Multiple sequence alignment - TraesCS2B01G340200

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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 TraesCS2B01G340200 chr2B 100.000 3401 0 0 1 3401 485752411 485749011 0.000000e+00 6281.0
1 TraesCS2B01G340200 chr2B 94.687 847 40 4 2559 3401 106475056 106475901 0.000000e+00 1310.0
2 TraesCS2B01G340200 chr2D 92.047 2452 131 41 1 2415 412253490 412255914 0.000000e+00 3389.0
3 TraesCS2B01G340200 chr2D 83.406 229 18 10 1 216 8980689 8980468 9.630000e-46 195.0
4 TraesCS2B01G340200 chr2D 84.884 172 20 4 223 393 325808405 325808571 5.840000e-38 169.0
5 TraesCS2B01G340200 chr2D 89.706 136 9 2 2406 2537 412258721 412258855 5.840000e-38 169.0
6 TraesCS2B01G340200 chr2A 91.898 2123 105 33 398 2501 579582639 579584713 0.000000e+00 2905.0
7 TraesCS2B01G340200 chr2A 86.458 288 23 12 1 275 579582063 579582347 5.520000e-78 302.0
8 TraesCS2B01G340200 chr2A 96.078 51 0 2 2494 2543 579599966 579600015 7.820000e-12 82.4
9 TraesCS2B01G340200 chr7D 91.637 837 63 4 2572 3401 427943879 427943043 0.000000e+00 1151.0
10 TraesCS2B01G340200 chr7D 85.333 225 24 6 1 216 22673561 22673337 1.230000e-54 224.0
11 TraesCS2B01G340200 chr3D 91.449 842 63 5 2568 3401 512988392 512987552 0.000000e+00 1147.0
12 TraesCS2B01G340200 chr3D 85.326 736 94 8 2679 3401 526981965 526982699 0.000000e+00 749.0
13 TraesCS2B01G340200 chr3D 80.112 890 150 26 1139 2012 505066290 505065412 3.700000e-179 638.0
14 TraesCS2B01G340200 chr3D 83.815 173 21 5 223 393 580990260 580990093 1.260000e-34 158.0
15 TraesCS2B01G340200 chr6D 88.585 841 74 10 2568 3401 83022703 83023528 0.000000e+00 1002.0
16 TraesCS2B01G340200 chr6D 80.116 865 129 33 1157 2001 431470622 431469781 3.750000e-169 604.0
17 TraesCS2B01G340200 chr5B 90.885 746 62 4 2567 3307 617262516 617263260 0.000000e+00 996.0
18 TraesCS2B01G340200 chr5B 84.706 850 109 16 2566 3401 61705905 61706747 0.000000e+00 830.0
19 TraesCS2B01G340200 chr5A 84.080 848 118 13 2566 3401 2614099 2614941 0.000000e+00 802.0
20 TraesCS2B01G340200 chr1D 85.034 735 96 8 2679 3401 83719432 83718700 0.000000e+00 736.0
21 TraesCS2B01G340200 chr3B 81.094 841 143 15 1139 1971 666791768 666790936 0.000000e+00 658.0
22 TraesCS2B01G340200 chr3B 89.062 128 12 2 223 348 777656737 777656864 1.260000e-34 158.0
23 TraesCS2B01G340200 chr3B 79.832 119 22 2 231 348 563324951 563324834 6.050000e-13 86.1
24 TraesCS2B01G340200 chr3A 80.139 861 154 16 1133 1985 643210698 643209847 8.010000e-176 627.0
25 TraesCS2B01G340200 chr6B 80.097 829 126 31 1161 1971 651423126 651423933 6.330000e-162 580.0
