Multiple sequence alignment - TraesCS6B01G459700

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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 TraesCS6B01G459700 chr6B 100.000 5253 0 0 1 5253 713942757 713948009 0.000000e+00 9701
1 TraesCS6B01G459700 chr6B 97.050 4271 101 11 1006 5253 713458566 713462834 0.000000e+00 7166
2 TraesCS6B01G459700 chr6B 91.629 2855 210 13 2413 5253 713907794 713910633 0.000000e+00 3921
3 TraesCS6B01G459700 chr6B 82.762 2889 377 71 2430 5253 713498067 713500899 0.000000e+00 2464
4 TraesCS6B01G459700 chr6B 88.490 1781 166 14 3489 5253 713771105 713772862 0.000000e+00 2117
5 TraesCS6B01G459700 chr6B 88.037 1814 179 22 3457 5253 713679908 713681700 0.000000e+00 2113
6 TraesCS6B01G459700 chr6B 93.433 1401 88 2 3853 5253 713358642 713360038 0.000000e+00 2074
7 TraesCS6B01G459700 chr6B 91.145 1502 128 4 3756 5253 713825978 713827478 0.000000e+00 2032
8 TraesCS6B01G459700 chr6B 86.948 1471 152 20 973 2413 713905910 713907370 0.000000e+00 1616
9 TraesCS6B01G459700 chr6B 82.242 1436 216 26 2444 3855 713345516 713346936 0.000000e+00 1203
10 TraesCS6B01G459700 chr6B 84.533 1125 151 14 1099 2211 713755381 713756494 0.000000e+00 1092
11 TraesCS6B01G459700 chr6B 83.764 1121 158 14 1099 2211 713669096 713670200 0.000000e+00 1040
12 TraesCS6B01G459700 chr6B 83.151 1098 160 11 1114 2202 713822645 713823726 0.000000e+00 979
13 TraesCS6B01G459700 chr6B 77.765 1700 282 65 773 2415 713767690 713769350 0.000000e+00 957
14 TraesCS6B01G459700 chr6B 85.844 883 62 25 1 840 713456370 713457232 0.000000e+00 880
15 TraesCS6B01G459700 chr6B 84.156 871 119 10 1349 2207 713496458 713497321 0.000000e+00 826
16 TraesCS6B01G459700 chr6B 81.063 1072 145 30 2431 3485 713770043 713771073 0.000000e+00 802
17 TraesCS6B01G459700 chr6B 76.940 928 162 24 2434 3328 713677437 713678345 1.020000e-131 481
18 TraesCS6B01G459700 chr6B 87.500 280 35 0 1128 1407 713496182 713496461 1.820000e-84 324
19 TraesCS6B01G459700 chr6B 84.643 280 27 9 668 938 713905506 713905778 1.120000e-66 265
20 TraesCS6B01G459700 chr6B 80.645 279 22 13 663 938 713668613 713668862 2.500000e-43 187
21 TraesCS6B01G459700 chr6B 82.969 229 18 10 663 881 713822103 713822320 2.500000e-43 187
22 TraesCS6B01G459700 chr6B 84.706 170 15 5 773 938 713751054 713751216 5.440000e-35 159
23 TraesCS6B01G459700 chr6B 90.526 95 8 1 834 928 713458200 713458293 1.990000e-24 124
24 TraesCS6B01G459700 chr6D 83.420 2871 369 47 2434 5253 467858004 467860818 0.000000e+00 2566
