Multiple sequence alignment - TraesCS3D01G195700

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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 TraesCS3D01G195700 chr3D 100.000 6889 0 0 1 6889 191094481 191101369 0.000000e+00 12722.0
1 TraesCS3D01G195700 chr3D 89.189 74 8 0 1773 1846 565617509 565617436 7.360000e-15 93.5
2 TraesCS3D01G195700 chr3D 79.137 139 22 7 2566 2702 199131319 199131186 9.520000e-14 89.8
3 TraesCS3D01G195700 chr3D 93.878 49 3 0 5362 5410 191099796 191099844 2.660000e-09 75.0
4 TraesCS3D01G195700 chr3D 93.878 49 3 0 5316 5364 191099842 191099890 2.660000e-09 75.0
5 TraesCS3D01G195700 chr3B 95.949 4196 88 14 2741 6889 277031665 277035825 0.000000e+00 6732.0
6 TraesCS3D01G195700 chr3B 96.809 1755 44 7 939 2690 277029330 277031075 0.000000e+00 2920.0
7 TraesCS3D01G195700 chr3B 96.607 943 21 5 1 942 277028276 277029208 0.000000e+00 1554.0
8 TraesCS3D01G195700 chr3B 87.443 653 45 18 3869 4521 755228340 755228955 0.000000e+00 717.0
9 TraesCS3D01G195700 chr3B 90.090 222 20 2 3204 3425 96859544 96859763 3.140000e-73 287.0
10 TraesCS3D01G195700 chr3B 89.189 74 8 0 1773 1846 753727712 753727639 7.360000e-15 93.5
11 TraesCS3D01G195700 chr3B 79.137 139 22 7 2566 2702 328704706 328704839 9.520000e-14 89.8
12 TraesCS3D01G195700 chr3B 90.385 52 5 0 5313 5364 277034301 277034352 1.240000e-07 69.4
13 TraesCS3D01G195700 chr3A 96.952 3117 53 8 1 3095 266688319 266691415 0.000000e+00 5192.0
14 TraesCS3D01G195700 chr3A 98.220 1685 17 5 3083 4754 266691431 266693115 0.000000e+00 2933.0
15 TraesCS3D01G195700 chr3A 96.667 900 19 3 5362 6260 266693769 266694658 0.000000e+00 1485.0
16 TraesCS3D01G195700 chr3A 98.810 588 6 1 4778 5364 266693230 266693817 0.000000e+00 1046.0
17 TraesCS3D01G195700 chr3A 85.385 520 41 20 3869 4388 725881201 725881685 2.220000e-139 507.0
18 TraesCS3D01G195700 chr3A 94.225 329 19 0 6559 6887 266701894 266702222 2.870000e-138 503.0
19 TraesCS3D01G195700 chr3A 85.593 472 34 16 3988 4459 365962900 365962463 1.350000e-126 464.0
20 TraesCS3D01G195700 chr3A 88.704 301 31 3 4775 5075 629690728 629691025 1.410000e-96 364.0
21 TraesCS3D01G195700 chr3A 96.774 155 2 2 6351 6505 266694655 266694806 8.870000e-64 255.0
22 TraesCS3D01G195700 chr3A 100.000 61 0 0 6506 6566 266694834 266694894 5.650000e-21 113.0
23 TraesCS3D01G195700 chr3A 77.698 139 24 7 2566 2702 310721994 310721861 2.060000e-10 78.7
