Multiple sequence alignment - TraesCS2B01G155300

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 TraesCS2B01G155300 chr2B 100.000 3605 0 0 1 3605 123102988 123099384 0.000000e+00 6658
1 TraesCS2B01G155300 chr2B 95.160 971 40 5 1 967 128260504 128259537 0.000000e+00 1526
2 TraesCS2B01G155300 chr2B 87.168 226 24 3 980 1201 128312186 128311962 5.980000e-63 252
3 TraesCS2B01G155300 chr2D 92.646 3345 146 48 331 3604 79234754 79231439 0.000000e+00 4723
4 TraesCS2B01G155300 chr2D 90.374 187 17 1 1 186 79234911 79234725 1.000000e-60 244
5 TraesCS2B01G155300 chr2D 83.744 203 24 7 978 1171 79332906 79332704 2.210000e-42 183
6 TraesCS2B01G155300 chr2A 90.722 2824 152 40 1 2765 79444037 79441265 0.000000e+00 3663
7 TraesCS2B01G155300 chr2A 83.563 797 66 35 2748 3501 79441251 79440477 0.000000e+00 686
8 TraesCS2B01G155300 chr2A 81.590 239 29 9 978 1201 79498147 79497909 2.210000e-42 183
9 TraesCS2B01G155300 chr2A 88.387 155 14 3 1048 1198 79541133 79540979 2.210000e-42 183
10 TraesCS2B01G155300 chr1B 76.362 1083 205 46 1472 2533 20836147 20835095 5.300000e-148 534
11 TraesCS2B01G155300 chr1B 79.949 394 74 4 2195 2588 401603918 401604306 5.890000e-73 285
12 TraesCS2B01G155300 chr1D 75.658 1101 211 44 1472 2545 15049776 15048706 2.500000e-136 496
13 TraesCS2B01G155300 chr1D 81.203 399 67 8 2209 2607 298548130 298548520 7.510000e-82 315
14 TraesCS2B01G155300 chr1A 76.094 983 187 40 1562 2524 15517199 15518153 1.520000e-128 470
15 TraesCS2B01G155300 chr1A 82.428 313 54 1 2209 2521 372195254 372195565 4.590000e-69 272
16 TraesCS2B01G155300 chr1A 81.448 221 40 1 2279 2499 372197321 372197540 2.860000e-41 180


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 TraesCS2B01G155300 chr2B 123099384 123102988 3604 True 6658.0 6658 100.0000 1 3605 1 chr2B.!!$R1 3604
1 TraesCS2B01G155300 chr2B 128259537 128260504 967 True 1526.0 1526 95.1600 1 967 1 chr2B.!!$R2 966
2 TraesCS2B01G155300 chr2D 79231439 79234911 3472 True 2483.5 4723 91.5100 1 3604 2 chr2D.!!$R2 3603
3 TraesCS2B01G155300 chr2A 79440477 79444037 3560 True 2174.5 3663 87.1425 1 3501 2 chr2A.!!$R3 3500
4 TraesCS2B01G155300 chr1B 20835095 20836147 1052 True 534.0 534 76.3620 1472 2533 1 chr1B.!!$R1 1061
5 TraesCS2B01G155300 chr1D 15048706 15049776 1070 True 496.0 496 75.6580 1472 2545 1 chr1D.!!$R1 1073
