Multiple sequence alignment - TraesCS3B01G174300

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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 TraesCS3B01G174300 chr3B 100.000 3550 0 0 1 3550 175755295 175758844 0.000000e+00 6556.0
1 TraesCS3B01G174300 chr3A 93.049 2762 121 22 819 3550 130834545 130837265 0.000000e+00 3971.0
2 TraesCS3B01G174300 chr3D 93.939 1881 93 10 818 2693 123294747 123296611 0.000000e+00 2822.0
3 TraesCS3B01G174300 chr3D 94.193 861 25 7 2694 3550 123296660 123297499 0.000000e+00 1290.0
4 TraesCS3B01G174300 chr4D 80.858 862 90 33 1 809 489619451 489620290 3.030000e-170 608.0
5 TraesCS3B01G174300 chr4D 77.996 559 76 25 293 809 489464698 489465251 1.240000e-79 307.0
6 TraesCS3B01G174300 chr4D 94.545 55 3 0 1 55 489619382 489619436 6.310000e-13 86.1
7 TraesCS3B01G174300 chr4D 94.444 54 3 0 1 54 489448935 489448988 2.270000e-12 84.2
8 TraesCS3B01G174300 chr5B 85.606 528 57 10 1 522 18075925 18076439 1.450000e-148 536.0
9 TraesCS3B01G174300 chr5B 83.333 210 29 4 611 815 275180641 275180433 4.680000e-44 189.0
10 TraesCS3B01G174300 chr2D 74.919 614 95 39 238 812 477633897 477633304 3.570000e-55 226.0
11 TraesCS3B01G174300 chr2D 84.135 208 27 3 605 807 7293170 7293376 2.800000e-46 196.0
12 TraesCS3B01G174300 chr2D 77.135 363 62 15 474 817 610166060 610166420 1.300000e-44 191.0
13 TraesCS3B01G174300 chr2D 82.609 207 31 3 611 812 477641065 477641271 1.010000e-40 178.0
14 TraesCS3B01G174300 chr2A 74.566 633 100 41 209 812 123659409 123660009 1.660000e-53 220.0
15 TraesCS3B01G174300 chr6D 82.609 207 31 3 611 812 456312659 456312453 1.010000e-40 178.0


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 TraesCS3B01G174300 chr3B 175755295 175758844 3549 False 6556.00 6556 100.0000 1 3550 1 chr3B.!!$F1 3549
1 TraesCS3B01G174300 chr3A 130834545 130837265 2720 False 3971.00 3971 93.0490 819 3550 1 chr3A.!!$F1 2731
2 TraesCS3B01G174300 chr3D 123294747 123297499 2752 False 2056.00 2822 94.0660 818 3550 2 chr3D.!!$F1 2732
3 TraesCS3B01G174300 chr4D 489619382 489620290 908 False 347.05 608 87.7015 1 809 2 chr4D.!!$F3 808
4 TraesCS3B01G174300 chr4D 489464698 489465251 553 False 307.00 307 77.9960 293 809 1 chr4D.!!$F2 516
5 TraesCS3B01G174300 chr5B 18075925 18076439 514 False 536.00 536 85.6060 1 522 1 chr5B.!!$F1 521
6 TraesCS3B01G174300 chr2D 477633304 477633897 593 True 226.00 226 74.9190 238 812 1 chr2D.!!$R1 574
7 TraesCS3B01G174300 chr2A 123659409 123660009 600 False 220.00 220 74.5660 209 812 1 chr2A.!!$F1 603

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
