Multiple sequence alignment - TraesCS5D01G471700

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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 TraesCS5D01G471700 chr5D 100.000 3713 0 0 1 3713 512426220 512429932 0.000000e+00 6857
1 TraesCS5D01G471700 chr7A 93.102 3436 202 10 1 3413 83248672 83245249 0.000000e+00 5000
2 TraesCS5D01G471700 chr7A 95.752 306 12 1 3409 3713 83236560 83236255 3.330000e-135 492
3 TraesCS5D01G471700 chr6D 97.541 2359 53 4 1356 3713 379327228 379324874 0.000000e+00 4030
4 TraesCS5D01G471700 chr3B 87.250 400 48 1 1063 1462 65283146 65283542 1.570000e-123 453
5 TraesCS5D01G471700 chr3B 76.144 612 120 21 3092 3696 65310572 65311164 7.800000e-77 298


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 TraesCS5D01G471700 chr5D 512426220 512429932 3712 False 6857 6857 100.000 1 3713 1 chr5D.!!$F1 3712
1 TraesCS5D01G471700 chr7A 83245249 83248672 3423 True 5000 5000 93.102 1 3413 1 chr7A.!!$R2 3412
2 TraesCS5D01G471700 chr6D 379324874 379327228 2354 True 4030 4030 97.541 1356 3713 1 chr6D.!!$R1 2357
3 TraesCS5D01G471700 chr3B 65310572 65311164 592 False 298 298 76.144 3092 3696 1 chr3B.!!$F2 604

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
298 299 0.324614 ATGATGACGTTGACAGCCCA 59.675 50.0 0.00 0.0 0.00 5.36 F
539 540 0.381801 CCCACTTGTCACTTGTGTGC 59.618 55.0 0.46 0.0 43.49 4.57 F
1347 1352 0.304705 GATGTATTGGTCTTGCGCCG 59.695 55.0 4.18 0.0 0.00 6.46 F
2543 2567 0.108585 GGACTTCTTCCTGGCACACA 59.891 55.0 0.00 0.0 41.95 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1106 1111 1.073199 AAGGCAACGGAGGTGAAGG 59.927 57.895 0.0 0.0 46.39 3.46 R
1761 1766 1.203994 GCTACTGAACTAACCTGCGGA 59.796 52.381 0.0 0.0 0.00 5.54 R
2559 2583 0.396435 AGGAAACACAGGCATCACGA 59.604 50.000 0.0 0.0 0.00 4.35 R
3396 3421 7.101054 TCGGAGTGTACTTAGCAATGTATTTT 58.899 34.615 0.0 0.0 0.00 1.82 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
26 27 0.647410 GCGTGTCGTGATTGAGATGG 59.353 55.000 0.00 0.00 0.00 3.51
91 92 6.295249 TGTCCATGATTACACTTTGAAGACA 58.705 36.000 0.00 0.00 0.00 3.41
92 93 6.770303 TGTCCATGATTACACTTTGAAGACAA 59.230 34.615 0.00 0.00 0.00 3.18
93 94 7.284261 TGTCCATGATTACACTTTGAAGACAAA 59.716 33.333 0.00 0.00 42.66 2.83
123 124 5.293079 TGCTTTGGTGTGTTAATTTGCTTTC 59.707 36.000 0.00 0.00 0.00 2.62
127 128 7.913674 TTGGTGTGTTAATTTGCTTTCTTTT 57.086 28.000 0.00 0.00 0.00 2.27
130 131 7.768120 TGGTGTGTTAATTTGCTTTCTTTTCAT 59.232 29.630 0.00 0.00 0.00 2.57
162 163 3.828875 TCCACATATTACATGCACGGA 57.171 42.857 0.00 0.00 0.00 4.69
204 205 3.717400 TCCATTCCGAAGAGAAGATCG 57.283 47.619 0.00 0.00 38.74 3.69
