Multiple sequence alignment - TraesCS3D01G151900

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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 TraesCS3D01G151900 chr3D 100.000 2288 0 0 1 2288 116087424 116089711 0.000000e+00 4226.0
1 TraesCS3D01G151900 chr3D 94.111 900 45 4 1393 2288 116107013 116107908 0.000000e+00 1362.0
2 TraesCS3D01G151900 chr3D 93.111 900 56 2 1393 2288 393056859 393057756 0.000000e+00 1314.0
3 TraesCS3D01G151900 chr3D 94.146 632 28 2 1 632 116080500 116081122 0.000000e+00 953.0
4 TraesCS3D01G151900 chr3D 94.355 620 34 1 13 632 309383218 309382600 0.000000e+00 950.0
5 TraesCS3D01G151900 chr6D 94.000 900 46 5 1393 2288 93616900 93616005 0.000000e+00 1356.0
6 TraesCS3D01G151900 chr7D 93.896 901 41 6 1393 2288 501476709 501477600 0.000000e+00 1347.0
7 TraesCS3D01G151900 chr7D 93.452 901 47 8 1393 2288 494833056 494832163 0.000000e+00 1327.0
8 TraesCS3D01G151900 chr5D 93.667 900 51 3 1393 2288 481233606 481232709 0.000000e+00 1341.0
9 TraesCS3D01G151900 chr5D 93.126 902 57 2 1391 2288 481248709 481247809 0.000000e+00 1317.0
10 TraesCS3D01G151900 chr5D 86.279 481 58 7 892 1368 512389655 512390131 1.210000e-142 516.0
11 TraesCS3D01G151900 chr5D 100.000 28 0 0 1371 1398 559251248 559251221 4.000000e-03 52.8
12 TraesCS3D01G151900 chr2D 93.674 901 45 6 1393 2288 139012557 139013450 0.000000e+00 1338.0
13 TraesCS3D01G151900 chr2D 93.237 902 52 7 1393 2288 139005603 139006501 0.000000e+00 1319.0
14 TraesCS3D01G151900 chr1D 94.595 629 33 1 2 630 122296971 122296344 0.000000e+00 972.0
15 TraesCS3D01G151900 chr1D 93.292 641 42 1 1 641 122286420 122285781 0.000000e+00 944.0
16 TraesCS3D01G151900 chr1D 94.175 618 36 0 15 632 237527278 237527895 0.000000e+00 942.0
17 TraesCS3D01G151900 chr1D 93.800 629 36 1 1 629 475752354 475752979 0.000000e+00 942.0
18 TraesCS3D01G151900 chr1D 93.671 632 37 1 1 632 475759873 475760501 0.000000e+00 942.0
19 TraesCS3D01G151900 chr1D 93.513 632 41 0 1 632 128107964 128108595 0.000000e+00 941.0
20 TraesCS3D01G151900 chr1D 86.357 733 98 1 637 1367 141897207 141897939 0.000000e+00 798.0
21 TraesCS3D01G151900 chr1D 86.792 636 84 0 635 1270 338745941 338746576 0.000000e+00 710.0
22 TraesCS3D01G151900 chr4D 94.194 620 36 0 13 632 348182905 348182286 0.000000e+00 946.0
23 TraesCS3D01G151900 chr4D 86.070 201 24 2 635 831 108048408 108048608 1.780000e-51 213.0
24 TraesCS3D01G151900 chr1B 85.482 737 107 0 637 1373 196059173 196059909 0.000000e+00 769.0
