Multiple sequence alignment - TraesCS3A01G316700

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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 TraesCS3A01G316700 chr3A 100.000 3836 0 0 743 4578 557405301 557409136 0.000000e+00 7084.0
1 TraesCS3A01G316700 chr3A 95.880 1068 36 4 743 1810 557388012 557389071 0.000000e+00 1722.0
2 TraesCS3A01G316700 chr3A 100.000 225 0 0 1 225 557404559 557404783 2.550000e-112 416.0
3 TraesCS3A01G316700 chr3A 96.903 226 6 1 1 225 557387731 557387956 1.200000e-100 377.0
4 TraesCS3A01G316700 chr3A 81.095 402 50 15 3415 3796 557414126 557414521 9.630000e-77 298.0
5 TraesCS3A01G316700 chr3A 96.875 32 1 0 3798 3829 31787744 31787713 2.000000e-03 54.7
6 TraesCS3A01G316700 chr3B 92.441 2130 115 18 1968 4065 559895477 559893362 0.000000e+00 3000.0
7 TraesCS3A01G316700 chr3B 92.661 1199 54 14 743 1931 559896642 559895468 0.000000e+00 1696.0
8 TraesCS3A01G316700 chr3B 93.169 366 23 2 3431 3796 559886073 559885710 1.870000e-148 536.0
9 TraesCS3A01G316700 chr3B 95.683 278 10 2 4114 4391 559893363 559893088 3.250000e-121 446.0
10 TraesCS3A01G316700 chr3B 94.792 192 3 2 4384 4575 559893036 559892852 4.480000e-75 292.0
11 TraesCS3A01G316700 chr3B 84.091 220 10 10 23 225 559896905 559896694 6.050000e-44 189.0
12 TraesCS3A01G316700 chr3B 87.273 55 5 2 3797 3849 633537606 633537552 1.380000e-05 62.1
13 TraesCS3A01G316700 chr3D 90.113 1851 103 34 1971 3796 428258471 428256676 0.000000e+00 2331.0
14 TraesCS3A01G316700 chr3D 91.700 759 34 12 1174 1920 428259213 428258472 0.000000e+00 1026.0
15 TraesCS3A01G316700 chr3D 93.728 558 31 4 3835 4391 428256430 428255876 0.000000e+00 833.0
16 TraesCS3A01G316700 chr3D 94.037 436 23 1 743 1175 428259815 428259380 0.000000e+00 658.0
17 TraesCS3A01G316700 chr3D 90.023 431 34 4 3373 3796 428250659 428250231 2.410000e-152 549.0
18 TraesCS3A01G316700 chr3D 95.312 192 3 1 4384 4575 428255824 428255639 2.680000e-77 300.0
19 TraesCS3A01G316700 chr3D 78.824 255 7 18 1 225 428260102 428259865 1.340000e-25 128.0


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 TraesCS3A01G316700 chr3A 557404559 557409136 4577 False 3750.000000 7084 100.0000 1 4578 2 chr3A.!!$F3 4577
1 TraesCS3A01G316700 chr3A 557387731 557389071 1340 False 1049.500000 1722 96.3915 1 1810 2 chr3A.!!$F2 1809
2 TraesCS3A01G316700 chr3B 559892852 559896905 4053 True 1124.600000 3000 91.9336 23 4575 5 chr3B.!!$R3 4552