208 209 4.261783 CCATTCCGAAGAGAAGATCGATCA 60.262 45.833 26.47 2.20 41.43 2.92
219 220 5.923204 AGAAGATCGATCAGGCAATACTTT 58.077 37.500 26.47 8.40 0.00 2.66
258 259 0.331278 AATGAATCCGGAACAGGGCA 59.669 50.000 9.01 0.61 0.00 5.36
274 275 1.560505 GGCATGTTTCCCAAGGTGAT 58.439 50.000 0.00 0.00 0.00 3.06
287 288 3.129109 CAAGGTGATGAGGATGATGACG 58.871 50.000 0.00 0.00 0.00 4.35
288 289 2.392662 AGGTGATGAGGATGATGACGT 58.607 47.619 0.00 0.00 0.00 4.34
289 290 2.768527 AGGTGATGAGGATGATGACGTT 59.231 45.455 0.00 0.00 0.00 3.99
298 299 0.324614 ATGATGACGTTGACAGCCCA 59.675 50.000 0.00 0.00 0.00 5.36
308 309 1.040339 TGACAGCCCACCCAACAAAC 61.040 55.000 0.00 0.00 0.00 2.93
331 332 3.190744 GGGTGAAGGTTTAGTTTAGCTGC 59.809 47.826 0.00 0.00 0.00 5.25
338 339 5.325239 AGGTTTAGTTTAGCTGCTCCAATT 58.675 37.500 4.91 0.00 0.00 2.32
363 364 1.737236 GCGATGTGGCATGTAGTTGAA 59.263 47.619 0.00 0.00 0.00 2.69
372 373 4.771577 TGGCATGTAGTTGAAAATCACCAT 59.228 37.500 0.00 0.00 0.00 3.55
391 392 5.296780 CACCATGTTTTGTGAGAGTACACTT 59.703 40.000 0.00 0.00 40.87 3.16
394 395 6.038161 CCATGTTTTGTGAGAGTACACTTCAA 59.962 38.462 0.00 2.07 40.87 2.69
419 420 8.948853 AAACACGTGTGATGAATTATGTTAAG 57.051 30.769 24.16 0.00 0.00 1.85
420 421 6.542852 ACACGTGTGATGAATTATGTTAAGC 58.457 36.000 22.71 0.00 0.00 3.09
463 464 3.743714 TTGCTAGTGTGGCAACCAT 57.256 47.368 0.00 0.00 43.50 3.55
479 480 1.285962 ACCATTTGCATCCTAGCCTGT 59.714 47.619 0.00 0.00 0.00 4.00
480 481 2.291800 ACCATTTGCATCCTAGCCTGTT 60.292 45.455 0.00 0.00 0.00 3.16
493 494 3.508744 AGCCTGTTTTTGTTGTGTGAG 57.491 42.857 0.00 0.00 0.00 3.51
509 510 0.681887 TGAGCCCATGCATGAGTTGG 60.682 55.000 28.31 20.16 41.13 3.77
533 534 1.774254 TCATGGTCCCACTTGTCACTT 59.226 47.619 0.00 0.00 0.00 3.16
539 540 0.381801 CCCACTTGTCACTTGTGTGC 59.618 55.000 0.46 0.00 43.49 4.57
544 545 0.724549 TTGTCACTTGTGTGCGTGTC 59.275 50.000 0.46 0.00 43.49 3.67
557 558 1.081556 GCGTGTCTGTGTGTGTGTGA 61.082 55.000 0.00 0.00 0.00 3.58
558 559 1.570813 CGTGTCTGTGTGTGTGTGAT 58.429 50.000 0.00 0.00 0.00 3.06
559 560 1.258720 CGTGTCTGTGTGTGTGTGATG 59.741 52.381 0.00 0.00 0.00 3.07
561 562 0.588252 GTCTGTGTGTGTGTGATGGC 59.412 55.000 0.00 0.00 0.00 4.40
587 592 4.159693 CACTACTCATAGGGTGTGCAAGTA 59.840 45.833 0.00 0.00 32.08 2.24
588 593 3.611766 ACTCATAGGGTGTGCAAGTAC 57.388 47.619 0.00 0.00 0.00 2.73
604 609 1.004044 AGTACTGCATGCAAAGGCTCT 59.996 47.619 22.88 11.05 41.91 4.09
631 636 4.213906 GCAAAAAGGCATGCTGTTGTTAAT 59.786 37.500 18.92 0.00 39.46 1.40
632 637 5.407995 GCAAAAAGGCATGCTGTTGTTAATA 59.592 36.000 18.92 0.00 39.46 0.98
