Multiple sequence alignment - TraesCS7A01G082700

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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 TraesCS7A01G082700 chr7A 100.000 4972 0 0 1 4972 47693765 47698736 0.000000e+00 9182.0
1 TraesCS7A01G082700 chr7A 92.630 4084 131 67 607 4645 47798345 47794387 0.000000e+00 5718.0
2 TraesCS7A01G082700 chr7A 99.655 580 2 0 1 580 47798920 47798341 0.000000e+00 1061.0
3 TraesCS7A01G082700 chr7A 88.618 615 47 10 1 592 47823468 47822854 0.000000e+00 726.0
4 TraesCS7A01G082700 chr7A 96.386 83 3 0 4646 4728 47794330 47794248 2.410000e-28 137.0
5 TraesCS7A01G082700 chr7D 92.240 2513 131 29 1495 3965 45656829 45654339 0.000000e+00 3502.0
6 TraesCS7A01G082700 chr7D 87.712 472 25 15 1031 1474 45569570 45570036 2.050000e-143 520.0
7 TraesCS7A01G082700 chr7D 86.241 407 17 11 1031 1398 45657261 45656855 5.990000e-109 405.0
8 TraesCS7A01G082700 chr7D 96.567 233 8 0 1830 2062 45570444 45570676 2.170000e-103 387.0
9 TraesCS7A01G082700 chr7D 89.869 306 13 9 1495 1786 45570125 45570426 1.310000e-100 377.0
10 TraesCS7A01G082700 chr7D 86.090 266 29 5 3704 3967 45570686 45570945 3.790000e-71 279.0
11 TraesCS7A01G082700 chr4A 90.834 2553 156 31 1616 4111 658225456 658222925 0.000000e+00 3347.0
12 TraesCS7A01G082700 chr4A 91.605 1763 100 27 2210 3944 657889178 657890920 0.000000e+00 2392.0
13 TraesCS7A01G082700 chr4A 84.761 1109 82 44 1015 2088 657887693 657888749 0.000000e+00 1031.0
14 TraesCS7A01G082700 chr4A 86.107 619 57 11 1 592 657885206 657885822 1.510000e-179 640.0
15 TraesCS7A01G082700 chr4A 84.242 495 62 11 4143 4632 658222841 658222358 7.540000e-128 468.0
16 TraesCS7A01G082700 chr4A 88.323 334 32 5 1 329 658227942 658227611 1.300000e-105 394.0
17 TraesCS7A01G082700 chr4A 80.277 578 36 30 950 1467 658226071 658225512 1.020000e-96 364.0
18 TraesCS7A01G082700 chr4A 86.850 327 35 4 4646 4972 658222293 658221975 4.730000e-95 359.0
19 TraesCS7A01G082700 chr4A 80.488 246 24 8 371 592 658227612 658227367 3.080000e-37 167.0
20 TraesCS7A01G082700 chr4A 78.736 174 30 6 4728 4899 658246119 658246287 5.260000e-20 110.0
21 TraesCS7A01G082700 chr5B 87.721 1751 146 31 2116 3826 305055635 305053914 0.000000e+00 1978.0
22 TraesCS7A01G082700 chr5B 83.926 591 72 15 1533 2114 305056351 305055775 1.220000e-150 544.0
23 TraesCS7A01G082700 chr5B 88.679 53 6 0 748 800 636986317 636986265 1.160000e-06 65.8
24 TraesCS7A01G082700 chr5D 88.730 1535 132 19 2321 3838 269342205 269340695 0.000000e+00 1838.0