25 TraesCS3D01G151900 chr1B 100.000 28 0 0 1365 1392 21133238 21133265 4.000000e-03 52.8
26 TraesCS3D01G151900 chr4B 84.987 746 102 8 635 1373 168574683 168573941 0.000000e+00 749.0
27 TraesCS3D01G151900 chr4B 82.246 552 88 7 709 1260 226515619 226516160 3.440000e-128 468.0
28 TraesCS3D01G151900 chr4A 84.058 759 96 11 635 1373 468211081 468210328 0.000000e+00 708.0
29 TraesCS3D01G151900 chr1A 85.843 664 79 8 706 1368 148747084 148746435 0.000000e+00 691.0
30 TraesCS3D01G151900 chr3A 83.684 570 90 3 806 1373 51696283 51696851 3.350000e-148 534.0
31 TraesCS3D01G151900 chr3A 81.711 596 94 8 776 1368 707115826 707115243 1.230000e-132 483.0
32 TraesCS3D01G151900 chr3A 91.304 46 4 0 1362 1407 472396514 472396559 1.900000e-06 63.9
33 TraesCS3D01G151900 chr3A 100.000 28 0 0 1365 1392 593721563 593721590 4.000000e-03 52.8
34 TraesCS3D01G151900 chr7B 86.802 197 24 2 635 830 413576558 413576753 3.830000e-53 219.0
35 TraesCS3D01G151900 chr7B 100.000 28 0 0 1365 1392 712262228 712262255 4.000000e-03 52.8
36 TraesCS3D01G151900 chr6A 100.000 28 0 0 1365 1392 198008300 198008327 4.000000e-03 52.8
37 TraesCS3D01G151900 chr5B 96.774 31 1 0 1371 1401 167608267 167608237 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 TraesCS3D01G151900 chr3D 116087424 116089711 2287 False 4226 4226 100.000 1 2288 1 chr3D.!!$F2 2287
1 TraesCS3D01G151900 chr3D 116107013 116107908 895 False 1362 1362 94.111 1393 2288 1 chr3D.!!$F3 895
2 TraesCS3D01G151900 chr3D 393056859 393057756 897 False 1314 1314 93.111 1393 2288 1 chr3D.!!$F4 895
3 TraesCS3D01G151900 chr3D 116080500 116081122 622 False 953 953 94.146 1 632 1 chr3D.!!$F1 631
4 TraesCS3D01G151900 chr3D 309382600 309383218 618 True 950 950 94.355 13 632 1 chr3D.!!$R1 619
5 TraesCS3D01G151900 chr6D 93616005 93616900 895 True 1356 1356 94.000 1393 2288 1 chr6D.!!$R1 895
6 TraesCS3D01G151900 chr7D 501476709 501477600 891 False 1347 1347 93.896 1393 2288 1 chr7D.!!$F1 895
7 TraesCS3D01G151900 chr7D 494832163 494833056 893 True 1327 1327 93.452 1393 2288 1 chr7D.!!$R1 895
8 TraesCS3D01G151900 chr5D 481232709 481233606 897 True 1341 1341 93.667 1393 2288 1 chr5D.!!$R1 895
9 TraesCS3D01G151900 chr5D 481247809 481248709 900 True 1317 1317 93.126 1391 2288 1 chr5D.!!$R2 897
10 TraesCS3D01G151900 chr2D 139012557 139013450 893 False 1338 1338 93.674 1393 2288 1 chr2D.!!$F2 895
