Multiple sequence alignment - TraesCS2B01G192100

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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 TraesCS2B01G192100 chr2B 100.000 2261 0 0 1 2261 167500611 167498351 0.000000e+00 4176.0
1 TraesCS2B01G192100 chr4A 99.389 655 3 1 1 654 29085576 29086230 0.000000e+00 1186.0
2 TraesCS2B01G192100 chr3B 99.237 655 5 0 1 655 592869148 592869802 0.000000e+00 1182.0
3 TraesCS2B01G192100 chr3B 98.928 653 7 0 1 653 26602698 26603350 0.000000e+00 1168.0
4 TraesCS2B01G192100 chr3B 93.902 656 36 4 1 655 13735905 13735253 0.000000e+00 987.0
5 TraesCS2B01G192100 chr6B 93.636 660 38 4 1 659 687059265 687058609 0.000000e+00 983.0
6 TraesCS2B01G192100 chr6B 93.171 659 38 5 1 655 46663824 46663169 0.000000e+00 961.0
7 TraesCS2B01G192100 chrUn 93.588 655 38 4 1 654 8798753 8798102 0.000000e+00 974.0
8 TraesCS2B01G192100 chr7A 93.435 655 39 4 1 654 611318114 611317463 0.000000e+00 968.0
9 TraesCS2B01G192100 chr5B 93.282 655 41 3 1 655 437922822 437922171 0.000000e+00 963.0
10 TraesCS2B01G192100 chr2D 88.360 799 53 8 723 1490 117200361 117199572 0.000000e+00 924.0
11 TraesCS2B01G192100 chr2D 90.909 495 29 3 1764 2242 117198292 117197798 0.000000e+00 651.0
12 TraesCS2B01G192100 chr2D 95.714 70 3 0 657 726 117213121 117213052 1.840000e-21 113.0
13 TraesCS2B01G192100 chr2D 90.141 71 6 1 1322 1391 117219457 117219387 8.600000e-15 91.6
14 TraesCS2B01G192100 chr2A 86.086 884 57 30 691 1540 118489455 118488604 0.000000e+00 891.0
15 TraesCS2B01G192100 chr2A 75.448 391 28 31 1662 2010 118488488 118488124 6.550000e-26 128.0
16 TraesCS2B01G192100 chr2A 86.747 83 10 1 1324 1405 118667883 118667801 8.600000e-15 91.6


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 TraesCS2B01G192100 chr2B 167498351 167500611 2260 True 4176.0 4176 100.0000 1 2261 1 chr2B.!!$R1 2260
1 TraesCS2B01G192100 chr4A 29085576 29086230 654 False 1186.0 1186 99.3890 1 654 1 chr4A.!!$F1 653
2 TraesCS2B01G192100 chr3B 592869148 592869802 654 False 1182.0 1182 99.2370 1 655 1 chr3B.!!$F2 654
3 TraesCS2B01G192100 chr3B 26602698 26603350 652 False 1168.0 1168 98.9280 1 653 1 chr3B.!!$F1 652
4 TraesCS2B01G192100 chr3B 13735253 13735905 652 True 987.0 987 93.9020 1 655 1 chr3B.!!$R1 654
5 TraesCS2B01G192100 chr6B 687058609 687059265 656 True 983.0 983 93.6360 1 659 1 chr6B.!!$R2 658
6 TraesCS2B01G192100 chr6B 46663169 46663824 655 True 961.0 961 93.1710 1 655 1 chr6B.!!$R1 654
7 TraesCS2B01G192100 chrUn 8798102 8798753 651 True 974.0 974 93.5880 1 654 1 chrUn.!!$R1 653
