Multiple sequence alignment - TraesCS2B01G584700

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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 TraesCS2B01G584700 chr2B 100.000 3494 0 0 1 3494 771489712 771493205 0.000000e+00 6453.0
1 TraesCS2B01G584700 chr2B 95.214 1379 50 8 974 2352 200906219 200904857 0.000000e+00 2167.0
2 TraesCS2B01G584700 chr2B 86.197 1449 154 25 917 2352 146737222 146735807 0.000000e+00 1526.0
3 TraesCS2B01G584700 chr2B 89.804 1069 62 14 2440 3494 200904580 200903545 0.000000e+00 1327.0
4 TraesCS2B01G584700 chr2B 87.067 982 92 10 2525 3494 146735699 146734741 0.000000e+00 1077.0
5 TraesCS2B01G584700 chr2B 92.982 399 25 2 1 398 771426519 771426915 2.340000e-161 579.0
6 TraesCS2B01G584700 chr2B 87.654 81 1 4 885 965 200906325 200906254 6.210000e-13 86.1
7 TraesCS2B01G584700 chr2B 92.453 53 3 1 2341 2393 200904820 200904769 1.350000e-09 75.0
8 TraesCS2B01G584700 chr2D 93.784 2365 86 22 1 2352 628271075 628273391 0.000000e+00 3496.0
9 TraesCS2B01G584700 chr2D 91.953 1454 79 17 917 2352 94384898 94386331 0.000000e+00 2002.0
10 TraesCS2B01G584700 chr2D 88.615 1379 133 13 974 2352 94875987 94874633 0.000000e+00 1655.0
11 TraesCS2B01G584700 chr2D 87.834 1085 83 23 2430 3494 94386591 94387646 0.000000e+00 1227.0
12 TraesCS2B01G584700 chr2D 88.105 992 83 10 2515 3494 94874539 94873571 0.000000e+00 1146.0
13 TraesCS2B01G584700 chr2A 90.558 1451 99 17 917 2348 92472477 92473908 0.000000e+00 1886.0
14 TraesCS2B01G584700 chr2A 84.627 1379 151 27 974 2352 93402036 93403353 0.000000e+00 1315.0
15 TraesCS2B01G584700 chr2A 87.147 1097 92 22 2430 3494 92474206 92475285 0.000000e+00 1199.0
16 TraesCS2B01G584700 chr2A 86.895 992 95 10 2515 3494 93403447 93404415 0.000000e+00 1079.0
17 TraesCS2B01G584700 chr2A 80.286 350 41 10 294 620 769629774 769629430 4.510000e-59 239.0
18 TraesCS2B01G584700 chr2A 79.714 350 43 11 294 620 191934140 191933796 9.760000e-56 228.0
19 TraesCS2B01G584700 chr2A 91.489 94 6 2 2422 2513 625011848 625011941 1.020000e-25 128.0
20 TraesCS2B01G584700 chr5B 80.198 1414 185 52 1000 2352 54493794 54495173 0.000000e+00 972.0
21 TraesCS2B01G584700 chr5B 82.616 581 71 17 2579 3138 54495291 54495862 1.460000e-133 486.0
22 TraesCS2B01G584700 chr5B 81.119 572 86 13 2580 3138 54339509 54340071 4.140000e-119 438.0
23 TraesCS2B01G584700 chr5B 80.447 179 20 8 3203 3380 37068861 37068697 4.740000e-24 122.0
