.00 0.00 2.27
2414 4414 5.061920 GGATGGTATCCATAGAAGTCGTC 57.938 47.826 0.99 0.00 45.26 4.20
2440 4440 1.205417 TCATCTTGCTCGCAGTGATCA 59.795 47.619 0.00 0.00 0.00 2.92
2513 4719 9.884465 CCAGTAAAGTTACAAGAAAAATCTGAG 57.116 33.333 4.14 0.00 36.12 3.35
2528 4734 8.973835 AAAAATCTGAGTACGTTTGACAAAAA 57.026 26.923 1.27 0.00 0.00 1.94
2529 4735 9.581099 AAAAATCTGAGTACGTTTGACAAAAAT 57.419 25.926 1.27 0.00 0.00 1.82
2531 4737 6.671614 TCTGAGTACGTTTGACAAAAATGT 57.328 33.333 1.27 4.77 34.19 2.71
2562 4771 0.835941 ATCAGTGCCCATCTCTCACC 59.164 55.000 0.00 0.00 0.00 4.02
2563 4772 1.222936 CAGTGCCCATCTCTCACCC 59.777 63.158 0.00 0.00 0.00 4.61
2564 4773 1.997874 AGTGCCCATCTCTCACCCC 60.998 63.158 0.00 0.00 0.00 4.95
2634 5268 9.398170 GATCGATCAAGAAACAAGAAAAATGAA 57.602 29.630 20.52 0.00 0.00 2.57
2657 5291 8.956426 TGAAAAATCAGAATGTGAATAGTACCC 58.044 33.333 0.00 0.00 39.19 3.69
2658 5292 7.881775 AAAATCAGAATGTGAATAGTACCCC 57.118 36.000 0.00 0.00 39.19 4.95
2659 5293 5.568620 ATCAGAATGTGAATAGTACCCCC 57.431 43.478 0.00 0.00 39.19 5.40
2660 5294 4.367166 TCAGAATGTGAATAGTACCCCCA 58.633 43.478 0.00 0.00 37.40 4.96
2661 5295 4.163458 TCAGAATGTGAATAGTACCCCCAC 59.837 45.833 0.00 0.00 37.40 4.61
2662 5296 3.134081 AGAATGTGAATAGTACCCCCACG 59.866 47.826 0.00 0.00 0.00 4.94
2663 5297 2.234896 TGTGAATAGTACCCCCACGA 57.765 50.000 0.00 0.00 0.00 4.35
2664 5298 2.538222 TGTGAATAGTACCCCCACGAA 58.462 47.619 0.00 0.00 0.00 3.85
2665 5299 2.905085 TGTGAATAGTACCCCCACGAAA 59.095 45.455 0.00 0.00 0.00 3.46
2666 5300 3.327172 TGTGAATAGTACCCCCACGAAAA 59.673 43.478 0.00 0.00 0.00 2.29
2667 5301 4.202440 TGTGAATAGTACCCCCACGAAAAA 60.202 41.667 0.00 0.00 0.00 1.94
2722 5356 8.533569 TCAAATCAAATTATCTAAAGTCCCCC 57.466 34.615 0.00 0.00 0.00 5.40
2723 5357 8.343787 TCAAATCAAATTATCTAAAGTCCCCCT 58.656 33.333 0.00 0.00 0.00 4.79
2724 5358 9.640952 CAAATCAAATTATCTAAAGTCCCCCTA 57.359 33.333 0.00 0.00 0.00 3.53
2760 5394 9.410556 CACAGTTGGATTTACCTATTCTTTTTG 57.589 33.333 0.00 0.00 39.86 2.44
2780 5414 2.881513 TGCACCGAGCTGTGAATAAAAA 59.118 40.909 8.31 0.00 45.94 1.94
2782 5416 3.058224 GCACCGAGCTGTGAATAAAAACT 60.058 43.478 8.31 0.00 41.15 2.66
2832 5466 2.351726 GCATCACGTATCAAGGTTGTCC 59.648 50.000 0.00 0.00 0.00 4.02
2884 5518 6.121776 TCTGTTCTTAGGTAGCATGGAAAA 57.878 37.500 0.00 0.00 0.00 2.29
2908 5542 5.023533 ACGTATGTGGAAGCAACAGATAT 57.976 39.130 0.00 0.00 0.00 1.63
