Multiple sequence alignment - TraesCS5D01G278900

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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 TraesCS5D01G278900 chr5D 100.000 3200 0 0 1 3200 381030185 381026986 0.000000e+00 5910.0
1 TraesCS5D01G278900 chr5B 94.341 2032 89 18 1189 3200 457127838 457125813 0.000000e+00 3092.0
2 TraesCS5D01G278900 chr5B 89.351 385 16 8 790 1160 457128277 457127904 8.090000e-126 460.0
3 TraesCS5D01G278900 chr5B 88.000 275 9 8 218 490 457128884 457128632 1.440000e-78 303.0
4 TraesCS5D01G278900 chr5A 94.036 2029 94 11 1189 3200 481896370 481894352 0.000000e+00 3051.0
5 TraesCS5D01G278900 chr5A 93.890 491 28 2 1 490 481897654 481897165 0.000000e+00 739.0
6 TraesCS5D01G278900 chr5A 89.974 379 15 13 793 1158 481896807 481896439 4.830000e-128 468.0
7 TraesCS5D01G278900 chr5A 90.000 210 16 2 521 730 481897028 481896824 1.890000e-67 267.0
8 TraesCS5D01G278900 chr5A 90.667 75 4 3 1660 1732 483701517 483701444 2.630000e-16 97.1


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 TraesCS5D01G278900 chr5D 381026986 381030185 3199 True 5910.00 5910 100.000 1 3200 1 chr5D.!!$R1 3199
1 TraesCS5D01G278900 chr5B 457125813 457128884 3071 True 1285.00 3092 90.564 218 3200 3 chr5B.!!$R1 2982
2 TraesCS5D01G278900 chr5A 481894352 481897654 3302 True 1131.25 3051 91.975 1 3200 4 chr5A.!!$R2 3199

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
764 871 0.034756 GCCCCAACCAACAACATTCC 59.965 55.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2214 2415 2.04162 ACAGGTTGGTGTGGAATAGCAT 59.958 45.455 0.0 0.0 34.77 3.79 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
52 53 6.046885 GCTTATGAGCTGATCTTTGACTTC 57.953 41.667 1.49 0.00 45.65 3.01
64 65 6.919662 TGATCTTTGACTTCAAGCACAAATTC 59.080 34.615 9.72 10.14 37.15 2.17
67 68 1.971962 GACTTCAAGCACAAATTCGCG 59.028 47.619 0.00 0.00 0.00 5.87
102 103 3.989782 TGGTGAAACAACCAGGTGT 57.010 47.368 0.00 0.00 45.43 4.16
144 145 7.992754 ATTGAAGACACAGATTTTCTTAGCT 57.007 32.000 0.00 0.00 29.54 3.32
153 154 6.373774 CACAGATTTTCTTAGCTTCTGGACAT 59.626 38.462 12.64 0.00 38.46 3.06
191 192 3.806316 ACATGTAAAGCTTTTCGTCCG 57.194 42.857 18.47 5.51 0.00 4.79
362 364 2.096496 GCATGTTAGCAGTGCAAGTAGG 59.904 50.000 19.20 3.88 38.68 3.18
384 386 3.392882 CAGGCAGAATTGGTTTTGTTCC 58.607 45.455 0.00 0.00 0.00 3.62
386 388 1.792367 GCAGAATTGGTTTTGTTCCGC 59.208 47.619 0.00 0.00 0.00 5.54
409 411 9.152595 CCGCTTCTCTTTTCTAGTAACTTAAAT 57.847 33.333 0.00 0.00 0.00 1.40
467 469 5.163923 GCCTTTTGAATATGCTGAAAACTGC 60.164 40.000 0.00 0.00 0.00 4.40
