Multiple sequence alignment - TraesCS6A01G287000

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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 TraesCS6A01G287000 chr6A 100.000 2511 0 0 1 2511 519220900 519218390 0.000000e+00 4638.0
1 TraesCS6A01G287000 chr6D 91.613 1693 85 24 160 1828 377828173 377826514 0.000000e+00 2287.0
2 TraesCS6A01G287000 chr6D 90.184 163 11 2 1830 1991 377826481 377826323 9.100000e-50 207.0
3 TraesCS6A01G287000 chr6B 88.273 1245 56 38 779 1986 564063206 564062015 0.000000e+00 1408.0
4 TraesCS6A01G287000 chr6B 95.922 515 19 2 1998 2511 603739749 603740262 0.000000e+00 833.0
5 TraesCS6A01G287000 chr6B 87.429 700 58 17 1 677 564215334 564214642 0.000000e+00 778.0
6 TraesCS6A01G287000 chr6B 96.429 56 1 1 676 731 564063262 564063208 9.570000e-15 91.6
7 TraesCS6A01G287000 chr3A 97.490 518 12 1 1995 2511 157623291 157623808 0.000000e+00 883.0
8 TraesCS6A01G287000 chr1A 95.785 522 21 1 1990 2511 355729450 355728930 0.000000e+00 841.0
9 TraesCS6A01G287000 chr3B 95.349 516 23 1 1996 2511 525648260 525647746 0.000000e+00 819.0
10 TraesCS6A01G287000 chr3D 94.798 519 25 1 1993 2511 609002183 609001667 0.000000e+00 808.0
11 TraesCS6A01G287000 chr3D 94.004 517 28 1 1995 2511 528794931 528795444 0.000000e+00 780.0
12 TraesCS6A01G287000 chr2D 94.636 522 26 2 1990 2511 532049055 532048536 0.000000e+00 808.0
13 TraesCS6A01G287000 chr1D 94.380 516 27 2 1996 2511 6519988 6519475 0.000000e+00 791.0
14 TraesCS6A01G287000 chr2A 90.874 515 41 5 1997 2511 725276057 725276565 0.000000e+00 686.0


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 TraesCS6A01G287000 chr6A 519218390 519220900 2510 True 4638.0 4638 100.0000 1 2511 1 chr6A.!!$R1 2510
1 TraesCS6A01G287000 chr6D 377826323 377828173 1850 True 1247.0 2287 90.8985 160 1991 2 chr6D.!!$R1 1831
2 TraesCS6A01G287000 chr6B 603739749 603740262 513 False 833.0 833 95.9220 1998 2511 1 chr6B.!!$F1 513
3 TraesCS6A01G287000 chr6B 564214642 564215334 692 True 778.0 778 87.4290 1 677 1 chr6B.!!$R1 676
4 TraesCS6A01G287000 chr6B 564062015 564063262 1247 True 749.8 1408 92.3510 676 1986 2 chr6B.!!$R2 1310
5 TraesCS6A01G287000 chr3A 157623291 157623808 517 False 883.0 883 97.4900 1995 2511 1 chr3A.!!$F1 516
6 TraesCS6A01G287000 chr1A 355728930 355729450 520 True 841.0 841 95.7850 1990 2511 1 chr1A.!!$R1 521