26 TraesCS2B01G340200 chrUn 79.543 831 136 26 1161 1974 74559359 74558546 2.290000e-156 562.0
27 TraesCS2B01G340200 chr6A 81.857 237 21 14 1 216 82104950 82105185 2.700000e-41 180.0
28 TraesCS2B01G340200 chr6A 81.522 184 23 9 213 393 109783943 109783768 1.270000e-29 141.0
29 TraesCS2B01G340200 chr7A 85.156 128 17 2 223 348 40281970 40282097 2.750000e-26 130.0
30 TraesCS2B01G340200 chr7A 83.051 118 18 2 213 329 262846082 262846198 4.640000e-19 106.0
31 TraesCS2B01G340200 chr4A 81.132 159 24 6 223 376 646899553 646899710 4.610000e-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 TraesCS2B01G340200 chr2B 485749011 485752411 3400 True 6281.0 6281 100.0000 1 3401 1 chr2B.!!$R1 3400
1 TraesCS2B01G340200 chr2B 106475056 106475901 845 False 1310.0 1310 94.6870 2559 3401 1 chr2B.!!$F1 842
2 TraesCS2B01G340200 chr2D 412253490 412258855 5365 False 1779.0 3389 90.8765 1 2537 2 chr2D.!!$F2 2536
3 TraesCS2B01G340200 chr2A 579582063 579584713 2650 False 1603.5 2905 89.1780 1 2501 2 chr2A.!!$F2 2500
4 TraesCS2B01G340200 chr7D 427943043 427943879 836 True 1151.0 1151 91.6370 2572 3401 1 chr7D.!!$R2 829
5 TraesCS2B01G340200 chr3D 512987552 512988392 840 True 1147.0 1147 91.4490 2568 3401 1 chr3D.!!$R2 833
6 TraesCS2B01G340200 chr3D 526981965 526982699 734 False 749.0 749 85.3260 2679 3401 1 chr3D.!!$F1 722
7 TraesCS2B01G340200 chr3D 505065412 505066290 878 True 638.0 638 80.1120 1139 2012 1 chr3D.!!$R1 873
8 TraesCS2B01G340200 chr6D 83022703 83023528 825 False 1002.0 1002 88.5850 2568 3401 1 chr6D.!!$F1 833
9 TraesCS2B01G340200 chr6D 431469781 431470622 841 True 604.0 604 80.1160 1157 2001 1 chr6D.!!$R1 844
10 TraesCS2B01G340200 chr5B 617262516 617263260 744 False 996.0 996 90.8850 2567 3307 1 chr5B.!!$F2 740
11 TraesCS2B01G340200 chr5B 61705905 61706747 842 False 830.0 830 84.7060 2566 3401 1 chr5B.!!$F1 835
12 TraesCS2B01G340200 chr5A 2614099 2614941 842 False 802.0 802 84.0800 2566 3401 1 chr5A.!!$F1 835
13 TraesCS2B01G340200 chr1D 83718700 83719432 732 True 736.0 736 85.0340 2679 3401 1 chr1D.!!$R1 722
14 TraesCS2B01G340200 chr3B 666790936 666791768 832 True 658.0 658 81.0940 1139 1971 1 chr3B.!!$R2 832
15 TraesCS2B01G340200 chr3A 643209847 643210698 851 True 627.0 627 80.1390 1133 1985 1 chr3A.!!$R1 852
16 TraesCS2B01G340200 chr6B 651423126 651423933 807 False 580.0 580 80.0970 1161 1971 1 chr6B.!!$F1 810
17 TraesCS2B01G340200 chrUn 74558546 74559359 813 True 562.0 562 79.5430 1161 1974 1 chrUn.!!$R1 813

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
407 599 0.038892 CACGGCTGCAAAAAGAGCAT 60.039 50.0 0.50 0.00 41.82 3.79 F