642 647 8.562892 GCATGCTGTTGTTAATAGATGTCTAAT 58.437 33.333 11.37 0.00 31.39 1.73
675 680 5.880054 ATAAAGGTTTCATGAGACGGTTG 57.120 39.130 10.03 0.00 0.00 3.77
678 683 3.600388 AGGTTTCATGAGACGGTTGATC 58.400 45.455 10.03 0.00 0.00 2.92
691 696 1.276989 GGTTGATCGGGTTCACCTACA 59.723 52.381 0.00 0.00 36.97 2.74
692 697 2.618053 GTTGATCGGGTTCACCTACAG 58.382 52.381 0.00 0.00 36.97 2.74
776 781 3.117550 CCAACTCATTATCCATCCCACCA 60.118 47.826 0.00 0.00 0.00 4.17
779 784 3.137176 ACTCATTATCCATCCCACCACAG 59.863 47.826 0.00 0.00 0.00 3.66
783 788 1.281925 ATCCATCCCACCACAGACCC 61.282 60.000 0.00 0.00 0.00 4.46
805 810 2.246874 ACCTCCCTCCCTCGGAAGA 61.247 63.158 0.00 0.00 39.12 2.87
844 849 1.301401 ACACCACCATTGACGACCG 60.301 57.895 0.00 0.00 0.00 4.79
897 902 3.987954 TTGCCCGCGGAGGAAATCC 62.988 63.158 30.73 4.45 45.00 3.01
983 988 5.767269 TCTTGATGAATCAGATCTAGTCGC 58.233 41.667 0.00 0.00 38.19 5.19
985 990 4.148079 TGATGAATCAGATCTAGTCGCCT 58.852 43.478 0.00 0.00 32.11 5.52
990 995 5.239744 TGAATCAGATCTAGTCGCCTAGTTC 59.760 44.000 0.00 2.01 41.31 3.01
1094 1099 1.139095 CGACCAAGCGTCCTCCTAC 59.861 63.158 0.00 0.00 38.36 3.18
1106 1111 3.281158 GTCCTCCTACAGTACAGACCTC 58.719 54.545 0.00 0.00 0.00 3.85
1117 1122 0.900647 ACAGACCTCCTTCACCTCCG 60.901 60.000 0.00 0.00 0.00 4.63
1152 1157 0.541764 TTGCTGGTGAATGGAACCCC 60.542 55.000 0.00 0.00 36.83 4.95
1226 1231 2.808543 GAGTGCTAGGGAACACAAACAG 59.191 50.000 0.00 0.00 39.30 3.16
1333 1338 5.756918 ACAGTAGAGAGGTTGCTAGATGTA 58.243 41.667 0.00 0.00 0.00 2.29
1347 1352 0.304705 GATGTATTGGTCTTGCGCCG 59.695 55.000 4.18 0.00 0.00 6.46
1348 1353 1.095228 ATGTATTGGTCTTGCGCCGG 61.095 55.000 4.18 0.00 0.00 6.13
1349 1354 2.124901 TATTGGTCTTGCGCCGGG 60.125 61.111 4.18 0.00 0.00 5.73
1350 1355 3.690685 TATTGGTCTTGCGCCGGGG 62.691 63.158 15.40 15.40 0.00 5.73
1756 1761 3.745723 AACCTTACTGGGTGCCTTG 57.254 52.632 0.00 0.00 39.85 3.61
1761 1766 2.555227 CCTTACTGGGTGCCTTGTCATT 60.555 50.000 0.00 0.00 0.00 2.57
1815 1820 9.465985 CAAATTTATGCAAGCATGTGTATCATA 57.534 29.630 17.26 0.00 37.82 2.15
2093 2098 0.391661 TCTGCCACTTTCAGATCGGC 60.392 55.000 0.00 0.00 43.28 5.54
2185 2190 2.848679 TGGAGCTGGTGTGGCAGA 60.849 61.111 0.00 0.00 0.00 4.26
2286 2310 6.431543 TCCTTGTGTTGTTCTCTGTTTTGTTA 59.568 34.615 0.00 0.00 0.00 2.41
2458 2482 7.776107 TCAAGGTATTTGATAGTGTCAGAGAG 58.224 38.462 0.00 0.00 40.82 3.20
2527 2551 0.178990 AGTTGGAGGGCACTTTGGAC 60.179 55.000 0.00 0.00 0.00 4.02
2543 2567 0.108585 GGACTTCTTCCTGGCACACA 59.891 55.000 0.00 0.00 41.95 3.72
2596 2620 0.447801 CTGTTAACACGCCTGATGCC 59.552 55.000 3.59 0.00 36.24 4.40