6 TraesCS2B01G155300 chr1A 15517199 15518153 954 False 470.0 470 76.0940 1562 2524 1 chr1A.!!$F1 962
7 TraesCS2B01G155300 chr1A 372195254 372197540 2286 False 226.0 272 81.9380 2209 2521 2 chr1A.!!$F2 312

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
738 919 0.319297 GCTTTACGCCGATATCCCGT 60.319 55.0 16.97 16.97 38.84 5.28 F
910 1095 0.376852 CTCTCCTCTCGCTTCGTCAG 59.623 60.0 0.00 0.00 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2313 2541 0.179179 GCTCGCCGTAGTACTCGTTT 60.179 55.0 0.0 0.0 0.0 3.60 R
2861 5173 0.389166 CTTCCTCCGCTCACTGTCAC 60.389 60.0 0.0 0.0 0.0 3.67 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
187 233 1.134818 ACTCGGCGCAACAAGATATGA 60.135 47.619 10.83 0.00 0.00 2.15
258 313 7.329471 GCAACAAGATATATCTAGCATCGAACA 59.671 37.037 15.64 0.00 35.76 3.18
285 340 0.787183 GTCACTCTGAAGTCTTGCGC 59.213 55.000 0.00 0.00 31.71 6.09
292 347 1.194098 CTGAAGTCTTGCGCTTGTGAG 59.806 52.381 9.73 0.00 0.00 3.51
297 352 1.064060 GTCTTGCGCTTGTGAGTTGTT 59.936 47.619 9.73 0.00 0.00 2.83
300 355 1.090728 TGCGCTTGTGAGTTGTTTCA 58.909 45.000 9.73 0.00 0.00 2.69
305 360 2.851824 GCTTGTGAGTTGTTTCAAACCG 59.148 45.455 0.00 0.00 0.00 4.44
308 363 2.680841 TGTGAGTTGTTTCAAACCGAGG 59.319 45.455 0.00 0.00 0.00 4.63
310 365 3.002348 GTGAGTTGTTTCAAACCGAGGAG 59.998 47.826 0.00 0.00 0.00 3.69
312 367 2.171870 AGTTGTTTCAAACCGAGGAGGA 59.828 45.455 0.00 0.00 45.00 3.71
320 375 5.531122 TCAAACCGAGGAGGATATACAAG 57.469 43.478 0.00 0.00 45.00 3.16
322 377 5.302059 TCAAACCGAGGAGGATATACAAGAG 59.698 44.000 0.00 0.00 45.00 2.85
327 382 5.591067 CCGAGGAGGATATACAAGAGATACC 59.409 48.000 0.00 0.00 45.00 2.73
338 393 4.799678 ACAAGAGATACCGATCTAATGCG 58.200 43.478 0.00 0.00 42.80 4.73
339 394 4.519350 ACAAGAGATACCGATCTAATGCGA 59.481 41.667 0.00 0.00 42.80 5.10
341 396 4.072839 AGAGATACCGATCTAATGCGACA 58.927 43.478 0.00 0.00 42.80 4.35
345 400 2.540515 ACCGATCTAATGCGACACTTG 58.459 47.619 0.00 0.00 0.00 3.16
349 404 2.741759 TCTAATGCGACACTTGAGCA 57.258 45.000 6.60 6.60 45.46 4.26
354 409 0.742635 TGCGACACTTGAGCACAACA 60.743 50.000 0.00 0.00 35.81 3.33
364 419 4.697352 ACTTGAGCACAACAAGATATGGAC 59.303 41.667 13.34 0.00 44.92 4.02
366 421 2.609459 GAGCACAACAAGATATGGACCG 59.391 50.000 0.00 0.00 0.00 4.79
381 436 0.608640 GACCGACCATCCAGACAACT 59.391 55.000 0.00 0.00 0.00 3.16
