Multiple sequence alignment - TraesCS5B01G332700

Loading Multiple Alignment...

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 TraesCS5B01G332700 chr5B 100.000 2231 0 0 1 2231 516606604 516604374 0.000000e+00 4120.0
1 TraesCS5B01G332700 chr5B 85.756 1032 102 25 938 1944 450842188 450841177 0.000000e+00 1050.0
2 TraesCS5B01G332700 chr5B 91.358 486 36 6 35 517 527522709 527523191 0.000000e+00 660.0
3 TraesCS5B01G332700 chr5B 83.832 668 72 22 37 694 641691986 641692627 8.810000e-169 603.0
4 TraesCS5B01G332700 chr7B 93.056 864 58 2 34 897 629482723 629481862 0.000000e+00 1262.0
5 TraesCS5B01G332700 chr7B 94.942 514 26 0 1718 2231 656488037 656487524 0.000000e+00 806.0
6 TraesCS5B01G332700 chr7B 85.290 639 72 14 37 660 709581042 709580411 6.720000e-180 640.0
7 TraesCS5B01G332700 chr7B 97.059 34 1 0 1 34 684611196 684611163 8.610000e-05 58.4
8 TraesCS5B01G332700 chr5D 84.542 1048 117 30 927 1944 377534673 377533641 0.000000e+00 996.0
9 TraesCS5B01G332700 chr5D 85.147 579 69 10 37 606 262409190 262408620 5.340000e-161 577.0
10 TraesCS5B01G332700 chr5D 97.059 34 1 0 1 34 189928429 189928462 8.610000e-05 58.4
11 TraesCS5B01G332700 chr6B 92.880 618 44 0 1135 1752 575575933 575575316 0.000000e+00 898.0
12 TraesCS5B01G332700 chr7A 95.890 511 18 3 1718 2228 919591 919084 0.000000e+00 824.0
13 TraesCS5B01G332700 chr7A 80.902 953 118 35 40 956 95112803 95111879 0.000000e+00 693.0
14 TraesCS5B01G332700 chr7A 95.000 140 7 0 1518 1657 919735 919596 1.040000e-53 220.0
15 TraesCS5B01G332700 chr5A 86.874 739 78 12 938 1663 478322233 478321501 0.000000e+00 809.0
16 TraesCS5B01G332700 chr5A 94.480 471 25 1 1718 2188 506442377 506442846 0.000000e+00 725.0
17 TraesCS5B01G332700 chr1B 94.951 515 25 1 1718 2231 606228892 606229406 0.000000e+00 806.0
18 TraesCS5B01G332700 chr1B 93.151 511 35 0 1718 2228 212226275 212226785 0.000000e+00 750.0
19 TraesCS5B01G332700 chr1B 95.000 140 7 0 1518 1657 606228748 606228887 1.040000e-53 220.0
20 TraesCS5B01G332700 chr2B 93.774 514 29 3 1718 2231 321106945 321107455 0.000000e+00 769.0
21 TraesCS5B01G332700 chr2B 93.571 140 9 0 1518 1657 321106801 321106940 2.240000e-50 209.0
22 TraesCS5B01G332700 chr2B 97.297 37 0 1 4 39 482058358 482058394 6.650000e-06 62.1
23 TraesCS5B01G332700 chr2B 97.059 34 1 0 1 34 12705521 12705554 8.610000e-05 58.4
24 TraesCS5B01G332700 chr2B 97.059 34 1 0 1 34 701137859 701137892 8.610000e-05 58.4