24 TraesCS2B01G584700 chr5B 89.474 95 10 0 3400 3494 54495872 54495966 1.700000e-23 121.0
25 TraesCS2B01G584700 chr5D 79.093 1411 194 55 1000 2352 51543677 51545044 0.000000e+00 878.0
26 TraesCS2B01G584700 chr5D 77.817 1402 227 48 1000 2352 51276403 51277769 0.000000e+00 789.0
27 TraesCS2B01G584700 chr5D 82.465 576 78 15 2577 3138 51066219 51066785 1.890000e-132 483.0
28 TraesCS2B01G584700 chr5D 81.597 576 83 14 2577 3138 51277885 51278451 4.110000e-124 455.0
29 TraesCS2B01G584700 chr5D 82.101 514 69 14 2577 3076 51545160 51545664 5.390000e-113 418.0
30 TraesCS2B01G584700 chr5D 100.000 32 0 0 539 570 61867006 61866975 3.770000e-05 60.2
31 TraesCS2B01G584700 chr3B 91.076 381 30 3 29 409 823178946 823179322 2.410000e-141 512.0
32 TraesCS2B01G584700 chr3B 91.642 335 23 4 508 842 823179322 823179651 3.180000e-125 459.0
33 TraesCS2B01G584700 chr1B 84.038 213 29 4 288 498 534946316 534946525 2.130000e-47 200.0
34 TraesCS2B01G584700 chr3A 75.570 307 69 5 72 376 100436717 100436415 2.810000e-31 147.0
35 TraesCS2B01G584700 chr6D 94.382 89 3 2 2430 2517 206587636 206587723 6.080000e-28 135.0
36 TraesCS2B01G584700 chr6D 94.118 85 4 1 2430 2513 63804293 63804209 1.020000e-25 128.0
37 TraesCS2B01G584700 chr5A 94.186 86 4 1 2430 2514 3711121 3711036 2.830000e-26 130.0
38 TraesCS2B01G584700 chr5A 100.000 31 0 0 32 62 465554452 465554482 1.350000e-04 58.4
39 TraesCS2B01G584700 chr7D 91.489 94 6 2 2422 2513 155202035 155202128 1.020000e-25 128.0
40 TraesCS2B01G584700 chr7D 90.426 94 7 2 2421 2512 557415973 557415880 4.740000e-24 122.0
41 TraesCS2B01G584700 chr7A 83.019 106 12 4 395 498 41476239 41476138 1.340000e-14 91.6
42 TraesCS2B01G584700 chr7A 90.909 44 1 3 25 65 662710586 662710543 4.870000e-04 56.5
43 TraesCS2B01G584700 chr4B 95.000 40 1 1 31 69 427272003 427271964 1.050000e-05 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 TraesCS2B01G584700 chr2B 771489712 771493205 3493 False 6453.000000 6453 100.00000 1 3494 1 chr2B.!!$F2 3493
1 TraesCS2B01G584700 chr2B 146734741 146737222 2481 True 1301.500000 1526 86.63200 917 3494 2 chr2B.!!$R1 2577
2 TraesCS2B01G584700 chr2B 200903545 200906325 2780 True 913.775000 2167 91.28125 885 3494 4 chr2B.!!$R2 2609
3 TraesCS2B01G584700 chr2D 628271075 628273391 2316 False 3496.000000 3496 93.78400 1 2352 1 chr2D.!!$F1 2351