24 TraesCS3D01G195700 chr7D 89.224 2988 199 61 2790 5720 520387472 520390393 0.000000e+00 3620.0
25 TraesCS3D01G195700 chr7D 91.400 907 57 14 814 1716 520386301 520387190 0.000000e+00 1223.0
26 TraesCS3D01G195700 chr7D 84.067 477 51 7 1723 2190 43134513 43134973 2.950000e-118 436.0
27 TraesCS3D01G195700 chr7A 88.829 2963 213 67 3109 6018 596686128 596689025 0.000000e+00 3530.0
28 TraesCS3D01G195700 chr7A 89.858 917 58 13 813 1716 596684694 596685588 0.000000e+00 1146.0
29 TraesCS3D01G195700 chr7A 85.781 640 61 18 3869 4503 651433102 651433716 0.000000e+00 651.0
30 TraesCS3D01G195700 chr7A 92.212 321 20 2 2790 3106 596685775 596686094 3.790000e-122 449.0
31 TraesCS3D01G195700 chr7A 82.456 285 27 8 1723 2007 42978898 42979159 1.930000e-55 228.0
32 TraesCS3D01G195700 chr7A 80.000 280 26 13 6080 6352 596689038 596689294 5.490000e-41 180.0
33 TraesCS3D01G195700 chr7A 93.478 46 3 0 6546 6591 27278562 27278517 1.240000e-07 69.4
34 TraesCS3D01G195700 chr7B 90.478 2636 185 41 3109 5720 553443600 553446193 0.000000e+00 3417.0
35 TraesCS3D01G195700 chr7B 91.075 930 55 11 803 1716 553441503 553442420 0.000000e+00 1232.0
36 TraesCS3D01G195700 chr7B 91.798 317 26 0 2790 3106 553443250 553443566 6.340000e-120 442.0
37 TraesCS3D01G195700 chr7B 85.593 354 30 7 198 551 122291692 122291360 1.100000e-92 351.0
38 TraesCS3D01G195700 chr7B 82.746 284 22 14 5748 6018 553446293 553446562 1.930000e-55 228.0
39 TraesCS3D01G195700 chr7B 78.967 271 25 15 6080 6346 553446575 553446817 9.250000e-34 156.0
40 TraesCS3D01G195700 chr2D 84.908 762 76 19 4458 5196 278879476 278880221 0.000000e+00 734.0
41 TraesCS3D01G195700 chr2D 83.965 343 35 14 5198 5540 278880297 278880619 1.870000e-80 311.0
42 TraesCS3D01G195700 chr2D 84.049 326 30 6 195 520 453571733 453572036 1.880000e-75 294.0
43 TraesCS3D01G195700 chr2D 81.333 150 26 2 1708 1856 330124594 330124742 3.370000e-23 121.0
44 TraesCS3D01G195700 chr2D 92.405 79 5 1 580 658 5765646 5765723 2.030000e-20 111.0
45 TraesCS3D01G195700 chr2D 80.597 134 22 3 1725 1856 316661836 316661705 4.400000e-17 100.0
46 TraesCS3D01G195700 chr2D 88.750 80 9 0 579 658 488235994 488236073 1.580000e-16 99.0
47 TraesCS3D01G195700 chr2D 92.308 65 5 0 579 643 569200942 569200878 7.360000e-15 93.5
48 TraesCS3D01G195700 chr2D 89.189 74 8 0 577 650 624184916 624184989 7.360000e-15 93.5
49 TraesCS3D01G195700 chr4B 87.479 591 38 17 3869 4459 462782773 462782219 0.000000e+00 649.0