25 TraesCS6B01G459700 chr6D 81.981 1343 188 34 1090 2412 467855985 467857293 0.000000e+00 1090
26 TraesCS6B01G459700 chr6D 78.814 354 29 19 663 982 467855467 467855808 4.150000e-46 196
27 TraesCS6B01G459700 chr6A 94.360 1454 79 1 3803 5253 613974728 613976181 0.000000e+00 2228
28 TraesCS6B01G459700 chr6A 92.241 1379 85 11 2444 3807 613973143 613974514 0.000000e+00 1934
29 TraesCS6B01G459700 chr6A 87.077 1478 147 17 973 2413 613969380 613970850 0.000000e+00 1631
30 TraesCS6B01G459700 chr6A 85.017 287 24 8 663 938 613968973 613969251 1.860000e-69 274
31 TraesCS6B01G459700 chr2D 90.123 162 14 2 257 417 393072428 393072268 5.330000e-50 209
32 TraesCS6B01G459700 chr2D 88.199 161 16 3 257 416 155616113 155616271 6.940000e-44 189
33 TraesCS6B01G459700 chr3A 88.272 162 17 2 257 417 645094472 645094632 5.370000e-45 193
34 TraesCS6B01G459700 chr3A 88.125 160 17 2 258 416 214481511 214481353 6.940000e-44 189
35 TraesCS6B01G459700 chr5D 88.199 161 17 2 257 416 383858821 383858662 1.930000e-44 191
36 TraesCS6B01G459700 chr1D 88.199 161 17 2 257 416 241632120 241631961 1.930000e-44 191
37 TraesCS6B01G459700 chr7D 88.125 160 17 2 257 415 448510631 448510473 6.940000e-44 189
38 TraesCS6B01G459700 chr4D 83.908 174 24 3 85 255 481886366 481886194 4.210000e-36 163


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 TraesCS6B01G459700 chr6B 713942757 713948009 5252 False 9701.000000 9701 100.000000 1 5253 1 chr6B.!!$F5 5252
1 TraesCS6B01G459700 chr6B 713456370 713462834 6464 False 2723.333333 7166 91.140000 1 5253 3 chr6B.!!$F6 5252
2 TraesCS6B01G459700 chr6B 713358642 713360038 1396 False 2074.000000 2074 93.433000 3853 5253 1 chr6B.!!$F2 1400
3 TraesCS6B01G459700 chr6B 713905506 713910633 5127 False 1934.000000 3921 87.740000 668 5253 3 chr6B.!!$F12 4585
4 TraesCS6B01G459700 chr6B 713677437 713681700 4263 False 1297.000000 2113 82.488500 2434 5253 2 chr6B.!!$F9 2819
5 TraesCS6B01G459700 chr6B 713767690 713772862 5172 False 1292.000000 2117 82.439333 773 5253 3 chr6B.!!$F10 4480
6 TraesCS6B01G459700 chr6B 713496182 713500899 4717 False 1204.666667 2464 84.806000 1128 5253 3 chr6B.!!$F7 4125
7 TraesCS6B01G459700 chr6B 713345516 713346936 1420 False 1203.000000 1203 82.242000 2444 3855 1 chr6B.!!$F1 1411
8 TraesCS6B01G459700 chr6B 713755381 713756494 1113 False 1092.000000 1092 84.533000 1099 2211 1 chr6B.!!$F4 1112
9 TraesCS6B01G459700 chr6B 713822103 713827478 5375 False 1066.000000 2032 85.755000 663 5253 3 chr6B.!!$F11 4590