3 TraesCS3A01G316700 chr3D 428255639 428260102 4463 True 879.333333 2331 90.6190 1 4575 6 chr3D.!!$R2 4574

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
1350 1557 0.337082 TCCTCATCAACCCCTACGGA 59.663 55.0 0.0 0.0 34.64 4.69 F
2576 2804 0.106819 ATGGAGCTTCTGTGGATGCC 60.107 55.0 0.0 0.0 41.66 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2889 3120 0.250513 AAGAGCACACCCGAGATTCC 59.749 55.0 0.0 0.0 0.00 3.01 R
4077 4538 0.034059 AAGTTGAGTGGAGTGCCTCG 59.966 55.0 0.0 0.0 32.93 4.63 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
1350 1557 0.337082 TCCTCATCAACCCCTACGGA 59.663 55.000 0.00 0.00 34.64 4.69
1365 1572 3.431725 GGAGGCAAAAGACGGGCG 61.432 66.667 0.00 0.00 34.32 6.13
1392 1599 5.344743 AGATCTACGAGGCAGAAATCAAA 57.655 39.130 0.00 0.00 0.00 2.69
1442 1649 2.811431 TCACAATGCAAGGTAAGGTTCG 59.189 45.455 0.00 0.00 0.00 3.95
1443 1650 2.552315 CACAATGCAAGGTAAGGTTCGT 59.448 45.455 0.00 0.00 0.00 3.85
1444 1651 3.004315 CACAATGCAAGGTAAGGTTCGTT 59.996 43.478 0.00 0.00 0.00 3.85
1445 1652 3.634910 ACAATGCAAGGTAAGGTTCGTTT 59.365 39.130 0.00 0.00 0.00 3.60
1479 1686 0.526524 AAGCGCGATCTTCTTCTCCG 60.527 55.000 12.10 0.00 0.00 4.63
1491 1698 1.066143 TCTTCTCCGACATTCTTGGCC 60.066 52.381 0.00 0.00 0.00 5.36
1495 1702 1.209504 CTCCGACATTCTTGGCCCTTA 59.790 52.381 0.00 0.00 0.00 2.69
1497 1704 1.339631 CCGACATTCTTGGCCCTTACA 60.340 52.381 0.00 0.00 0.00 2.41
1595 1802 1.587043 CGTCCTCTCTCGACCTTGCA 61.587 60.000 0.00 0.00 0.00 4.08
1788 2001 4.314961 TGCGAGTTGACTTCACATAATGT 58.685 39.130 0.00 0.00 0.00 2.71
1796 2009 7.387948 AGTTGACTTCACATAATGTTAGTGGAC 59.612 37.037 0.00 0.00 34.17 4.02
1842 2061 2.415491 GGAAGGCTGGCGATAAACAAAC 60.415 50.000 0.00 0.00 0.00 2.93
1920 2140 4.872691 CCTTCAAATCTACTCATTCGCAGT 59.127 41.667 0.00 0.00 0.00 4.40
1921 2141 5.352569 CCTTCAAATCTACTCATTCGCAGTT 59.647 40.000 0.00 0.00 0.00 3.16
1922 2142 6.408858 TTCAAATCTACTCATTCGCAGTTC 57.591 37.500 0.00 0.00 0.00 3.01
1923 2143 5.478407 TCAAATCTACTCATTCGCAGTTCA 58.522 37.500 0.00 0.00 0.00 3.18
1924 2144 5.931724 TCAAATCTACTCATTCGCAGTTCAA 59.068 36.000 0.00 0.00 0.00 2.69
1925 2145 6.426633 TCAAATCTACTCATTCGCAGTTCAAA 59.573 34.615 0.00 0.00 0.00 2.69
1926 2146 6.801539 AATCTACTCATTCGCAGTTCAAAA 57.198 33.333 0.00 0.00 0.00 2.44
1927 2147 6.801539 ATCTACTCATTCGCAGTTCAAAAA 57.198 33.333 0.00 0.00 0.00 1.94