394 449 3.003378 CCAGACAACTATCGTCGCTATGA 59.997 47.826 0.00 0.00 38.46 2.15
396 451 5.106673 CCAGACAACTATCGTCGCTATGATA 60.107 44.000 0.69 0.69 38.46 2.15
399 454 5.881447 ACAACTATCGTCGCTATGATATCC 58.119 41.667 0.00 0.00 33.97 2.59
473 647 2.224426 ACCACACCGCTTTATCTGAACA 60.224 45.455 0.00 0.00 0.00 3.18
483 657 6.758886 CCGCTTTATCTGAACAACTATTCTCT 59.241 38.462 0.00 0.00 0.00 3.10
488 662 9.645059 TTTATCTGAACAACTATTCTCTGTCAG 57.355 33.333 0.00 0.00 0.00 3.51
609 783 2.937994 TAGCGTACGATAGAAGCGTC 57.062 50.000 21.65 0.00 42.62 5.19
620 794 1.702886 AGAAGCGTCGTGTCTGAATG 58.297 50.000 0.00 0.00 0.00 2.67
625 799 2.163613 AGCGTCGTGTCTGAATGTATGA 59.836 45.455 0.00 0.00 0.00 2.15
626 800 2.921121 GCGTCGTGTCTGAATGTATGAA 59.079 45.455 0.00 0.00 0.00 2.57
724 905 4.342665 CCCAGTTACCCAACAAAAGCTTTA 59.657 41.667 13.10 0.00 37.10 1.85
738 919 0.319297 GCTTTACGCCGATATCCCGT 60.319 55.000 16.97 16.97 38.84 5.28
889 1074 0.400594 GCCATTTATAGCTCCCGGGT 59.599 55.000 22.86 3.24 0.00 5.28
910 1095 0.376852 CTCTCCTCTCGCTTCGTCAG 59.623 60.000 0.00 0.00 0.00 3.51
931 1118 1.215924 TCCAAAACCCCGAGAACCTTT 59.784 47.619 0.00 0.00 0.00 3.11
932 1119 1.611977 CCAAAACCCCGAGAACCTTTC 59.388 52.381 0.00 0.00 0.00 2.62
933 1120 2.583143 CAAAACCCCGAGAACCTTTCT 58.417 47.619 0.00 0.00 44.21 2.52
958 1145 1.070758 CCTCTCTCTCTCTCTCTCCCG 59.929 61.905 0.00 0.00 0.00 5.14
970 1157 0.812412 CTCTCCCGTCGACTCTCTCC 60.812 65.000 14.70 0.00 0.00 3.71
972 1159 2.829458 CCCGTCGACTCTCTCCCC 60.829 72.222 14.70 0.00 0.00 4.81
994 1183 2.502130 TCTCTCTCTCTCTAGAACCGCA 59.498 50.000 0.00 0.00 0.00 5.69
995 1184 2.872245 CTCTCTCTCTCTAGAACCGCAG 59.128 54.545 0.00 0.00 0.00 5.18
1053 1242 2.370445 CGACAAGGGGGAGCCTGAT 61.370 63.158 0.00 0.00 0.00 2.90
1056 1245 0.625683 ACAAGGGGGAGCCTGATCAT 60.626 55.000 0.00 0.00 0.00 2.45
1711 1927 2.769617 GCGTGGTGTTCGTCATCG 59.230 61.111 0.00 0.00 38.55 3.84
2253 2481 2.743752 CGCCATGACGCACTTCCTG 61.744 63.158 0.00 0.00 0.00 3.86
2585 4810 3.440415 GAAGGGCCGGCCGAAAAG 61.440 66.667 38.22 11.36 36.85 2.27
2590 4815 3.804193 GCCGGCCGAAAAGCAGAG 61.804 66.667 30.73 7.40 0.00 3.35
2799 5095 1.287191 CCCGTGATCGATCGATGCT 59.713 57.895 33.86 12.77 39.71 3.79
2802 5098 0.318191 CGTGATCGATCGATGCTGGT 60.318 55.000 33.86 11.11 39.71 4.00
2804 5100 2.205074 GTGATCGATCGATGCTGGTTT 58.795 47.619 33.86 9.47 34.60 3.27
