Multiple sequence alignment - TraesCS6A01G117000

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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 TraesCS6A01G117000 chr6A 100.000 2448 0 0 1 2448 87646114 87643667 0.000000e+00 4521.0
1 TraesCS6A01G117000 chr6A 93.380 861 53 4 1590 2448 299814869 299814011 0.000000e+00 1271.0
2 TraesCS6A01G117000 chr6A 92.915 861 59 2 1590 2448 299805219 299804359 0.000000e+00 1251.0
3 TraesCS6A01G117000 chr6A 92.647 68 5 0 1523 1590 3499119 3499186 5.570000e-17 99.0
4 TraesCS6A01G117000 chr7A 93.728 861 52 2 1590 2448 461973380 461972520 0.000000e+00 1290.0
5 TraesCS6A01G117000 chr7A 93.403 864 55 2 1587 2448 31600278 31601141 0.000000e+00 1279.0
6 TraesCS6A01G117000 chr7A 91.667 72 6 0 1524 1595 464472818 464472889 1.550000e-17 100.0
7 TraesCS6A01G117000 chr7A 89.474 76 6 2 1526 1600 706173729 706173803 7.210000e-16 95.3
8 TraesCS6A01G117000 chr7A 94.828 58 3 0 1533 1590 173695622 173695565 9.320000e-15 91.6
9 TraesCS6A01G117000 chr3A 93.395 863 54 3 1587 2448 263845442 263846302 0.000000e+00 1275.0
10 TraesCS6A01G117000 chr3A 93.256 860 56 2 1590 2448 264554848 264553990 0.000000e+00 1266.0
11 TraesCS6A01G117000 chr3A 93.048 863 59 1 1587 2448 245697215 245698077 0.000000e+00 1260.0
12 TraesCS6A01G117000 chr2A 93.264 861 53 4 1590 2448 418164234 418163377 0.000000e+00 1264.0
13 TraesCS6A01G117000 chr2A 93.939 66 4 0 1525 1590 77839143 77839208 1.550000e-17 100.0
14 TraesCS6A01G117000 chr5A 93.048 863 53 4 1587 2448 555617077 555617933 0.000000e+00 1254.0
15 TraesCS6A01G117000 chr5A 91.892 74 5 1 1520 1593 415228740 415228668 4.310000e-18 102.0
16 TraesCS6A01G117000 chr6D 92.950 766 25 5 782 1531 69905635 69904883 0.000000e+00 1088.0
17 TraesCS6A01G117000 chr6D 83.690 748 79 19 808 1531 69788557 69787829 0.000000e+00 665.0
18 TraesCS6A01G117000 chr6D 84.240 533 57 15 1021 1531 69750356 69749829 6.080000e-136 494.0
19 TraesCS6A01G117000 chr6D 91.877 357 12 8 1 342 69917139 69916785 1.320000e-132 483.0
20 TraesCS6A01G117000 chr6D 85.084 476 49 12 1073 1531 69824657 69824187 1.330000e-127 466.0
21 TraesCS6A01G117000 chr6D 96.596 235 8 0 341 575 69913544 69913310 8.210000e-105 390.0
22 TraesCS6A01G117000 chr6D 85.564 381 35 8 918 1283 69784404 69784029 4.940000e-102 381.0
23 TraesCS6A01G117000 chr6D 85.379 383 34 9 918 1283 69820761 69820384 6.390000e-101 377.0
24 TraesCS6A01G117000 chr6D 91.463 246 20 1 1286 1531 69725061 69724817 1.080000e-88 337.0
25 TraesCS6A01G117000 chr6D 91.463 246 20 1 1286 1531 69820480 69820236 1.080000e-88 337.0