408 600 0.038892 ACGGCTGCAAAAAGAGCATG 60.039 50.0 0.50 0.00 41.82 4.06 F
989 1208 0.256752 TACACCCGTAGCAGCTAGGA 59.743 55.0 21.43 0.48 0.00 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2065 2342 0.246635 CTGTCGACATTTCCTCCCGT 59.753 55.0 20.40 0.0 0.00 5.28 R
2208 2485 0.898320 CCACGTCCTTGATCTCCTGT 59.102 55.0 0.00 0.0 0.00 4.00 R
2543 5640 0.030369 CACGATACGTAGACCTGCCC 59.970 60.0 0.08 0.0 38.32 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
47 49 3.972227 GCACTGTGCAGACCGAAT 58.028 55.556 26.70 0.00 44.26 3.34
48 50 2.247790 GCACTGTGCAGACCGAATT 58.752 52.632 26.70 0.00 44.26 2.17
49 51 1.438651 GCACTGTGCAGACCGAATTA 58.561 50.000 26.70 0.00 44.26 1.40
55 57 5.569059 CACTGTGCAGACCGAATTATTTTTC 59.431 40.000 6.17 0.00 0.00 2.29
84 86 2.032799 GCTCGTGAAATGTCCAAACACA 59.967 45.455 0.00 0.00 38.48 3.72
200 204 1.365633 CGGGAGTAGATGAGCCTGC 59.634 63.158 0.00 0.00 0.00 4.85
201 205 1.395045 CGGGAGTAGATGAGCCTGCA 61.395 60.000 0.00 0.00 0.00 4.41
202 206 0.392336 GGGAGTAGATGAGCCTGCAG 59.608 60.000 6.78 6.78 0.00 4.41
216 220 2.922335 GCCTGCAGACCGTTTTGAATTC 60.922 50.000 17.39 0.00 0.00 2.17
218 222 3.751175 CCTGCAGACCGTTTTGAATTCTA 59.249 43.478 17.39 0.00 0.00 2.10
219 223 4.396166 CCTGCAGACCGTTTTGAATTCTAT 59.604 41.667 17.39 0.00 0.00 1.98
251 264 9.936759 TTCTGAACCAATTCCATTTAATTTACC 57.063 29.630 0.00 0.00 33.49 2.85
351 365 6.992063 ATGGACAGATAAATCACAAGTGAC 57.008 37.500 4.84 0.00 43.11 3.67
352 366 5.863965 TGGACAGATAAATCACAAGTGACA 58.136 37.500 4.84 0.00 43.11 3.58
353 367 6.475504 TGGACAGATAAATCACAAGTGACAT 58.524 36.000 4.84 0.25 43.11 3.06
354 368 7.619965 TGGACAGATAAATCACAAGTGACATA 58.380 34.615 4.84 2.52 43.11 2.29
355 369 7.549134 TGGACAGATAAATCACAAGTGACATAC 59.451 37.037 4.84 0.00 43.11 2.39
356 370 7.766278 GGACAGATAAATCACAAGTGACATACT 59.234 37.037 4.84 0.00 43.11 2.12
357 371 9.803315 GACAGATAAATCACAAGTGACATACTA 57.197 33.333 4.84 0.00 43.11 1.82
402 594 1.067916 AAGGCACGGCTGCAAAAAG 59.932 52.632 0.50 0.00 46.28 2.27
405 597 2.018324 GCACGGCTGCAAAAAGAGC 61.018 57.895 0.50 0.00 43.62 4.09
407 599 0.038892 CACGGCTGCAAAAAGAGCAT 60.039 50.000 0.50 0.00 41.82 3.79
408 600 0.038892 ACGGCTGCAAAAAGAGCATG 60.039 50.000 0.50 0.00 41.82 4.06
410 602 1.706443 GGCTGCAAAAAGAGCATGAC 58.294 50.000 0.50 0.00 41.82 3.06
416 620 5.406175 GCTGCAAAAAGAGCATGACATAAAA 59.594 36.000 0.00 0.00 41.82 1.52
437 641 3.477210 AAGAGACAACCTTTCTTCGCT 57.523 42.857 0.00 0.00 0.00 4.93
502 708 7.542025 GCATTTATTGAATTCAGTGTCTCCTT 58.458 34.615 13.30 0.00 0.00 3.36
