Multiple sequence alignment - TraesCS1D01G025000

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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 TraesCS1D01G025000 chr1D 100.000 2639 0 0 1 2639 10394610 10391972 0.000000e+00 4874.0
1 TraesCS1D01G025000 chr5D 82.454 1345 148 40 216 1522 431540482 431539188 0.000000e+00 1096.0
2 TraesCS1D01G025000 chr5D 81.033 1355 167 54 471 1752 431531214 431529877 0.000000e+00 996.0
3 TraesCS1D01G025000 chr5D 82.035 924 102 31 693 1585 445214544 445215434 0.000000e+00 728.0
4 TraesCS1D01G025000 chr5D 83.597 695 89 15 592 1268 445209157 445209844 1.720000e-176 628.0
5 TraesCS1D01G025000 chr5D 81.818 473 59 11 2 453 445207321 445207787 3.210000e-99 372.0
6 TraesCS1D01G025000 chr5D 80.353 453 39 16 1747 2177 445210848 445211272 5.520000e-77 298.0
7 TraesCS1D01G025000 chr5D 79.898 393 42 18 88 452 489152418 489152801 1.210000e-63 254.0
8 TraesCS1D01G025000 chr5D 82.686 283 37 8 192 467 431531880 431531603 9.440000e-60 241.0
9 TraesCS1D01G025000 chr5D 82.456 285 25 5 1900 2180 431404443 431404180 2.640000e-55 226.0
10 TraesCS1D01G025000 chr5D 82.759 261 36 4 192 452 431531451 431531200 9.510000e-55 224.0
11 TraesCS1D01G025000 chr5D 78.689 366 33 19 1509 1851 431539026 431538683 4.450000e-48 202.0
12 TraesCS1D01G025000 chr5D 84.974 193 28 1 2 194 431532538 431532347 7.450000e-46 195.0
13 TraesCS1D01G025000 chr5D 84.456 193 30 0 2 194 489110458 489110650 9.640000e-45 191.0
14 TraesCS1D01G025000 chr5D 94.495 109 6 0 88 196 445207834 445207942 4.520000e-38 169.0
15 TraesCS1D01G025000 chr5D 94.495 109 6 0 88 196 445208256 445208364 4.520000e-38 169.0
16 TraesCS1D01G025000 chr5D 95.556 45 2 0 466 510 445214102 445214146 3.640000e-09 73.1
17 TraesCS1D01G025000 chr7D 83.847 1071 110 32 1143 2159 28530922 28531983 0.000000e+00 961.0
18 TraesCS1D01G025000 chr7D 83.784 592 73 9 693 1280 28530385 28530957 8.310000e-150 540.0
19 TraesCS1D01G025000 chr7D 89.850 266 23 4 2214 2478 28532206 28532468 3.250000e-89 339.0
20 TraesCS1D01G025000 chr7D 94.068 118 7 0 2522 2639 28532700 28532817 2.090000e-41 180.0
21 TraesCS1D01G025000 chr7D 83.333 126 21 0 1031 1156 588160081 588159956 1.660000e-22 117.0
22 TraesCS1D01G025000 chr1A 94.083 507 25 3 2108 2614 12140722 12140221 0.000000e+00 765.0
23 TraesCS1D01G025000 chr5A 82.405 790 104 20 1093 1861 562797334 562798109 0.000000e+00 656.0