4 TraesCS2B01G584700 chr2D 94384898 94387646 2748 False 1614.500000 2002 89.89350 917 3494 2 chr2D.!!$F2 2577
5 TraesCS2B01G584700 chr2D 94873571 94875987 2416 True 1400.500000 1655 88.36000 974 3494 2 chr2D.!!$R1 2520
6 TraesCS2B01G584700 chr2A 92472477 92475285 2808 False 1542.500000 1886 88.85250 917 3494 2 chr2A.!!$F2 2577
7 TraesCS2B01G584700 chr2A 93402036 93404415 2379 False 1197.000000 1315 85.76100 974 3494 2 chr2A.!!$F3 2520
8 TraesCS2B01G584700 chr5B 54493794 54495966 2172 False 526.333333 972 84.09600 1000 3494 3 chr5B.!!$F2 2494
9 TraesCS2B01G584700 chr5B 54339509 54340071 562 False 438.000000 438 81.11900 2580 3138 1 chr5B.!!$F1 558
10 TraesCS2B01G584700 chr5D 51543677 51545664 1987 False 648.000000 878 80.59700 1000 3076 2 chr5D.!!$F3 2076
11 TraesCS2B01G584700 chr5D 51276403 51278451 2048 False 622.000000 789 79.70700 1000 3138 2 chr5D.!!$F2 2138
12 TraesCS2B01G584700 chr5D 51066219 51066785 566 False 483.000000 483 82.46500 2577 3138 1 chr5D.!!$F1 561
13 TraesCS2B01G584700 chr3B 823178946 823179651 705 False 485.500000 512 91.35900 29 842 2 chr3B.!!$F1 813

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
55 56 0.319727 CACAAATGCCCATGCGTTGT 60.320 50.0 0.0 0.0 45.88 3.32 F
1372 1432 1.049402 CCCGATTCTTCCTCCCTACC 58.951 60.0 0.0 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1467 1530 0.613777 AGTCATCCGACAAAGGGTCC 59.386 55.0 0.0 0.0 45.23 4.46 R
3275 3683 0.041663 CGCTCTAGCTCACGCTCTAC 60.042 60.0 0.0 0.0 45.15 2.59 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
22 23 1.745087 CCACAGCACAATGTATCCCAC 59.255 52.381 0.00 0.00 0.00 4.61
55 56 0.319727 CACAAATGCCCATGCGTTGT 60.320 50.000 0.00 0.00 45.88 3.32
102 103 5.021458 TCTCCCTCTACCGACTTGTAATTT 58.979 41.667 0.00 0.00 0.00 1.82
132 133 4.290155 GTTGCAATCGTCACATTCACTTT 58.710 39.130 0.59 0.00 0.00 2.66
199 200 7.808856 TGTATTTCCTTATTTACCGCAAACAAC 59.191 33.333 0.00 0.00 0.00 3.32
209 210 2.288763 ACCGCAAACAACAATGATTCCC 60.289 45.455 0.00 0.00 0.00 3.97
210 211 1.984990 CGCAAACAACAATGATTCCCG 59.015 47.619 0.00 0.00 0.00 5.14
311 312 5.598830 GTCCACCTTCTTCATCTCTACCATA 59.401 44.000 0.00 0.00 0.00 2.74
312 313 6.268847 GTCCACCTTCTTCATCTCTACCATAT 59.731 42.308 0.00 0.00 0.00 1.78
397 398 6.646240 CCATAGTTTGAAAAATGAACCAGTGG 59.354 38.462 7.91 7.91 0.00 4.00
532 533 6.183347 AGCTTGACTTTCATACTGCCTAAAT 58.817 36.000 0.00 0.00 0.00 1.40
533 534 7.338710 AGCTTGACTTTCATACTGCCTAAATA 58.661 34.615 0.00 0.00 0.00 1.40
