Multiple sequence alignment - TraesCS2B01G439800

Loading Multiple Alignment...

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 TraesCS2B01G439800 chr2B 100.000 2566 0 0 1 2566 631699506 631702071 0.000000e+00 4739.0
1 TraesCS2B01G439800 chr2B 80.263 304 30 19 960 1249 631601685 631601972 4.330000e-48 202.0
2 TraesCS2B01G439800 chr2A 88.386 1171 62 35 525 1642 676378289 676379438 0.000000e+00 1341.0
3 TraesCS2B01G439800 chr2A 88.605 509 41 8 2059 2566 676380550 676381042 1.020000e-168 603.0
4 TraesCS2B01G439800 chr2A 86.420 405 24 10 1692 2075 676380137 676380531 5.110000e-112 414.0
5 TraesCS2B01G439800 chr2A 81.126 302 37 11 960 1249 676371289 676371582 9.240000e-55 224.0
6 TraesCS2B01G439800 chr2A 90.173 173 12 4 1271 1443 676371647 676371814 1.200000e-53 220.0
7 TraesCS2B01G439800 chr2A 98.000 50 1 0 1492 1541 676379246 676379295 1.260000e-13 87.9
8 TraesCS2B01G439800 chr2D 91.555 971 41 20 525 1470 531894831 531895785 0.000000e+00 1301.0
9 TraesCS2B01G439800 chr2D 87.405 1056 76 16 1539 2566 531895869 531896895 0.000000e+00 1160.0
10 TraesCS2B01G439800 chr2D 85.255 529 62 7 1 529 407977316 407977828 4.860000e-147 531.0
11 TraesCS2B01G439800 chr2D 88.000 175 15 2 1078 1249 531711823 531711994 4.330000e-48 202.0
12 TraesCS2B01G439800 chr2D 96.078 51 1 1 1492 1542 531895773 531895822 5.880000e-12 82.4
13 TraesCS2B01G439800 chr1B 85.897 390 44 4 1 389 548963119 548963498 3.070000e-109 405.0
14 TraesCS2B01G439800 chr3B 79.468 526 82 13 5 525 737464219 737463715 1.460000e-92 350.0
15 TraesCS2B01G439800 chr3B 78.327 526 88 13 5 525 737499470 737498966 1.480000e-82 316.0
16 TraesCS2B01G439800 chr5D 76.040 505 80 20 5 500 528790556 528791028 9.240000e-55 224.0
17 TraesCS2B01G439800 chr6B 80.488 82 16 0 2367 2448 113899937 113899856 2.130000e-06 63.9
18 TraesCS2B01G439800 chr7A 88.889 45 2 1 1543 1584 618230364 618230408 5.000000e-03 52.8


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 TraesCS2B01G439800 chr2B 631699506 631702071 2565 False 4739.000 4739 100.000000 1 2566 1 chr2B.!!$F2 2565
1 TraesCS2B01G439800 chr2A 676378289 676381042 2753 False 611.475 1341 90.352750 525 2566 4 chr2A.!!$F2 2041
2 TraesCS2B01G439800 chr2A 676371289 676371814 525 False 222.000 224 85.649500 960 1443 2 chr2A.!!$F1 483
