Multiple sequence alignment - TraesCS2B01G083700

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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 TraesCS2B01G083700 chr2B 100.000 3464 0 0 1 3464 46676641 46680104 0.000000e+00 6397
1 TraesCS2B01G083700 chr2B 83.180 1409 211 17 1033 2422 6178717 6180118 0.000000e+00 1266
2 TraesCS2B01G083700 chr2B 95.157 702 21 6 2502 3202 713865711 713865022 0.000000e+00 1096
3 TraesCS2B01G083700 chr2B 97.701 261 5 1 3204 3464 161920358 161920617 6.820000e-122 448
4 TraesCS2B01G083700 chr2B 86.520 319 34 8 323 634 46676826 46676510 3.310000e-90 342
5 TraesCS2B01G083700 chr2B 96.000 100 3 1 3202 3300 784377341 784377440 9.950000e-36 161
6 TraesCS2B01G083700 chr2B 96.000 100 3 1 3202 3300 784453414 784453513 9.950000e-36 161
7 TraesCS2B01G083700 chr2D 93.512 1680 99 2 747 2426 28964778 28966447 0.000000e+00 2490
8 TraesCS2B01G083700 chr2D 94.194 1464 78 5 1022 2480 28915491 28914030 0.000000e+00 2226
9 TraesCS2B01G083700 chr2D 83.381 1402 218 11 1033 2422 5267265 5268663 0.000000e+00 1284
10 TraesCS2B01G083700 chr2D 86.971 307 35 3 311 616 476433223 476432921 1.190000e-89 340
11 TraesCS2B01G083700 chr2D 91.244 217 17 2 97 312 476681758 476681543 9.400000e-76 294
12 TraesCS2B01G083700 chr2A 90.928 1885 122 16 624 2476 30864289 30866156 0.000000e+00 2488
13 TraesCS2B01G083700 chr2A 82.454 1402 230 11 1033 2420 3816526 3817925 0.000000e+00 1212
14 TraesCS2B01G083700 chr2A 93.182 264 17 1 3202 3464 669677225 669677488 1.510000e-103 387
15 TraesCS2B01G083700 chrUn 92.080 1553 79 12 181 1724 370636787 370635270 0.000000e+00 2146
16 TraesCS2B01G083700 chrUn 99.403 670 2 1 2795 3464 247059505 247060172 0.000000e+00 1214
17 TraesCS2B01G083700 chrUn 89.130 644 36 9 557 1192 385972096 385972713 0.000000e+00 771
18 TraesCS2B01G083700 chrUn 92.759 290 11 3 181 469 443366235 443365955 8.950000e-111 411
19 TraesCS2B01G083700 chrUn 85.759 316 39 5 318 628 465365810 465366124 2.580000e-86 329
20 TraesCS2B01G083700 chrUn 95.699 186 8 0 1 186 465365999 465365814 2.020000e-77 300
21 TraesCS2B01G083700 chr7A 82.328 1409 230 12 1029 2425 51090582 51091983 0.000000e+00 1205
22 TraesCS2B01G083700 chr7A 81.760 1409 238 12 1029 2425 51259211 51260612 0.000000e+00 1160
23 TraesCS2B01G083700 chr7A 81.064 1410 223 24 1029 2425 51201417 51202795 0.000000e+00 1085
24 TraesCS2B01G083700 chr7A 80.993 1410 226 22 1029 2425 51141438 51142818 0.000000e+00 1081
25 TraesCS2B01G083700 chr7A 93.909 706 35 6 2497 3202 12005619 12006316 0.000000e+00 1059
26 TraesCS2B01G083700 chr7A 88.782 312 29 5 1 312 169016531 169016226 9.080000e-101 377