2909 5543 6.156748 ACGTATGTGGAAGCAACAGATATA 57.843 37.500 0.00 0.00 0.00 0.86
2910 5544 6.759272 ACGTATGTGGAAGCAACAGATATAT 58.241 36.000 0.00 0.00 0.00 0.86
2911 5545 6.868864 ACGTATGTGGAAGCAACAGATATATC 59.131 38.462 4.42 4.42 0.00 1.63
2918 5552 6.327365 TGGAAGCAACAGATATATCCTCTCAA 59.673 38.462 9.18 0.00 0.00 3.02
2949 5583 3.279434 CCTATGTGCTTAGTTTGTCCCC 58.721 50.000 0.00 0.00 0.00 4.81
2955 5589 2.109128 TGCTTAGTTTGTCCCCATGGAA 59.891 45.455 15.22 0.00 44.07 3.53
3037 5673 3.194968 GTGATCCTAGTTCGGTTCCAAGA 59.805 47.826 0.00 0.00 0.00 3.02
3044 5680 2.357952 AGTTCGGTTCCAAGAGCAAAAC 59.642 45.455 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
200 208 6.128090 TGCATGAAAGACATCTCATTGTTCTC 60.128 38.462 0.00 0.00 37.07 2.87
211 643 0.448990 TGCGCTGCATGAAAGACATC 59.551 50.000 9.73 0.00 37.07 3.06
264 696 6.053005 TGTTTGTAGGTAAGACAACCAAGAG 58.947 40.000 0.00 0.00 42.40 2.85
272 704 8.862325 AATCATCAATGTTTGTAGGTAAGACA 57.138 30.769 0.00 0.00 0.00 3.41
319 751 4.055360 TCTGGTTCACTGTACGTCATTTG 58.945 43.478 0.00 0.00 0.00 2.32
326 758 3.577649 ACTGATCTGGTTCACTGTACG 57.422 47.619 4.49 0.00 0.00 3.67
435 871 8.854117 ACGGAGGAAGTATATTCGTTACTAATT 58.146 33.333 0.00 0.00 29.86 1.40
437 873 7.716998 AGACGGAGGAAGTATATTCGTTACTAA 59.283 37.037 0.00 0.00 29.86 2.24
440 876 6.017605 TGAGACGGAGGAAGTATATTCGTTAC 60.018 42.308 0.00 0.00 0.00 2.50
442 878 4.885907 TGAGACGGAGGAAGTATATTCGTT 59.114 41.667 0.00 0.00 0.00 3.85
444 880 5.434352 TTGAGACGGAGGAAGTATATTCG 57.566 43.478 0.00 0.00 0.00 3.34
445 881 9.760077 TTATTTTGAGACGGAGGAAGTATATTC 57.240 33.333 0.00 0.00 0.00 1.75
446 882 9.765795 CTTATTTTGAGACGGAGGAAGTATATT 57.234 33.333 0.00 0.00 0.00 1.28
447 883 8.925338 ACTTATTTTGAGACGGAGGAAGTATAT 58.075 33.333 0.00 0.00 0.00 0.86
448 884 8.195436 CACTTATTTTGAGACGGAGGAAGTATA 58.805 37.037 0.00 0.00 0.00 1.47
449 885 7.042335 CACTTATTTTGAGACGGAGGAAGTAT 58.958 38.462 0.00 0.00 0.00 2.12
454 890 4.527038 AGTCACTTATTTTGAGACGGAGGA 59.473 41.667 0.00 0.00 34.56 3.71
459 895 6.771188 AGTTGAGTCACTTATTTTGAGACG 57.229 37.500 0.00 0.00 34.56 4.18
475 911 5.316987 CCTCTGTCCCAAAATAAGTTGAGT 58.683 41.667 0.00 0.00 0.00 3.41
476 912 4.702131 CCCTCTGTCCCAAAATAAGTTGAG 59.298 45.833 0.00 0.00 0.00 3.02
490 973 5.051409 ACATAGTACTACTCCCTCTGTCC 57.949 47.826 4.31 0.00 0.00 4.02
508 1003 6.379988 TCCAAAGTCATGAGCAGTAGTACATA 59.620 38.462 0.00 0.00 0.00 2.29