25 TraesCS5B01G332700 chr2A 96.178 471 17 1 1718 2188 59861457 59861926 0.000000e+00 769.0
26 TraesCS5B01G332700 chr2A 92.857 140 10 0 1518 1657 59861313 59861452 1.040000e-48 204.0
27 TraesCS5B01G332700 chr2A 97.059 34 1 0 1 34 715057075 715057042 8.610000e-05 58.4
28 TraesCS5B01G332700 chr3A 95.541 471 20 1 1718 2188 373432994 373433463 0.000000e+00 752.0
29 TraesCS5B01G332700 chr3A 80.773 957 117 43 37 956 714033513 714034439 0.000000e+00 686.0
30 TraesCS5B01G332700 chr3A 82.540 819 96 31 37 819 113362148 113362955 0.000000e+00 676.0
31 TraesCS5B01G332700 chr3A 95.000 140 7 0 1518 1657 373432850 373432989 1.040000e-53 220.0
32 TraesCS5B01G332700 chr3A 81.185 287 36 14 470 749 298755761 298755486 4.830000e-52 215.0
33 TraesCS5B01G332700 chr4D 82.002 939 102 38 40 956 150651625 150650732 0.000000e+00 736.0
34 TraesCS5B01G332700 chr4A 93.631 471 29 1 1718 2188 79416440 79416909 0.000000e+00 702.0
35 TraesCS5B01G332700 chr4A 86.911 191 19 6 1007 1194 707060512 707060699 2.240000e-50 209.0
36 TraesCS5B01G332700 chr4B 86.202 645 65 14 35 663 604266059 604266695 0.000000e+00 676.0
37 TraesCS5B01G332700 chr4B 80.711 928 114 32 40 933 669673345 669672449 0.000000e+00 662.0
38 TraesCS5B01G332700 chr4B 85.202 642 68 16 38 666 592720202 592719575 3.130000e-178 634.0
39 TraesCS5B01G332700 chr6D 78.919 370 54 12 1108 1472 427527781 427528131 1.720000e-56 230.0
40 TraesCS5B01G332700 chr3B 85.938 192 23 4 1007 1196 772957667 772957478 3.760000e-48 202.0
41 TraesCS5B01G332700 chr3B 100.000 31 0 0 4 34 701138026 701137996 8.610000e-05 58.4
42 TraesCS5B01G332700 chr3B 100.000 31 0 0 4 34 701142880 701142850 8.610000e-05 58.4
43 TraesCS5B01G332700 chr3B 100.000 31 0 0 4 34 701144735 701144705 8.610000e-05 58.4


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 TraesCS5B01G332700 chr5B 516604374 516606604 2230 True 4120.0 4120 100.0000 1 2231 1 chr5B.!!$R2 2230
1 TraesCS5B01G332700 chr5B 450841177 450842188 1011 True 1050.0 1050 85.7560 938 1944 1 chr5B.!!$R1 1006
2 TraesCS5B01G332700 chr5B 641691986 641692627 641 False 603.0 603 83.8320 37 694 1 chr5B.!!$F2 657
3 TraesCS5B01G332700 chr7B 629481862 629482723 861 True 1262.0 1262 93.0560 34 897 1 chr7B.!!$R1 863
4 TraesCS5B01G332700 chr7B 656487524 656488037 513 True 806.0 806 94.9420 1718 2231 1 chr7B.!!$R2 513
5 TraesCS5B01G332700 chr7B 709580411 709581042 631 True 640.0 640 85.2900 37 660 1 chr7B.!!$R4 623
6 TraesCS5B01G332700 chr5D 377533641 377534673 1032 True 996.0 996 84.5420 927 1944 1 chr5D.!!$R2 1017