2011 2232 8.500753 AAAAGCCATAGAAAATGTCGTACATA 57.499 30.769 0.00 0.00 37.97 2.29
2029 2250 7.066284 TCGTACATACTGTAAGGTTCCTACTTC 59.934 40.741 0.00 0.00 39.30 3.01
2030 2251 7.066766 CGTACATACTGTAAGGTTCCTACTTCT 59.933 40.741 0.00 0.00 39.30 2.85
2031 2252 7.793948 ACATACTGTAAGGTTCCTACTTCTT 57.206 36.000 0.00 0.00 39.30 2.52
2113 2338 3.944015 CAGACTGGGAGGAAGCAATAAAG 59.056 47.826 0.00 0.00 0.00 1.85
2144 2369 2.945668 GGCATAGTTCCAGCTGGTAAAG 59.054 50.000 31.58 18.04 36.34 1.85
2209 2436 5.054477 GTCAGACACTAGTAGCACCAAAAA 58.946 41.667 0.00 0.00 0.00 1.94
2286 2514 2.573941 GCATGGCCAAATCACTTCTC 57.426 50.000 10.96 0.00 0.00 2.87
2339 2567 2.289547 ACGCCGTATTTGCCATTATCAC 59.710 45.455 0.00 0.00 0.00 3.06
2398 2626 2.420022 CCACGGCAGTTTCAAATAGAGG 59.580 50.000 0.00 0.00 0.00 3.69
2456 2684 2.187073 CAAGCAGGCCTTGGATGTC 58.813 57.895 0.00 0.00 45.78 3.06
2462 2690 2.048603 GGCCTTGGATGTCTGCACC 61.049 63.158 0.00 0.00 0.00 5.01
2569 2797 5.774690 TGTTAAATTCCAATGGAGCTTCTGT 59.225 36.000 0.86 0.00 31.21 3.41
2576 2804 0.106819 ATGGAGCTTCTGTGGATGCC 60.107 55.000 0.00 0.00 41.66 4.40
2577 2805 1.817099 GGAGCTTCTGTGGATGCCG 60.817 63.158 0.00 0.00 41.66 5.69
2586 2814 1.227674 GTGGATGCCGGATCTGACC 60.228 63.158 5.05 0.00 0.00 4.02
2615 2843 2.928801 AATTTTCAGGTTTGGTGGCC 57.071 45.000 0.00 0.00 0.00 5.36
2685 2915 5.019498 GGTTCGACTTTTATGTGCGTAATG 58.981 41.667 0.00 0.00 0.00 1.90
2699 2929 4.206200 GTGCGTAATGTTGGTTCTTTTGTG 59.794 41.667 0.00 0.00 0.00 3.33
2718 2948 9.748708 CTTTTGTGATAACTTGAAATCTTTGGA 57.251 29.630 0.00 0.00 0.00 3.53
2733 2964 3.751175 TCTTTGGAAACTAATGCCTCACG 59.249 43.478 0.00 0.00 0.00 4.35
2916 3147 1.383523 GGGTGTGCTCTTATCAAGGC 58.616 55.000 0.00 0.00 0.00 4.35
2921 3152 2.170607 TGTGCTCTTATCAAGGCCCTAC 59.829 50.000 0.00 0.00 0.00 3.18
3044 3275 6.127338 GCTCCTGAAGCCAAGGTAATATTTTT 60.127 38.462 0.00 0.00 45.92 1.94
3124 3355 3.004734 AGTTGAGTGCTGGTGTAATTTGC 59.995 43.478 0.00 0.00 0.00 3.68
3126 3357 1.535462 GAGTGCTGGTGTAATTTGCGT 59.465 47.619 0.00 0.00 0.00 5.24
3129 3360 1.535028 TGCTGGTGTAATTTGCGTGAG 59.465 47.619 0.00 0.00 0.00 3.51
3143 3375 0.391528 CGTGAGATGCATGGTGTGGA 60.392 55.000 2.46 0.00 0.00 4.02
3145 3377 2.372264 GTGAGATGCATGGTGTGGATT 58.628 47.619 2.46 0.00 39.19 3.01
3271 3503 6.494842 GTGAAATCGCCACATGTTACATATT 58.505 36.000 0.00 0.00 34.81 1.28
3279 3511 6.624861 CGCCACATGTTACATATTTCAAGGTT 60.625 38.462 0.00 0.00 0.00 3.50