509 1004 5.187772 TCCAAAGTCATGAGCAGTAGTACAT 59.812 40.000 0.00 0.00 0.00 2.29
510 1005 4.526650 TCCAAAGTCATGAGCAGTAGTACA 59.473 41.667 0.00 0.00 0.00 2.90
529 1024 8.408043 ACATAAAAACACTCTCAATGATCCAA 57.592 30.769 0.00 0.00 0.00 3.53
536 1031 6.777580 AGGGACAACATAAAAACACTCTCAAT 59.222 34.615 0.00 0.00 0.00 2.57
540 1035 6.485648 GTGTAGGGACAACATAAAAACACTCT 59.514 38.462 0.00 0.00 37.31 3.24
618 1113 6.920210 GTCTTTGATTAGGGCATTTTCATAGC 59.080 38.462 0.00 0.00 0.00 2.97
622 1117 4.157656 CGGTCTTTGATTAGGGCATTTTCA 59.842 41.667 0.00 0.00 0.00 2.69
624 1119 4.340617 TCGGTCTTTGATTAGGGCATTTT 58.659 39.130 0.00 0.00 0.00 1.82
648 1143 3.511699 TGCTGATTCAGACGTGTACATC 58.488 45.455 17.87 0.00 32.44 3.06
655 1150 2.254546 TGGTTTGCTGATTCAGACGT 57.745 45.000 17.87 0.00 32.44 4.34
842 2418 1.289109 ACGCAAAACCGATCAGTCCG 61.289 55.000 0.00 0.00 0.00 4.79
843 2419 0.165944 CACGCAAAACCGATCAGTCC 59.834 55.000 0.00 0.00 0.00 3.85
844 2420 0.165944 CCACGCAAAACCGATCAGTC 59.834 55.000 0.00 0.00 0.00 3.51
845 2421 0.534203 ACCACGCAAAACCGATCAGT 60.534 50.000 0.00 0.00 0.00 3.41
846 2422 0.165944 GACCACGCAAAACCGATCAG 59.834 55.000 0.00 0.00 0.00 2.90
847 2423 1.561717 CGACCACGCAAAACCGATCA 61.562 55.000 0.00 0.00 0.00 2.92
848 2424 1.131826 CGACCACGCAAAACCGATC 59.868 57.895 0.00 0.00 0.00 3.69
849 2425 1.289109 CTCGACCACGCAAAACCGAT 61.289 55.000 0.00 0.00 39.58 4.18
850 2426 1.952133 CTCGACCACGCAAAACCGA 60.952 57.895 0.00 0.00 39.58 4.69
851 2427 1.492319 TTCTCGACCACGCAAAACCG 61.492 55.000 0.00 0.00 39.58 4.44
852 2428 0.234884 CTTCTCGACCACGCAAAACC 59.765 55.000 0.00 0.00 39.58 3.27
853 2429 0.234884 CCTTCTCGACCACGCAAAAC 59.765 55.000 0.00 0.00 39.58 2.43
854 2430 1.503818 GCCTTCTCGACCACGCAAAA 61.504 55.000 0.00 0.00 39.58 2.44
855 2431 1.959226 GCCTTCTCGACCACGCAAA 60.959 57.895 0.00 0.00 39.58 3.68
856 2432 2.357034 GCCTTCTCGACCACGCAA 60.357 61.111 0.00 0.00 39.58 4.85
857 2433 4.373116 GGCCTTCTCGACCACGCA 62.373 66.667 0.00 0.00 39.58 5.24
859 2435 4.796231 CGGGCCTTCTCGACCACG 62.796 72.222 0.84 0.00 41.26 4.94
924 2509 2.879756 GCCATGTAATGTGGAGGTGTGT 60.880 50.000 0.00 0.00 44.81 3.72
956 2541 2.253452 GTGTGCGCTTGCTCTTGG 59.747 61.111 9.73 0.00 40.12 3.61
1028 2614 0.825840 GAGGACGATCAGGAGGAGGG 60.826 65.000 0.00 0.00 0.00 4.30
1345 2957 2.280389 CCGACGCCAGCTGCATAT 60.280 61.111 8.66 0.00 41.33 1.78
1346 2958 2.906182 CTTCCGACGCCAGCTGCATA 62.906 60.000 8.66 0.00 41.33 3.14