415 526 0.387622 CGCCGTCGAAACTACCTGAA 60.388 55.0 0.0 0.0 38.1 3.02 F
1428 1607 0.456995 CCACGAACGGAGAGAAGAGC 60.457 60.0 0.0 0.0 0.0 4.09 F
1758 1945 0.321387 CATCCCCATCAGATCAGCCG 60.321 60.0 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1745 1932 0.873312 CACGTCCGGCTGATCTGATG 60.873 60.000 0.00 0.0 0.0 3.07 R
2314 2509 1.709147 AAATGGCGTGCGCTGAGATC 61.709 55.000 16.21 0.0 41.6 2.75 R
2896 3147 2.362077 ACATTGTTCAGGGAAAGCACAC 59.638 45.455 0.00 0.0 0.0 3.82 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
43 44 7.692908 AATTGGTTTCACATTTCAGTTAACG 57.307 32.000 0.00 0.00 0.00 3.18
95 165 3.050094 ACATACCCTAACCCTAATCCCCA 60.050 47.826 0.00 0.00 0.00 4.96
101 171 3.727391 CCTAACCCTAATCCCCAAATCCT 59.273 47.826 0.00 0.00 0.00 3.24
111 181 8.806146 CCTAATCCCCAAATCCTACAAATTATG 58.194 37.037 0.00 0.00 0.00 1.90
132 202 3.570550 TGGTCCCCAATTTCAGTTTTACG 59.429 43.478 0.00 0.00 0.00 3.18
139 209 4.261825 CCAATTTCAGTTTTACGGAGGCAA 60.262 41.667 0.00 0.00 0.00 4.52
158 234 5.236655 GCAAGAAGCAACTAACCCTAATC 57.763 43.478 0.00 0.00 44.79 1.75
159 235 4.096532 GCAAGAAGCAACTAACCCTAATCC 59.903 45.833 0.00 0.00 44.79 3.01
160 236 5.501156 CAAGAAGCAACTAACCCTAATCCT 58.499 41.667 0.00 0.00 0.00 3.24
161 237 6.650120 CAAGAAGCAACTAACCCTAATCCTA 58.350 40.000 0.00 0.00 0.00 2.94
162 238 6.886178 AGAAGCAACTAACCCTAATCCTAA 57.114 37.500 0.00 0.00 0.00 2.69
163 239 7.453141 AGAAGCAACTAACCCTAATCCTAAT 57.547 36.000 0.00 0.00 0.00 1.73
169 245 4.912133 ACTAACCCTAATCCTAATCCCCAC 59.088 45.833 0.00 0.00 0.00 4.61
172 248 4.500452 ACCCTAATCCTAATCCCCACTAC 58.500 47.826 0.00 0.00 0.00 2.73
175 251 4.911522 CCTAATCCTAATCCCCACTACCAA 59.088 45.833 0.00 0.00 0.00 3.67
192 268 6.094048 CACTACCAACTAACATTGAAGGGATG 59.906 42.308 0.00 0.00 0.00 3.51
213 289 8.695456 GGGATGTTTGACCAAATCTATAACAAT 58.305 33.333 0.00 0.00 31.93 2.71
268 350 2.401766 GCCGGCTCCATGTGTCAAG 61.402 63.158 22.15 0.00 0.00 3.02
289 371 2.092914 GTGATGGCTACTGCTAGGGTTT 60.093 50.000 0.00 0.00 39.59 3.27
317 399 2.509931 TAGCTGGGCCAGACGTACCT 62.510 60.000 37.07 23.59 32.44 3.08
351 433 2.107204 AGACTGTTGGCTCCATGAACTT 59.893 45.455 0.00 0.00 0.00 2.66
354 438 2.624838 CTGTTGGCTCCATGAACTTGTT 59.375 45.455 0.00 0.00 0.00 2.83
392 485 2.325166 CGGAGCTCGAGTAGTCGC 59.675 66.667 15.25 2.20 46.39 5.19
409 520 4.781959 CCGCCGCCGTCGAAACTA 62.782 66.667 0.00 0.00 38.10 2.24
415 526 0.387622 CGCCGTCGAAACTACCTGAA 60.388 55.000 0.00 0.00 38.10 3.02
423 534 0.955919 AAACTACCTGAAGCAGCGCC 60.956 55.000 2.29 0.00 0.00 6.53
439 550 3.382832 CCGCCCGAGTCTCCACTT 61.383 66.667 0.00 0.00 30.63 3.16