477 479 0.106769 TGAAAACTGCCAGCCACTGA 60.107 50.000 0.00 0.00 32.44 3.41
482 484 1.002990 CTGCCAGCCACTGATGTCA 60.003 57.895 0.00 0.00 32.44 3.58
485 487 1.023513 GCCAGCCACTGATGTCACTC 61.024 60.000 0.00 0.00 32.44 3.51
486 488 0.322648 CCAGCCACTGATGTCACTCA 59.677 55.000 0.00 0.00 32.44 3.41
491 584 1.620323 CCACTGATGTCACTCACCTGA 59.380 52.381 0.00 0.00 0.00 3.86
515 608 5.707298 AGGATCAATGTTTCAGTGTCGAATT 59.293 36.000 0.00 0.00 31.07 2.17
519 612 7.117241 TCAATGTTTCAGTGTCGAATTCTAC 57.883 36.000 3.52 3.36 31.07 2.59
536 643 4.335082 TCTACGATGAACAAATTTGCCG 57.665 40.909 18.12 14.73 0.00 5.69
552 659 0.459078 GCCGTAGACCTACTTGACCC 59.541 60.000 5.74 0.00 34.04 4.46
554 661 2.454538 CCGTAGACCTACTTGACCCTT 58.545 52.381 5.74 0.00 34.04 3.95
568 675 3.239449 TGACCCTTCTCTGCACTCTTAA 58.761 45.455 0.00 0.00 0.00 1.85
587 694 0.458543 ATGCAGGTGATGTCGTCGTC 60.459 55.000 0.00 0.00 0.00 4.20
678 785 0.178929 ACTCCCTTTCGAGACCCAGT 60.179 55.000 0.00 0.00 33.83 4.00
695 802 0.179029 AGTTGCAGTAACCACCGCTT 60.179 50.000 0.00 0.00 40.24 4.68
696 803 1.071071 AGTTGCAGTAACCACCGCTTA 59.929 47.619 0.00 0.00 40.24 3.09
697 804 1.196127 GTTGCAGTAACCACCGCTTAC 59.804 52.381 0.00 0.00 33.01 2.34
698 805 0.393448 TGCAGTAACCACCGCTTACA 59.607 50.000 0.00 0.00 0.00 2.41
699 806 1.002659 TGCAGTAACCACCGCTTACAT 59.997 47.619 0.00 0.00 0.00 2.29
700 807 2.081462 GCAGTAACCACCGCTTACATT 58.919 47.619 0.00 0.00 0.00 2.71
701 808 2.159572 GCAGTAACCACCGCTTACATTG 60.160 50.000 0.00 0.00 0.00 2.82
702 809 2.081462 AGTAACCACCGCTTACATTGC 58.919 47.619 0.00 0.00 0.00 3.56
708 815 2.223340 CCACCGCTTACATTGCATCTTC 60.223 50.000 0.00 0.00 0.00 2.87
712 819 2.713011 GCTTACATTGCATCTTCGCAG 58.287 47.619 0.00 0.00 44.14 5.18
714 821 3.786818 GCTTACATTGCATCTTCGCAGTC 60.787 47.826 0.00 0.00 44.14 3.51
730 837 1.006571 GTCGAGCCAAACGAGGACA 60.007 57.895 0.00 0.00 40.37 4.02
732 839 0.108804 TCGAGCCAAACGAGGACATC 60.109 55.000 0.00 0.00 34.85 3.06
733 840 0.389817 CGAGCCAAACGAGGACATCA 60.390 55.000 0.00 0.00 0.00 3.07
734 841 1.740380 CGAGCCAAACGAGGACATCAT 60.740 52.381 0.00 0.00 0.00 2.45
735 842 2.359900 GAGCCAAACGAGGACATCATT 58.640 47.619 0.00 0.00 0.00 2.57
736 843 2.352960 GAGCCAAACGAGGACATCATTC 59.647 50.000 0.00 0.00 0.00 2.67
737 844 2.083774 GCCAAACGAGGACATCATTCA 58.916 47.619 0.00 0.00 0.00 2.57
738 845 2.159517 GCCAAACGAGGACATCATTCAC 60.160 50.000 0.00 0.00 0.00 3.18
739 846 3.338249 CCAAACGAGGACATCATTCACT 58.662 45.455 0.00 0.00 0.00 3.41
740 847 3.753272 CCAAACGAGGACATCATTCACTT 59.247 43.478 0.00 0.00 0.00 3.16