50 TraesCS3D01G195700 chr4B 84.783 92 14 0 1765 1856 484846287 484846196 7.360000e-15 93.5
51 TraesCS3D01G195700 chr2B 91.250 320 25 3 3204 3523 770585709 770586025 3.820000e-117 433.0
52 TraesCS3D01G195700 chr2B 86.250 80 11 0 579 658 572592594 572592673 3.420000e-13 87.9
53 TraesCS3D01G195700 chr1B 90.625 320 26 4 3204 3523 345535815 345535500 8.260000e-114 422.0
54 TraesCS3D01G195700 chr1B 85.526 76 11 0 1771 1846 376557072 376556997 5.730000e-11 80.5
55 TraesCS3D01G195700 chr4A 84.061 458 41 11 1736 2183 650844358 650843923 4.970000e-111 412.0
56 TraesCS3D01G195700 chr5D 92.032 251 19 1 3362 3612 333076590 333076839 1.100000e-92 351.0
57 TraesCS3D01G195700 chr5D 89.850 266 24 3 3362 3626 492284771 492284508 8.560000e-89 339.0
58 TraesCS3D01G195700 chr5D 91.549 71 6 0 580 650 340948780 340948850 1.580000e-16 99.0
59 TraesCS3D01G195700 chr6B 85.429 350 29 8 195 544 404123847 404124174 1.840000e-90 344.0
60 TraesCS3D01G195700 chr6B 79.661 177 30 5 2537 2713 301609159 301608989 9.380000e-24 122.0
61 TraesCS3D01G195700 chr6B 80.556 144 20 7 2521 2661 153329672 153329810 3.400000e-18 104.0
62 TraesCS3D01G195700 chr5B 80.319 376 54 13 1820 2190 292750133 292749773 4.100000e-67 267.0
63 TraesCS3D01G195700 chr6D 80.899 178 26 7 2537 2713 168221004 168220834 4.330000e-27 134.0
64 TraesCS3D01G195700 chr6D 93.182 44 3 0 2733 2776 293567071 293567028 1.600000e-06 65.8
65 TraesCS3D01G195700 chr6A 80.791 177 28 5 2537 2713 287303596 287303766 4.330000e-27 134.0
66 TraesCS3D01G195700 chr2A 91.250 80 6 1 579 658 4218524 4218446 2.630000e-19 108.0
67 TraesCS3D01G195700 chr5A 96.154 52 2 0 4470 4521 565381987 565381936 1.230000e-12 86.1


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 TraesCS3D01G195700 chr3D 191094481 191101369 6888 False 4290.666667 12722 95.918667 1 6889 3 chr3D.!!$F1 6888
1 TraesCS3D01G195700 chr3B 277028276 277035825 7549 False 2818.850000 6732 94.937500 1 6889 4 chr3B.!!$F4 6888
2 TraesCS3D01G195700 chr3B 755228340 755228955 615 False 717.000000 717 87.443000 3869 4521 1 chr3B.!!$F3 652
3 TraesCS3D01G195700 chr3A 266688319 266694894 6575 False 1837.333333 5192 97.903833 1 6566 6 chr3A.!!$F4 6565
4 TraesCS3D01G195700 chr7D 520386301 520390393 4092 False 2421.500000 3620 90.312000 814 5720 2 chr7D.!!$F2 4906
5 TraesCS3D01G195700 chr7A 596684694 596689294 4600 False 1326.250000 3530 87.724750 813 6352 4 chr7A.!!$F3 5539