11 TraesCS3D01G151900 chr2D 139005603 139006501 898 False 1319 1319 93.237 1393 2288 1 chr2D.!!$F1 895
12 TraesCS3D01G151900 chr1D 122296344 122296971 627 True 972 972 94.595 2 630 1 chr1D.!!$R2 628
13 TraesCS3D01G151900 chr1D 122285781 122286420 639 True 944 944 93.292 1 641 1 chr1D.!!$R1 640
14 TraesCS3D01G151900 chr1D 237527278 237527895 617 False 942 942 94.175 15 632 1 chr1D.!!$F3 617
15 TraesCS3D01G151900 chr1D 475752354 475752979 625 False 942 942 93.800 1 629 1 chr1D.!!$F5 628
16 TraesCS3D01G151900 chr1D 475759873 475760501 628 False 942 942 93.671 1 632 1 chr1D.!!$F6 631
17 TraesCS3D01G151900 chr1D 128107964 128108595 631 False 941 941 93.513 1 632 1 chr1D.!!$F1 631
18 TraesCS3D01G151900 chr1D 141897207 141897939 732 False 798 798 86.357 637 1367 1 chr1D.!!$F2 730
19 TraesCS3D01G151900 chr1D 338745941 338746576 635 False 710 710 86.792 635 1270 1 chr1D.!!$F4 635
20 TraesCS3D01G151900 chr4D 348182286 348182905 619 True 946 946 94.194 13 632 1 chr4D.!!$R1 619
21 TraesCS3D01G151900 chr1B 196059173 196059909 736 False 769 769 85.482 637 1373 1 chr1B.!!$F2 736
22 TraesCS3D01G151900 chr4B 168573941 168574683 742 True 749 749 84.987 635 1373 1 chr4B.!!$R1 738
23 TraesCS3D01G151900 chr4B 226515619 226516160 541 False 468 468 82.246 709 1260 1 chr4B.!!$F1 551
24 TraesCS3D01G151900 chr4A 468210328 468211081 753 True 708 708 84.058 635 1373 1 chr4A.!!$R1 738
25 TraesCS3D01G151900 chr1A 148746435 148747084 649 True 691 691 85.843 706 1368 1 chr1A.!!$R1 662
26 TraesCS3D01G151900 chr3A 51696283 51696851 568 False 534 534 83.684 806 1373 1 chr3A.!!$F1 567
27 TraesCS3D01G151900 chr3A 707115243 707115826 583 True 483 483 81.711 776 1368 1 chr3A.!!$R1 592

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
457 460 0.190069 ACCACCACACTGGAGTAGGA 59.81 55.0 0.0 0.0 40.96 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1508 1538 0.039346 TCGACCGCGTTGTCATAACA 60.039 50.0 14.47 0.0 38.98 2.41 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
115 116 1.421268 TGCAATGAGACCAAGACCAGT 59.579 47.619 0.00 0.00 0.00 4.00
137 138 3.461773 CGGCAGGACGGAGGTCAT 61.462 66.667 0.00 0.00 45.28 3.06
216 217 7.949690 TTGTCAGGATAAGCTGTACTAACTA 57.050 36.000 0.00 0.00 0.00 2.24
218 219 8.534954 TGTCAGGATAAGCTGTACTAACTATT 57.465 34.615 0.00 0.00 0.00 1.73
419 422 4.288366 TCCCCTTGTACTGTTCATCATCAA 59.712 41.667 0.00 0.00 0.00 2.57
428 431 4.042062 ACTGTTCATCATCAACCCAAGAGA 59.958 41.667 0.00 0.00 0.00 3.10