26 TraesCS6A01G117000 chr6D 91.057 246 21 1 1286 1531 69784125 69783881 5.050000e-87 331.0
27 TraesCS6A01G117000 chr6D 83.029 383 37 11 918 1283 69725336 69724965 3.040000e-84 322.0
28 TraesCS6A01G117000 chr6D 82.677 381 34 14 923 1286 69787114 69786749 2.360000e-80 309.0
29 TraesCS6A01G117000 chr6D 82.415 381 35 13 923 1286 69749112 69748747 1.100000e-78 303.0
30 TraesCS6A01G117000 chr6D 82.306 373 42 13 923 1286 69823465 69823108 3.960000e-78 302.0
31 TraesCS6A01G117000 chr6D 85.862 290 25 6 916 1202 69785792 69785516 6.620000e-76 294.0
32 TraesCS6A01G117000 chr6D 89.954 219 22 0 1313 1531 69785332 69785114 1.430000e-72 283.0
33 TraesCS6A01G117000 chr6D 90.654 107 10 0 291 397 69913487 69913381 2.540000e-30 143.0
34 TraesCS6A01G117000 chr6B 92.722 742 42 6 791 1530 144796733 144796002 0.000000e+00 1061.0
35 TraesCS6A01G117000 chr6B 85.776 696 69 16 9 688 144791914 144791233 0.000000e+00 710.0
36 TraesCS6A01G117000 chr6B 85.286 700 71 18 6 688 144916418 144915734 0.000000e+00 693.0
37 TraesCS6A01G117000 chr6B 91.734 496 38 2 172 666 144849474 144848981 0.000000e+00 686.0
38 TraesCS6A01G117000 chr6B 83.780 746 78 20 810 1531 144751689 144750963 0.000000e+00 667.0
39 TraesCS6A01G117000 chr6B 88.184 347 30 8 807 1144 144915708 144915364 1.050000e-108 403.0
40 TraesCS6A01G117000 chr6B 85.946 185 13 6 1 172 144849944 144849760 4.160000e-43 185.0
41 TraesCS6A01G117000 chr6B 89.720 107 11 0 291 397 144849249 144849143 1.180000e-28 137.0
42 TraesCS6A01G117000 chr6B 87.850 107 13 0 291 397 144916027 144915921 2.560000e-25 126.0
43 TraesCS6A01G117000 chr1A 91.781 73 5 1 1519 1590 36190535 36190607 1.550000e-17 100.0
44 TraesCS6A01G117000 chr7D 92.647 68 5 0 1523 1590 392765175 392765242 5.570000e-17 99.0
45 TraesCS6A01G117000 chr2D 87.654 81 8 2 1511 1590 55029697 55029776 2.590000e-15 93.5
46 TraesCS6A01G117000 chr4B 83.784 74 9 3 9 81 140603286 140603357 1.570000e-07 67.6


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 TraesCS6A01G117000 chr6A 87643667 87646114 2447 True 4521.000000 4521 100.000000 1 2448 1 chr6A.!!$R1 2447
1 TraesCS6A01G117000 chr6A 299814011 299814869 858 True 1271.000000 1271 93.380000 1590 2448 1 chr6A.!!$R3 858
2 TraesCS6A01G117000 chr6A 299804359 299805219 860 True 1251.000000 1251 92.915000 1590 2448 1 chr6A.!!$R2 858
3 TraesCS6A01G117000 chr7A 461972520 461973380 860 True 1290.000000 1290 93.728000 1590 2448 1 chr7A.!!$R2 858
4 TraesCS6A01G117000 chr7A 31600278 31601141 863 False 1279.000000 1279 93.403000 1587 2448 1 chr7A.!!$F1 861
5 TraesCS6A01G117000 chr3A 263845442 263846302 860 False 1275.000000 1275 93.395000 1587 2448 1 chr3A.!!$F2 861