7 TraesCS6A01G287000 chr3B 525647746 525648260 514 True 819.0 819 95.3490 1996 2511 1 chr3B.!!$R1 515
8 TraesCS6A01G287000 chr3D 609001667 609002183 516 True 808.0 808 94.7980 1993 2511 1 chr3D.!!$R1 518
9 TraesCS6A01G287000 chr3D 528794931 528795444 513 False 780.0 780 94.0040 1995 2511 1 chr3D.!!$F1 516
10 TraesCS6A01G287000 chr2D 532048536 532049055 519 True 808.0 808 94.6360 1990 2511 1 chr2D.!!$R1 521
11 TraesCS6A01G287000 chr1D 6519475 6519988 513 True 791.0 791 94.3800 1996 2511 1 chr1D.!!$R1 515
12 TraesCS6A01G287000 chr2A 725276057 725276565 508 False 686.0 686 90.8740 1997 2511 1 chr2A.!!$F1 514

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
308 321 0.17576 CTTCGTCATCCGTCCACCAT 59.824 55.0 0.0 0.0 37.94 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1521 1561 0.043334 CCCCCTTCTCCTCTTCCTCA 59.957 60.0 0.0 0.0 0.0 3.86 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
17 18 2.338984 GCGTCACCTCAACGACCT 59.661 61.111 0.00 0.00 42.62 3.85
20 21 1.069090 GTCACCTCAACGACCTGCA 59.931 57.895 0.00 0.00 0.00 4.41
21 22 0.531974 GTCACCTCAACGACCTGCAA 60.532 55.000 0.00 0.00 0.00 4.08
73 74 2.475466 CCATGGCTGGTGTCGATGC 61.475 63.158 0.00 0.00 37.79 3.91
103 105 2.005350 TGGTGTCTCTCCCTACCCTTA 58.995 52.381 0.00 0.00 32.20 2.69
104 106 2.292061 TGGTGTCTCTCCCTACCCTTAC 60.292 54.545 0.00 0.00 32.20 2.34
129 131 2.360854 CCTGGTCTTCCCTCTAATCCCT 60.361 54.545 0.00 0.00 0.00 4.20
144 146 4.527583 CCTCCTCTCTGGCGCTGC 62.528 72.222 7.64 0.00 35.26 5.25
167 169 1.228552 CCACACCCAACCCCTTCAG 60.229 63.158 0.00 0.00 0.00 3.02
168 170 1.715019 CCACACCCAACCCCTTCAGA 61.715 60.000 0.00 0.00 0.00 3.27
191 193 0.320374 CGTCCTTGCCTTCACCTGTA 59.680 55.000 0.00 0.00 0.00 2.74
257 259 1.079819 CACCACCTACGCCTCACAG 60.080 63.158 0.00 0.00 0.00 3.66
259 261 2.125512 CACCTACGCCTCACAGCC 60.126 66.667 0.00 0.00 0.00 4.85
260 262 3.760035 ACCTACGCCTCACAGCCG 61.760 66.667 0.00 0.00 0.00 5.52
308 321 0.175760 CTTCGTCATCCGTCCACCAT 59.824 55.000 0.00 0.00 37.94 3.55
323 336 2.196925 CCATCTCCTACGCCTCGCT 61.197 63.158 0.00 0.00 0.00 4.93
411 424 1.852895 CTCGCTATTTCACGCACTACC 59.147 52.381 0.00 0.00 0.00 3.18
415 428 0.176219 TATTTCACGCACTACCCCGG 59.824 55.000 0.00 0.00 0.00 5.73
421 434 3.087906 GCACTACCCCGGGGATGT 61.088 66.667 46.68 35.77 38.96 3.06
423 436 1.687840 CACTACCCCGGGGATGTCA 60.688 63.158 46.68 22.36 38.96 3.58
