Multiple sequence alignment - TraesCS3D01G039700

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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 TraesCS3D01G039700 chr3D 100.000 2681 0 0 1 2681 15101491 15098811 0.000000e+00 4951
1 TraesCS3D01G039700 chr3D 79.222 823 111 43 1417 2207 15212645 15213439 3.960000e-143 518
2 TraesCS3D01G039700 chr3D 84.398 532 65 9 895 1417 15211116 15211638 8.560000e-140 507
3 TraesCS3D01G039700 chr3D 80.164 610 82 27 75 653 15201589 15200988 1.150000e-113 420
4 TraesCS3D01G039700 chr3D 80.780 359 46 15 1026 1364 15219593 15219948 2.650000e-65 259
5 TraesCS3D01G039700 chr3D 87.719 114 11 1 790 900 15209527 15209640 2.170000e-26 130
6 TraesCS3D01G039700 chr3A 96.320 1902 45 11 793 2678 21290738 21292630 0.000000e+00 3101
7 TraesCS3D01G039700 chr3A 89.316 702 41 8 1 668 21290039 21290740 0.000000e+00 850
8 TraesCS3D01G039700 chr3A 95.069 507 25 0 1179 1685 21315914 21316420 0.000000e+00 798
9 TraesCS3D01G039700 chr3A 85.714 742 84 12 998 1728 21176185 21175455 0.000000e+00 763
10 TraesCS3D01G039700 chr3A 77.526 881 138 37 1070 1917 21272533 21273386 2.420000e-130 475
11 TraesCS3D01G039700 chr3A 89.181 342 29 5 235 569 21314252 21314592 1.150000e-113 420
12 TraesCS3D01G039700 chr3A 84.466 412 48 9 793 1188 21314724 21315135 2.500000e-105 392
13 TraesCS3D01G039700 chr3A 83.023 430 57 10 75 494 21237107 21237530 2.520000e-100 375
14 TraesCS3D01G039700 chr3A 81.205 415 67 8 75 483 21176929 21176520 9.260000e-85 324
15 TraesCS3D01G039700 chr3A 83.735 332 47 4 169 493 21148754 21148423 9.320000e-80 307
16 TraesCS3D01G039700 chr1D 82.653 1274 149 39 983 2209 46361415 46362663 0.000000e+00 1062
17 TraesCS3D01G039700 chr1B 85.375 759 84 16 1074 1818 65703768 65703023 0.000000e+00 761
18 TraesCS3D01G039700 chr3B 86.127 692 53 14 1 671 22156999 22156330 0.000000e+00 706
19 TraesCS3D01G039700 chr3B 83.861 632 73 9 950 1568 22199374 22199989 2.310000e-160 575
20 TraesCS3D01G039700 chr3B 83.257 436 57 10 74 494 22165284 22164850 1.160000e-103 387
21 TraesCS3D01G039700 chr3B 83.218 435 50 12 75 494 22179907 22179481 7.010000e-101 377


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 TraesCS3D01G039700 chr3D 15098811 15101491 2680 True 4951.000000 4951 100.000000 1 2681 1 chr3D.!!$R1 2680
1 TraesCS3D01G039700 chr3D 15200988 15201589 601 True 420.000000 420 80.164000 75 653 1 chr3D.!!$R2 578
