Multiple sequence alignment - TraesCS3D01G088100

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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 TraesCS3D01G088100 chr3D 100.000 2648 0 0 1 2648 44965972 44968619 0.000000e+00 4891.0
1 TraesCS3D01G088100 chr3D 81.753 1392 137 57 674 2007 45011472 45012804 0.000000e+00 1055.0
2 TraesCS3D01G088100 chr3D 81.118 519 82 13 2063 2574 556629144 556628635 4.110000e-108 401.0
3 TraesCS3D01G088100 chr3B 90.705 1958 143 18 1 1947 70091984 70093913 0.000000e+00 2571.0
4 TraesCS3D01G088100 chr3B 85.172 1106 85 39 938 2007 70120914 70121976 0.000000e+00 1061.0
5 TraesCS3D01G088100 chr3B 93.182 704 42 4 1946 2648 70095320 70096018 0.000000e+00 1029.0
6 TraesCS3D01G088100 chr3B 89.751 361 31 3 1226 1586 70123440 70123794 8.640000e-125 457.0
7 TraesCS3D01G088100 chr3B 85.714 392 30 11 1627 2007 70123802 70124178 8.890000e-105 390.0
8 TraesCS3D01G088100 chr3B 77.650 434 50 30 542 947 70118830 70119244 1.230000e-53 220.0
9 TraesCS3D01G088100 chr3B 93.103 58 2 2 2571 2628 70121961 70122016 1.690000e-12 84.2
10 TraesCS3D01G088100 chr3A 89.161 858 63 14 1070 1914 56734841 56735681 0.000000e+00 1042.0
11 TraesCS3D01G088100 chr3A 88.778 802 60 14 1120 1914 56756984 56757762 0.000000e+00 955.0
12 TraesCS3D01G088100 chr3A 81.636 550 90 9 2028 2574 661960204 661959663 1.870000e-121 446.0
13 TraesCS3D01G088100 chr3A 85.203 419 25 15 533 934 56734358 56734756 1.910000e-106 396.0
14 TraesCS3D01G088100 chr3A 77.037 270 37 9 642 899 56756514 56756770 5.950000e-27 132.0
15 TraesCS3D01G088100 chr5D 90.989 566 48 3 2006 2569 241371384 241370820 0.000000e+00 760.0
16 TraesCS3D01G088100 chr5D 81.851 551 88 10 2025 2570 384697996 384698539 1.120000e-123 453.0
17 TraesCS3D01G088100 chr7B 90.265 565 52 3 2006 2568 424038348 424038911 0.000000e+00 736.0
18 TraesCS3D01G088100 chr6A 85.445 584 69 11 1132 1703 28643865 28644444 6.310000e-166 593.0
19 TraesCS3D01G088100 chr6A 88.148 135 12 3 243 375 607885254 607885386 9.810000e-35 158.0
20 TraesCS3D01G088100 chrUn 85.349 587 61 13 1132 1703 103768754 103768178 3.800000e-163 584.0
21 TraesCS3D01G088100 chrUn 81.947 565 81 15 1152 1703 103726365 103725809 2.400000e-125 459.0
22 TraesCS3D01G088100 chr7D 84.023 532 82 2 2026 2554 568941839 568942370 2.350000e-140 508.0
23 TraesCS3D01G088100 chr7D 81.690 497 80 10 2077 2570 20078072 20077584 1.140000e-108 403.0