445 459 1.821216 AAAAAGACATGCGATCCGGT 58.179 45.000 0.00 0.00 0.00 5.28
463 477 1.982395 TGACTCCACCACCTAGCCG 60.982 63.158 0.00 0.00 0.00 5.52
474 488 1.003839 CCTAGCCGCAAACAGGACA 60.004 57.895 0.00 0.00 0.00 4.02
476 490 1.626654 CTAGCCGCAAACAGGACACG 61.627 60.000 0.00 0.00 0.00 4.49
513 527 1.140589 CAGAAGCAGCGACGGAGAT 59.859 57.895 0.00 0.00 0.00 2.75
569 594 8.428852 TGCTGCTAATATTACTTATGAACAGGA 58.571 33.333 0.00 0.00 0.00 3.86
581 606 8.794335 ACTTATGAACAGGAAGAAAATAGTCC 57.206 34.615 0.00 0.00 0.00 3.85
602 627 6.041979 AGTCCACTATTTGTTGCCAAAAATCT 59.958 34.615 0.00 0.00 43.43 2.40
603 628 6.705825 GTCCACTATTTGTTGCCAAAAATCTT 59.294 34.615 0.00 0.00 43.43 2.40
773 798 5.291858 GCTGGGAAATGTGCTTAATTTTAGC 59.708 40.000 0.51 0.51 39.10 3.09
912 937 0.320050 GGAAATTTTGCCCCGAAGCA 59.680 50.000 0.00 0.00 42.17 3.91
913 938 1.428448 GAAATTTTGCCCCGAAGCAC 58.572 50.000 0.00 0.00 43.97 4.40
914 939 1.000843 GAAATTTTGCCCCGAAGCACT 59.999 47.619 0.00 0.00 43.97 4.40
915 940 1.047801 AATTTTGCCCCGAAGCACTT 58.952 45.000 0.00 0.00 43.97 3.16
916 941 0.318120 ATTTTGCCCCGAAGCACTTG 59.682 50.000 0.00 0.00 43.97 3.16
917 942 2.362329 TTTTGCCCCGAAGCACTTGC 62.362 55.000 0.00 0.00 43.97 4.01
1026 1052 2.941720 GGTGAGTTGATCAAGATCCTGC 59.058 50.000 8.80 3.96 40.43 4.85
1084 1110 0.746063 TCTTGTTTGCACTGCCTTGG 59.254 50.000 0.00 0.00 0.00 3.61
1094 1120 2.098117 GCACTGCCTTGGTTGATCATAC 59.902 50.000 0.00 0.00 0.00 2.39
1095 1121 3.614092 CACTGCCTTGGTTGATCATACT 58.386 45.455 0.00 0.00 0.00 2.12
1096 1122 4.769688 CACTGCCTTGGTTGATCATACTA 58.230 43.478 0.00 0.00 0.00 1.82
1097 1123 4.572389 CACTGCCTTGGTTGATCATACTAC 59.428 45.833 0.00 0.00 0.00 2.73
1107 1133 7.219322 TGGTTGATCATACTACATGGATCTTG 58.781 38.462 0.00 0.00 37.60 3.02
1140 1169 6.020440 GTCGCAAACAAATAATGTGATGATGG 60.020 38.462 0.00 0.00 42.99 3.51
1141 1170 5.806502 CGCAAACAAATAATGTGATGATGGT 59.193 36.000 0.00 0.00 42.99 3.55
1142 1171 6.237622 CGCAAACAAATAATGTGATGATGGTG 60.238 38.462 0.00 0.00 42.99 4.17
1162 1192 4.319694 GGTGCATTGAAACAAGAAAATGGC 60.320 41.667 0.00 0.00 31.97 4.40
1168 1198 6.409524 TTGAAACAAGAAAATGGCTCAGAT 57.590 33.333 0.00 0.00 0.00 2.90
1303 1333 4.034258 CGTGCACAAGGCCAGCAG 62.034 66.667 18.64 0.53 43.89 4.24
1349 1379 1.406069 CCCGACTCCAAGATGAACCAG 60.406 57.143 0.00 0.00 0.00 4.00