6 TraesCS3D01G195700 chr7A 651433102 651433716 614 False 651.000000 651 85.781000 3869 4503 1 chr7A.!!$F2 634
7 TraesCS3D01G195700 chr7B 553441503 553446817 5314 False 1095.000000 3417 87.012800 803 6346 5 chr7B.!!$F1 5543
8 TraesCS3D01G195700 chr2D 278879476 278880619 1143 False 522.500000 734 84.436500 4458 5540 2 chr2D.!!$F6 1082
9 TraesCS3D01G195700 chr4B 462782219 462782773 554 True 649.000000 649 87.479000 3869 4459 1 chr4B.!!$R1 590

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
561 563 0.964358 GCACAGATGGCAGCTCCTTT 60.964 55.000 0.27 0.00 35.26 3.11 F
2033 2181 1.002087 CCGTGTAGCCACTCTCCTTTT 59.998 52.381 0.00 0.00 39.55 2.27 F
2665 2945 1.001406 GATCCAACAGAGCGATAGGGG 59.999 57.143 0.00 0.00 0.00 4.79 F
2948 4306 1.377725 CAAGCTGTACAGGCCTGGG 60.378 63.158 35.42 21.99 34.19 4.45 F
5328 6982 0.185901 AGCTTGCACCTGAAAAGGGA 59.814 50.000 0.00 0.00 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2093 2241 0.045469 AGGAAGAAGGAGCTGGGGAT 59.955 55.000 0.0 0.0 0.00 3.85 R
3106 4496 3.334583 AGAAGATAAAGCCGAAGCACA 57.665 42.857 0.0 0.0 43.56 4.57 R
5152 6731 7.639113 AAGAAACACATGAAAAACTGGAGTA 57.361 32.000 0.0 0.0 0.00 2.59 R
5358 7012 4.722526 TGAAATCCCTTTTCAGGTGAGA 57.277 40.909 0.0 0.0 46.80 3.27 R
6699 8568 0.609131 ATTCCTGTTGAGTTGGGCCG 60.609 55.000 0.0 0.0 0.00 6.13 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
560 562 1.378250 GCACAGATGGCAGCTCCTT 60.378 57.895 0.27 0.00 35.26 3.36
561 563 0.964358 GCACAGATGGCAGCTCCTTT 60.964 55.000 0.27 0.00 35.26 3.11
562 564 1.679944 GCACAGATGGCAGCTCCTTTA 60.680 52.381 0.27 0.00 35.26 1.85
563 565 2.928334 CACAGATGGCAGCTCCTTTAT 58.072 47.619 0.27 0.00 35.26 1.40
727 730 6.040166 GGGTACAGAGATGCATTTTTCATCAT 59.960 38.462 0.00 0.00 41.98 2.45
1594 1742 2.359230 AGTGCGGCTGCTTCTTCC 60.359 61.111 20.27 0.00 43.34 3.46
1980 2128 1.909700 TGAAGCCCATTCAGTTCACC 58.090 50.000 0.00 0.00 43.09 4.02
1991 2139 1.774254 TCAGTTCACCATGGTTCCAGT 59.226 47.619 16.84 1.62 0.00 4.00
1998 2146 1.039233 CCATGGTTCCAGTGATGGGC 61.039 60.000 2.57 0.00 33.06 5.36
2033 2181 1.002087 CCGTGTAGCCACTCTCCTTTT 59.998 52.381 0.00 0.00 39.55 2.27
2064 2212 4.020617 CTTCTCCAGCCGCCACCA 62.021 66.667 0.00 0.00 0.00 4.17
2085 2233 1.725182 TCTTCCTCTCTTCCCCTTCCT 59.275 52.381 0.00 0.00 0.00 3.36
2086 2234 1.836802 CTTCCTCTCTTCCCCTTCCTG 59.163 57.143 0.00 0.00 0.00 3.86
2093 2241 1.463214 TTCCCCTTCCTGGAGCACA 60.463 57.895 0.00 0.00 38.35 4.57