457 460 0.190069 ACCACCACACTGGAGTAGGA 59.810 55.000 0.00 0.00 40.96 2.94
660 663 0.693049 AGTGATTGTCAGGGTGGGTC 59.307 55.000 0.00 0.00 0.00 4.46
663 666 1.202879 TGATTGTCAGGGTGGGTCAAC 60.203 52.381 0.00 0.00 0.00 3.18
694 698 5.105351 GCTTTGGATGGTAGGTTTTAATGCT 60.105 40.000 0.00 0.00 0.00 3.79
695 699 6.574269 GCTTTGGATGGTAGGTTTTAATGCTT 60.574 38.462 0.00 0.00 0.00 3.91
701 705 8.860088 GGATGGTAGGTTTTAATGCTTATCAAT 58.140 33.333 0.00 0.00 0.00 2.57
727 731 6.691754 TTGAACTTTGTGCTCTTCATAACA 57.308 33.333 0.00 0.00 0.00 2.41
729 733 5.822519 TGAACTTTGTGCTCTTCATAACACT 59.177 36.000 0.00 0.00 34.14 3.55
733 737 8.480643 ACTTTGTGCTCTTCATAACACTATAC 57.519 34.615 0.00 0.00 34.14 1.47
817 827 0.323725 GCCCATGGAGAAAGGCAAGA 60.324 55.000 15.22 0.00 45.07 3.02
837 847 4.740822 GTGGTGCCGCCCTTGGAT 62.741 66.667 0.00 0.00 36.04 3.41
869 879 2.997897 GCCTGAGGAGGTGTCGGT 60.998 66.667 0.65 0.00 42.15 4.69
944 963 0.691078 GGGCACTACCATGAGGAGGA 60.691 60.000 0.00 0.00 42.05 3.71
945 964 0.466124 GGCACTACCATGAGGAGGAC 59.534 60.000 0.00 0.00 38.86 3.85
949 968 0.397254 CTACCATGAGGAGGACGGGT 60.397 60.000 0.00 0.00 38.69 5.28
1021 1040 1.276622 GCCCCTAGACTTCACCAAGA 58.723 55.000 0.00 0.00 33.34 3.02
1067 1087 1.466167 CAAGCTCAAGATGAACACCGG 59.534 52.381 0.00 0.00 0.00 5.28
1068 1088 0.976641 AGCTCAAGATGAACACCGGA 59.023 50.000 9.46 0.00 0.00 5.14
1083 1103 1.121407 CCGGATGCTCATGGAGGGTA 61.121 60.000 0.00 0.00 0.00 3.69
1140 1160 2.520968 GGTTGGGCCACCTTCACT 59.479 61.111 5.23 0.00 37.76 3.41
1143 1163 0.755327 GTTGGGCCACCTTCACTGTT 60.755 55.000 5.23 0.00 37.76 3.16
1149 1169 1.308998 CCACCTTCACTGTTGTCCAC 58.691 55.000 0.00 0.00 0.00 4.02
1152 1172 1.283613 ACCTTCACTGTTGTCCACCAA 59.716 47.619 0.00 0.00 0.00 3.67
1227 1248 3.131223 AGGTCATCATCTTCAACGACGAT 59.869 43.478 0.00 0.00 0.00 3.73
1291 1312 1.153881 GCCGTGAACGTCTAGGACC 60.154 63.158 1.75 0.00 37.74 4.46
1296 1318 1.884579 GTGAACGTCTAGGACCACTCA 59.115 52.381 0.00 0.00 0.00 3.41
1299 1321 0.111832 ACGTCTAGGACCACTCACCA 59.888 55.000 0.00 0.00 0.00 4.17
1325 1347 3.093814 TCCAGCTGGTTTAGTATCGACA 58.906 45.455 31.58 5.17 36.34 4.35
1354 1384 1.862827 CTGCTTTGCTTGAAAACTGCC 59.137 47.619 0.00 0.00 0.00 4.85
1368 1398 3.369546 AACTGCCATGTTTAAGTGTGC 57.630 42.857 0.00 0.00 0.00 4.57
1373 1403 3.501828 TGCCATGTTTAAGTGTGCTACTG 59.498 43.478 0.00 0.00 40.26 2.74
1374 1404 3.751175 GCCATGTTTAAGTGTGCTACTGA 59.249 43.478 0.00 0.00 40.26 3.41