8 TraesCS2B01G192100 chr7A 611317463 611318114 651 True 968.0 968 93.4350 1 654 1 chr7A.!!$R1 653
9 TraesCS2B01G192100 chr5B 437922171 437922822 651 True 963.0 963 93.2820 1 655 1 chr5B.!!$R1 654
10 TraesCS2B01G192100 chr2D 117197798 117200361 2563 True 787.5 924 89.6345 723 2242 2 chr2D.!!$R3 1519
11 TraesCS2B01G192100 chr2A 118488124 118489455 1331 True 509.5 891 80.7670 691 2010 2 chr2A.!!$R2 1319

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
872 884 0.317799 CTCGCAGCCTGCAGATAGAT 59.682 55.0 17.39 0.0 45.36 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2052 3183 0.109597 CGCCTGAAACATGCCTTCAC 60.11 55.0 6.71 0.0 0.0 3.18 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
680 686 9.331282 AGGAATATTATCTAATGAATTAGCCGC 57.669 33.333 5.36 0.00 39.60 6.53
681 687 8.560374 GGAATATTATCTAATGAATTAGCCGCC 58.440 37.037 5.36 0.00 39.60 6.13
682 688 8.451908 AATATTATCTAATGAATTAGCCGCCC 57.548 34.615 5.36 0.00 39.60 6.13
683 689 2.163818 TCTAATGAATTAGCCGCCCG 57.836 50.000 5.36 0.00 39.60 6.13
684 690 0.517316 CTAATGAATTAGCCGCCCGC 59.483 55.000 0.00 0.00 34.03 6.13
685 691 1.225376 TAATGAATTAGCCGCCCGCG 61.225 55.000 0.00 0.00 44.76 6.46
686 692 3.750373 ATGAATTAGCCGCCCGCGT 62.750 57.895 4.92 0.00 44.76 6.01
687 693 3.637030 GAATTAGCCGCCCGCGTC 61.637 66.667 4.92 0.00 44.76 5.19
721 727 6.737254 AAATAGTTAGGGTCAAACGATGTG 57.263 37.500 0.00 0.00 32.00 3.21
742 749 6.591001 TGTGATATGCCTTGCTCATTACTAA 58.409 36.000 0.00 0.00 0.00 2.24
746 753 7.720957 TGATATGCCTTGCTCATTACTAACATT 59.279 33.333 0.00 0.00 0.00 2.71
749 756 4.142403 GCCTTGCTCATTACTAACATTGCA 60.142 41.667 0.00 0.00 0.00 4.08
760 767 9.151471 CATTACTAACATTGCAGTAAGTGTAGT 57.849 33.333 13.68 0.00 39.80 2.73
762 769 5.932303 ACTAACATTGCAGTAAGTGTAGTGG 59.068 40.000 0.00 0.00 33.47 4.00
804 816 5.509670 GCTCAAGCCTGAAATTTACCTTTGT 60.510 40.000 0.00 0.00 34.31 2.83
806 818 5.833131 TCAAGCCTGAAATTTACCTTTGTCT 59.167 36.000 0.00 0.00 0.00 3.41
810 822 5.325239 CCTGAAATTTACCTTTGTCTCCCT 58.675 41.667 0.00 0.00 0.00 4.20
829 841 3.434167 CCCTCCACCAATAACTGAGATGG 60.434 52.174 0.00 0.00 38.91 3.51
841 853 2.370189 ACTGAGATGGGATTCGGATTCC 59.630 50.000 9.88 9.88 0.00 3.01
872 884 0.317799 CTCGCAGCCTGCAGATAGAT 59.682 55.000 17.39 0.00 45.36 1.98
873 885 1.543358 CTCGCAGCCTGCAGATAGATA 59.457 52.381 17.39 0.00 45.36 1.98
874 886 1.543358 TCGCAGCCTGCAGATAGATAG 59.457 52.381 17.39 0.00 45.36 2.08
875 887 1.543358 CGCAGCCTGCAGATAGATAGA 59.457 52.381 17.39 0.00 45.36 1.98
894 913 4.905412 AGAAACGAATAAAGTCACGAGC 57.095 40.909 0.00 0.00 0.00 5.03