24 TraesCS1D01G025000 chr5A 80.093 648 105 16 1155 1788 546579834 546579197 6.660000e-126 460.0
25 TraesCS1D01G025000 chr5A 86.427 361 49 0 1143 1503 546589549 546589189 1.900000e-106 396.0
26 TraesCS1D01G025000 chr5A 82.192 438 56 10 840 1268 546590221 546589797 8.980000e-95 357.0
27 TraesCS1D01G025000 chr5A 80.538 483 61 16 1 453 546659857 546659378 9.050000e-90 340.0
28 TraesCS1D01G025000 chr5A 77.287 634 77 36 1568 2177 546589062 546588472 7.090000e-81 311.0
29 TraesCS1D01G025000 chr5A 80.542 406 63 9 838 1238 546659100 546658706 5.520000e-77 298.0
30 TraesCS1D01G025000 chr5A 90.674 193 18 0 2 194 562783010 562783202 9.370000e-65 257.0
31 TraesCS1D01G025000 chr5A 82.397 267 26 11 592 850 546590672 546590419 2.060000e-51 213.0
32 TraesCS1D01G025000 chr5A 80.972 247 40 5 1040 1280 546580158 546579913 3.470000e-44 189.0
33 TraesCS1D01G025000 chr5A 80.000 270 27 11 200 468 546661053 546660810 9.710000e-40 174.0
34 TraesCS1D01G025000 chr5A 77.742 310 48 12 1583 1882 562787847 562788145 1.260000e-38 171.0
35 TraesCS1D01G025000 chr5A 94.495 109 6 0 88 196 546595768 546595660 4.520000e-38 169.0
36 TraesCS1D01G025000 chr5A 91.597 119 10 0 472 590 562793606 562793724 5.840000e-37 165.0
37 TraesCS1D01G025000 chr5A 79.167 120 18 5 334 453 546585901 546585789 2.820000e-10 76.8
38 TraesCS1D01G025000 chr5A 100.000 35 0 0 471 505 546585804 546585770 6.100000e-07 65.8
39 TraesCS1D01G025000 chr5A 100.000 31 0 0 476 506 562793318 562793348 1.020000e-04 58.4
40 TraesCS1D01G025000 chr2D 84.510 439 62 1 1147 1585 569262400 569262832 1.880000e-116 429.0
41 TraesCS1D01G025000 chr2D 78.387 620 72 28 1584 2177 569262984 569263567 1.940000e-91 346.0
42 TraesCS1D01G025000 chr2D 92.727 110 8 0 87 196 569260663 569260772 2.720000e-35 159.0
43 TraesCS1D01G025000 chr3D 82.005 439 73 1 1147 1585 526069360 526068928 4.150000e-98 368.0
44 TraesCS1D01G025000 chr3D 78.715 498 63 25 1583 2051 526068777 526068294 2.570000e-75 292.0
45 TraesCS1D01G025000 chr7B 84.921 126 19 0 1031 1156 661430594 661430469 7.670000e-26 128.0
46 TraesCS1D01G025000 chr7A 84.127 126 20 0 1031 1156 680188921 680188796 3.570000e-24 122.0


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 TraesCS1D01G025000 chr1D 10391972 10394610 2638 True 4874.000000 4874 100.000000 1 2639 1 chr1D.!!$R1 2638
1 TraesCS1D01G025000 chr5D 431538683 431540482 1799 True 649.000000 1096 80.571500 216 1851 2 chr5D.!!$R3 1635