27 TraesCS2B01G083700 chr7A 86.646 322 39 4 311 628 169015825 169015504 1.530000e-93 353
28 TraesCS2B01G083700 chr7A 76.836 708 98 41 2514 3202 114730267 114729607 4.280000e-89 339
29 TraesCS2B01G083700 chr7B 96.192 709 21 6 2497 3202 31556790 31557495 0.000000e+00 1155
30 TraesCS2B01G083700 chr7B 89.041 146 15 1 1 145 728807920 728807775 2.750000e-41 180
31 TraesCS2B01G083700 chr7D 93.074 693 29 5 2497 3189 509818114 509817441 0.000000e+00 996
32 TraesCS2B01G083700 chr7D 84.685 111 14 3 205 313 634676364 634676255 1.310000e-19 108
33 TraesCS2B01G083700 chr3B 78.571 1400 275 18 1000 2385 465887258 465885870 0.000000e+00 900
34 TraesCS2B01G083700 chr6D 85.598 736 53 21 2497 3188 428906207 428905481 0.000000e+00 723
35 TraesCS2B01G083700 chr6D 94.297 263 15 0 3202 3464 162262754 162262492 1.500000e-108 403
36 TraesCS2B01G083700 chr6D 94.636 261 13 1 3204 3464 467821315 467821574 1.500000e-108 403
37 TraesCS2B01G083700 chr1B 85.054 736 66 12 2502 3202 553122288 553123014 0.000000e+00 710
38 TraesCS2B01G083700 chr1B 96.957 230 7 0 3202 3431 358017460 358017231 1.510000e-103 387
39 TraesCS2B01G083700 chr1A 93.750 448 21 3 2497 2944 583871482 583871042 0.000000e+00 665
40 TraesCS2B01G083700 chr1A 92.446 278 14 5 2926 3202 583871023 583870752 1.170000e-104 390
41 TraesCS2B01G083700 chr6A 93.827 405 20 2 2557 2957 522625646 522626049 3.820000e-169 604
42 TraesCS2B01G083700 chr6A 92.000 250 16 3 2953 3202 522634831 522635076 7.120000e-92 348
43 TraesCS2B01G083700 chr4D 83.896 652 68 14 2577 3202 414369953 414370593 3.850000e-164 588
44 TraesCS2B01G083700 chr3A 85.015 327 30 9 1 310 560137266 560137590 7.220000e-82 315
45 TraesCS2B01G083700 chr3A 81.176 170 26 6 2594 2761 1217034 1217199 7.800000e-27 132
46 TraesCS2B01G083700 chr3D 86.879 282 33 4 348 627 120747528 120747249 2.600000e-81 313
47 TraesCS2B01G083700 chr3D 84.639 332 28 13 3 312 120747374 120747704 3.360000e-80 309
48 TraesCS2B01G083700 chr3D 91.156 147 13 0 1 147 120748295 120748149 2.110000e-47 200
49 TraesCS2B01G083700 chr4A 83.699 319 46 6 314 628 676218309 676217993 2.610000e-76 296
50 TraesCS2B01G083700 chr4A 81.250 352 53 11 287 628 676420171 676419823 4.410000e-69 272
51 TraesCS2B01G083700 chr4A 85.638 188 23 3 1 188 676218118 676218301 9.810000e-46 195
52 TraesCS2B01G083700 chr4A 84.375 192 22 4 1 188 676419948 676420135 7.640000e-42 182
53 TraesCS2B01G083700 chr6B 84.871 271 40 1 358 628 567498898 567498629 4.410000e-69 272
54 TraesCS2B01G083700 chr6B 89.796 147 15 0 1 147 82323338 82323192 4.560000e-44 189