25 TraesCS7A01G082700 chr5D 85.114 571 68 10 1549 2114 269343215 269342657 7.220000e-158 568.0
26 TraesCS7A01G082700 chr5D 85.350 314 22 7 2116 2408 269342517 269342207 2.250000e-78 303.0
27 TraesCS7A01G082700 chr5D 84.337 83 4 1 1076 1149 269343689 269343607 6.900000e-09 73.1
28 TraesCS7A01G082700 chr5A 88.730 1535 132 21 2321 3838 358049410 358047900 0.000000e+00 1838.0
29 TraesCS7A01G082700 chr5A 85.009 587 71 10 1533 2114 358050525 358049951 9.280000e-162 580.0
30 TraesCS7A01G082700 chr5A 85.032 314 23 8 2116 2408 358049811 358049501 1.050000e-76 298.0
31 TraesCS7A01G082700 chr5A 85.714 84 3 1 1076 1150 358051010 358050927 4.130000e-11 80.5
32 TraesCS7A01G082700 chr2B 89.769 606 46 8 1616 2211 275457196 275456597 0.000000e+00 761.0
33 TraesCS7A01G082700 chr3B 88.525 61 7 0 748 808 830001529 830001589 1.920000e-09 75.0
34 TraesCS7A01G082700 chr1D 86.885 61 8 0 748 808 5016615 5016555 8.930000e-08 69.4
35 TraesCS7A01G082700 chr1A 93.478 46 3 0 748 793 103324505 103324550 8.930000e-08 69.4
36 TraesCS7A01G082700 chr4D 86.885 61 7 1 748 808 338012789 338012730 3.210000e-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 TraesCS7A01G082700 chr7A 47693765 47698736 4971 False 9182.000000 9182 100.000000 1 4972 1 chr7A.!!$F1 4971
1 TraesCS7A01G082700 chr7A 47794248 47798920 4672 True 2305.333333 5718 96.223667 1 4728 3 chr7A.!!$R2 4727
2 TraesCS7A01G082700 chr7A 47822854 47823468 614 True 726.000000 726 88.618000 1 592 1 chr7A.!!$R1 591
3 TraesCS7A01G082700 chr7D 45654339 45657261 2922 True 1953.500000 3502 89.240500 1031 3965 2 chr7D.!!$R1 2934
4 TraesCS7A01G082700 chr7D 45569570 45570945 1375 False 390.750000 520 90.059500 1031 3967 4 chr7D.!!$F1 2936
5 TraesCS7A01G082700 chr4A 657885206 657890920 5714 False 1354.333333 2392 87.491000 1 3944 3 chr4A.!!$F2 3943
6 TraesCS7A01G082700 chr4A 658221975 658227942 5967 True 849.833333 3347 85.169000 1 4972 6 chr4A.!!$R1 4971
7 TraesCS7A01G082700 chr5B 305053914 305056351 2437 True 1261.000000 1978 85.823500 1533 3826 2 chr5B.!!$R2 2293
8 TraesCS7A01G082700 chr5D 269340695 269343689 2994 True 695.525000 1838 85.882750 1076 3838 4 chr5D.!!$R1 2762
9 TraesCS7A01G082700 chr5A 358047900 358051010 3110 True 699.125000 1838 86.121250 1076 3838 4 chr5A.!!$R1 2762
10 TraesCS7A01G082700 chr2B 275456597 275457196 599 True 761.000000 761 89.769000 1616 2211 1 chr2B.!!$R1 595

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