2 TraesCS3D01G039700 chr3D 15209527 15213439 3912 False 385.000000 518 83.779667 790 2207 3 chr3D.!!$F2 1417
3 TraesCS3D01G039700 chr3A 21290039 21292630 2591 False 1975.500000 3101 92.818000 1 2678 2 chr3A.!!$F3 2677
4 TraesCS3D01G039700 chr3A 21175455 21176929 1474 True 543.500000 763 83.459500 75 1728 2 chr3A.!!$R2 1653
5 TraesCS3D01G039700 chr3A 21314252 21316420 2168 False 536.666667 798 89.572000 235 1685 3 chr3A.!!$F4 1450
6 TraesCS3D01G039700 chr3A 21272533 21273386 853 False 475.000000 475 77.526000 1070 1917 1 chr3A.!!$F2 847
7 TraesCS3D01G039700 chr1D 46361415 46362663 1248 False 1062.000000 1062 82.653000 983 2209 1 chr1D.!!$F1 1226
8 TraesCS3D01G039700 chr1B 65703023 65703768 745 True 761.000000 761 85.375000 1074 1818 1 chr1B.!!$R1 744
9 TraesCS3D01G039700 chr3B 22156330 22156999 669 True 706.000000 706 86.127000 1 671 1 chr3B.!!$R1 670
10 TraesCS3D01G039700 chr3B 22199374 22199989 615 False 575.000000 575 83.861000 950 1568 1 chr3B.!!$F1 618

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
191 201 0.043940 AAGGTGGAGAGATGGAGCCT 59.956 55.0 0.00 0.00 0.00 4.58 F
749 904 0.397941 TTGAGAACTGCTCCAGTGGG 59.602 55.0 9.92 0.89 44.62 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1238 3697 1.069978 TCGTGACTGCAAGGTTCATGA 59.930 47.619 0.0 0.0 39.3 3.07 R
2596 6134 1.294659 CGAGGAGGAGTTGCAGTTGC 61.295 60.000 0.0 0.0 42.5 4.17 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
36 37 0.605589 CACCCAGAGATATCGGAGCC 59.394 60.000 0.00 0.00 0.00 4.70
56 57 2.545952 CCATACACATCGAGGCTGGTAC 60.546 54.545 0.00 0.00 0.00 3.34
87 88 1.072505 AACGCGGGAAGACCACAAT 59.927 52.632 12.47 0.00 40.22 2.71
151 152 1.745115 GGCCAGCGCAATGTAGTCA 60.745 57.895 11.47 0.00 36.38 3.41
191 201 0.043940 AAGGTGGAGAGATGGAGCCT 59.956 55.000 0.00 0.00 0.00 4.58
205 215 2.365635 GCCTCCAGACCTGCCCTA 60.366 66.667 0.00 0.00 0.00 3.53
511 549 4.451150 GCTGGTCCGACATGGCGA 62.451 66.667 25.84 5.65 37.80 5.54
525 563 4.430765 GCGACGTGACGGGGACAT 62.431 66.667 10.66 0.00 0.00 3.06
583 687 2.728180 CGGAATCGGCGATGAGGA 59.272 61.111 24.73 0.00 0.00 3.71
584 688 1.372251 CGGAATCGGCGATGAGGAG 60.372 63.158 24.73 9.67 0.00 3.69
585 689 1.666234 GGAATCGGCGATGAGGAGC 60.666 63.158 24.73 8.62 0.00 4.70
587 691 0.598562 GAATCGGCGATGAGGAGCTA 59.401 55.000 24.73 0.00 0.00 3.32