7 TraesCS5B01G332700 chr5D 262408620 262409190 570 True 577.0 577 85.1470 37 606 1 chr5D.!!$R1 569
8 TraesCS5B01G332700 chr6B 575575316 575575933 617 True 898.0 898 92.8800 1135 1752 1 chr6B.!!$R1 617
9 TraesCS5B01G332700 chr7A 95111879 95112803 924 True 693.0 693 80.9020 40 956 1 chr7A.!!$R1 916
10 TraesCS5B01G332700 chr7A 919084 919735 651 True 522.0 824 95.4450 1518 2228 2 chr7A.!!$R2 710
11 TraesCS5B01G332700 chr5A 478321501 478322233 732 True 809.0 809 86.8740 938 1663 1 chr5A.!!$R1 725
12 TraesCS5B01G332700 chr1B 212226275 212226785 510 False 750.0 750 93.1510 1718 2228 1 chr1B.!!$F1 510
13 TraesCS5B01G332700 chr1B 606228748 606229406 658 False 513.0 806 94.9755 1518 2231 2 chr1B.!!$F2 713
14 TraesCS5B01G332700 chr2B 321106801 321107455 654 False 489.0 769 93.6725 1518 2231 2 chr2B.!!$F4 713
15 TraesCS5B01G332700 chr2A 59861313 59861926 613 False 486.5 769 94.5175 1518 2188 2 chr2A.!!$F1 670
16 TraesCS5B01G332700 chr3A 714033513 714034439 926 False 686.0 686 80.7730 37 956 1 chr3A.!!$F2 919
17 TraesCS5B01G332700 chr3A 113362148 113362955 807 False 676.0 676 82.5400 37 819 1 chr3A.!!$F1 782
18 TraesCS5B01G332700 chr3A 373432850 373433463 613 False 486.0 752 95.2705 1518 2188 2 chr3A.!!$F3 670
19 TraesCS5B01G332700 chr4D 150650732 150651625 893 True 736.0 736 82.0020 40 956 1 chr4D.!!$R1 916
20 TraesCS5B01G332700 chr4B 604266059 604266695 636 False 676.0 676 86.2020 35 663 1 chr4B.!!$F1 628
21 TraesCS5B01G332700 chr4B 669672449 669673345 896 True 662.0 662 80.7110 40 933 1 chr4B.!!$R2 893
22 TraesCS5B01G332700 chr4B 592719575 592720202 627 True 634.0 634 85.2020 38 666 1 chr4B.!!$R1 628

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
796 860 0.174845 CTTCTCATTACCGGTCGCCA 59.825 55.0 12.4 0.0 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1610 1708 0.108945 GTAGTACCACTCACGCCACC 60.109 60.0 0.0 0.0 0.0 4.61 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
31 32 8.507524 AAATAAAGAGCAAACTATGAGGTACC 57.492 34.615 2.73 2.73 0.00 3.34
32 33 5.763876 AAAGAGCAAACTATGAGGTACCT 57.236 39.130 16.26 16.26 0.00 3.08
71 73 2.832129 ACGAGAGGTGGATCAAAGCTTA 59.168 45.455 0.00 0.00 0.00 3.09
197 203 4.961438 AAAATGCTCAATTTGTCACCCT 57.039 36.364 0.00 0.00 38.52 4.34
215 222 9.527157 TGTCACCCTGAAAATAGAAAATGATTA 57.473 29.630 0.00 0.00 0.00 1.75
313 320 9.810545 TTTTTCTAAAAACTAGGTCACATTTGG 57.189 29.630 0.00 0.00 33.29 3.28
514 529 2.543067 ATCCGACAGCAGCCCTTTCC 62.543 60.000 0.00 0.00 0.00 3.13