653 859 1.133668 ACAGCTGGGATATTTGGCTCC 60.134 52.381 19.93 0.00 0.00 4.70
656 862 2.158549 AGCTGGGATATTTGGCTCCTTC 60.159 50.000 0.00 0.00 0.00 3.46
669 876 2.205911 GCTCCTTCCGCATAAGAACTC 58.794 52.381 0.00 0.00 0.00 3.01
723 930 9.836076 GTATTAAACTAATGTTTCCTGGTGAAC 57.164 33.333 8.19 8.19 44.35 3.18
763 980 6.002704 ACATGCATCTTCTTCTTCTCACTTT 58.997 36.000 0.00 0.00 0.00 2.66
782 999 2.118228 TCATGTTTTGCTGCGTGTTC 57.882 45.000 0.00 0.00 0.00 3.18
789 1006 2.722188 GCTGCGTGTTCGTGTTGC 60.722 61.111 0.00 0.00 39.49 4.17
884 1103 0.463654 TCAAGATACCGCCATGCACC 60.464 55.000 0.00 0.00 0.00 5.01
916 1135 1.591863 GTTCGCATCCCTAGACGGC 60.592 63.158 0.00 0.00 0.00 5.68
988 1207 0.669077 CTACACCCGTAGCAGCTAGG 59.331 60.000 14.24 14.24 38.84 3.02
989 1208 0.256752 TACACCCGTAGCAGCTAGGA 59.743 55.000 21.43 0.48 0.00 2.94
990 1209 1.038130 ACACCCGTAGCAGCTAGGAG 61.038 60.000 21.43 12.32 0.00 3.69
991 1210 1.038130 CACCCGTAGCAGCTAGGAGT 61.038 60.000 21.43 12.97 0.00 3.85
992 1211 0.549950 ACCCGTAGCAGCTAGGAGTA 59.450 55.000 21.43 0.00 0.00 2.59
1089 1317 2.852075 AAGACCAAGGCCGACCCA 60.852 61.111 0.00 0.00 36.11 4.51
1131 1359 4.135153 CCGGACCTGCAGGACGAG 62.135 72.222 37.52 28.13 39.86 4.18
1971 2242 4.847516 CGGATCACGCCGCTCGAA 62.848 66.667 0.00 0.00 45.38 3.71
2065 2342 1.301716 GAGGTTGGCAACGAGAGCA 60.302 57.895 22.95 0.00 42.51 4.26
2089 2366 0.321653 AGGAAATGTCGACAGTGGCC 60.322 55.000 24.41 23.58 0.00 5.36
2193 2470 1.449246 CTACAGCTGTCTGCAGGGC 60.449 63.158 25.56 15.49 44.10 5.19
2208 2485 4.980805 GGCACAGACGGCGGTGAA 62.981 66.667 26.43 0.00 41.89 3.18
2256 2533 0.543749 GTGGGGAGCAGAGCAATACT 59.456 55.000 0.00 0.00 0.00 2.12
2259 2536 1.475930 GGGGAGCAGAGCAATACTTCC 60.476 57.143 0.00 0.00 0.00 3.46
2319 2596 3.678072 ACGATGACATGTTCGACGATTTT 59.322 39.130 23.06 0.00 38.67 1.82
2549 5646 7.654022 TTTTGAATAAGTTATAAGGGGCAGG 57.346 36.000 0.00 0.00 0.00 4.85
2550 5647 5.987019 TGAATAAGTTATAAGGGGCAGGT 57.013 39.130 0.00 0.00 0.00 4.00
2551 5648 5.937111 TGAATAAGTTATAAGGGGCAGGTC 58.063 41.667 0.00 0.00 0.00 3.85
2552 5649 5.670361 TGAATAAGTTATAAGGGGCAGGTCT 59.330 40.000 0.00 0.00 0.00 3.85
2553 5650 6.847567 TGAATAAGTTATAAGGGGCAGGTCTA 59.152 38.462 0.00 0.00 0.00 2.59
2554 5651 6.683312 ATAAGTTATAAGGGGCAGGTCTAC 57.317 41.667 0.00 0.00 0.00 2.59
2555 5652 2.963782 AGTTATAAGGGGCAGGTCTACG 59.036 50.000 0.00 0.00 0.00 3.51
2556 5653 2.697229 GTTATAAGGGGCAGGTCTACGT 59.303 50.000 0.00 0.00 0.00 3.57
2557 5654 2.761786 ATAAGGGGCAGGTCTACGTA 57.238 50.000 0.00 0.00 0.00 3.57
2561 5658 1.105759 GGGGCAGGTCTACGTATCGT 61.106 60.000 0.00 0.00 44.35 3.73