2632 2656 3.531934 TCTGCAGGTACAGATGTGATG 57.468 47.619 15.13 0.00 41.72 3.07
2648 2672 6.930722 AGATGTGATGTTTTTCCCATTTGTTC 59.069 34.615 0.00 0.00 0.00 3.18
2683 2707 5.643379 AGTGATGTTTTGTTTGACACTGT 57.357 34.783 0.00 0.00 36.11 3.55
2733 2757 2.253452 CTGGCTGCAAGTTCACGC 59.747 61.111 0.50 0.00 35.30 5.34
2738 2762 2.024918 CTGCAAGTTCACGCCAAGT 58.975 52.632 0.00 0.00 0.00 3.16
2775 2799 0.947244 CTGTGGTTGTGGAGAACAGC 59.053 55.000 0.00 0.00 40.74 4.40
2807 2831 1.154073 GCTTTGCTACAGCTGCTGC 60.154 57.895 28.39 18.44 42.66 5.25
2861 2885 2.189594 TGAAGGCACATCAACTGGAG 57.810 50.000 0.00 0.00 31.17 3.86
2907 2931 2.352651 CCGTGTCATCAAGTGGCATAAG 59.647 50.000 0.00 0.00 45.63 1.73
3001 3025 2.488891 CCAGAGGACAAACCAATGGTGA 60.489 50.000 5.34 0.00 39.88 4.02
3335 3360 7.389330 TGTTTAAGTATTCGGTGTGATTGATGT 59.611 33.333 0.00 0.00 0.00 3.06
3363 3388 3.016031 TGTGATGCAACCGCTTATTGAT 58.984 40.909 0.00 0.00 39.64 2.57
3482 3507 2.883026 CCCTGATCCGACTCCTAATCT 58.117 52.381 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 4.144051 CGTTACATTTTCTGCAACGTGAAC 59.856 41.667 0.00 0.00 45.44 3.18
91 92 4.320608 AACACACCAAAGCATCGATTTT 57.679 36.364 0.00 0.00 0.00 1.82
92 93 5.446143 TTAACACACCAAAGCATCGATTT 57.554 34.783 0.00 0.00 0.00 2.17
93 94 5.643379 ATTAACACACCAAAGCATCGATT 57.357 34.783 0.00 0.00 0.00 3.34
123 124 7.905604 TGTGGAAGTACACAGATATGAAAAG 57.094 36.000 0.00 0.00 45.70 2.27
152 153 0.176680 GTCTCCTCATCCGTGCATGT 59.823 55.000 4.96 0.00 0.00 3.21
162 163 1.827969 CAAACTCTCCCGTCTCCTCAT 59.172 52.381 0.00 0.00 0.00 2.90
204 205 3.549794 AGCTCCAAAGTATTGCCTGATC 58.450 45.455 0.00 0.00 35.10 2.92
208 209 2.014068 GCGAGCTCCAAAGTATTGCCT 61.014 52.381 8.47 0.00 35.10 4.75
258 259 2.649312 TCCTCATCACCTTGGGAAACAT 59.351 45.455 0.00 0.00 0.00 2.71
264 265 2.440627 TCATCATCCTCATCACCTTGGG 59.559 50.000 0.00 0.00 0.00 4.12
274 275 2.675032 GCTGTCAACGTCATCATCCTCA 60.675 50.000 0.00 0.00 0.00 3.86
287 288 1.040339 TTGTTGGGTGGGCTGTCAAC 61.040 55.000 0.00 0.00 39.68 3.18
288 289 0.324738 TTTGTTGGGTGGGCTGTCAA 60.325 50.000 0.00 0.00 0.00 3.18
289 290 1.040339 GTTTGTTGGGTGGGCTGTCA 61.040 55.000 0.00 0.00 0.00 3.58
308 309 3.435671 CAGCTAAACTAAACCTTCACCCG 59.564 47.826 0.00 0.00 0.00 5.28
331 332 2.223340 GCCACATCGCAACTAATTGGAG 60.223 50.000 0.00 0.00 36.23 3.86
338 339 2.093711 ACTACATGCCACATCGCAACTA 60.094 45.455 0.00 0.00 43.24 2.24
363 364 6.545666 TGTACTCTCACAAAACATGGTGATTT 59.454 34.615 0.00 0.00 42.62 2.17
372 373 7.041030 TGTTTTGAAGTGTACTCTCACAAAACA 60.041 33.333 34.74 34.74 46.11 2.83
