Multiple sequence alignment - TraesCS3B01G270500

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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 TraesCS3B01G270500 chr3B 100.000 4158 0 0 1 4158 435961913 435957756 0.000000e+00 7679.0
1 TraesCS3B01G270500 chr3B 89.922 129 11 2 2354 2481 413419083 413419210 9.250000e-37 165.0
2 TraesCS3B01G270500 chr3B 84.746 59 7 2 2658 2715 597089662 597089719 1.610000e-04 58.4
3 TraesCS3B01G270500 chr3D 93.385 4263 117 63 10 4158 337976998 337972787 0.000000e+00 6157.0
4 TraesCS3B01G270500 chr3D 88.372 129 13 2 2354 2481 308057873 308057746 2.000000e-33 154.0
5 TraesCS3B01G270500 chr3D 84.746 59 7 2 2658 2715 454510142 454510199 1.610000e-04 58.4
6 TraesCS3B01G270500 chr3A 92.760 2790 101 33 1431 4158 455804711 455801961 0.000000e+00 3940.0
7 TraesCS3B01G270500 chr3A 89.520 916 24 19 10 889 455806427 455805548 0.000000e+00 1094.0
8 TraesCS3B01G270500 chr3A 97.186 462 12 1 965 1426 455805233 455804773 0.000000e+00 780.0
9 TraesCS3B01G270500 chr3A 89.922 129 11 2 2354 2481 427333265 427333138 9.250000e-37 165.0
10 TraesCS3B01G270500 chr3A 86.441 59 6 2 2658 2715 596515549 596515606 3.470000e-06 63.9
11 TraesCS3B01G270500 chr1D 90.184 163 16 0 2605 2767 471001907 471002069 3.260000e-51 213.0
12 TraesCS3B01G270500 chr1D 89.781 137 12 2 2345 2480 471001666 471001801 1.540000e-39 174.0
13 TraesCS3B01G270500 chr1A 90.062 161 16 0 2607 2767 565294203 565294363 4.210000e-50 209.0
14 TraesCS3B01G270500 chr1A 91.275 149 9 4 2333 2480 565293956 565294101 2.540000e-47 200.0
15 TraesCS3B01G270500 chr1B 89.091 165 18 0 2607 2771 654716514 654716678 5.450000e-49 206.0
16 TraesCS3B01G270500 chr1B 92.701 137 8 2 2345 2480 654716318 654716453 3.280000e-46 196.0
17 TraesCS3B01G270500 chr1B 85.612 139 14 6 2345 2480 669710471 669710336 1.560000e-29 141.0
18 TraesCS3B01G270500 chr2D 100.000 28 0 0 2688 2715 425216036 425216009 8.000000e-03 52.8


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 TraesCS3B01G270500 chr3B 435957756 435961913 4157 True 7679 7679 100.000000 1 4158 1 chr3B.!!$R1 4157
1 TraesCS3B01G270500 chr3D 337972787 337976998 4211 True 6157 6157 93.385000 10 4158 1 chr3D.!!$R2 4148
2 TraesCS3B01G270500 chr3A 455801961 455806427 4466 True 1938 3940 93.155333 10 4158 3 chr3A.!!$R2 4148