1375 1405 4.215399 GCCATGTTTAAGTGTGCTACTGAA 59.785 41.667 0.00 0.00 40.26 3.02
1376 1406 5.617751 GCCATGTTTAAGTGTGCTACTGAAG 60.618 44.000 0.00 0.00 40.26 3.02
1377 1407 5.106555 CCATGTTTAAGTGTGCTACTGAAGG 60.107 44.000 0.00 0.00 40.26 3.46
1378 1408 5.284861 TGTTTAAGTGTGCTACTGAAGGA 57.715 39.130 0.00 0.00 40.26 3.36
1379 1409 5.676552 TGTTTAAGTGTGCTACTGAAGGAA 58.323 37.500 0.00 0.00 40.26 3.36
1380 1410 6.116806 TGTTTAAGTGTGCTACTGAAGGAAA 58.883 36.000 0.00 0.00 40.26 3.13
1381 1411 6.770785 TGTTTAAGTGTGCTACTGAAGGAAAT 59.229 34.615 0.00 0.00 40.26 2.17
1382 1412 7.934665 TGTTTAAGTGTGCTACTGAAGGAAATA 59.065 33.333 0.00 0.00 40.26 1.40
1383 1413 8.947115 GTTTAAGTGTGCTACTGAAGGAAATAT 58.053 33.333 0.00 0.00 40.26 1.28
1384 1414 6.992063 AAGTGTGCTACTGAAGGAAATATG 57.008 37.500 0.00 0.00 40.26 1.78
1385 1415 4.878397 AGTGTGCTACTGAAGGAAATATGC 59.122 41.667 0.00 0.00 38.49 3.14
1386 1416 4.035675 GTGTGCTACTGAAGGAAATATGCC 59.964 45.833 0.00 0.00 0.00 4.40
1387 1417 3.565902 GTGCTACTGAAGGAAATATGCCC 59.434 47.826 0.00 0.00 0.00 5.36
1388 1418 3.459598 TGCTACTGAAGGAAATATGCCCT 59.540 43.478 0.00 0.00 0.00 5.19
1389 1419 4.658435 TGCTACTGAAGGAAATATGCCCTA 59.342 41.667 0.00 0.00 31.36 3.53
1467 1497 1.069204 GATGCATAGCAACGAGAGGGA 59.931 52.381 0.00 0.00 43.62 4.20
1481 1511 2.569404 GAGAGGGAAGAGTGTTGTCCAT 59.431 50.000 0.00 0.00 32.70 3.41
1508 1538 3.600388 CTCATAGACCAAAAGCGGAAGT 58.400 45.455 0.00 0.00 0.00 3.01
1525 1555 1.425412 AGTGTTATGACAACGCGGTC 58.575 50.000 12.47 10.03 37.57 4.79
1597 1627 2.125952 CTCCGCGATCTGCACACA 60.126 61.111 8.23 0.00 46.97 3.72
1631 1661 1.664874 CGTCCAACGAACTCACGATCA 60.665 52.381 0.00 0.00 46.05 2.92
1643 1673 3.759086 ACTCACGATCAAGTAGAGCTTCA 59.241 43.478 0.00 0.00 34.69 3.02
1653 1683 1.138069 GTAGAGCTTCAAGGGAGAGCC 59.862 57.143 0.00 0.00 0.00 4.70
1827 1860 3.265995 CCTTGCCCCCGTATATAAAGGAT 59.734 47.826 7.00 0.00 35.73 3.24
2108 2150 2.369654 GGTAACCCCTCCGACACTT 58.630 57.895 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 0.103572 AACAAGGACGCTACGTGTGT 59.896 50.000 0.00 0.46 41.37 3.72
8 9 0.677842 AGGAAACAAGGACGCTACGT 59.322 50.000 0.00 0.00 45.10 3.57
11 12 3.399330 CAAAGAGGAAACAAGGACGCTA 58.601 45.455 0.00 0.00 0.00 4.26
137 138 2.989639 CCGTCTTGGGCTCCATGA 59.010 61.111 0.00 5.92 35.72 3.07
216 217 2.256306 ACGGCCAATTTGAAAGGGAAT 58.744 42.857 2.24 0.00 0.00 3.01
