Multiple sequence alignment - TraesCS2D01G313600

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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 TraesCS2D01G313600 chr2D 100.000 2501 0 0 1 2501 403464511 403467011 0.000000e+00 4619.0
1 TraesCS2D01G313600 chr2B 89.478 1340 99 21 927 2242 477564814 477566135 0.000000e+00 1655.0
2 TraesCS2D01G313600 chr2B 93.116 857 55 4 1 853 477538876 477539732 0.000000e+00 1253.0
3 TraesCS2D01G313600 chr2B 95.000 180 9 0 2322 2501 477566273 477566452 1.460000e-72 283.0
4 TraesCS2D01G313600 chr2A 92.816 696 27 13 913 1598 541195840 541196522 0.000000e+00 987.0
5 TraesCS2D01G313600 chr2A 88.752 649 62 8 1 640 541173414 541174060 0.000000e+00 784.0
6 TraesCS2D01G313600 chr2A 85.758 653 75 10 1595 2233 541196604 541197252 0.000000e+00 675.0
7 TraesCS2D01G313600 chr2A 89.767 215 21 1 691 905 541195493 541195706 8.810000e-70 274.0
8 TraesCS2D01G313600 chr2A 95.370 108 5 0 2392 2499 541197249 541197356 3.310000e-39 172.0
9 TraesCS2D01G313600 chr4D 79.231 520 87 15 94 595 354114868 354115384 2.380000e-90 342.0
10 TraesCS2D01G313600 chr6A 77.944 535 82 28 107 615 553909732 553910256 4.040000e-78 302.0
11 TraesCS2D01G313600 chr5A 77.927 521 89 18 94 600 446615024 446614516 4.040000e-78 302.0
12 TraesCS2D01G313600 chr3D 77.079 541 96 18 95 615 529838545 529838013 1.130000e-73 287.0
13 TraesCS2D01G313600 chr4A 77.490 502 92 12 111 596 34745979 34746475 5.270000e-72 281.0
14 TraesCS2D01G313600 chr7D 80.049 406 57 20 91 479 469224890 469225288 1.890000e-71 279.0
15 TraesCS2D01G313600 chr7A 78.788 429 73 13 93 506 464569142 464569567 3.170000e-69 272.0
16 TraesCS2D01G313600 chr7B 79.012 405 77 7 121 522 74693608 74694007 1.140000e-68 270.0
17 TraesCS2D01G313600 chr4B 83.516 91 13 2 691 780 99828569 99828658 1.590000e-12 84.2
18 TraesCS2D01G313600 chr1A 100.000 28 0 0 1320 1347 71577113 71577140 4.000000e-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 TraesCS2D01G313600 chr2D 403464511 403467011 2500 False 4619 4619 100.00000 1 2501 1 chr2D.!!$F1 2500
1 TraesCS2D01G313600 chr2B 477538876 477539732 856 False 1253 1253 93.11600 1 853 1 chr2B.!!$F1 852
2 TraesCS2D01G313600 chr2B 477564814 477566452 1638 False 969 1655 92.23900 927 2501 2 chr2B.!!$F2 1574
3 TraesCS2D01G313600 chr2A 541173414 541174060 646 False 784 784 88.75200 1 640 1 chr2A.!!$F1 639