899 918 2.028523 CGAATAAAGTCACGAGCTGCTG 59.971 50.000 7.01 1.88 0.00 4.41
901 920 1.008875 TAAAGTCACGAGCTGCTGCG 61.009 55.000 7.01 13.13 45.42 5.18
902 921 2.978452 AAAGTCACGAGCTGCTGCGT 62.978 55.000 7.01 13.81 45.42 5.24
906 925 4.074526 ACGAGCTGCTGCGTGGAT 62.075 61.111 20.54 0.00 45.42 3.41
907 926 2.816958 CGAGCTGCTGCGTGGATT 60.817 61.111 7.01 0.00 45.42 3.01
913 932 0.745486 CTGCTGCGTGGATTGGATCA 60.745 55.000 0.00 0.00 0.00 2.92
917 936 1.667724 CTGCGTGGATTGGATCAACTC 59.332 52.381 0.00 0.00 30.77 3.01
918 937 1.003003 TGCGTGGATTGGATCAACTCA 59.997 47.619 0.00 0.00 30.77 3.41
920 939 2.159517 GCGTGGATTGGATCAACTCAAC 60.160 50.000 0.00 0.00 30.77 3.18
921 940 3.338249 CGTGGATTGGATCAACTCAACT 58.662 45.455 0.00 0.00 30.77 3.16
922 941 4.503910 CGTGGATTGGATCAACTCAACTA 58.496 43.478 0.00 0.00 30.77 2.24
923 942 5.118990 CGTGGATTGGATCAACTCAACTAT 58.881 41.667 0.00 0.00 30.77 2.12
947 966 3.909258 GAGGCACGACCGCGAGAAA 62.909 63.158 8.23 0.00 46.52 2.52
948 967 3.039588 GGCACGACCGCGAGAAAA 61.040 61.111 8.23 0.00 41.64 2.29
976 1014 2.615869 GACTAAGCTGGTTCTGAGCTG 58.384 52.381 0.00 0.00 46.32 4.24
1064 1102 0.314302 AAGAAGTGGGTCGACGTGAG 59.686 55.000 9.92 0.00 0.00 3.51
1252 1290 1.137872 ACCTCGGCATGAACATCTCTC 59.862 52.381 0.00 0.00 0.00 3.20
1264 1302 2.588620 ACATCTCTCCCCGTTAGCTAG 58.411 52.381 0.00 0.00 0.00 3.42
1289 1327 2.531206 CTAGAGCGTTACCAGTTCAGC 58.469 52.381 0.00 0.00 0.00 4.26
1327 1365 7.463961 TGGTAACATAGTATCTAAGCCTAGC 57.536 40.000 0.00 0.00 46.17 3.42
1328 1366 7.008332 TGGTAACATAGTATCTAAGCCTAGCA 58.992 38.462 0.00 0.00 46.17 3.49
1355 1393 2.557924 TGATGGGTTCAACTTGACATGC 59.442 45.455 0.00 0.00 0.00 4.06
1356 1394 1.327303 TGGGTTCAACTTGACATGCC 58.673 50.000 0.00 0.00 0.00 4.40
1460 1507 5.051508 GCAGTTGCTTAATTGTGAGTGTTTG 60.052 40.000 0.00 0.00 38.21 2.93
1470 1517 5.574891 TTGTGAGTGTTTGTGCTGTAAAT 57.425 34.783 0.00 0.00 0.00 1.40
1513 2118 8.654997 AGTGCTCAATATATACAGATTGTCCTT 58.345 33.333 0.00 0.00 35.35 3.36
1524 2129 0.823356 ATTGTCCTTGTGGCTTGCGT 60.823 50.000 0.00 0.00 0.00 5.24
1531 2136 2.288152 CCTTGTGGCTTGCGTATTTTGT 60.288 45.455 0.00 0.00 0.00 2.83
1543 2604 2.848302 CGTATTTTGTCTACGGACGTCC 59.152 50.000 25.28 25.28 44.83 4.79
1594 2667 2.202479 GCTTGATGCCGAAACCGC 60.202 61.111 0.00 0.00 35.15 5.68
1609 2682 2.336088 CGCACCCCAACTTTGCAG 59.664 61.111 0.00 0.00 35.93 4.41
1646 2719 5.995897 GGACCGCCACTTTATTATGTTATCT 59.004 40.000 0.00 0.00 0.00 1.98
1647 2720 6.485648 GGACCGCCACTTTATTATGTTATCTT 59.514 38.462 0.00 0.00 0.00 2.40