2805 5101 3.381045 GTGATCGATCGATGCTGGTTTA 58.619 45.455 33.86 4.10 34.60 2.01
2806 5102 3.182572 GTGATCGATCGATGCTGGTTTAC 59.817 47.826 33.86 16.54 34.60 2.01
2807 5103 2.951457 TCGATCGATGCTGGTTTACA 57.049 45.000 15.15 0.00 0.00 2.41
2808 5104 3.452755 TCGATCGATGCTGGTTTACAT 57.547 42.857 15.15 0.00 0.00 2.29
2809 5105 3.123050 TCGATCGATGCTGGTTTACATG 58.877 45.455 15.15 0.00 0.00 3.21
2810 5106 2.348872 CGATCGATGCTGGTTTACATGC 60.349 50.000 10.26 0.00 0.00 4.06
2822 5118 6.238842 GCTGGTTTACATGCTGATGTGAATAT 60.239 38.462 0.08 0.00 43.03 1.28
2825 5121 8.785946 TGGTTTACATGCTGATGTGAATATATG 58.214 33.333 0.08 0.00 43.03 1.78
2861 5173 4.553429 GGATTCAGTTACAATTTTGCGTCG 59.447 41.667 0.00 0.00 0.00 5.12
2893 5210 4.301505 GGAAGATTCCTGCGTGCA 57.698 55.556 4.29 0.00 44.11 4.57
2897 5214 2.346803 GAAGATTCCTGCGTGCAAGTA 58.653 47.619 0.59 0.00 0.00 2.24
2956 5277 0.602638 CTTGCAGGGCACGAACTGTA 60.603 55.000 0.00 0.00 38.71 2.74
2965 5286 0.511221 CACGAACTGTAAACCGCCTG 59.489 55.000 0.00 0.00 0.00 4.85
2966 5287 1.226030 ACGAACTGTAAACCGCCTGC 61.226 55.000 0.00 0.00 0.00 4.85
2967 5288 0.949105 CGAACTGTAAACCGCCTGCT 60.949 55.000 0.00 0.00 0.00 4.24
2968 5289 0.517316 GAACTGTAAACCGCCTGCTG 59.483 55.000 0.00 0.00 0.00 4.41
2970 5291 0.179029 ACTGTAAACCGCCTGCTGTT 60.179 50.000 0.00 0.00 0.00 3.16
2977 5315 2.325082 CCGCCTGCTGTTACACCAC 61.325 63.158 0.00 0.00 0.00 4.16
2996 5334 1.825474 ACGAGGATCCATCTGAAACGT 59.175 47.619 15.82 9.06 0.00 3.99
3006 5344 2.010145 TCTGAAACGTATGCAGAGGC 57.990 50.000 9.91 0.00 41.68 4.70
3016 5354 4.486503 GCAGAGGCAGCCAGGGAG 62.487 72.222 15.80 0.00 40.72 4.30
3017 5355 3.795041 CAGAGGCAGCCAGGGAGG 61.795 72.222 15.80 0.00 41.84 4.30
3018 5356 4.345286 AGAGGCAGCCAGGGAGGT 62.345 66.667 15.80 0.00 40.61 3.85
3019 5357 3.791586 GAGGCAGCCAGGGAGGTC 61.792 72.222 15.80 0.00 40.61 3.85
3020 5358 4.664267 AGGCAGCCAGGGAGGTCA 62.664 66.667 15.80 0.00 40.61 4.02
3056 5394 0.397564 GTTCCGTGTTTCCTACCCCA 59.602 55.000 0.00 0.00 0.00 4.96
3073 5411 2.601905 CCCAGATTCCAATCCAATCCC 58.398 52.381 0.00 0.00 36.04 3.85
3075 5413 3.228453 CCAGATTCCAATCCAATCCCAG 58.772 50.000 0.00 0.00 36.04 4.45
3076 5414 2.626743 CAGATTCCAATCCAATCCCAGC 59.373 50.000 0.00 0.00 36.04 4.85
3077 5415 1.610522 GATTCCAATCCAATCCCAGCG 59.389 52.381 0.00 0.00 0.00 5.18