4 TraesCS2D01G313600 chr2A 541195493 541197356 1863 False 527 987 90.92775 691 2499 4 chr2A.!!$F2 1808
5 TraesCS2D01G313600 chr4D 354114868 354115384 516 False 342 342 79.23100 94 595 1 chr4D.!!$F1 501
6 TraesCS2D01G313600 chr6A 553909732 553910256 524 False 302 302 77.94400 107 615 1 chr6A.!!$F1 508
7 TraesCS2D01G313600 chr5A 446614516 446615024 508 True 302 302 77.92700 94 600 1 chr5A.!!$R1 506
8 TraesCS2D01G313600 chr3D 529838013 529838545 532 True 287 287 77.07900 95 615 1 chr3D.!!$R1 520

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
948 1108 0.106268 TGCAGCCCCAACTTCTTTGA 60.106 50.0 0.0 0.0 37.39 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2257 2564 0.105246 ATAGTGCCTAGCCTGAGCCT 60.105 55.0 0.0 0.0 41.25 4.58 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
83 84 2.435372 TACATGGAATCCAACAGGCC 57.565 50.000 5.89 0.00 36.95 5.19
335 343 2.186160 CGCACCAGAGCAACAACCA 61.186 57.895 0.00 0.00 0.00 3.67
483 510 3.302347 CTCCGCACACCCTCTGACC 62.302 68.421 0.00 0.00 0.00 4.02
484 511 4.742201 CCGCACACCCTCTGACCG 62.742 72.222 0.00 0.00 0.00 4.79
509 536 0.107703 GAAGCACCATCATGACGGGA 60.108 55.000 19.37 0.00 0.00 5.14
569 600 1.810794 CGCCTCGCCTCTCTAAGTAGA 60.811 57.143 0.00 0.00 0.00 2.59
573 604 3.886505 CCTCGCCTCTCTAAGTAGAACAT 59.113 47.826 0.00 0.00 0.00 2.71
660 693 1.268999 TGCTTTTCATGGAACGCACAC 60.269 47.619 13.61 0.00 0.00 3.82
686 719 2.731976 GTGCTACAACTCGGTCTTTCTG 59.268 50.000 0.00 0.00 0.00 3.02
853 887 3.502191 TGCACCAGAACACACTTTTTC 57.498 42.857 0.00 0.00 0.00 2.29
854 888 2.822561 TGCACCAGAACACACTTTTTCA 59.177 40.909 0.00 0.00 0.00 2.69
855 889 3.179048 GCACCAGAACACACTTTTTCAC 58.821 45.455 0.00 0.00 0.00 3.18
856 890 3.119495 GCACCAGAACACACTTTTTCACT 60.119 43.478 0.00 0.00 0.00 3.41
857 891 4.414852 CACCAGAACACACTTTTTCACTG 58.585 43.478 0.00 0.00 0.00 3.66
858 892 3.119495 ACCAGAACACACTTTTTCACTGC 60.119 43.478 0.00 0.00 0.00 4.40
859 893 3.119531 CCAGAACACACTTTTTCACTGCA 60.120 43.478 0.00 0.00 0.00 4.41
861 895 2.939460 ACACACTTTTTCACTGCACC 57.061 45.000 0.00 0.00 0.00 5.01
862 896 2.166829 ACACACTTTTTCACTGCACCA 58.833 42.857 0.00 0.00 0.00 4.17
863 897 2.760092 ACACACTTTTTCACTGCACCAT 59.240 40.909 0.00 0.00 0.00 3.55
864 898 3.195396 ACACACTTTTTCACTGCACCATT 59.805 39.130 0.00 0.00 0.00 3.16
