Multiple sequence alignment - TraesCS2B01G535000

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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 TraesCS2B01G535000 chr2B 100.000 4523 0 0 1 4523 731249064 731253586 0.000000e+00 8353.0
1 TraesCS2B01G535000 chr2B 78.384 953 124 50 58 989 618053790 618052899 1.110000e-150 544.0
2 TraesCS2B01G535000 chr2B 78.252 961 127 49 50 989 172671389 172672288 3.980000e-150 542.0
3 TraesCS2B01G535000 chr2B 81.772 587 70 25 436 989 781262773 781263355 1.480000e-124 457.0
4 TraesCS2B01G535000 chr2D 94.804 2964 86 17 987 3937 601108183 601111091 0.000000e+00 4558.0
5 TraesCS2B01G535000 chr2D 96.599 294 6 2 3929 4222 601112256 601112545 6.800000e-133 484.0
6 TraesCS2B01G535000 chr2D 92.953 298 10 6 4237 4523 601112530 601112827 1.500000e-114 424.0
7 TraesCS2B01G535000 chr2A 91.735 1827 123 20 1845 3656 734586398 734588211 0.000000e+00 2512.0
8 TraesCS2B01G535000 chr2A 90.211 1849 138 12 1859 3701 734595283 734597094 0.000000e+00 2372.0
9 TraesCS2B01G535000 chr2A 94.026 837 22 14 3700 4523 734533042 734532221 0.000000e+00 1243.0
10 TraesCS2B01G535000 chr2A 94.656 524 14 5 3700 4222 734597176 734597686 0.000000e+00 800.0
11 TraesCS2B01G535000 chr2A 91.118 304 10 8 4237 4523 734597671 734597974 3.280000e-106 396.0
12 TraesCS2B01G535000 chr2A 95.909 220 9 0 1000 1219 734593703 734593922 1.550000e-94 357.0
13 TraesCS2B01G535000 chr2A 96.277 188 7 0 1032 1219 734584601 734584788 4.390000e-80 309.0
14 TraesCS2B01G535000 chr4B 81.099 1529 257 17 1867 3390 438604908 438603407 0.000000e+00 1194.0
15 TraesCS2B01G535000 chr4B 79.918 1469 268 20 1884 3345 438381148 438379700 0.000000e+00 1053.0
16 TraesCS2B01G535000 chr4B 78.205 1014 216 5 1890 2900 439322051 439321040 1.060000e-180 643.0
17 TraesCS2B01G535000 chr4B 82.264 530 70 17 478 990 343042586 343042064 1.930000e-118 436.0
18 TraesCS2B01G535000 chr4B 91.509 212 18 0 1008 1219 438607079 438606868 4.430000e-75 292.0
19 TraesCS2B01G535000 chr4D 80.851 1551 260 22 1847 3390 355283539 355282019 0.000000e+00 1184.0
20 TraesCS2B01G535000 chr4D 79.648 1479 278 16 1867 3340 354889363 354887903 0.000000e+00 1042.0
21 TraesCS2B01G535000 chr4D 89.231 65 7 0 1155 1219 355285611 355285547 1.040000e-11 82.4
22 TraesCS2B01G535000 chr6B 87.675 998 72 32 1 950 256484947 256485941 0.000000e+00 1114.0
23 TraesCS2B01G535000 chr6B 78.586 1443 260 31 1885 3314 647950418 647949012 0.000000e+00 907.0
24 TraesCS2B01G535000 chr6B 78.053 1048 199 20 1891 2912 647708788 647709830 2.300000e-177 632.0
25 TraesCS2B01G535000 chr6B 81.339 493 63 20 514 989 113442097 113442577 1.540000e-99 374.0