526 654 2.175621 CATCGCCGCAGAGATGCAA 61.176 57.895 0.48 0.00 36.22 4.08
527 655 1.450134 ATCGCCGCAGAGATGCAAA 60.450 52.632 0.00 0.00 34.41 3.68
531 659 1.078214 CCGCAGAGATGCAAAGGGA 60.078 57.895 0.00 0.00 34.41 4.20
532 660 0.465097 CCGCAGAGATGCAAAGGGAT 60.465 55.000 0.00 0.00 34.41 3.85
559 707 2.764547 CGAGGGGGAGGGAGGAAC 60.765 72.222 0.00 0.00 0.00 3.62
576 729 2.438411 GAACACGAGAGGAGAGGAGAA 58.562 52.381 0.00 0.00 0.00 2.87
579 732 0.746563 ACGAGAGGAGAGGAGAAGCG 60.747 60.000 0.00 0.00 0.00 4.68
580 733 1.444119 CGAGAGGAGAGGAGAAGCGG 61.444 65.000 0.00 0.00 0.00 5.52
619 787 4.175489 GTCCTAGTGAGCGCGCGA 62.175 66.667 37.18 14.24 0.00 5.87
641 813 2.586079 ATGCCGATTCGCCAGTCG 60.586 61.111 0.00 0.00 40.15 4.18
705 877 5.104374 CGTAGAAATACGAAGTTTAGCCCA 58.896 41.667 1.70 0.00 45.45 5.36
715 887 4.376146 GAAGTTTAGCCCAATTTGCAACA 58.624 39.130 0.00 0.00 0.00 3.33
717 889 2.453983 TTAGCCCAATTTGCAACAGC 57.546 45.000 0.00 0.00 0.00 4.40
719 891 0.760572 AGCCCAATTTGCAACAGCTT 59.239 45.000 0.00 0.00 0.00 3.74
736 908 1.269723 GCTTGCCTGAAACTTGGTACC 59.730 52.381 4.43 4.43 0.00 3.34
742 914 2.140717 CTGAAACTTGGTACCGACACC 58.859 52.381 7.57 0.00 39.20 4.16
753 925 4.928615 TGGTACCGACACCTAAAAATTACG 59.071 41.667 7.57 0.00 39.50 3.18
812 985 2.961522 ACCAACGTGCAATTAACTCG 57.038 45.000 0.00 0.00 0.00 4.18
813 986 2.485903 ACCAACGTGCAATTAACTCGA 58.514 42.857 8.54 0.00 0.00 4.04
814 987 3.071479 ACCAACGTGCAATTAACTCGAT 58.929 40.909 8.54 0.00 0.00 3.59
815 988 4.247258 ACCAACGTGCAATTAACTCGATA 58.753 39.130 8.54 0.00 0.00 2.92
816 989 4.873827 ACCAACGTGCAATTAACTCGATAT 59.126 37.500 8.54 0.00 0.00 1.63
832 1005 8.764524 AACTCGATATTATGAAAGGTATGCTC 57.235 34.615 0.00 0.00 0.00 4.26
858 1032 3.358111 TGATGGGCCAAATTTAGACGA 57.642 42.857 11.89 0.00 0.00 4.20
870 1044 0.673644 TTAGACGAAGGCTTGGCAGC 60.674 55.000 3.46 0.00 46.52 5.25
887 1061 1.955778 CAGCAGGAAATCACACCACAA 59.044 47.619 0.00 0.00 0.00 3.33
957 1131 3.572584 CAGCAAAAGCAACATCCTCTTC 58.427 45.455 0.00 0.00 0.00 2.87
958 1132 2.560105 AGCAAAAGCAACATCCTCTTCC 59.440 45.455 0.00 0.00 0.00 3.46
974 1148 2.832129 TCTTCCTCGCATACCTTCTGTT 59.168 45.455 0.00 0.00 0.00 3.16
1059 1234 1.333177 ACACCGAGGGATATCAGCTC 58.667 55.000 4.83 0.00 0.00 4.09
1062 1237 2.647356 CGAGGGATATCAGCTCGGT 58.353 57.895 4.83 0.00 34.39 4.69
1322 1501 1.399727 CGTCTGCAACGTGGGAATTTC 60.400 52.381 11.62 0.00 46.42 2.17
1424 1603 0.538977 AGGACCACGAACGGAGAGAA 60.539 55.000 0.00 0.00 0.00 2.87
1428 1607 0.456995 CCACGAACGGAGAGAAGAGC 60.457 60.000 0.00 0.00 0.00 4.09