883 917 7.467811 GCACCATTCGAACATATTTCTCTTCAT 60.468 37.037 0.00 0.00 0.00 2.57
893 927 7.560368 ACATATTTCTCTTCATATCCGATCCC 58.440 38.462 0.00 0.00 0.00 3.85
900 934 4.466370 TCTTCATATCCGATCCCACATACC 59.534 45.833 0.00 0.00 0.00 2.73
905 939 1.203137 TCCGATCCCACATACCTAGGG 60.203 57.143 14.81 0.00 44.22 3.53
906 940 1.267121 CGATCCCACATACCTAGGGG 58.733 60.000 14.81 3.70 43.03 4.79
907 941 0.984995 GATCCCACATACCTAGGGGC 59.015 60.000 14.81 0.00 43.03 5.80
908 942 0.270699 ATCCCACATACCTAGGGGCA 59.729 55.000 14.81 0.00 43.03 5.36
909 943 0.270699 TCCCACATACCTAGGGGCAT 59.729 55.000 14.81 0.00 43.03 4.40
910 944 0.693049 CCCACATACCTAGGGGCATC 59.307 60.000 14.81 0.00 38.98 3.91
911 945 1.434188 CCACATACCTAGGGGCATCA 58.566 55.000 14.81 0.00 35.63 3.07
948 1108 0.106268 TGCAGCCCCAACTTCTTTGA 60.106 50.000 0.00 0.00 37.39 2.69
1031 1196 1.354368 CCAACCCTTGAGCCCTTTCTA 59.646 52.381 0.00 0.00 0.00 2.10
1083 1254 4.113815 CCTGCCCGAATCCTGCCA 62.114 66.667 0.00 0.00 0.00 4.92
1093 1264 3.943137 ATCCTGCCAAGACCCCGGA 62.943 63.158 0.73 0.00 0.00 5.14
1108 1279 1.134580 CCCGGAGAGTCACTCGTAGTA 60.135 57.143 0.73 0.00 45.76 1.82
1264 1435 4.081185 TGCTCGCCGCATTGGAGA 62.081 61.111 0.00 0.00 45.47 3.71
1293 1464 1.676678 GCCACCTCGATACAGCCTCA 61.677 60.000 0.00 0.00 0.00 3.86
1460 1631 2.335712 GCTTGCAGTTAAGCCGCCT 61.336 57.895 0.00 0.00 45.62 5.52
1477 1648 1.276138 GCCTTTGGGTTCATTCCTTGG 59.724 52.381 0.00 0.00 34.45 3.61
1488 1659 6.294564 GGGTTCATTCCTTGGACTTTACTTTC 60.295 42.308 0.00 0.00 33.90 2.62
1550 1723 6.482641 TGTAGATCTCAGTTACTTACGGCTAG 59.517 42.308 0.00 0.00 0.00 3.42
1552 1725 5.528320 AGATCTCAGTTACTTACGGCTAGAC 59.472 44.000 0.00 0.00 0.00 2.59
1553 1726 4.582869 TCTCAGTTACTTACGGCTAGACA 58.417 43.478 0.00 0.00 0.00 3.41
1554 1727 4.394300 TCTCAGTTACTTACGGCTAGACAC 59.606 45.833 0.00 0.00 0.00 3.67
1555 1728 3.441572 TCAGTTACTTACGGCTAGACACC 59.558 47.826 0.00 0.00 0.00 4.16
1556 1729 3.192001 CAGTTACTTACGGCTAGACACCA 59.808 47.826 0.00 0.00 0.00 4.17
1557 1730 4.021916 AGTTACTTACGGCTAGACACCAT 58.978 43.478 0.00 0.00 0.00 3.55
1558 1731 4.465305 AGTTACTTACGGCTAGACACCATT 59.535 41.667 0.00 0.00 0.00 3.16
1561 1734 3.119101 ACTTACGGCTAGACACCATTCAG 60.119 47.826 0.00 0.00 0.00 3.02
1565 1738 1.945394 GGCTAGACACCATTCAGCATG 59.055 52.381 0.00 0.00 33.86 4.06
1578 1751 4.952262 TTCAGCATGCAGTTTCAGTATC 57.048 40.909 21.98 0.00 34.76 2.24