3 TraesCS2B01G439800 chr2D 531894831 531896895 2064 False 847.800 1301 91.679333 525 2566 3 chr2D.!!$F3 2041
4 TraesCS2B01G439800 chr2D 407977316 407977828 512 False 531.000 531 85.255000 1 529 1 chr2D.!!$F1 528
5 TraesCS2B01G439800 chr3B 737463715 737464219 504 True 350.000 350 79.468000 5 525 1 chr3B.!!$R1 520
6 TraesCS2B01G439800 chr3B 737498966 737499470 504 True 316.000 316 78.327000 5 525 1 chr3B.!!$R2 520

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
946 955 0.320421 GCGGCTAAGGAATATCGCCA 60.32 55.0 0.0 0.0 40.72 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1942 2784 0.035176 ACCCCATGCAACATGTTTGC 59.965 50.0 19.66 19.66 45.11 3.68 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
26 27 1.153086 CTAGCAAGCCGGCCAGATT 60.153 57.895 26.15 8.05 0.00 2.40
28 29 0.544223 TAGCAAGCCGGCCAGATTTA 59.456 50.000 26.15 5.82 0.00 1.40
30 31 1.721487 CAAGCCGGCCAGATTTACG 59.279 57.895 26.15 0.00 0.00 3.18
195 196 3.499737 CAACTGCCGGATCCACGC 61.500 66.667 13.41 13.10 0.00 5.34
205 206 4.087892 ATCCACGCGCCAAGAGCT 62.088 61.111 5.73 0.00 40.39 4.09
249 250 2.356313 CACAACGCGAGGAGCTGT 60.356 61.111 15.93 2.91 45.59 4.40
270 272 2.675423 AGCACCACCGAGACGCTA 60.675 61.111 0.00 0.00 0.00 4.26
293 295 3.716195 CCGAGCACCACCATCCCA 61.716 66.667 0.00 0.00 0.00 4.37
294 296 2.591753 CGAGCACCACCATCCCAT 59.408 61.111 0.00 0.00 0.00 4.00
298 300 2.045045 CACCACCATCCCATGCGT 60.045 61.111 0.00 0.00 0.00 5.24
301 303 1.525995 CCACCATCCCATGCGTACC 60.526 63.158 0.00 0.00 0.00 3.34
335 337 4.179579 GCCTCGCCAAATCCGCAC 62.180 66.667 0.00 0.00 0.00 5.34
341 343 3.451894 CCAAATCCGCACCTGGCC 61.452 66.667 0.00 0.00 40.31 5.36
343 345 4.344865 AAATCCGCACCTGGCCGT 62.345 61.111 0.00 0.00 40.31 5.68
397 399 4.749310 CGCCGCCAGAGAGCAGTT 62.749 66.667 0.00 0.00 0.00 3.16
402 404 2.297129 GCCAGAGAGCAGTTCCCCT 61.297 63.158 0.00 0.00 0.00 4.79
403 405 1.904032 CCAGAGAGCAGTTCCCCTC 59.096 63.158 0.00 0.00 0.00 4.30
425 427 4.690719 CGGCACCACACGGGCTTA 62.691 66.667 0.00 0.00 42.05 3.09
467 469 4.144727 GCGGGAGAGGAGAGGGGA 62.145 72.222 0.00 0.00 0.00 4.81
468 470 2.197324 CGGGAGAGGAGAGGGGAG 59.803 72.222 0.00 0.00 0.00 4.30
469 471 2.612251 GGGAGAGGAGAGGGGAGG 59.388 72.222 0.00 0.00 0.00 4.30
470 472 2.015726 GGGAGAGGAGAGGGGAGGA 61.016 68.421 0.00 0.00 0.00 3.71