2310 2458 4.729918 CGGCCCAAGCTGCTCCTT 62.730 66.667 1.00 0.00 38.90 3.36
2328 2476 5.564848 GCTCCTTCAATCAAACCAGTTAACC 60.565 44.000 0.88 0.00 0.00 2.85
2510 2659 6.108687 TGAACACTCTATGTCACATGGAATC 58.891 40.000 5.24 2.88 42.31 2.52
2602 2882 5.172205 GGACAGTGTAAAAGTTGCCAAAAA 58.828 37.500 0.00 0.00 0.00 1.94
2665 2945 1.001406 GATCCAACAGAGCGATAGGGG 59.999 57.143 0.00 0.00 0.00 4.79
2948 4306 1.377725 CAAGCTGTACAGGCCTGGG 60.378 63.158 35.42 21.99 34.19 4.45
2981 4339 6.811253 TTTGTGTCTAAATCGGTATGCTTT 57.189 33.333 0.00 0.00 0.00 3.51
2982 4340 5.794687 TGTGTCTAAATCGGTATGCTTTG 57.205 39.130 0.00 0.00 0.00 2.77
3090 4452 3.057526 TCCAGTGTGTCTGTAATGACGAG 60.058 47.826 0.00 0.00 42.19 4.18
3154 4578 2.819608 GCAAAAATGTGGAGAGCACCTA 59.180 45.455 0.00 0.00 0.00 3.08
5132 6707 5.608437 TGATAGGGTGAGCCATCTTATTTCT 59.392 40.000 2.50 0.00 36.17 2.52
5315 6969 4.553323 CCTTGGCATCATAATAAGCTTGC 58.447 43.478 9.86 1.07 0.00 4.01
5316 6970 4.038282 CCTTGGCATCATAATAAGCTTGCA 59.962 41.667 9.86 0.00 0.00 4.08
5317 6971 4.572985 TGGCATCATAATAAGCTTGCAC 57.427 40.909 9.86 0.00 0.00 4.57
5318 6972 3.318839 TGGCATCATAATAAGCTTGCACC 59.681 43.478 9.86 0.00 0.00 5.01
5319 6973 3.571401 GGCATCATAATAAGCTTGCACCT 59.429 43.478 9.86 0.00 0.00 4.00
5320 6974 4.543692 GCATCATAATAAGCTTGCACCTG 58.456 43.478 9.86 0.51 0.00 4.00
5321 6975 4.276678 GCATCATAATAAGCTTGCACCTGA 59.723 41.667 9.86 6.15 0.00 3.86
5322 6976 5.221106 GCATCATAATAAGCTTGCACCTGAA 60.221 40.000 9.86 0.00 0.00 3.02
5323 6977 6.681120 GCATCATAATAAGCTTGCACCTGAAA 60.681 38.462 9.86 0.00 0.00 2.69
5324 6978 6.832520 TCATAATAAGCTTGCACCTGAAAA 57.167 33.333 9.86 0.00 0.00 2.29
5325 6979 6.855836 TCATAATAAGCTTGCACCTGAAAAG 58.144 36.000 9.86 0.00 0.00 2.27
5326 6980 4.525912 AATAAGCTTGCACCTGAAAAGG 57.474 40.909 9.86 0.00 0.00 3.11
5327 6981 1.043022 AAGCTTGCACCTGAAAAGGG 58.957 50.000 0.00 0.00 0.00 3.95
5328 6982 0.185901 AGCTTGCACCTGAAAAGGGA 59.814 50.000 0.00 0.00 0.00 4.20
5329 6983 1.203100 AGCTTGCACCTGAAAAGGGAT 60.203 47.619 0.00 0.00 0.00 3.85
5330 6984 1.620323 GCTTGCACCTGAAAAGGGATT 59.380 47.619 0.00 0.00 0.00 3.01
5331 6985 2.037641 GCTTGCACCTGAAAAGGGATTT 59.962 45.455 0.00 0.00 0.00 2.17
5332 6986 3.862264 GCTTGCACCTGAAAAGGGATTTC 60.862 47.826 0.00 0.00 46.30 2.17
5346 7000 9.196552 GAAAAGGGATTTCAAGACATAAGTTTG 57.803 33.333 0.00 0.00 45.58 2.93
5347 7001 7.839680 AAGGGATTTCAAGACATAAGTTTGT 57.160 32.000 0.00 0.00 0.00 2.83