620 651 1.608717 CGCTCTAGGTCCCTTGCAGT 61.609 60.000 0.00 0.00 0.00 4.40
684 739 4.760047 CCGGTCTGCACCTTCCCG 62.760 72.222 0.00 0.00 41.17 5.14
696 751 3.945064 CTTCCCGTCCCCTCCCCTT 62.945 68.421 0.00 0.00 0.00 3.95
714 769 0.402861 TTCCTCTCCCCCACCTTTGT 60.403 55.000 0.00 0.00 0.00 2.83
729 784 2.739849 TTTGTCGCCCATCTTCGCCA 62.740 55.000 0.00 0.00 0.00 5.69
732 787 4.776322 CGCCCATCTTCGCCACCA 62.776 66.667 0.00 0.00 0.00 4.17
785 849 2.403252 ACCGCCGATTTCTTCTCATT 57.597 45.000 0.00 0.00 0.00 2.57
796 860 0.174845 CTTCTCATTACCGGTCGCCA 59.825 55.000 12.40 0.00 0.00 5.69
829 893 4.864334 GGGTCGGGGCAGCTCATG 62.864 72.222 0.00 0.00 0.00 3.07
832 896 2.685017 TCGGGGCAGCTCATGTCT 60.685 61.111 0.00 0.00 32.55 3.41
834 898 2.673523 GGGGCAGCTCATGTCTGT 59.326 61.111 15.44 0.00 32.55 3.41
837 901 2.404995 GGCAGCTCATGTCTGTGCC 61.405 63.158 12.93 12.93 46.49 5.01
841 905 2.267006 CTCATGTCTGTGCCGGCT 59.733 61.111 29.70 1.01 0.00 5.52
842 906 2.046988 TCATGTCTGTGCCGGCTG 60.047 61.111 29.70 15.87 0.00 4.85
843 907 2.359107 CATGTCTGTGCCGGCTGT 60.359 61.111 29.70 2.36 0.00 4.40
866 930 1.444119 GCTGTTTCTGCGGGTTGTCA 61.444 55.000 0.00 0.00 0.00 3.58
953 1023 1.719378 ACAAGAGAAGGAGGAGGAGGA 59.281 52.381 0.00 0.00 0.00 3.71
959 1029 0.556380 AAGGAGGAGGAGGAGGAGGA 60.556 60.000 0.00 0.00 0.00 3.71
960 1030 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
991 1065 0.750850 TGCGGTGTAGATTAGGAGGC 59.249 55.000 0.00 0.00 0.00 4.70
1009 1089 2.982130 GGGGCGAGATGTCTGTGT 59.018 61.111 0.00 0.00 0.00 3.72
1031 1111 1.852157 ATCAAGGCGGTGGTGGACAT 61.852 55.000 0.00 0.00 0.00 3.06
1052 1132 2.435586 CGTGAAGGAGCTGCAGGG 60.436 66.667 17.12 0.00 0.00 4.45
1079 1159 3.461773 CGCGGACATCCAGGACCT 61.462 66.667 0.00 0.00 35.14 3.85
1094 1174 1.487976 GGACCTCATCATGAAGGAGCA 59.512 52.381 18.52 0.00 0.00 4.26
1101 1181 4.486839 TCATCATGAAGGAGCAGGAGATA 58.513 43.478 0.00 0.00 31.60 1.98
1172 1252 2.185608 GAAGGCCGAGCTCTCCAC 59.814 66.667 19.83 11.73 0.00 4.02
1207 1288 0.327576 CCAACCCCCATACTCCTCCT 60.328 60.000 0.00 0.00 0.00 3.69
1209 1290 2.631268 CCAACCCCCATACTCCTCCTTA 60.631 54.545 0.00 0.00 0.00 2.69
1227 1308 4.544152 TCCTTATCTCCTTTCCCACCATTT 59.456 41.667 0.00 0.00 0.00 2.32
1233 1314 5.898120 TCTCCTTTCCCACCATTTTGATTA 58.102 37.500 0.00 0.00 0.00 1.75
1244 1325 4.467082 ACCATTTTGATTAATCTGCCTGCA 59.533 37.500 16.24 0.00 0.00 4.41
1311 1393 4.503296 GGTGCCTTCAGAGTAAGTTCAGAA 60.503 45.833 0.00 0.00 0.00 3.02