589 693 1.528292 ATCGGCGATGAGGAGCTACC 61.528 60.000 23.36 0.00 39.35 3.18
590 694 2.737830 GGCGATGAGGAGCTACCC 59.262 66.667 0.00 0.00 40.05 3.69
670 825 8.932791 ACAAGAATTATTATTATTAGGGCGACG 58.067 33.333 0.00 0.00 0.00 5.12
671 826 8.932791 CAAGAATTATTATTATTAGGGCGACGT 58.067 33.333 0.00 0.00 0.00 4.34
672 827 8.475331 AGAATTATTATTATTAGGGCGACGTG 57.525 34.615 0.00 0.00 0.00 4.49
673 828 8.092687 AGAATTATTATTATTAGGGCGACGTGT 58.907 33.333 0.00 0.00 0.00 4.49
674 829 9.357652 GAATTATTATTATTAGGGCGACGTGTA 57.642 33.333 0.00 0.00 0.00 2.90
675 830 8.693542 ATTATTATTATTAGGGCGACGTGTAC 57.306 34.615 0.00 0.00 0.00 2.90
676 831 2.473530 TTATTAGGGCGACGTGTACG 57.526 50.000 0.00 2.43 46.33 3.67
686 841 3.615368 CGTGTACGTGCGGTTTGA 58.385 55.556 0.00 0.00 34.11 2.69
687 842 2.146954 CGTGTACGTGCGGTTTGAT 58.853 52.632 0.00 0.00 34.11 2.57
688 843 0.509499 CGTGTACGTGCGGTTTGATT 59.491 50.000 0.00 0.00 34.11 2.57
689 844 1.720233 CGTGTACGTGCGGTTTGATTG 60.720 52.381 0.00 0.00 34.11 2.67
690 845 1.527736 GTGTACGTGCGGTTTGATTGA 59.472 47.619 0.00 0.00 0.00 2.57
691 846 1.795872 TGTACGTGCGGTTTGATTGAG 59.204 47.619 0.00 0.00 0.00 3.02
692 847 2.063266 GTACGTGCGGTTTGATTGAGA 58.937 47.619 0.00 0.00 0.00 3.27
693 848 1.588674 ACGTGCGGTTTGATTGAGAA 58.411 45.000 0.00 0.00 0.00 2.87
694 849 1.263217 ACGTGCGGTTTGATTGAGAAC 59.737 47.619 0.00 0.00 0.00 3.01
695 850 1.531149 CGTGCGGTTTGATTGAGAACT 59.469 47.619 0.00 0.00 0.00 3.01
696 851 2.662791 CGTGCGGTTTGATTGAGAACTG 60.663 50.000 0.00 0.00 35.69 3.16
697 852 1.969103 GCGGTTTGATTGAGAACTGC 58.031 50.000 4.52 4.52 46.90 4.40
699 854 3.461946 CGGTTTGATTGAGAACTGCTC 57.538 47.619 0.00 0.00 44.21 4.26
700 855 2.160417 CGGTTTGATTGAGAACTGCTCC 59.840 50.000 0.00 0.00 43.26 4.70
701 856 2.160417 GGTTTGATTGAGAACTGCTCCG 59.840 50.000 0.00 0.00 43.26 4.63
702 857 3.067106 GTTTGATTGAGAACTGCTCCGA 58.933 45.455 0.00 0.00 43.26 4.55
703 858 3.616956 TTGATTGAGAACTGCTCCGAT 57.383 42.857 0.00 0.00 43.26 4.18
704 859 3.616956 TGATTGAGAACTGCTCCGATT 57.383 42.857 0.00 0.00 43.26 3.34
705 860 3.942829 TGATTGAGAACTGCTCCGATTT 58.057 40.909 0.00 0.00 43.26 2.17
706 861 4.326826 TGATTGAGAACTGCTCCGATTTT 58.673 39.130 0.00 0.00 43.26 1.82
707 862 4.761739 TGATTGAGAACTGCTCCGATTTTT 59.238 37.500 0.00 0.00 43.26 1.94
744 899 7.581213 TTTTTAAAGATTGAGAACTGCTCCA 57.419 32.000 0.00 0.00 43.26 3.86