534 535 7.281100 AGCTTGACTTTCATACTGCCTAAATAC 59.719 37.037 0.00 0.00 0.00 1.89
537 538 9.817809 TTGACTTTCATACTGCCTAAATACTAG 57.182 33.333 0.00 0.00 0.00 2.57
674 675 9.045223 CATCAGATAGAACACGGAATTTATTCA 57.955 33.333 4.97 0.00 38.53 2.57
716 717 3.328343 TCCTACCGAATTTGTTTCCCTCA 59.672 43.478 0.00 0.00 0.00 3.86
874 875 4.221422 GCGAGATACTGGGCCGCA 62.221 66.667 0.00 0.00 44.55 5.69
912 932 4.247380 GCGCTGCATAGGAGGCCT 62.247 66.667 3.86 3.86 37.71 5.19
913 933 2.030262 CGCTGCATAGGAGGCCTC 59.970 66.667 25.59 25.59 34.61 4.70
914 934 2.030262 GCTGCATAGGAGGCCTCG 59.970 66.667 26.36 13.62 34.61 4.63
915 935 2.502492 GCTGCATAGGAGGCCTCGA 61.502 63.158 26.36 17.15 34.61 4.04
927 947 2.827190 CCTCGATCGGGGTCGTGA 60.827 66.667 26.52 0.00 42.07 4.35
928 948 2.194212 CCTCGATCGGGGTCGTGAT 61.194 63.158 26.52 0.00 42.07 3.06
929 949 1.283181 CTCGATCGGGGTCGTGATC 59.717 63.158 16.41 0.00 42.07 2.92
969 989 2.717639 ATCCCCAAATCCTTCTCACG 57.282 50.000 0.00 0.00 0.00 4.35
970 990 1.651737 TCCCCAAATCCTTCTCACGA 58.348 50.000 0.00 0.00 0.00 4.35
971 991 1.982226 TCCCCAAATCCTTCTCACGAA 59.018 47.619 0.00 0.00 0.00 3.85
974 994 1.740025 CCAAATCCTTCTCACGAAGCC 59.260 52.381 0.00 0.00 44.24 4.35
976 996 2.393271 AATCCTTCTCACGAAGCCAG 57.607 50.000 0.00 0.00 44.24 4.85
1011 1056 4.796231 GTCGTGATGGGCGACGCT 62.796 66.667 20.77 0.00 46.85 5.07
1200 1245 4.687215 TGCTGCAGACCCGCTCAC 62.687 66.667 20.43 0.00 0.00 3.51
1372 1432 1.049402 CCCGATTCTTCCTCCCTACC 58.951 60.000 0.00 0.00 0.00 3.18
1378 1438 5.482908 CGATTCTTCCTCCCTACCATTATG 58.517 45.833 0.00 0.00 0.00 1.90
1379 1439 5.012148 CGATTCTTCCTCCCTACCATTATGT 59.988 44.000 0.00 0.00 0.00 2.29
1381 1441 5.888982 TCTTCCTCCCTACCATTATGTTC 57.111 43.478 0.00 0.00 0.00 3.18
1447 1510 2.028125 GCAGCTCGGCACCCACTATA 62.028 60.000 0.00 0.00 0.00 1.31
1473 1536 2.686835 GCTCTCTGCCTGGACCCT 60.687 66.667 0.00 0.00 35.15 4.34
1490 1556 2.100916 ACCCTTTGTCGGATGACTATCG 59.899 50.000 0.00 0.00 45.70 2.92
1521 1587 2.546195 ACTCGTCCGAGAGAAAATCG 57.454 50.000 22.34 0.00 44.53 3.34
1588 1654 2.100631 GTGCCCGACAAGGTGATCG 61.101 63.158 0.00 0.00 38.74 3.69
1749 1851 3.429580 CCCATTCCCCCTCCCACC 61.430 72.222 0.00 0.00 0.00 4.61
1750 1852 3.809013 CCATTCCCCCTCCCACCG 61.809 72.222 0.00 0.00 0.00 4.94
1751 1853 4.506255 CATTCCCCCTCCCACCGC 62.506 72.222 0.00 0.00 0.00 5.68