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
913 976 0.565674 GATCCCTCTCCTCCTCCCTT 59.434 60.000 0.0 0.0 0.00 3.95 F
977 1294 1.068753 CTATCTCCCACAGGCAGCG 59.931 63.158 0.0 0.0 0.00 5.18 F
2106 2498 0.533308 TAGACCACGCCAACAACCAC 60.533 55.000 0.0 0.0 0.00 4.16 F
2267 2659 0.878961 ATACGATTCCGCCGCTTTCC 60.879 55.000 0.0 0.0 39.95 3.13 F
3001 3406 1.521681 AATAAGGAGCGTGGCGAGC 60.522 57.895 0.0 0.0 0.00 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2106 2498 0.098728 GGATCCCGTTCAAACATGCG 59.901 55.000 0.0 0.0 0.0 4.73 R
2380 2775 0.674581 CGCTCTTGGTCATGAAGGCA 60.675 55.000 0.0 0.0 0.0 4.75 R
3019 3424 0.187117 TCTGGAGCGATGGAGGAGAT 59.813 55.000 0.0 0.0 0.0 2.75 R
3119 3524 0.678048 GGTGATGAGGGCTGGTTGTC 60.678 60.000 0.0 0.0 0.0 3.18 R
4045 4500 2.888414 ACCACGGTTGAATTAGGTTTGG 59.112 45.455 0.0 0.0 0.0 3.28 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
88 101 2.290260 TGCACTGTCTCCGAATGGAAAT 60.290 45.455 0.00 0.00 45.87 2.17
441 473 7.853929 CCATTACATTACAAATTACGGTGCTAC 59.146 37.037 0.00 0.00 0.00 3.58
457 489 8.316640 ACGGTGCTACTATTACTATACTGTAC 57.683 38.462 0.00 0.00 0.00 2.90
458 490 8.153550 ACGGTGCTACTATTACTATACTGTACT 58.846 37.037 0.00 0.00 0.00 2.73
459 491 8.655092 CGGTGCTACTATTACTATACTGTACTC 58.345 40.741 0.00 0.00 0.00 2.59
460 492 8.945057 GGTGCTACTATTACTATACTGTACTCC 58.055 40.741 0.00 0.00 0.00 3.85
461 493 9.499479 GTGCTACTATTACTATACTGTACTCCA 57.501 37.037 0.00 0.00 0.00 3.86
565 600 2.237392 CGAGAGGAAGAAACCAAGGGAT 59.763 50.000 0.00 0.00 0.00 3.85
613 648 9.896645 GACATCTATCTCATCTATCTCTTCTCT 57.103 37.037 0.00 0.00 0.00 3.10
672 707 3.599730 AAGCTAGCCAAAAAGCCAATC 57.400 42.857 12.13 0.00 39.64 2.67
784 843 2.542907 CGCTCCCTCTCGCTCTCTC 61.543 68.421 0.00 0.00 0.00 3.20
787 846 2.826287 CCCTCTCGCTCTCTCGCA 60.826 66.667 0.00 0.00 0.00 5.10
788 847 2.715005 CCTCTCGCTCTCTCGCAG 59.285 66.667 0.00 0.00 0.00 5.18
874 937 2.244252 CACCACTACTAGTACCTCCCCT 59.756 54.545 0.00 0.00 0.00 4.79
913 976 0.565674 GATCCCTCTCCTCCTCCCTT 59.434 60.000 0.00 0.00 0.00 3.95
928 1228 1.631388 TCCCTTCCGTTTCATAAGCCA 59.369 47.619 0.00 0.00 0.00 4.75
929 1229 1.743394 CCCTTCCGTTTCATAAGCCAC 59.257 52.381 0.00 0.00 0.00 5.01
931 1231 2.618045 CCTTCCGTTTCATAAGCCACCT 60.618 50.000 0.00 0.00 0.00 4.00
938 1251 3.634397 TTCATAAGCCACCTCCAAGAG 57.366 47.619 0.00 0.00 0.00 2.85