471 473 1.541672 GGAGAGGAGAGGGGAGGAG 59.458 68.421 0.00 0.00 0.00 3.69
472 474 1.541672 GAGAGGAGAGGGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
473 475 1.230819 AGAGGAGAGGGGAGGAGGT 60.231 63.158 0.00 0.00 0.00 3.85
474 476 1.075600 GAGGAGAGGGGAGGAGGTG 60.076 68.421 0.00 0.00 0.00 4.00
475 477 2.041405 GGAGAGGGGAGGAGGTGG 60.041 72.222 0.00 0.00 0.00 4.61
476 478 2.766229 GAGAGGGGAGGAGGTGGC 60.766 72.222 0.00 0.00 0.00 5.01
477 479 4.423209 AGAGGGGAGGAGGTGGCC 62.423 72.222 0.00 0.00 0.00 5.36
485 487 4.660938 GGAGGTGGCCGCTGGTTT 62.661 66.667 17.49 0.00 0.00 3.27
486 488 2.349755 GAGGTGGCCGCTGGTTTA 59.650 61.111 17.49 0.00 0.00 2.01
487 489 1.745489 GAGGTGGCCGCTGGTTTAG 60.745 63.158 17.49 0.00 0.00 1.85
488 490 2.750237 GGTGGCCGCTGGTTTAGG 60.750 66.667 17.49 0.00 0.00 2.69
489 491 2.750237 GTGGCCGCTGGTTTAGGG 60.750 66.667 9.68 0.00 38.97 3.53
491 493 4.426313 GGCCGCTGGTTTAGGGCT 62.426 66.667 0.54 0.00 45.77 5.19
492 494 3.134127 GCCGCTGGTTTAGGGCTG 61.134 66.667 0.00 0.00 38.77 4.85
493 495 2.438434 CCGCTGGTTTAGGGCTGG 60.438 66.667 0.00 0.00 37.99 4.85
494 496 2.438434 CGCTGGTTTAGGGCTGGG 60.438 66.667 0.00 0.00 32.19 4.45
495 497 2.043953 GCTGGTTTAGGGCTGGGG 60.044 66.667 0.00 0.00 0.00 4.96
496 498 2.043953 CTGGTTTAGGGCTGGGGC 60.044 66.667 0.00 0.00 37.82 5.80
497 499 3.995506 CTGGTTTAGGGCTGGGGCG 62.996 68.421 0.00 0.00 39.81 6.13
608 610 0.901827 TCAAACCTCGCCAGCTATGA 59.098 50.000 0.00 0.00 0.00 2.15
612 614 0.460284 ACCTCGCCAGCTATGAAACG 60.460 55.000 0.00 0.00 0.00 3.60
805 812 0.508641 CTGAGTGACGCCTTTCAACG 59.491 55.000 0.00 0.00 0.00 4.10
880 887 4.129737 CGTGTGATCGCCGGACCT 62.130 66.667 5.05 0.00 0.00 3.85
900 909 1.342819 TGCGACCCTTTGAAATTTGGG 59.657 47.619 9.28 9.28 44.89 4.12
936 945 2.199236 CTTAGGTTTACGCGGCTAAGG 58.801 52.381 12.47 0.00 0.00 2.69
940 949 2.431782 AGGTTTACGCGGCTAAGGAATA 59.568 45.455 12.47 0.00 0.00 1.75
942 951 3.431233 GGTTTACGCGGCTAAGGAATATC 59.569 47.826 12.47 0.00 0.00 1.63
943 952 2.624316 TACGCGGCTAAGGAATATCG 57.376 50.000 12.47 0.00 0.00 2.92
946 955 0.320421 GCGGCTAAGGAATATCGCCA 60.320 55.000 0.00 0.00 40.72 5.69
986 1003 0.326595 TAAAGGGTCGCAATGCTCCA 59.673 50.000 15.51 0.00 0.00 3.86
995 1012 2.159184 TCGCAATGCTCCAGTAGAAGAG 60.159 50.000 2.94 0.00 0.00 2.85