741 848 4.142816 CCAAACGAGGACATCATTCACTTC 60.143 45.833 0.00 0.00 0.00 3.01
743 850 4.478206 ACGAGGACATCATTCACTTCAT 57.522 40.909 0.00 0.00 0.00 2.57
744 851 4.437239 ACGAGGACATCATTCACTTCATC 58.563 43.478 0.00 0.00 0.00 2.92
745 852 3.488678 CGAGGACATCATTCACTTCATCG 59.511 47.826 0.00 0.00 34.67 3.84
746 853 3.201290 AGGACATCATTCACTTCATCGC 58.799 45.455 0.00 0.00 0.00 4.58
747 854 2.289002 GGACATCATTCACTTCATCGCC 59.711 50.000 0.00 0.00 0.00 5.54
748 855 2.289002 GACATCATTCACTTCATCGCCC 59.711 50.000 0.00 0.00 0.00 6.13
749 856 1.605710 CATCATTCACTTCATCGCCCC 59.394 52.381 0.00 0.00 0.00 5.80
750 857 0.617935 TCATTCACTTCATCGCCCCA 59.382 50.000 0.00 0.00 0.00 4.96
751 858 1.004161 TCATTCACTTCATCGCCCCAA 59.996 47.619 0.00 0.00 0.00 4.12
752 859 1.133025 CATTCACTTCATCGCCCCAAC 59.867 52.381 0.00 0.00 0.00 3.77
753 860 0.608035 TTCACTTCATCGCCCCAACC 60.608 55.000 0.00 0.00 0.00 3.77
754 861 1.303236 CACTTCATCGCCCCAACCA 60.303 57.895 0.00 0.00 0.00 3.67
755 862 0.893270 CACTTCATCGCCCCAACCAA 60.893 55.000 0.00 0.00 0.00 3.67
756 863 0.893727 ACTTCATCGCCCCAACCAAC 60.894 55.000 0.00 0.00 0.00 3.77
757 864 0.893270 CTTCATCGCCCCAACCAACA 60.893 55.000 0.00 0.00 0.00 3.33
758 865 0.468214 TTCATCGCCCCAACCAACAA 60.468 50.000 0.00 0.00 0.00 2.83
759 866 1.175983 TCATCGCCCCAACCAACAAC 61.176 55.000 0.00 0.00 0.00 3.32
760 867 1.152652 ATCGCCCCAACCAACAACA 60.153 52.632 0.00 0.00 0.00 3.33
761 868 0.541764 ATCGCCCCAACCAACAACAT 60.542 50.000 0.00 0.00 0.00 2.71
762 869 0.757188 TCGCCCCAACCAACAACATT 60.757 50.000 0.00 0.00 0.00 2.71
763 870 0.319469 CGCCCCAACCAACAACATTC 60.319 55.000 0.00 0.00 0.00 2.67
764 871 0.034756 GCCCCAACCAACAACATTCC 59.965 55.000 0.00 0.00 0.00 3.01
765 872 1.418334 CCCCAACCAACAACATTCCA 58.582 50.000 0.00 0.00 0.00 3.53
766 873 1.977129 CCCCAACCAACAACATTCCAT 59.023 47.619 0.00 0.00 0.00 3.41
767 874 2.289569 CCCCAACCAACAACATTCCATG 60.290 50.000 0.00 0.00 0.00 3.66
768 875 2.632028 CCCAACCAACAACATTCCATGA 59.368 45.455 0.00 0.00 0.00 3.07
769 876 3.261390 CCCAACCAACAACATTCCATGAT 59.739 43.478 0.00 0.00 0.00 2.45
770 877 4.247258 CCAACCAACAACATTCCATGATG 58.753 43.478 0.00 0.00 38.79 3.07
771 878 3.598019 ACCAACAACATTCCATGATGC 57.402 42.857 0.00 0.00 36.63 3.91
772 879 3.167485 ACCAACAACATTCCATGATGCT 58.833 40.909 0.00 0.00 36.63 3.79
773 880 3.194116 ACCAACAACATTCCATGATGCTC 59.806 43.478 0.00 0.00 36.63 4.26
774 881 3.193903 CCAACAACATTCCATGATGCTCA 59.806 43.478 0.00 0.00 36.63 4.26
775 882 4.421058 CAACAACATTCCATGATGCTCAG 58.579 43.478 0.00 0.00 36.63 3.35