939 1252 2.551270 TCATAAGCCACCTCCAAGAGT 58.449 47.619 0.00 0.00 0.00 3.24
952 1265 4.261405 CCTCCAAGAGTAATCGAGCTACTG 60.261 50.000 13.22 2.67 29.62 2.74
977 1294 1.068753 CTATCTCCCACAGGCAGCG 59.931 63.158 0.00 0.00 0.00 5.18
978 1295 2.374830 CTATCTCCCACAGGCAGCGG 62.375 65.000 0.00 0.00 0.00 5.52
1131 1448 1.226888 GACGCCCATGGACTACGAC 60.227 63.158 15.22 8.12 0.00 4.34
1232 1552 4.087892 CGCCCTCACTCCCAGTGG 62.088 72.222 0.63 0.63 45.94 4.00
1423 1743 5.415701 TGAGTTGGACTGCATTAATTTCTCC 59.584 40.000 0.00 0.00 0.00 3.71
1426 1746 4.934356 TGGACTGCATTAATTTCTCCCTT 58.066 39.130 0.00 0.00 0.00 3.95
1427 1747 4.706476 TGGACTGCATTAATTTCTCCCTTG 59.294 41.667 0.00 0.00 0.00 3.61
1428 1748 4.098501 GGACTGCATTAATTTCTCCCTTGG 59.901 45.833 0.00 0.00 0.00 3.61
1440 1817 4.453480 TCTCCCTTGGTTGTGATTTTCT 57.547 40.909 0.00 0.00 0.00 2.52
1519 1896 1.477014 GCCTAATCTGGTTACCTGCCC 60.477 57.143 2.07 0.00 0.00 5.36
1538 1915 4.534500 TGCCCCTAGTTCTTTTCTGTGATA 59.466 41.667 0.00 0.00 0.00 2.15
1542 1919 7.226918 GCCCCTAGTTCTTTTCTGTGATAATAC 59.773 40.741 0.00 0.00 0.00 1.89
1715 2092 2.749044 ACCGAGCTTGCATGCCTG 60.749 61.111 19.99 12.78 0.00 4.85
1737 2114 6.151648 CCTGAGCCTGACAATCAAGAATAAAA 59.848 38.462 0.00 0.00 0.00 1.52
1797 2180 7.663081 TGAACTCTTGATTACTTGCTTCATCTT 59.337 33.333 0.00 0.00 0.00 2.40
1807 2190 9.852091 ATTACTTGCTTCATCTTCAAAATCTTC 57.148 29.630 0.00 0.00 0.00 2.87
1963 2354 2.175499 CCCCCATCTAGGATTTGCTCAA 59.825 50.000 0.00 0.00 41.22 3.02
2065 2456 2.375174 AGGCACAATGTGAACCTCCTAA 59.625 45.455 18.66 0.00 35.23 2.69
2106 2498 0.533308 TAGACCACGCCAACAACCAC 60.533 55.000 0.00 0.00 0.00 4.16
2203 2595 7.176865 CGAAATCTCTATCCACCACTAGGATTA 59.823 40.741 0.00 0.00 43.21 1.75
2204 2596 8.429237 AAATCTCTATCCACCACTAGGATTAG 57.571 38.462 0.00 0.00 43.21 1.73
2205 2597 5.893500 TCTCTATCCACCACTAGGATTAGG 58.106 45.833 0.00 0.00 43.21 2.69
2206 2598 5.615692 TCTCTATCCACCACTAGGATTAGGA 59.384 44.000 0.00 0.00 43.21 2.94
2207 2599 6.278239 TCTCTATCCACCACTAGGATTAGGAT 59.722 42.308 0.00 9.80 43.21 3.24
2208 2600 6.875469 TCTATCCACCACTAGGATTAGGATT 58.125 40.000 10.07 0.00 43.21 3.01
2209 2601 7.313731 TCTATCCACCACTAGGATTAGGATTT 58.686 38.462 10.07 0.00 43.21 2.17
2267 2659 0.878961 ATACGATTCCGCCGCTTTCC 60.879 55.000 0.00 0.00 39.95 3.13