3312 3550 2.816087 CCCTGTCAACCTGATCAACTTG 59.184 50.000 0.00 1.28 0.00 3.16
3369 3622 4.810191 AGAGTGGTTCATCAGTAGGTTC 57.190 45.455 0.00 0.00 0.00 3.62
3391 3644 3.365364 CGACTTTGCAGGTGAAATCCTTC 60.365 47.826 0.00 0.00 35.37 3.46
3582 3835 6.844388 ACTGTATACTGTCCCAAATGATCCTA 59.156 38.462 9.42 0.00 0.00 2.94
3584 3837 3.933861 ACTGTCCCAAATGATCCTACC 57.066 47.619 0.00 0.00 0.00 3.18
3589 3842 2.091885 TCCCAAATGATCCTACCTTGCC 60.092 50.000 0.00 0.00 0.00 4.52
3591 3844 3.628257 CCCAAATGATCCTACCTTGCCTT 60.628 47.826 0.00 0.00 0.00 4.35
3592 3845 3.633986 CCAAATGATCCTACCTTGCCTTC 59.366 47.826 0.00 0.00 0.00 3.46
3593 3846 4.530875 CAAATGATCCTACCTTGCCTTCT 58.469 43.478 0.00 0.00 0.00 2.85
3594 3847 4.429854 AATGATCCTACCTTGCCTTCTC 57.570 45.455 0.00 0.00 0.00 2.87
3595 3848 2.119495 TGATCCTACCTTGCCTTCTCC 58.881 52.381 0.00 0.00 0.00 3.71
3596 3849 2.293184 TGATCCTACCTTGCCTTCTCCT 60.293 50.000 0.00 0.00 0.00 3.69
3600 3853 2.461695 CTACCTTGCCTTCTCCTCTCA 58.538 52.381 0.00 0.00 0.00 3.27
3753 4006 2.526304 TCAGTTTCAGTTCCAGTCCG 57.474 50.000 0.00 0.00 0.00 4.79
3796 4049 1.462791 CCGTTGTGCTTTCGTTGAAC 58.537 50.000 0.00 0.00 0.00 3.18
3797 4050 1.063469 CCGTTGTGCTTTCGTTGAACT 59.937 47.619 0.00 0.00 0.00 3.01
3830 4094 9.454859 AGATAAATCTAAGACAAACTTCTTGGG 57.545 33.333 0.00 0.00 39.72 4.12
3837 4297 1.766496 ACAAACTTCTTGGGACCGAGA 59.234 47.619 4.13 4.13 34.86 4.04
3944 4405 6.348950 CGCCAAGACAGGATAACAAATTAACA 60.349 38.462 0.00 0.00 0.00 2.41
4005 4466 1.376086 CATCACTGGTGGTGGAGCA 59.624 57.895 6.12 0.00 45.38 4.26
4012 4473 1.302832 GGTGGTGGAGCAGTTCAGG 60.303 63.158 0.00 0.00 0.00 3.86
4013 4474 1.451936 GTGGTGGAGCAGTTCAGGT 59.548 57.895 0.00 0.00 0.00 4.00
4014 4475 0.603975 GTGGTGGAGCAGTTCAGGTC 60.604 60.000 0.00 0.00 35.36 3.85
4049 4510 1.431488 GCAGCAATCGATCAAGGCGA 61.431 55.000 0.00 0.00 42.48 5.54
4077 4538 2.672381 GAGCTGAAGTGCAAGTGAGATC 59.328 50.000 0.00 0.00 34.99 2.75
4101 4562 2.288666 GCACTCCACTCAACTTGACAA 58.711 47.619 0.00 0.00 0.00 3.18
4112 4573 0.820891 ACTTGACAAGCAGCAGGTGG 60.821 55.000 15.24 0.00 0.00 4.61
4248 4709 9.927668 ATTACAAAAGTTCATATTCACAAAGGG 57.072 29.630 0.00 0.00 0.00 3.95
4270 4731 5.387788 GGACTGGGGAAAACTTTACCTTTA 58.612 41.667 3.46 0.00 41.15 1.85
4275 4736 7.450634 ACTGGGGAAAACTTTACCTTTATCTTC 59.549 37.037 3.46 0.00 41.15 2.87
4326 4787 4.142609 AGCAACTTCTTCAGACTTCACA 57.857 40.909 0.00 0.00 0.00 3.58