6 TraesCS6A01G117000 chr3A 264553990 264554848 858 True 1266.000000 1266 93.256000 1590 2448 1 chr3A.!!$R1 858
7 TraesCS6A01G117000 chr3A 245697215 245698077 862 False 1260.000000 1260 93.048000 1587 2448 1 chr3A.!!$F1 861
8 TraesCS6A01G117000 chr2A 418163377 418164234 857 True 1264.000000 1264 93.264000 1590 2448 1 chr2A.!!$R1 858
9 TraesCS6A01G117000 chr5A 555617077 555617933 856 False 1254.000000 1254 93.048000 1587 2448 1 chr5A.!!$F1 861
10 TraesCS6A01G117000 chr6D 69904883 69905635 752 True 1088.000000 1088 92.950000 782 1531 1 chr6D.!!$R1 749
11 TraesCS6A01G117000 chr6D 69748747 69750356 1609 True 398.500000 494 83.327500 923 1531 2 chr6D.!!$R3 608
12 TraesCS6A01G117000 chr6D 69783881 69788557 4676 True 377.166667 665 86.467333 808 1531 6 chr6D.!!$R4 723
13 TraesCS6A01G117000 chr6D 69820236 69824657 4421 True 370.500000 466 86.058000 918 1531 4 chr6D.!!$R5 613
14 TraesCS6A01G117000 chr6D 69913310 69917139 3829 True 338.666667 483 93.042333 1 575 3 chr6D.!!$R6 574
15 TraesCS6A01G117000 chr6D 69724817 69725336 519 True 329.500000 337 87.246000 918 1531 2 chr6D.!!$R2 613
16 TraesCS6A01G117000 chr6B 144796002 144796733 731 True 1061.000000 1061 92.722000 791 1530 1 chr6B.!!$R3 739
17 TraesCS6A01G117000 chr6B 144791233 144791914 681 True 710.000000 710 85.776000 9 688 1 chr6B.!!$R2 679
18 TraesCS6A01G117000 chr6B 144750963 144751689 726 True 667.000000 667 83.780000 810 1531 1 chr6B.!!$R1 721
19 TraesCS6A01G117000 chr6B 144915364 144916418 1054 True 407.333333 693 87.106667 6 1144 3 chr6B.!!$R5 1138
20 TraesCS6A01G117000 chr6B 144848981 144849944 963 True 336.000000 686 89.133333 1 666 3 chr6B.!!$R4 665

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
367 3914 1.329906 GTCTGCCAAATCAGATCAGCG 59.67 52.381 0.0 0.0 44.04 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2342 13167 1.068741 GACCCGTGTGATCATCCTACC 59.931 57.143 0.0 0.0 0.0 3.18 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
77 78 9.974980 AAATTAGAGAGCTTAGTGTTATAGAGC 57.025 33.333 0.00 0.00 0.00 4.09
78 79 5.682943 AGAGAGCTTAGTGTTATAGAGCG 57.317 43.478 0.00 0.00 38.34 5.03
79 80 5.369833 AGAGAGCTTAGTGTTATAGAGCGA 58.630 41.667 0.00 0.00 38.34 4.93
80 81 6.001460 AGAGAGCTTAGTGTTATAGAGCGAT 58.999 40.000 0.00 0.00 38.34 4.58
96 107 1.502163 CGATCGCCAGGCTGATTTCC 61.502 60.000 17.94 1.10 0.00 3.13
148 162 9.979270 CAATAGAAAATACAGTTTAGCAGTCAG 57.021 33.333 0.00 0.00 0.00 3.51
150 164 9.726438 ATAGAAAATACAGTTTAGCAGTCAGTT 57.274 29.630 0.00 0.00 0.00 3.16
151 165 7.865707 AGAAAATACAGTTTAGCAGTCAGTTG 58.134 34.615 0.00 0.00 0.00 3.16