1384 1414 2.046604 GCCCAACACCTCGGTACC 60.047 66.667 0.16 0.16 0.00 3.34
1385 1415 2.590114 GCCCAACACCTCGGTACCT 61.590 63.158 10.90 0.00 0.00 3.08
1396 1436 3.007723 ACCTCGGTACCTTTTCTTCTTCC 59.992 47.826 10.90 0.00 0.00 3.46
1411 1451 5.398236 TCTTCTTCCTCTTCTTCTTCCTCA 58.602 41.667 0.00 0.00 0.00 3.86
1412 1452 5.245075 TCTTCTTCCTCTTCTTCTTCCTCAC 59.755 44.000 0.00 0.00 0.00 3.51
1415 1455 4.676799 TCCTCTTCTTCTTCCTCACCTA 57.323 45.455 0.00 0.00 0.00 3.08
1419 1459 5.660864 CCTCTTCTTCTTCCTCACCTATCTT 59.339 44.000 0.00 0.00 0.00 2.40
1425 1465 7.644062 TCTTCTTCCTCACCTATCTTAAGAGA 58.356 38.462 11.53 5.40 36.09 3.10
1426 1466 8.285891 TCTTCTTCCTCACCTATCTTAAGAGAT 58.714 37.037 11.53 0.00 44.67 2.75
1427 1467 8.846423 TTCTTCCTCACCTATCTTAAGAGATT 57.154 34.615 11.53 0.00 42.55 2.40
1428 1468 8.472007 TCTTCCTCACCTATCTTAAGAGATTC 57.528 38.462 11.53 0.00 42.55 2.52
1429 1469 8.061920 TCTTCCTCACCTATCTTAAGAGATTCA 58.938 37.037 11.53 0.00 42.55 2.57
1430 1470 8.609617 TTCCTCACCTATCTTAAGAGATTCAA 57.390 34.615 11.53 0.00 42.55 2.69
1431 1471 8.243961 TCCTCACCTATCTTAAGAGATTCAAG 57.756 38.462 11.53 4.82 42.55 3.02
1432 1472 8.061920 TCCTCACCTATCTTAAGAGATTCAAGA 58.938 37.037 11.53 2.68 42.55 3.02
1433 1473 8.359642 CCTCACCTATCTTAAGAGATTCAAGAG 58.640 40.741 11.53 10.96 42.55 2.85
1434 1474 9.130661 CTCACCTATCTTAAGAGATTCAAGAGA 57.869 37.037 11.53 0.13 42.55 3.10
1435 1475 9.653516 TCACCTATCTTAAGAGATTCAAGAGAT 57.346 33.333 11.53 0.00 42.55 2.75
1533 1573 2.230130 AGGACACTGAGGAAGAGGAG 57.770 55.000 0.00 0.00 0.00 3.69
1534 1574 1.713647 AGGACACTGAGGAAGAGGAGA 59.286 52.381 0.00 0.00 0.00 3.71
1615 1660 1.512734 CAATGCCGCTGCTTCGTTC 60.513 57.895 0.70 0.00 38.71 3.95
1741 1792 1.153168 AGGCGCGATGTATGGCTTT 60.153 52.632 12.10 0.00 34.51 3.51
1911 1994 3.494048 CCCTGCAGAACTACCAGATGATC 60.494 52.174 17.39 0.00 0.00 2.92
1913 1996 2.760650 TGCAGAACTACCAGATGATCGT 59.239 45.455 0.00 0.00 0.00 3.73
1914 1997 3.195610 TGCAGAACTACCAGATGATCGTT 59.804 43.478 0.00 0.00 0.00 3.85
1915 1998 4.401202 TGCAGAACTACCAGATGATCGTTA 59.599 41.667 0.00 0.00 0.00 3.18
1916 1999 4.979197 GCAGAACTACCAGATGATCGTTAG 59.021 45.833 0.00 0.00 0.00 2.34
1917 2000 5.524284 CAGAACTACCAGATGATCGTTAGG 58.476 45.833 5.34 5.34 0.00 2.69
1918 2001 4.585162 AGAACTACCAGATGATCGTTAGGG 59.415 45.833 10.33 5.53 0.00 3.53
1919 2002 4.180377 ACTACCAGATGATCGTTAGGGA 57.820 45.455 10.33 2.37 0.00 4.20