2 TraesCS1D01G025000 chr5D 431529877 431532538 2661 True 414.000000 996 82.863000 2 1752 4 chr5D.!!$R2 1750
3 TraesCS1D01G025000 chr5D 445207321 445215434 8113 False 348.157143 728 87.478429 2 2177 7 chr5D.!!$F3 2175
4 TraesCS1D01G025000 chr7D 28530385 28532817 2432 False 505.000000 961 87.887250 693 2639 4 chr7D.!!$F1 1946
5 TraesCS1D01G025000 chr1A 12140221 12140722 501 True 765.000000 765 94.083000 2108 2614 1 chr1A.!!$R1 506
6 TraesCS1D01G025000 chr5A 546579197 546580158 961 True 324.500000 460 80.532500 1040 1788 2 chr5A.!!$R2 748
7 TraesCS1D01G025000 chr5A 562793318 562798109 4791 False 293.133333 656 91.334000 472 1861 3 chr5A.!!$F3 1389
8 TraesCS1D01G025000 chr5A 546658706 546661053 2347 True 270.666667 340 80.360000 1 1238 3 chr5A.!!$R4 1237
9 TraesCS1D01G025000 chr5A 546585770 546590672 4902 True 236.600000 396 84.578333 334 2177 6 chr5A.!!$R3 1843
10 TraesCS1D01G025000 chr2D 569260663 569263567 2904 False 311.333333 429 85.208000 87 2177 3 chr2D.!!$F1 2090
11 TraesCS1D01G025000 chr3D 526068294 526069360 1066 True 330.000000 368 80.360000 1147 2051 2 chr3D.!!$R1 904

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
431 2628 0.109086 TGCACTCGTTCTGCTAGCTC 60.109 55.0 17.23 3.23 35.53 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1954 9402 0.398696 ACTACCGTCATTGTTGCCCA 59.601 50.0 0.0 0.0 0.0 5.36 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
24 25 3.009723 TCGGATGCAGACAAGGAAATTC 58.990 45.455 0.00 0.00 0.00 2.17
30 31 1.740025 CAGACAAGGAAATTCGAGGGC 59.260 52.381 0.00 0.00 0.00 5.19
34 35 0.681243 AAGGAAATTCGAGGGCTGCC 60.681 55.000 11.05 11.05 0.00 4.85
44 1800 2.827642 GGGCTGCCTGATCACTGC 60.828 66.667 19.68 5.67 0.00 4.40
48 1804 4.783621 TGCCTGATCACTGCCCGC 62.784 66.667 9.39 0.00 0.00 6.13
60 1816 4.807039 GCCCGCGGACGCTTCTAA 62.807 66.667 30.73 0.00 39.32 2.10
93 1849 1.885359 GCGTATGAGGGGACGGATCTA 60.885 57.143 0.00 0.00 39.46 1.98
148 1904 8.667076 AGAAGAAGGGATTTTCAAAATTGTTG 57.333 30.769 0.00 0.00 0.00 3.33
196 1952 6.491403 AGAAATTATGAAGCTGACAGTTTGGT 59.509 34.615 9.49 0.69 0.00 3.67
197 1953 7.665559 AGAAATTATGAAGCTGACAGTTTGGTA 59.334 33.333 9.49 0.00 0.00 3.25
198 1954 6.992063 ATTATGAAGCTGACAGTTTGGTAG 57.008 37.500 9.49 0.00 0.00 3.18
249 2444 8.458843 CGATATTGTAACCATTCCTTCAAACTT 58.541 33.333 0.00 0.00 0.00 2.66
254 2449 7.262048 TGTAACCATTCCTTCAAACTTTGTTC 58.738 34.615 1.44 0.00 0.00 3.18