666 1236 1.001248 CTAACCCGAGTCCCTCCCA 59.999 63.158 0.00 0.00 0.00 4.37 F
1185 2798 2.736826 GCCTAGGGCCTCAGTGGAC 61.737 68.421 10.74 1.79 44.06 4.02 F
2160 4266 1.271856 TTTCGCCAGGATCCACAGTA 58.728 50.000 15.82 0.00 0.00 2.74 F
2507 4812 0.681175 GCATCAACCCAACCAAGCTT 59.319 50.000 0.00 0.00 0.00 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1492 3221 0.374758 CAATGCGCGCTATGAACTGT 59.625 50.0 33.29 5.07 0.00 3.55 R
2487 4792 0.469705 AGCTTGGTTGGGTTGATGCA 60.470 50.0 0.00 0.00 0.00 3.96 R
3262 5571 0.585357 CTGCAGCAGCCATTCGTATC 59.415 55.0 10.14 0.00 41.13 2.24 R
4342 6747 0.320771 GGACACAAGCCACGTCATCT 60.321 55.0 0.00 0.00 0.00 2.90 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
30 31 5.406780 CCGGCTAATGATCATGAGAACTAAC 59.593 44.000 22.51 4.66 0.00 2.34
666 1236 1.001248 CTAACCCGAGTCCCTCCCA 59.999 63.158 0.00 0.00 0.00 4.37
733 1306 3.368248 CCAATGATCTTCCATGGGTTGT 58.632 45.455 13.02 0.00 33.77 3.32
734 1307 3.770933 CCAATGATCTTCCATGGGTTGTT 59.229 43.478 13.02 0.00 33.77 2.83
735 1308 4.382254 CCAATGATCTTCCATGGGTTGTTG 60.382 45.833 13.02 8.23 33.77 3.33
976 2489 4.883354 GGCGCCCCAATCTCCCAG 62.883 72.222 18.11 0.00 0.00 4.45
1185 2798 2.736826 GCCTAGGGCCTCAGTGGAC 61.737 68.421 10.74 1.79 44.06 4.02
1293 2985 4.058124 CAGCGCCTAATGTAAGCATCTTA 58.942 43.478 2.29 0.00 33.50 2.10
1483 3212 7.571080 TGCTATTGCATTTGTATGATGAAGA 57.429 32.000 0.00 0.00 45.31 2.87
1484 3213 8.173542 TGCTATTGCATTTGTATGATGAAGAT 57.826 30.769 0.00 0.00 45.31 2.40
1485 3214 8.079809 TGCTATTGCATTTGTATGATGAAGATG 58.920 33.333 0.00 0.00 45.31 2.90
1486 3215 8.294577 GCTATTGCATTTGTATGATGAAGATGA 58.705 33.333 0.00 0.00 39.41 2.92
1506 3303 5.822584 TGATATTTACAGTTCATAGCGCG 57.177 39.130 0.00 0.00 0.00 6.86
2160 4266 1.271856 TTTCGCCAGGATCCACAGTA 58.728 50.000 15.82 0.00 0.00 2.74
2507 4812 0.681175 GCATCAACCCAACCAAGCTT 59.319 50.000 0.00 0.00 0.00 3.74
2533 4838 2.242452 GTCCTAAAAGGCCAGGATTCCT 59.758 50.000 12.45 0.00 42.80 3.36
2557 4862 5.300792 TGTTTATCGAGGAAGGCAAACTTTT 59.699 36.000 0.00 0.00 40.21 2.27
3262 5571 0.873312 CGACACGCATGGAGATGGAG 60.873 60.000 0.00 0.00 0.00 3.86
3339 5648 0.035317 AAACTCACGCCATCTGAGCA 59.965 50.000 0.24 0.00 39.08 4.26
3425 5740 2.796557 ACAGAATCAGAGACCTGTCGA 58.203 47.619 0.00 0.00 41.16 4.20
3431 5746 1.880675 TCAGAGACCTGTCGAACAGTC 59.119 52.381 12.10 7.74 44.50 3.51
3434 5749 1.880675 GAGACCTGTCGAACAGTCAGA 59.119 52.381 11.27 0.00 44.50 3.27
3463 5784 3.124921 GTGGACGTGAATGCCCGG 61.125 66.667 0.00 0.00 0.00 5.73