10 TraesCS6B01G459700 chr6B 713668613 713670200 1587 False 613.500000 1040 82.204500 663 2211 2 chr6B.!!$F8 1548
11 TraesCS6B01G459700 chr6D 467855467 467860818 5351 False 1284.000000 2566 81.405000 663 5253 3 chr6D.!!$F1 4590
12 TraesCS6B01G459700 chr6A 613968973 613976181 7208 False 1516.750000 2228 89.673750 663 5253 4 chr6A.!!$F1 4590

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
584 602 0.038618 TCGATGTTGACACCGTGGAG 60.039 55.0 3.03 0.0 0.00 3.86 F
822 917 0.250295 GTAGTTCCCTGCACTGCACA 60.250 55.0 0.00 0.0 33.79 4.57 F
823 918 0.250295 TAGTTCCCTGCACTGCACAC 60.250 55.0 0.00 0.0 33.79 3.82 F
2612 6973 0.686789 CCCTTTCCTTTTGGGCTTGG 59.313 55.0 0.00 0.0 40.87 3.61 F
2974 7356 0.250234 TAGCGCTTGCATTCCTGTCT 59.750 50.0 18.68 0.0 42.66 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2316 3780 2.548480 GGGCGAGAATACAATTAGTGCC 59.452 50.000 0.00 0.0 39.21 5.01 R
2798 7180 2.038952 TCTATTTCCATGCTCCCATCGG 59.961 50.000 0.00 0.0 0.00 4.18 R
2856 7238 4.869861 CACCACATCTTCATGTCGTATTCA 59.130 41.667 0.00 0.0 41.69 2.57 R
3692 9608 4.142643 CCAAAATGTTGCATTGGCCATTAC 60.143 41.667 6.09 0.0 37.40 1.89 R
4744 10926 0.600255 ACCTCGAAGCACCAAAGTCG 60.600 55.000 0.00 0.0 34.85 4.18 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
109 110 7.749126 GTGAACTTACATTTCACGATAAAAGGG 59.251 37.037 0.00 0.00 42.48 3.95
157 158 3.914312 ACCATCCGATACATTTAGCTCG 58.086 45.455 0.00 0.00 0.00 5.03
179 180 1.659794 GGTCCGCAGCACAAACAAT 59.340 52.632 0.00 0.00 0.00 2.71
180 181 0.387239 GGTCCGCAGCACAAACAATC 60.387 55.000 0.00 0.00 0.00 2.67
227 228 0.388520 GAGAAACAAATGCCGCCACC 60.389 55.000 0.00 0.00 0.00 4.61
229 230 2.136196 GAAACAAATGCCGCCACCGA 62.136 55.000 0.00 0.00 36.29 4.69
247 248 1.719246 CGACAGATCAACGAAGCGAAA 59.281 47.619 0.00 0.00 0.00 3.46
250 251 4.133856 ACAGATCAACGAAGCGAAAAAG 57.866 40.909 0.00 0.00 0.00 2.27
326 328 2.733552 CCGCTAAGAATCCGATGACATG 59.266 50.000 0.00 0.00 0.00 3.21
388 406 3.926821 TGACGTAGAACTATGTGCACA 57.073 42.857 24.08 24.08 35.59 4.57
408 426 3.754323 ACACTCTCTAAACCGAGACTGAG 59.246 47.826 0.00 0.00 35.23 3.35
440 458 9.023962 AGTGTATGGCAGAAAATGAGAATAAAA 57.976 29.630 0.00 0.00 0.00 1.52
442 460 9.806203 TGTATGGCAGAAAATGAGAATAAAATG 57.194 29.630 0.00 0.00 0.00 2.32
509 527 2.813179 GCGGCAAGGTAGCATCACG 61.813 63.158 0.00 0.00 35.83 4.35
512 530 2.813179 GCAAGGTAGCATCACGGCG 61.813 63.158 4.80 4.80 39.27 6.46
541 559 3.680620 TTCCGCTGATCCTTGGCCG 62.681 63.158 0.00 0.00 0.00 6.13
543 561 4.845580 CGCTGATCCTTGGCCGCT 62.846 66.667 0.00 0.00 0.00 5.52