26 TraesCS2B01G535000 chr4A 79.582 1484 279 17 1867 3345 109844270 109845734 0.000000e+00 1040.0
27 TraesCS2B01G535000 chr4A 78.578 1013 214 3 1890 2900 109424065 109425076 0.000000e+00 665.0
28 TraesCS2B01G535000 chr6A 78.141 1409 271 18 1867 3270 574913296 574914672 0.000000e+00 861.0
29 TraesCS2B01G535000 chr6A 87.143 210 27 0 1009 1218 574935312 574935521 5.850000e-59 239.0
30 TraesCS2B01G535000 chr5D 90.126 476 32 14 527 989 470055055 470055528 5.000000e-169 604.0
31 TraesCS2B01G535000 chr5D 92.765 387 19 4 1 382 470054091 470054473 6.610000e-153 551.0
32 TraesCS2B01G535000 chr5D 88.662 441 31 7 564 987 550554076 550554514 1.860000e-143 520.0
33 TraesCS2B01G535000 chr5D 87.472 439 33 7 1 434 550553240 550553661 1.890000e-133 486.0
34 TraesCS2B01G535000 chr5D 95.620 137 5 1 534 670 470055032 470055167 7.620000e-53 219.0
35 TraesCS2B01G535000 chr5D 93.548 124 8 0 318 441 470054459 470054582 7.730000e-43 185.0
36 TraesCS2B01G535000 chr5A 82.743 649 89 15 50 685 475802260 475801622 1.420000e-154 556.0
37 TraesCS2B01G535000 chr5A 90.291 309 22 5 681 989 475787662 475787362 9.120000e-107 398.0
38 TraesCS2B01G535000 chr3B 78.031 965 130 49 55 998 243274453 243275356 2.400000e-147 532.0
39 TraesCS2B01G535000 chr3B 97.778 45 1 0 4324 4368 757477519 757477475 1.350000e-10 78.7
40 TraesCS2B01G535000 chr1D 80.476 210 35 4 1008 1217 382237630 382237427 6.060000e-34 156.0


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 TraesCS2B01G535000 chr2B 731249064 731253586 4522 False 8353.00 8353 100.000000 1 4523 1 chr2B.!!$F2 4522
1 TraesCS2B01G535000 chr2B 618052899 618053790 891 True 544.00 544 78.384000 58 989 1 chr2B.!!$R1 931
2 TraesCS2B01G535000 chr2B 172671389 172672288 899 False 542.00 542 78.252000 50 989 1 chr2B.!!$F1 939
3 TraesCS2B01G535000 chr2B 781262773 781263355 582 False 457.00 457 81.772000 436 989 1 chr2B.!!$F3 553
4 TraesCS2B01G535000 chr2D 601108183 601112827 4644 False 1822.00 4558 94.785333 987 4523 3 chr2D.!!$F1 3536
5 TraesCS2B01G535000 chr2A 734584601 734588211 3610 False 1410.50 2512 94.006000 1032 3656 2 chr2A.!!$F1 2624
6 TraesCS2B01G535000 chr2A 734532221 734533042 821 True 1243.00 1243 94.026000 3700 4523 1 chr2A.!!$R1 823
7 TraesCS2B01G535000 chr2A 734593703 734597974 4271 False 981.25 2372 92.973500 1000 4523 4 chr2A.!!$F2 3523
8 TraesCS2B01G535000 chr4B 438379700 438381148 1448 True 1053.00 1053 79.918000 1884 3345 1 chr4B.!!$R2 1461
9 TraesCS2B01G535000 chr4B 438603407 438607079 3672 True 743.00 1194 86.304000 1008 3390 2 chr4B.!!$R4 2382
10 TraesCS2B01G535000 chr4B 439321040 439322051 1011 True 643.00 643 78.205000 1890 2900 1 chr4B.!!$R3 1010