1964 2047 5.177511 TGATGCATTAGTAGCTGTTAATCGC 59.822 40.000 0.00 7.70 0.00 4.58
1986 2069 4.697514 CATGGGTGTAGAGAATACCACAG 58.302 47.826 0.00 0.00 41.06 3.66
2092 2175 1.493871 CTTCAGATTCCATCCAGCCCT 59.506 52.381 0.00 0.00 0.00 5.19
2193 2279 7.977818 TCCATACTTATCAGAAATGCATACCT 58.022 34.615 0.00 0.00 0.00 3.08
2284 2371 8.506437 CAGAAATTCAGCTAACATTACAGACAA 58.494 33.333 0.00 0.00 0.00 3.18
2467 2554 8.918202 ATATTTGAAAGAACAACACACTAGGA 57.082 30.769 0.00 0.00 0.00 2.94
2472 2559 7.676004 TGAAAGAACAACACACTAGGATCATA 58.324 34.615 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.036571 CAGCTGATGCCGACTTGCA 61.037 57.895 8.42 0.00 46.94 4.08
20 21 0.674895 GGTTCAGCTGATGCCGACTT 60.675 55.000 19.04 0.00 40.80 3.01
21 22 1.078848 GGTTCAGCTGATGCCGACT 60.079 57.895 19.04 0.00 40.80 4.18
104 106 2.873557 TAGAGGGAAGACCAGGGCGG 62.874 65.000 0.00 0.00 43.89 6.13
129 131 3.767806 CAGCAGCGCCAGAGAGGA 61.768 66.667 2.29 0.00 41.22 3.71
144 146 1.000896 GGGGTTGGGTGTGGATCAG 60.001 63.158 0.00 0.00 0.00 2.90
167 169 1.468914 GGTGAAGGCAAGGACGAAATC 59.531 52.381 0.00 0.00 0.00 2.17
168 170 1.073923 AGGTGAAGGCAAGGACGAAAT 59.926 47.619 0.00 0.00 0.00 2.17
308 321 3.518998 GCAGCGAGGCGTAGGAGA 61.519 66.667 0.00 0.00 0.00 3.71
384 397 2.476185 GCGTGAAATAGCGAGCAAACAT 60.476 45.455 0.00 0.00 0.00 2.71
432 446 1.141881 GAGTCACCGGATCGCATGT 59.858 57.895 9.46 0.00 0.00 3.21
445 459 1.982395 CGGCTAGGTGGTGGAGTCA 60.982 63.158 0.00 0.00 0.00 3.41
463 477 1.574702 GGTAGCCGTGTCCTGTTTGC 61.575 60.000 0.00 0.00 0.00 3.68
496 510 0.665835 CTATCTCCGTCGCTGCTTCT 59.334 55.000 0.00 0.00 0.00 2.85
504 518 1.655329 GCACTCCCTATCTCCGTCG 59.345 63.158 0.00 0.00 0.00 5.12
513 527 2.671070 GCTTGCTGGCACTCCCTA 59.329 61.111 0.00 0.00 0.00 3.53
725 750 5.567430 GGATTTTGTTTACTCCCACTACCT 58.433 41.667 0.00 0.00 0.00 3.08
727 752 4.142752 GCGGATTTTGTTTACTCCCACTAC 60.143 45.833 0.00 0.00 0.00 2.73
728 753 4.004982 GCGGATTTTGTTTACTCCCACTA 58.995 43.478 0.00 0.00 0.00 2.74
729 754 2.817844 GCGGATTTTGTTTACTCCCACT 59.182 45.455 0.00 0.00 0.00 4.00
730 755 2.817844 AGCGGATTTTGTTTACTCCCAC 59.182 45.455 0.00 0.00 0.00 4.61
731 756 2.817258 CAGCGGATTTTGTTTACTCCCA 59.183 45.455 0.00 0.00 0.00 4.37
732 757 2.163613 CCAGCGGATTTTGTTTACTCCC 59.836 50.000 0.00 0.00 0.00 4.30
742 767 1.066929 GCACATTTCCCAGCGGATTTT 60.067 47.619 0.00 0.00 38.24 1.82