5348 7002 7.839680 AGGGATTTCAAGACATAAGTTTGTT 57.160 32.000 0.00 0.00 0.00 2.83
5349 7003 8.934023 AGGGATTTCAAGACATAAGTTTGTTA 57.066 30.769 0.00 0.00 0.00 2.41
5350 7004 9.533831 AGGGATTTCAAGACATAAGTTTGTTAT 57.466 29.630 0.00 0.00 0.00 1.89
5858 7672 1.267121 AGCAACCACTCTACCGTCAT 58.733 50.000 0.00 0.00 0.00 3.06
6175 8010 3.884895 TCATCATTAAGTGACCGCCAAT 58.115 40.909 0.00 0.00 40.28 3.16
6179 8014 5.461032 TCATTAAGTGACCGCCAATTTTT 57.539 34.783 0.00 0.00 34.59 1.94
6180 8015 5.465935 TCATTAAGTGACCGCCAATTTTTC 58.534 37.500 0.00 0.00 34.59 2.29
6181 8016 5.242838 TCATTAAGTGACCGCCAATTTTTCT 59.757 36.000 0.00 0.00 34.59 2.52
6182 8017 5.523438 TTAAGTGACCGCCAATTTTTCTT 57.477 34.783 0.00 0.00 34.59 2.52
6183 8018 3.643159 AGTGACCGCCAATTTTTCTTC 57.357 42.857 0.00 0.00 0.00 2.87
6184 8019 2.955660 AGTGACCGCCAATTTTTCTTCA 59.044 40.909 0.00 0.00 0.00 3.02
6185 8020 3.004734 AGTGACCGCCAATTTTTCTTCAG 59.995 43.478 0.00 0.00 0.00 3.02
6186 8021 3.004315 GTGACCGCCAATTTTTCTTCAGA 59.996 43.478 0.00 0.00 0.00 3.27
6187 8022 3.004315 TGACCGCCAATTTTTCTTCAGAC 59.996 43.478 0.00 0.00 0.00 3.51
6567 8436 3.791973 AATTCAACTGGCAAAACGTCA 57.208 38.095 0.00 0.00 0.00 4.35
6605 8474 1.553704 GGAGTACAATCGACCCCACTT 59.446 52.381 0.00 0.00 0.00 3.16
6673 8542 6.068010 AGAGTTGGGACACAATTGTAATGAA 58.932 36.000 11.53 0.00 41.95 2.57
6701 8570 7.891183 TTTTGTTCTATCTTTCTCTTCTCGG 57.109 36.000 0.00 0.00 0.00 4.63
6731 8600 4.098807 TCAACAGGAATCCATTGCATCATG 59.901 41.667 0.61 0.00 0.00 3.07
6734 8603 2.882761 AGGAATCCATTGCATCATGACG 59.117 45.455 0.61 0.00 0.00 4.35
6742 8611 1.362768 TGCATCATGACGAGCTTGAC 58.637 50.000 8.31 1.45 34.00 3.18
6744 8613 1.938577 GCATCATGACGAGCTTGACAT 59.061 47.619 12.47 12.47 34.00 3.06
6749 8618 2.084610 TGACGAGCTTGACATCCTTG 57.915 50.000 8.31 0.00 0.00 3.61
6802 8671 5.907207 AGCCAAAAAGAAAGAAAGGAAGAC 58.093 37.500 0.00 0.00 0.00 3.01
6807 8676 6.961360 AAAAGAAAGAAAGGAAGACGGAAT 57.039 33.333 0.00 0.00 0.00 3.01
6845 8714 4.425180 TGTTTCACTAGGTTAACTGCCA 57.575 40.909 5.42 0.00 0.00 4.92
6856 8725 3.058708 GGTTAACTGCCAAGTAAACGTCC 60.059 47.826 5.42 0.00 34.77 4.79
6869 8738 1.486211 AACGTCCTGTCTATGAGGGG 58.514 55.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
137 138 4.518211 AGTTGTCTGATCCTCAAAAGCAAG 59.482 41.667 0.00 0.00 0.00 4.01
560 562 9.875708 AAGGAGCCCAAAATGTATACAATATAA 57.124 29.630 10.14 0.00 0.00 0.98
561 563 9.875708 AAAGGAGCCCAAAATGTATACAATATA 57.124 29.630 10.14 0.00 0.00 0.86