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 TraesCS2B01G083700 chr2B 46676641 46680104 3463 False 6397.0 6397 100.0000 1 3464 1 chr2B.!!$F2 3463
1 TraesCS2B01G083700 chr2B 6178717 6180118 1401 False 1266.0 1266 83.1800 1033 2422 1 chr2B.!!$F1 1389
2 TraesCS2B01G083700 chr2B 713865022 713865711 689 True 1096.0 1096 95.1570 2502 3202 1 chr2B.!!$R2 700
3 TraesCS2B01G083700 chr2D 28964778 28966447 1669 False 2490.0 2490 93.5120 747 2426 1 chr2D.!!$F2 1679
4 TraesCS2B01G083700 chr2D 28914030 28915491 1461 True 2226.0 2226 94.1940 1022 2480 1 chr2D.!!$R1 1458
5 TraesCS2B01G083700 chr2D 5267265 5268663 1398 False 1284.0 1284 83.3810 1033 2422 1 chr2D.!!$F1 1389
6 TraesCS2B01G083700 chr2A 30864289 30866156 1867 False 2488.0 2488 90.9280 624 2476 1 chr2A.!!$F2 1852
7 TraesCS2B01G083700 chr2A 3816526 3817925 1399 False 1212.0 1212 82.4540 1033 2420 1 chr2A.!!$F1 1387
8 TraesCS2B01G083700 chrUn 370635270 370636787 1517 True 2146.0 2146 92.0800 181 1724 1 chrUn.!!$R1 1543
9 TraesCS2B01G083700 chrUn 247059505 247060172 667 False 1214.0 1214 99.4030 2795 3464 1 chrUn.!!$F1 669
10 TraesCS2B01G083700 chrUn 385972096 385972713 617 False 771.0 771 89.1300 557 1192 1 chrUn.!!$F2 635
11 TraesCS2B01G083700 chr7A 51090582 51091983 1401 False 1205.0 1205 82.3280 1029 2425 1 chr7A.!!$F2 1396
12 TraesCS2B01G083700 chr7A 51259211 51260612 1401 False 1160.0 1160 81.7600 1029 2425 1 chr7A.!!$F5 1396
13 TraesCS2B01G083700 chr7A 51201417 51202795 1378 False 1085.0 1085 81.0640 1029 2425 1 chr7A.!!$F4 1396
14 TraesCS2B01G083700 chr7A 51141438 51142818 1380 False 1081.0 1081 80.9930 1029 2425 1 chr7A.!!$F3 1396
15 TraesCS2B01G083700 chr7A 12005619 12006316 697 False 1059.0 1059 93.9090 2497 3202 1 chr7A.!!$F1 705
16 TraesCS2B01G083700 chr7A 169015504 169016531 1027 True 365.0 377 87.7140 1 628 2 chr7A.!!$R2 627
17 TraesCS2B01G083700 chr7A 114729607 114730267 660 True 339.0 339 76.8360 2514 3202 1 chr7A.!!$R1 688
18 TraesCS2B01G083700 chr7B 31556790 31557495 705 False 1155.0 1155 96.1920 2497 3202 1 chr7B.!!$F1 705
19 TraesCS2B01G083700 chr7D 509817441 509818114 673 True 996.0 996 93.0740 2497 3189 1 chr7D.!!$R1 692
20 TraesCS2B01G083700 chr3B 465885870 465887258 1388 True 900.0 900 78.5710 1000 2385 1 chr3B.!!$R1 1385
21 TraesCS2B01G083700 chr6D 428905481 428906207 726 True 723.0 723 85.5980 2497 3188 1 chr6D.!!$R2 691
22 TraesCS2B01G083700 chr1B 553122288 553123014 726 False 710.0 710 85.0540 2502 3202 1 chr1B.!!$F1 700
23 TraesCS2B01G083700 chr1A 583870752 583871482 730 True 527.5 665 93.0980 2497 3202 2 chr1A.!!$R1 705