544 562 2.899339 GCTGATCCTTGGCCGCTC 60.899 66.667 0.00 0.00 0.00 5.03
545 563 2.906458 CTGATCCTTGGCCGCTCT 59.094 61.111 0.00 0.00 0.00 4.09
546 564 1.227497 CTGATCCTTGGCCGCTCTC 60.227 63.158 0.00 0.00 0.00 3.20
547 565 2.279784 GATCCTTGGCCGCTCTCG 60.280 66.667 0.00 0.00 0.00 4.04
548 566 2.759973 ATCCTTGGCCGCTCTCGA 60.760 61.111 0.00 0.00 38.10 4.04
549 567 2.093537 GATCCTTGGCCGCTCTCGAT 62.094 60.000 0.00 0.00 38.10 3.59
550 568 2.374830 ATCCTTGGCCGCTCTCGATG 62.375 60.000 0.00 0.00 38.10 3.84
551 569 2.496341 CTTGGCCGCTCTCGATGA 59.504 61.111 0.00 0.00 38.10 2.92
552 570 1.068753 CTTGGCCGCTCTCGATGAT 59.931 57.895 0.00 0.00 38.10 2.45
553 571 0.943359 CTTGGCCGCTCTCGATGATC 60.943 60.000 0.00 0.00 38.10 2.92
554 572 2.048690 GGCCGCTCTCGATGATCC 60.049 66.667 0.00 0.00 38.10 3.36
555 573 2.569354 GGCCGCTCTCGATGATCCT 61.569 63.158 0.00 0.00 38.10 3.24
556 574 1.365633 GCCGCTCTCGATGATCCTT 59.634 57.895 0.00 0.00 38.10 3.36
557 575 0.943359 GCCGCTCTCGATGATCCTTG 60.943 60.000 0.00 0.00 38.10 3.61
558 576 0.319383 CCGCTCTCGATGATCCTTGG 60.319 60.000 0.00 0.00 38.10 3.61
559 577 0.943359 CGCTCTCGATGATCCTTGGC 60.943 60.000 0.00 0.00 38.10 4.52
560 578 0.602372 GCTCTCGATGATCCTTGGCC 60.602 60.000 0.00 0.00 0.00 5.36
561 579 0.319383 CTCTCGATGATCCTTGGCCG 60.319 60.000 0.00 0.00 0.00 6.13
584 602 0.038618 TCGATGTTGACACCGTGGAG 60.039 55.000 3.03 0.00 0.00 3.86
588 606 0.462937 TGTTGACACCGTGGAGTTGG 60.463 55.000 3.03 0.00 0.00 3.77
605 623 3.199946 AGTTGGTCTTCTGGTTTGACTCA 59.800 43.478 0.00 0.00 0.00 3.41
624 642 4.522022 ACTCATTTCTTCTCCTTTGCCTTG 59.478 41.667 0.00 0.00 0.00 3.61
764 847 1.066143 AGTAGACCCGTCAATTGGCAG 60.066 52.381 11.22 3.10 0.00 4.85
766 849 1.002624 GACCCGTCAATTGGCAGGA 60.003 57.895 19.16 0.00 0.00 3.86
771 866 1.081892 CGTCAATTGGCAGGAGTCAG 58.918 55.000 11.22 0.00 0.00 3.51
802 897 4.024893 CGTGGATTAATTGGATGGTTCTCG 60.025 45.833 0.00 0.00 0.00 4.04
822 917 0.250295 GTAGTTCCCTGCACTGCACA 60.250 55.000 0.00 0.00 33.79 4.57
823 918 0.250295 TAGTTCCCTGCACTGCACAC 60.250 55.000 0.00 0.00 33.79 3.82
831 926 3.653009 CACTGCACACGGCCACAG 61.653 66.667 2.24 4.31 43.89 3.66
1004 2301 1.139058 GGTAACTGACCTGGCGATGAT 59.861 52.381 0.00 0.00 45.89 2.45
1045 2361 4.630894 TCCAGCTTTTTAATACGCCATG 57.369 40.909 0.00 0.00 0.00 3.66
1174 2541 1.153086 GGAGCCACAATGATCGCCT 60.153 57.895 0.00 0.00 0.00 5.52
1184 2551 3.057315 ACAATGATCGCCTTGTCCTTTTG 60.057 43.478 3.13 0.00 29.85 2.44