2564 5661 1.402968 GGCAGGTCTACGTATCGTGAA 59.597 52.381 18.14 0.00 41.39 3.18
2611 5708 4.890158 TTGTCTCCTTGTGCTGATTAGA 57.110 40.909 0.00 0.00 0.00 2.10
2670 5767 2.607635 AGCCAACGAACATGCGTATTAG 59.392 45.455 0.00 0.00 44.86 1.73
2706 5803 1.464997 CCGCTGTGCCTTCTTTTACTC 59.535 52.381 0.00 0.00 0.00 2.59
2843 5940 4.493708 CGACGTGCTCTTCGAAACTAGATA 60.494 45.833 8.80 0.00 37.49 1.98
2893 5999 5.626142 TGTGCAACTTAGTCCCTCATTTTA 58.374 37.500 0.00 0.00 38.04 1.52
2895 6001 7.398829 TGTGCAACTTAGTCCCTCATTTTATA 58.601 34.615 0.00 0.00 38.04 0.98
2952 6059 0.109597 GATGTGCAACTTTCCGCCTG 60.110 55.000 0.00 0.00 38.04 4.85
3041 6150 3.254060 GCAACTTCGTCTATTGCTCAGA 58.746 45.455 1.06 0.00 44.26 3.27
3042 6151 3.305629 GCAACTTCGTCTATTGCTCAGAG 59.694 47.826 1.06 0.00 44.26 3.35
3116 6227 1.006337 GTTTGCTGCATCCGCCAAA 60.006 52.632 1.84 0.00 37.32 3.28
3331 6448 4.567747 GGAACACCATCCAACTATCCTTGT 60.568 45.833 0.00 0.00 39.42 3.16
3393 6510 4.627611 CATAGCAAGCTATGTGCAACTT 57.372 40.909 26.25 0.00 46.41 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 40 5.086058 CGTGGTGAAAAATAATTCGGTCTG 58.914 41.667 0.00 0.00 31.80 3.51
46 48 4.600012 CGAGCTCGTGGTGAAAAATAAT 57.400 40.909 27.79 0.00 34.11 1.28
84 86 3.110447 AGGTGCGTGCAAAATTTCAAT 57.890 38.095 0.00 0.00 0.00 2.57
159 161 9.158233 CCCGTGAACAGTAATTCTAAAAGATAA 57.842 33.333 0.00 0.00 0.00 1.75
163 166 6.649557 ACTCCCGTGAACAGTAATTCTAAAAG 59.350 38.462 0.00 0.00 0.00 2.27
168 171 5.014858 TCTACTCCCGTGAACAGTAATTCT 58.985 41.667 0.00 0.00 0.00 2.40
169 172 5.320549 TCTACTCCCGTGAACAGTAATTC 57.679 43.478 0.00 0.00 0.00 2.17
171 174 4.954202 TCATCTACTCCCGTGAACAGTAAT 59.046 41.667 0.00 0.00 0.00 1.89
188 192 0.684479 ACGGTCTGCAGGCTCATCTA 60.684 55.000 19.48 0.00 0.00 1.98
200 204 8.040716 AGGTTAATAGAATTCAAAACGGTCTG 57.959 34.615 8.44 0.00 0.00 3.51
201 205 8.631480 AAGGTTAATAGAATTCAAAACGGTCT 57.369 30.769 8.44 0.00 0.00 3.85
202 206 8.727910 AGAAGGTTAATAGAATTCAAAACGGTC 58.272 33.333 8.44 6.86 0.00 4.79
216 220 7.938140 TGGAATTGGTTCAGAAGGTTAATAG 57.062 36.000 0.00 0.00 36.01 1.73
218 222 7.797121 AATGGAATTGGTTCAGAAGGTTAAT 57.203 32.000 0.00 0.00 33.44 1.40
219 223 7.610580 AAATGGAATTGGTTCAGAAGGTTAA 57.389 32.000 0.00 0.00 36.10 2.01
364 555 8.143835 GTGCCTTGCAACTCCATATAAATATTT 58.856 33.333 5.89 5.89 41.47 1.40
376 567 4.043200 GCCGTGCCTTGCAACTCC 62.043 66.667 0.00 0.00 41.47 3.85
377 568 2.980233 AGCCGTGCCTTGCAACTC 60.980 61.111 0.00 0.00 41.47 3.01
416 620 3.561725 CAGCGAAGAAAGGTTGTCTCTTT 59.438 43.478 0.00 0.00 37.18 2.52
425 629 3.933861 AATATCCCAGCGAAGAAAGGT 57.066 42.857 0.00 0.00 0.00 3.50