155 169 3.871594 ACAGTTTAGCAGTCAGTTGTGTC 59.128 43.478 0.00 0.00 0.00 3.67
220 522 1.455822 TCACCCACTTTTCTCCCCAT 58.544 50.000 0.00 0.00 0.00 4.00
221 523 1.786441 TCACCCACTTTTCTCCCCATT 59.214 47.619 0.00 0.00 0.00 3.16
236 538 2.108250 CCCCATTATCCCTTCGTCCAAT 59.892 50.000 0.00 0.00 0.00 3.16
277 581 3.171277 GTTTCATCGATTTTTCCAGGCG 58.829 45.455 0.00 0.00 0.00 5.52
278 582 2.107950 TCATCGATTTTTCCAGGCGT 57.892 45.000 0.00 0.00 0.00 5.68
367 3914 1.329906 GTCTGCCAAATCAGATCAGCG 59.670 52.381 0.00 0.00 44.04 5.18
688 4239 9.912634 CATTCACCTAGTGATAAACAAACATTT 57.087 29.630 0.00 0.00 42.40 2.32
691 4242 8.999431 TCACCTAGTGATAAACAAACATTTCTC 58.001 33.333 0.00 0.00 37.67 2.87
692 4243 8.783093 CACCTAGTGATAAACAAACATTTCTCA 58.217 33.333 0.00 0.00 35.23 3.27
693 4244 9.520515 ACCTAGTGATAAACAAACATTTCTCAT 57.479 29.630 0.00 0.00 30.30 2.90
713 4264 9.620259 TTCTCATATCTATATCTACTCGTGCAT 57.380 33.333 0.00 0.00 0.00 3.96
775 4326 6.975772 GGAAGATTGACCGAGTAGATATATGC 59.024 42.308 0.00 0.00 0.00 3.14
776 4327 7.363007 GGAAGATTGACCGAGTAGATATATGCA 60.363 40.741 0.00 0.00 0.00 3.96
777 4328 6.857956 AGATTGACCGAGTAGATATATGCAC 58.142 40.000 0.00 0.00 0.00 4.57
778 4329 6.661377 AGATTGACCGAGTAGATATATGCACT 59.339 38.462 0.00 0.00 0.00 4.40
779 4330 5.881777 TGACCGAGTAGATATATGCACTC 57.118 43.478 11.08 11.08 35.20 3.51
780 4331 4.700692 TGACCGAGTAGATATATGCACTCC 59.299 45.833 13.81 5.21 35.11 3.85
781 4332 4.663334 ACCGAGTAGATATATGCACTCCA 58.337 43.478 13.81 0.00 35.11 3.86
782 4333 5.265191 ACCGAGTAGATATATGCACTCCAT 58.735 41.667 13.81 4.19 35.11 3.41
783 4334 6.424032 ACCGAGTAGATATATGCACTCCATA 58.576 40.000 13.81 0.00 40.52 2.74
784 4335 7.063593 ACCGAGTAGATATATGCACTCCATAT 58.936 38.462 13.81 1.93 46.32 1.78
916 5797 5.250235 ACACTACGAACACCATCATAGAG 57.750 43.478 0.00 0.00 0.00 2.43
933 5814 2.522185 AGAGCACACAAAGCATCCATT 58.478 42.857 0.00 0.00 0.00 3.16
1151 7358 5.029650 TCTTTCATATGAAACACACACGC 57.970 39.130 23.86 0.00 38.94 5.34
1157 7364 3.602390 ATGAAACACACACGCACTAAC 57.398 42.857 0.00 0.00 0.00 2.34
1270 7492 2.676744 GCACAACTGCCAAAACACC 58.323 52.632 0.00 0.00 37.45 4.16
1397 11673 1.798079 GCAAAGGCTACGACTACCTCG 60.798 57.143 0.00 0.00 42.04 4.63
1461 11742 6.427853 TGCCATAAGTAATCTGAATTCGATGG 59.572 38.462 11.71 9.84 34.51 3.51
1532 11814 8.630054 AAAAGCTATAGTTGTTTGTGTATGGA 57.370 30.769 0.84 0.00 0.00 3.41
1533 11815 7.849804 AAGCTATAGTTGTTTGTGTATGGAG 57.150 36.000 0.84 0.00 0.00 3.86
1534 11816 6.349300 AGCTATAGTTGTTTGTGTATGGAGG 58.651 40.000 0.84 0.00 0.00 4.30