1429 1608 0.456995 CACGAACGGAGAGAAGAGCC 60.457 60.000 0.00 0.00 0.00 4.70
1430 1609 1.139947 CGAACGGAGAGAAGAGCCC 59.860 63.158 0.00 0.00 0.00 5.19
1501 1680 2.167918 GCACAACGAAGACGCGAC 59.832 61.111 15.93 6.86 43.96 5.19
1504 1683 4.117372 CAACGAAGACGCGACCGC 62.117 66.667 15.93 4.06 43.96 5.68
1562 1749 0.522915 GTTCTCCGTGTCCGATCGAC 60.523 60.000 18.66 13.23 42.33 4.20
1740 1927 2.256391 CGTGTACTGTACGTCCCCA 58.744 57.895 12.87 0.00 36.83 4.96
1741 1928 0.813184 CGTGTACTGTACGTCCCCAT 59.187 55.000 12.87 0.00 36.83 4.00
1742 1929 1.202222 CGTGTACTGTACGTCCCCATC 60.202 57.143 12.87 0.00 36.83 3.51
1743 1930 1.135721 GTGTACTGTACGTCCCCATCC 59.864 57.143 12.87 0.00 0.00 3.51
1744 1931 0.749049 GTACTGTACGTCCCCATCCC 59.251 60.000 1.67 0.00 0.00 3.85
1745 1932 0.397535 TACTGTACGTCCCCATCCCC 60.398 60.000 0.00 0.00 0.00 4.81
1758 1945 0.321387 CATCCCCATCAGATCAGCCG 60.321 60.000 0.00 0.00 0.00 5.52
1764 1951 0.873312 CATCAGATCAGCCGGACGTG 60.873 60.000 5.05 0.00 0.00 4.49
1911 2106 3.074999 GCTGGAGGCGAGAGACCTG 62.075 68.421 0.00 0.00 43.69 4.00
1989 2184 2.362503 ATGGACGTCAGAGCCCGA 60.363 61.111 18.91 0.00 0.00 5.14
2079 2274 1.735198 CCACGCGAACATGTACCGT 60.735 57.895 15.93 14.67 0.00 4.83
2118 2313 3.639094 AGGTAGACATGATCAGTACAGCC 59.361 47.826 0.00 0.00 0.00 4.85
2134 2329 0.475906 AGCCCAACAAGCTCTTCACT 59.524 50.000 0.00 0.00 34.91 3.41
2157 2352 4.237724 TCAGTGAGCGATGAGTAAACTTG 58.762 43.478 0.00 0.00 0.00 3.16
2298 2493 2.125793 GCCGACGACAAGTACCCC 60.126 66.667 0.00 0.00 0.00 4.95
2314 2509 3.652057 ACCCCATCTTTATGACAGGTG 57.348 47.619 0.00 0.00 34.84 4.00
2417 2613 2.044758 ACCGGTGACTACTTTTCAGGT 58.955 47.619 6.12 0.00 0.00 4.00
2533 2729 3.304391 CGAGTAGCTCTTCCTATGCTGTC 60.304 52.174 0.00 0.00 37.62 3.51
2570 2766 2.012902 TTAGCTTAGTCCTCGCCGCC 62.013 60.000 0.00 0.00 0.00 6.13
2581 2777 3.124921 CGCCGCCGAGAAATTGGT 61.125 61.111 0.00 0.00 36.29 3.67
2659 2855 7.592938 TCAGATTTTTGGATGTTGTCACATAC 58.407 34.615 0.00 0.00 44.22 2.39
2660 2856 7.448161 TCAGATTTTTGGATGTTGTCACATACT 59.552 33.333 0.00 0.00 44.01 2.12
2661 2857 8.729756 CAGATTTTTGGATGTTGTCACATACTA 58.270 33.333 0.00 0.00 44.01 1.82
2667 2863 6.863275 TGGATGTTGTCACATACTAGTAGTG 58.137 40.000 13.29 18.72 44.01 2.74
2832 3083 4.765273 TGTGCTAGACTGAAACAGTTCAA 58.235 39.130 5.88 0.00 45.44 2.69
2895 3146 4.335315 GTGACTGTTGAACAAATCAGTGGA 59.665 41.667 11.05 1.39 40.53 4.02
2896 3147 4.576053 TGACTGTTGAACAAATCAGTGGAG 59.424 41.667 12.98 0.00 40.53 3.86
2897 3148 4.526970 ACTGTTGAACAAATCAGTGGAGT 58.473 39.130 0.00 0.00 39.77 3.85
2898 3149 4.336433 ACTGTTGAACAAATCAGTGGAGTG 59.664 41.667 0.00 0.00 39.77 3.51