1669 1934 6.855763 AAAATGAGGATAATTGGCTGTTGA 57.144 33.333 0.00 0.00 0.00 3.18
1702 1967 3.673902 TGAGGCGTGATTGAGATTCAAA 58.326 40.909 0.00 0.00 40.12 2.69
1710 1975 6.128742 GCGTGATTGAGATTCAAAAGCAATTT 60.129 34.615 0.00 0.00 40.12 1.82
1720 1985 8.146412 AGATTCAAAAGCAATTTTCTAGCAACT 58.854 29.630 0.00 0.00 0.00 3.16
1723 1988 9.762933 TTCAAAAGCAATTTTCTAGCAACTTAT 57.237 25.926 0.00 0.00 0.00 1.73
1736 2001 9.587772 TTCTAGCAACTTATAATGAACTCTCAC 57.412 33.333 0.00 0.00 33.30 3.51
1747 2012 2.120232 GAACTCTCACACGGCATATCG 58.880 52.381 0.00 0.00 0.00 2.92
1748 2013 1.389555 ACTCTCACACGGCATATCGA 58.610 50.000 0.00 0.00 0.00 3.59
1754 2019 0.319900 ACACGGCATATCGATCCAGC 60.320 55.000 0.00 4.53 0.00 4.85
1760 2025 4.099419 ACGGCATATCGATCCAGCATTATA 59.901 41.667 0.00 0.00 0.00 0.98
1856 2121 2.544277 CCAGCAACAGTTGACAACATGG 60.544 50.000 17.99 12.81 0.00 3.66
1889 2159 9.950496 ATCAGCTCTAAATTTATGTTATCGGAT 57.050 29.630 0.00 0.00 0.00 4.18
1978 2248 7.798596 ATGGAAATGTGCAGAATCTAGTTAG 57.201 36.000 0.00 0.00 0.00 2.34
1979 2249 6.946340 TGGAAATGTGCAGAATCTAGTTAGA 58.054 36.000 0.00 0.00 36.65 2.10
1980 2250 6.818644 TGGAAATGTGCAGAATCTAGTTAGAC 59.181 38.462 0.00 0.00 34.72 2.59
2054 2324 7.653311 CCGAACAGTCATATATGAGATTTGACA 59.347 37.037 15.83 0.00 39.27 3.58
2059 2329 9.761504 CAGTCATATATGAGATTTGACACTTCT 57.238 33.333 15.83 2.18 39.27 2.85
2128 2398 4.037446 TGCACCAACAAAAGAGTACCAATC 59.963 41.667 0.00 0.00 0.00 2.67
2130 2400 5.451242 GCACCAACAAAAGAGTACCAATCAA 60.451 40.000 0.00 0.00 0.00 2.57
2131 2401 6.208644 CACCAACAAAAGAGTACCAATCAAG 58.791 40.000 0.00 0.00 0.00 3.02
2171 2442 4.154195 GGTTAACTAACAGACAGCACATGG 59.846 45.833 5.42 0.00 37.92 3.66
2185 2456 8.361139 AGACAGCACATGGAGTATAGTATTTAC 58.639 37.037 0.00 0.00 0.00 2.01
2217 2488 6.420604 AGTTTGTTCGCAATCAAAACTTATGG 59.579 34.615 0.00 0.00 36.91 2.74
2221 2492 7.683222 TTGTTCGCAATCAAAACTTATGGAGTT 60.683 33.333 0.00 0.00 40.15 3.01
2257 2564 3.865011 TCTTTTCAACAGCAAAGCACA 57.135 38.095 0.00 0.00 31.15 4.57
2258 2565 3.772932 TCTTTTCAACAGCAAAGCACAG 58.227 40.909 0.00 0.00 31.15 3.66
2259 2566 2.582728 TTTCAACAGCAAAGCACAGG 57.417 45.000 0.00 0.00 0.00 4.00
2260 2567 0.102844 TTCAACAGCAAAGCACAGGC 59.897 50.000 0.00 0.00 41.61 4.85
2273 2580 2.188994 CAGGCTCAGGCTAGGCAC 59.811 66.667 19.70 4.64 44.19 5.01