11 TraesCS2B01G535000 chr4B 343042064 343042586 522 True 436.00 436 82.264000 478 990 1 chr4B.!!$R1 512
12 TraesCS2B01G535000 chr4D 354887903 354889363 1460 True 1042.00 1042 79.648000 1867 3340 1 chr4D.!!$R1 1473
13 TraesCS2B01G535000 chr4D 355282019 355285611 3592 True 633.20 1184 85.041000 1155 3390 2 chr4D.!!$R2 2235
14 TraesCS2B01G535000 chr6B 256484947 256485941 994 False 1114.00 1114 87.675000 1 950 1 chr6B.!!$F2 949
15 TraesCS2B01G535000 chr6B 647949012 647950418 1406 True 907.00 907 78.586000 1885 3314 1 chr6B.!!$R1 1429
16 TraesCS2B01G535000 chr6B 647708788 647709830 1042 False 632.00 632 78.053000 1891 2912 1 chr6B.!!$F3 1021
17 TraesCS2B01G535000 chr4A 109844270 109845734 1464 False 1040.00 1040 79.582000 1867 3345 1 chr4A.!!$F2 1478
18 TraesCS2B01G535000 chr4A 109424065 109425076 1011 False 665.00 665 78.578000 1890 2900 1 chr4A.!!$F1 1010
19 TraesCS2B01G535000 chr6A 574913296 574914672 1376 False 861.00 861 78.141000 1867 3270 1 chr6A.!!$F1 1403
20 TraesCS2B01G535000 chr5D 550553240 550554514 1274 False 503.00 520 88.067000 1 987 2 chr5D.!!$F2 986
21 TraesCS2B01G535000 chr5D 470054091 470055528 1437 False 389.75 604 93.014750 1 989 4 chr5D.!!$F1 988
22 TraesCS2B01G535000 chr5A 475801622 475802260 638 True 556.00 556 82.743000 50 685 1 chr5A.!!$R2 635
23 TraesCS2B01G535000 chr3B 243274453 243275356 903 False 532.00 532 78.031000 55 998 1 chr3B.!!$F1 943

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
399 460 1.066573 CCGATTCACCAGCTTCTCACT 60.067 52.381 0.00 0.00 0.00 3.41 F
968 1593 2.434336 AGTATCCTAGCCGCAAATGTGA 59.566 45.455 0.00 0.00 0.00 3.58 F
1318 2214 0.876777 TGGGTGTGAGTTTGCGTACG 60.877 55.000 11.84 11.84 0.00 3.67 F
1637 3722 2.029838 AACACTGAGATCGATTGGCC 57.970 50.000 0.00 0.00 0.00 5.36 F
2686 5832 2.189594 TGCCAAGATGGACAAGTCTG 57.810 50.000 0.00 0.00 40.96 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1296 2192 0.179032 ACGCAAACTCACACCCATGA 60.179 50.000 0.00 0.0 0.00 3.07 R
1888 5010 1.060266 CAGTCGCTTCGCATCTGAAAG 59.940 52.381 0.00 0.0 33.33 2.62 R
2342 5482 1.421268 TGGCCTTGACTGTGAAGACAT 59.579 47.619 8.63 0.0 0.00 3.06 R
3468 6635 0.251033 TCTGCTCCTTTGCATGCTGT 60.251 50.000 20.33 0.0 42.48 4.40 R
3770 7042 0.108329 ACAACTAATCTCACGCGGGG 60.108 55.000 9.32 0.0 0.00 5.73 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
189 192 2.436646 CTGCCGCCGATTGGACTT 60.437 61.111 1.98 0.00 37.49 3.01
399 460 1.066573 CCGATTCACCAGCTTCTCACT 60.067 52.381 0.00 0.00 0.00 3.41
951 1569 4.320935 CCAAAAGCGGTAGTTTTGCAGTAT 60.321 41.667 5.02 0.00 41.56 2.12