776 883 3.959293 ACAACATTCCATGATGCTCAGA 58.041 40.909 0.00 0.00 36.63 3.27
777 884 4.533815 ACAACATTCCATGATGCTCAGAT 58.466 39.130 0.00 0.00 36.63 2.90
778 885 4.338400 ACAACATTCCATGATGCTCAGATG 59.662 41.667 0.00 0.00 36.63 2.90
779 886 2.885266 ACATTCCATGATGCTCAGATGC 59.115 45.455 0.00 0.00 0.00 3.91
780 887 1.589803 TTCCATGATGCTCAGATGCG 58.410 50.000 0.00 0.00 35.36 4.73
781 888 0.250166 TCCATGATGCTCAGATGCGG 60.250 55.000 0.00 0.00 35.36 5.69
782 889 0.250166 CCATGATGCTCAGATGCGGA 60.250 55.000 0.00 0.00 35.36 5.54
783 890 1.149148 CATGATGCTCAGATGCGGAG 58.851 55.000 0.00 0.00 35.36 4.63
784 891 1.046204 ATGATGCTCAGATGCGGAGA 58.954 50.000 0.00 0.00 34.24 3.71
785 892 0.388294 TGATGCTCAGATGCGGAGAG 59.612 55.000 0.00 0.00 34.24 3.20
835 947 0.321387 CACAGCTGGACAGTGATGCT 60.321 55.000 19.93 0.00 37.98 3.79
928 1040 4.640201 ACCATGTGTATCATTGTAGCAACC 59.360 41.667 0.00 0.00 34.09 3.77
1016 1136 5.531634 TGAATTCACAGTGCTGGAAATTTC 58.468 37.500 9.83 9.83 32.64 2.17
1039 1165 3.331478 AGTTCTGATCTTGTCTGCTGG 57.669 47.619 0.00 0.00 0.00 4.85
1044 1170 1.558294 TGATCTTGTCTGCTGGCATCT 59.442 47.619 0.00 0.00 0.00 2.90
1087 1214 4.761235 TCTTCGACGTTGTCTGAACTAT 57.239 40.909 1.96 0.00 0.00 2.12
1088 1215 5.117355 TCTTCGACGTTGTCTGAACTATT 57.883 39.130 1.96 0.00 0.00 1.73
1089 1216 5.152097 TCTTCGACGTTGTCTGAACTATTC 58.848 41.667 1.96 0.00 0.00 1.75
1090 1217 4.761235 TCGACGTTGTCTGAACTATTCT 57.239 40.909 1.96 0.00 0.00 2.40
1091 1218 4.473199 TCGACGTTGTCTGAACTATTCTG 58.527 43.478 1.96 0.00 0.00 3.02
1092 1219 4.214758 TCGACGTTGTCTGAACTATTCTGA 59.785 41.667 1.96 0.00 35.61 3.27
1093 1220 4.555360 CGACGTTGTCTGAACTATTCTGAG 59.445 45.833 0.00 0.00 38.14 3.35
1160 1291 5.986135 ACTGTACTAGCAAAAGACAGTTGAG 59.014 40.000 0.26 0.00 46.50 3.02
1161 1292 6.156748 TGTACTAGCAAAAGACAGTTGAGA 57.843 37.500 0.00 0.00 0.00 3.27
1162 1293 5.983720 TGTACTAGCAAAAGACAGTTGAGAC 59.016 40.000 0.00 0.00 0.00 3.36
1163 1294 5.023533 ACTAGCAAAAGACAGTTGAGACA 57.976 39.130 0.00 0.00 0.00 3.41
1165 1296 3.878778 AGCAAAAGACAGTTGAGACACT 58.121 40.909 0.00 0.00 0.00 3.55
1288 1473 3.159347 GGCGGGGAAGGATACGGT 61.159 66.667 0.00 0.00 46.39 4.83
1534 1722 4.452733 CTCCCCTTCACCGTCGCC 62.453 72.222 0.00 0.00 0.00 5.54
1803 1991 2.424302 GTACACCACGTGCTGGGT 59.576 61.111 15.02 10.07 45.78 4.51
1969 2157 2.358247 GACATGGTCGTGGCCGTT 60.358 61.111 0.00 0.00 35.01 4.44
1984 2172 3.124921 GTTCATGGGCCGGTCACG 61.125 66.667 9.07 0.00 40.55 4.35
2068 2256 2.173356 CCATGGGGTTCTTGATGCTCTA 59.827 50.000 2.85 0.00 0.00 2.43
2134 2334 5.843673 TTAGTGCTGGTTCACATTGAAAA 57.156 34.783 0.00 0.00 38.22 2.29