3030 3284 5.859205 AAAAATGCTCTTTGGACTTGAGT 57.141 34.783 0.00 0.00 0.00 3.41
3034 3288 6.959639 AATGCTCTTTGGACTTGAGTTTTA 57.040 33.333 0.00 0.00 0.00 1.52
3169 3423 8.553153 TCCCATATCAACAGTAAATTTCCTGTA 58.447 33.333 15.81 3.18 40.91 2.74
3182 3436 7.454260 AAATTTCCTGTAGACAATCAAGACC 57.546 36.000 0.00 0.00 0.00 3.85
3323 3577 8.749499 GCATTTTGCAAGTAAATGATGTATCTC 58.251 33.333 21.14 2.86 44.26 2.75
3533 3787 3.572255 TCAAGTTTCCTACAAATGTGGCC 59.428 43.478 0.00 0.00 0.00 5.36
3534 3788 3.525800 AGTTTCCTACAAATGTGGCCT 57.474 42.857 3.32 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
132 202 1.813178 GGTTAGTTGCTTCTTGCCTCC 59.187 52.381 0.00 0.00 42.00 4.30
139 209 6.886178 TTAGGATTAGGGTTAGTTGCTTCT 57.114 37.500 0.00 0.00 0.00 2.85
158 234 4.472108 TGTTAGTTGGTAGTGGGGATTAGG 59.528 45.833 0.00 0.00 0.00 2.69
159 235 5.687166 TGTTAGTTGGTAGTGGGGATTAG 57.313 43.478 0.00 0.00 0.00 1.73
160 236 6.215841 TCAATGTTAGTTGGTAGTGGGGATTA 59.784 38.462 0.00 0.00 0.00 1.75
161 237 5.014755 TCAATGTTAGTTGGTAGTGGGGATT 59.985 40.000 0.00 0.00 0.00 3.01
162 238 4.538490 TCAATGTTAGTTGGTAGTGGGGAT 59.462 41.667 0.00 0.00 0.00 3.85
163 239 3.911260 TCAATGTTAGTTGGTAGTGGGGA 59.089 43.478 0.00 0.00 0.00 4.81
169 245 6.180472 ACATCCCTTCAATGTTAGTTGGTAG 58.820 40.000 0.00 0.00 33.62 3.18
172 248 5.982890 AACATCCCTTCAATGTTAGTTGG 57.017 39.130 0.00 0.00 43.64 3.77
175 251 5.476945 GGTCAAACATCCCTTCAATGTTAGT 59.523 40.000 2.24 0.00 44.44 2.24
213 289 9.799106 AAGAATTTCATCTGTTTTCCTTCTCTA 57.201 29.630 0.00 0.00 0.00 2.43
268 350 1.123928 ACCCTAGCAGTAGCCATCAC 58.876 55.000 0.00 0.00 43.56 3.06
317 399 1.196766 ACAGTCTCCATGGAGCAGCA 61.197 55.000 33.39 16.24 41.71 4.41
351 433 2.183858 CTCCAGCGACGACGAGAACA 62.184 60.000 12.29 0.00 42.66 3.18
354 438 1.079612 TACTCCAGCGACGACGAGA 60.080 57.895 12.29 3.31 42.66 4.04
392 485 4.781959 TAGTTTCGACGGCGGCGG 62.782 66.667 36.48 17.12 38.28 6.13
400 493 1.727335 GCTGCTTCAGGTAGTTTCGAC 59.273 52.381 0.00 0.00 31.21 4.20
405 498 1.376037 GGCGCTGCTTCAGGTAGTT 60.376 57.895 7.64 0.00 31.21 2.24
406 499 2.266055 GGCGCTGCTTCAGGTAGT 59.734 61.111 7.64 0.00 31.21 2.73
407 500 2.887568 CGGCGCTGCTTCAGGTAG 60.888 66.667 7.64 0.00 31.21 3.18
423 534 1.004918 AAAAGTGGAGACTCGGGCG 60.005 57.895 0.00 0.00 0.00 6.13
431 542 2.345991 CGGCGGGAAAAGTGGAGA 59.654 61.111 0.00 0.00 0.00 3.71
432 543 3.431725 GCGGCGGGAAAAGTGGAG 61.432 66.667 9.78 0.00 0.00 3.86
435 546 1.714899 CTATGGCGGCGGGAAAAGTG 61.715 60.000 9.78 0.00 0.00 3.16
439 550 4.868116 GGCTATGGCGGCGGGAAA 62.868 66.667 9.78 0.00 39.81 3.13