959 1577 2.906354 AGTTTTGCAGTATCCTAGCCG 58.094 47.619 0.00 0.00 0.00 5.52
968 1593 2.434336 AGTATCCTAGCCGCAAATGTGA 59.566 45.455 0.00 0.00 0.00 3.58
1128 1753 4.657824 AACCTCACCACGCCGTCG 62.658 66.667 0.00 0.00 42.43 5.12
1296 2192 1.736032 GCGGTAGTTTGTCAGCTCGAT 60.736 52.381 0.00 0.00 0.00 3.59
1301 2197 2.625737 AGTTTGTCAGCTCGATCATGG 58.374 47.619 0.00 0.00 0.00 3.66
1313 2209 1.131126 CGATCATGGGTGTGAGTTTGC 59.869 52.381 0.00 0.00 0.00 3.68
1316 2212 1.070914 TCATGGGTGTGAGTTTGCGTA 59.929 47.619 0.00 0.00 0.00 4.42
1318 2214 0.876777 TGGGTGTGAGTTTGCGTACG 60.877 55.000 11.84 11.84 0.00 3.67
1342 2239 4.430423 CGCAGCCGTGTTTCGCTC 62.430 66.667 0.00 0.00 38.35 5.03
1383 3420 4.458989 GCTGAAGGGTGAACATTACATGAA 59.541 41.667 0.00 0.00 0.00 2.57
1409 3450 9.342308 ACCAGATTTCGTATTTGTGATCATTAT 57.658 29.630 0.00 0.00 0.00 1.28
1637 3722 2.029838 AACACTGAGATCGATTGGCC 57.970 50.000 0.00 0.00 0.00 5.36
1676 3761 4.699637 ACTACGTCACTCCATTTTGTTCA 58.300 39.130 0.00 0.00 0.00 3.18
1677 3762 5.120399 ACTACGTCACTCCATTTTGTTCAA 58.880 37.500 0.00 0.00 0.00 2.69
1888 5010 7.214467 TCTGAAACAAACCACTATGATTTCC 57.786 36.000 0.00 0.00 0.00 3.13
1930 5052 3.861263 GCCGGCGATTCAACGACC 61.861 66.667 12.58 0.00 38.13 4.79
2235 5357 3.865383 CCCTCCGCAGCAGCCATA 61.865 66.667 0.00 0.00 37.52 2.74
2342 5482 6.204688 GTCTCCATTGTCAGTGTACAAAATGA 59.795 38.462 0.00 0.00 42.33 2.57
2352 5492 6.765512 TCAGTGTACAAAATGATGTCTTCACA 59.234 34.615 0.00 0.00 37.11 3.58
2686 5832 2.189594 TGCCAAGATGGACAAGTCTG 57.810 50.000 0.00 0.00 40.96 3.51
2931 6077 3.253432 AGATATATGACTCGCGAGTGCAA 59.747 43.478 43.61 28.40 42.66 4.08
3335 6499 8.838365 CAGGAAGAGGATAATGAAAATGAAGAG 58.162 37.037 0.00 0.00 0.00 2.85
3468 6635 0.896940 AGGAGTTTGAGCGGACGGTA 60.897 55.000 0.00 0.00 0.00 4.02
3481 6648 0.447801 GACGGTACAGCATGCAAAGG 59.552 55.000 21.98 8.76 42.53 3.11
3660 6849 7.747155 ATATCAGTCTTATGCGTACTACTGT 57.253 36.000 19.22 12.69 36.56 3.55
3661 6850 8.843885 ATATCAGTCTTATGCGTACTACTGTA 57.156 34.615 19.22 13.82 36.56 2.74
3760 7032 5.894298 AGCAGGATGTATGTTGGATCTAA 57.106 39.130 0.00 0.00 39.31 2.10
3770 7042 7.713750 TGTATGTTGGATCTAACTACTGTAGC 58.286 38.462 20.91 5.56 0.00 3.58
3836 7109 4.060038 CCGGTAACCCACGCTCGT 62.060 66.667 0.00 0.00 0.00 4.18
3840 7113 1.562575 GGTAACCCACGCTCGTGTTG 61.563 60.000 19.25 12.93 44.02 3.33
3858 7131 5.393569 CGTGTTGTTATCTCTCTCCATCTGT 60.394 44.000 0.00 0.00 0.00 3.41
3859 7132 6.402222 GTGTTGTTATCTCTCTCCATCTGTT 58.598 40.000 0.00 0.00 0.00 3.16
3860 7133 6.876257 GTGTTGTTATCTCTCTCCATCTGTTT 59.124 38.462 0.00 0.00 0.00 2.83
3861 7134 7.064016 GTGTTGTTATCTCTCTCCATCTGTTTC 59.936 40.741 0.00 0.00 0.00 2.78