562 564 8.641541 CAAAGGAGCCCAAAATGTATACAATAT 58.358 33.333 10.14 0.00 0.00 1.28
563 565 7.836685 TCAAAGGAGCCCAAAATGTATACAATA 59.163 33.333 10.14 0.00 0.00 1.90
1914 2062 5.047802 CCAAATGTGACTTATGCAGAAAGGT 60.048 40.000 14.23 1.55 0.00 3.50
1980 2128 1.378882 CGCCCATCACTGGAACCATG 61.379 60.000 0.00 0.00 46.37 3.66
1991 2139 3.013921 GGAATCTTTAACACGCCCATCA 58.986 45.455 0.00 0.00 0.00 3.07
1998 2146 2.419667 ACACGGGGAATCTTTAACACG 58.580 47.619 0.00 0.00 0.00 4.49
2033 2181 2.383683 TGGAGAAGAGGAAGGAGGAGAA 59.616 50.000 0.00 0.00 0.00 2.87
2064 2212 2.320675 AGGAAGGGGAAGAGAGGAAGAT 59.679 50.000 0.00 0.00 0.00 2.40
2086 2234 2.191641 GAGCTGGGGATGTGCTCC 59.808 66.667 0.00 0.00 44.11 4.70
2093 2241 0.045469 AGGAAGAAGGAGCTGGGGAT 59.955 55.000 0.00 0.00 0.00 3.85
2177 2325 2.125147 GTGCATCCTACAGCGGCA 60.125 61.111 1.45 0.00 0.00 5.69
2310 2458 4.710324 AGTCGGTTAACTGGTTTGATTGA 58.290 39.130 14.44 0.00 0.00 2.57
2510 2659 6.098982 GGTCCTCCTATATTATGGGATGAGTG 59.901 46.154 12.34 1.32 39.36 3.51
2665 2945 1.408422 GGCACACAAAGTCGCATTTC 58.592 50.000 0.00 0.00 0.00 2.17
2948 4306 5.907391 CGATTTAGACACAAAACCAACTGAC 59.093 40.000 0.00 0.00 0.00 3.51
3090 4452 7.498225 CCGAAGCACAATATGTAAACAAAAAC 58.502 34.615 0.00 0.00 0.00 2.43
3106 4496 3.334583 AGAAGATAAAGCCGAAGCACA 57.665 42.857 0.00 0.00 43.56 4.57
3154 4578 7.124147 TCTGGAAAGAGAAACAAATGGAAAGTT 59.876 33.333 0.00 0.00 0.00 2.66
5152 6731 7.639113 AAGAAACACATGAAAAACTGGAGTA 57.361 32.000 0.00 0.00 0.00 2.59
5320 6974 9.196552 CAAACTTATGTCTTGAAATCCCTTTTC 57.803 33.333 0.00 0.00 43.42 2.29
5321 6975 8.704668 ACAAACTTATGTCTTGAAATCCCTTTT 58.295 29.630 9.20 0.00 0.00 2.27
5322 6976 8.250143 ACAAACTTATGTCTTGAAATCCCTTT 57.750 30.769 9.20 0.00 0.00 3.11
5323 6977 7.839680 ACAAACTTATGTCTTGAAATCCCTT 57.160 32.000 9.20 0.00 0.00 3.95
5324 6978 7.839680 AACAAACTTATGTCTTGAAATCCCT 57.160 32.000 9.20 0.00 31.81 4.20
5348 7002 9.447279 TCCCTTTTCAGGTGAGATATAGAAATA 57.553 33.333 0.00 0.00 38.79 1.40
5349 7003 8.337118 TCCCTTTTCAGGTGAGATATAGAAAT 57.663 34.615 0.00 0.00 38.79 2.17
5350 7004 7.749377 TCCCTTTTCAGGTGAGATATAGAAA 57.251 36.000 0.00 0.00 38.79 2.52
5351 7005 7.937700 ATCCCTTTTCAGGTGAGATATAGAA 57.062 36.000 0.00 0.00 38.79 2.10
5352 7006 7.937700 AATCCCTTTTCAGGTGAGATATAGA 57.062 36.000 0.00 0.00 38.79 1.98
5353 7007 8.213679 TGAAATCCCTTTTCAGGTGAGATATAG 58.786 37.037 0.00 0.00 46.80 1.31