391 392 6.964908 ACATAATTCATCACACGTGTTTTGA 58.035 32.000 20.79 20.77 0.00 2.69
394 395 7.537306 GCTTAACATAATTCATCACACGTGTTT 59.463 33.333 20.79 12.34 31.74 2.83
428 429 9.672673 ACACTAGCAAATGATTGTCTTACTAAT 57.327 29.630 0.00 0.00 38.85 1.73
432 433 6.546395 CCACACTAGCAAATGATTGTCTTAC 58.454 40.000 0.00 0.00 38.85 2.34
462 463 4.284234 ACAAAAACAGGCTAGGATGCAAAT 59.716 37.500 0.00 0.00 34.04 2.32
463 464 3.640967 ACAAAAACAGGCTAGGATGCAAA 59.359 39.130 0.00 0.00 34.04 3.68
469 470 3.380004 CACACAACAAAAACAGGCTAGGA 59.620 43.478 0.00 0.00 0.00 2.94
473 474 2.417243 GCTCACACAACAAAAACAGGCT 60.417 45.455 0.00 0.00 0.00 4.58
479 480 2.741228 GCATGGGCTCACACAACAAAAA 60.741 45.455 0.00 0.00 36.96 1.94
480 481 1.202510 GCATGGGCTCACACAACAAAA 60.203 47.619 0.00 0.00 36.96 2.44
493 494 0.387929 CATCCAACTCATGCATGGGC 59.612 55.000 26.70 0.00 41.68 5.36
509 510 2.290260 TGACAAGTGGGACCATGACATC 60.290 50.000 0.00 0.00 0.00 3.06
514 515 1.881973 CAAGTGACAAGTGGGACCATG 59.118 52.381 0.00 0.00 0.00 3.66
515 516 1.494721 ACAAGTGACAAGTGGGACCAT 59.505 47.619 0.00 0.00 0.00 3.55
533 534 1.079474 ACACACAGACACGCACACA 60.079 52.632 0.00 0.00 0.00 3.72
539 540 1.258720 CATCACACACACACAGACACG 59.741 52.381 0.00 0.00 0.00 4.49
544 545 0.870393 GAGCCATCACACACACACAG 59.130 55.000 0.00 0.00 0.00 3.66
557 558 2.090494 ACCCTATGAGTAGTGGAGCCAT 60.090 50.000 0.00 0.00 0.00 4.40
558 559 1.291033 ACCCTATGAGTAGTGGAGCCA 59.709 52.381 0.00 0.00 0.00 4.75
559 560 1.689273 CACCCTATGAGTAGTGGAGCC 59.311 57.143 0.00 0.00 0.00 4.70
561 562 2.101582 GCACACCCTATGAGTAGTGGAG 59.898 54.545 0.00 0.00 34.50 3.86
587 592 0.251033 TGAGAGCCTTTGCATGCAGT 60.251 50.000 21.50 4.40 41.13 4.40
588 593 1.103803 ATGAGAGCCTTTGCATGCAG 58.896 50.000 21.50 10.86 41.13 4.41
619 624 9.098355 GTGATTAGACATCTATTAACAACAGCA 57.902 33.333 0.00 0.00 0.00 4.41
654 659 4.963373 TCAACCGTCTCATGAAACCTTTA 58.037 39.130 0.00 0.00 0.00 1.85
658 663 2.348666 CGATCAACCGTCTCATGAAACC 59.651 50.000 0.00 0.00 0.00 3.27
661 666 1.134818 CCCGATCAACCGTCTCATGAA 60.135 52.381 0.00 0.00 0.00 2.57
666 671 0.245539 TGAACCCGATCAACCGTCTC 59.754 55.000 0.00 0.00 0.00 3.36
668 673 1.017701 GGTGAACCCGATCAACCGTC 61.018 60.000 0.00 0.00 30.55 4.79
675 680 0.824759 AGCTGTAGGTGAACCCGATC 59.175 55.000 0.00 0.00 38.74 3.69
678 683 0.034896 AACAGCTGTAGGTGAACCCG 59.965 55.000 22.01 0.00 45.66 5.28
707 712 2.273449 CCATCCCTTCGGCAAGCT 59.727 61.111 0.00 0.00 0.00 3.74
844 849 2.430465 TCTTCCTTCAGTCAATGCAGC 58.570 47.619 0.00 0.00 0.00 5.25
897 902 0.460284 AACGATCAAGTAGCAGGCCG 60.460 55.000 0.00 0.00 0.00 6.13
945 950 5.132502 TCATCAAGAACCAGCAGAAGAAAA 58.867 37.500 0.00 0.00 0.00 2.29