1076 1105 1.069906 GTTGCGTTTCTCTGTGCGATT 60.070 47.619 0.00 0.00 0.00 3.34
1262 1338 1.138247 GTACGGCCACTCGATCGTT 59.862 57.895 15.94 0.04 37.10 3.85
1401 1493 0.952010 GTTCGTACCGCCAACACCAT 60.952 55.000 0.00 0.00 0.00 3.55
1502 1598 4.560396 TTTTGCGGTTTATCGTACGTAC 57.440 40.909 15.90 15.90 0.00 3.67
1545 1718 5.680229 CGAGATTTGTATGACGGTGTACTAC 59.320 44.000 0.00 0.00 0.00 2.73
1634 1826 6.701340 TGGCCTCATACTGTATCATTGATAC 58.299 40.000 23.96 23.96 43.49 2.24
1672 1889 3.365364 CCTTGGTCTCTTCATTTCGTTGC 60.365 47.826 0.00 0.00 0.00 4.17
1697 1914 3.737266 ACGAATTACACGTAACACCAGTG 59.263 43.478 0.00 0.00 42.17 3.66
1745 2586 4.753233 AGGATTCTGATTGTCTGTTCGAG 58.247 43.478 0.00 0.00 0.00 4.04
1787 2628 8.091449 TCCAGAAGTGTTTTGTGTTGTTATTTT 58.909 29.630 0.00 0.00 0.00 1.82
1898 2740 7.706281 TTTGTTGGCACATACAGTAATTTTG 57.294 32.000 0.00 0.00 39.30 2.44
1918 2760 2.997303 TGTATACCACATGCACGTGTTC 59.003 45.455 18.38 1.32 34.98 3.18
1942 2784 3.837213 ATGAAAAATGCTGTCTCACGG 57.163 42.857 0.00 0.00 0.00 4.94
1984 2868 7.312899 GGTTTTTATGTTGGAATTGAGTCGAT 58.687 34.615 0.00 0.00 0.00 3.59
2009 2893 2.123425 CTAGGGAGCTGGCCGGTA 60.123 66.667 14.55 0.00 0.00 4.02
2055 2939 6.441093 TGGCTTAAGATAAGTGATTGCAAG 57.559 37.500 6.67 0.00 0.00 4.01
2142 3054 5.165961 TCAAATTTGACCAGCTAGCTACT 57.834 39.130 18.86 4.80 31.01 2.57
2146 3058 0.034380 TGACCAGCTAGCTACTCCGT 60.034 55.000 18.86 8.51 0.00 4.69
2147 3059 1.211212 TGACCAGCTAGCTACTCCGTA 59.789 52.381 18.86 0.00 0.00 4.02
2148 3060 2.158652 TGACCAGCTAGCTACTCCGTAT 60.159 50.000 18.86 0.00 0.00 3.06
2149 3061 2.885894 GACCAGCTAGCTACTCCGTATT 59.114 50.000 18.86 0.00 0.00 1.89
2150 3062 3.297736 ACCAGCTAGCTACTCCGTATTT 58.702 45.455 18.86 0.00 0.00 1.40
2151 3063 3.318557 ACCAGCTAGCTACTCCGTATTTC 59.681 47.826 18.86 0.00 0.00 2.17
2168 3080 2.380084 TTCGGAGACACAATGTAGGC 57.620 50.000 0.00 0.00 34.32 3.93
2173 3085 3.347216 GGAGACACAATGTAGGCAATGT 58.653 45.455 0.00 0.00 39.14 2.71
2193 3105 7.646922 GCAATGTCAAGAATTATTGTCCTCATC 59.353 37.037 12.28 1.51 34.04 2.92
2215 3127 4.093011 CCAAAAGAACATATTGGACCCCA 58.907 43.478 0.00 0.00 45.14 4.96
2255 3167 7.736893 ACTTCACCTGTTACAGAACTCTAAAT 58.263 34.615 14.66 0.00 36.45 1.40
2263 3175 9.706691 CTGTTACAGAACTCTAAATTTGACCTA 57.293 33.333 6.50 0.00 36.45 3.08