24 TraesCS3D01G088100 chr2B 82.878 549 86 6 2025 2569 779172221 779171677 1.100000e-133 486.0
25 TraesCS3D01G088100 chr2B 80.342 117 19 3 192 307 514672157 514672270 4.700000e-13 86.1
26 TraesCS3D01G088100 chr6B 87.755 294 29 5 1410 1703 55597020 55596734 1.170000e-88 337.0
27 TraesCS3D01G088100 chr6B 82.639 144 20 4 234 375 702691974 702692114 3.580000e-24 122.0
28 TraesCS3D01G088100 chr2D 83.430 344 46 10 192 530 62554260 62553923 2.560000e-80 309.0
29 TraesCS3D01G088100 chr2D 81.525 341 50 5 192 531 59837314 59837642 4.340000e-68 268.0
30 TraesCS3D01G088100 chr2D 81.000 300 45 11 192 487 633501490 633501781 7.370000e-56 228.0
31 TraesCS3D01G088100 chr2D 82.036 167 24 4 193 357 472069519 472069681 1.280000e-28 137.0
32 TraesCS3D01G088100 chr5A 81.818 198 25 11 183 375 268578666 268578857 3.530000e-34 156.0
33 TraesCS3D01G088100 chr5A 81.921 177 25 6 192 365 139688836 139688664 2.750000e-30 143.0


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 TraesCS3D01G088100 chr3D 44965972 44968619 2647 False 4891.00 4891 100.0000 1 2648 1 chr3D.!!$F1 2647
1 TraesCS3D01G088100 chr3D 45011472 45012804 1332 False 1055.00 1055 81.7530 674 2007 1 chr3D.!!$F2 1333
2 TraesCS3D01G088100 chr3D 556628635 556629144 509 True 401.00 401 81.1180 2063 2574 1 chr3D.!!$R1 511
3 TraesCS3D01G088100 chr3B 70091984 70096018 4034 False 1800.00 2571 91.9435 1 2648 2 chr3B.!!$F1 2647
4 TraesCS3D01G088100 chr3B 70118830 70124178 5348 False 442.44 1061 86.2780 542 2628 5 chr3B.!!$F2 2086
5 TraesCS3D01G088100 chr3A 56734358 56735681 1323 False 719.00 1042 87.1820 533 1914 2 chr3A.!!$F1 1381
6 TraesCS3D01G088100 chr3A 56756514 56757762 1248 False 543.50 955 82.9075 642 1914 2 chr3A.!!$F2 1272
7 TraesCS3D01G088100 chr3A 661959663 661960204 541 True 446.00 446 81.6360 2028 2574 1 chr3A.!!$R1 546
8 TraesCS3D01G088100 chr5D 241370820 241371384 564 True 760.00 760 90.9890 2006 2569 1 chr5D.!!$R1 563
9 TraesCS3D01G088100 chr5D 384697996 384698539 543 False 453.00 453 81.8510 2025 2570 1 chr5D.!!$F1 545
10 TraesCS3D01G088100 chr7B 424038348 424038911 563 False 736.00 736 90.2650 2006 2568 1 chr7B.!!$F1 562
11 TraesCS3D01G088100 chr6A 28643865 28644444 579 False 593.00 593 85.4450 1132 1703 1 chr6A.!!$F1 571
12 TraesCS3D01G088100 chrUn 103768178 103768754 576 True 584.00 584 85.3490 1132 1703 1 chrUn.!!$R2 571
13 TraesCS3D01G088100 chrUn 103725809 103726365 556 True 459.00 459 81.9470 1152 1703 1 chrUn.!!$R1 551