1547 3161 0.239347 ACACGTACACGAGCTGGTAC 59.761 55.000 9.04 5.53 43.02 3.34
1590 3231 3.061006 GCAAGTTTGAGAAAACGCATGTG 60.061 43.478 4.30 4.30 37.71 3.21
1597 3241 8.060090 CAGATTTCAATGCAAGTTTGAGAAAAC 58.940 33.333 0.00 0.00 34.76 2.43
1629 3347 3.362986 CCTGCGAATATATTGCACGTGAC 60.363 47.826 22.23 11.46 34.42 3.67
2000 3718 1.971695 CCTTGCCGTTCTGGAACCC 60.972 63.158 7.74 1.12 42.00 4.11
2112 3839 1.141657 TGCATATTGGCTGAGGACCTC 59.858 52.381 15.13 15.13 34.04 3.85
2228 4205 7.452880 TGGGTTTTCTCAGAGTAAATCATTG 57.547 36.000 13.21 0.00 0.00 2.82
2268 4245 3.616219 CCATTAACAACTCGAATGGGGA 58.384 45.455 5.17 0.00 43.94 4.81
2319 4297 2.005451 GAAGAGAGTGAGCCGTACGTA 58.995 52.381 15.21 0.00 0.00 3.57
2320 4298 0.803740 GAAGAGAGTGAGCCGTACGT 59.196 55.000 15.21 0.00 0.00 3.57
2321 4299 1.088306 AGAAGAGAGTGAGCCGTACG 58.912 55.000 8.69 8.69 0.00 3.67
2360 4360 6.931243 TCGTGCGTTTTCTTTTTAAGTTTT 57.069 29.167 0.00 0.00 0.00 2.43
2363 4363 5.209977 GGATCGTGCGTTTTCTTTTTAAGT 58.790 37.500 0.00 0.00 0.00 2.24
2364 4364 5.115021 GTGGATCGTGCGTTTTCTTTTTAAG 59.885 40.000 0.00 0.00 0.00 1.85
2365 4365 4.971220 GTGGATCGTGCGTTTTCTTTTTAA 59.029 37.500 0.00 0.00 0.00 1.52
2366 4366 4.273969 AGTGGATCGTGCGTTTTCTTTTTA 59.726 37.500 0.00 0.00 0.00 1.52
2367 4367 3.066203 AGTGGATCGTGCGTTTTCTTTTT 59.934 39.130 0.00 0.00 0.00 1.94
2368 4368 2.616842 AGTGGATCGTGCGTTTTCTTTT 59.383 40.909 0.00 0.00 0.00 2.27
2369 4369 2.218603 AGTGGATCGTGCGTTTTCTTT 58.781 42.857 0.00 0.00 0.00 2.52
2370 4370 1.798813 GAGTGGATCGTGCGTTTTCTT 59.201 47.619 0.00 0.00 0.00 2.52
2371 4371 1.000955 AGAGTGGATCGTGCGTTTTCT 59.999 47.619 0.00 0.00 0.00 2.52
2372 4372 1.126846 CAGAGTGGATCGTGCGTTTTC 59.873 52.381 0.00 0.00 0.00 2.29
2403 4403 6.559810 CAAGATGAACTCTGACGACTTCTAT 58.440 40.000 0.00 0.00 33.29 1.98
2414 4414 1.659601 CTGCGAGCAAGATGAACTCTG 59.340 52.381 0.00 0.00 33.29 3.35
2513 4719 6.561350 GCATCCAACATTTTTGTCAAACGTAC 60.561 38.462 0.00 0.00 0.00 3.67
2528 4734 3.819337 GCACTGATAGATGCATCCAACAT 59.181 43.478 23.06 11.21 41.65 2.71
2529 4735 3.208594 GCACTGATAGATGCATCCAACA 58.791 45.455 23.06 13.57 41.65 3.33
2531 4737 2.487805 GGGCACTGATAGATGCATCCAA 60.488 50.000 23.06 12.25 43.93 3.53
2575 4784 4.647611 ACGAAATGTTGGACAATGGTAGA 58.352 39.130 0.00 0.00 0.00 2.59
2634 5268 6.833933 GGGGGTACTATTCACATTCTGATTTT 59.166 38.462 0.00 0.00 0.00 1.82