1882 1988 2.970639 CTCCTCGTGAAAGCCGGA 59.029 61.111 5.05 0.00 0.00 5.14
1883 1989 1.153745 CTCCTCGTGAAAGCCGGAG 60.154 63.158 5.05 0.00 35.75 4.63
1884 1990 2.815647 CCTCGTGAAAGCCGGAGC 60.816 66.667 5.05 0.00 40.32 4.70
1892 2001 4.749310 AAGCCGGAGCAGCGACAG 62.749 66.667 5.05 0.00 43.56 3.51
1915 2024 7.154656 CAGGGATGATGTTATCTACGATTCAA 58.845 38.462 0.00 0.00 0.00 2.69
2160 2281 0.622665 CAGCTTTCCCCATCCTGAGT 59.377 55.000 0.00 0.00 0.00 3.41
2167 2288 1.056700 CCCCATCCTGAGTCCGGATT 61.057 60.000 13.04 1.79 39.20 3.01
2352 2473 0.036765 TCTGTACATTGTCCCGCCAC 60.037 55.000 0.00 0.00 0.00 5.01
2428 2635 5.511888 CCCTCCGGTCTTAACTTTGTAAAGA 60.512 44.000 11.07 0.00 39.31 2.52
2431 2638 7.174426 CCTCCGGTCTTAACTTTGTAAAGATTT 59.826 37.037 11.07 0.00 39.31 2.17
2432 2639 8.454570 TCCGGTCTTAACTTTGTAAAGATTTT 57.545 30.769 11.07 0.00 39.31 1.82
2541 2903 2.084546 GACTGCCTTGGCGAATTAACT 58.915 47.619 7.18 0.00 0.00 2.24
2558 2920 0.037590 ACTTGGGCGCTATTTGGACA 59.962 50.000 7.64 0.00 0.00 4.02
2603 2965 4.548494 TGCATATTGCTTTGTGTGTCTTG 58.452 39.130 0.75 0.00 45.31 3.02
2654 3018 4.699735 CAGGATTGTAAGTATGGTGTTGCA 59.300 41.667 0.00 0.00 0.00 4.08
2663 3027 8.620416 TGTAAGTATGGTGTTGCATATGAATTC 58.380 33.333 6.97 0.00 0.00 2.17
2766 3134 6.952773 AACACCTCAGTAAGTATTTTGCAA 57.047 33.333 0.00 0.00 0.00 4.08
2767 3135 6.560253 ACACCTCAGTAAGTATTTTGCAAG 57.440 37.500 0.00 0.00 0.00 4.01
2774 3151 8.389779 TCAGTAAGTATTTTGCAAGATCAACA 57.610 30.769 5.63 0.00 0.00 3.33
2775 3152 8.506437 TCAGTAAGTATTTTGCAAGATCAACAG 58.494 33.333 5.63 0.00 0.00 3.16
2809 3192 4.876107 ACCAAGTAACTTGCCATATCTTCG 59.124 41.667 0.00 0.00 39.85 3.79
2885 3268 5.476945 TCCAAAGGCAAGTTTCTTATTCTCC 59.523 40.000 0.00 0.00 0.00 3.71
2886 3269 5.393962 CAAAGGCAAGTTTCTTATTCTCCG 58.606 41.667 0.00 0.00 0.00 4.63
2988 3393 3.514645 TCGCCGATTAGTTTTACCTGAC 58.485 45.455 0.00 0.00 0.00 3.51
3017 3422 7.684529 ACCATATTGGGATCTCTTGTCTAATC 58.315 38.462 0.00 0.00 43.37 1.75
3026 3431 6.915843 GGATCTCTTGTCTAATCGACTTTCTC 59.084 42.308 0.00 0.00 43.25 2.87
3030 3435 7.392113 TCTCTTGTCTAATCGACTTTCTCTTCT 59.608 37.037 0.00 0.00 43.25 2.85
3039 3444 3.333804 GACTTTCTCTTCTTCAGGCCAG 58.666 50.000 5.01 0.00 0.00 4.85
3054 3462 2.877975 CCAGTGGAATTGGCTCAGG 58.122 57.895 1.68 0.00 36.71 3.86
3091 3499 4.516698 ACGAAATGCTGCTGGGATTATTAG 59.483 41.667 0.00 0.00 34.89 1.73
3139 3547 5.951148 TCCATCCTATTGAAAACAATCTGCA 59.049 36.000 0.00 0.00 0.00 4.41