3481 5802 1.599797 GGACAACCGGTTGACTGGG 60.600 63.158 45.25 23.99 46.75 4.45
3606 5930 1.181098 GCAGTTGGTGGCAAGGATGT 61.181 55.000 0.00 0.00 0.00 3.06
3776 6115 0.606673 GGACCTGGCTGTCAACTTCC 60.607 60.000 9.39 0.00 36.97 3.46
3777 6116 0.398318 GACCTGGCTGTCAACTTCCT 59.602 55.000 0.00 0.00 35.29 3.36
3781 6120 0.397941 TGGCTGTCAACTTCCTGGAG 59.602 55.000 0.00 0.00 0.00 3.86
3978 6323 2.094545 CAGTTTAAGATTGTGCAGGCCC 60.095 50.000 0.00 0.00 0.00 5.80
3979 6324 1.204704 GTTTAAGATTGTGCAGGCCCC 59.795 52.381 0.00 0.00 0.00 5.80
3980 6325 0.407528 TTAAGATTGTGCAGGCCCCA 59.592 50.000 0.00 0.00 0.00 4.96
3983 6328 0.471591 AGATTGTGCAGGCCCCAAAA 60.472 50.000 0.00 0.00 0.00 2.44
3984 6329 0.614812 GATTGTGCAGGCCCCAAAAT 59.385 50.000 8.72 8.72 0.00 1.82
3988 6333 1.237533 GTGCAGGCCCCAAAATTTTG 58.762 50.000 21.65 21.65 37.90 2.44
3989 6334 0.536915 TGCAGGCCCCAAAATTTTGC 60.537 50.000 22.90 13.18 36.86 3.68
3990 6335 0.536915 GCAGGCCCCAAAATTTTGCA 60.537 50.000 22.90 0.00 36.86 4.08
4014 6359 7.860373 GCATATGTTGCGAATTACTCCATTTAA 59.140 33.333 4.29 0.00 42.54 1.52
4023 6368 7.042254 GCGAATTACTCCATTTAAGGACGTTAT 60.042 37.037 0.00 0.00 33.19 1.89
4024 6369 8.273557 CGAATTACTCCATTTAAGGACGTTATG 58.726 37.037 0.00 0.00 33.19 1.90
4025 6370 6.913873 TTACTCCATTTAAGGACGTTATGC 57.086 37.500 0.00 0.00 33.19 3.14
4082 6435 6.421377 TTTGATGGATGTTGTTACGATCTG 57.579 37.500 0.00 0.00 0.00 2.90
4162 6567 0.539438 TTTTGCAGCTCGGGTTCCAT 60.539 50.000 0.00 0.00 0.00 3.41
4168 6573 2.223572 GCAGCTCGGGTTCCATAAAATG 60.224 50.000 0.00 0.00 0.00 2.32
4190 6595 7.656707 ATGCAGTAACATGTTTGAATTTTCC 57.343 32.000 17.78 0.00 0.00 3.13
4226 6631 8.109634 ACCATATCTTGTCTAACCTTTCACAAT 58.890 33.333 0.00 0.00 0.00 2.71
4229 6634 4.518970 TCTTGTCTAACCTTTCACAATGGC 59.481 41.667 0.00 0.00 0.00 4.40
4230 6635 3.153919 TGTCTAACCTTTCACAATGGCC 58.846 45.455 0.00 0.00 0.00 5.36
4281 6686 4.574421 GCTGGTGGTTTTGTGCTAATTTTT 59.426 37.500 0.00 0.00 0.00 1.94
4332 6737 2.279741 GTGCTGGCGATCTCATTAACA 58.720 47.619 0.00 0.00 0.00 2.41
4342 6747 2.852449 TCTCATTAACAAACACCGGCA 58.148 42.857 0.00 0.00 0.00 5.69
4363 6769 0.108585 ATGACGTGGCTTGTGTCCTT 59.891 50.000 0.00 0.00 0.00 3.36
4395 6801 0.184451 CACCATGCCCATAGCCTCTT 59.816 55.000 0.00 0.00 42.71 2.85
4470 6879 3.395702 TGGGGTACGATTGCGGCT 61.396 61.111 0.00 0.00 43.17 5.52
4497 6910 0.540365 ATGGAAGCCCACAACACTGG 60.540 55.000 0.00 0.00 46.98 4.00