3122 5464 1.305201 GTCGATGTGGTGTGGTTGTT 58.695 50.000 0.00 0.00 0.00 2.83
3123 5465 1.263217 GTCGATGTGGTGTGGTTGTTC 59.737 52.381 0.00 0.00 0.00 3.18
3192 5535 9.109393 GTCAATAAAGCACTGATAATTAGTGGA 57.891 33.333 10.18 0.00 44.36 4.02
3202 5545 6.929606 ACTGATAATTAGTGGACCGATAAAGC 59.070 38.462 0.00 0.00 0.00 3.51
3225 5569 1.771783 ATCACCACCAGCAGTGCTCA 61.772 55.000 16.58 0.00 45.83 4.26
3275 5625 3.830755 TGTATATTCCTACTCCGGCTTCC 59.169 47.826 0.00 0.00 0.00 3.46
3398 5754 1.374947 GCCAGTCACTGCCTTACCA 59.625 57.895 0.00 0.00 0.00 3.25
3471 5832 3.201487 TCTGGGTGAGTCTAGAACCGATA 59.799 47.826 6.09 0.00 34.62 2.92
3478 5839 3.341823 AGTCTAGAACCGATACACACGT 58.658 45.455 0.00 0.00 0.00 4.49
3480 5841 4.937620 AGTCTAGAACCGATACACACGTTA 59.062 41.667 0.00 0.00 0.00 3.18
3481 5842 5.412594 AGTCTAGAACCGATACACACGTTAA 59.587 40.000 0.00 0.00 0.00 2.01
3482 5843 6.094603 AGTCTAGAACCGATACACACGTTAAT 59.905 38.462 0.00 0.00 0.00 1.40
3496 5858 7.285788 ACACACGTTAATTTGATCGTTACTTC 58.714 34.615 0.00 0.00 34.30 3.01
3530 5892 6.073927 GCCAGTGAGTAAAAACAGTACTGTAC 60.074 42.308 28.13 21.27 44.13 2.90
3559 5921 4.931601 GGATTTGCCTTGGATTTGAAGAAC 59.068 41.667 0.00 0.00 0.00 3.01
3604 5966 1.468127 CACACACACACACACACACAT 59.532 47.619 0.00 0.00 0.00 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
133 179 5.628797 TGATAGACCCATATCTTGTTGCA 57.371 39.130 0.00 0.00 33.98 4.08
187 233 6.350027 CCAGATGTCGCATTAGATGATAGACT 60.350 42.308 10.52 0.00 34.31 3.24
258 313 3.570550 AGACTTCAGAGTGACGCTAGTTT 59.429 43.478 0.00 0.00 35.88 2.66
285 340 4.342772 CTCGGTTTGAAACAACTCACAAG 58.657 43.478 10.53 0.00 0.00 3.16
292 347 2.567985 TCCTCCTCGGTTTGAAACAAC 58.432 47.619 10.53 0.00 0.00 3.32
297 352 5.659525 TCTTGTATATCCTCCTCGGTTTGAA 59.340 40.000 0.00 0.00 0.00 2.69
300 355 5.455872 TCTCTTGTATATCCTCCTCGGTTT 58.544 41.667 0.00 0.00 0.00 3.27
305 360 6.416415 TCGGTATCTCTTGTATATCCTCCTC 58.584 44.000 0.00 0.00 0.00 3.71
308 363 9.616156 TTAGATCGGTATCTCTTGTATATCCTC 57.384 37.037 0.00 0.00 41.71 3.71
311 366 9.672086 GCATTAGATCGGTATCTCTTGTATATC 57.328 37.037 0.00 0.00 41.71 1.63
312 367 8.346300 CGCATTAGATCGGTATCTCTTGTATAT 58.654 37.037 0.00 0.00 41.71 0.86
320 375 4.083217 AGTGTCGCATTAGATCGGTATCTC 60.083 45.833 0.00 0.00 41.71 2.75
322 377 4.162096 AGTGTCGCATTAGATCGGTATC 57.838 45.455 0.00 0.00 0.00 2.24