4347 4808 4.754114 ACAGTTCTCATCTTCAAAGTGAGC 59.246 41.667 13.15 5.46 39.30 4.26
4463 4982 3.255395 TGTTACAACCATCCAAGTGCATG 59.745 43.478 0.00 0.00 0.00 4.06
4490 5009 4.184629 CACACAAGGGATAACTGCTAGTC 58.815 47.826 0.00 0.00 0.00 2.59
4552 5071 3.347958 ACAACACAACGGCAATAACTG 57.652 42.857 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1350 1557 2.358737 CTCGCCCGTCTTTTGCCT 60.359 61.111 0.00 0.00 0.00 4.75
1365 1572 1.678627 TCTGCCTCGTAGATCTTGCTC 59.321 52.381 0.00 0.00 33.89 4.26
1392 1599 4.699522 GCGGCTTCGAACAGGGGT 62.700 66.667 0.00 0.00 35.61 4.95
1479 1686 3.073274 ACTGTAAGGGCCAAGAATGTC 57.927 47.619 6.18 0.00 39.30 3.06
1491 1698 4.881850 AGGCGGATCAAAATAACTGTAAGG 59.118 41.667 0.00 0.00 39.30 2.69
1495 1702 3.016736 CCAGGCGGATCAAAATAACTGT 58.983 45.455 0.00 0.00 0.00 3.55
1497 1704 3.279434 GACCAGGCGGATCAAAATAACT 58.721 45.455 0.00 0.00 35.59 2.24
1788 2001 3.427573 TCAAGTGAGATCCGTCCACTAA 58.572 45.455 7.71 0.00 35.90 2.24
1796 2009 4.691175 ACAAGATGATCAAGTGAGATCCG 58.309 43.478 0.00 0.00 42.95 4.18
1842 2061 7.432059 TCAGATGCTGTTAATATCTCTCAGTG 58.568 38.462 0.00 0.00 32.61 3.66
1891 2111 6.703607 CGAATGAGTAGATTTGAAGGCACTAT 59.296 38.462 0.00 0.00 38.49 2.12
1986 2206 6.811253 TGTACGACATTTTCTATGGCTTTT 57.189 33.333 0.00 0.00 0.00 2.27
1990 2210 6.877855 CAGTATGTACGACATTTTCTATGGC 58.122 40.000 5.94 0.00 39.88 4.40
2041 2262 1.179152 TGCCAGAAATGTCAGCATGG 58.821 50.000 0.00 0.00 35.15 3.66
2125 2350 5.245531 TGTTCTTTACCAGCTGGAACTATG 58.754 41.667 39.19 21.14 37.66 2.23
2126 2351 5.499004 TGTTCTTTACCAGCTGGAACTAT 57.501 39.130 39.19 18.87 37.66 2.12
2163 2388 7.933577 TGACCAAAGATCGATTATTATTCAGCT 59.066 33.333 0.00 0.00 0.00 4.24
2173 2400 5.661056 AGTGTCTGACCAAAGATCGATTA 57.339 39.130 5.17 0.00 0.00 1.75
2209 2436 5.068198 ACACATGTTTGAGCACTTTCAGAAT 59.932 36.000 0.00 0.00 0.00 2.40
2239 2467 4.769488 TCCTGTGCCTGCATAAATAACAAA 59.231 37.500 0.00 0.00 0.00 2.83
2280 2508 1.378250 GCTGGCAGCATGGAGAAGT 60.378 57.895 33.33 0.00 41.89 3.01
2286 2514 3.200593 GTCTCGCTGGCAGCATGG 61.201 66.667 35.94 24.38 42.58 3.66
2339 2567 3.812053 GCCTGAAAGCATACTATGACCTG 59.188 47.826 0.00 0.00 0.00 4.00
2398 2626 4.699257 AGAGTTGTTGCTTCCATCAGATTC 59.301 41.667 0.00 0.00 0.00 2.52
2520 2748 3.724508 TTGTTGATTTCATGGTTGCGT 57.275 38.095 0.00 0.00 0.00 5.24
2521 2749 3.989167 ACATTGTTGATTTCATGGTTGCG 59.011 39.130 0.00 0.00 0.00 4.85