3148 3556 6.455360 TGAAAACAATCTGCAGAAGTTTCT 57.545 33.333 32.78 25.86 36.22 2.52
3208 3616 2.288763 GGCTCATCCGATTTCTCTCTCC 60.289 54.545 0.00 0.00 0.00 3.71
3236 3644 2.548057 GTCTTTTGTTGGTGATGCGAGA 59.452 45.455 0.00 0.00 0.00 4.04
3282 3690 1.227883 TAGAGCGGGAGGTAGAGCG 60.228 63.158 0.00 0.00 43.00 5.03
3319 3739 7.281100 CGGAAGAAAGAGCAGAAGGTATATTTT 59.719 37.037 0.00 0.00 0.00 1.82
3320 3740 8.616942 GGAAGAAAGAGCAGAAGGTATATTTTC 58.383 37.037 0.00 0.00 0.00 2.29
3439 3860 4.945411 TCCAATCCATTTTCCCTTCATCA 58.055 39.130 0.00 0.00 0.00 3.07
3464 3885 9.692749 CATTCAGCAAGATTAATTAGAATGCAT 57.307 29.630 13.51 0.00 36.04 3.96
3484 3905 4.380867 GCATTATTTACAGCCACAACAGCT 60.381 41.667 0.00 0.00 42.70 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 9.991906 TTGTGCTAGTATATTAAAGTGGGATAC 57.008 33.333 0.00 0.00 0.00 2.24
22 23 8.165239 TGGGCATTTGTGCTAGTATATTAAAG 57.835 34.615 0.07 0.00 34.73 1.85
55 56 3.065648 GCTTGAGTTTGTTTGTCCCGTTA 59.934 43.478 0.00 0.00 0.00 3.18
63 64 2.294512 GGGAGAGGCTTGAGTTTGTTTG 59.705 50.000 0.00 0.00 0.00 2.93
102 103 0.383737 GACGATTGCAACGCACGAAA 60.384 50.000 18.70 0.00 38.71 3.46
132 133 4.576873 ACATGATTTGTGTTGAACCACGTA 59.423 37.500 0.00 0.00 37.11 3.57
199 200 8.567104 TGATATAATTCACAACGGGAATCATTG 58.433 33.333 0.00 0.00 34.02 2.82
209 210 8.712363 CCTCATACCTTGATATAATTCACAACG 58.288 37.037 0.00 0.00 32.72 4.10
210 211 8.507249 GCCTCATACCTTGATATAATTCACAAC 58.493 37.037 0.00 0.00 32.72 3.32
311 312 1.613437 CGGAAACAAGCCCAAGTTCAT 59.387 47.619 0.00 0.00 0.00 2.57
312 313 1.028905 CGGAAACAAGCCCAAGTTCA 58.971 50.000 0.00 0.00 0.00 3.18
447 448 7.467811 GCCAATGAGAATGAACTTCGTGAATAT 60.468 37.037 0.00 0.00 38.98 1.28
533 534 9.449719 GCTTGGCCATGTTTATATTATACTAGT 57.550 33.333 19.05 0.00 0.00 2.57
534 535 9.448438 TGCTTGGCCATGTTTATATTATACTAG 57.552 33.333 19.05 2.81 0.00 2.57
674 675 9.286170 GGTAGGAAACAAAAGTCTTAGAAGAAT 57.714 33.333 0.00 0.00 36.68 2.40
716 717 6.884280 GCCCATGCTAGACAACTATTAAAT 57.116 37.500 0.00 0.00 33.53 1.40
803 804 5.581085 ACCTACTGCGAAAACATCTTCATAC 59.419 40.000 0.00 0.00 0.00 2.39
878 879 1.089481 CGCTTTATGCTCCAAGCCGA 61.089 55.000 8.23 0.00 42.15 5.54
879 880 1.353103 CGCTTTATGCTCCAAGCCG 59.647 57.895 8.23 2.09 42.15 5.52
881 882 0.248377 CAGCGCTTTATGCTCCAAGC 60.248 55.000 7.50 4.73 41.72 4.01
882 883 0.248377 GCAGCGCTTTATGCTCCAAG 60.248 55.000 7.50 0.00 41.72 3.61