841 866 0.842635 CAGGAGGAGAAGATTGGGGG 59.157 60.000 0.00 0.00 0.00 5.40
842 867 0.182299 GCAGGAGGAGAAGATTGGGG 59.818 60.000 0.00 0.00 0.00 4.96
843 868 1.211456 AGCAGGAGGAGAAGATTGGG 58.789 55.000 0.00 0.00 0.00 4.12
844 869 6.371595 AATATAGCAGGAGGAGAAGATTGG 57.628 41.667 0.00 0.00 0.00 3.16
845 870 7.387397 GTCAAATATAGCAGGAGGAGAAGATTG 59.613 40.741 0.00 0.00 0.00 2.67
846 871 7.449247 GTCAAATATAGCAGGAGGAGAAGATT 58.551 38.462 0.00 0.00 0.00 2.40
912 937 3.544684 TGAATGGATATGAAGCGCAAGT 58.455 40.909 11.47 0.00 41.68 3.16
913 938 4.534168 CTTGAATGGATATGAAGCGCAAG 58.466 43.478 11.47 0.00 43.44 4.01
914 939 3.316029 CCTTGAATGGATATGAAGCGCAA 59.684 43.478 11.47 0.00 0.00 4.85
915 940 2.880268 CCTTGAATGGATATGAAGCGCA 59.120 45.455 11.47 0.00 0.00 6.09
916 941 2.227388 CCCTTGAATGGATATGAAGCGC 59.773 50.000 0.00 0.00 0.00 5.92
917 942 2.816087 CCCCTTGAATGGATATGAAGCG 59.184 50.000 0.00 0.00 0.00 4.68
1026 1052 4.509970 TGAATCCATAGGCGTAAATTCACG 59.490 41.667 13.66 0.00 44.71 4.35
1084 1110 8.668510 AACAAGATCCATGTAGTATGATCAAC 57.331 34.615 0.00 0.00 0.00 3.18
1094 1120 6.907212 GCGACATTAAAACAAGATCCATGTAG 59.093 38.462 2.46 0.00 0.00 2.74
1095 1121 6.372937 TGCGACATTAAAACAAGATCCATGTA 59.627 34.615 2.46 0.00 0.00 2.29
1096 1122 5.182950 TGCGACATTAAAACAAGATCCATGT 59.817 36.000 0.00 0.00 0.00 3.21
1097 1123 5.639757 TGCGACATTAAAACAAGATCCATG 58.360 37.500 0.00 0.00 0.00 3.66
1107 1133 9.300441 CACATTATTTGTTTGCGACATTAAAAC 57.700 29.630 0.00 0.00 38.26 2.43
1140 1169 4.512571 AGCCATTTTCTTGTTTCAATGCAC 59.487 37.500 0.00 0.00 0.00 4.57
1141 1170 4.706035 AGCCATTTTCTTGTTTCAATGCA 58.294 34.783 0.00 0.00 0.00 3.96
1142 1171 4.751098 TGAGCCATTTTCTTGTTTCAATGC 59.249 37.500 0.00 0.00 0.00 3.56
1162 1192 2.509916 GGCCAGCCTCCATCTGAG 59.490 66.667 0.00 0.00 41.07 3.35
1349 1379 0.391793 GCCTGGAGTTGCTGTAGGAC 60.392 60.000 0.00 0.00 0.00 3.85
1384 1414 7.223584 AGGAAGAAGAAGAGGAAGAAGAAAAG 58.776 38.462 0.00 0.00 0.00 2.27
1385 1415 7.142995 AGGAAGAAGAAGAGGAAGAAGAAAA 57.857 36.000 0.00 0.00 0.00 2.29
1396 1436 6.790232 AAGATAGGTGAGGAAGAAGAAGAG 57.210 41.667 0.00 0.00 0.00 2.85
1426 1466 9.027202 TGGAAATGAATGAATGAATCTCTTGAA 57.973 29.630 0.00 0.00 0.00 2.69
1427 1467 8.584063 TGGAAATGAATGAATGAATCTCTTGA 57.416 30.769 0.00 0.00 0.00 3.02