14 TraesCS3D01G088100 chr7D 568941839 568942370 531 False 508.00 508 84.0230 2026 2554 1 chr7D.!!$F1 528
15 TraesCS3D01G088100 chr2B 779171677 779172221 544 True 486.00 486 82.8780 2025 2569 1 chr2B.!!$R1 544

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
186 187 0.178961 AGGGGGCAAAGACAAAGACC 60.179 55.0 0.0 0.00 0.00 3.85 F
396 398 0.465824 GAATCTGGGCTGCTGCAGAT 60.466 55.0 32.3 14.16 41.91 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1063 2809 0.250989 TTCGGTGGAATTGGTGGGTC 60.251 55.0 0.0 0.0 0.00 4.46 R
2093 5343 0.391661 GAGCAATCCCAAGCTGTCGA 60.392 55.0 0.0 0.0 42.04 4.20 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
76 77 6.957631 TGTTCATCTTAGGTGTGGTGATATT 58.042 36.000 0.00 0.00 0.00 1.28
88 89 5.873164 GTGTGGTGATATTAGGTTTTCGTCT 59.127 40.000 0.00 0.00 0.00 4.18
102 103 6.647895 AGGTTTTCGTCTCGTAACATATGTTT 59.352 34.615 25.31 10.48 39.31 2.83
103 104 7.814107 AGGTTTTCGTCTCGTAACATATGTTTA 59.186 33.333 25.31 11.20 39.31 2.01
122 123 7.946655 TGTTTATTGGTCGATCATCTATGAC 57.053 36.000 0.00 0.00 40.03 3.06
127 128 2.095161 GGTCGATCATCTATGACGGGTC 60.095 54.545 11.98 0.00 40.03 4.46
151 152 3.379445 CCCGGTGACCGCTACTGT 61.379 66.667 20.39 0.00 46.86 3.55
152 153 2.654877 CCGGTGACCGCTACTGTT 59.345 61.111 20.39 0.00 46.86 3.16
159 160 2.047655 CCGCTACTGTTCGGGCAA 60.048 61.111 11.72 0.00 41.82 4.52
174 175 4.323477 CAACCGTTCGAGGGGGCA 62.323 66.667 9.14 0.00 35.02 5.36
179 180 2.033194 CGTTCGAGGGGGCAAAGAC 61.033 63.158 0.00 0.00 0.00 3.01
186 187 0.178961 AGGGGGCAAAGACAAAGACC 60.179 55.000 0.00 0.00 0.00 3.85
190 191 1.963515 GGGCAAAGACAAAGACCATGT 59.036 47.619 0.00 0.00 0.00 3.21
203 204 2.508716 AGACCATGTGAGCATCTCCAAT 59.491 45.455 0.00 0.00 34.92 3.16
220 221 7.421530 TCTCCAATAGATGCGCTAAATAAAC 57.578 36.000 9.73 0.00 31.66 2.01
223 224 4.663636 ATAGATGCGCTAAATAAACCGC 57.336 40.909 9.73 0.00 45.99 5.68
228 229 0.587985 CGCTAAATAAACCGCGCACC 60.588 55.000 8.75 0.00 39.11 5.01
236 237 0.872388 AAACCGCGCACCTAAGAAAG 59.128 50.000 8.75 0.00 0.00 2.62
241 242 0.669625 GCGCACCTAAGAAAGACGGT 60.670 55.000 0.30 0.00 0.00 4.83
247 248 5.401674 CGCACCTAAGAAAGACGGTTATATC 59.598 44.000 0.00 0.00 0.00 1.63
248 249 5.401674 GCACCTAAGAAAGACGGTTATATCG 59.598 44.000 0.00 0.00 0.00 2.92
249 250 6.501781 CACCTAAGAAAGACGGTTATATCGT 58.498 40.000 1.95 1.95 44.03 3.73
271 272 1.154093 CGCTCGACCGAAAGTAGCA 60.154 57.895 0.00 0.00 32.69 3.49