451 562 4.489771 AGCGGCGGCAAAGGCTAT 62.490 61.111 19.21 0.00 43.41 2.97
516 638 2.054232 AGCATCCCTTTGCATCTCTG 57.946 50.000 0.00 0.00 45.23 3.35
526 654 1.123928 CTCGAACCCTAGCATCCCTT 58.876 55.000 0.00 0.00 0.00 3.95
527 655 0.760945 CCTCGAACCCTAGCATCCCT 60.761 60.000 0.00 0.00 0.00 4.20
531 659 1.766461 CCCCCTCGAACCCTAGCAT 60.766 63.158 0.00 0.00 0.00 3.79
532 660 2.365105 CCCCCTCGAACCCTAGCA 60.365 66.667 0.00 0.00 0.00 3.49
559 707 0.738389 GCTTCTCCTCTCCTCTCGTG 59.262 60.000 0.00 0.00 0.00 4.35
601 754 4.476410 CGCGCGCTCACTAGGACA 62.476 66.667 30.48 0.00 0.00 4.02
715 887 2.230660 GTACCAAGTTTCAGGCAAGCT 58.769 47.619 0.00 0.00 0.00 3.74
717 889 1.535462 CGGTACCAAGTTTCAGGCAAG 59.465 52.381 13.54 0.00 0.00 4.01
719 891 0.759959 TCGGTACCAAGTTTCAGGCA 59.240 50.000 13.54 0.00 0.00 4.75
723 895 1.764134 AGGTGTCGGTACCAAGTTTCA 59.236 47.619 13.54 0.00 43.37 2.69
736 908 6.575942 CCAGTTTTCGTAATTTTTAGGTGTCG 59.424 38.462 0.00 0.00 0.00 4.35
753 925 5.342259 GTGTTGCGAATTGATACCAGTTTTC 59.658 40.000 0.00 0.00 0.00 2.29
812 985 7.324178 AGGTCGAGCATACCTTTCATAATATC 58.676 38.462 18.15 0.00 45.26 1.63
813 986 7.246171 AGGTCGAGCATACCTTTCATAATAT 57.754 36.000 18.15 0.00 45.26 1.28
814 987 6.665992 AGGTCGAGCATACCTTTCATAATA 57.334 37.500 18.15 0.00 45.26 0.98
815 988 5.552870 AGGTCGAGCATACCTTTCATAAT 57.447 39.130 18.15 0.00 45.26 1.28
832 1005 1.185315 AATTTGGCCCATCAAGGTCG 58.815 50.000 0.00 0.00 32.60 4.79
870 1044 2.217750 TCGTTGTGGTGTGATTTCCTG 58.782 47.619 0.00 0.00 0.00 3.86
910 1084 7.088589 TGCCTTATCTTCAAATAGCTGTTTC 57.911 36.000 5.34 0.00 0.00 2.78
957 1131 1.009829 GCAACAGAAGGTATGCGAGG 58.990 55.000 0.00 0.00 0.00 4.63
1040 1215 1.333177 GAGCTGATATCCCTCGGTGT 58.667 55.000 0.00 0.00 0.00 4.16
1047 1222 0.523966 CGAGACCGAGCTGATATCCC 59.476 60.000 0.00 0.00 38.22 3.85
1080 1255 0.452184 TCCTGATCGTCTCGCTGAAC 59.548 55.000 0.00 0.00 0.00 3.18
1260 1435 3.838903 AGGAGAATTTTACGTGGAGGAGT 59.161 43.478 0.00 0.00 0.00 3.85
1266 1441 6.743575 AATGAGAAGGAGAATTTTACGTGG 57.256 37.500 0.00 0.00 0.00 4.94
1318 1497 5.415701 ACATTCAGTAATGCTCAACGGAAAT 59.584 36.000 0.00 0.00 45.41 2.17
1322 1501 3.436704 ACACATTCAGTAATGCTCAACGG 59.563 43.478 0.00 0.00 45.41 4.44
1424 1603 3.432588 CAGTCGTCGTCGGGCTCT 61.433 66.667 1.55 0.00 37.69 4.09
1428 1607 4.477975 GGAGCAGTCGTCGTCGGG 62.478 72.222 1.55 0.00 37.69 5.14
1429 1608 4.813526 CGGAGCAGTCGTCGTCGG 62.814 72.222 1.55 0.00 37.69 4.79
1430 1609 3.785499 TCGGAGCAGTCGTCGTCG 61.785 66.667 0.00 0.00 38.55 5.12
1562 1749 4.156622 CAGCTGTGCATGCGACGG 62.157 66.667 14.09 17.11 35.28 4.79