1653 2726 8.395633 GCCACTTTATTATGTTATCTTTGTCGT 58.604 33.333 0.00 0.00 0.00 4.34
1725 2799 3.376859 CACACAGTTGTTTTGCCTAGTCA 59.623 43.478 0.00 0.00 31.66 3.41
1769 2872 3.313526 CAGTTGTCCACTTTGAAGTCCAG 59.686 47.826 0.00 0.00 37.08 3.86
1776 2879 5.998363 GTCCACTTTGAAGTCCAGTCTTAAT 59.002 40.000 0.00 0.00 37.08 1.40
1779 2882 8.383175 TCCACTTTGAAGTCCAGTCTTAATATT 58.617 33.333 0.00 0.00 37.08 1.28
1799 2902 4.563337 TTAACCTGACGACATATCCTCG 57.437 45.455 0.00 0.00 37.17 4.63
1847 2951 1.147473 TGCTGCACAACGATACACTG 58.853 50.000 0.00 0.00 0.00 3.66
1932 3055 2.212900 GAAAAGACACCGCCCATGGC 62.213 60.000 6.09 0.58 46.75 4.40
2010 3133 2.499289 ACTCTGATGATCTTCGCCTTGT 59.501 45.455 4.32 0.00 0.00 3.16
2018 3141 0.320374 TCTTCGCCTTGTCGTCCATT 59.680 50.000 0.00 0.00 0.00 3.16
2025 3148 2.268298 CCTTGTCGTCCATTCCTAACG 58.732 52.381 0.00 0.00 37.74 3.18
2026 3149 2.094390 CCTTGTCGTCCATTCCTAACGA 60.094 50.000 0.00 0.00 42.59 3.85
2029 3152 4.196626 TGTCGTCCATTCCTAACGATTT 57.803 40.909 0.00 0.00 45.88 2.17
2052 3183 1.901085 GGTCTAGCACCACCTGAGG 59.099 63.158 0.00 0.00 45.98 3.86
2076 3207 1.971167 GCATGTTTCAGGCGGTCCA 60.971 57.895 0.00 0.00 30.03 4.02
2078 3209 0.606401 CATGTTTCAGGCGGTCCAGT 60.606 55.000 0.00 0.00 33.74 4.00
2094 3225 3.005897 GTCCAGTTAGCACTTCAGAGACA 59.994 47.826 0.00 0.00 0.00 3.41
2100 3231 3.118905 AGCACTTCAGAGACAGGTTTC 57.881 47.619 0.00 0.00 0.00 2.78
2124 3255 4.748102 TGTAGTAGCGTTGGAAAGAACTTG 59.252 41.667 0.00 0.00 0.00 3.16
2158 3289 1.553248 CAACCGTGGTAGAATCTCCCA 59.447 52.381 0.00 0.00 0.00 4.37
2218 3349 9.191995 GTTTCATCGGTCATTTTATTTTCTGTT 57.808 29.630 0.00 0.00 0.00 3.16
2224 3355 6.468956 CGGTCATTTTATTTTCTGTTCATCCG 59.531 38.462 0.00 0.00 0.00 4.18
2242 3373 1.413382 CGATCTGCATCTAACCGCTC 58.587 55.000 0.00 0.00 0.00 5.03
2243 3374 1.269257 CGATCTGCATCTAACCGCTCA 60.269 52.381 0.00 0.00 0.00 4.26
2244 3375 2.402305 GATCTGCATCTAACCGCTCAG 58.598 52.381 0.00 0.00 0.00 3.35
2245 3376 1.474330 TCTGCATCTAACCGCTCAGA 58.526 50.000 0.00 0.00 0.00 3.27
2246 3377 1.406898 TCTGCATCTAACCGCTCAGAG 59.593 52.381 0.00 0.00 0.00 3.35
2247 3378 0.461548 TGCATCTAACCGCTCAGAGG 59.538 55.000 0.00 0.00 0.00 3.69
2248 3379 0.461961 GCATCTAACCGCTCAGAGGT 59.538 55.000 0.00 0.00 45.29 3.85
2249 3380 1.537135 GCATCTAACCGCTCAGAGGTC 60.537 57.143 0.00 0.00 41.95 3.85
2250 3381 1.025812 ATCTAACCGCTCAGAGGTCG 58.974 55.000 0.00 0.00 41.95 4.79
2251 3382 0.322277 TCTAACCGCTCAGAGGTCGT 60.322 55.000 0.00 0.00 41.95 4.34