280 281 1.354040 CGAAAGTAGCACTCCAGCAG 58.646 55.000 0.00 0.00 36.85 4.24
281 282 1.082690 GAAAGTAGCACTCCAGCAGC 58.917 55.000 0.00 0.00 36.85 5.25
284 285 4.457496 TAGCACTCCAGCAGCCGC 62.457 66.667 0.00 0.00 36.85 6.53
295 296 2.391389 GCAGCCGCGCTATAATCCC 61.391 63.158 5.56 0.00 36.40 3.85
320 321 3.181504 GCGCGGTAAATAAGGTTCAACAT 60.182 43.478 8.83 0.00 0.00 2.71
326 327 5.417580 GGTAAATAAGGTTCAACATGCTGGA 59.582 40.000 0.00 0.00 0.00 3.86
330 331 4.751767 AAGGTTCAACATGCTGGAAAAA 57.248 36.364 0.00 0.00 0.00 1.94
354 355 4.236416 CGCGCGCTGGGTATTTGG 62.236 66.667 30.48 5.07 0.00 3.28
384 386 4.233635 GCGCGCTGCAGAATCTGG 62.234 66.667 26.67 0.39 45.45 3.86
395 397 1.077930 GAATCTGGGCTGCTGCAGA 60.078 57.895 32.30 12.35 41.91 4.26
396 398 0.465824 GAATCTGGGCTGCTGCAGAT 60.466 55.000 32.30 14.16 41.91 2.90
399 401 4.435970 TGGGCTGCTGCAGATGGG 62.436 66.667 32.30 7.68 41.91 4.00
408 410 3.743017 GCAGATGGGCCCCCTGAA 61.743 66.667 33.38 12.94 36.94 3.02
410 412 1.622499 CAGATGGGCCCCCTGAATT 59.378 57.895 28.24 3.20 36.94 2.17
411 413 0.757935 CAGATGGGCCCCCTGAATTG 60.758 60.000 28.24 11.19 36.94 2.32
418 420 4.757355 CCCCTGAATTGGGCGCCA 62.757 66.667 30.85 9.36 45.78 5.69
420 422 2.788640 CCCTGAATTGGGCGCCATG 61.789 63.158 30.85 9.02 40.84 3.66
447 450 1.806542 TGCATCTGAAAACCTCTTCGC 59.193 47.619 0.00 0.00 0.00 4.70
451 454 0.951040 CTGAAAACCTCTTCGCCGCT 60.951 55.000 0.00 0.00 0.00 5.52
468 471 3.928618 CTCCCGCGCGCAAAAAGAC 62.929 63.158 32.61 0.00 0.00 3.01
474 477 1.573156 CGCGCGCAAAAAGACTATTTC 59.427 47.619 32.61 0.00 0.00 2.17
478 481 2.832745 GCGCAAAAAGACTATTTCGACG 59.167 45.455 0.30 0.00 0.00 5.12
492 495 4.475763 TTTCGACGCTGCAAAAGAATTA 57.524 36.364 0.00 0.00 0.00 1.40
506 509 1.623973 GAATTATACCGCGCCGAGGC 61.624 60.000 6.84 3.59 37.85 4.70
705 724 3.064545 CCTCTCAATCGTGGAATTCTTGC 59.935 47.826 5.23 0.00 0.00 4.01
708 727 4.518590 TCTCAATCGTGGAATTCTTGCAAA 59.481 37.500 5.23 0.00 30.97 3.68
795 828 3.807553 CAGTCAAAACCCCAAAAATGCT 58.192 40.909 0.00 0.00 0.00 3.79
807 840 3.261390 CCAAAAATGCTCCTGGATCCAAA 59.739 43.478 17.00 6.10 0.00 3.28
841 874 1.742831 GCATCAGCCACGGTATTTTCA 59.257 47.619 0.00 0.00 33.58 2.69
853 886 7.322699 GCCACGGTATTTTCATCATATTTTACG 59.677 37.037 0.00 0.00 0.00 3.18
1044 2787 4.404098 GACCCGCGGTTCCCATGT 62.404 66.667 26.12 12.96 35.25 3.21
1115 2876 2.841988 GCCCAAGCCCAACACCAA 60.842 61.111 0.00 0.00 0.00 3.67