453 659 1.137513 CCGGACGAGTTTGTCAGTTC 58.862 55.000 0.00 0.00 40.72 3.01
502 708 4.929211 CACTGAATTTCGTGTCACCATCTA 59.071 41.667 0.00 0.00 0.00 1.98
523 729 6.567050 TGACTTTTCATATAGTCGGTACCAC 58.433 40.000 13.54 9.39 42.88 4.16
653 859 5.277825 CACTAGAGAGTTCTTATGCGGAAG 58.722 45.833 0.00 0.00 34.79 3.46
656 862 3.181486 TGCACTAGAGAGTTCTTATGCGG 60.181 47.826 0.00 0.00 42.01 5.69
699 906 8.576442 CTGTTCACCAGGAAACATTAGTTTAAT 58.424 33.333 11.16 0.00 40.57 1.40
723 930 0.174389 ATGTACGTCAGCTCAGCCTG 59.826 55.000 0.00 0.00 0.00 4.85
731 938 2.544685 AGAAGATGCATGTACGTCAGC 58.455 47.619 2.46 0.00 0.00 4.26
763 980 1.596709 CGAACACGCAGCAAAACATGA 60.597 47.619 0.00 0.00 0.00 3.07
782 999 1.572085 CTCTTCCAGCAGGCAACACG 61.572 60.000 0.00 0.00 41.41 4.49
789 1006 2.557920 AGTTGTTCTCTTCCAGCAGG 57.442 50.000 0.00 0.00 0.00 4.85
899 1118 2.792947 GGCCGTCTAGGGATGCGAA 61.793 63.158 0.00 0.00 41.48 4.70
916 1135 4.874966 CAGAAGAATGTAGAAGAAGGCTGG 59.125 45.833 0.00 0.00 0.00 4.85
987 1206 3.835810 TCCCATAGGGACGTACTCC 57.164 57.895 0.00 0.00 46.17 3.85
1089 1317 3.673484 GCAACAGCCACGGCATGT 61.673 61.111 11.35 8.88 44.88 3.21
1131 1359 1.587933 AACCTGACTCGGACTCGCTC 61.588 60.000 0.00 0.00 36.13 5.03
1689 1960 3.947041 AGGCCCCACCAGACCTCT 61.947 66.667 0.00 0.00 43.14 3.69
1752 2023 0.969894 CCTTCTTCAGGTCGTGAGGT 59.030 55.000 4.78 0.00 37.99 3.85
1979 2250 3.867226 TTGTCGTCGTCGTCGCCTG 62.867 63.158 7.01 0.00 38.33 4.85
1980 2251 3.590443 CTTGTCGTCGTCGTCGCCT 62.590 63.158 7.01 0.00 38.33 5.52
1982 2253 3.164011 CCTTGTCGTCGTCGTCGC 61.164 66.667 7.01 3.63 38.33 5.19
2052 2329 4.680237 CCCGTGCTCTCGTTGCCA 62.680 66.667 0.00 0.00 0.00 4.92
2065 2342 0.246635 CTGTCGACATTTCCTCCCGT 59.753 55.000 20.40 0.00 0.00 5.28
2193 2470 2.279851 TGTTCACCGCCGTCTGTG 60.280 61.111 0.00 0.00 0.00 3.66
2202 2479 1.550524 TCCTTGATCTCCTGTTCACCG 59.449 52.381 0.00 0.00 0.00 4.94
2208 2485 0.898320 CCACGTCCTTGATCTCCTGT 59.102 55.000 0.00 0.00 0.00 4.00
2256 2533 2.650116 GCCGGTCTCAGCAGAGGAA 61.650 63.158 1.90 0.00 42.34 3.36
2259 2536 2.407428 TACGCCGGTCTCAGCAGAG 61.407 63.158 1.90 0.00 43.48 3.35
2297 2574 2.561733 ATCGTCGAACATGTCATCGT 57.438 45.000 17.09 0.00 39.91 3.73
2415 2692 3.893200 TCCACCTCGTCTTGAGTAAGAAA 59.107 43.478 0.00 0.00 44.12 2.52
2417 2694 3.150458 TCCACCTCGTCTTGAGTAAGA 57.850 47.619 0.00 0.00 43.64 2.10
2418 2695 4.457834 AATCCACCTCGTCTTGAGTAAG 57.542 45.455 0.00 0.00 43.64 2.34
2421 2698 3.133003 CCATAATCCACCTCGTCTTGAGT 59.867 47.826 0.00 0.00 43.64 3.41
2422 2699 3.384789 TCCATAATCCACCTCGTCTTGAG 59.615 47.826 0.00 0.00 44.83 3.02