2271 2663 3.379865 ATTCCGCCGCTTTCCGCTA 62.380 57.895 0.00 0.00 36.13 4.26
2297 2689 1.869574 CTCATCTCACCGACGCGTG 60.870 63.158 20.70 5.54 34.93 5.34
2303 2695 3.238241 CACCGACGCGTGATCGAC 61.238 66.667 20.70 0.00 42.25 4.20
2318 2710 4.932200 GTGATCGACATCTTTTCAGGTCTT 59.068 41.667 0.00 0.00 0.00 3.01
2547 2952 3.304659 GCATGGGCGATTTTGGTATGTAG 60.305 47.826 0.00 0.00 0.00 2.74
2570 2975 4.499357 GCTAGGGACGAAGAACGATTATGT 60.499 45.833 0.00 0.00 45.77 2.29
2571 2976 5.278169 GCTAGGGACGAAGAACGATTATGTA 60.278 44.000 0.00 0.00 45.77 2.29
2572 2977 5.786264 AGGGACGAAGAACGATTATGTAT 57.214 39.130 0.00 0.00 45.77 2.29
2579 2984 8.867112 ACGAAGAACGATTATGTATTATGTGT 57.133 30.769 0.00 0.00 45.77 3.72
2989 3394 3.386543 CCTGACCGGCTCAATAAGG 57.613 57.895 0.00 0.00 0.00 2.69
3001 3406 1.521681 AATAAGGAGCGTGGCGAGC 60.522 57.895 0.00 0.00 0.00 5.03
3002 3407 3.774959 ATAAGGAGCGTGGCGAGCG 62.775 63.158 0.00 0.00 40.04 5.03
3028 3433 2.060383 CACCGCCTCATCTCCTCCA 61.060 63.158 0.00 0.00 0.00 3.86
3249 3657 8.243426 CCAATCGATCTTGTTTTTCCTTGATTA 58.757 33.333 0.00 0.00 0.00 1.75
3651 4086 5.685954 GCAAGAAGATCGATGTACAACGATA 59.314 40.000 32.51 13.96 46.71 2.92
3663 4098 5.526115 TGTACAACGATATTGGCTAGCTAC 58.474 41.667 15.72 5.13 0.00 3.58
3664 4099 4.939052 ACAACGATATTGGCTAGCTACT 57.061 40.909 15.72 5.30 0.00 2.57
3665 4100 4.872664 ACAACGATATTGGCTAGCTACTC 58.127 43.478 15.72 4.67 0.00 2.59
3666 4101 4.238514 CAACGATATTGGCTAGCTACTCC 58.761 47.826 15.72 0.00 0.00 3.85
3667 4102 2.488545 ACGATATTGGCTAGCTACTCCG 59.511 50.000 15.72 12.17 0.00 4.63
3668 4103 2.488545 CGATATTGGCTAGCTACTCCGT 59.511 50.000 15.72 0.00 0.00 4.69
3669 4104 3.670895 CGATATTGGCTAGCTACTCCGTG 60.671 52.174 15.72 0.00 0.00 4.94
3670 4105 1.486211 ATTGGCTAGCTACTCCGTGT 58.514 50.000 15.72 0.00 0.00 4.49
3671 4106 2.133281 TTGGCTAGCTACTCCGTGTA 57.867 50.000 15.72 0.00 0.00 2.90
3730 4168 5.824097 GGTTGGTACAAAGAGTTGTTAAGGA 59.176 40.000 0.00 0.00 46.01 3.36
3774 4212 2.800629 GCTGCTTGCTTCTTTCTTGCAA 60.801 45.455 0.00 0.00 43.25 4.08
3982 4432 0.981183 TTACGGTCCATGTCTGCCTT 59.019 50.000 0.00 0.00 0.00 4.35
4041 4496 8.100508 TGATCCATCGATCTAATATATCGGTC 57.899 38.462 7.94 1.89 44.61 4.79
4045 4500 7.117956 TCCATCGATCTAATATATCGGTCGATC 59.882 40.741 21.11 11.73 43.08 3.69
4046 4501 6.782298 TCGATCTAATATATCGGTCGATCC 57.218 41.667 9.25 0.00 44.88 3.36