218 219 1.342819 CAACGGCCAATTTGAAAGGGA 59.657 47.619 2.24 0.00 0.00 4.20
419 422 1.073923 GTGGTGGATTGTCTCTTGGGT 59.926 52.381 0.00 0.00 0.00 4.51
428 431 0.467290 GTGTGGTGGTGGTGGATTGT 60.467 55.000 0.00 0.00 0.00 2.71
581 584 1.228003 TTCGAACATTGGGGTGCGT 60.228 52.632 0.00 0.00 40.73 5.24
632 635 5.421056 CACCCTGACAATCACTACTTACCTA 59.579 44.000 0.00 0.00 0.00 3.08
633 636 4.223032 CACCCTGACAATCACTACTTACCT 59.777 45.833 0.00 0.00 0.00 3.08
647 650 1.628340 CTATGTTGACCCACCCTGACA 59.372 52.381 0.00 0.00 0.00 3.58
660 663 2.034124 CCATCCAAAGCCCCTATGTTG 58.966 52.381 0.00 0.00 0.00 3.33
663 666 2.224867 CCTACCATCCAAAGCCCCTATG 60.225 54.545 0.00 0.00 0.00 2.23
694 698 8.169977 AGAGCACAAAGTTCAAAGATTGATAA 57.830 30.769 0.00 0.00 39.84 1.75
695 699 7.750229 AGAGCACAAAGTTCAAAGATTGATA 57.250 32.000 0.00 0.00 39.84 2.15
701 705 7.066887 TGTTATGAAGAGCACAAAGTTCAAAGA 59.933 33.333 0.00 0.00 32.85 2.52
727 731 9.332502 TGTTATGAACAACACAAAGTGTATAGT 57.667 29.630 2.90 0.85 46.79 2.12
817 827 4.974721 CAAGGGCGGCACCACCTT 62.975 66.667 12.47 0.00 45.08 3.50
869 879 2.616960 GTGCCACATTATCGTCTGTGA 58.383 47.619 4.34 0.00 44.35 3.58
873 883 0.179084 CCGGTGCCACATTATCGTCT 60.179 55.000 0.00 0.00 0.00 4.18
880 890 2.671070 CTCCTCCGGTGCCACATT 59.329 61.111 0.00 0.00 0.00 2.71
921 938 0.104304 CCTCATGGTAGTGCCCGTAC 59.896 60.000 0.00 0.00 36.04 3.67
944 963 0.249911 GCAGAAGTGAGTTGACCCGT 60.250 55.000 0.00 0.00 0.00 5.28
945 964 0.249868 TGCAGAAGTGAGTTGACCCG 60.250 55.000 0.00 0.00 0.00 5.28
949 968 2.170397 TCACCTTGCAGAAGTGAGTTGA 59.830 45.455 10.45 0.00 0.00 3.18
981 1000 1.896220 TTGGAATGCACTCGAGCTTT 58.104 45.000 13.61 4.85 34.97 3.51
1067 1087 5.809001 TCATAATTACCCTCCATGAGCATC 58.191 41.667 0.00 0.00 0.00 3.91
1068 1088 5.280882 CCTCATAATTACCCTCCATGAGCAT 60.281 44.000 0.00 0.00 40.71 3.79
1083 1103 2.880890 GCCGTTCATCAGCCTCATAATT 59.119 45.455 0.00 0.00 0.00 1.40
1140 1160 3.501828 CGATCTTGATTTGGTGGACAACA 59.498 43.478 0.00 0.00 39.19 3.33
1143 1163 2.617788 CCCGATCTTGATTTGGTGGACA 60.618 50.000 0.00 0.00 0.00 4.02
1149 1169 3.565482 CCATGTACCCGATCTTGATTTGG 59.435 47.826 0.00 0.00 0.00 3.28
1152 1172 3.454447 TCACCATGTACCCGATCTTGATT 59.546 43.478 0.00 0.00 0.00 2.57
1227 1248 0.184692 TGGTCACCACTTCAATGCCA 59.815 50.000 0.00 0.00 0.00 4.92
1291 1312 0.322277 AGCTGGAGCAATGGTGAGTG 60.322 55.000 0.65 0.00 45.16 3.51
1296 1318 3.174313 ACCAGCTGGAGCAATGGT 58.826 55.556 39.19 12.36 42.52 3.55