255 2450 5.930837 ACCATTCCTTCAAACTTTGTTCA 57.069 34.783 1.44 0.00 0.00 3.18
329 2525 6.549433 TTTTACGGGTACATAGAGACCATT 57.451 37.500 0.00 0.00 37.47 3.16
390 2587 7.068962 GGGATTTATATTCTTTTCCCAACGGAA 59.931 37.037 0.94 0.00 46.91 4.30
411 2608 1.002201 TCCGGTAAGGTGCGAAAATGA 59.998 47.619 0.00 0.00 41.99 2.57
423 2620 2.159653 GCGAAAATGATGCACTCGTTCT 60.160 45.455 0.00 0.00 31.69 3.01
424 2621 3.410850 CGAAAATGATGCACTCGTTCTG 58.589 45.455 0.00 0.00 31.69 3.02
425 2622 2.907910 AAATGATGCACTCGTTCTGC 57.092 45.000 0.00 0.00 31.69 4.26
426 2623 2.105006 AATGATGCACTCGTTCTGCT 57.895 45.000 0.00 0.00 35.53 4.24
427 2624 2.967599 ATGATGCACTCGTTCTGCTA 57.032 45.000 0.00 0.00 35.53 3.49
428 2625 2.284263 TGATGCACTCGTTCTGCTAG 57.716 50.000 0.00 0.00 35.53 3.42
429 2626 0.926846 GATGCACTCGTTCTGCTAGC 59.073 55.000 8.10 8.10 35.53 3.42
430 2627 0.534412 ATGCACTCGTTCTGCTAGCT 59.466 50.000 17.23 0.00 35.53 3.32
431 2628 0.109086 TGCACTCGTTCTGCTAGCTC 60.109 55.000 17.23 3.23 35.53 4.09
432 2629 0.172352 GCACTCGTTCTGCTAGCTCT 59.828 55.000 17.23 0.00 0.00 4.09
433 2630 1.403514 GCACTCGTTCTGCTAGCTCTT 60.404 52.381 17.23 0.00 0.00 2.85
434 2631 2.159366 GCACTCGTTCTGCTAGCTCTTA 60.159 50.000 17.23 0.00 0.00 2.10
435 2632 3.490078 GCACTCGTTCTGCTAGCTCTTAT 60.490 47.826 17.23 0.00 0.00 1.73
436 2633 4.261238 GCACTCGTTCTGCTAGCTCTTATA 60.261 45.833 17.23 0.00 0.00 0.98
437 2634 5.448438 CACTCGTTCTGCTAGCTCTTATAG 58.552 45.833 17.23 9.36 0.00 1.31
438 2635 5.237561 CACTCGTTCTGCTAGCTCTTATAGA 59.762 44.000 17.23 6.17 0.00 1.98
439 2636 5.237779 ACTCGTTCTGCTAGCTCTTATAGAC 59.762 44.000 17.23 3.72 0.00 2.59
440 2637 5.369833 TCGTTCTGCTAGCTCTTATAGACT 58.630 41.667 17.23 0.00 0.00 3.24
441 2638 6.522946 TCGTTCTGCTAGCTCTTATAGACTA 58.477 40.000 17.23 0.00 0.00 2.59
442 2639 6.647481 TCGTTCTGCTAGCTCTTATAGACTAG 59.353 42.308 17.23 0.00 33.28 2.57
443 2640 6.647481 CGTTCTGCTAGCTCTTATAGACTAGA 59.353 42.308 17.23 2.51 32.57 2.43
444 2641 7.171848 CGTTCTGCTAGCTCTTATAGACTAGAA 59.828 40.741 17.23 8.78 32.57 2.10
445 2642 9.010029 GTTCTGCTAGCTCTTATAGACTAGAAT 57.990 37.037 17.23 0.00 32.57 2.40
469 2666 5.042463 TCTAGTTGGACCAAAATGTCACA 57.958 39.130 8.94 0.00 36.97 3.58
518 3018 6.138967 AGAATATCTAGCTGGCCCAAAATTT 58.861 36.000 0.00 0.00 0.00 1.82
551 3051 0.179121 CAGACGCCAGCCACGTATAA 60.179 55.000 0.00 0.00 45.24 0.98
562 3062 5.335740 CCAGCCACGTATAATAGGAGTAGTG 60.336 48.000 0.00 0.00 0.00 2.74