1428 1468 9.464714 GATGGAAATGAATGAATGAATCTCTTG 57.535 33.333 0.00 0.00 0.00 3.02
1429 1469 9.422681 AGATGGAAATGAATGAATGAATCTCTT 57.577 29.630 0.00 0.00 0.00 2.85
1430 1470 8.851145 CAGATGGAAATGAATGAATGAATCTCT 58.149 33.333 0.00 0.00 0.00 3.10
1431 1471 8.847196 TCAGATGGAAATGAATGAATGAATCTC 58.153 33.333 0.00 0.00 0.00 2.75
1432 1472 8.762481 TCAGATGGAAATGAATGAATGAATCT 57.238 30.769 0.00 0.00 0.00 2.40
1437 1477 9.140286 GCAATATCAGATGGAAATGAATGAATG 57.860 33.333 0.00 0.00 0.00 2.67
1449 1489 6.489022 CCATTTCTTCTGCAATATCAGATGGA 59.511 38.462 5.60 0.00 42.12 3.41
1507 1547 0.902048 TCCTCAGTGTCCTGGCTCAG 60.902 60.000 0.00 0.00 39.31 3.35
1519 1559 1.273552 CCCCTTCTCCTCTTCCTCAGT 60.274 57.143 0.00 0.00 0.00 3.41
1520 1560 1.494960 CCCCTTCTCCTCTTCCTCAG 58.505 60.000 0.00 0.00 0.00 3.35
1521 1561 0.043334 CCCCCTTCTCCTCTTCCTCA 59.957 60.000 0.00 0.00 0.00 3.86
1524 1564 1.429930 GATCCCCCTTCTCCTCTTCC 58.570 60.000 0.00 0.00 0.00 3.46
1527 1567 1.234529 CCGATCCCCCTTCTCCTCT 59.765 63.158 0.00 0.00 0.00 3.69
1530 1570 3.561241 GCCCGATCCCCCTTCTCC 61.561 72.222 0.00 0.00 0.00 3.71
1706 1757 4.293648 TGGCGACAGGGTCACGTG 62.294 66.667 9.94 9.94 38.41 4.49
1741 1792 4.997395 AGCAAGTTTCTTTCTCTTATGCGA 59.003 37.500 0.00 0.00 0.00 5.10
1861 1944 1.143838 CATCGAACGGGGCATCTCA 59.856 57.895 0.00 0.00 0.00 3.27
1896 1979 4.583489 TCCCTAACGATCATCTGGTAGTTC 59.417 45.833 0.00 0.00 0.00 3.01
1911 1994 8.973835 TTTTTGCATATAGTTTTTCCCTAACG 57.026 30.769 0.00 0.00 0.00 3.18
1915 1998 9.603921 CATCATTTTTGCATATAGTTTTTCCCT 57.396 29.630 0.00 0.00 0.00 4.20
1916 1999 9.598517 TCATCATTTTTGCATATAGTTTTTCCC 57.401 29.630 0.00 0.00 0.00 3.97
1948 2031 3.386726 ACCCATGCGATTAACAGCTACTA 59.613 43.478 5.72 0.00 0.00 1.82
1950 2033 2.287915 CACCCATGCGATTAACAGCTAC 59.712 50.000 5.72 0.00 0.00 3.58
1964 2047 4.697514 CTGTGGTATTCTCTACACCCATG 58.302 47.826 0.00 0.00 33.07 3.66
2172 2258 8.367911 CACCTAGGTATGCATTTCTGATAAGTA 58.632 37.037 15.80 0.00 0.00 2.24
2193 2279 3.162666 CTGTGTGGTTACCTCTCACCTA 58.837 50.000 16.66 4.67 33.76 3.08
2284 2371 4.514401 GTCTTGACATCGGGGAGTAATTT 58.486 43.478 0.00 0.00 0.00 1.82
2467 2554 9.425248 ACATTTCATCATGTTTACCCTTATGAT 57.575 29.630 0.00 0.00 40.00 2.45
2472 2559 6.663093 TGCTACATTTCATCATGTTTACCCTT 59.337 34.615 0.00 0.00 38.40 3.95


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

AutoCloner maintained by Alex Coulton.