2268 3180 9.793259 ACAGAACTCTAAATTTGACCTATTTCA 57.207 29.630 0.00 0.00 0.00 2.69
2383 3295 8.040132 CGCTATACCTAAGTATGTACTACCTCT 58.960 40.741 0.00 0.00 39.58 3.69
2396 3308 6.734532 TGTACTACCTCTGTCTGGGTTTATA 58.265 40.000 0.00 0.00 37.07 0.98
2397 3309 6.832384 TGTACTACCTCTGTCTGGGTTTATAG 59.168 42.308 0.00 0.00 37.07 1.31
2402 3314 4.290942 CTCTGTCTGGGTTTATAGGTCCT 58.709 47.826 0.00 0.00 0.00 3.85
2406 3318 4.715297 TGTCTGGGTTTATAGGTCCTCTTC 59.285 45.833 0.00 0.00 0.00 2.87
2407 3319 4.715297 GTCTGGGTTTATAGGTCCTCTTCA 59.285 45.833 0.00 0.00 0.00 3.02
2498 3411 6.435430 TGGTTGGATTCATATTCGAAAGTG 57.565 37.500 0.00 4.28 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
195 196 2.109126 GGCTTGGTAGCTCTTGGCG 61.109 63.158 0.00 0.00 46.90 5.69
205 206 4.849310 GATGGCGGCGGCTTGGTA 62.849 66.667 33.21 14.20 39.81 3.25
314 316 2.435938 GGATTTGGCGAGGCGACA 60.436 61.111 0.00 0.00 45.89 4.35
321 323 2.745884 CAGGTGCGGATTTGGCGA 60.746 61.111 0.00 0.00 0.00 5.54
450 452 4.144727 TCCCCTCTCCTCTCCCGC 62.145 72.222 0.00 0.00 0.00 6.13
451 453 2.197324 CTCCCCTCTCCTCTCCCG 59.803 72.222 0.00 0.00 0.00 5.14
452 454 2.015726 TCCTCCCCTCTCCTCTCCC 61.016 68.421 0.00 0.00 0.00 4.30
453 455 1.541672 CTCCTCCCCTCTCCTCTCC 59.458 68.421 0.00 0.00 0.00 3.71
454 456 1.293683 ACCTCCTCCCCTCTCCTCTC 61.294 65.000 0.00 0.00 0.00 3.20
455 457 1.230819 ACCTCCTCCCCTCTCCTCT 60.231 63.158 0.00 0.00 0.00 3.69
456 458 1.075600 CACCTCCTCCCCTCTCCTC 60.076 68.421 0.00 0.00 0.00 3.71
457 459 2.641746 CCACCTCCTCCCCTCTCCT 61.642 68.421 0.00 0.00 0.00 3.69
458 460 2.041405 CCACCTCCTCCCCTCTCC 60.041 72.222 0.00 0.00 0.00 3.71
459 461 2.766229 GCCACCTCCTCCCCTCTC 60.766 72.222 0.00 0.00 0.00 3.20
460 462 4.423209 GGCCACCTCCTCCCCTCT 62.423 72.222 0.00 0.00 0.00 3.69
468 470 3.262448 TAAACCAGCGGCCACCTCC 62.262 63.158 2.24 0.00 0.00 4.30
469 471 1.745489 CTAAACCAGCGGCCACCTC 60.745 63.158 2.24 0.00 0.00 3.85
470 472 2.351276 CTAAACCAGCGGCCACCT 59.649 61.111 2.24 0.00 0.00 4.00
471 473 2.750237 CCTAAACCAGCGGCCACC 60.750 66.667 2.24 0.00 0.00 4.61
472 474 2.750237 CCCTAAACCAGCGGCCAC 60.750 66.667 2.24 0.00 0.00 5.01
473 475 4.733542 GCCCTAAACCAGCGGCCA 62.734 66.667 2.24 0.00 35.61 5.36
474 476 4.426313 AGCCCTAAACCAGCGGCC 62.426 66.667 0.00 0.00 39.93 6.13