745 900 6.808008 TTTAAAGATTGAGAACTGCTCCAG 57.192 37.500 0.00 0.00 43.26 3.86
747 902 3.331478 AGATTGAGAACTGCTCCAGTG 57.669 47.619 0.00 0.00 44.62 3.66
748 903 2.027377 AGATTGAGAACTGCTCCAGTGG 60.027 50.000 1.40 1.40 44.62 4.00
749 904 0.397941 TTGAGAACTGCTCCAGTGGG 59.602 55.000 9.92 0.89 44.62 4.61
750 905 0.764369 TGAGAACTGCTCCAGTGGGT 60.764 55.000 9.92 0.00 44.62 4.51
751 906 0.398318 GAGAACTGCTCCAGTGGGTT 59.602 55.000 9.92 5.20 44.62 4.11
752 907 0.398318 AGAACTGCTCCAGTGGGTTC 59.602 55.000 16.88 16.88 44.62 3.62
753 908 0.606673 GAACTGCTCCAGTGGGTTCC 60.607 60.000 9.92 0.00 44.62 3.62
754 909 2.046892 CTGCTCCAGTGGGTTCCG 60.047 66.667 9.92 0.00 34.93 4.30
755 910 2.847234 TGCTCCAGTGGGTTCCGT 60.847 61.111 9.92 0.00 34.93 4.69
756 911 2.397413 CTGCTCCAGTGGGTTCCGTT 62.397 60.000 9.92 0.00 34.93 4.44
757 912 1.228154 GCTCCAGTGGGTTCCGTTT 60.228 57.895 9.92 0.00 34.93 3.60
758 913 0.822121 GCTCCAGTGGGTTCCGTTTT 60.822 55.000 9.92 0.00 34.93 2.43
759 914 1.235724 CTCCAGTGGGTTCCGTTTTC 58.764 55.000 9.92 0.00 34.93 2.29
760 915 0.533308 TCCAGTGGGTTCCGTTTTCG 60.533 55.000 9.92 0.00 38.08 3.46
761 916 1.281656 CAGTGGGTTCCGTTTTCGC 59.718 57.895 0.00 0.00 42.58 4.70
762 917 1.895231 AGTGGGTTCCGTTTTCGCC 60.895 57.895 0.00 0.00 42.58 5.54
772 927 1.002251 CCGTTTTCGCCTACAAAGCAA 60.002 47.619 0.00 0.00 42.58 3.91
773 928 2.541999 CCGTTTTCGCCTACAAAGCAAA 60.542 45.455 0.00 0.00 42.58 3.68
775 930 2.415697 TTTCGCCTACAAAGCAAAGC 57.584 45.000 0.00 0.00 0.00 3.51
776 931 0.596082 TTCGCCTACAAAGCAAAGCC 59.404 50.000 0.00 0.00 0.00 4.35
786 941 3.756434 ACAAAGCAAAGCCATGTACGTAT 59.244 39.130 0.00 0.00 0.00 3.06
824 980 5.235516 AGTTGTACTCGGAACAGGTTATTG 58.764 41.667 0.00 0.00 0.00 1.90
828 984 4.884668 ACTCGGAACAGGTTATTGAGAA 57.115 40.909 12.08 0.00 0.00 2.87
853 1011 1.025812 AGCTCGGAATCAGACCTACG 58.974 55.000 0.00 0.00 0.00 3.51
857 1015 2.290093 CTCGGAATCAGACCTACGTACC 59.710 54.545 0.00 0.00 0.00 3.34
1065 2713 2.151502 AGGTCGATCCATCAGACACT 57.848 50.000 0.00 5.82 39.02 3.55
1072 2720 5.004448 TCGATCCATCAGACACTATCTACC 58.996 45.833 0.00 0.00 35.15 3.18
1082 2730 5.419155 CAGACACTATCTACCTTGTCAAGGA 59.581 44.000 33.76 18.05 43.47 3.36
1083 2731 6.071334 CAGACACTATCTACCTTGTCAAGGAA 60.071 42.308 33.76 19.90 43.47 3.36
1103 2751 4.459330 GAAAAGATCCAGGATAAGCAGCT 58.541 43.478 0.32 0.00 0.00 4.24