327 382 2.217393 GCTCAAGTGTCGCATTAGATCG 59.783 50.000 0.00 0.00 0.00 3.69
338 393 5.391310 CCATATCTTGTTGTGCTCAAGTGTC 60.391 44.000 0.50 0.00 41.78 3.67
339 394 4.456911 CCATATCTTGTTGTGCTCAAGTGT 59.543 41.667 0.50 1.16 41.78 3.55
341 396 4.697352 GTCCATATCTTGTTGTGCTCAAGT 59.303 41.667 0.50 0.00 41.78 3.16
345 400 2.609459 CGGTCCATATCTTGTTGTGCTC 59.391 50.000 0.00 0.00 0.00 4.26
349 404 2.569853 TGGTCGGTCCATATCTTGTTGT 59.430 45.455 0.00 0.00 41.93 3.32
364 419 2.543861 CGATAGTTGTCTGGATGGTCGG 60.544 54.545 0.00 0.00 0.00 4.79
381 436 3.945285 TGCAGGATATCATAGCGACGATA 59.055 43.478 4.83 0.00 0.00 2.92
394 449 6.209192 TGAAACAACTCACAAATGCAGGATAT 59.791 34.615 0.00 0.00 0.00 1.63
396 451 4.341806 TGAAACAACTCACAAATGCAGGAT 59.658 37.500 0.00 0.00 0.00 3.24
399 454 6.560799 CGATTTGAAACAACTCACAAATGCAG 60.561 38.462 0.00 0.00 41.11 4.41
473 647 9.860650 ATACATCTAGACTGACAGAGAATAGTT 57.139 33.333 10.08 0.00 0.00 2.24
483 657 5.506317 CGTGCATGATACATCTAGACTGACA 60.506 44.000 0.00 0.00 0.00 3.58
488 662 4.480541 CTCCGTGCATGATACATCTAGAC 58.519 47.826 7.72 0.00 0.00 2.59
609 783 3.873361 AGCCATTCATACATTCAGACACG 59.127 43.478 0.00 0.00 0.00 4.49
724 905 0.319555 CAATGACGGGATATCGGCGT 60.320 55.000 6.85 0.00 41.88 5.68
738 919 1.532523 TTGCAACGGAGCATCAATGA 58.467 45.000 4.86 0.00 45.19 2.57
889 1074 1.088306 GACGAAGCGAGAGGAGAGAA 58.912 55.000 0.00 0.00 0.00 2.87
910 1095 0.109913 AGGTTCTCGGGGTTTTGGAC 59.890 55.000 0.00 0.00 0.00 4.02
931 1118 4.078922 AGAGAGAGAGAGAGAGGAGAGAGA 60.079 50.000 0.00 0.00 0.00 3.10
932 1119 4.222336 AGAGAGAGAGAGAGAGGAGAGAG 58.778 52.174 0.00 0.00 0.00 3.20
933 1120 4.219115 GAGAGAGAGAGAGAGAGGAGAGA 58.781 52.174 0.00 0.00 0.00 3.10
939 1126 1.762957 ACGGGAGAGAGAGAGAGAGAG 59.237 57.143 0.00 0.00 0.00 3.20
940 1127 1.760613 GACGGGAGAGAGAGAGAGAGA 59.239 57.143 0.00 0.00 0.00 3.10
958 1145 0.544697 AGAGAGGGGAGAGAGTCGAC 59.455 60.000 7.70 7.70 0.00 4.20
970 1157 3.494398 CGGTTCTAGAGAGAGAGAGAGGG 60.494 56.522 0.00 0.00 31.77 4.30
972 1159 3.131396 GCGGTTCTAGAGAGAGAGAGAG 58.869 54.545 0.00 0.00 31.77 3.20
994 1183 0.467844 TGCTGTTGCACCATGTTCCT 60.468 50.000 0.00 0.00 45.31 3.36
995 1184 2.040330 TGCTGTTGCACCATGTTCC 58.960 52.632 0.00 0.00 45.31 3.62
1053 1242 0.906775 TGCATGACAGCTCCTCATGA 59.093 50.000 25.55 13.33 45.44 3.07