2284 2591 2.628657 AGGCTAGGCACTATTAACTCCG 59.371 50.000 19.70 0.00 41.70 4.63
2285 2592 2.626743 GGCTAGGCACTATTAACTCCGA 59.373 50.000 12.16 0.00 41.70 4.55
2382 2720 5.923204 ACTGGAAGCTATGGACTAGAATTG 58.077 41.667 0.00 0.00 37.60 2.32
2386 2724 7.272978 TGGAAGCTATGGACTAGAATTGTAAC 58.727 38.462 0.00 0.00 0.00 2.50
2455 2793 3.253432 GGTACAGAAGCTTGTTTCCCTTG 59.747 47.826 2.10 0.00 32.56 3.61
2461 2799 4.041691 AGAAGCTTGTTTCCCTTGTAGCTA 59.958 41.667 2.10 0.00 37.95 3.32
2469 2807 7.195374 TGTTTCCCTTGTAGCTATATTCTGT 57.805 36.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
502 529 3.449227 CACGCCTAGCTCCCGTCA 61.449 66.667 0.00 0.00 32.18 4.35
509 536 1.717032 TGGAATATCCACGCCTAGCT 58.283 50.000 0.00 0.00 42.67 3.32
660 693 1.153823 CCGAGTTGTAGCACCTCCG 60.154 63.158 0.00 0.00 0.00 4.63
686 719 4.489306 AGTTCATACCCTAAGAGCCAAC 57.511 45.455 0.00 0.00 0.00 3.77
853 887 4.621068 AATATGTTCGAATGGTGCAGTG 57.379 40.909 0.00 0.00 0.00 3.66
854 888 4.943705 AGAAATATGTTCGAATGGTGCAGT 59.056 37.500 0.00 0.00 0.00 4.40
855 889 5.295292 AGAGAAATATGTTCGAATGGTGCAG 59.705 40.000 0.00 0.00 0.00 4.41
856 890 5.185454 AGAGAAATATGTTCGAATGGTGCA 58.815 37.500 0.00 0.00 0.00 4.57
857 891 5.741388 AGAGAAATATGTTCGAATGGTGC 57.259 39.130 0.00 0.00 0.00 5.01
858 892 7.307493 TGAAGAGAAATATGTTCGAATGGTG 57.693 36.000 0.00 0.00 0.00 4.17
859 893 9.784531 ATATGAAGAGAAATATGTTCGAATGGT 57.215 29.630 0.00 0.00 0.00 3.55
862 896 9.144747 CGGATATGAAGAGAAATATGTTCGAAT 57.855 33.333 0.00 0.00 0.00 3.34
863 897 8.357402 TCGGATATGAAGAGAAATATGTTCGAA 58.643 33.333 0.00 0.00 0.00 3.71
864 898 7.882179 TCGGATATGAAGAGAAATATGTTCGA 58.118 34.615 0.00 0.00 0.00 3.71
883 917 3.309629 CCCTAGGTATGTGGGATCGGATA 60.310 52.174 8.29 0.00 43.47 2.59
886 920 1.267121 CCCTAGGTATGTGGGATCGG 58.733 60.000 8.29 0.00 43.47 4.18
893 927 1.271054 GCTGATGCCCCTAGGTATGTG 60.271 57.143 8.29 0.00 38.81 3.21
900 934 0.250640 GGTGATGCTGATGCCCCTAG 60.251 60.000 0.00 0.00 38.71 3.02
905 939 0.888285 GCTAGGGTGATGCTGATGCC 60.888 60.000 0.00 0.00 38.71 4.40
906 940 0.108207 AGCTAGGGTGATGCTGATGC 59.892 55.000 0.00 0.00 35.54 3.91
907 941 2.634815 AAGCTAGGGTGATGCTGATG 57.365 50.000 0.00 0.00 37.11 3.07
908 942 4.649692 CATAAAGCTAGGGTGATGCTGAT 58.350 43.478 0.00 0.00 37.11 2.90
909 943 3.745480 GCATAAAGCTAGGGTGATGCTGA 60.745 47.826 0.00 0.00 41.15 4.26