24 TraesCS2B01G083700 chr4D 414369953 414370593 640 False 588.0 588 83.8960 2577 3202 1 chr4D.!!$F1 625
25 TraesCS2B01G083700 chr3D 120747249 120748295 1046 True 256.5 313 89.0175 1 627 2 chr3D.!!$R1 626

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
830 1658 0.243907 GCGAGAGGTACAGCTCAACA 59.756 55.0 10.78 0.0 32.76 3.33 F
836 1664 0.804989 GGTACAGCTCAACATGTGGC 59.195 55.0 0.00 4.8 0.00 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1956 2837 0.670854 GCGGCTCCTCGAACTTCTTT 60.671 55.000 0.00 0.0 0.0 2.52 R
2586 3502 1.002868 GTGTGCTGCATGGGAGAGT 60.003 57.895 5.27 0.0 0.0 3.24 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
33 34 2.680805 CGTGTTTATGACAGATGGGCCT 60.681 50.000 4.53 0.00 39.39 5.19
36 37 3.521531 TGTTTATGACAGATGGGCCTACA 59.478 43.478 4.53 0.00 33.40 2.74
62 63 2.380410 CGGACGTGGCACTGCTTAC 61.380 63.158 16.72 0.31 0.00 2.34
72 73 0.391661 CACTGCTTACCACCTCGCAT 60.392 55.000 0.00 0.00 0.00 4.73
246 450 2.203126 CTCGATTGGGGCAGAGGC 60.203 66.667 0.00 0.00 40.13 4.70
421 1228 6.608405 ACATGATCACACCATTAACATCCATT 59.392 34.615 0.00 0.00 0.00 3.16
508 1315 1.523934 ACGCTTAACCGAGACAAAACG 59.476 47.619 0.00 0.00 0.00 3.60
510 1317 2.410730 CGCTTAACCGAGACAAAACGAT 59.589 45.455 0.00 0.00 0.00 3.73
520 1327 4.166523 GAGACAAAACGATCGATCAGTGA 58.833 43.478 24.34 0.00 0.00 3.41
604 1411 8.137210 GTTTTCTGCAAACATAGCCTTTAAAA 57.863 30.769 0.00 0.00 43.93 1.52
606 1413 9.988815 TTTTCTGCAAACATAGCCTTTAAAATA 57.011 25.926 0.00 0.00 0.00 1.40
607 1414 9.638239 TTTCTGCAAACATAGCCTTTAAAATAG 57.362 29.630 0.00 0.00 0.00 1.73
608 1415 7.257722 TCTGCAAACATAGCCTTTAAAATAGC 58.742 34.615 0.00 0.00 0.00 2.97
636 1443 2.094417 GTGCAATTTACTCGAGCTCACC 59.906 50.000 13.61 0.00 0.00 4.02
822 1650 4.220413 CGAGAGGCGAGAGGTACA 57.780 61.111 0.00 0.00 44.57 2.90
823 1651 2.018544 CGAGAGGCGAGAGGTACAG 58.981 63.158 0.00 0.00 44.57 2.74
824 1652 1.731093 GAGAGGCGAGAGGTACAGC 59.269 63.158 0.00 0.00 0.00 4.40
825 1653 0.750182 GAGAGGCGAGAGGTACAGCT 60.750 60.000 0.00 0.00 0.00 4.24
826 1654 0.750182 AGAGGCGAGAGGTACAGCTC 60.750 60.000 0.07 0.07 0.00 4.09
827 1655 1.000771 AGGCGAGAGGTACAGCTCA 60.001 57.895 10.78 0.00 32.76 4.26
828 1656 0.612174 AGGCGAGAGGTACAGCTCAA 60.612 55.000 10.78 0.00 32.76 3.02
829 1657 0.458716 GGCGAGAGGTACAGCTCAAC 60.459 60.000 10.78 3.99 32.76 3.18
830 1658 0.243907 GCGAGAGGTACAGCTCAACA 59.756 55.000 10.78 0.00 32.76 3.33
831 1659 1.134965 GCGAGAGGTACAGCTCAACAT 60.135 52.381 10.78 0.00 32.76 2.71
832 1660 2.534298 CGAGAGGTACAGCTCAACATG 58.466 52.381 10.78 0.00 32.76 3.21
833 1661 2.094494 CGAGAGGTACAGCTCAACATGT 60.094 50.000 10.78 0.00 32.76 3.21