4047 4502 6.285990 TCGATCTAATATATCGGTCGATCCA 58.714 40.000 9.25 0.00 44.88 3.41
4060 4519 4.201783 CGGTCGATCCAAACCTAATTCAAC 60.202 45.833 0.00 0.00 35.57 3.18
4081 4540 4.409187 ACCGTGGTTAATTTGGGTGTTAT 58.591 39.130 0.00 0.00 0.00 1.89
4082 4541 5.568392 ACCGTGGTTAATTTGGGTGTTATA 58.432 37.500 0.00 0.00 0.00 0.98
4085 4544 6.807720 CCGTGGTTAATTTGGGTGTTATAAAC 59.192 38.462 0.00 0.00 0.00 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.195185 GCCATTTCCATTTCCATTTCCATT 58.805 37.500 0.00 0.00 0.00 3.16
1 2 4.683942 CGCCATTTCCATTTCCATTTCCAT 60.684 41.667 0.00 0.00 0.00 3.41
2 3 3.369261 CGCCATTTCCATTTCCATTTCCA 60.369 43.478 0.00 0.00 0.00 3.53
3 4 3.118811 TCGCCATTTCCATTTCCATTTCC 60.119 43.478 0.00 0.00 0.00 3.13
4 5 4.122143 TCGCCATTTCCATTTCCATTTC 57.878 40.909 0.00 0.00 0.00 2.17
5 6 4.696455 GATCGCCATTTCCATTTCCATTT 58.304 39.130 0.00 0.00 0.00 2.32
6 7 3.243501 CGATCGCCATTTCCATTTCCATT 60.244 43.478 0.26 0.00 0.00 3.16
7 8 2.294233 CGATCGCCATTTCCATTTCCAT 59.706 45.455 0.26 0.00 0.00 3.41
8 9 1.675483 CGATCGCCATTTCCATTTCCA 59.325 47.619 0.26 0.00 0.00 3.53
72 85 1.681780 GGCCATTTCCATTCGGAGACA 60.682 52.381 0.00 0.00 44.10 3.41
102 115 4.335647 CGGGGTCAAGCTGGCAGT 62.336 66.667 17.16 0.00 0.00 4.40
413 445 6.470877 GCACCGTAATTTGTAATGTAATGGTG 59.529 38.462 6.47 6.47 43.59 4.17
561 596 1.874299 TTGGCCTCTTCCCCAATCCC 61.874 60.000 3.32 0.00 36.25 3.85
565 600 1.071314 TTCCTTGGCCTCTTCCCCAA 61.071 55.000 3.32 0.00 38.71 4.12
613 648 3.618507 CGCTAATTGATTGGGCCCAAAAA 60.619 43.478 40.00 33.45 39.55 1.94
684 721 4.777854 GGATGGTTGGGTGGGGGC 62.778 72.222 0.00 0.00 0.00 5.80
784 843 0.941463 GAGAGGTGTGTGTGTCTGCG 60.941 60.000 0.00 0.00 0.00 5.18
787 846 1.109920 AGCGAGAGGTGTGTGTGTCT 61.110 55.000 0.00 0.00 42.35 3.41
788 847 1.364171 AGCGAGAGGTGTGTGTGTC 59.636 57.895 0.00 0.00 42.35 3.67
874 937 3.230976 TCGAGAGGGAAGCAAGCATATA 58.769 45.455 0.00 0.00 0.00 0.86
913 976 1.065709 GGAGGTGGCTTATGAAACGGA 60.066 52.381 0.00 0.00 0.00 4.69
928 1228 2.741145 AGCTCGATTACTCTTGGAGGT 58.259 47.619 0.00 0.00 33.35 3.85
929 1229 3.886505 AGTAGCTCGATTACTCTTGGAGG 59.113 47.826 0.00 0.00 33.35 4.30
931 1231 3.066900 GCAGTAGCTCGATTACTCTTGGA 59.933 47.826 6.74 0.00 37.91 3.53
938 1251 2.579207 TGGTGCAGTAGCTCGATTAC 57.421 50.000 0.00 0.00 42.74 1.89