1056 1245 0.035725 CCTTGCATGACAGCTCCTCA 60.036 55.000 0.00 0.00 34.99 3.86
2007 2226 3.771160 TTCGGGAGGGCGAGCTTC 61.771 66.667 0.00 0.00 0.00 3.86
2016 2235 1.672356 CAGGTGCTTGTTCGGGAGG 60.672 63.158 0.00 0.00 0.00 4.30
2313 2541 0.179179 GCTCGCCGTAGTACTCGTTT 60.179 55.000 0.00 0.00 0.00 3.60
2630 4859 3.906720 ACTGCTATACGGGATGTTTGT 57.093 42.857 0.00 0.00 0.00 2.83
2799 5095 8.785946 CATATATTCACATCAGCATGTAAACCA 58.214 33.333 0.00 0.00 41.69 3.67
2802 5098 7.094248 GGGCATATATTCACATCAGCATGTAAA 60.094 37.037 0.00 0.00 41.69 2.01
2804 5100 5.882000 GGGCATATATTCACATCAGCATGTA 59.118 40.000 0.00 0.00 41.69 2.29
2805 5101 4.703575 GGGCATATATTCACATCAGCATGT 59.296 41.667 0.00 0.00 44.72 3.21
2806 5102 4.703093 TGGGCATATATTCACATCAGCATG 59.297 41.667 0.00 0.00 35.92 4.06
2807 5103 4.925836 TGGGCATATATTCACATCAGCAT 58.074 39.130 0.00 0.00 0.00 3.79
2808 5104 4.370094 TGGGCATATATTCACATCAGCA 57.630 40.909 0.00 0.00 0.00 4.41
2809 5105 5.909621 ATTGGGCATATATTCACATCAGC 57.090 39.130 0.00 0.00 0.00 4.26
2810 5106 9.234827 TCTTTATTGGGCATATATTCACATCAG 57.765 33.333 0.00 0.00 0.00 2.90
2822 5118 6.672593 ACTGAATCCTTCTTTATTGGGCATA 58.327 36.000 0.00 0.00 0.00 3.14
2825 5121 5.921962 AACTGAATCCTTCTTTATTGGGC 57.078 39.130 0.00 0.00 0.00 5.36
2861 5173 0.389166 CTTCCTCCGCTCACTGTCAC 60.389 60.000 0.00 0.00 0.00 3.67
2893 5210 3.003173 TCTGGCGCCCTGCTACTT 61.003 61.111 26.77 0.00 45.43 2.24
2956 5277 1.170290 GGTGTAACAGCAGGCGGTTT 61.170 55.000 14.54 0.78 39.98 3.27
2965 5286 1.641577 GATCCTCGTGGTGTAACAGC 58.358 55.000 2.99 0.00 39.98 4.40
2966 5287 1.548719 TGGATCCTCGTGGTGTAACAG 59.451 52.381 14.23 0.00 39.98 3.16
2967 5288 1.634960 TGGATCCTCGTGGTGTAACA 58.365 50.000 14.23 0.00 39.98 2.41
2968 5289 2.431057 AGATGGATCCTCGTGGTGTAAC 59.569 50.000 14.23 0.00 34.23 2.50
2970 5291 2.031870 CAGATGGATCCTCGTGGTGTA 58.968 52.381 14.23 0.00 34.23 2.90
2977 5315 2.586258 ACGTTTCAGATGGATCCTCG 57.414 50.000 14.23 7.32 0.00 4.63
3006 5344 0.909610 TAACCTGACCTCCCTGGCTG 60.910 60.000 0.00 0.00 40.22 4.85
3007 5345 0.618968 CTAACCTGACCTCCCTGGCT 60.619 60.000 0.00 0.00 40.22 4.75
3008 5346 1.627297 CCTAACCTGACCTCCCTGGC 61.627 65.000 0.00 0.00 40.22 4.85
3009 5347 1.627297 GCCTAACCTGACCTCCCTGG 61.627 65.000 0.00 0.00 42.93 4.45
3010 5348 0.909610 TGCCTAACCTGACCTCCCTG 60.910 60.000 0.00 0.00 0.00 4.45