4551 6967 3.792956 GCGATGGCAGTGTCAATTATTTG 59.207 43.478 0.00 0.00 39.62 2.32
4568 6984 8.537223 CAATTATTTGCATAGCAGTTCATTGTC 58.463 33.333 0.00 0.00 40.61 3.18
4569 6985 5.909621 ATTTGCATAGCAGTTCATTGTCT 57.090 34.783 0.00 0.00 40.61 3.41
4579 6995 4.319766 GCAGTTCATTGTCTGTGACGAAAT 60.320 41.667 0.00 0.00 34.95 2.17
4632 7048 1.202336 CCGGCTCAAAATCCAGCATTC 60.202 52.381 0.00 0.00 37.38 2.67
4639 7055 1.322538 AAATCCAGCATTCGGGGTGC 61.323 55.000 0.00 0.29 42.81 5.01
4649 7121 0.250295 TTCGGGGTGCTCAAAGACAG 60.250 55.000 0.00 0.00 0.00 3.51
4651 7123 1.973812 GGGGTGCTCAAAGACAGGC 60.974 63.158 0.00 0.00 0.00 4.85
4738 7210 0.107081 ACGACGGTGAATGAACCCAA 59.893 50.000 0.00 0.00 36.84 4.12
4739 7211 1.271163 ACGACGGTGAATGAACCCAAT 60.271 47.619 0.00 0.00 36.84 3.16
4742 7214 1.892474 ACGGTGAATGAACCCAATTGG 59.108 47.619 18.21 18.21 36.84 3.16
4748 7220 6.406849 CGGTGAATGAACCCAATTGGAATATT 60.407 38.462 26.60 18.22 36.84 1.28
4791 7263 6.301169 TCAAACCCCACACAAAATTTAACT 57.699 33.333 0.00 0.00 0.00 2.24
4793 7265 8.024145 TCAAACCCCACACAAAATTTAACTAT 57.976 30.769 0.00 0.00 0.00 2.12
4811 7283 8.597662 TTAACTATATGGCTAAATTGTCGTCC 57.402 34.615 0.00 0.00 0.00 4.79
4812 7284 5.227908 ACTATATGGCTAAATTGTCGTCCG 58.772 41.667 0.00 0.00 0.00 4.79
4813 7285 1.014352 ATGGCTAAATTGTCGTCCGC 58.986 50.000 0.00 0.00 0.00 5.54
4816 7288 1.198178 GGCTAAATTGTCGTCCGCAAA 59.802 47.619 1.87 0.00 0.00 3.68
4817 7289 2.239201 GCTAAATTGTCGTCCGCAAAC 58.761 47.619 1.87 0.00 0.00 2.93
4819 7291 3.608474 GCTAAATTGTCGTCCGCAAACTT 60.608 43.478 1.87 2.36 0.00 2.66
4820 7292 2.399396 AATTGTCGTCCGCAAACTTG 57.601 45.000 1.87 0.00 0.00 3.16
4821 7293 1.588674 ATTGTCGTCCGCAAACTTGA 58.411 45.000 0.00 0.00 0.00 3.02
4822 7294 0.934496 TTGTCGTCCGCAAACTTGAG 59.066 50.000 0.00 0.00 0.00 3.02
4824 7296 1.301401 TCGTCCGCAAACTTGAGGG 60.301 57.895 11.66 3.53 46.52 4.30
4827 7299 0.875059 GTCCGCAAACTTGAGGGAAG 59.125 55.000 11.66 0.00 46.52 3.46
4828 7300 0.762418 TCCGCAAACTTGAGGGAAGA 59.238 50.000 11.66 0.00 46.52 2.87
4829 7301 1.142060 TCCGCAAACTTGAGGGAAGAA 59.858 47.619 11.66 0.00 46.52 2.52
4830 7302 1.953686 CCGCAAACTTGAGGGAAGAAA 59.046 47.619 4.43 0.00 43.38 2.52
4831 7303 2.360801 CCGCAAACTTGAGGGAAGAAAA 59.639 45.455 4.43 0.00 43.38 2.29
4833 7305 3.796717 CGCAAACTTGAGGGAAGAAAAAC 59.203 43.478 0.00 0.00 35.42 2.43
4835 7307 5.220970 CGCAAACTTGAGGGAAGAAAAACTA 60.221 40.000 0.00 0.00 35.42 2.24
4836 7308 6.569780 GCAAACTTGAGGGAAGAAAAACTAA 58.430 36.000 0.00 0.00 35.42 2.24