614 3139 2.745884 GTGCAGCGCCACACCATA 60.746 61.111 17.23 0.00 35.80 2.74
624 3149 1.406341 GCCACACCATAGCCGTTAAGA 60.406 52.381 0.00 0.00 0.00 2.10
707 3238 4.433431 CCGGCCGTTAACGTTGCG 62.433 66.667 26.12 14.84 37.74 4.85
733 3278 0.611618 TGTTTGGCATGGGAATCGCT 60.612 50.000 0.00 0.00 0.00 4.93
735 3284 1.375853 TTTGGCATGGGAATCGCTCG 61.376 55.000 0.00 0.00 0.00 5.03
755 3304 2.711922 CCCTCCTTCCTCCACGTCG 61.712 68.421 0.00 0.00 0.00 5.12
871 3632 1.692148 CTCTTCAAATACGCGCCGCA 61.692 55.000 10.75 0.00 0.00 5.69
927 3694 1.815817 GCTAGCTAGCTGCCTCCTCC 61.816 65.000 33.71 5.30 45.62 4.30
939 3714 1.306482 CTCCTCCTTGCCCTCTCCA 60.306 63.158 0.00 0.00 0.00 3.86
1635 9023 3.003480 ACAGGAGCTTTGCTTATTCGTC 58.997 45.455 0.00 0.00 39.88 4.20
1645 9033 8.030106 AGCTTTGCTTATTCGTCTAGTATATCC 58.970 37.037 0.00 0.00 33.89 2.59
1664 9060 9.804758 GTATATCCACTACTAGCAAATATGACC 57.195 37.037 0.00 0.00 0.00 4.02
1670 9066 3.873910 ACTAGCAAATATGACCGTGCTT 58.126 40.909 1.92 0.00 44.79 3.91
1713 9109 6.818644 TGACACATTACTATGAGAAAAGAGGC 59.181 38.462 0.00 0.00 35.65 4.70
1726 9139 0.108138 AAGAGGCGTTTCTCCATCCG 60.108 55.000 0.00 0.00 34.46 4.18
1743 9156 1.671901 CCGCCAAAACACCCAACAGT 61.672 55.000 0.00 0.00 0.00 3.55
1794 9208 8.926710 CAATATCTACCGTTCATGGATTTAGTC 58.073 37.037 0.00 0.00 0.00 2.59
1798 9212 4.766375 ACCGTTCATGGATTTAGTCGATT 58.234 39.130 0.00 0.00 0.00 3.34
1799 9213 5.183228 ACCGTTCATGGATTTAGTCGATTT 58.817 37.500 0.00 0.00 0.00 2.17
1800 9214 6.342906 ACCGTTCATGGATTTAGTCGATTTA 58.657 36.000 0.00 0.00 0.00 1.40
1801 9215 6.990349 ACCGTTCATGGATTTAGTCGATTTAT 59.010 34.615 0.00 0.00 0.00 1.40
1802 9216 7.170998 ACCGTTCATGGATTTAGTCGATTTATC 59.829 37.037 0.00 0.00 0.00 1.75
1803 9217 7.170828 CCGTTCATGGATTTAGTCGATTTATCA 59.829 37.037 0.00 0.00 0.00 2.15
1818 9238 6.934645 TCGATTTATCATTACTCAATCACCCC 59.065 38.462 0.00 0.00 0.00 4.95
1894 9342 3.560068 CCTAAATCTATTGTGCGGGTGAC 59.440 47.826 0.00 0.00 0.00 3.67
1945 9393 3.005897 AGCATTGATACTTCCTCGCGTAT 59.994 43.478 5.77 0.00 0.00 3.06
1954 9402 3.380637 ACTTCCTCGCGTATGACATTAGT 59.619 43.478 5.77 0.00 0.00 2.24
1968 9416 2.487762 ACATTAGTGGGCAACAATGACG 59.512 45.455 18.12 0.00 34.32 4.35
1992 9440 6.931281 CGGTAGTTGATTTATGATCCACATCT 59.069 38.462 0.00 0.00 40.07 2.90
1994 9442 9.950496 GGTAGTTGATTTATGATCCACATCTAT 57.050 33.333 0.00 0.00 40.07 1.98
2004 9452 7.579940 ATGATCCACATCTATTAGTCCCAAT 57.420 36.000 0.00 0.00 33.46 3.16