939 1252 2.959030 AGATGGTGCAGTAGCTCGATTA 59.041 45.455 0.00 0.00 42.74 1.75
952 1265 1.071385 CCTGTGGGAGATAGATGGTGC 59.929 57.143 0.00 0.00 33.58 5.01
977 1294 0.577269 CGCTACGCTGTATTGCTTCC 59.423 55.000 0.00 0.00 0.00 3.46
1423 1743 4.339247 AGACACAGAAAATCACAACCAAGG 59.661 41.667 0.00 0.00 0.00 3.61
1426 1746 4.946772 TCAAGACACAGAAAATCACAACCA 59.053 37.500 0.00 0.00 0.00 3.67
1427 1747 5.499139 TCAAGACACAGAAAATCACAACC 57.501 39.130 0.00 0.00 0.00 3.77
1428 1748 6.854892 CAGATCAAGACACAGAAAATCACAAC 59.145 38.462 0.00 0.00 0.00 3.32
1440 1817 5.005740 CCCAAGATTTCAGATCAAGACACA 58.994 41.667 0.00 0.00 0.00 3.72
1519 1896 9.319143 CCAGTATTATCACAGAAAAGAACTAGG 57.681 37.037 0.00 0.00 0.00 3.02
1538 1915 4.218312 GCCCCAAATCTTGATCCAGTATT 58.782 43.478 0.00 0.00 0.00 1.89
1542 1919 1.406903 GGCCCCAAATCTTGATCCAG 58.593 55.000 0.00 0.00 0.00 3.86
1797 2180 7.218614 AGGCAAATTTGTGATGAAGATTTTGA 58.781 30.769 19.03 0.00 0.00 2.69
1963 2354 3.577805 AGGTTGCACCAAAGTAGAACT 57.422 42.857 7.86 0.00 41.95 3.01
2065 2456 2.621055 TGTAAGAGCGCACATGGTTTTT 59.379 40.909 11.47 0.00 0.00 1.94
2106 2498 0.098728 GGATCCCGTTCAAACATGCG 59.901 55.000 0.00 0.00 0.00 4.73
2203 2595 7.475299 AGCTTAGCTATCTACTCCTAAATCCT 58.525 38.462 4.30 0.00 36.99 3.24
2204 2596 7.712204 AGCTTAGCTATCTACTCCTAAATCC 57.288 40.000 4.30 0.00 36.99 3.01
2267 2659 4.436718 CGGTGAGATGAGATATCAGTAGCG 60.437 50.000 5.32 0.31 30.07 4.26
2271 2663 3.500299 CGTCGGTGAGATGAGATATCAGT 59.500 47.826 5.32 0.00 38.11 3.41
2297 2689 4.266502 CGAAGACCTGAAAAGATGTCGATC 59.733 45.833 0.00 0.00 33.04 3.69
2303 2695 1.394917 CGCCGAAGACCTGAAAAGATG 59.605 52.381 0.00 0.00 0.00 2.90
2380 2775 0.674581 CGCTCTTGGTCATGAAGGCA 60.675 55.000 0.00 0.00 0.00 4.75
2547 2952 2.580966 AATCGTTCTTCGTCCCTAGC 57.419 50.000 0.00 0.00 40.80 3.42
2570 2975 8.404765 CACCATTATCAGCACAAACACATAATA 58.595 33.333 0.00 0.00 0.00 0.98
2571 2976 7.122501 TCACCATTATCAGCACAAACACATAAT 59.877 33.333 0.00 0.00 0.00 1.28
2572 2977 6.432472 TCACCATTATCAGCACAAACACATAA 59.568 34.615 0.00 0.00 0.00 1.90
2579 2984 4.766373 ACACATCACCATTATCAGCACAAA 59.234 37.500 0.00 0.00 0.00 2.83
2971 3376 0.830648 TCCTTATTGAGCCGGTCAGG 59.169 55.000 1.90 3.75 44.97 3.86
3006 3411 4.899239 GAGATGAGGCGGTGGCGG 62.899 72.222 0.00 0.00 41.24 6.13
3019 3424 0.187117 TCTGGAGCGATGGAGGAGAT 59.813 55.000 0.00 0.00 0.00 2.75