1645 1832 1.063492 TGTAGGCGGTGAAGGAGGATA 60.063 52.381 0.00 0.00 0.00 2.59
1740 1927 1.486997 CCGGCTGATCTGATGGGGAT 61.487 60.000 3.42 0.00 0.00 3.85
1741 1928 2.142761 CCGGCTGATCTGATGGGGA 61.143 63.158 3.42 0.00 0.00 4.81
1742 1929 2.142761 TCCGGCTGATCTGATGGGG 61.143 63.158 0.00 0.00 0.00 4.96
1743 1930 1.070445 GTCCGGCTGATCTGATGGG 59.930 63.158 0.00 1.22 0.00 4.00
1744 1931 1.300465 CGTCCGGCTGATCTGATGG 60.300 63.158 0.00 4.19 0.00 3.51
1745 1932 0.873312 CACGTCCGGCTGATCTGATG 60.873 60.000 0.00 0.00 0.00 3.07
1764 1951 3.106407 GTGACAGTCCAGTCGCGC 61.106 66.667 0.00 0.00 41.41 6.86
2118 2313 3.209410 ACTGAAGTGAAGAGCTTGTTGG 58.791 45.455 0.00 0.00 0.00 3.77
2134 2329 4.521130 AGTTTACTCATCGCTCACTGAA 57.479 40.909 0.00 0.00 0.00 3.02
2157 2352 2.400798 CATCCACGCGACACATGC 59.599 61.111 15.93 0.00 0.00 4.06
2278 2473 3.177249 GTACTTGTCGTCGGCCGC 61.177 66.667 23.51 15.21 36.19 6.53
2298 2493 5.466058 GCTGAGATCACCTGTCATAAAGATG 59.534 44.000 0.00 0.00 0.00 2.90
2314 2509 1.709147 AAATGGCGTGCGCTGAGATC 61.709 55.000 16.21 0.00 41.60 2.75
2417 2613 3.634910 TGCATAGAGTATACAGCGTTGGA 59.365 43.478 5.50 0.00 0.00 3.53
2570 2766 4.408182 AGGGATACTGACCAATTTCTCG 57.592 45.455 0.00 0.00 0.00 4.04
2581 2777 7.526142 CTACTGTAGCAATTAGGGATACTGA 57.474 40.000 1.26 0.00 32.60 3.41
2606 2802 9.655769 CCGATCTTTTGAATTACAATCATAGTG 57.344 33.333 0.00 0.00 38.36 2.74
2630 2826 4.870363 ACAACATCCAAAAATCTGAACCG 58.130 39.130 0.00 0.00 0.00 4.44
2667 2863 8.706035 GGCAAAAATGATCATGCTCAATTATAC 58.294 33.333 16.39 0.00 38.79 1.47
2832 3083 3.071602 ACAGAAAGTCTATGGCACTGTGT 59.928 43.478 9.86 0.00 36.11 3.72
2895 3146 2.435372 TTGTTCAGGGAAAGCACACT 57.565 45.000 0.00 0.00 0.00 3.55
2896 3147 2.362077 ACATTGTTCAGGGAAAGCACAC 59.638 45.455 0.00 0.00 0.00 3.82
2897 3148 2.665165 ACATTGTTCAGGGAAAGCACA 58.335 42.857 0.00 0.00 0.00 4.57
2898 3149 3.733443 AACATTGTTCAGGGAAAGCAC 57.267 42.857 0.00 0.00 0.00 4.40
3030 3284 3.067601 TGAGACTCAGAGCACGTGTAAAA 59.932 43.478 18.38 0.00 0.00 1.52
3034 3288 2.720659 TGAGACTCAGAGCACGTGT 58.279 52.632 18.38 3.69 0.00 4.49
3169 3423 3.777106 TGCTGAAGGTCTTGATTGTCT 57.223 42.857 0.00 0.00 0.00 3.41
3172 3426 5.821470 ACTGATATGCTGAAGGTCTTGATTG 59.179 40.000 0.00 0.00 0.00 2.67
3323 3577 3.342719 TGGTACATAACAGGTGTGCATG 58.657 45.455 0.00 0.00 34.42 4.06
3471 3725 4.082625 TCCTGCACAATTTATGCTCAACAG 60.083 41.667 11.69 2.20 43.77 3.16
3477 3731 5.797051 ACAAATTCCTGCACAATTTATGCT 58.203 33.333 11.69 0.00 43.77 3.79


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

AutoCloner maintained by Alex Coulton.