1535 11817 6.156256 AGCTATAGTTGTTTGTGTATGGAGGA 59.844 38.462 0.84 0.00 0.00 3.71
1536 11818 6.821665 GCTATAGTTGTTTGTGTATGGAGGAA 59.178 38.462 0.84 0.00 0.00 3.36
1537 11819 7.335924 GCTATAGTTGTTTGTGTATGGAGGAAA 59.664 37.037 0.84 0.00 0.00 3.13
1538 11820 9.396022 CTATAGTTGTTTGTGTATGGAGGAAAT 57.604 33.333 0.00 0.00 0.00 2.17
1540 11822 9.920946 ATAGTTGTTTGTGTATGGAGGAAATAT 57.079 29.630 0.00 0.00 0.00 1.28
1541 11823 8.055279 AGTTGTTTGTGTATGGAGGAAATATG 57.945 34.615 0.00 0.00 0.00 1.78
1542 11824 6.449635 TGTTTGTGTATGGAGGAAATATGC 57.550 37.500 0.00 0.00 0.00 3.14
1543 11825 5.359576 TGTTTGTGTATGGAGGAAATATGCC 59.640 40.000 0.00 0.00 0.00 4.40
1544 11826 4.098914 TGTGTATGGAGGAAATATGCCC 57.901 45.455 0.00 0.00 0.00 5.36
1545 11827 3.721575 TGTGTATGGAGGAAATATGCCCT 59.278 43.478 0.00 0.00 35.02 5.19
1546 11828 4.910913 TGTGTATGGAGGAAATATGCCCTA 59.089 41.667 0.00 0.00 31.84 3.53
1547 11829 5.371176 TGTGTATGGAGGAAATATGCCCTAA 59.629 40.000 0.00 0.00 31.84 2.69
1548 11830 6.126332 TGTGTATGGAGGAAATATGCCCTAAA 60.126 38.462 0.00 0.00 31.84 1.85
1549 11831 6.431234 GTGTATGGAGGAAATATGCCCTAAAG 59.569 42.308 0.00 0.00 31.84 1.85
1550 11832 5.930209 ATGGAGGAAATATGCCCTAAAGA 57.070 39.130 0.00 0.00 31.84 2.52
1551 11833 5.930209 TGGAGGAAATATGCCCTAAAGAT 57.070 39.130 0.00 0.00 31.84 2.40
1552 11834 7.588866 ATGGAGGAAATATGCCCTAAAGATA 57.411 36.000 0.00 0.00 31.84 1.98
1553 11835 7.401060 TGGAGGAAATATGCCCTAAAGATAA 57.599 36.000 0.00 0.00 31.84 1.75
1554 11836 8.000171 TGGAGGAAATATGCCCTAAAGATAAT 58.000 34.615 0.00 0.00 31.84 1.28
1555 11837 9.122954 TGGAGGAAATATGCCCTAAAGATAATA 57.877 33.333 0.00 0.00 31.84 0.98
1556 11838 9.975218 GGAGGAAATATGCCCTAAAGATAATAA 57.025 33.333 0.00 0.00 31.84 1.40
1684 11966 4.649692 AGCATCACTGAGTGAAAGACAAT 58.350 39.130 20.26 0.00 45.96 2.71
1702 11984 7.603180 AGACAATGACATATAGCTCCTTACA 57.397 36.000 0.00 0.00 0.00 2.41
1753 12036 1.271871 TGCAGTCCGAAATGGGTCAAT 60.272 47.619 0.00 0.00 38.76 2.57
1768 12051 5.316167 TGGGTCAATACATGGAATATGCTC 58.684 41.667 0.00 0.00 0.00 4.26
1802 12085 8.240883 ACACAAGAGAATAACGAACAGAATAC 57.759 34.615 0.00 0.00 0.00 1.89
1961 12245 8.743714 GTTCCTCCAACTCAATCTCAATTAAAT 58.256 33.333 0.00 0.00 31.50 1.40
2106 12758 2.796593 GCAGAAGTTTGCGCATTTTTCT 59.203 40.909 12.75 17.03 33.90 2.52
2222 13027 5.068215 ACCCACTACATCTGCTAGTCTAT 57.932 43.478 0.00 0.00 0.00 1.98
2280 13105 4.262635 GCTAGAGCCCATAATAGCTTGTGA 60.263 45.833 0.00 0.00 40.11 3.58
2281 13106 4.348863 AGAGCCCATAATAGCTTGTGAG 57.651 45.455 0.00 0.00 40.11 3.51