1314 1396 5.163301 TGCCTTCAGAGTAAGTTCAGAAGTT 60.163 40.000 8.34 8.34 38.38 2.66
1375 1466 6.908825 AGTGATCTCTTATAGTTGCTCGATC 58.091 40.000 0.00 0.00 0.00 3.69
1379 1470 5.377478 TCTCTTATAGTTGCTCGATCTCCA 58.623 41.667 0.00 0.00 0.00 3.86
1391 1482 4.279671 GCTCGATCTCCAGAAGGAATTCTA 59.720 45.833 5.23 0.00 45.19 2.10
1453 1544 9.691362 GTTTGTTATGTCAGGTGTTGATTAATT 57.309 29.630 0.00 0.00 38.29 1.40
1455 1546 8.402798 TGTTATGTCAGGTGTTGATTAATTGT 57.597 30.769 0.00 0.00 38.29 2.71
1520 1613 4.564782 ATGAGCATCTTTGAGGTCTCAA 57.435 40.909 9.13 9.13 46.72 3.02
1534 1627 2.474816 GTCTCAAGTTCAGACGCACTT 58.525 47.619 0.00 0.00 33.29 3.16
1570 1668 8.414778 GTTAGTGACTAGATGTTAACTAGCCAT 58.585 37.037 7.22 0.00 40.40 4.40
1577 1675 8.322091 ACTAGATGTTAACTAGCCATGTTCTTT 58.678 33.333 7.22 0.00 40.40 2.52
1610 1708 7.915293 TGAAAGTTGGTGGTAATATACAGTG 57.085 36.000 0.00 0.00 0.00 3.66
1668 1767 9.400638 CATAGTTCTCGATTCTAAGTAATGGAC 57.599 37.037 0.00 0.00 0.00 4.02
1777 1878 9.321562 AGAATTGGTGTTATAATTACCGTACTG 57.678 33.333 13.83 0.00 37.29 2.74
1803 1904 2.562738 CAGTAGTGATGTGAGTGGGACA 59.437 50.000 0.00 0.00 0.00 4.02
1896 2007 9.846248 AAAATGTCAATTGCTAAACTGATAGAC 57.154 29.630 0.00 0.00 0.00 2.59
1976 2087 1.154469 GTTACGCTGACGGCTTTGC 60.154 57.895 4.43 0.00 46.04 3.68
1979 2090 0.882927 TACGCTGACGGCTTTGCTTT 60.883 50.000 4.43 0.00 46.04 3.51
2119 2230 6.515272 ACACGCTCTTTCCATATGAAAATT 57.485 33.333 3.65 0.00 42.25 1.82
2151 2262 3.007831 CCCAACCCAATACAAATGCAAGT 59.992 43.478 0.00 0.00 0.00 3.16
2214 2325 3.251571 GTTTTTCATAGGAGCGACGAGT 58.748 45.455 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 8.957466 GGTACCTCATAGTTTGCTCTTTATTTT 58.043 33.333 4.06 0.00 0.00 1.82
6 7 8.329502 AGGTACCTCATAGTTTGCTCTTTATTT 58.670 33.333 9.21 0.00 0.00 1.40
7 8 7.862675 AGGTACCTCATAGTTTGCTCTTTATT 58.137 34.615 9.21 0.00 0.00 1.40
8 9 7.439108 AGGTACCTCATAGTTTGCTCTTTAT 57.561 36.000 9.21 0.00 0.00 1.40
9 10 6.869206 AGGTACCTCATAGTTTGCTCTTTA 57.131 37.500 9.21 0.00 0.00 1.85
10 11 5.763876 AGGTACCTCATAGTTTGCTCTTT 57.236 39.130 9.21 0.00 0.00 2.52
11 12 6.195700 TCTAGGTACCTCATAGTTTGCTCTT 58.804 40.000 20.32 0.00 32.92 2.85
12 13 5.767670 TCTAGGTACCTCATAGTTTGCTCT 58.232 41.667 20.32 0.00 32.92 4.09
13 14 6.466885 TTCTAGGTACCTCATAGTTTGCTC 57.533 41.667 20.32 0.00 32.92 4.26
14 15 6.869206 TTTCTAGGTACCTCATAGTTTGCT 57.131 37.500 20.32 0.00 32.92 3.91
15 16 8.398665 CAAATTTCTAGGTACCTCATAGTTTGC 58.601 37.037 20.32 0.00 32.92 3.68