2522 2750 5.119588 CAGACATTGTTGATTTCATGGTTGC 59.880 40.000 0.00 0.00 0.00 4.17
2523 2751 6.218019 ACAGACATTGTTGATTTCATGGTTG 58.782 36.000 0.00 0.00 36.31 3.77
2524 2752 6.409524 ACAGACATTGTTGATTTCATGGTT 57.590 33.333 0.00 0.00 36.31 3.67
2548 2776 4.706476 CCACAGAAGCTCCATTGGAATTTA 59.294 41.667 6.88 0.00 0.00 1.40
2569 2797 2.443394 GGGTCAGATCCGGCATCCA 61.443 63.158 0.00 0.00 30.71 3.41
2586 2814 6.823182 ACCAAACCTGAAAATTTTCTGAAAGG 59.177 34.615 29.14 26.27 38.07 3.11
2598 2826 0.395862 TCGGCCACCAAACCTGAAAA 60.396 50.000 2.24 0.00 0.00 2.29
2601 2829 1.303236 CATCGGCCACCAAACCTGA 60.303 57.895 2.24 0.00 0.00 3.86
2660 2888 1.458064 CGCACATAAAAGTCGAACCGT 59.542 47.619 0.00 0.00 0.00 4.83
2685 2915 8.696410 TTTCAAGTTATCACAAAAGAACCAAC 57.304 30.769 0.00 0.00 0.00 3.77
2718 2948 2.450609 ACGACGTGAGGCATTAGTTT 57.549 45.000 0.00 0.00 41.50 2.66
2723 2954 2.733127 CGTTACGACGTGAGGCATT 58.267 52.632 11.56 0.00 44.08 3.56
2743 2974 4.079327 AGCCTGGGATCAATCAAGAAGAAT 60.079 41.667 0.00 0.00 0.00 2.40
2882 3113 0.743345 CACCCGAGATTCCCCGTTTC 60.743 60.000 0.00 0.00 0.00 2.78
2889 3120 0.250513 AAGAGCACACCCGAGATTCC 59.749 55.000 0.00 0.00 0.00 3.01
2921 3152 0.871722 TGAACATTGAAACTCGGCCG 59.128 50.000 22.12 22.12 0.00 6.13
2964 3195 0.465460 AGACGCACACACCCACAAAT 60.465 50.000 0.00 0.00 0.00 2.32
3006 3237 3.064324 GGAGCTGCCATGGCGTTT 61.064 61.111 30.87 18.49 45.51 3.60
3056 3287 4.440880 GAGCTTGATCAGATTAGCACTGT 58.559 43.478 17.19 0.00 36.11 3.55
3059 3290 3.801698 TGGAGCTTGATCAGATTAGCAC 58.198 45.455 17.19 11.67 36.11 4.40
3102 3333 3.004734 GCAAATTACACCAGCACTCAACT 59.995 43.478 0.00 0.00 0.00 3.16
3124 3355 0.391528 TCCACACCATGCATCTCACG 60.392 55.000 0.00 0.00 0.00 4.35
3126 3357 2.756207 CAAATCCACACCATGCATCTCA 59.244 45.455 0.00 0.00 0.00 3.27
3129 3360 3.713288 CATCAAATCCACACCATGCATC 58.287 45.455 0.00 0.00 0.00 3.91
3143 3375 3.380637 GCCATCTGAGAACTGCATCAAAT 59.619 43.478 0.00 0.00 0.00 2.32
3145 3377 2.026542 AGCCATCTGAGAACTGCATCAA 60.027 45.455 0.00 0.00 0.00 2.57
3312 3550 1.291877 ACGGTGTTCTGAATCGCTGC 61.292 55.000 0.00 0.00 0.00 5.25
3369 3622 2.154462 AGGATTTCACCTGCAAAGTCG 58.846 47.619 0.00 0.00 39.01 4.18
3424 3677 1.001887 TACGATGCCGCCCCTTTTT 60.002 52.632 0.00 0.00 39.95 1.94
3565 3818 4.202441 CAAGGTAGGATCATTTGGGACAG 58.798 47.826 0.00 0.00 42.39 3.51
3582 3835 0.980423 GTGAGAGGAGAAGGCAAGGT 59.020 55.000 0.00 0.00 0.00 3.50