2301 13126 3.793559 AGTGCACACGAAAGTTTCTAGT 58.206 40.909 21.04 8.67 46.40 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 5.106869 CGATCGCTCTATAACACTAAGCTCT 60.107 44.000 0.26 0.00 0.00 4.09
77 78 1.502163 GGAAATCAGCCTGGCGATCG 61.502 60.000 20.61 11.69 0.00 3.69
78 79 0.464373 TGGAAATCAGCCTGGCGATC 60.464 55.000 20.61 13.08 0.00 3.69
79 80 0.184451 ATGGAAATCAGCCTGGCGAT 59.816 50.000 13.96 15.57 0.00 4.58
80 81 0.749091 CATGGAAATCAGCCTGGCGA 60.749 55.000 13.96 13.92 0.00 5.54
96 107 4.912214 ACACGTCAAATGTCATATGCATG 58.088 39.130 10.16 0.00 0.00 4.06
206 508 4.526438 AGGGATAATGGGGAGAAAAGTG 57.474 45.455 0.00 0.00 0.00 3.16
220 522 4.547671 AGAGAGATTGGACGAAGGGATAA 58.452 43.478 0.00 0.00 0.00 1.75
221 523 4.145807 GAGAGAGATTGGACGAAGGGATA 58.854 47.826 0.00 0.00 0.00 2.59
236 538 1.616187 CGGTTGGGTGTAGGAGAGAGA 60.616 57.143 0.00 0.00 0.00 3.10
277 581 0.322187 ATTGGTGGGGTAGCGAACAC 60.322 55.000 0.00 4.94 0.00 3.32
278 582 0.035820 GATTGGTGGGGTAGCGAACA 60.036 55.000 0.00 0.00 0.00 3.18
428 3975 7.797819 AGAAATCGGTTAAAATAGATCGATGC 58.202 34.615 0.54 0.00 37.41 3.91
645 4196 4.868171 GTGAATGTCCTTATGTTGCGACTA 59.132 41.667 5.50 0.00 0.00 2.59
646 4197 3.684788 GTGAATGTCCTTATGTTGCGACT 59.315 43.478 5.50 0.00 0.00 4.18
649 4200 3.009723 AGGTGAATGTCCTTATGTTGCG 58.990 45.455 0.00 0.00 30.18 4.85
656 4207 8.141298 TGTTTATCACTAGGTGAATGTCCTTA 57.859 34.615 4.46 0.00 45.96 2.69
738 4289 8.975663 TCGGTCAATCTTCCGTATATCTATAT 57.024 34.615 3.64 0.00 45.88 0.86
739 4290 8.045507 ACTCGGTCAATCTTCCGTATATCTATA 58.954 37.037 3.64 0.00 45.88 1.31
740 4291 6.885376 ACTCGGTCAATCTTCCGTATATCTAT 59.115 38.462 3.64 0.00 45.88 1.98
741 4292 6.236409 ACTCGGTCAATCTTCCGTATATCTA 58.764 40.000 3.64 0.00 45.88 1.98
742 4293 5.071370 ACTCGGTCAATCTTCCGTATATCT 58.929 41.667 3.64 0.00 45.88 1.98
743 4294 5.373981 ACTCGGTCAATCTTCCGTATATC 57.626 43.478 3.64 0.00 45.88 1.63
744 4295 6.236409 TCTACTCGGTCAATCTTCCGTATAT 58.764 40.000 3.64 0.00 45.88 0.86
745 4296 5.614308 TCTACTCGGTCAATCTTCCGTATA 58.386 41.667 3.64 0.00 45.88 1.47
746 4297 4.458397 TCTACTCGGTCAATCTTCCGTAT 58.542 43.478 3.64 0.00 45.88 3.06
747 4298 3.877559 TCTACTCGGTCAATCTTCCGTA 58.122 45.455 3.64 0.00 45.88 4.02
748 4299 2.719739 TCTACTCGGTCAATCTTCCGT 58.280 47.619 3.64 0.00 45.88 4.69
749 4300 3.992260 ATCTACTCGGTCAATCTTCCG 57.008 47.619 0.00 0.00 46.93 4.30
750 4301 6.975772 GCATATATCTACTCGGTCAATCTTCC 59.024 42.308 0.00 0.00 0.00 3.46
751 4302 7.486551 GTGCATATATCTACTCGGTCAATCTTC 59.513 40.741 0.00 0.00 0.00 2.87
752 4303 7.177568 AGTGCATATATCTACTCGGTCAATCTT 59.822 37.037 0.00 0.00 0.00 2.40
753 4304 6.661377 AGTGCATATATCTACTCGGTCAATCT 59.339 38.462 0.00 0.00 0.00 2.40