16 17 9.449719 ACAAATTTCTAGGTACCTCATAGTTTG 57.550 33.333 20.32 23.66 33.87 2.93
17 18 9.668497 GACAAATTTCTAGGTACCTCATAGTTT 57.332 33.333 20.32 12.50 32.92 2.66
18 19 9.047947 AGACAAATTTCTAGGTACCTCATAGTT 57.952 33.333 20.32 6.82 32.92 2.24
19 20 8.611051 AGACAAATTTCTAGGTACCTCATAGT 57.389 34.615 20.32 7.53 32.92 2.12
20 21 9.892130 AAAGACAAATTTCTAGGTACCTCATAG 57.108 33.333 20.32 11.03 0.00 2.23
22 23 9.588096 AAAAAGACAAATTTCTAGGTACCTCAT 57.412 29.630 20.32 3.78 0.00 2.90
23 24 8.846211 CAAAAAGACAAATTTCTAGGTACCTCA 58.154 33.333 20.32 3.08 0.00 3.86
24 25 9.063615 TCAAAAAGACAAATTTCTAGGTACCTC 57.936 33.333 20.32 0.00 0.00 3.85
25 26 8.847196 GTCAAAAAGACAAATTTCTAGGTACCT 58.153 33.333 20.57 20.57 46.77 3.08
313 320 7.623268 AATAAAAACATTCTCTTTGCGTCAC 57.377 32.000 0.00 0.00 0.00 3.67
431 445 4.295141 TCCTATGGACCAATCAAAACGT 57.705 40.909 0.00 0.00 0.00 3.99
551 574 1.330655 GCTTCGTGGGATGAGAGGGA 61.331 60.000 0.00 0.00 0.00 4.20
609 632 1.079750 GGAGACGACTGCAAGGGAC 60.080 63.158 0.96 0.00 39.30 4.46
684 739 1.383386 GAGAGGAAGGGGAGGGGAC 60.383 68.421 0.00 0.00 0.00 4.46
696 751 0.840722 GACAAAGGTGGGGGAGAGGA 60.841 60.000 0.00 0.00 0.00 3.71
714 769 4.467084 GGTGGCGAAGATGGGCGA 62.467 66.667 0.00 0.00 0.00 5.54
729 784 2.665000 CTCCTGTGGATGCGTGGT 59.335 61.111 0.00 0.00 0.00 4.16
732 787 2.267006 CTGCTCCTGTGGATGCGT 59.733 61.111 0.00 0.00 31.72 5.24
774 838 2.613691 GCGACCGGTAATGAGAAGAAA 58.386 47.619 7.34 0.00 0.00 2.52
785 849 3.069946 ATTCCGTGGCGACCGGTA 61.070 61.111 7.34 8.75 42.51 4.02
796 860 2.420967 CGACCCCTTATTTCCATTCCGT 60.421 50.000 0.00 0.00 0.00 4.69
827 891 2.046892 GACAGCCGGCACAGACAT 60.047 61.111 31.54 1.71 0.00 3.06
829 893 4.664677 ACGACAGCCGGCACAGAC 62.665 66.667 31.54 16.75 43.93 3.51
837 901 1.956170 AGAAACAGCACGACAGCCG 60.956 57.895 0.00 0.00 45.44 5.52
841 905 2.243957 CCGCAGAAACAGCACGACA 61.244 57.895 0.00 0.00 0.00 4.35
842 906 2.551270 CCGCAGAAACAGCACGAC 59.449 61.111 0.00 0.00 0.00 4.34
843 907 2.664851 CCCGCAGAAACAGCACGA 60.665 61.111 0.00 0.00 0.00 4.35
953 1023 2.364448 GGGTTCCGCTCTCCTCCT 60.364 66.667 0.00 0.00 0.00 3.69
972 1042 0.750850 GCCTCCTAATCTACACCGCA 59.249 55.000 0.00 0.00 0.00 5.69
991 1065 2.202797 CACAGACATCTCGCCCCG 60.203 66.667 0.00 0.00 0.00 5.73
1009 1089 2.350895 CACCACCGCCTTGATCCA 59.649 61.111 0.00 0.00 0.00 3.41
1031 1111 0.601046 CTGCAGCTCCTTCACGAACA 60.601 55.000 0.00 0.00 0.00 3.18
1052 1132 2.955751 GATGTCCGCGTCTAGTGCCC 62.956 65.000 4.92 0.00 0.00 5.36