4839 7311 9.599866 CAAACTTGAGGGAAGAAAAACTAATTT 57.400 29.630 0.00 0.00 35.42 1.82
4931 7403 6.319911 TCATTTTCGTTAATGCCATATGGTGA 59.680 34.615 22.79 10.63 35.86 4.02
4949 7421 7.948278 ATGGTGATATTAACTAGTTTCTCGC 57.052 36.000 14.49 11.31 0.00 5.03
4953 7425 2.728690 TTAACTAGTTTCTCGCGCCA 57.271 45.000 14.49 0.00 0.00 5.69
4955 7427 2.094762 AACTAGTTTCTCGCGCCATT 57.905 45.000 0.00 0.00 0.00 3.16
4968 7440 1.269517 GCGCCATTTGTTTTCTGACCA 60.270 47.619 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 1.871676 CCAGTGCGATCATCATCCTTG 59.128 52.381 0.00 0.00 0.00 3.61
603 1173 1.515519 GATGGTAGCAACGCGTCGA 60.516 57.895 14.44 0.00 0.00 4.20
666 1236 0.253044 CATTCACGGTCCATGGGAGT 59.747 55.000 13.02 6.87 29.39 3.85
1196 2809 1.679898 CGTGGCCTTTCCTCCTTCT 59.320 57.895 3.32 0.00 35.26 2.85
1399 3124 8.410673 AGGACAGGTATATCACTAACTGTATG 57.589 38.462 1.99 0.00 46.95 2.39
1479 3208 8.165428 GCGCTATGAACTGTAAATATCATCTTC 58.835 37.037 0.00 0.00 34.54 2.87
1480 3209 7.148738 CGCGCTATGAACTGTAAATATCATCTT 60.149 37.037 5.56 0.00 34.54 2.40
1481 3210 6.309009 CGCGCTATGAACTGTAAATATCATCT 59.691 38.462 5.56 0.00 34.54 2.90
1482 3211 6.461816 CGCGCTATGAACTGTAAATATCATC 58.538 40.000 5.56 0.00 34.54 2.92
1483 3212 5.163953 GCGCGCTATGAACTGTAAATATCAT 60.164 40.000 26.67 0.00 36.54 2.45
1484 3213 4.149922 GCGCGCTATGAACTGTAAATATCA 59.850 41.667 26.67 0.00 0.00 2.15
1485 3214 4.149922 TGCGCGCTATGAACTGTAAATATC 59.850 41.667 33.29 0.00 0.00 1.63
1486 3215 4.055360 TGCGCGCTATGAACTGTAAATAT 58.945 39.130 33.29 0.00 0.00 1.28
1488 3217 2.276201 TGCGCGCTATGAACTGTAAAT 58.724 42.857 33.29 0.00 0.00 1.40
1490 3219 1.934589 ATGCGCGCTATGAACTGTAA 58.065 45.000 33.29 7.30 0.00 2.41
1491 3220 1.592543 CAATGCGCGCTATGAACTGTA 59.407 47.619 33.29 7.91 0.00 2.74
1492 3221 0.374758 CAATGCGCGCTATGAACTGT 59.625 50.000 33.29 5.07 0.00 3.55
1493 3222 0.927083 GCAATGCGCGCTATGAACTG 60.927 55.000 33.29 17.87 0.00 3.16
1506 3303 4.768130 ATATCATCTTCAGCAGCAATGC 57.232 40.909 0.00 0.00 0.00 3.56
1938 3755 9.018582 AGTTTTTCTGATAATTCCTTCTTCAGG 57.981 33.333 0.00 0.00 45.64 3.86
2160 4266 1.213678 ACATGCTGGTATGAGGTGCAT 59.786 47.619 5.73 0.00 43.96 3.96
2487 4792 0.469705 AGCTTGGTTGGGTTGATGCA 60.470 50.000 0.00 0.00 0.00 3.96
2533 4838 4.015872 AGTTTGCCTTCCTCGATAAACA 57.984 40.909 0.00 0.00 32.17 2.83
2540 4845 2.030805 CCTCAAAAGTTTGCCTTCCTCG 60.031 50.000 0.00 0.00 38.05 4.63
2557 4862 0.963856 CTGCAATTCAGCCTGCCTCA 60.964 55.000 0.00 0.00 37.79 3.86