1256 2623 1.600916 GGGGCGGGATCTTGCATAC 60.601 63.158 10.99 2.30 0.00 2.39
1393 2760 2.159014 TGCGACAACACCACTAGTTCTT 60.159 45.455 0.00 0.00 0.00 2.52
2492 6853 5.050490 CCTAATGTAACTTCTCATGGGTCG 58.950 45.833 0.00 0.00 0.00 4.79
2612 6973 0.686789 CCCTTTCCTTTTGGGCTTGG 59.313 55.000 0.00 0.00 40.87 3.61
2640 7001 1.468520 TGCTATGCTGCCGAAAAGTTC 59.531 47.619 0.00 0.00 0.00 3.01
2798 7180 7.919621 AGATCTTGCGGTAGTAAGTTATACAAC 59.080 37.037 0.00 0.00 40.35 3.32
2901 7283 4.873827 TGGTCTGTCGATAATTTAACCTGC 59.126 41.667 0.00 0.00 0.00 4.85
2974 7356 0.250234 TAGCGCTTGCATTCCTGTCT 59.750 50.000 18.68 0.00 42.66 3.41
2996 7381 1.408683 CCGTCACCATGGGAATGTGAT 60.409 52.381 18.09 0.00 0.00 3.06
3101 7496 5.469479 CGCTCCAACTTCCATTACAAATTT 58.531 37.500 0.00 0.00 0.00 1.82
3211 7609 8.045507 TGTTGCAATTCTTCTATCTCTTGATCT 58.954 33.333 0.59 0.00 34.32 2.75
3229 7627 6.688073 TGATCTAAAGAGTTGGTTTCCTCT 57.312 37.500 0.00 0.00 39.71 3.69
3314 7714 5.278463 GGTTCAGTTTAGTTGTGTGCATCAT 60.278 40.000 0.00 0.00 0.00 2.45
3396 9256 1.079405 GCTAGGCGCACACCAGTAA 60.079 57.895 10.83 0.00 38.92 2.24
3954 10123 6.003326 TGCACTCATGGAAAAGAGTTTGATA 58.997 36.000 0.00 0.00 42.87 2.15
3995 10164 2.095869 CACATCAGCAAAGAGACACAGC 60.096 50.000 0.00 0.00 0.00 4.40
4235 10417 4.870021 AATCAAGGGCTACTCTTGGAAT 57.130 40.909 7.33 0.00 41.23 3.01
4236 10418 3.914426 TCAAGGGCTACTCTTGGAATC 57.086 47.619 7.33 0.00 41.23 2.52
4490 10672 3.417069 TTCATCGGAATGTGGTCAAGT 57.583 42.857 0.00 0.00 34.32 3.16
4744 10926 4.022589 GGCAACTTTACTACCAAGGTTTCC 60.023 45.833 0.00 0.00 0.00 3.13
5029 11211 2.039879 TCCCCAAGTTGTAGAAGAAGCC 59.960 50.000 1.45 0.00 0.00 4.35
5104 11286 4.658901 ACCAAAGGAAGAGAAAGACCTACA 59.341 41.667 0.00 0.00 32.06 2.74
5153 11335 9.959721 TGCAACTCCTAAAAACTAGAAGATTAT 57.040 29.630 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 86 7.813645 ACCCTTTTATCGTGAAATGTAAGTTC 58.186 34.615 0.00 0.00 42.13 3.01
97 98 7.668525 AAGTAGAGAAAACCCTTTTATCGTG 57.331 36.000 0.00 0.00 43.58 4.35
133 134 6.100004 CGAGCTAAATGTATCGGATGGTTAT 58.900 40.000 0.00 0.00 0.00 1.89
134 135 5.466819 CGAGCTAAATGTATCGGATGGTTA 58.533 41.667 0.00 0.00 0.00 2.85
179 180 6.351796 CCTTTCTCTTGTTTTTCCTTTTGGGA 60.352 38.462 0.00 0.00 43.41 4.37
180 181 5.817296 CCTTTCTCTTGTTTTTCCTTTTGGG 59.183 40.000 0.00 0.00 40.87 4.12
194 195 7.168804 GCATTTGTTTCTCTTTCCTTTCTCTTG 59.831 37.037 0.00 0.00 0.00 3.02
227 228 1.336877 TTCGCTTCGTTGATCTGTCG 58.663 50.000 0.00 0.00 0.00 4.35
229 230 3.807622 TCTTTTTCGCTTCGTTGATCTGT 59.192 39.130 0.00 0.00 0.00 3.41