3117 3522 2.045926 ATGAGGGCTGGTTGTCGC 60.046 61.111 0.00 0.00 0.00 5.19
3119 3524 0.678048 GGTGATGAGGGCTGGTTGTC 60.678 60.000 0.00 0.00 0.00 3.18
3249 3657 6.008960 AGGAAGCAAATCAAGAAGTGAAGAT 58.991 36.000 0.00 0.00 40.50 2.40
3325 3737 6.096141 ACGAGCTAGATCCATCGAAATGATAT 59.904 38.462 1.64 0.00 38.50 1.63
3476 3906 0.687354 GCCAGGAGAGACACAAGGAA 59.313 55.000 0.00 0.00 0.00 3.36
3651 4086 1.486211 ACACGGAGTAGCTAGCCAAT 58.514 50.000 12.13 0.00 41.61 3.16
3663 4098 3.432252 GGTTCATGACAAGTTACACGGAG 59.568 47.826 0.00 0.00 0.00 4.63
3664 4099 3.395639 GGTTCATGACAAGTTACACGGA 58.604 45.455 0.00 0.00 0.00 4.69
3665 4100 2.482721 GGGTTCATGACAAGTTACACGG 59.517 50.000 0.00 0.00 0.00 4.94
3666 4101 2.156891 CGGGTTCATGACAAGTTACACG 59.843 50.000 3.45 3.45 0.00 4.49
3667 4102 3.059188 CACGGGTTCATGACAAGTTACAC 60.059 47.826 0.00 0.00 0.00 2.90
3668 4103 3.135225 CACGGGTTCATGACAAGTTACA 58.865 45.455 0.00 0.00 0.00 2.41
3669 4104 3.395639 TCACGGGTTCATGACAAGTTAC 58.604 45.455 0.00 0.00 0.00 2.50
3670 4105 3.755112 TCACGGGTTCATGACAAGTTA 57.245 42.857 0.00 0.00 0.00 2.24
3671 4106 2.631160 TCACGGGTTCATGACAAGTT 57.369 45.000 0.00 0.00 0.00 2.66
3829 4271 6.013842 TGAGTAATGATATCTACACCAGCG 57.986 41.667 3.98 0.00 0.00 5.18
3994 4448 7.101652 TCATCGAGTTTTCTCTAGCTAATGT 57.898 36.000 0.00 0.00 44.16 2.71
3997 4451 6.321435 TGGATCATCGAGTTTTCTCTAGCTAA 59.679 38.462 0.00 0.00 44.16 3.09
4025 4479 7.648510 GGTTTGGATCGACCGATATATTAGATC 59.351 40.741 4.78 0.00 42.61 2.75
4028 4483 6.864342 AGGTTTGGATCGACCGATATATTAG 58.136 40.000 4.78 0.00 40.89 1.73
4039 4494 4.201783 CGGTTGAATTAGGTTTGGATCGAC 60.202 45.833 0.00 0.00 0.00 4.20
4041 4496 3.687698 ACGGTTGAATTAGGTTTGGATCG 59.312 43.478 0.00 0.00 0.00 3.69
4045 4500 2.888414 ACCACGGTTGAATTAGGTTTGG 59.112 45.455 0.00 0.00 0.00 3.28
4046 4501 4.577834 AACCACGGTTGAATTAGGTTTG 57.422 40.909 0.00 0.00 35.99 2.93
4047 4502 6.904463 ATTAACCACGGTTGAATTAGGTTT 57.096 33.333 11.80 0.00 39.77 3.27
4060 4519 6.512342 TTATAACACCCAAATTAACCACGG 57.488 37.500 0.00 0.00 0.00 4.94
4081 4540 6.480981 CCAAGTTCGTCTAAACTCCAAGTTTA 59.519 38.462 10.83 10.83 45.75 2.01
4085 4544 4.628074 TCCAAGTTCGTCTAAACTCCAAG 58.372 43.478 0.00 0.00 38.52 3.61


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

AutoCloner maintained by Alex Coulton.