834 1662 3.257393 GAGAGGTACAGCTCAACATGTG 58.743 50.000 10.78 0.00 33.30 3.21
835 1663 2.027745 AGAGGTACAGCTCAACATGTGG 60.028 50.000 10.78 0.00 0.00 4.17
836 1664 0.804989 GGTACAGCTCAACATGTGGC 59.195 55.000 0.00 4.80 0.00 5.01
878 1726 4.421948 CGTCTATAAACTGCTCCGTTCTT 58.578 43.478 0.00 0.00 0.00 2.52
879 1727 4.499758 CGTCTATAAACTGCTCCGTTCTTC 59.500 45.833 0.00 0.00 0.00 2.87
967 1828 1.992277 ACCATTCTCCGGCAGAGCT 60.992 57.895 0.00 0.00 42.90 4.09
978 1840 2.436292 CAGAGCTGAGCAGGCACC 60.436 66.667 7.39 0.00 0.00 5.01
984 1846 3.170672 TGAGCAGGCACCACACCT 61.171 61.111 0.00 0.00 38.35 4.00
994 1856 2.266627 ACCACACCTCTCGTCGTCC 61.267 63.158 0.00 0.00 0.00 4.79
1602 2474 1.327690 TGGCGTACAGATGGTCCCTC 61.328 60.000 0.00 0.00 0.00 4.30
1641 2513 1.533711 CCGCTCCCAGGGAATCATT 59.466 57.895 10.32 0.00 0.00 2.57
2135 3016 2.637383 GGAACTCCGTGCTCGAGGT 61.637 63.158 15.58 3.87 39.71 3.85
2137 3018 1.863662 GAACTCCGTGCTCGAGGTGA 61.864 60.000 15.58 0.00 39.71 4.02
2240 3121 4.408821 GGCTGTGGCGGTGGATGA 62.409 66.667 0.00 0.00 39.81 2.92
2359 3246 3.272334 CTATGCGACGGGCCAAGC 61.272 66.667 4.39 6.09 42.61 4.01
2457 3348 0.387929 ACGTGAGTTCGGCTGAGAAA 59.612 50.000 0.00 0.00 46.40 2.52
2467 3358 2.233676 TCGGCTGAGAAAAGATAGTGCA 59.766 45.455 0.00 0.00 0.00 4.57
2481 3372 1.868997 GTGCAACTCATGGTCACGG 59.131 57.895 0.00 0.00 0.00 4.94
2482 3373 1.302431 TGCAACTCATGGTCACGGG 60.302 57.895 0.00 0.00 0.00 5.28
2483 3374 1.003839 GCAACTCATGGTCACGGGA 60.004 57.895 0.00 0.00 0.00 5.14
2484 3375 1.021390 GCAACTCATGGTCACGGGAG 61.021 60.000 0.00 0.00 0.00 4.30
2485 3376 0.608130 CAACTCATGGTCACGGGAGA 59.392 55.000 0.00 0.00 0.00 3.71
2486 3377 1.001974 CAACTCATGGTCACGGGAGAA 59.998 52.381 0.00 0.00 0.00 2.87
2487 3378 1.348064 ACTCATGGTCACGGGAGAAA 58.652 50.000 0.00 0.00 0.00 2.52
2488 3379 1.697432 ACTCATGGTCACGGGAGAAAA 59.303 47.619 0.00 0.00 0.00 2.29
2489 3380 2.289694 ACTCATGGTCACGGGAGAAAAG 60.290 50.000 0.00 0.00 0.00 2.27
2490 3381 0.804989 CATGGTCACGGGAGAAAAGC 59.195 55.000 0.00 0.00 0.00 3.51
2491 3382 0.400213 ATGGTCACGGGAGAAAAGCA 59.600 50.000 0.00 0.00 0.00 3.91
2492 3383 0.181587 TGGTCACGGGAGAAAAGCAA 59.818 50.000 0.00 0.00 0.00 3.91
2493 3384 1.202879 TGGTCACGGGAGAAAAGCAAT 60.203 47.619 0.00 0.00 0.00 3.56
2494 3385 1.886542 GGTCACGGGAGAAAAGCAATT 59.113 47.619 0.00 0.00 0.00 2.32
2495 3386 2.095212 GGTCACGGGAGAAAAGCAATTC 60.095 50.000 0.00 0.00 0.00 2.17
2519 3410 0.608856 ATGCATGGCTCAACCGTTGA 60.609 50.000 13.29 13.29 43.94 3.18
2586 3502 3.816398 TCACCCATTAATGAACCCACA 57.184 42.857 17.23 0.00 0.00 4.17