2252 3383 0.099082 CTAACCGCTCAGAGGTCGTC 59.901 60.000 0.00 0.00 41.95 4.20
2253 3384 0.322277 TAACCGCTCAGAGGTCGTCT 60.322 55.000 0.00 0.00 41.95 4.18
2254 3385 1.179814 AACCGCTCAGAGGTCGTCTT 61.180 55.000 0.00 0.00 41.95 3.01
2255 3386 1.137825 CCGCTCAGAGGTCGTCTTC 59.862 63.158 0.00 0.00 30.64 2.87
2256 3387 1.309499 CCGCTCAGAGGTCGTCTTCT 61.309 60.000 0.00 0.00 30.64 2.85
2257 3388 0.523966 CGCTCAGAGGTCGTCTTCTT 59.476 55.000 0.00 0.00 30.64 2.52
2258 3389 1.068194 CGCTCAGAGGTCGTCTTCTTT 60.068 52.381 0.00 0.00 30.64 2.52
2259 3390 2.601804 GCTCAGAGGTCGTCTTCTTTC 58.398 52.381 0.00 0.00 30.64 2.62
2260 3391 2.857618 CTCAGAGGTCGTCTTCTTTCG 58.142 52.381 0.00 0.00 30.64 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
656 662 8.560374 GGGCGGCTAATTCATTAGATAATATTC 58.440 37.037 9.56 0.00 41.72 1.75
659 665 6.046593 CGGGCGGCTAATTCATTAGATAATA 58.953 40.000 9.56 0.00 41.72 0.98
660 666 4.876107 CGGGCGGCTAATTCATTAGATAAT 59.124 41.667 9.56 0.00 41.72 1.28
661 667 4.250464 CGGGCGGCTAATTCATTAGATAA 58.750 43.478 9.56 0.00 41.72 1.75
662 668 3.857052 CGGGCGGCTAATTCATTAGATA 58.143 45.455 9.56 0.00 41.72 1.98
663 669 2.699954 CGGGCGGCTAATTCATTAGAT 58.300 47.619 9.56 0.00 41.72 1.98
664 670 1.876416 GCGGGCGGCTAATTCATTAGA 60.876 52.381 9.56 0.00 41.72 2.10
665 671 0.517316 GCGGGCGGCTAATTCATTAG 59.483 55.000 9.56 2.60 42.00 1.73
666 672 1.225376 CGCGGGCGGCTAATTCATTA 61.225 55.000 15.31 0.00 40.44 1.90
667 673 2.542907 CGCGGGCGGCTAATTCATT 61.543 57.895 15.31 0.00 40.44 2.57
668 674 2.972505 CGCGGGCGGCTAATTCAT 60.973 61.111 15.31 0.00 40.44 2.57
669 675 4.460683 ACGCGGGCGGCTAATTCA 62.461 61.111 18.03 0.00 44.69 2.57
670 676 3.637030 GACGCGGGCGGCTAATTC 61.637 66.667 18.03 0.66 45.30 2.17
681 687 4.776322 TTGCCTGATGGGACGCGG 62.776 66.667 12.47 0.00 37.23 6.46
682 688 1.656818 ATTTTGCCTGATGGGACGCG 61.657 55.000 3.53 3.53 37.23 6.01
683 689 1.334869 CTATTTTGCCTGATGGGACGC 59.665 52.381 0.00 0.00 37.23 5.19
684 690 2.643551 ACTATTTTGCCTGATGGGACG 58.356 47.619 0.00 0.00 37.23 4.79
685 691 4.580580 CCTAACTATTTTGCCTGATGGGAC 59.419 45.833 0.00 0.00 37.23 4.46
686 692 4.386312 CCCTAACTATTTTGCCTGATGGGA 60.386 45.833 0.00 0.00 37.23 4.37
687 693 3.891366 CCCTAACTATTTTGCCTGATGGG 59.109 47.826 0.00 0.00 38.36 4.00
688 694 4.536765 ACCCTAACTATTTTGCCTGATGG 58.463 43.478 0.00 0.00 0.00 3.51
689 695 5.192927 TGACCCTAACTATTTTGCCTGATG 58.807 41.667 0.00 0.00 0.00 3.07
695 701 5.616488 TCGTTTGACCCTAACTATTTTGC 57.384 39.130 0.00 0.00 0.00 3.68
721 727 7.678947 ATGTTAGTAATGAGCAAGGCATATC 57.321 36.000 0.00 0.00 0.00 1.63