1299 1321 2.887151 ACTAAACCAGCTGGAGCAAT 57.113 45.000 39.19 20.17 45.16 3.56
1325 1347 8.143835 AGTTTTCAAGCAAAGCAGTACAATATT 58.856 29.630 0.00 0.00 0.00 1.28
1354 1384 5.700832 TCCTTCAGTAGCACACTTAAACATG 59.299 40.000 0.00 0.00 34.26 3.21
1368 1398 6.672266 TCTAGGGCATATTTCCTTCAGTAG 57.328 41.667 0.00 0.00 34.75 2.57
1373 1403 5.474876 CCAACATCTAGGGCATATTTCCTTC 59.525 44.000 0.00 0.00 34.75 3.46
1374 1404 5.388654 CCAACATCTAGGGCATATTTCCTT 58.611 41.667 0.00 0.00 34.75 3.36
1375 1405 4.202609 CCCAACATCTAGGGCATATTTCCT 60.203 45.833 0.00 0.00 38.44 3.36
1376 1406 4.082125 CCCAACATCTAGGGCATATTTCC 58.918 47.826 0.00 0.00 38.44 3.13
1377 1407 4.082125 CCCCAACATCTAGGGCATATTTC 58.918 47.826 0.00 0.00 44.06 2.17
1378 1408 3.726859 TCCCCAACATCTAGGGCATATTT 59.273 43.478 0.00 0.00 44.06 1.40
1379 1409 3.335748 TCCCCAACATCTAGGGCATATT 58.664 45.455 0.00 0.00 44.06 1.28
1380 1410 3.004126 TCCCCAACATCTAGGGCATAT 57.996 47.619 0.00 0.00 44.06 1.78
1381 1411 2.441750 GTTCCCCAACATCTAGGGCATA 59.558 50.000 0.00 0.00 44.06 3.14
1382 1412 1.215423 GTTCCCCAACATCTAGGGCAT 59.785 52.381 0.00 0.00 44.06 4.40
1383 1413 0.623723 GTTCCCCAACATCTAGGGCA 59.376 55.000 0.00 0.00 44.06 5.36
1384 1414 0.463833 CGTTCCCCAACATCTAGGGC 60.464 60.000 0.00 0.00 44.06 5.19
1385 1415 0.909623 ACGTTCCCCAACATCTAGGG 59.090 55.000 0.00 0.00 45.04 3.53
1386 1416 2.764572 ACTACGTTCCCCAACATCTAGG 59.235 50.000 0.00 0.00 32.14 3.02
1387 1417 5.587388 TTACTACGTTCCCCAACATCTAG 57.413 43.478 0.00 0.00 32.14 2.43
1388 1418 6.549433 AATTACTACGTTCCCCAACATCTA 57.451 37.500 0.00 0.00 32.14 1.98
1389 1419 5.431179 AATTACTACGTTCCCCAACATCT 57.569 39.130 0.00 0.00 32.14 2.90
1467 1497 2.979678 AGGGTACATGGACAACACTCTT 59.020 45.455 10.99 0.00 0.00 2.85
1481 1511 3.369052 CGCTTTTGGTCTATGAGGGTACA 60.369 47.826 0.00 0.00 0.00 2.90
1508 1538 0.039346 TCGACCGCGTTGTCATAACA 60.039 50.000 14.47 0.00 38.98 2.41
1597 1627 1.215647 GGACGTCACCGAGCTGAAT 59.784 57.895 18.91 0.00 37.88 2.57
1616 1646 4.724303 CTCTACTTGATCGTGAGTTCGTT 58.276 43.478 2.15 0.00 32.54 3.85
1631 1661 2.499693 GCTCTCCCTTGAAGCTCTACTT 59.500 50.000 0.00 0.00 42.98 2.24
1643 1673 2.355193 GCTGACGAGGCTCTCCCTT 61.355 63.158 13.50 0.00 46.60 3.95
2108 2150 3.408634 GGGTGATTTCAGAGAAAACCGA 58.591 45.455 7.07 0.00 0.00 4.69
2201 2243 3.305403 GGATATGATCACGGACATGACGT 60.305 47.826 12.95 12.95 46.82 4.34


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

AutoCloner maintained by Alex Coulton.