952 957 4.259356 TCTGATTCATCAAGAACCAGCAG 58.741 43.478 0.00 0.00 45.93 4.24
983 988 2.432300 ATCACCCCCGCGAACTAGG 61.432 63.158 8.23 0.00 0.00 3.02
985 990 2.727392 CCATCACCCCCGCGAACTA 61.727 63.158 8.23 0.00 0.00 2.24
1044 1049 2.017049 GAACCAGCGTTATTCATGCCT 58.983 47.619 0.00 0.00 38.31 4.75
1046 1051 3.685058 GAAGAACCAGCGTTATTCATGC 58.315 45.455 6.89 0.00 45.44 4.06
1052 1057 0.743345 GGCCGAAGAACCAGCGTTAT 60.743 55.000 0.00 0.00 30.30 1.89
1053 1058 1.375013 GGCCGAAGAACCAGCGTTA 60.375 57.895 0.00 0.00 30.30 3.18
1094 1099 2.494073 GAGGTGAAGGAGGTCTGTACTG 59.506 54.545 0.00 0.00 0.00 2.74
1106 1111 1.073199 AAGGCAACGGAGGTGAAGG 59.927 57.895 0.00 0.00 46.39 3.46
1152 1157 6.598753 TCTTTTAAAACACTTCTGACCTCG 57.401 37.500 0.00 0.00 0.00 4.63
1158 1163 7.648142 TGCCTACATCTTTTAAAACACTTCTG 58.352 34.615 0.00 0.00 0.00 3.02
1390 1395 3.181471 CCAAGCAAGTCCTCACGATCTAT 60.181 47.826 0.00 0.00 0.00 1.98
1756 1761 2.673368 CTGAACTAACCTGCGGAATGAC 59.327 50.000 0.00 0.00 0.00 3.06
1761 1766 1.203994 GCTACTGAACTAACCTGCGGA 59.796 52.381 0.00 0.00 0.00 5.54
1815 1820 6.645415 CGCCAAGAGAAATTAGTACGGATTAT 59.355 38.462 0.00 0.00 0.00 1.28
2157 2162 1.670015 CAGCTCCACTGCTCTCACA 59.330 57.895 0.00 0.00 41.98 3.58
2225 2230 1.519246 CTCATCAGAGAAGCCGCCA 59.481 57.895 0.00 0.00 44.98 5.69
2458 2482 3.196469 TCTTGATCTCACCCATGACACTC 59.804 47.826 0.00 0.00 0.00 3.51
2527 2551 2.189594 TCATGTGTGCCAGGAAGAAG 57.810 50.000 0.00 0.00 29.33 2.85
2543 2567 2.553602 TCACGAAAGCATGCTGTTTCAT 59.446 40.909 23.48 8.03 33.07 2.57
2559 2583 0.396435 AGGAAACACAGGCATCACGA 59.604 50.000 0.00 0.00 0.00 4.35
2596 2620 1.129811 GCAGATTTTCCGTTACGTGGG 59.870 52.381 3.52 0.00 0.00 4.61
2683 2707 5.163663 CCACTGCAAAAGACACAACTAGAAA 60.164 40.000 0.00 0.00 0.00 2.52
2710 2734 1.419762 TGAACTTGCAGCCAGGTCTTA 59.580 47.619 12.58 0.00 30.09 2.10
2756 2780 0.947244 GCTGTTCTCCACAACCACAG 59.053 55.000 0.00 0.00 38.32 3.66
2775 2799 1.666888 GCAAAGCGTCCCTCATTGTTG 60.667 52.381 0.00 0.00 0.00 3.33
2807 2831 6.039159 GGAAGATTCCCTTTTATCTGCTTGAG 59.961 42.308 0.00 0.00 41.62 3.02
3001 3025 3.055719 CCGCTTGCGGTCAACCAT 61.056 61.111 24.03 0.00 35.14 3.55
3016 3040 0.667993 TCAGTTGCTTTTGCCTTCCG 59.332 50.000 0.00 0.00 46.87 4.30
3335 3360 2.158914 AGCGGTTGCATCACATGATCTA 60.159 45.455 0.00 0.00 46.23 1.98
3396 3421 7.101054 TCGGAGTGTACTTAGCAATGTATTTT 58.899 34.615 0.00 0.00 0.00 1.82
3508 3533 7.603404 TCTGAAGCAACAAAAATTCATTATGGG 59.397 33.333 0.00 0.00 31.69 4.00


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

AutoCloner maintained by Alex Coulton.