2432 5529 8.540388 ACATATATACACACTCCATAATCCACC 58.460 37.037 0.00 0.00 0.00 4.61
2537 5634 2.761786 ACGTAGACCTGCCCCTTATA 57.238 50.000 0.00 0.00 0.00 0.98
2538 5635 2.761786 TACGTAGACCTGCCCCTTAT 57.238 50.000 0.00 0.00 0.00 1.73
2539 5636 2.590821 GATACGTAGACCTGCCCCTTA 58.409 52.381 0.08 0.00 0.00 2.69
2540 5637 1.411041 GATACGTAGACCTGCCCCTT 58.589 55.000 0.08 0.00 0.00 3.95
2541 5638 0.822532 CGATACGTAGACCTGCCCCT 60.823 60.000 0.08 0.00 0.00 4.79
2542 5639 1.105759 ACGATACGTAGACCTGCCCC 61.106 60.000 0.08 0.00 38.73 5.80
2543 5640 0.030369 CACGATACGTAGACCTGCCC 59.970 60.000 0.08 0.00 38.32 5.36
2544 5641 1.019673 TCACGATACGTAGACCTGCC 58.980 55.000 0.08 0.00 38.32 4.85
2545 5642 2.448219 GTTCACGATACGTAGACCTGC 58.552 52.381 0.08 0.00 38.32 4.85
2546 5643 2.538333 CCGTTCACGATACGTAGACCTG 60.538 54.545 0.08 0.00 43.02 4.00
2547 5644 1.667724 CCGTTCACGATACGTAGACCT 59.332 52.381 0.08 0.00 43.02 3.85
2548 5645 1.857602 GCCGTTCACGATACGTAGACC 60.858 57.143 0.08 0.00 43.02 3.85
2549 5646 1.460766 GCCGTTCACGATACGTAGAC 58.539 55.000 0.08 0.00 43.02 2.59
2550 5647 0.378257 GGCCGTTCACGATACGTAGA 59.622 55.000 0.08 0.00 43.02 2.59
2551 5648 0.927083 CGGCCGTTCACGATACGTAG 60.927 60.000 19.50 0.00 43.02 3.51
2552 5649 1.062365 CGGCCGTTCACGATACGTA 59.938 57.895 19.50 0.00 43.02 3.57
2553 5650 2.202518 CGGCCGTTCACGATACGT 60.203 61.111 19.50 0.00 43.02 3.57
2554 5651 2.321668 TACCGGCCGTTCACGATACG 62.322 60.000 26.12 6.79 43.02 3.06
2555 5652 0.179140 TTACCGGCCGTTCACGATAC 60.179 55.000 26.12 0.00 43.02 2.24
2556 5653 0.746063 ATTACCGGCCGTTCACGATA 59.254 50.000 26.12 1.53 43.02 2.92
2557 5654 0.108041 AATTACCGGCCGTTCACGAT 60.108 50.000 26.12 6.14 43.02 3.73
2561 5658 4.669206 TCTATAAATTACCGGCCGTTCA 57.331 40.909 26.12 0.06 0.00 3.18
2564 5661 4.812626 CACTTTCTATAAATTACCGGCCGT 59.187 41.667 26.12 14.84 0.00 5.68
2595 5692 6.375455 GGAATCTTTTCTAATCAGCACAAGGA 59.625 38.462 0.00 0.00 32.16 3.36
2611 5708 9.579932 AACTAGTTGAAATCAGAGGAATCTTTT 57.420 29.630 7.48 0.00 0.00 2.27
2670 5767 0.520404 GCGGATGCATGTGGATCATC 59.480 55.000 2.46 0.00 43.56 2.92
2893 5999 5.344066 CACATCGCTTCTAGTCAGTTGTAT 58.656 41.667 0.00 0.00 0.00 2.29
2895 6001 3.579709 CACATCGCTTCTAGTCAGTTGT 58.420 45.455 0.00 0.00 0.00 3.32
2952 6059 4.722700 ACTGCATGTCCACGGGGC 62.723 66.667 0.00 0.00 0.00 5.80
3116 6227 4.651503 AGTTGCACATCTACTGCTAGGTAT 59.348 41.667 0.00 0.00 35.53 2.73
3331 6448 2.224042 ACGAAGTTGCACATCTCACAGA 60.224 45.455 0.00 0.00 37.78 3.41


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

AutoCloner maintained by Alex Coulton.