1670 3473 2.815647 CGAGGCGGGTCTTTGCTC 60.816 66.667 0.00 0.00 0.00 4.26
1698 3501 1.738099 CCGCTTCCTTCTGACGTGG 60.738 63.158 0.00 0.00 36.66 4.94
1775 3579 2.041701 GGACCATCATCAATTTGGGGG 58.958 52.381 0.00 0.00 34.72 5.40
1885 3715 3.634568 TTAAGGTGAATTTGGCACACG 57.365 42.857 0.00 0.00 39.29 4.49
1891 3725 1.742831 TGAATTTGGCACACGGATAGC 59.257 47.619 0.00 0.00 39.29 2.97
1899 3733 0.378257 CACACGGATAGCATTGCACC 59.622 55.000 11.91 9.99 0.00 5.01
1985 5227 3.881688 GGTGATGTGCTTCATTGCTCTAT 59.118 43.478 0.00 0.00 36.83 1.98
2042 5287 2.666098 GGCGTTGCTCCCCTTCCTA 61.666 63.158 0.00 0.00 0.00 2.94
2055 5300 1.750778 CCTTCCTACGGTAGCGGTTTA 59.249 52.381 19.72 1.02 0.00 2.01
2073 5318 4.341235 GGTTTAGGCCTTCAACTTGACTTT 59.659 41.667 12.58 0.00 0.00 2.66
2093 5343 2.151202 TCGCTTCTTCGAATTTTGCCT 58.849 42.857 0.00 0.00 35.31 4.75
2149 5399 3.489908 CGAAATCCTTGCTCGATCTCTCA 60.490 47.826 0.00 0.00 34.52 3.27
2205 5456 1.078918 CTTGGAGGCGCTGTCATGA 60.079 57.895 7.64 0.00 0.00 3.07
2227 5478 1.920325 CTCCCTGTGCCCTTCCTCA 60.920 63.158 0.00 0.00 0.00 3.86
2243 5494 0.251077 CTCAAGCAGCAGGGGAAACT 60.251 55.000 0.00 0.00 0.00 2.66
2300 5551 1.084370 CCGGCATCGTTCTCCTTCAC 61.084 60.000 0.00 0.00 33.95 3.18
2503 5762 3.991773 GTCATGCGTTGTACCACTTTCTA 59.008 43.478 0.00 0.00 0.00 2.10
2626 5885 4.258543 TCAAGGGTGAAAACGTATGATCC 58.741 43.478 0.00 0.00 0.00 3.36
2632 5891 5.425630 GGTGAAAACGTATGATCCTAACCT 58.574 41.667 0.00 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 6.321435 GGAAACCCCTATGATAAAAAGACAGG 59.679 42.308 0.00 0.00 0.00 4.00
44 45 6.147821 CCACACCTAAGATGAACAAAGTACTG 59.852 42.308 0.00 0.00 0.00 2.74
45 46 6.183361 ACCACACCTAAGATGAACAAAGTACT 60.183 38.462 0.00 0.00 0.00 2.73
76 77 6.855836 ACATATGTTACGAGACGAAAACCTA 58.144 36.000 1.41 0.00 0.00 3.08
88 89 7.921745 TGATCGACCAATAAACATATGTTACGA 59.078 33.333 21.07 19.52 37.25 3.43
102 103 4.157840 CCCGTCATAGATGATCGACCAATA 59.842 45.833 12.83 0.00 39.30 1.90
103 104 3.056536 CCCGTCATAGATGATCGACCAAT 60.057 47.826 12.83 0.00 39.30 3.16
137 138 1.445582 CCGAACAGTAGCGGTCACC 60.446 63.158 6.61 0.00 42.49 4.02
139 140 2.967397 CCCGAACAGTAGCGGTCA 59.033 61.111 12.37 0.00 45.85 4.02
159 160 3.546714 CTTTGCCCCCTCGAACGGT 62.547 63.158 0.00 0.00 0.00 4.83
169 170 1.273327 CATGGTCTTTGTCTTTGCCCC 59.727 52.381 0.00 0.00 0.00 5.80
174 175 3.554934 TGCTCACATGGTCTTTGTCTTT 58.445 40.909 0.00 0.00 0.00 2.52
179 180 2.681848 GGAGATGCTCACATGGTCTTTG 59.318 50.000 0.00 0.00 36.35 2.77