2703 5337 9.503399 GTACATAGGGGGACTTTAGATAATTTG 57.497 37.037 0.00 0.00 0.00 2.32
2704 5338 9.461734 AGTACATAGGGGGACTTTAGATAATTT 57.538 33.333 0.00 0.00 0.00 1.82
2707 5341 9.765295 GATAGTACATAGGGGGACTTTAGATAA 57.235 37.037 0.00 0.00 0.00 1.75
2708 5342 8.342270 GGATAGTACATAGGGGGACTTTAGATA 58.658 40.741 0.00 0.00 0.00 1.98
2709 5343 7.190501 GGATAGTACATAGGGGGACTTTAGAT 58.809 42.308 0.00 0.00 0.00 1.98
2710 5344 6.105139 TGGATAGTACATAGGGGGACTTTAGA 59.895 42.308 0.00 0.00 0.00 2.10
2711 5345 6.210984 GTGGATAGTACATAGGGGGACTTTAG 59.789 46.154 0.00 0.00 0.00 1.85
2712 5346 6.080009 GTGGATAGTACATAGGGGGACTTTA 58.920 44.000 0.00 0.00 0.00 1.85
2713 5347 4.906060 GTGGATAGTACATAGGGGGACTTT 59.094 45.833 0.00 0.00 0.00 2.66
2714 5348 4.078219 TGTGGATAGTACATAGGGGGACTT 60.078 45.833 0.00 0.00 0.00 3.01
2715 5349 3.469771 TGTGGATAGTACATAGGGGGACT 59.530 47.826 0.00 0.00 0.00 3.85
2716 5350 3.833070 CTGTGGATAGTACATAGGGGGAC 59.167 52.174 0.00 0.00 0.00 4.46
2717 5351 3.469771 ACTGTGGATAGTACATAGGGGGA 59.530 47.826 0.00 0.00 32.16 4.81
2718 5352 3.858135 ACTGTGGATAGTACATAGGGGG 58.142 50.000 0.00 0.00 32.16 5.40
2719 5353 5.215252 CAACTGTGGATAGTACATAGGGG 57.785 47.826 0.00 0.00 32.16 4.79
2760 5394 3.058224 AGTTTTTATTCACAGCTCGGTGC 60.058 43.478 0.00 0.00 38.66 5.01
2780 5414 2.362077 GGCACACAAATTCAAGACCAGT 59.638 45.455 0.00 0.00 0.00 4.00
2782 5416 2.382882 TGGCACACAAATTCAAGACCA 58.617 42.857 0.00 0.00 0.00 4.02
2840 5474 9.822185 AACAGATGCAAAATCTAAAAGTTCTTT 57.178 25.926 0.00 0.00 0.00 2.52
2856 5490 4.551702 TGCTACCTAAGAACAGATGCAA 57.448 40.909 0.00 0.00 0.00 4.08
2884 5518 3.472652 TCTGTTGCTTCCACATACGTTT 58.527 40.909 0.00 0.00 0.00 3.60
2899 5533 5.012458 TGCCCTTGAGAGGATATATCTGTTG 59.988 44.000 12.42 0.00 46.74 3.33
2908 5542 2.439507 GGTCATTGCCCTTGAGAGGATA 59.560 50.000 0.00 0.00 46.74 2.59
2909 5543 1.213926 GGTCATTGCCCTTGAGAGGAT 59.786 52.381 0.00 0.00 46.74 3.24
2910 5544 0.620556 GGTCATTGCCCTTGAGAGGA 59.379 55.000 0.00 0.00 46.74 3.71
2911 5545 0.622665 AGGTCATTGCCCTTGAGAGG 59.377 55.000 0.00 0.00 43.15 3.69
2918 5552 0.921896 AGCACATAGGTCATTGCCCT 59.078 50.000 0.00 0.00 35.47 5.19
2966 5600 2.875933 TGTTTTAGAACAGCGAACAGGG 59.124 45.455 0.00 0.00 40.71 4.45
2972 5606 9.575783 AAAACTATTTTTGTTTTAGAACAGCGA 57.424 25.926 0.00 0.00 45.80 4.93
3007 5643 3.306780 CCGAACTAGGATCACTGTTGGTT 60.307 47.826 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.