3884 7157 5.529800 TCTTTCTTTTTCCCTAAGACGTTGG 59.470 40.000 0.00 0.00 31.68 3.77
4036 8483 0.319900 CCCCCGTAGATGATGCTTCG 60.320 60.000 0.00 0.00 0.00 3.79
4072 8519 9.347240 GATGAATCTCCAAAATCTTCCTGATTA 57.653 33.333 0.00 0.00 43.99 1.75
4073 8520 9.878737 ATGAATCTCCAAAATCTTCCTGATTAT 57.121 29.630 0.00 0.00 43.99 1.28
4074 8521 9.705103 TGAATCTCCAAAATCTTCCTGATTATT 57.295 29.630 0.00 0.00 43.99 1.40
4118 8565 4.716794 TGGCAATGGAAGCATTTTCTTTT 58.283 34.783 0.00 0.00 0.00 2.27
4119 8566 4.756135 TGGCAATGGAAGCATTTTCTTTTC 59.244 37.500 0.00 0.00 0.00 2.29
4120 8567 4.999311 GGCAATGGAAGCATTTTCTTTTCT 59.001 37.500 0.00 0.00 0.00 2.52
4121 8568 5.471116 GGCAATGGAAGCATTTTCTTTTCTT 59.529 36.000 0.00 0.00 0.00 2.52
4122 8569 6.016860 GGCAATGGAAGCATTTTCTTTTCTTT 60.017 34.615 0.00 0.00 0.00 2.52
4168 8619 7.488471 GGAAGCATTTTCTCATGAGATGAAAAG 59.512 37.037 25.64 19.76 41.14 2.27
4209 8691 4.573900 TGCAAACATTTATTCGGCCAAAT 58.426 34.783 2.24 0.00 0.00 2.32
4210 8692 4.999950 TGCAAACATTTATTCGGCCAAATT 59.000 33.333 2.24 0.00 0.00 1.82
4211 8693 6.166279 TGCAAACATTTATTCGGCCAAATTA 58.834 32.000 2.24 0.00 0.00 1.40
4212 8694 6.091441 TGCAAACATTTATTCGGCCAAATTAC 59.909 34.615 2.24 0.00 0.00 1.89
4213 8695 6.456315 GCAAACATTTATTCGGCCAAATTACC 60.456 38.462 2.24 0.00 0.00 2.85
4214 8696 5.270893 ACATTTATTCGGCCAAATTACCC 57.729 39.130 2.24 0.00 0.00 3.69
4215 8697 4.100344 ACATTTATTCGGCCAAATTACCCC 59.900 41.667 2.24 0.00 0.00 4.95
4216 8698 3.383698 TTATTCGGCCAAATTACCCCA 57.616 42.857 2.24 0.00 0.00 4.96
4217 8699 2.470057 ATTCGGCCAAATTACCCCAT 57.530 45.000 2.24 0.00 0.00 4.00
4218 8700 1.479709 TTCGGCCAAATTACCCCATG 58.520 50.000 2.24 0.00 0.00 3.66
4219 8701 0.626382 TCGGCCAAATTACCCCATGA 59.374 50.000 2.24 0.00 0.00 3.07
4220 8702 1.216678 TCGGCCAAATTACCCCATGAT 59.783 47.619 2.24 0.00 0.00 2.45
4221 8703 2.038659 CGGCCAAATTACCCCATGATT 58.961 47.619 2.24 0.00 0.00 2.57
4222 8704 2.433970 CGGCCAAATTACCCCATGATTT 59.566 45.455 2.24 0.00 0.00 2.17
4223 8705 3.118445 CGGCCAAATTACCCCATGATTTT 60.118 43.478 2.24 0.00 0.00 1.82
4224 8706 4.625083 CGGCCAAATTACCCCATGATTTTT 60.625 41.667 2.24 0.00 0.00 1.94
4314 8796 7.011857 TGGAAGTTATTGGTGCAAACATTTTTC 59.988 33.333 0.00 0.00 0.00 2.29
4315 8797 7.226523 GGAAGTTATTGGTGCAAACATTTTTCT 59.773 33.333 0.00 0.00 0.00 2.52
4316 8798 7.713764 AGTTATTGGTGCAAACATTTTTCTC 57.286 32.000 0.00 0.00 0.00 2.87
4318 8800 7.768120 AGTTATTGGTGCAAACATTTTTCTCAA 59.232 29.630 0.00 0.00 0.00 3.02
4320 8802 4.187694 TGGTGCAAACATTTTTCTCAACC 58.812 39.130 0.00 0.00 0.00 3.77
4374 8867 4.873259 TGTCAATGAAACACTTCTTCACGA 59.127 37.500 0.00 0.00 35.70 4.35