475 477 3.134127 CAGCCCTAAACCAGCGGC 61.134 66.667 0.00 0.00 39.58 6.53
476 478 2.438434 CCAGCCCTAAACCAGCGG 60.438 66.667 0.00 0.00 0.00 5.52
477 479 2.438434 CCCAGCCCTAAACCAGCG 60.438 66.667 0.00 0.00 0.00 5.18
478 480 2.043953 CCCCAGCCCTAAACCAGC 60.044 66.667 0.00 0.00 0.00 4.85
479 481 2.043953 GCCCCAGCCCTAAACCAG 60.044 66.667 0.00 0.00 0.00 4.00
480 482 4.041762 CGCCCCAGCCCTAAACCA 62.042 66.667 0.00 0.00 34.57 3.67
510 512 4.514577 CTACCGTGCCGCTCCAGG 62.515 72.222 0.00 0.00 0.00 4.45
513 515 4.874977 GAGCTACCGTGCCGCTCC 62.875 72.222 0.00 0.00 43.22 4.70
515 517 4.436998 GTGAGCTACCGTGCCGCT 62.437 66.667 0.00 0.00 36.57 5.52
676 678 0.900647 CTGGACTGGACTCGGTTCCT 60.901 60.000 5.03 0.00 36.51 3.36
805 812 3.504863 TCATTTACTCTGGTAACGCGTC 58.495 45.455 14.44 0.00 37.61 5.19
816 823 1.002773 ACGGCGGGTTTCATTTACTCT 59.997 47.619 13.24 0.00 0.00 3.24
880 887 1.342819 CCCAAATTTCAAAGGGTCGCA 59.657 47.619 3.60 0.00 36.52 5.10
900 909 1.396996 CTAAGGCGGTTGCACACATAC 59.603 52.381 0.00 0.00 45.35 2.39
936 945 1.792949 GACACCACGATGGCGATATTC 59.207 52.381 4.23 0.00 42.67 1.75
940 949 0.107703 ATTGACACCACGATGGCGAT 60.108 50.000 4.23 0.00 42.67 4.58
942 951 1.018752 TGATTGACACCACGATGGCG 61.019 55.000 4.23 0.00 42.67 5.69
943 952 0.447801 GTGATTGACACCACGATGGC 59.552 55.000 4.23 0.00 42.67 4.40
986 1003 4.218635 TCGAGTTTGTGATGCTCTTCTACT 59.781 41.667 0.00 0.00 0.00 2.57
995 1012 1.392853 CTGCTCTCGAGTTTGTGATGC 59.607 52.381 13.13 6.02 0.00 3.91
1076 1105 1.813859 CGGGTAGCTCATGGTCGAA 59.186 57.895 0.00 0.00 0.00 3.71
1262 1338 5.876357 ACAGAAAAGCAGTGGGTAATCTTA 58.124 37.500 0.00 0.00 0.00 2.10
1401 1493 5.714047 GATGTAGATCATCGTAGGATTGCA 58.286 41.667 0.00 0.00 42.57 4.08
1480 1576 4.683781 AGTACGTACGATAAACCGCAAAAA 59.316 37.500 24.41 0.00 0.00 1.94
1481 1577 4.233789 AGTACGTACGATAAACCGCAAAA 58.766 39.130 24.41 0.00 0.00 2.44
1482 1578 3.832276 AGTACGTACGATAAACCGCAAA 58.168 40.909 24.41 0.00 0.00 3.68
1483 1579 3.485947 AGTACGTACGATAAACCGCAA 57.514 42.857 24.41 0.00 0.00 4.85
1484 1580 4.811555 ATAGTACGTACGATAAACCGCA 57.188 40.909 24.41 3.63 0.00 5.69
1485 1581 5.455525 ACAAATAGTACGTACGATAAACCGC 59.544 40.000 24.41 2.52 0.00 5.68
1486 1582 6.558433 GCACAAATAGTACGTACGATAAACCG 60.558 42.308 24.41 10.08 0.00 4.44