887 907 1.202687 TCCTATGCAGCGCTTTATGCT 60.203 47.619 18.56 8.27 45.31 3.79
912 932 1.444917 CTGATCACGACCCCGATCGA 61.445 60.000 18.66 0.00 45.13 3.59
914 934 0.744874 TTCTGATCACGACCCCGATC 59.255 55.000 0.00 0.00 38.81 3.69
915 935 0.747255 CTTCTGATCACGACCCCGAT 59.253 55.000 0.00 0.00 39.50 4.18
927 947 7.673926 GGATTAGGGTTATCTCTCTCTTCTGAT 59.326 40.741 0.00 0.00 0.00 2.90
928 948 7.007723 GGATTAGGGTTATCTCTCTCTTCTGA 58.992 42.308 0.00 0.00 0.00 3.27
929 949 6.210584 GGGATTAGGGTTATCTCTCTCTTCTG 59.789 46.154 0.00 0.00 0.00 3.02
969 989 1.876156 CTTCCGATTATGGCTGGCTTC 59.124 52.381 2.00 0.00 0.00 3.86
970 990 1.972872 CTTCCGATTATGGCTGGCTT 58.027 50.000 2.00 0.00 0.00 4.35
971 991 0.536006 GCTTCCGATTATGGCTGGCT 60.536 55.000 2.00 0.00 0.00 4.75
974 994 0.890996 GGGGCTTCCGATTATGGCTG 60.891 60.000 0.00 0.00 0.00 4.85
976 996 4.081050 GGGGCTTCCGATTATGGC 57.919 61.111 0.00 0.00 0.00 4.40
1073 1118 2.089349 GTCTCGTTCCTGCTGTCGC 61.089 63.158 0.00 0.00 0.00 5.19
1200 1245 1.447314 GTACGGCCCGTCTTGGAAG 60.447 63.158 14.44 0.00 41.54 3.46
1372 1432 1.334059 GCGGTCGCCATGAACATAATG 60.334 52.381 3.73 0.00 32.01 1.90
1378 1438 2.890474 ATCGCGGTCGCCATGAAC 60.890 61.111 6.13 0.00 37.98 3.18
1379 1439 2.889988 CATCGCGGTCGCCATGAA 60.890 61.111 15.74 0.00 41.17 2.57
1381 1441 2.661566 GATCATCGCGGTCGCCATG 61.662 63.158 14.88 14.88 40.28 3.66
1447 1510 4.521062 GCAGAGAGCGGCCACGAT 62.521 66.667 2.24 0.00 44.60 3.73
1467 1530 0.613777 AGTCATCCGACAAAGGGTCC 59.386 55.000 0.00 0.00 45.23 4.46
1473 1536 2.218953 GGCGATAGTCATCCGACAAA 57.781 50.000 0.00 0.00 45.23 2.83
1521 1587 2.930562 AGGGTCCTGGTGCTCCAC 60.931 66.667 2.64 0.00 39.03 4.02
1588 1654 0.617935 AGGCCTTCTTCTCCAAGAGC 59.382 55.000 0.00 0.00 39.90 4.09
1750 1852 0.668706 TTGCTTCTCTCTGCGTCTGC 60.669 55.000 0.00 0.00 43.20 4.26
1751 1853 1.788258 TTTGCTTCTCTCTGCGTCTG 58.212 50.000 0.00 0.00 0.00 3.51
1752 1854 2.533266 TTTTGCTTCTCTCTGCGTCT 57.467 45.000 0.00 0.00 0.00 4.18
1870 1976 3.793144 GCTGCTCCGGCTTTCACG 61.793 66.667 0.00 0.00 39.59 4.35
1871 1977 3.793144 CGCTGCTCCGGCTTTCAC 61.793 66.667 0.00 0.00 39.59 3.18
1872 1978 4.002506 TCGCTGCTCCGGCTTTCA 62.003 61.111 0.00 0.00 39.59 2.69
1882 1988 1.145598 CATCATCCCTGTCGCTGCT 59.854 57.895 0.00 0.00 0.00 4.24
1883 1989 0.745845 AACATCATCCCTGTCGCTGC 60.746 55.000 0.00 0.00 0.00 5.25
1884 1990 2.602257 TAACATCATCCCTGTCGCTG 57.398 50.000 0.00 0.00 0.00 5.18