1128 2790 1.743252 CTTCAACGGGGAGCAGCTC 60.743 63.158 14.69 14.69 0.00 4.09
1146 2817 4.570663 GACGCGCTGGCCGACTAT 62.571 66.667 5.73 0.00 40.02 2.12
1218 3677 3.053842 AGAAGATGCAGATCCATGTGGTT 60.054 43.478 0.00 0.00 36.34 3.67
1223 3682 2.286872 GCAGATCCATGTGGTTGAGAG 58.713 52.381 0.00 0.00 36.34 3.20
1224 3683 2.286872 CAGATCCATGTGGTTGAGAGC 58.713 52.381 0.00 0.00 36.34 4.09
1728 5215 1.080025 GGTGTACTGCCGTGGTCTC 60.080 63.158 0.00 0.00 0.00 3.36
1959 5487 5.065218 GTCTACCACTTGGCATTGTTGATAG 59.935 44.000 0.00 0.00 39.32 2.08
2036 5567 1.438651 GCATCTCGTTGTGGTTAGCA 58.561 50.000 0.00 0.00 0.00 3.49
2096 5627 6.480763 TGGGTGATTAGCTTACTTTCAATCA 58.519 36.000 0.00 0.00 34.21 2.57
2125 5658 0.933047 TATGACGCACGAGCATACGC 60.933 55.000 5.50 0.00 42.27 4.42
2164 5697 9.793245 GACAATATAACAATACAATAGTGCGAC 57.207 33.333 0.00 0.00 0.00 5.19
2209 5747 4.137543 AGAGAACAAAGACCATTCCACAC 58.862 43.478 0.00 0.00 0.00 3.82
2228 5766 1.674057 CTCTATCCCCGGCCATGAC 59.326 63.158 2.24 0.00 0.00 3.06
2229 5767 0.833834 CTCTATCCCCGGCCATGACT 60.834 60.000 2.24 0.00 0.00 3.41
2230 5768 0.832135 TCTATCCCCGGCCATGACTC 60.832 60.000 2.24 0.00 0.00 3.36
2231 5769 1.074850 TATCCCCGGCCATGACTCA 60.075 57.895 2.24 0.00 0.00 3.41
2232 5770 0.473694 TATCCCCGGCCATGACTCAT 60.474 55.000 2.24 0.00 0.00 2.90
2233 5771 0.473694 ATCCCCGGCCATGACTCATA 60.474 55.000 2.24 0.00 0.00 2.15
2234 5772 1.121407 TCCCCGGCCATGACTCATAG 61.121 60.000 2.24 0.00 0.00 2.23
2235 5773 1.121407 CCCCGGCCATGACTCATAGA 61.121 60.000 2.24 0.00 0.00 1.98
2241 5779 3.201290 GGCCATGACTCATAGACTTGTG 58.799 50.000 0.00 0.00 0.00 3.33
2444 5982 4.261801 GTTGGAAGTAGCTAGCCATGAAA 58.738 43.478 12.13 0.00 0.00 2.69
2596 6134 1.505353 GCAAGCTAAGGTGCTGCAG 59.495 57.895 10.11 10.11 43.24 4.41
2633 6171 1.220749 GGGCCTCTACACATGCGAA 59.779 57.895 0.84 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 1.121407 CCGATATCTCTGGGTGGCCA 61.121 60.000 0.00 0.00 0.00 5.36
36 37 2.100749 TGTACCAGCCTCGATGTGTATG 59.899 50.000 0.00 0.00 0.00 2.39
56 57 1.154599 CGCGTTGCAACAGCTACTG 60.155 57.895 29.69 18.02 37.52 2.74
87 88 5.592054 CCGATCTCAATAGCAAAGACTACA 58.408 41.667 0.00 0.00 0.00 2.74
141 142 0.744414 CGCCCACCCTGACTACATTG 60.744 60.000 0.00 0.00 0.00 2.82
142 143 1.602237 CGCCCACCCTGACTACATT 59.398 57.895 0.00 0.00 0.00 2.71