3151 4169 7.230913 GGAGTAACTACAAGTCATAGCCTCATA 59.769 40.741 0.00 0.00 0.00 2.15
3152 4170 8.172352 AGTAACTACAAGTCATAGCCTCATAG 57.828 38.462 0.00 0.00 0.00 2.23
3153 4171 7.780745 AGTAACTACAAGTCATAGCCTCATAGT 59.219 37.037 0.00 0.00 0.00 2.12
3380 4407 2.496899 ACACCCAACCAGATGATCAC 57.503 50.000 0.00 0.00 0.00 3.06
3424 4451 5.050126 AGCAAGATCATTCCATCAGTCAT 57.950 39.130 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 1.287815 CACGTCCGCCTGACTTGTA 59.712 57.895 0.00 0.00 42.13 2.41
36 37 4.681978 GCCACGTCCGCCTGACTT 62.682 66.667 0.00 0.00 42.13 3.01
45 46 2.033194 GGTAAGCAGTGCCACGTCC 61.033 63.158 12.58 4.14 30.87 4.79
62 63 1.079405 ACCGTTACATGCGAGGTGG 60.079 57.895 0.00 0.00 33.37 4.61
72 73 1.543607 TACCATCCGTCACCGTTACA 58.456 50.000 0.00 0.00 0.00 2.41
478 1285 3.916761 TCGGTTAAGCGTGTTTATGACT 58.083 40.909 24.71 0.00 0.00 3.41
508 1315 6.451571 CGTTTTGCAAAAATCACTGATCGATC 60.452 38.462 25.40 18.72 0.00 3.69
510 1317 4.674662 CGTTTTGCAAAAATCACTGATCGA 59.325 37.500 25.40 0.00 0.00 3.59
520 1327 7.096640 CGTCTTCTGTAATCGTTTTGCAAAAAT 60.097 33.333 25.40 14.02 0.00 1.82
592 1399 7.033185 CACAAAACCGCTATTTTAAAGGCTAT 58.967 34.615 0.00 0.00 30.57 2.97
600 1407 7.868415 AGTAAATTGCACAAAACCGCTATTTTA 59.132 29.630 8.59 0.00 41.52 1.52
604 1411 5.385509 AGTAAATTGCACAAAACCGCTAT 57.614 34.783 0.00 0.00 0.00 2.97
606 1413 3.638484 GAGTAAATTGCACAAAACCGCT 58.362 40.909 0.00 0.00 0.00 5.52
607 1414 2.403698 CGAGTAAATTGCACAAAACCGC 59.596 45.455 0.00 0.00 0.00 5.68
608 1415 3.879427 TCGAGTAAATTGCACAAAACCG 58.121 40.909 0.00 0.00 0.00 4.44
812 1640 2.094494 ACATGTTGAGCTGTACCTCTCG 60.094 50.000 0.00 0.00 33.02 4.04
813 1641 3.257393 CACATGTTGAGCTGTACCTCTC 58.743 50.000 0.00 4.94 33.02 3.20
814 1642 2.027745 CCACATGTTGAGCTGTACCTCT 60.028 50.000 0.00 0.00 33.02 3.69
815 1643 2.350522 CCACATGTTGAGCTGTACCTC 58.649 52.381 0.00 0.00 0.00 3.85
816 1644 1.611673 GCCACATGTTGAGCTGTACCT 60.612 52.381 0.14 0.00 0.00 3.08
817 1645 0.804989 GCCACATGTTGAGCTGTACC 59.195 55.000 0.14 0.00 0.00 3.34
818 1646 0.804989 GGCCACATGTTGAGCTGTAC 59.195 55.000 0.00 0.00 0.00 2.90
819 1647 0.399833 TGGCCACATGTTGAGCTGTA 59.600 50.000 0.00 0.00 0.00 2.74
820 1648 1.151221 TGGCCACATGTTGAGCTGT 59.849 52.632 0.00 0.00 0.00 4.40
821 1649 1.174078 TGTGGCCACATGTTGAGCTG 61.174 55.000 34.74 0.00 36.21 4.24
822 1650 1.151221 TGTGGCCACATGTTGAGCT 59.849 52.632 34.74 0.00 36.21 4.09
823 1651 1.286880 GTGTGGCCACATGTTGAGC 59.713 57.895 39.53 21.96 43.97 4.26
824 1652 1.575922 CGTGTGGCCACATGTTGAG 59.424 57.895 39.05 23.50 43.97 3.02