3262 5571 0.585357 CTGCAGCAGCCATTCGTATC 59.415 55.000 10.14 0.00 41.13 2.24
3287 5596 1.078848 GGTCGACATGAGCCTGCTT 60.079 57.895 18.91 0.00 39.22 3.91
3339 5648 1.551452 CTTCCTCTCCTTCTCACGGT 58.449 55.000 0.00 0.00 0.00 4.83
3425 5740 4.034048 CACTTTAAAGCGTGTCTGACTGTT 59.966 41.667 15.24 0.00 0.00 3.16
3431 5746 2.096909 CGTCCACTTTAAAGCGTGTCTG 60.097 50.000 15.24 4.85 0.00 3.51
3434 5749 1.595794 CACGTCCACTTTAAAGCGTGT 59.404 47.619 25.31 12.75 42.86 4.49
3463 5784 1.599797 CCCAGTCAACCGGTTGTCC 60.600 63.158 38.83 30.49 41.16 4.02
3481 5802 1.078426 ATCCGTGGTAACTGCAGCC 60.078 57.895 15.27 7.86 37.61 4.85
3694 6033 0.882042 AAGCCTCACTCACGCACTTG 60.882 55.000 0.00 0.00 0.00 3.16
3776 6115 1.480137 AGCTCAAGACGAATCCTCCAG 59.520 52.381 0.00 0.00 0.00 3.86
3777 6116 1.478510 GAGCTCAAGACGAATCCTCCA 59.521 52.381 9.40 0.00 0.00 3.86
3800 6139 4.067896 TCATTGTCTTGAAGACCAGAAGC 58.932 43.478 21.45 0.00 44.44 3.86
3809 6148 4.727162 GCAATCGCTCTCATTGTCTTGAAG 60.727 45.833 0.00 0.00 34.27 3.02
3944 6289 7.277981 ACAATCTTAAACTGATAAGGCGTACTG 59.722 37.037 0.00 0.00 34.36 2.74
3989 6334 9.385902 CTTAAATGGAGTAATTCGCAACATATG 57.614 33.333 0.00 0.00 0.00 1.78
3990 6335 8.567948 CCTTAAATGGAGTAATTCGCAACATAT 58.432 33.333 0.00 0.00 0.00 1.78
4006 6351 5.492895 TCTTGCATAACGTCCTTAAATGGA 58.507 37.500 0.00 0.00 0.00 3.41
4007 6352 5.811399 TCTTGCATAACGTCCTTAAATGG 57.189 39.130 0.00 0.00 0.00 3.16
4008 6353 5.682862 GCATCTTGCATAACGTCCTTAAATG 59.317 40.000 0.00 0.00 44.26 2.32
4024 6369 1.586422 TTATCGAGCTGGCATCTTGC 58.414 50.000 0.00 0.00 44.08 4.01
4025 6370 3.201290 ACTTTATCGAGCTGGCATCTTG 58.799 45.455 0.00 0.00 0.00 3.02
4168 6573 7.713764 AAGGAAAATTCAAACATGTTACTGC 57.286 32.000 12.39 0.00 0.00 4.40
4207 6612 4.321230 GGCCATTGTGAAAGGTTAGACAAG 60.321 45.833 0.00 0.00 32.12 3.16
4216 6621 1.055040 TTTGGGGCCATTGTGAAAGG 58.945 50.000 4.39 0.00 0.00 3.11
4226 6631 3.768757 CACTTAGATTGATTTTGGGGCCA 59.231 43.478 4.39 0.00 0.00 5.36
4229 6634 4.026052 AGCCACTTAGATTGATTTTGGGG 58.974 43.478 0.00 0.00 0.00 4.96
4230 6635 5.665916 AAGCCACTTAGATTGATTTTGGG 57.334 39.130 0.00 0.00 0.00 4.12
4260 6665 5.119694 GGAAAAATTAGCACAAAACCACCA 58.880 37.500 0.00 0.00 0.00 4.17
4281 6686 3.877735 GCAGAAGGGGAAATAAGCTTGGA 60.878 47.826 9.86 0.00 0.00 3.53
4332 6737 1.070786 ACGTCATCTGCCGGTGTTT 59.929 52.632 1.90 0.00 0.00 2.83
4342 6747 0.320771 GGACACAAGCCACGTCATCT 60.321 55.000 0.00 0.00 0.00 2.90
4395 6801 1.002274 GAGGCAAGGAGGGAGAGGA 59.998 63.158 0.00 0.00 0.00 3.71