165 175 1.045911 ATCTCTCCACCTTCTCCGCC 61.046 60.000 0.00 0.00 0.00 6.13
191 201 1.478837 CGTCTATAGGGCAGGTCTGGA 60.479 57.143 0.00 0.00 0.00 3.86
194 204 2.175069 TCTTCGTCTATAGGGCAGGTCT 59.825 50.000 0.00 0.00 0.00 3.85
379 402 4.681978 AGGGCGTGACGTCAAGGC 62.682 66.667 37.57 37.57 46.74 4.35
390 413 2.338984 GTCACGAGTCAAGGGCGT 59.661 61.111 0.00 0.00 39.04 5.68
511 549 1.895238 CCTTATGTCCCCGTCACGT 59.105 57.895 0.00 0.00 0.00 4.49
585 689 2.812011 GCCCATATTTTGCTACGGGTAG 59.188 50.000 1.45 1.45 35.99 3.18
587 691 1.687563 GCCCATATTTTGCTACGGGT 58.312 50.000 0.00 0.00 35.99 5.28
589 693 0.591170 CGGCCCATATTTTGCTACGG 59.409 55.000 0.00 0.00 0.00 4.02
590 694 0.591170 CCGGCCCATATTTTGCTACG 59.409 55.000 0.00 0.00 0.00 3.51
620 770 4.929819 ATTAATTAAATGGGCCGTGTCC 57.070 40.909 0.00 0.00 0.00 4.02
669 824 0.509499 AATCAAACCGCACGTACACG 59.491 50.000 0.00 0.00 46.33 4.49
670 825 1.527736 TCAATCAAACCGCACGTACAC 59.472 47.619 0.00 0.00 0.00 2.90
671 826 1.795872 CTCAATCAAACCGCACGTACA 59.204 47.619 0.00 0.00 0.00 2.90
672 827 2.063266 TCTCAATCAAACCGCACGTAC 58.937 47.619 0.00 0.00 0.00 3.67
673 828 2.442212 TCTCAATCAAACCGCACGTA 57.558 45.000 0.00 0.00 0.00 3.57
674 829 1.263217 GTTCTCAATCAAACCGCACGT 59.737 47.619 0.00 0.00 0.00 4.49
675 830 1.531149 AGTTCTCAATCAAACCGCACG 59.469 47.619 0.00 0.00 0.00 5.34
676 831 2.918131 GCAGTTCTCAATCAAACCGCAC 60.918 50.000 0.00 0.00 30.85 5.34
677 832 1.266718 GCAGTTCTCAATCAAACCGCA 59.733 47.619 0.00 0.00 30.85 5.69
678 833 1.537202 AGCAGTTCTCAATCAAACCGC 59.463 47.619 0.00 0.00 0.00 5.68
679 834 2.160417 GGAGCAGTTCTCAATCAAACCG 59.840 50.000 0.00 0.00 43.70 4.44
680 835 2.160417 CGGAGCAGTTCTCAATCAAACC 59.840 50.000 0.00 0.00 43.70 3.27
681 836 3.067106 TCGGAGCAGTTCTCAATCAAAC 58.933 45.455 0.00 0.00 43.70 2.93
682 837 3.401033 TCGGAGCAGTTCTCAATCAAA 57.599 42.857 0.00 0.00 43.70 2.69
683 838 3.616956 ATCGGAGCAGTTCTCAATCAA 57.383 42.857 0.00 0.00 43.70 2.57
684 839 3.616956 AATCGGAGCAGTTCTCAATCA 57.383 42.857 0.00 0.00 43.70 2.57
685 840 4.954092 AAAATCGGAGCAGTTCTCAATC 57.046 40.909 0.00 0.00 43.70 2.67
720 875 7.285401 ACTGGAGCAGTTCTCAATCTTTAAAAA 59.715 33.333 0.00 0.00 42.59 1.94
721 876 6.772716 ACTGGAGCAGTTCTCAATCTTTAAAA 59.227 34.615 0.00 0.00 42.59 1.52
722 877 6.205464 CACTGGAGCAGTTCTCAATCTTTAAA 59.795 38.462 0.00 0.00 42.59 1.52
723 878 5.702670 CACTGGAGCAGTTCTCAATCTTTAA 59.297 40.000 0.00 0.00 42.59 1.52