754 4305 6.857956 AGTGCATATATCTACTCGGTCAATC 58.142 40.000 0.00 0.00 0.00 2.67
755 4306 6.127591 GGAGTGCATATATCTACTCGGTCAAT 60.128 42.308 14.91 0.00 40.24 2.57
756 4307 5.183331 GGAGTGCATATATCTACTCGGTCAA 59.817 44.000 14.91 0.00 40.24 3.18
757 4308 4.700692 GGAGTGCATATATCTACTCGGTCA 59.299 45.833 14.91 0.00 40.24 4.02
758 4309 4.700692 TGGAGTGCATATATCTACTCGGTC 59.299 45.833 14.91 6.69 40.24 4.79
759 4310 4.663334 TGGAGTGCATATATCTACTCGGT 58.337 43.478 14.91 0.00 40.24 4.69
760 4311 5.843673 ATGGAGTGCATATATCTACTCGG 57.156 43.478 14.91 0.00 40.24 4.63
854 4405 1.423921 GTTCTTTGGTCAAGGGGGAGA 59.576 52.381 0.00 0.00 32.64 3.71
916 5797 2.331194 GTCAATGGATGCTTTGTGTGC 58.669 47.619 11.71 0.00 0.00 4.57
933 5814 2.420722 GACGGTGTTGTCTTTTTGGTCA 59.579 45.455 0.00 0.00 35.95 4.02
1151 7358 6.257193 ACAAAAGGAACTACGAACAGTTAGTG 59.743 38.462 9.17 2.69 38.49 2.74
1157 7364 3.603857 CGCACAAAAGGAACTACGAACAG 60.604 47.826 0.00 0.00 38.49 3.16
1397 11673 3.086733 GGTGCTCACAATAGCTCCC 57.913 57.895 5.80 0.00 46.00 4.30
1461 11742 3.152341 CATCCAGATATCACCCCAAAGC 58.848 50.000 5.32 0.00 0.00 3.51
1601 11883 4.486090 CGCTGTTATCGTATTAGATGGCT 58.514 43.478 0.00 0.00 32.39 4.75
1633 11915 8.869109 TGGAGTTGATGGACTCATTTTATTTTT 58.131 29.630 7.27 0.00 46.21 1.94
1636 11918 7.451255 TGTTGGAGTTGATGGACTCATTTTATT 59.549 33.333 7.27 0.00 46.21 1.40
1684 11966 4.885325 TGACGTGTAAGGAGCTATATGTCA 59.115 41.667 0.00 2.81 36.89 3.58
1702 11984 3.111853 TGCAGACTTTTCAGATGACGT 57.888 42.857 0.00 0.00 0.00 4.34
1738 12020 3.201045 TCCATGTATTGACCCATTTCGGA 59.799 43.478 0.00 0.00 36.56 4.55
1768 12051 2.473530 TTCTCTTGTGTTGCTTTGCG 57.526 45.000 0.00 0.00 0.00 4.85
1775 12058 6.525121 TCTGTTCGTTATTCTCTTGTGTTG 57.475 37.500 0.00 0.00 0.00 3.33
1802 12085 7.254692 GCCATATATGCATGTAGTGATAGCAAG 60.255 40.741 10.16 0.00 38.85 4.01
2090 12742 2.100584 TGTGGAGAAAAATGCGCAAACT 59.899 40.909 17.11 9.56 0.00 2.66
2100 12752 6.285224 TGTATTCGAGTCTTGTGGAGAAAAA 58.715 36.000 0.00 0.00 35.79 1.94
2106 12758 3.767131 TGGATGTATTCGAGTCTTGTGGA 59.233 43.478 0.00 0.00 0.00 4.02
2222 13027 5.357257 AGTTGCGTAAAACTCTTGAAGAGA 58.643 37.500 27.49 3.15 45.07 3.10
2280 13105 3.793559 ACTAGAAACTTTCGTGTGCACT 58.206 40.909 19.41 0.00 34.02 4.40
2281 13106 5.404366 TCATACTAGAAACTTTCGTGTGCAC 59.596 40.000 10.75 10.75 34.02 4.57
2342 13167 1.068741 GACCCGTGTGATCATCCTACC 59.931 57.143 0.00 0.00 0.00 3.18
2369 13194 4.371681 ACCCAGTGTTGTCCTAGGATATT 58.628 43.478 16.27 0.00 0.00 1.28
2401 13226 1.076549 GGGTGGATTGCTTGTGGGA 59.923 57.895 0.00 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.