220 221 1.683790 CGTCTTTCTTAGGTGCGCGG 61.684 60.000 8.83 0.00 0.00 6.46
223 224 1.792006 AACCGTCTTTCTTAGGTGCG 58.208 50.000 0.00 0.00 37.03 5.34
228 229 5.115171 CGCACGATATAACCGTCTTTCTTAG 59.885 44.000 0.00 0.00 38.29 2.18
236 237 1.764967 CGCGCACGATATAACCGTC 59.235 57.895 8.75 0.00 43.93 4.79
241 242 0.995234 GTCGAGCGCGCACGATATAA 60.995 55.000 45.08 27.14 43.93 0.98
262 263 1.082690 GCTGCTGGAGTGCTACTTTC 58.917 55.000 0.00 0.00 0.00 2.62
280 281 3.488090 GCGGGATTATAGCGCGGC 61.488 66.667 8.83 0.00 41.29 6.53
295 296 2.027628 AACCTTATTTACCGCGCGCG 62.028 55.000 43.73 43.73 39.44 6.86
299 300 4.339429 CATGTTGAACCTTATTTACCGCG 58.661 43.478 0.00 0.00 0.00 6.46
308 309 5.362430 AGTTTTTCCAGCATGTTGAACCTTA 59.638 36.000 11.60 0.00 0.00 2.69
320 321 0.039256 GCGATGCAGTTTTTCCAGCA 60.039 50.000 0.00 0.00 41.73 4.41
326 327 2.800746 GCGCGCGATGCAGTTTTT 60.801 55.556 37.18 0.00 46.97 1.94
366 368 4.570465 CAGATTCTGCAGCGCGCG 62.570 66.667 28.44 28.44 46.97 6.86
377 379 0.465824 ATCTGCAGCAGCCCAGATTC 60.466 55.000 18.43 0.00 44.15 2.52
395 397 2.698192 CCAATTCAGGGGGCCCAT 59.302 61.111 26.86 16.71 38.92 4.00
396 398 3.682409 CCCAATTCAGGGGGCCCA 61.682 66.667 26.86 3.15 45.60 5.36
403 405 1.606885 AACATGGCGCCCAATTCAGG 61.607 55.000 26.77 8.34 36.95 3.86
404 406 0.247185 AAACATGGCGCCCAATTCAG 59.753 50.000 26.77 8.11 36.95 3.02
405 407 0.683973 AAAACATGGCGCCCAATTCA 59.316 45.000 26.77 3.54 36.95 2.57
408 410 0.396060 ACAAAAACATGGCGCCCAAT 59.604 45.000 26.77 9.10 36.95 3.16
410 412 1.068753 CACAAAAACATGGCGCCCA 59.931 52.632 26.77 12.96 38.19 5.36
411 413 2.316867 GCACAAAAACATGGCGCCC 61.317 57.895 26.77 6.44 0.00 6.13
414 416 1.722464 CAGATGCACAAAAACATGGCG 59.278 47.619 0.00 0.00 0.00 5.69
418 420 5.673514 AGGTTTTCAGATGCACAAAAACAT 58.326 33.333 20.26 14.75 41.25 2.71
420 422 5.351458 AGAGGTTTTCAGATGCACAAAAAC 58.649 37.500 14.59 14.59 39.64 2.43
451 454 4.020378 GTCTTTTTGCGCGCGGGA 62.020 61.111 33.06 15.98 0.00 5.14
460 463 3.840763 GCAGCGTCGAAATAGTCTTTTTG 59.159 43.478 0.00 0.00 0.00 2.44
462 465 3.064207 TGCAGCGTCGAAATAGTCTTTT 58.936 40.909 0.00 0.00 0.00 2.27
466 469 3.122948 TCTTTTGCAGCGTCGAAATAGTC 59.877 43.478 0.00 0.00 0.00 2.59
468 471 3.722555 TCTTTTGCAGCGTCGAAATAG 57.277 42.857 0.00 0.00 0.00 1.73
474 477 4.271687 GGTATAATTCTTTTGCAGCGTCG 58.728 43.478 0.00 0.00 0.00 5.12
478 481 3.035942 CGCGGTATAATTCTTTTGCAGC 58.964 45.455 0.00 0.00 0.00 5.25