5354 7008 8.101309 TGAAATCCCTTTTCAGGTGAGATATA 57.899 34.615 0.00 0.00 46.80 0.86
5355 7009 6.973642 TGAAATCCCTTTTCAGGTGAGATAT 58.026 36.000 0.00 0.00 46.80 1.63
5356 7010 6.387192 TGAAATCCCTTTTCAGGTGAGATA 57.613 37.500 0.00 0.00 46.80 1.98
5357 7011 5.261040 TGAAATCCCTTTTCAGGTGAGAT 57.739 39.130 0.00 0.00 46.80 2.75
5358 7012 4.722526 TGAAATCCCTTTTCAGGTGAGA 57.277 40.909 0.00 0.00 46.80 3.27
6175 8010 9.304731 CAAATGTCTGAAATGTCTGAAGAAAAA 57.695 29.630 0.00 0.00 33.95 1.94
6179 8014 5.474532 CCCAAATGTCTGAAATGTCTGAAGA 59.525 40.000 0.00 0.00 33.95 2.87
6180 8015 5.336213 CCCCAAATGTCTGAAATGTCTGAAG 60.336 44.000 0.00 0.00 33.95 3.02
6181 8016 4.523943 CCCCAAATGTCTGAAATGTCTGAA 59.476 41.667 0.00 0.00 33.95 3.02
6182 8017 4.081406 CCCCAAATGTCTGAAATGTCTGA 58.919 43.478 0.00 0.00 0.00 3.27
6183 8018 4.081406 TCCCCAAATGTCTGAAATGTCTG 58.919 43.478 0.00 0.00 0.00 3.51
6184 8019 4.202609 ACTCCCCAAATGTCTGAAATGTCT 60.203 41.667 0.00 0.00 0.00 3.41
6185 8020 4.082125 ACTCCCCAAATGTCTGAAATGTC 58.918 43.478 0.00 0.00 0.00 3.06
6186 8021 3.828451 CACTCCCCAAATGTCTGAAATGT 59.172 43.478 0.00 0.00 0.00 2.71
6187 8022 3.828451 ACACTCCCCAAATGTCTGAAATG 59.172 43.478 0.00 0.00 0.00 2.32
6425 8267 5.798132 TCATGCAACTCTCAAGTAACATCT 58.202 37.500 0.00 0.00 33.48 2.90
6567 8436 6.495872 TGTACTCCCGCTGTTCCTAAATATAT 59.504 38.462 0.00 0.00 0.00 0.86
6613 8482 4.536090 TCGCCTTGGATATTGGGAATAGAT 59.464 41.667 0.00 0.00 0.00 1.98
6622 8491 4.752101 CCTCTTACTTCGCCTTGGATATTG 59.248 45.833 0.00 0.00 0.00 1.90
6629 8498 0.902531 TCCCCTCTTACTTCGCCTTG 59.097 55.000 0.00 0.00 0.00 3.61
6699 8568 0.609131 ATTCCTGTTGAGTTGGGCCG 60.609 55.000 0.00 0.00 0.00 6.13
6701 8570 1.177401 GGATTCCTGTTGAGTTGGGC 58.823 55.000 0.00 0.00 0.00 5.36
6731 8600 2.370281 TCAAGGATGTCAAGCTCGTC 57.630 50.000 0.00 0.00 0.00 4.20
6734 8603 3.525537 TCGAATCAAGGATGTCAAGCTC 58.474 45.455 0.00 0.00 0.00 4.09
6742 8611 5.990386 AGACAATGATCTCGAATCAAGGATG 59.010 40.000 12.24 11.27 0.00 3.51
6744 8613 5.604758 AGACAATGATCTCGAATCAAGGA 57.395 39.130 12.24 0.00 0.00 3.36
6749 8618 5.292834 TGCTGAAAGACAATGATCTCGAATC 59.707 40.000 0.00 0.00 34.07 2.52
6826 8695 5.043737 ACTTGGCAGTTAACCTAGTGAAA 57.956 39.130 0.88 0.00 40.96 2.69
6845 8714 4.159879 CCCTCATAGACAGGACGTTTACTT 59.840 45.833 0.00 0.00 31.91 2.24
6856 8725 3.235200 CCTTAGGACCCCTCATAGACAG 58.765 54.545 0.00 0.00 34.61 3.51


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

AutoCloner maintained by Alex Coulton.