2051 9499 0.955428 TGACCATCCTTGCAAGACGC 60.955 55.000 28.05 10.68 42.89 5.19
2098 9548 7.923878 TGGTTTGCAGGTTTTCTAGTTTTATTC 59.076 33.333 0.00 0.00 0.00 1.75
2163 9794 1.064946 GCGTGATCGGAGAGACAGG 59.935 63.158 0.00 0.00 43.63 4.00
2207 9838 8.723311 CGGTTAACTATTTTGACAGGTTCATTA 58.277 33.333 5.42 0.00 32.84 1.90
2451 10714 1.201647 CATAGGCCTACACGGGTATCG 59.798 57.143 16.61 0.00 45.88 2.92
2483 10746 2.480555 GCCAACGGTGCTTCGATG 59.519 61.111 0.00 4.75 33.64 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.904800 TTCCTTGTCTGCATCCGAATA 57.095 42.857 0.00 0.00 0.00 1.75
6 7 3.064545 CCTCGAATTTCCTTGTCTGCATC 59.935 47.826 0.00 0.00 0.00 3.91
24 25 2.202987 GTGATCAGGCAGCCCTCG 60.203 66.667 8.22 0.00 40.33 4.63
30 31 2.513204 CGGGCAGTGATCAGGCAG 60.513 66.667 18.13 7.72 0.00 4.85
34 35 4.147449 TCCGCGGGCAGTGATCAG 62.147 66.667 27.83 0.00 0.00 2.90
57 1813 3.849953 GCCCGCGAACGTGCTTAG 61.850 66.667 8.23 0.00 39.76 2.18
69 1825 4.603946 GTCCCCTCATACGCCCGC 62.604 72.222 0.00 0.00 0.00 6.13
70 1826 4.280494 CGTCCCCTCATACGCCCG 62.280 72.222 0.00 0.00 31.66 6.13
74 1830 2.195741 TAGATCCGTCCCCTCATACG 57.804 55.000 0.00 0.00 38.80 3.06
93 1849 0.530650 CATCTACAGCCGCGGACATT 60.531 55.000 33.48 12.05 0.00 2.71
196 1952 1.689813 ACACCGAACCACACATGTCTA 59.310 47.619 0.00 0.00 0.00 2.59
197 1953 0.468226 ACACCGAACCACACATGTCT 59.532 50.000 0.00 0.00 0.00 3.41
198 1954 1.305201 AACACCGAACCACACATGTC 58.695 50.000 0.00 0.00 0.00 3.06
277 2472 8.692710 TCGTGAACTAATATGAGGTTTCTGTAT 58.307 33.333 0.00 0.00 0.00 2.29
280 2475 7.827819 TTCGTGAACTAATATGAGGTTTCTG 57.172 36.000 0.00 0.00 0.00 3.02
287 2483 9.632969 CCGTAAAATTTCGTGAACTAATATGAG 57.367 33.333 0.00 0.00 0.00 2.90
299 2495 6.753279 TCTCTATGTACCCGTAAAATTTCGTG 59.247 38.462 0.00 0.00 0.00 4.35
380 2576 0.538118 CTTACCGGATTCCGTTGGGA 59.462 55.000 22.83 2.45 46.80 4.37
387 2584 0.108041 TTCGCACCTTACCGGATTCC 60.108 55.000 9.46 0.00 36.31 3.01
390 2587 2.014128 CATTTTCGCACCTTACCGGAT 58.986 47.619 9.46 0.00 36.31 4.18
411 2608 0.534412 AGCTAGCAGAACGAGTGCAT 59.466 50.000 18.83 0.00 43.82 3.96
417 2614 5.369833 AGTCTATAAGAGCTAGCAGAACGA 58.630 41.667 18.83 1.37 0.00 3.85
418 2615 5.682943 AGTCTATAAGAGCTAGCAGAACG 57.317 43.478 18.83 0.00 0.00 3.95
440 2637 9.832445 GACATTTTGGTCCAACTAGATATTCTA 57.168 33.333 2.98 0.00 0.00 2.10
441 2638 8.328758 TGACATTTTGGTCCAACTAGATATTCT 58.671 33.333 2.98 0.00 36.97 2.40