910 944 2.551459 GCATAAAGCTAGGGTGATGCTG 59.449 50.000 0.00 0.00 41.15 4.41
911 945 2.173356 TGCATAAAGCTAGGGTGATGCT 59.827 45.455 6.94 0.00 45.94 3.79
1031 1196 4.918588 ACCCACGAATTTGGAACTTCTAT 58.081 39.130 0.00 0.00 39.24 1.98
1083 1254 0.612453 GAGTGACTCTCCGGGGTCTT 60.612 60.000 18.53 10.50 37.22 3.01
1093 1264 3.280295 CCATGGTACTACGAGTGACTCT 58.720 50.000 11.26 0.64 0.00 3.24
1284 1455 2.185387 GAGGGGTAAACTGAGGCTGTA 58.815 52.381 0.00 0.00 0.00 2.74
1293 1464 1.551019 GGTGCTCGGAGGGGTAAACT 61.551 60.000 7.20 0.00 0.00 2.66
1458 1629 2.562738 GTCCAAGGAATGAACCCAAAGG 59.437 50.000 0.00 0.00 40.04 3.11
1460 1631 3.611025 AGTCCAAGGAATGAACCCAAA 57.389 42.857 0.00 0.00 0.00 3.28
1531 1704 4.394300 GTGTCTAGCCGTAAGTAACTGAGA 59.606 45.833 0.00 0.00 0.00 3.27
1550 1723 1.171308 ACTGCATGCTGAATGGTGTC 58.829 50.000 28.74 0.00 36.71 3.67
1552 1725 2.029739 TGAAACTGCATGCTGAATGGTG 60.030 45.455 28.74 7.16 36.71 4.17
1553 1726 2.230508 CTGAAACTGCATGCTGAATGGT 59.769 45.455 28.74 10.56 36.71 3.55
1554 1727 2.230508 ACTGAAACTGCATGCTGAATGG 59.769 45.455 28.74 16.22 36.71 3.16
1555 1728 3.570926 ACTGAAACTGCATGCTGAATG 57.429 42.857 28.74 15.70 39.49 2.67
1556 1729 4.034858 CGATACTGAAACTGCATGCTGAAT 59.965 41.667 28.74 17.03 0.00 2.57
1557 1730 3.371898 CGATACTGAAACTGCATGCTGAA 59.628 43.478 28.74 11.47 0.00 3.02
1558 1731 2.931969 CGATACTGAAACTGCATGCTGA 59.068 45.455 28.74 4.44 0.00 4.26
1561 1734 2.672874 TGTCGATACTGAAACTGCATGC 59.327 45.455 11.82 11.82 0.00 4.06
1565 1738 4.641954 CACAATGTCGATACTGAAACTGC 58.358 43.478 0.00 0.00 0.00 4.40
1578 1751 7.851822 AGTTTTACTAAATTGCACAATGTCG 57.148 32.000 0.00 0.00 0.00 4.35
1645 1910 7.243604 TCAACAGCCAATTATCCTCATTTTT 57.756 32.000 0.00 0.00 0.00 1.94
1665 1930 1.471684 CCTCAAAGCTGCTGGATCAAC 59.528 52.381 1.35 0.00 0.00 3.18
1669 1934 1.748122 CGCCTCAAAGCTGCTGGAT 60.748 57.895 1.35 0.00 0.00 3.41
1676 1941 1.002430 TCTCAATCACGCCTCAAAGCT 59.998 47.619 0.00 0.00 0.00 3.74
1710 1975 9.587772 GTGAGAGTTCATTATAAGTTGCTAGAA 57.412 33.333 0.00 0.00 35.39 2.10
1720 1985 5.079689 TGCCGTGTGAGAGTTCATTATAA 57.920 39.130 0.00 0.00 35.39 0.98
1723 1988 3.610040 ATGCCGTGTGAGAGTTCATTA 57.390 42.857 0.00 0.00 35.39 1.90
1736 2001 0.319813 TGCTGGATCGATATGCCGTG 60.320 55.000 0.00 0.00 0.00 4.94
1766 2031 7.942341 TCAAATGGAAAGAGTTGTATGGTAAGT 59.058 33.333 0.00 0.00 0.00 2.24