1892 2001 7.657761 AGTTTGAATCGTAGATAACATCATCCC 59.342 37.037 0.00 0.00 45.12 3.85
1915 2024 2.534298 CTCGAGCGACATGATCAAGTT 58.466 47.619 4.87 0.00 30.45 2.66
2160 2281 4.665833 AAGAATATCGTCACAATCCGGA 57.334 40.909 6.61 6.61 0.00 5.14
2352 2473 3.243301 GGATTGTCAGCATTGCATAGGTG 60.243 47.826 11.91 10.76 34.72 4.00
2497 2852 1.006758 AGAACATACTCCCTCCGGTCA 59.993 52.381 0.00 0.00 0.00 4.02
2541 2903 0.250945 TGTGTCCAAATAGCGCCCAA 60.251 50.000 2.29 0.00 0.00 4.12
2558 2920 2.202236 ATCGGGCAGCCATCAAGTGT 62.202 55.000 15.19 0.00 0.00 3.55
2654 3018 5.760253 CCTACAGAAACCGCTGAATTCATAT 59.240 40.000 8.96 0.00 39.20 1.78
2663 3027 0.320771 AGTGCCTACAGAAACCGCTG 60.321 55.000 0.00 0.00 41.63 5.18
2766 3134 5.634118 TGGTGGAAATTCTTCTGTTGATCT 58.366 37.500 0.00 0.00 0.00 2.75
2767 3135 5.964958 TGGTGGAAATTCTTCTGTTGATC 57.035 39.130 0.00 0.00 0.00 2.92
2774 3151 6.239036 GCAAGTTACTTGGTGGAAATTCTTCT 60.239 38.462 24.13 0.00 41.31 2.85
2775 3152 5.920840 GCAAGTTACTTGGTGGAAATTCTTC 59.079 40.000 24.13 1.66 41.31 2.87
2809 3192 1.024579 CCCACACCGAACTATGCACC 61.025 60.000 0.00 0.00 0.00 5.01
2885 3268 0.605589 AGCAGAAGAGAGGTTCCACG 59.394 55.000 0.00 0.00 0.00 4.94
2886 3269 3.368948 CCTTAGCAGAAGAGAGGTTCCAC 60.369 52.174 0.16 0.00 0.00 4.02
2988 3393 7.456725 AGACAAGAGATCCCAATATGGTAATG 58.543 38.462 0.00 0.00 35.17 1.90
3017 3422 2.289072 TGGCCTGAAGAAGAGAAAGTCG 60.289 50.000 3.32 0.00 0.00 4.18
3026 3431 2.490903 CAATTCCACTGGCCTGAAGAAG 59.509 50.000 17.64 0.00 0.00 2.85
3030 3435 3.362040 CCAATTCCACTGGCCTGAA 57.638 52.632 17.64 8.25 0.00 3.02
3039 3444 2.627699 TGTTTTCCTGAGCCAATTCCAC 59.372 45.455 0.00 0.00 0.00 4.02
3054 3462 1.540407 TTTCGTGCACGCTTGTTTTC 58.460 45.000 33.63 0.00 39.60 2.29
3091 3499 3.476552 TGGGAAATATGATCGTTCTGCC 58.523 45.455 0.00 0.00 0.00 4.85
3148 3556 1.601903 GCAAATTGGACTGTCGTCACA 59.398 47.619 1.07 0.00 42.05 3.58
3155 3563 2.297701 ACAGAACGCAAATTGGACTGT 58.702 42.857 0.00 0.00 33.29 3.55
3208 3616 3.278574 TCACCAACAAAAGACAGAGTGG 58.721 45.455 0.00 0.00 0.00 4.00
3236 3644 2.213499 CACCTTCTCGTCAAGCTGTTT 58.787 47.619 0.00 0.00 0.00 2.83
3275 3683 0.041663 CGCTCTAGCTCACGCTCTAC 60.042 60.000 0.00 0.00 45.15 2.59
3282 3690 2.164624 TCTTTCTTCCGCTCTAGCTCAC 59.835 50.000 0.00 0.00 39.32 3.51
3358 3778 1.455383 AAGCGAACAACAGGCAAGGG 61.455 55.000 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.