825 1653 2.551006 GCGTGTGGCCACATGTTGA 61.551 57.895 43.30 21.45 46.99 3.18
826 1654 2.050168 GCGTGTGGCCACATGTTG 60.050 61.111 43.30 31.55 46.99 3.33
827 1655 2.518112 TGCGTGTGGCCACATGTT 60.518 55.556 43.30 0.00 46.99 2.71
828 1656 2.979676 CTGCGTGTGGCCACATGT 60.980 61.111 43.30 0.00 46.99 3.21
878 1726 2.099263 GGAGATGATGAACGACGGAAGA 59.901 50.000 0.00 0.00 0.00 2.87
879 1727 2.159240 TGGAGATGATGAACGACGGAAG 60.159 50.000 0.00 0.00 0.00 3.46
967 1828 3.170672 AGGTGTGGTGCCTGCTCA 61.171 61.111 0.00 0.00 34.56 4.26
1348 2219 1.734047 GCTGCAGAAGAAGTCGACGAT 60.734 52.381 20.43 2.88 0.00 3.73
1407 2278 3.367087 CGGGAGACGTGAAGAAACAGTAT 60.367 47.826 0.00 0.00 37.93 2.12
1438 2309 3.244387 GGCAAATACAGGGAAAAAGCCAA 60.244 43.478 0.00 0.00 39.35 4.52
1548 2419 4.351054 AGCGGCTTGGGGAAGTGG 62.351 66.667 0.00 0.00 0.00 4.00
1602 2474 2.283966 AGGTCGGGGGACACTCTG 60.284 66.667 0.00 0.00 0.00 3.35
1641 2513 1.300620 CGAGCGGAAGGTGTTGACA 60.301 57.895 0.00 0.00 45.11 3.58
1902 2777 2.037136 CAGGAACCTCTTGCCGCTG 61.037 63.158 0.00 0.00 0.00 5.18
1956 2837 0.670854 GCGGCTCCTCGAACTTCTTT 60.671 55.000 0.00 0.00 0.00 2.52
2240 3121 3.054361 GTCCACCACCTCCTTGTCATATT 60.054 47.826 0.00 0.00 0.00 1.28
2457 3348 4.256920 GTGACCATGAGTTGCACTATCTT 58.743 43.478 0.00 0.00 0.00 2.40
2467 3358 1.348064 TTCTCCCGTGACCATGAGTT 58.652 50.000 0.00 0.00 0.00 3.01
2483 3374 3.167485 TGCATGGGAGAATTGCTTTTCT 58.833 40.909 0.00 1.95 38.65 2.52
2484 3375 3.598019 TGCATGGGAGAATTGCTTTTC 57.402 42.857 0.00 0.00 37.28 2.29
2485 3376 3.370103 CCATGCATGGGAGAATTGCTTTT 60.370 43.478 34.31 0.00 44.31 2.27
2486 3377 2.169769 CCATGCATGGGAGAATTGCTTT 59.830 45.455 34.31 0.00 44.31 3.51
2487 3378 1.760613 CCATGCATGGGAGAATTGCTT 59.239 47.619 34.31 0.00 44.31 3.91
2488 3379 1.410004 CCATGCATGGGAGAATTGCT 58.590 50.000 34.31 0.00 44.31 3.91
2489 3380 3.980583 CCATGCATGGGAGAATTGC 57.019 52.632 34.31 0.00 44.31 3.56
2519 3410 7.667557 CATGCATCCAAATCTCCATCTAAATT 58.332 34.615 0.00 0.00 0.00 1.82
2586 3502 1.002868 GTGTGCTGCATGGGAGAGT 60.003 57.895 5.27 0.00 0.00 3.24
3151 4169 1.635487 TGTCCCACCGTACTACCTACT 59.365 52.381 0.00 0.00 0.00 2.57
3152 4170 1.745653 GTGTCCCACCGTACTACCTAC 59.254 57.143 0.00 0.00 0.00 3.18
3153 4171 1.635487 AGTGTCCCACCGTACTACCTA 59.365 52.381 0.00 0.00 34.49 3.08
3210 4237 0.685785 TGGTGCCTTGCTTTGTTCCA 60.686 50.000 0.00 0.00 0.00 3.53
3211 4238 0.463620 TTGGTGCCTTGCTTTGTTCC 59.536 50.000 0.00 0.00 0.00 3.62
3380 4407 3.438781 TCTGTGCTTTGTAAATTAGCCGG 59.561 43.478 0.00 0.00 34.03 6.13


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

AutoCloner maintained by Alex Coulton.