2199 2399 8.415553 CAGCCTGATGGAATGAACAAAAATATA 58.584 33.333 0.00 0.00 34.57 0.86
2283 2484 4.947388 TGTAAATCTGCATTCTACCAACCC 59.053 41.667 0.00 0.00 0.00 4.11
2465 2666 1.687563 AGGGCAAAGTGTGTGTAACC 58.312 50.000 0.00 0.00 34.36 2.85
2554 2755 2.526432 GACAGTCAGAGACCCAGGTAA 58.474 52.381 0.00 0.00 32.18 2.85
2839 3041 2.380081 GCATGCTGCATTTGCTTCC 58.620 52.632 18.29 0.00 44.26 3.46
2884 3087 4.104579 ACCATGCCATGTACCTGAATATGA 59.895 41.667 3.63 0.00 0.00 2.15
2892 3095 9.182214 GCCATGTACCTGAATATGATATTCATT 57.818 33.333 23.67 17.13 38.26 2.57
2928 3131 2.497273 ACTTGGTCCTGCAATTAATGGC 59.503 45.455 7.96 7.96 0.00 4.40
3000 3203 4.790765 TGTTCTCACATCTTCATCGTCT 57.209 40.909 0.00 0.00 0.00 4.18
3003 3206 2.493278 TCTCACATCTTCATCGTCTGCA 59.507 45.455 0.00 0.00 0.00 4.41
3065 3268 1.197721 GGATGAAACAACGTGGAGCTG 59.802 52.381 0.00 0.00 0.00 4.24
3117 3332 7.966246 AATACGGAACATTGTAAACTGTACA 57.034 32.000 0.00 0.00 0.00 2.90
3171 3386 6.821388 TCTGAAATAGTTCCTCTTCTATGCC 58.179 40.000 0.00 0.00 32.28 4.40
3174 3389 2.270434 AGTTCCTCTTCTATGCCCCA 57.730 50.000 0.00 0.00 0.00 4.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 1.710249 CAGAACGCGAATTTGTGCTTG 59.290 47.619 15.93 0.00 0.00 4.01
64 65 1.428448 TTCCATCAAGTCAGAACGCG 58.572 50.000 3.53 3.53 0.00 6.01
67 68 4.326826 TCACCATTCCATCAAGTCAGAAC 58.673 43.478 0.00 0.00 0.00 3.01
144 145 8.474831 TCTCGTAGATTGAATTTATGTCCAGAA 58.525 33.333 0.00 0.00 33.89 3.02
179 180 2.234300 TGAGTTTCGGACGAAAAGCT 57.766 45.000 19.84 14.12 44.40 3.74
352 354 0.606401 TTCTGCCTGCCTACTTGCAC 60.606 55.000 0.00 0.00 36.04 4.57
362 364 2.531522 ACAAAACCAATTCTGCCTGC 57.468 45.000 0.00 0.00 0.00 4.85
467 469 0.322648 TGAGTGACATCAGTGGCTGG 59.677 55.000 0.00 0.00 33.19 4.85
477 479 2.825223 TGATCCTCAGGTGAGTGACAT 58.175 47.619 6.25 0.00 40.48 3.06
482 484 4.042062 TGAAACATTGATCCTCAGGTGAGT 59.958 41.667 6.25 0.00 40.48 3.41
485 487 4.155462 CACTGAAACATTGATCCTCAGGTG 59.845 45.833 0.00 0.00 38.25 4.00
486 488 4.202503 ACACTGAAACATTGATCCTCAGGT 60.203 41.667 0.00 0.00 38.25 4.00
491 584 4.271696 TCGACACTGAAACATTGATCCT 57.728 40.909 0.00 0.00 0.00 3.24
492 585 5.551760 ATTCGACACTGAAACATTGATCC 57.448 39.130 0.00 0.00 0.00 3.36
502 595 5.305139 TCATCGTAGAATTCGACACTGAA 57.695 39.130 17.35 3.71 43.58 3.02
515 608 3.749088 ACGGCAAATTTGTTCATCGTAGA 59.251 39.130 19.03 0.00 45.75 2.59
519 612 4.088648 GTCTACGGCAAATTTGTTCATCG 58.911 43.478 19.03 15.83 0.00 3.84
536 643 4.399934 CAGAGAAGGGTCAAGTAGGTCTAC 59.600 50.000 0.12 0.12 36.35 2.59