442 2639 8.398665 GTGACATTTTGGTCCAACTAGATATTC 58.601 37.037 2.98 0.00 36.97 1.75
443 2640 7.888021 TGTGACATTTTGGTCCAACTAGATATT 59.112 33.333 2.98 0.00 36.97 1.28
444 2641 7.402054 TGTGACATTTTGGTCCAACTAGATAT 58.598 34.615 2.98 0.00 36.97 1.63
445 2642 6.774673 TGTGACATTTTGGTCCAACTAGATA 58.225 36.000 2.98 0.00 36.97 1.98
446 2643 5.630121 TGTGACATTTTGGTCCAACTAGAT 58.370 37.500 2.98 0.00 36.97 1.98
447 2644 5.042463 TGTGACATTTTGGTCCAACTAGA 57.958 39.130 2.98 0.00 36.97 2.43
448 2645 5.049405 GTCTGTGACATTTTGGTCCAACTAG 60.049 44.000 2.98 0.00 36.97 2.57
449 2646 4.819630 GTCTGTGACATTTTGGTCCAACTA 59.180 41.667 2.98 0.00 36.97 2.24
450 2647 3.632145 GTCTGTGACATTTTGGTCCAACT 59.368 43.478 2.98 0.00 36.97 3.16
451 2648 3.632145 AGTCTGTGACATTTTGGTCCAAC 59.368 43.478 2.98 0.00 36.97 3.77
452 2649 3.897239 AGTCTGTGACATTTTGGTCCAA 58.103 40.909 0.00 0.00 36.97 3.53
453 2650 3.576078 AGTCTGTGACATTTTGGTCCA 57.424 42.857 0.00 0.00 36.97 4.02
454 2651 4.894784 TCTAGTCTGTGACATTTTGGTCC 58.105 43.478 0.46 0.00 36.97 4.46
455 2652 8.723942 ATATTCTAGTCTGTGACATTTTGGTC 57.276 34.615 0.46 0.00 38.29 4.02
456 2653 8.543774 AGATATTCTAGTCTGTGACATTTTGGT 58.456 33.333 0.46 0.00 34.60 3.67
457 2654 8.954950 AGATATTCTAGTCTGTGACATTTTGG 57.045 34.615 0.46 0.00 34.60 3.28
509 3009 3.243401 GCGCCCACTATCTAAATTTTGGG 60.243 47.826 16.12 16.12 45.72 4.12
518 3018 1.452953 CGTCTGGCGCCCACTATCTA 61.453 60.000 26.77 0.19 0.00 1.98
542 3042 6.872628 TCACACTACTCCTATTATACGTGG 57.127 41.667 0.00 0.00 0.00 4.94
551 3051 7.635648 AGACTAGACTTTCACACTACTCCTAT 58.364 38.462 0.00 0.00 0.00 2.57
562 3062 2.159544 CGTCCCGAGACTAGACTTTCAC 60.160 54.545 0.00 0.00 41.16 3.18
689 3220 4.092652 GCAACGTTAACGGCCGGG 62.093 66.667 31.76 15.03 44.95 5.73
707 3238 1.622811 TCCCATGCCAAACAACAATCC 59.377 47.619 0.00 0.00 0.00 3.01
733 3278 4.005978 TGGAGGAAGGAGGGCCGA 62.006 66.667 0.00 0.00 39.96 5.54
735 3284 3.787001 CGTGGAGGAAGGAGGGCC 61.787 72.222 0.00 0.00 0.00 5.80
755 3304 1.515521 CCCTTGTTTGGTCTGGCGAC 61.516 60.000 0.00 0.00 39.49 5.19
825 3378 1.305930 GGGATCCCGTGCAAGTTGAC 61.306 60.000 17.02 1.36 0.00 3.18
871 3632 1.999634 CTTGATTCCCCTCGCCCCAT 62.000 60.000 0.00 0.00 0.00 4.00
927 3694 1.197430 ACAGGAGTGGAGAGGGCAAG 61.197 60.000 0.00 0.00 0.00 4.01
939 3714 3.067091 CTGCAGGCAGACAGGAGT 58.933 61.111 16.02 0.00 46.30 3.85
983 3772 0.863538 CATCTCCGAAGACGTGCGAG 60.864 60.000 0.00 0.00 37.88 5.03