4382 8875 0.956633 ACTTCTTCACGACGGTGCTA 59.043 50.000 0.00 0.00 44.03 3.49
4383 8876 1.544691 ACTTCTTCACGACGGTGCTAT 59.455 47.619 0.00 0.00 44.03 2.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 3.755628 GGCGACAGCTGGGTACGA 61.756 66.667 19.93 0.00 44.37 3.43
70 71 0.686441 TGATTCCGGTCGGATCTGGT 60.686 55.000 13.16 0.00 44.74 4.00
92 93 2.919856 CGGATCTGGAGGCGGGAT 60.920 66.667 0.00 0.00 0.00 3.85
173 176 2.739849 TTCAAGTCCAATCGGCGGCA 62.740 55.000 10.53 0.00 0.00 5.69
189 192 4.308458 CTGCGACGGTGGGGTTCA 62.308 66.667 0.00 0.00 0.00 3.18
208 211 2.269883 GATAACGGCGGTGGGGTT 59.730 61.111 8.19 0.00 0.00 4.11
214 222 0.458669 AGTGAATCGATAACGGCGGT 59.541 50.000 13.24 7.51 40.21 5.68
218 226 3.050619 GCCACTAGTGAATCGATAACGG 58.949 50.000 24.68 3.77 40.21 4.44
293 301 4.020617 CCAGCCGCTTGACCCTGA 62.021 66.667 0.00 0.00 0.00 3.86
328 383 2.747855 GGTTCAAGGCCAGGCGAG 60.748 66.667 5.01 0.00 0.00 5.03
469 532 2.361992 TCCGACAAGGCCGAGCTA 60.362 61.111 0.00 0.00 40.77 3.32
951 1569 1.667236 CATCACATTTGCGGCTAGGA 58.333 50.000 0.00 0.00 0.00 2.94
1092 1717 3.246112 CCCTGGTCGTTGGGGACA 61.246 66.667 0.00 0.00 42.58 4.02
1229 1855 7.763172 GATCGACATCAGATCTACAGTTTTT 57.237 36.000 0.00 0.00 40.82 1.94
1296 2192 0.179032 ACGCAAACTCACACCCATGA 60.179 50.000 0.00 0.00 0.00 3.07
1301 2197 0.877213 ACCGTACGCAAACTCACACC 60.877 55.000 10.49 0.00 0.00 4.16
1332 2229 6.961554 AGAATTTGAATTATCGAGCGAAACAC 59.038 34.615 0.00 0.00 0.00 3.32
1333 2230 7.072177 AGAATTTGAATTATCGAGCGAAACA 57.928 32.000 0.00 0.00 0.00 2.83
1334 2231 7.180079 TGAGAATTTGAATTATCGAGCGAAAC 58.820 34.615 0.00 0.00 38.98 2.78
1336 2233 6.510157 GCTGAGAATTTGAATTATCGAGCGAA 60.510 38.462 13.94 0.00 38.98 4.70
1338 2235 5.050499 AGCTGAGAATTTGAATTATCGAGCG 60.050 40.000 18.44 0.00 40.89 5.03
1339 2236 6.018425 TCAGCTGAGAATTTGAATTATCGAGC 60.018 38.462 13.74 17.68 38.98 5.03
1341 2238 7.011763 CCTTCAGCTGAGAATTTGAATTATCGA 59.988 37.037 17.43 0.00 38.98 3.59
1342 2239 7.130917 CCTTCAGCTGAGAATTTGAATTATCG 58.869 38.462 17.43 3.79 38.98 2.92
1383 3420 7.630242 AATGATCACAAATACGAAATCTGGT 57.370 32.000 0.00 0.00 0.00 4.00
1409 3450 7.785506 AGCTAGAGGCCTAATAGAAGTTCTTAA 59.214 37.037 22.90 0.00 43.05 1.85
1637 3722 6.621316 ACGTAGTACCACTGAATCTGATAG 57.379 41.667 0.00 0.00 41.94 2.08
1888 5010 1.060266 CAGTCGCTTCGCATCTGAAAG 59.940 52.381 0.00 0.00 33.33 2.62
1930 5052 2.101415 TGATATCTCCTTGCACAGACGG 59.899 50.000 3.98 0.00 0.00 4.79
2342 5482 1.421268 TGGCCTTGACTGTGAAGACAT 59.579 47.619 8.63 0.00 0.00 3.06
2352 5492 2.743718 CCAGACGTGGCCTTGACT 59.256 61.111 3.32 0.00 36.89 3.41