300 301 3.824443 TCATCGGATTCTTAGCGGATGTA 59.176 43.478 0.00 0.00 43.72 2.29
366 384 4.625742 GTGTGCACATAGTTCTACGTCATT 59.374 41.667 24.69 0.00 0.00 2.57
372 390 5.317733 AGAGAGTGTGCACATAGTTCTAC 57.682 43.478 24.69 15.29 0.00 2.59
374 392 5.984695 TTAGAGAGTGTGCACATAGTTCT 57.015 39.130 24.69 22.65 0.00 3.01
381 399 1.684450 TCGGTTTAGAGAGTGTGCACA 59.316 47.619 17.42 17.42 0.00 4.57
408 426 3.906720 TTTCTGCCATACACTACTCCC 57.093 47.619 0.00 0.00 0.00 4.30
442 460 4.722700 ATGCGTGCTGGTGGGACC 62.723 66.667 0.00 0.00 39.22 4.46
512 530 2.704725 TCAGCGGAAAGTCATTTTGC 57.295 45.000 0.00 0.00 34.12 3.68
541 559 0.602372 GGCCAAGGATCATCGAGAGC 60.602 60.000 0.00 0.00 0.00 4.09
542 560 0.319383 CGGCCAAGGATCATCGAGAG 60.319 60.000 2.24 0.00 0.00 3.20
543 561 1.742146 CGGCCAAGGATCATCGAGA 59.258 57.895 2.24 0.00 0.00 4.04
544 562 1.958205 GCGGCCAAGGATCATCGAG 60.958 63.158 2.24 0.00 0.00 4.04
545 563 2.108976 GCGGCCAAGGATCATCGA 59.891 61.111 2.24 0.00 0.00 3.59
546 564 1.958205 GAGCGGCCAAGGATCATCG 60.958 63.158 2.24 0.00 0.00 3.84
547 565 0.602372 GAGAGCGGCCAAGGATCATC 60.602 60.000 2.24 0.00 0.00 2.92
548 566 1.449353 GAGAGCGGCCAAGGATCAT 59.551 57.895 2.24 0.00 0.00 2.45
549 567 2.903357 GAGAGCGGCCAAGGATCA 59.097 61.111 2.24 0.00 0.00 2.92
550 568 2.093537 ATCGAGAGCGGCCAAGGATC 62.094 60.000 2.24 0.00 38.28 3.36
551 569 2.136878 ATCGAGAGCGGCCAAGGAT 61.137 57.895 2.24 0.00 38.28 3.24
552 570 2.759973 ATCGAGAGCGGCCAAGGA 60.760 61.111 2.24 0.00 38.28 3.36
553 571 2.587194 CATCGAGAGCGGCCAAGG 60.587 66.667 2.24 0.00 38.28 3.61
554 572 1.448540 AACATCGAGAGCGGCCAAG 60.449 57.895 2.24 0.00 38.28 3.61
555 573 1.741401 CAACATCGAGAGCGGCCAA 60.741 57.895 2.24 0.00 38.28 4.52
556 574 2.125552 CAACATCGAGAGCGGCCA 60.126 61.111 2.24 0.00 38.28 5.36
557 575 2.167861 GTCAACATCGAGAGCGGCC 61.168 63.158 0.00 0.00 38.28 6.13
558 576 1.446099 TGTCAACATCGAGAGCGGC 60.446 57.895 0.00 0.00 38.28 6.53
559 577 1.078759 GGTGTCAACATCGAGAGCGG 61.079 60.000 0.00 0.00 38.28 5.52
560 578 2.363807 GGTGTCAACATCGAGAGCG 58.636 57.895 0.00 0.00 39.35 5.03
584 602 3.541632 TGAGTCAAACCAGAAGACCAAC 58.458 45.455 0.00 0.00 32.82 3.77
588 606 6.484977 AGAAGAAATGAGTCAAACCAGAAGAC 59.515 38.462 0.00 0.00 0.00 3.01
605 623 5.635120 ACTACAAGGCAAAGGAGAAGAAAT 58.365 37.500 0.00 0.00 0.00 2.17
624 642 2.202623 CCAGACTGCGGCGACTAC 60.203 66.667 12.98 0.00 0.00 2.73
745 828 1.369625 CTGCCAATTGACGGGTCTAC 58.630 55.000 7.12 0.00 0.00 2.59
771 866 0.396556 AATTAATCCACGGGCCACCC 60.397 55.000 4.39 0.00 41.09 4.61