4448 6854 0.951525 CGCAATCGTACCCCACACAA 60.952 55.000 0.00 0.00 0.00 3.33
4470 6879 4.764771 GGGCTTCCATGGCAGGCA 62.765 66.667 32.88 0.00 37.32 4.75
4497 6910 2.900546 TCTTCTCTCCCTGAGGAACAAC 59.099 50.000 0.00 0.00 43.40 3.32
4528 6941 1.006086 TAATTGACACTGCCATCGCG 58.994 50.000 0.00 0.00 38.08 5.87
4535 6948 5.342433 TGCTATGCAAATAATTGACACTGC 58.658 37.500 0.00 2.13 38.94 4.40
4551 6967 3.686241 TCACAGACAATGAACTGCTATGC 59.314 43.478 10.62 0.00 37.61 3.14
4568 6984 0.373716 GCCGCCTTATTTCGTCACAG 59.626 55.000 0.00 0.00 0.00 3.66
4569 6985 0.320858 TGCCGCCTTATTTCGTCACA 60.321 50.000 0.00 0.00 0.00 3.58
4579 6995 1.269778 CGATGAGATTCTGCCGCCTTA 60.270 52.381 0.00 0.00 0.00 2.69
4632 7048 1.672356 CCTGTCTTTGAGCACCCCG 60.672 63.158 0.00 0.00 0.00 5.73
4651 7123 1.153784 GATGGTGTTGCGGCAATGG 60.154 57.895 19.53 0.00 0.00 3.16
4748 7220 8.047310 GGTTTGATCTTCTCATACCTCCTTAAA 58.953 37.037 7.37 0.00 46.66 1.52
4764 7236 5.628797 AATTTTGTGTGGGGTTTGATCTT 57.371 34.783 0.00 0.00 0.00 2.40
4791 7263 3.991773 GCGGACGACAATTTAGCCATATA 59.008 43.478 0.00 0.00 0.00 0.86
4793 7265 2.206750 GCGGACGACAATTTAGCCATA 58.793 47.619 0.00 0.00 0.00 2.74
4806 7278 1.301401 CCCTCAAGTTTGCGGACGA 60.301 57.895 2.54 0.00 35.05 4.20
4809 7281 0.762418 TCTTCCCTCAAGTTTGCGGA 59.238 50.000 2.54 0.32 35.05 5.54
4810 7282 1.604604 TTCTTCCCTCAAGTTTGCGG 58.395 50.000 0.00 0.00 33.27 5.69
4811 7283 3.708563 TTTTCTTCCCTCAAGTTTGCG 57.291 42.857 0.00 0.00 33.27 4.85
4812 7284 5.011090 AGTTTTTCTTCCCTCAAGTTTGC 57.989 39.130 0.00 0.00 33.27 3.68
4813 7285 9.599866 AAATTAGTTTTTCTTCCCTCAAGTTTG 57.400 29.630 0.00 0.00 33.27 2.93
4843 7315 7.962964 TTGATTTTCAGTCACGTTCTAGAAT 57.037 32.000 8.75 0.00 0.00 2.40
4845 7317 7.962964 AATTGATTTTCAGTCACGTTCTAGA 57.037 32.000 0.00 0.00 0.00 2.43
4890 7362 9.912634 AACGAAAATGACATGTGAATAAAGATT 57.087 25.926 1.15 0.00 0.00 2.40
4896 7368 7.700234 GGCATTAACGAAAATGACATGTGAATA 59.300 33.333 1.15 0.00 43.25 1.75
4897 7369 6.531240 GGCATTAACGAAAATGACATGTGAAT 59.469 34.615 1.15 0.00 43.25 2.57
4898 7370 5.861251 GGCATTAACGAAAATGACATGTGAA 59.139 36.000 1.15 0.00 43.25 3.18
4899 7371 5.398169 GGCATTAACGAAAATGACATGTGA 58.602 37.500 1.15 0.00 43.25 3.58
4900 7372 5.685195 GGCATTAACGAAAATGACATGTG 57.315 39.130 1.15 0.00 43.25 3.21
4931 7403 4.940463 TGGCGCGAGAAACTAGTTAATAT 58.060 39.130 12.10 0.00 0.00 1.28
4949 7421 2.791383 TGGTCAGAAAACAAATGGCG 57.209 45.000 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.