1836 2101 2.358582 TCCATGTTGTCAACTGTTGCTG 59.641 45.455 15.52 5.60 0.00 4.41
1839 2104 5.185668 TCATTCCATGTTGTCAACTGTTG 57.814 39.130 16.45 14.24 0.00 3.33
1841 2106 5.850557 TTTCATTCCATGTTGTCAACTGT 57.149 34.783 16.45 3.14 0.00 3.55
1881 2151 8.846211 TCGCATAAGATATGTGATATCCGATAA 58.154 33.333 9.01 0.00 42.03 1.75
1942 2212 7.994911 TCTGCACATTTCCATAGTATCAAAGAT 59.005 33.333 0.00 0.00 0.00 2.40
1950 2220 8.023021 ACTAGATTCTGCACATTTCCATAGTA 57.977 34.615 0.00 0.00 0.00 1.82
1957 2227 7.834068 TGTCTAACTAGATTCTGCACATTTC 57.166 36.000 0.00 0.00 34.39 2.17
1962 2232 9.534565 TTGAATATGTCTAACTAGATTCTGCAC 57.465 33.333 0.00 0.00 34.39 4.57
2028 2298 7.653311 TGTCAAATCTCATATATGACTGTTCGG 59.347 37.037 11.49 0.80 40.70 4.30
2029 2299 8.483218 GTGTCAAATCTCATATATGACTGTTCG 58.517 37.037 11.49 1.50 40.70 3.95
2040 2310 9.458727 AATGTCAAGAAGTGTCAAATCTCATAT 57.541 29.630 0.00 0.00 0.00 1.78
2054 2324 5.237344 CGGTGAGAAGAAAATGTCAAGAAGT 59.763 40.000 0.00 0.00 0.00 3.01
2059 2329 4.035091 CACACGGTGAGAAGAAAATGTCAA 59.965 41.667 16.29 0.00 35.23 3.18
2061 2331 3.807622 TCACACGGTGAGAAGAAAATGTC 59.192 43.478 16.29 0.00 37.67 3.06
2104 2374 3.357203 TGGTACTCTTTTGTTGGTGCAA 58.643 40.909 0.00 0.00 0.00 4.08
2107 2377 5.766150 TGATTGGTACTCTTTTGTTGGTG 57.234 39.130 0.00 0.00 0.00 4.17
2150 2421 5.221641 ACTCCATGTGCTGTCTGTTAGTTAA 60.222 40.000 0.00 0.00 0.00 2.01
2185 2456 8.788813 GTTTTGATTGCGAACAAACTATATGAG 58.211 33.333 8.77 0.00 39.77 2.90
2257 2564 0.105246 ATAGTGCCTAGCCTGAGCCT 60.105 55.000 0.00 0.00 41.25 4.58
2258 2565 0.761802 AATAGTGCCTAGCCTGAGCC 59.238 55.000 0.00 0.00 41.25 4.70
2259 2566 3.070302 AGTTAATAGTGCCTAGCCTGAGC 59.930 47.826 0.00 0.00 40.32 4.26
2260 2567 4.262249 GGAGTTAATAGTGCCTAGCCTGAG 60.262 50.000 0.00 0.00 0.00 3.35
2261 2568 3.641906 GGAGTTAATAGTGCCTAGCCTGA 59.358 47.826 0.00 0.00 0.00 3.86
2262 2569 3.553096 CGGAGTTAATAGTGCCTAGCCTG 60.553 52.174 0.00 0.00 0.00 4.85
2263 2570 2.628657 CGGAGTTAATAGTGCCTAGCCT 59.371 50.000 0.00 0.00 0.00 4.58
2264 2571 2.626743 TCGGAGTTAATAGTGCCTAGCC 59.373 50.000 0.00 0.00 0.00 3.93
2265 2572 3.568853 TCTCGGAGTTAATAGTGCCTAGC 59.431 47.826 4.69 0.00 0.00 3.42
2469 2807 4.443457 AAGACAAGCTTAGCACAGAAGTGA 60.443 41.667 7.07 0.00 40.79 3.41


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

AutoCloner maintained by Alex Coulton.