3011 5349 0.618968 CTGCCTAACCTGACCTCCCT 60.619 60.000 0.00 0.00 0.00 4.20
3012 5350 1.627297 CCTGCCTAACCTGACCTCCC 61.627 65.000 0.00 0.00 0.00 4.30
3013 5351 1.627297 CCCTGCCTAACCTGACCTCC 61.627 65.000 0.00 0.00 0.00 4.30
3014 5352 0.617820 TCCCTGCCTAACCTGACCTC 60.618 60.000 0.00 0.00 0.00 3.85
3015 5353 0.618968 CTCCCTGCCTAACCTGACCT 60.619 60.000 0.00 0.00 0.00 3.85
3016 5354 0.617820 TCTCCCTGCCTAACCTGACC 60.618 60.000 0.00 0.00 0.00 4.02
3017 5355 1.139853 CATCTCCCTGCCTAACCTGAC 59.860 57.143 0.00 0.00 0.00 3.51
3018 5356 1.273838 ACATCTCCCTGCCTAACCTGA 60.274 52.381 0.00 0.00 0.00 3.86
3019 5357 1.207791 ACATCTCCCTGCCTAACCTG 58.792 55.000 0.00 0.00 0.00 4.00
3020 5358 1.840635 GAACATCTCCCTGCCTAACCT 59.159 52.381 0.00 0.00 0.00 3.50
3045 5383 3.204382 GGATTGGAATCTGGGGTAGGAAA 59.796 47.826 0.00 0.00 35.73 3.13
3056 5394 2.750807 CGCTGGGATTGGATTGGAATCT 60.751 50.000 0.00 0.00 35.73 2.40
3073 5411 0.436150 CGATTGATCGGCATACGCTG 59.564 55.000 5.51 0.00 45.93 5.18
3096 5434 1.390123 CACACCACATCGACGATCAAC 59.610 52.381 7.54 0.00 0.00 3.18
3098 5436 0.108851 CCACACCACATCGACGATCA 60.109 55.000 7.54 0.00 0.00 2.92
3122 5464 1.153539 TTCCAACCAACCCATCCAGA 58.846 50.000 0.00 0.00 0.00 3.86
3123 5465 1.256812 GTTCCAACCAACCCATCCAG 58.743 55.000 0.00 0.00 0.00 3.86
3192 5535 4.591498 TGGTGGTGATATAGCTTTATCGGT 59.409 41.667 16.37 0.00 32.30 4.69
3202 5545 2.487934 GCACTGCTGGTGGTGATATAG 58.512 52.381 11.18 0.00 45.44 1.31
3275 5625 2.771089 TCAGTGGCAGCAGTAGAAAAG 58.229 47.619 0.00 0.00 0.00 2.27
3456 5817 3.373439 ACGTGTGTATCGGTTCTAGACTC 59.627 47.826 0.00 0.00 0.00 3.36
3471 5832 6.774354 AGTAACGATCAAATTAACGTGTGT 57.226 33.333 0.00 0.00 38.92 3.72
3478 5839 6.073167 TGCAACCGAAGTAACGATCAAATTAA 60.073 34.615 0.00 0.00 35.09 1.40
3480 5841 4.214545 TGCAACCGAAGTAACGATCAAATT 59.785 37.500 0.00 0.00 35.09 1.82
3481 5842 3.749088 TGCAACCGAAGTAACGATCAAAT 59.251 39.130 0.00 0.00 35.09 2.32
3482 5843 3.059461 GTGCAACCGAAGTAACGATCAAA 60.059 43.478 0.00 0.00 35.09 2.69
3496 5858 3.716006 CTCACTGGCGTGCAACCG 61.716 66.667 0.00 0.00 40.99 4.44
3530 5892 5.185635 TCAAATCCAAGGCAAATCCAGTAAG 59.814 40.000 0.00 0.00 37.29 2.34
3559 5921 1.467920 GAAGGAACCATCTGCCTTGG 58.532 55.000 0.00 0.00 41.85 3.61


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

AutoCloner maintained by Alex Coulton.