724 879 5.240891 CACTGGAGCAGTTCTCAATCTTTA 58.759 41.667 0.00 0.00 42.59 1.85
725 880 4.070716 CACTGGAGCAGTTCTCAATCTTT 58.929 43.478 0.00 0.00 42.59 2.52
726 881 3.558746 CCACTGGAGCAGTTCTCAATCTT 60.559 47.826 0.00 0.00 42.59 2.40
727 882 2.027377 CCACTGGAGCAGTTCTCAATCT 60.027 50.000 0.00 0.00 42.59 2.40
728 883 2.354259 CCACTGGAGCAGTTCTCAATC 58.646 52.381 0.00 0.00 42.59 2.67
729 884 1.004044 CCCACTGGAGCAGTTCTCAAT 59.996 52.381 0.00 0.00 42.59 2.57
730 885 0.397941 CCCACTGGAGCAGTTCTCAA 59.602 55.000 0.00 0.00 42.59 3.02
731 886 0.764369 ACCCACTGGAGCAGTTCTCA 60.764 55.000 0.00 0.00 42.59 3.27
732 887 0.398318 AACCCACTGGAGCAGTTCTC 59.602 55.000 0.00 0.00 42.59 2.87
733 888 0.398318 GAACCCACTGGAGCAGTTCT 59.602 55.000 0.00 0.00 42.59 3.01
734 889 0.606673 GGAACCCACTGGAGCAGTTC 60.607 60.000 0.00 1.73 42.59 3.01
735 890 1.456287 GGAACCCACTGGAGCAGTT 59.544 57.895 0.00 0.00 42.59 3.16
736 891 2.883828 CGGAACCCACTGGAGCAGT 61.884 63.158 0.00 0.00 46.51 4.40
737 892 2.046892 CGGAACCCACTGGAGCAG 60.047 66.667 0.00 0.00 37.52 4.24
738 893 1.990160 AAACGGAACCCACTGGAGCA 61.990 55.000 0.00 0.00 34.81 4.26
739 894 0.822121 AAAACGGAACCCACTGGAGC 60.822 55.000 0.00 0.00 34.81 4.70
740 895 1.235724 GAAAACGGAACCCACTGGAG 58.764 55.000 0.00 0.00 34.81 3.86
741 896 0.533308 CGAAAACGGAACCCACTGGA 60.533 55.000 0.00 0.00 34.81 3.86
742 897 1.946267 CGAAAACGGAACCCACTGG 59.054 57.895 0.00 0.00 37.80 4.00
743 898 1.281656 GCGAAAACGGAACCCACTG 59.718 57.895 0.00 0.00 0.00 3.66
744 899 1.895231 GGCGAAAACGGAACCCACT 60.895 57.895 0.00 0.00 0.00 4.00
745 900 0.603439 TAGGCGAAAACGGAACCCAC 60.603 55.000 0.00 0.00 0.00 4.61
746 901 0.603439 GTAGGCGAAAACGGAACCCA 60.603 55.000 0.00 0.00 0.00 4.51
747 902 0.603439 TGTAGGCGAAAACGGAACCC 60.603 55.000 0.00 0.00 0.00 4.11
748 903 1.228533 TTGTAGGCGAAAACGGAACC 58.771 50.000 0.00 0.00 0.00 3.62
749 904 2.912366 CTTTGTAGGCGAAAACGGAAC 58.088 47.619 0.00 0.00 0.00 3.62
750 905 1.264826 GCTTTGTAGGCGAAAACGGAA 59.735 47.619 0.00 0.00 0.00 4.30
751 906 0.869730 GCTTTGTAGGCGAAAACGGA 59.130 50.000 0.00 0.00 0.00 4.69
752 907 0.589223 TGCTTTGTAGGCGAAAACGG 59.411 50.000 0.00 0.00 0.00 4.44
753 908 2.392933 TTGCTTTGTAGGCGAAAACG 57.607 45.000 0.00 0.00 0.00 3.60
754 909 2.471370 GCTTTGCTTTGTAGGCGAAAAC 59.529 45.455 0.00 0.00 33.37 2.43