1302 8295 2.764637 CTACCCGCCTGGCCAAAAGT 62.765 60.000 14.12 6.06 37.83 2.66
1606 8994 1.598130 AAAGCTCCTGTGGTGTCGC 60.598 57.895 0.00 0.00 0.00 5.19
1607 8995 1.845809 GCAAAGCTCCTGTGGTGTCG 61.846 60.000 0.00 0.00 0.00 4.35
1645 9033 4.209288 GCACGGTCATATTTGCTAGTAGTG 59.791 45.833 0.00 0.00 32.00 2.74
1662 9058 0.814457 TTCTGTTGCAAAAGCACGGT 59.186 45.000 12.11 0.00 0.00 4.83
1664 9060 3.987807 TTTTTCTGTTGCAAAAGCACG 57.012 38.095 12.11 0.00 0.00 5.34
1692 9088 5.978814 ACGCCTCTTTTCTCATAGTAATGT 58.021 37.500 0.00 0.00 34.50 2.71
1697 9093 5.153950 AGAAACGCCTCTTTTCTCATAGT 57.846 39.130 0.00 0.00 38.67 2.12
1710 9106 2.125106 GCGGATGGAGAAACGCCT 60.125 61.111 0.00 0.00 45.70 5.52
1713 9109 0.878416 TTTTGGCGGATGGAGAAACG 59.122 50.000 0.00 0.00 0.00 3.60
1726 9139 0.820871 TCACTGTTGGGTGTTTTGGC 59.179 50.000 0.00 0.00 38.28 4.52
1743 9156 1.123861 ACTCTGGAGCTTGTGCCTCA 61.124 55.000 0.00 0.00 40.80 3.86
1794 9208 6.710295 TGGGGTGATTGAGTAATGATAAATCG 59.290 38.462 0.00 0.00 31.33 3.34
1798 9212 6.159575 TCCTTGGGGTGATTGAGTAATGATAA 59.840 38.462 0.00 0.00 0.00 1.75
1799 9213 5.669904 TCCTTGGGGTGATTGAGTAATGATA 59.330 40.000 0.00 0.00 0.00 2.15
1800 9214 4.478317 TCCTTGGGGTGATTGAGTAATGAT 59.522 41.667 0.00 0.00 0.00 2.45
1801 9215 3.849574 TCCTTGGGGTGATTGAGTAATGA 59.150 43.478 0.00 0.00 0.00 2.57
1802 9216 4.235079 TCCTTGGGGTGATTGAGTAATG 57.765 45.455 0.00 0.00 0.00 1.90
1803 9217 4.946160 TTCCTTGGGGTGATTGAGTAAT 57.054 40.909 0.00 0.00 0.00 1.89
1945 9393 3.505680 GTCATTGTTGCCCACTAATGTCA 59.494 43.478 0.00 0.00 33.46 3.58
1954 9402 0.398696 ACTACCGTCATTGTTGCCCA 59.601 50.000 0.00 0.00 0.00 5.36
1968 9416 9.950496 ATAGATGTGGATCATAAATCAACTACC 57.050 33.333 0.00 0.00 36.83 3.18
2029 9477 1.133790 GTCTTGCAAGGATGGTCATGC 59.866 52.381 25.73 0.00 39.22 4.06
2098 9548 1.414181 AGTGCATCATTAGGAGGTCGG 59.586 52.381 0.00 0.00 0.00 4.79
2163 9794 5.644977 AACCGGATGAATTTCCTTTTCTC 57.355 39.130 9.46 0.00 33.30 2.87
2226 9857 9.504708 TCGTAGGTTTAGGAAAAACAATTATCA 57.495 29.630 3.33 0.00 34.53 2.15
2470 10733 1.821216 AAAATCCATCGAAGCACCGT 58.179 45.000 0.00 0.00 0.00 4.83
2478 10741 4.437682 AGGCCTATGAAAAATCCATCGA 57.562 40.909 1.29 0.00 0.00 3.59
2483 10746 4.524328 CCCATGTAGGCCTATGAAAAATCC 59.476 45.833 17.38 0.00 35.39 3.01
2610 11671 9.745880 GGAAAGAAATAACTCGTCATGTATCTA 57.254 33.333 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.