568 675 0.458543 GACGACGACATCACCTGCAT 60.459 55.000 0.00 0.00 0.00 3.96
575 682 6.327279 AGAAATATATGGACGACGACATCA 57.673 37.500 0.00 0.00 0.00 3.07
587 694 3.347216 CTGCGGGGGAAGAAATATATGG 58.653 50.000 0.00 0.00 0.00 2.74
695 802 1.926510 CGACTGCGAAGATGCAATGTA 59.073 47.619 0.00 0.00 45.74 2.29
696 803 0.723414 CGACTGCGAAGATGCAATGT 59.277 50.000 0.00 0.00 45.74 2.71
697 804 1.001624 TCGACTGCGAAGATGCAATG 58.998 50.000 0.00 0.00 45.74 2.82
698 805 3.441244 TCGACTGCGAAGATGCAAT 57.559 47.368 0.00 0.00 45.74 3.56
699 806 4.985845 TCGACTGCGAAGATGCAA 57.014 50.000 0.00 0.00 45.74 4.08
708 815 2.720758 CTCGTTTGGCTCGACTGCG 61.721 63.158 0.00 0.00 39.35 5.18
712 819 0.389948 ATGTCCTCGTTTGGCTCGAC 60.390 55.000 0.00 0.00 33.71 4.20
714 821 0.389817 TGATGTCCTCGTTTGGCTCG 60.390 55.000 0.00 0.00 0.00 5.03
730 837 1.212688 TGGGGCGATGAAGTGAATGAT 59.787 47.619 0.00 0.00 0.00 2.45
732 839 1.133025 GTTGGGGCGATGAAGTGAATG 59.867 52.381 0.00 0.00 0.00 2.67
733 840 1.463674 GTTGGGGCGATGAAGTGAAT 58.536 50.000 0.00 0.00 0.00 2.57
734 841 0.608035 GGTTGGGGCGATGAAGTGAA 60.608 55.000 0.00 0.00 0.00 3.18
735 842 1.002624 GGTTGGGGCGATGAAGTGA 60.003 57.895 0.00 0.00 0.00 3.41
736 843 0.893270 TTGGTTGGGGCGATGAAGTG 60.893 55.000 0.00 0.00 0.00 3.16
737 844 0.893727 GTTGGTTGGGGCGATGAAGT 60.894 55.000 0.00 0.00 0.00 3.01
738 845 0.893270 TGTTGGTTGGGGCGATGAAG 60.893 55.000 0.00 0.00 0.00 3.02
739 846 0.468214 TTGTTGGTTGGGGCGATGAA 60.468 50.000 0.00 0.00 0.00 2.57
740 847 1.151679 TTGTTGGTTGGGGCGATGA 59.848 52.632 0.00 0.00 0.00 2.92
741 848 1.288752 GTTGTTGGTTGGGGCGATG 59.711 57.895 0.00 0.00 0.00 3.84
743 850 0.757188 AATGTTGTTGGTTGGGGCGA 60.757 50.000 0.00 0.00 0.00 5.54
744 851 0.319469 GAATGTTGTTGGTTGGGGCG 60.319 55.000 0.00 0.00 0.00 6.13
745 852 0.034756 GGAATGTTGTTGGTTGGGGC 59.965 55.000 0.00 0.00 0.00 5.80
746 853 1.418334 TGGAATGTTGTTGGTTGGGG 58.582 50.000 0.00 0.00 0.00 4.96
747 854 2.632028 TCATGGAATGTTGTTGGTTGGG 59.368 45.455 0.00 0.00 46.80 4.12
748 855 4.247258 CATCATGGAATGTTGTTGGTTGG 58.753 43.478 0.00 0.00 46.80 3.77
749 856 3.680937 GCATCATGGAATGTTGTTGGTTG 59.319 43.478 0.00 0.00 46.80 3.77
750 857 3.579586 AGCATCATGGAATGTTGTTGGTT 59.420 39.130 0.00 0.00 46.80 3.67
751 858 3.167485 AGCATCATGGAATGTTGTTGGT 58.833 40.909 0.00 0.00 46.80 3.67
752 859 3.193903 TGAGCATCATGGAATGTTGTTGG 59.806 43.478 0.00 0.00 46.80 3.77
753 860 4.443913 TGAGCATCATGGAATGTTGTTG 57.556 40.909 0.00 0.00 46.80 3.33
767 874 3.198187 CTCTCCGCATCTGAGCATC 57.802 57.895 0.00 0.00 0.00 3.91
771 878 1.592131 GCAGCTCTCCGCATCTGAG 60.592 63.158 0.00 0.00 42.61 3.35