742 749 3.074412 GCCACTACACTTACTGCAATGT 58.926 45.455 0.00 0.00 0.00 2.71
746 753 4.221924 TCATTAGCCACTACACTTACTGCA 59.778 41.667 0.00 0.00 0.00 4.41
749 756 5.593095 TCGATCATTAGCCACTACACTTACT 59.407 40.000 0.00 0.00 0.00 2.24
760 767 2.340337 CATCGCATCGATCATTAGCCA 58.660 47.619 0.00 0.00 45.19 4.75
762 769 1.998315 AGCATCGCATCGATCATTAGC 59.002 47.619 0.00 0.00 45.19 3.09
804 816 3.107601 CTCAGTTATTGGTGGAGGGAGA 58.892 50.000 0.00 0.00 0.00 3.71
806 818 3.199442 TCTCAGTTATTGGTGGAGGGA 57.801 47.619 0.00 0.00 0.00 4.20
810 822 3.459828 TCCCATCTCAGTTATTGGTGGA 58.540 45.455 0.00 0.00 0.00 4.02
841 853 1.811266 CTGCGAGGGGTGTTGATCG 60.811 63.158 0.00 0.00 38.19 3.69
872 884 5.571741 CAGCTCGTGACTTTATTCGTTTCTA 59.428 40.000 0.00 0.00 0.00 2.10
873 885 4.386049 CAGCTCGTGACTTTATTCGTTTCT 59.614 41.667 0.00 0.00 0.00 2.52
874 886 4.629065 CAGCTCGTGACTTTATTCGTTTC 58.371 43.478 0.00 0.00 0.00 2.78
875 887 3.120649 GCAGCTCGTGACTTTATTCGTTT 60.121 43.478 0.00 0.00 0.00 3.60
894 913 0.745486 TGATCCAATCCACGCAGCAG 60.745 55.000 0.00 0.00 0.00 4.24
899 918 1.737838 TGAGTTGATCCAATCCACGC 58.262 50.000 0.00 0.00 30.83 5.34
901 920 8.506168 TTTATAGTTGAGTTGATCCAATCCAC 57.494 34.615 0.00 0.00 0.00 4.02
902 921 9.177608 CTTTTATAGTTGAGTTGATCCAATCCA 57.822 33.333 0.00 0.00 0.00 3.41
906 925 7.829211 CCTCCTTTTATAGTTGAGTTGATCCAA 59.171 37.037 0.00 0.00 0.00 3.53
907 926 7.338710 CCTCCTTTTATAGTTGAGTTGATCCA 58.661 38.462 0.00 0.00 0.00 3.41
913 932 4.935808 CGTGCCTCCTTTTATAGTTGAGTT 59.064 41.667 0.00 0.00 0.00 3.01
917 936 3.621715 GGTCGTGCCTCCTTTTATAGTTG 59.378 47.826 0.00 0.00 0.00 3.16
918 937 3.677976 CGGTCGTGCCTCCTTTTATAGTT 60.678 47.826 0.00 0.00 34.25 2.24
920 939 2.470821 CGGTCGTGCCTCCTTTTATAG 58.529 52.381 0.00 0.00 34.25 1.31
921 940 1.472026 GCGGTCGTGCCTCCTTTTATA 60.472 52.381 0.00 0.00 34.25 0.98
922 941 0.743345 GCGGTCGTGCCTCCTTTTAT 60.743 55.000 0.00 0.00 34.25 1.40
923 942 1.375013 GCGGTCGTGCCTCCTTTTA 60.375 57.895 0.00 0.00 34.25 1.52
947 966 1.421646 ACCAGCTTAGTCCTTGCAGTT 59.578 47.619 0.00 0.00 0.00 3.16
948 967 1.059913 ACCAGCTTAGTCCTTGCAGT 58.940 50.000 0.00 0.00 0.00 4.40
976 1014 4.442192 GGCCTATGCTATATGGTGTCTAGC 60.442 50.000 0.00 0.00 38.65 3.42
1252 1290 2.027751 GCGAGCTAGCTAACGGGG 59.972 66.667 19.38 4.23 0.00 5.73
1282 1320 0.995024 ACTGGGCATTAGGCTGAACT 59.005 50.000 0.00 0.00 44.01 3.01
1284 1322 2.158623 CCATACTGGGCATTAGGCTGAA 60.159 50.000 0.00 0.00 44.01 3.02
1289 1327 4.431416 TGTTACCATACTGGGCATTAGG 57.569 45.455 0.00 0.00 43.37 2.69