2686 5832 1.883084 GCACGACGTCATGGATCCC 60.883 63.158 14.16 0.00 0.00 3.85
2931 6077 4.051478 TCATGAAACCAGGTATATGGGGT 58.949 43.478 0.00 0.00 45.25 4.95
3199 6363 2.430382 TTCTTGCTCCCGGTCGTCAC 62.430 60.000 0.00 0.00 0.00 3.67
3335 6499 2.364448 AGCCCTCCTCGTCTTCCC 60.364 66.667 0.00 0.00 0.00 3.97
3468 6635 0.251033 TCTGCTCCTTTGCATGCTGT 60.251 50.000 20.33 0.00 42.48 4.40
3481 6648 4.265073 TCCTTTATTTGCTTCCTCTGCTC 58.735 43.478 0.00 0.00 0.00 4.26
3657 6846 5.840243 TTCTGATGCCCATGAAAATACAG 57.160 39.130 0.00 0.00 0.00 2.74
3658 6847 7.013559 CAGTATTCTGATGCCCATGAAAATACA 59.986 37.037 6.68 0.00 43.76 2.29
3659 6848 7.229306 TCAGTATTCTGATGCCCATGAAAATAC 59.771 37.037 0.00 0.00 44.58 1.89
3660 6849 7.289310 TCAGTATTCTGATGCCCATGAAAATA 58.711 34.615 0.00 0.00 44.58 1.40
3661 6850 6.131264 TCAGTATTCTGATGCCCATGAAAAT 58.869 36.000 0.00 0.00 44.58 1.82
3760 7032 2.362120 ACGCGGGGCTACAGTAGT 60.362 61.111 12.47 0.00 0.00 2.73
3770 7042 0.108329 ACAACTAATCTCACGCGGGG 60.108 55.000 9.32 0.00 0.00 5.73
3836 7109 6.611613 AACAGATGGAGAGAGATAACAACA 57.388 37.500 0.00 0.00 0.00 3.33
3840 7113 8.257306 AGAAAGAAACAGATGGAGAGAGATAAC 58.743 37.037 0.00 0.00 0.00 1.89
3858 7131 7.415877 CCAACGTCTTAGGGAAAAAGAAAGAAA 60.416 37.037 0.00 0.00 34.86 2.52
3859 7132 6.038936 CCAACGTCTTAGGGAAAAAGAAAGAA 59.961 38.462 0.00 0.00 34.86 2.52
3860 7133 5.529800 CCAACGTCTTAGGGAAAAAGAAAGA 59.470 40.000 0.00 0.00 34.86 2.52
3861 7134 5.298527 ACCAACGTCTTAGGGAAAAAGAAAG 59.701 40.000 0.00 0.00 34.86 2.62
3884 7157 3.375782 AGAAAGCATGCAACAAGGAAC 57.624 42.857 21.98 0.67 0.00 3.62
4036 8483 5.344743 TTGGAGATTCATCACCTACAGTC 57.655 43.478 5.06 0.00 38.23 3.51
4072 8519 8.836413 CCATATGTGTTACGGAATAGAAACAAT 58.164 33.333 1.24 0.00 33.92 2.71
4073 8520 7.201661 GCCATATGTGTTACGGAATAGAAACAA 60.202 37.037 1.24 0.00 33.92 2.83
4074 8521 6.259167 GCCATATGTGTTACGGAATAGAAACA 59.741 38.462 1.24 0.00 0.00 2.83
4168 8619 9.734620 TGTTTGCATCAATAGCTACATAAATTC 57.265 29.630 0.00 0.00 0.00 2.17
4256 8738 7.398618 TGTGACAAATGTTGGGTTATGGAATAT 59.601 33.333 0.00 0.00 34.12 1.28
4266 8748 3.303938 TGGAATGTGACAAATGTTGGGT 58.696 40.909 0.00 0.00 34.12 4.51
4314 8796 9.703892 TTTCCATTACAAAACATATTGGTTGAG 57.296 29.630 0.00 0.00 34.56 3.02
4315 8797 9.482627 GTTTCCATTACAAAACATATTGGTTGA 57.517 29.630 0.00 0.00 35.83 3.18
4316 8798 9.265901 TGTTTCCATTACAAAACATATTGGTTG 57.734 29.630 0.00 0.00 39.70 3.77
4374 8867 8.372459 TGGAAAATATTGAGTATATAGCACCGT 58.628 33.333 0.00 0.00 0.00 4.83
4406 8899 9.212641 GATGATAAGCAATGAAGCTCTATTACA 57.787 33.333 0.00 0.00 45.89 2.41


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

AutoCloner maintained by Alex Coulton.