3584 3837 0.979665 TGGTGAGAGGAGAAGGCAAG 59.020 55.000 0.00 0.00 0.00 4.01
3600 3853 2.443255 ACACAAAGGGACAATCTCTGGT 59.557 45.455 0.00 0.00 0.00 4.00
3607 3860 3.642848 AGCAATTGACACAAAGGGACAAT 59.357 39.130 10.34 0.00 33.50 2.71
3614 3867 8.356533 ACAAGAATAAAGCAATTGACACAAAG 57.643 30.769 10.34 0.00 0.00 2.77
3668 3921 9.369904 CCTTTTCTTGAAAGAATCTTGTTTTGA 57.630 29.630 6.33 0.00 46.24 2.69
3753 4006 3.652292 CAACGGTTTGGGTTGGTTC 57.348 52.632 0.00 0.00 40.75 3.62
3821 4085 6.555463 TTTATTATCTCGGTCCCAAGAAGT 57.445 37.500 0.00 0.00 0.00 3.01
3971 4432 3.058914 AGTGATGCAACGCTTGTCTAAAC 60.059 43.478 3.92 0.00 0.00 2.01
4005 4466 1.048601 TTGCTCTTCCGACCTGAACT 58.951 50.000 0.00 0.00 0.00 3.01
4012 4473 3.911989 CATGCATTGCTCTTCCGAC 57.088 52.632 10.49 0.00 0.00 4.79
4040 4501 0.459489 GCTCTCTCTGTCGCCTTGAT 59.541 55.000 0.00 0.00 0.00 2.57
4041 4502 0.610509 AGCTCTCTCTGTCGCCTTGA 60.611 55.000 0.00 0.00 0.00 3.02
4049 4510 1.336131 TGCACTTCAGCTCTCTCTGT 58.664 50.000 0.00 0.00 35.63 3.41
4077 4538 0.034059 AAGTTGAGTGGAGTGCCTCG 59.966 55.000 0.00 0.00 32.93 4.63
4086 4547 1.002033 GCTGCTTGTCAAGTTGAGTGG 60.002 52.381 14.03 0.39 0.00 4.00
4092 4553 1.027357 CACCTGCTGCTTGTCAAGTT 58.973 50.000 14.03 0.00 0.00 2.66
4112 4573 2.716017 CCTCCAGTGACCTCGCCTC 61.716 68.421 0.00 0.00 0.00 4.70
4248 4709 6.946583 AGATAAAGGTAAAGTTTTCCCCAGTC 59.053 38.462 7.59 2.89 0.00 3.51
4270 4731 7.551974 CCAATTCAGACTCACAACTATGAAGAT 59.448 37.037 0.00 0.00 30.90 2.40
4275 4736 6.348786 CCAACCAATTCAGACTCACAACTATG 60.349 42.308 0.00 0.00 0.00 2.23
4326 4787 3.993081 CGCTCACTTTGAAGATGAGAACT 59.007 43.478 18.76 0.00 42.07 3.01
4347 4808 7.078851 AGACTGAGCGAATAGTTGAATATACG 58.921 38.462 0.00 0.00 0.00 3.06
4463 4982 2.744202 CAGTTATCCCTTGTGTGCTGAC 59.256 50.000 0.00 0.00 0.00 3.51
4490 5009 2.159282 GCTTCTGATTGGTGATGCTTGG 60.159 50.000 0.00 0.00 32.74 3.61
4520 5039 4.992319 CCGTTGTGTTGTTATCCTGTCTTA 59.008 41.667 0.00 0.00 0.00 2.10
4521 5040 3.813166 CCGTTGTGTTGTTATCCTGTCTT 59.187 43.478 0.00 0.00 0.00 3.01
4522 5041 3.399330 CCGTTGTGTTGTTATCCTGTCT 58.601 45.455 0.00 0.00 0.00 3.41
4523 5042 2.095919 GCCGTTGTGTTGTTATCCTGTC 60.096 50.000 0.00 0.00 0.00 3.51
4524 5043 1.877443 GCCGTTGTGTTGTTATCCTGT 59.123 47.619 0.00 0.00 0.00 4.00
4525 5044 1.876799 TGCCGTTGTGTTGTTATCCTG 59.123 47.619 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.