1306 1344 7.610692 ACGATGCTAGGCTTAGATACTATGTTA 59.389 37.037 7.11 0.00 0.00 2.41
1315 1353 2.959030 TCACACGATGCTAGGCTTAGAT 59.041 45.455 7.11 0.00 0.00 1.98
1328 1366 2.813754 CAAGTTGAACCCATCACACGAT 59.186 45.455 0.00 0.00 37.92 3.73
1355 1393 9.613428 TTACACATATTATTCAGGAGAAGTTGG 57.387 33.333 0.00 0.00 37.14 3.77
1396 1443 4.690731 CGTCGTCGTAACAAACCTTAAA 57.309 40.909 0.00 0.00 0.00 1.52
1460 1507 6.343226 TGCAACTTTCAAAATTTACAGCAC 57.657 33.333 0.00 0.00 0.00 4.40
1493 1540 7.663081 AGCCACAAGGACAATCTGTATATATTG 59.337 37.037 0.00 0.00 36.89 1.90
1513 2118 2.226330 AGACAAAATACGCAAGCCACA 58.774 42.857 0.00 0.00 45.62 4.17
1524 2129 3.119388 CCAGGACGTCCGTAGACAAAATA 60.119 47.826 28.26 0.00 43.73 1.40
1531 2136 2.044555 CAGCCAGGACGTCCGTAGA 61.045 63.158 28.26 0.00 42.08 2.59
1594 2667 1.152567 TCCCTGCAAAGTTGGGGTG 60.153 57.895 8.05 0.00 41.22 4.61
1609 2682 1.376037 CGGTCCTGAAAGCAGTCCC 60.376 63.158 0.00 0.00 40.63 4.46
1622 2695 5.995897 AGATAACATAATAAAGTGGCGGTCC 59.004 40.000 0.00 0.00 0.00 4.46
1624 2697 7.338449 ACAAAGATAACATAATAAAGTGGCGGT 59.662 33.333 0.00 0.00 0.00 5.68
1653 2726 9.214957 GTATTCATATGTCCATTCCGTATTTCA 57.785 33.333 1.90 0.00 0.00 2.69
1665 2738 8.407832 CAAAAAGATGCAGTATTCATATGTCCA 58.592 33.333 1.90 0.00 0.00 4.02
1725 2799 1.064389 GCTAAAATGCTGGAGGAGGGT 60.064 52.381 0.00 0.00 0.00 4.34
1776 2879 5.999600 TCGAGGATATGTCGTCAGGTTAATA 59.000 40.000 11.91 0.00 38.78 0.98
1779 2882 3.562973 GTCGAGGATATGTCGTCAGGTTA 59.437 47.826 11.91 0.00 38.78 2.85
1799 2902 7.005062 AGTAGCATCGTGAAATACATTTGTC 57.995 36.000 0.00 0.00 0.00 3.18
1847 2951 3.180387 GCATGCTTGTTTTCTTGAACGTC 59.820 43.478 11.37 0.00 32.18 4.34
2046 3169 1.815003 GAAACATGCCTTCACCTCAGG 59.185 52.381 0.00 0.00 34.08 3.86
2052 3183 0.109597 CGCCTGAAACATGCCTTCAC 60.110 55.000 6.71 0.00 0.00 3.18
2076 3207 3.235200 ACCTGTCTCTGAAGTGCTAACT 58.765 45.455 0.00 0.00 38.71 2.24
2078 3209 4.345257 AGAAACCTGTCTCTGAAGTGCTAA 59.655 41.667 0.00 0.00 0.00 3.09
2094 3225 2.895404 TCCAACGCTACTACAGAAACCT 59.105 45.455 0.00 0.00 0.00 3.50
2100 3231 4.557205 AGTTCTTTCCAACGCTACTACAG 58.443 43.478 0.00 0.00 0.00 2.74
2124 3255 0.804989 CGGTTGCTCAAGAATGTCCC 59.195 55.000 0.00 0.00 0.00 4.46
2200 3331 7.535139 TCGGATGAACAGAAAATAAAATGACC 58.465 34.615 0.00 0.00 0.00 4.02
2201 3332 9.226345 GATCGGATGAACAGAAAATAAAATGAC 57.774 33.333 0.00 0.00 0.00 3.06
2218 3349 2.029918 CGGTTAGATGCAGATCGGATGA 60.030 50.000 0.00 0.00 33.34 2.92
2224 3355 2.035193 TCTGAGCGGTTAGATGCAGATC 59.965 50.000 4.82 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.