755 910 2.544903 GGCTTTGCTTTGTAGGCGAAAA 60.545 45.455 0.00 0.00 33.37 2.29
756 911 1.000717 GGCTTTGCTTTGTAGGCGAAA 60.001 47.619 0.00 0.00 33.37 3.46
757 912 0.596082 GGCTTTGCTTTGTAGGCGAA 59.404 50.000 0.00 0.00 0.00 4.70
758 913 0.536233 TGGCTTTGCTTTGTAGGCGA 60.536 50.000 0.00 0.00 37.28 5.54
759 914 0.527565 ATGGCTTTGCTTTGTAGGCG 59.472 50.000 0.00 0.00 37.28 5.52
760 915 1.273327 ACATGGCTTTGCTTTGTAGGC 59.727 47.619 0.00 0.00 35.25 3.93
761 916 3.426159 CGTACATGGCTTTGCTTTGTAGG 60.426 47.826 0.00 0.00 31.05 3.18
762 917 3.188460 ACGTACATGGCTTTGCTTTGTAG 59.812 43.478 0.00 0.00 31.05 2.74
772 927 3.378339 GCTTCGTATACGTACATGGCTT 58.622 45.455 23.67 0.00 40.80 4.35
773 928 2.603892 CGCTTCGTATACGTACATGGCT 60.604 50.000 23.67 0.00 40.80 4.75
775 930 2.717519 CACGCTTCGTATACGTACATGG 59.282 50.000 23.67 12.22 38.32 3.66
776 931 3.357021 ACACGCTTCGTATACGTACATG 58.643 45.455 23.67 17.71 38.32 3.21
786 941 5.280945 AGTACAACTAAAACACGCTTCGTA 58.719 37.500 0.00 0.00 38.32 3.43
853 1011 7.414098 CCGCTTATATTGATGCAATAAGGGTAC 60.414 40.741 21.29 6.14 41.19 3.34
857 1015 5.335127 GCCGCTTATATTGATGCAATAAGG 58.665 41.667 14.11 4.07 39.34 2.69
1072 2720 4.655963 TCCTGGATCTTTTCCTTGACAAG 58.344 43.478 8.31 8.31 45.68 3.16
1082 2730 4.459330 GAGCTGCTTATCCTGGATCTTTT 58.541 43.478 13.54 0.00 0.00 2.27
1083 2731 3.181446 GGAGCTGCTTATCCTGGATCTTT 60.181 47.826 13.54 0.00 0.00 2.52
1103 2751 1.152204 TCCCCGTTGAAGGTGAGGA 60.152 57.895 0.00 0.00 0.00 3.71
1238 3697 1.069978 TCGTGACTGCAAGGTTCATGA 59.930 47.619 0.00 0.00 39.30 3.07
1728 5215 2.029290 ACAAGCCTGTACTGTACGAAGG 60.029 50.000 16.20 16.20 32.54 3.46
1959 5487 4.898829 TGCACACAGACATATTATTGGC 57.101 40.909 0.00 0.00 0.00 4.52
2036 5567 6.458232 AGTAAGCTGATCGTAATCAAGACT 57.542 37.500 0.00 0.00 41.33 3.24
2096 5627 2.879026 TCGTGCGTCATAGATTAGCTCT 59.121 45.455 0.00 0.00 38.06 4.09
2125 5658 6.322491 TGTTATATTGTCCGATCGAGCTATG 58.678 40.000 18.66 0.00 0.00 2.23
2164 5697 7.036829 TCTTTCATGTATTGCCATGTGATTTG 58.963 34.615 0.00 0.00 42.29 2.32
2209 5747 1.536418 TCATGGCCGGGGATAGAGG 60.536 63.158 2.18 0.00 0.00 3.69
2241 5779 8.439286 TGTTTTTCTTGTTTGAATGCTTGTTAC 58.561 29.630 0.00 0.00 0.00 2.50
2596 6134 1.294659 CGAGGAGGAGTTGCAGTTGC 61.295 60.000 0.00 0.00 42.50 4.17
2633 6171 1.669265 TCGCATATCTTCACGACGTCT 59.331 47.619 14.70 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.