772 879 2.498248 GCAGCTCTCCGCATCTGA 59.502 61.111 0.00 0.00 42.61 3.27
773 880 2.588314 GGCAGCTCTCCGCATCTG 60.588 66.667 0.00 0.00 42.61 2.90
774 881 3.859414 GGGCAGCTCTCCGCATCT 61.859 66.667 0.00 0.00 42.61 2.90
786 893 3.243367 GCTATCTATCTATCTGCGGGCAG 60.243 52.174 14.36 14.36 44.86 4.85
787 894 2.690497 GCTATCTATCTATCTGCGGGCA 59.310 50.000 0.00 0.00 0.00 5.36
788 895 2.955660 AGCTATCTATCTATCTGCGGGC 59.044 50.000 0.00 0.00 0.00 6.13
835 947 2.110188 ACTTCAGGAGAGTAGTCACCCA 59.890 50.000 10.14 0.00 34.04 4.51
928 1040 6.139435 TGTTAACATTGTTCAATAGTGCGTG 58.861 36.000 3.59 0.00 0.00 5.34
1016 1136 4.431809 CAGCAGACAAGATCAGAACTAGG 58.568 47.826 0.00 0.00 0.00 3.02
1023 1149 1.941294 GATGCCAGCAGACAAGATCAG 59.059 52.381 0.00 0.00 0.00 2.90
1039 1165 4.608948 ACAGTAGGCTGGTAATAGATGC 57.391 45.455 0.00 0.00 46.62 3.91
1044 1170 9.609346 GAAGAAAAATACAGTAGGCTGGTAATA 57.391 33.333 0.00 0.00 46.62 0.98
1124 1251 5.070685 TGCTAGTACAGTTCAGAGTTGAGA 58.929 41.667 0.00 0.00 34.15 3.27
1127 1254 6.701841 TCTTTTGCTAGTACAGTTCAGAGTTG 59.298 38.462 0.00 0.00 0.00 3.16
1160 1291 6.041409 TCTGAATCTGAAGGATATCCAGTGTC 59.959 42.308 23.81 14.46 38.89 3.67
1161 1292 5.901853 TCTGAATCTGAAGGATATCCAGTGT 59.098 40.000 23.81 5.78 38.89 3.55
1162 1293 6.416631 TCTGAATCTGAAGGATATCCAGTG 57.583 41.667 23.81 10.50 38.89 3.66
1163 1294 8.176105 TCTATCTGAATCTGAAGGATATCCAGT 58.824 37.037 23.81 11.01 38.89 4.00
1165 1296 8.176105 ACTCTATCTGAATCTGAAGGATATCCA 58.824 37.037 23.81 2.66 38.89 3.41
1166 1297 8.469200 CACTCTATCTGAATCTGAAGGATATCC 58.531 40.741 14.41 14.41 33.71 2.59
2068 2256 4.114794 GTTGAGAACAAAATGTTGCAGCT 58.885 39.130 1.17 0.00 41.28 4.24
2214 2415 2.041620 ACAGGTTGGTGTGGAATAGCAT 59.958 45.455 0.00 0.00 34.77 3.79
2554 2755 5.819991 TCAAGAGGAATGCTACAAAGGATT 58.180 37.500 0.00 0.00 45.47 3.01
2848 3050 9.102757 GTACATGGCATGGTAATGATAATAGAG 57.897 37.037 29.49 0.33 35.67 2.43
2884 3087 4.398988 TGTTGCTTCCTGCGAAATGAATAT 59.601 37.500 0.00 0.00 46.63 1.28
2892 3095 0.662619 CAAGTGTTGCTTCCTGCGAA 59.337 50.000 0.00 0.00 46.63 4.70
2894 3097 1.283793 CCAAGTGTTGCTTCCTGCG 59.716 57.895 0.00 0.00 46.63 5.18
2928 3131 2.344025 GACCTTAGCACGTTTAGGGTG 58.656 52.381 13.44 0.00 38.42 4.61
3000 3203 0.824109 CGTCCCTAATCCTCACTGCA 59.176 55.000 0.00 0.00 0.00 4.41
3003 3206 2.500504 GGTTTCGTCCCTAATCCTCACT 59.499 50.000 0.00 0.00 0.00 3.41
3117 3332 8.353423 AGTTTTATGCAGAAATGTAATCTGGT 57.647 30.769 7.43 0.00 43.60 4.00


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

AutoCloner maintained by Alex Coulton.