802 897 0.955919 GTGCAGTGCAGGGAACTACC 60.956 60.000 20.42 0.00 40.08 3.18
831 926 4.338379 AGGAGAAGGATACGTTTATGCC 57.662 45.455 0.00 0.00 46.39 4.40
995 2292 2.750712 TCGGATATTACGATCATCGCCA 59.249 45.455 7.05 0.00 45.12 5.69
1004 2301 1.634960 TGCCCCATCGGATATTACGA 58.365 50.000 6.01 6.01 45.19 3.43
1045 2361 1.159713 TGCTGCCTATGTACGCATGC 61.160 55.000 7.91 7.91 36.58 4.06
1079 2395 9.121658 TGGCGATAGGATCAATAATAGTACTAG 57.878 37.037 8.85 0.00 0.00 2.57
1174 2541 0.457851 CACGCCAACCAAAAGGACAA 59.542 50.000 0.00 0.00 0.00 3.18
1393 2760 3.154710 TGTTGTCTAGAAAGAGCCTCGA 58.845 45.455 0.00 0.00 30.45 4.04
2316 3780 2.548480 GGGCGAGAATACAATTAGTGCC 59.452 50.000 0.00 0.00 39.21 5.01
2492 6853 6.487299 AGGAAGAAGTTACACTGGGATATC 57.513 41.667 0.00 0.00 0.00 1.63
2612 6973 2.355756 TCGGCAGCATAGCAATCTTTTC 59.644 45.455 0.00 0.00 35.83 2.29
2640 7001 3.520290 TCTGATGTACAGTTAAGCCGG 57.480 47.619 0.33 0.00 45.86 6.13
2798 7180 2.038952 TCTATTTCCATGCTCCCATCGG 59.961 50.000 0.00 0.00 0.00 4.18
2856 7238 4.869861 CACCACATCTTCATGTCGTATTCA 59.130 41.667 0.00 0.00 41.69 2.57
2901 7283 2.497138 TGCTTGCTCATATCAATCGGG 58.503 47.619 0.00 0.00 0.00 5.14
2996 7381 1.006922 CGATAGCCGAGCTGCATCA 60.007 57.895 1.02 0.00 40.10 3.07
3101 7496 2.354343 TGCATGCGGTTGGATGGA 59.646 55.556 14.09 0.00 43.52 3.41
3155 7551 9.531942 GAATCCTGCTAGATGTATCATTATCAG 57.468 37.037 0.00 0.00 0.00 2.90
3314 7714 4.119556 CCCTCCTGGTCTCTACATCATA 57.880 50.000 0.00 0.00 0.00 2.15
3369 9226 2.939022 GCGCCTAGCCATTTAGCG 59.061 61.111 0.00 3.34 40.81 4.26
3385 9245 3.127030 GCCAAACTCTATTACTGGTGTGC 59.873 47.826 0.00 0.00 0.00 4.57
3692 9608 4.142643 CCAAAATGTTGCATTGGCCATTAC 60.143 41.667 6.09 0.00 37.40 1.89
3954 10123 5.060506 TGTGACACATCTCCGTTTTATTGT 58.939 37.500 3.56 0.00 0.00 2.71
3995 10164 7.747155 TCGATATGACTTACCTAAGAGAAGG 57.253 40.000 0.00 0.00 42.82 3.46
4235 10417 8.755028 TGTGGCACTTTAGTCTAATATTAGTGA 58.245 33.333 19.83 6.13 34.87 3.41
4236 10418 8.942338 TGTGGCACTTTAGTCTAATATTAGTG 57.058 34.615 19.83 13.32 35.75 2.74
4250 10432 7.575414 TCTTTGTTTTATCTGTGGCACTTTA 57.425 32.000 19.83 4.37 0.00 1.85
4744 10926 0.600255 ACCTCGAAGCACCAAAGTCG 60.600 55.000 0.00 0.00 34.85 4.18
4934 11116 6.025749 AGCCAAGCTTTGTTTTATACCTTC 57.974 37.500 0.00 0.00 33.89 3.46
5029 11211 7.960738 GCAATTTCATCAATTTCATTCTGGTTG 59.039 33.333 0.00 0.00 32.24 3.77
5104 11286 6.739565 GCAACTTCATTTCCACCTCTTTCATT 60.740 38.462 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.