1056 1136 1.384989 CCTGGATGTCCGCGTCTAGT 61.385 60.000 4.92 0.00 37.48 2.57
1059 1139 2.362503 TCCTGGATGTCCGCGTCT 60.363 61.111 4.92 0.00 39.43 4.18
1079 1159 2.755686 TCTCCTGCTCCTTCATGATGA 58.244 47.619 10.07 0.00 0.00 2.92
1094 1174 4.406456 CTGGATGTAGCTCTGTATCTCCT 58.594 47.826 0.00 0.00 0.00 3.69
1101 1181 1.118838 GCTCCTGGATGTAGCTCTGT 58.881 55.000 0.00 0.00 33.40 3.41
1172 1252 0.748450 TTGGATTACTACCTCGCGGG 59.252 55.000 6.13 0.59 41.89 6.13
1207 1288 5.898120 TCAAAATGGTGGGAAAGGAGATAA 58.102 37.500 0.00 0.00 0.00 1.75
1209 1290 4.402616 TCAAAATGGTGGGAAAGGAGAT 57.597 40.909 0.00 0.00 0.00 2.75
1227 1308 4.219070 GGCATATGCAGGCAGATTAATCAA 59.781 41.667 28.07 0.00 44.36 2.57
1233 1314 0.481567 AGGGCATATGCAGGCAGATT 59.518 50.000 28.07 2.35 44.36 2.40
1244 1325 3.519510 ACTGACACAACACTAGGGCATAT 59.480 43.478 0.00 0.00 0.00 1.78
1311 1393 2.514205 GCATTCAGCAACAACCAACT 57.486 45.000 0.00 0.00 44.79 3.16
1379 1470 9.804758 CGTCACTTAAACTATAGAATTCCTTCT 57.195 33.333 6.78 0.00 44.06 2.85
1453 1544 3.876914 CTCCCAAAGCATAGCGATTAACA 59.123 43.478 0.00 0.00 0.00 2.41
1520 1613 1.583054 GGAACAAGTGCGTCTGAACT 58.417 50.000 0.00 0.00 34.47 3.01
1534 1627 4.910195 TCTAGTCACTAACTACCGGAACA 58.090 43.478 9.46 0.00 39.55 3.18
1570 1668 1.974265 TTCATGCCCGTGAAAGAACA 58.026 45.000 0.64 0.00 35.31 3.18
1577 1675 0.179004 ACCAACTTTCATGCCCGTGA 60.179 50.000 0.00 0.00 0.00 4.35
1610 1708 0.108945 GTAGTACCACTCACGCCACC 60.109 60.000 0.00 0.00 0.00 4.61
1668 1767 2.284699 AACCTCTGACCTCCCCCG 60.285 66.667 0.00 0.00 0.00 5.73
1777 1878 4.115516 CCACTCACATCACTACTGCATAC 58.884 47.826 0.00 0.00 0.00 2.39
1803 1904 2.171840 ACTATGACACGAGCAGGAGTT 58.828 47.619 0.00 0.00 0.00 3.01
1896 2007 0.606096 TCACACCACATCACTACGGG 59.394 55.000 0.00 0.00 0.00 5.28
1985 2096 4.162690 GCCCCTCCTACACGGCAG 62.163 72.222 0.00 0.00 41.25 4.85
2082 2193 0.249031 GCGTGTTGCTTGCCTTCTTT 60.249 50.000 0.00 0.00 41.73 2.52
2111 2222 5.997129 GGTTGGGTCAATCACAAATTTTCAT 59.003 36.000 0.00 0.00 41.44 2.57
2112 2223 5.363939 GGTTGGGTCAATCACAAATTTTCA 58.636 37.500 0.00 0.00 41.44 2.69
2119 2230 2.461300 TTGGGTTGGGTCAATCACAA 57.539 45.000 0.00 0.00 37.08 3.33
2151 2262 2.483877 CGCAAAGGCAGATTAACAGACA 59.516 45.455 0.00 0.00 41.24 3.41
2188 2299 2.039216 TCGCTCCTATGAAAAACCACCA 59.961 45.455 0.00 0.00 0.00 4.17
2190 2301 2.093783 CGTCGCTCCTATGAAAAACCAC 59.906 50.000 0.00 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.