506 509 1.011968 TCTCCAACCGATGCGTTTCG 61.012 55.000 2.66 2.66 38.83 3.46
645 649 1.893919 GAGACTGGACTGGGAGGCAC 61.894 65.000 0.00 0.00 0.00 5.01
705 724 3.068590 ACTGACTTTGGAGGTTGCATTTG 59.931 43.478 0.00 0.00 0.00 2.32
708 727 2.508526 GACTGACTTTGGAGGTTGCAT 58.491 47.619 0.00 0.00 0.00 3.96
795 828 3.260205 AGAGGAAACTTTGGATCCAGGA 58.740 45.455 15.53 7.12 44.43 3.86
853 886 7.332430 TGTGTGTTGGTGCAGTTACTTATATAC 59.668 37.037 0.00 0.00 0.00 1.47
1063 2809 0.250989 TTCGGTGGAATTGGTGGGTC 60.251 55.000 0.00 0.00 0.00 4.46
1115 2876 3.771160 GAGCGTCCACCACCCGAT 61.771 66.667 0.00 0.00 0.00 4.18
1621 3424 3.112709 GTGCCGCTCGACAACCTC 61.113 66.667 0.00 0.00 0.00 3.85
1625 3428 3.982372 GATCCGTGCCGCTCGACAA 62.982 63.158 16.03 2.23 0.00 3.18
1670 3473 4.547367 GGAAGCGGATCGGGTGGG 62.547 72.222 5.68 0.00 0.00 4.61
1698 3501 1.156645 AAGCTTCCTCGCATCGCATC 61.157 55.000 0.00 0.00 0.00 3.91
1775 3579 4.464008 TCAGTCAGATGGAATAAATGCCC 58.536 43.478 0.00 0.00 0.00 5.36
1776 3580 6.645790 ATTCAGTCAGATGGAATAAATGCC 57.354 37.500 0.00 0.00 29.93 4.40
1885 3715 2.923121 TCTTCTGGTGCAATGCTATCC 58.077 47.619 6.82 7.22 0.00 2.59
1891 3725 3.495193 CGTCATTTCTTCTGGTGCAATG 58.505 45.455 0.00 0.00 0.00 2.82
1899 3733 1.007011 CGTAGCGCGTCATTTCTTCTG 60.007 52.381 8.43 0.00 35.54 3.02
1985 5227 8.538701 AGGCATCCAAACAATACATTCAATAAA 58.461 29.630 0.00 0.00 0.00 1.40
2042 5287 1.547472 AAGGCCTAAACCGCTACCGT 61.547 55.000 5.16 0.00 33.69 4.83
2055 5300 2.222027 CGAAAGTCAAGTTGAAGGCCT 58.778 47.619 7.25 0.00 0.00 5.19
2073 5318 2.151202 AGGCAAAATTCGAAGAAGCGA 58.849 42.857 3.35 0.00 45.90 4.93
2093 5343 0.391661 GAGCAATCCCAAGCTGTCGA 60.392 55.000 0.00 0.00 42.04 4.20
2221 5472 1.426251 TTCCCCTGCTGCTTGAGGAA 61.426 55.000 6.11 7.75 0.00 3.36
2227 5478 1.280421 CTAGAGTTTCCCCTGCTGCTT 59.720 52.381 0.00 0.00 0.00 3.91
2243 5494 0.680618 TCCGCAAAACCGAACCTAGA 59.319 50.000 0.00 0.00 0.00 2.43
2300 5551 1.741993 CAAACAAGACAACGCCTTCG 58.258 50.000 0.00 0.00 42.43 3.79
2457 5716 0.108377 ACGCACGAGGCATGAACATA 60.108 50.000 0.00 0.00 45.17 2.29
2573 5832 3.942115 TCGAACAATCTCCAAACAACACA 59.058 39.130 0.00 0.00 0.00 3.72
2574 5833 4.545823 TCGAACAATCTCCAAACAACAC 57.454 40.909 0.00 0.00 0.00 3.32
2575 5834 4.578516 ACATCGAACAATCTCCAAACAACA 59.421 37.500 0.00 0.00 0.00 3.33
2576 5835 5.108385 ACATCGAACAATCTCCAAACAAC 57.892 39.130 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.