1487 1583 6.473455 AGCACAAATAGTACGTACGATAAACC 59.527 38.462 24.41 9.14 0.00 3.27
1488 1584 7.008628 ACAGCACAAATAGTACGTACGATAAAC 59.991 37.037 24.41 13.63 0.00 2.01
1489 1585 7.028962 ACAGCACAAATAGTACGTACGATAAA 58.971 34.615 24.41 4.91 0.00 1.40
1490 1586 6.554419 ACAGCACAAATAGTACGTACGATAA 58.446 36.000 24.41 8.35 0.00 1.75
1491 1587 6.122850 ACAGCACAAATAGTACGTACGATA 57.877 37.500 24.41 11.82 0.00 2.92
1492 1588 4.990257 ACAGCACAAATAGTACGTACGAT 58.010 39.130 24.41 17.01 0.00 3.73
1493 1589 4.424061 ACAGCACAAATAGTACGTACGA 57.576 40.909 24.41 15.37 0.00 3.43
1494 1590 4.258743 CGAACAGCACAAATAGTACGTACG 60.259 45.833 19.49 15.01 0.00 3.67
1495 1591 4.030977 CCGAACAGCACAAATAGTACGTAC 59.969 45.833 18.10 18.10 0.00 3.67
1496 1592 4.082841 TCCGAACAGCACAAATAGTACGTA 60.083 41.667 0.00 0.00 0.00 3.57
1497 1593 2.991190 CCGAACAGCACAAATAGTACGT 59.009 45.455 0.00 0.00 0.00 3.57
1498 1594 3.247442 TCCGAACAGCACAAATAGTACG 58.753 45.455 0.00 0.00 0.00 3.67
1502 1598 3.186909 TCGATCCGAACAGCACAAATAG 58.813 45.455 0.00 0.00 31.06 1.73
1545 1718 5.233689 GTCATTTATTTCCGAACGGAGGTAG 59.766 44.000 15.34 4.86 46.06 3.18
1643 1835 2.964209 TGAAGAGACCAAGGACTCTGT 58.036 47.619 19.14 10.92 43.98 3.41
1647 1839 3.325135 ACGAAATGAAGAGACCAAGGACT 59.675 43.478 0.00 0.00 0.00 3.85
1648 1840 3.665190 ACGAAATGAAGAGACCAAGGAC 58.335 45.455 0.00 0.00 0.00 3.85
1650 1842 3.365364 GCAACGAAATGAAGAGACCAAGG 60.365 47.826 0.00 0.00 0.00 3.61
1652 1844 2.552315 GGCAACGAAATGAAGAGACCAA 59.448 45.455 0.00 0.00 0.00 3.67
1672 1889 4.484236 TGGTGTTACGTGTAATTCGTAGG 58.516 43.478 0.00 0.00 43.01 3.18
1697 1914 0.179081 GTCGCCTGGAATCCTGGTAC 60.179 60.000 23.51 18.16 43.39 3.34
1745 2586 3.084039 TCTGGAGCATGAACCAAATCAC 58.916 45.455 11.39 0.00 35.67 3.06
1787 2628 8.846943 AATCATCGGAAGTAACATATGCAATA 57.153 30.769 1.58 0.00 0.00 1.90
1795 2636 5.415701 ACAAGCAAATCATCGGAAGTAACAT 59.584 36.000 0.00 0.00 0.00 2.71
1829 2670 6.128607 TGCAACAAATAATTGGAGAAATTGCG 60.129 34.615 8.74 0.00 40.81 4.85
1869 2710 9.988815 AATTACTGTATGTGCCAACAAAAATTA 57.011 25.926 0.00 0.00 40.46 1.40
1870 2711 8.900983 AATTACTGTATGTGCCAACAAAAATT 57.099 26.923 0.00 0.00 40.46 1.82
1871 2712 8.900983 AAATTACTGTATGTGCCAACAAAAAT 57.099 26.923 0.00 0.00 40.46 1.82
1872 2713 8.607459 CAAAATTACTGTATGTGCCAACAAAAA 58.393 29.630 0.00 0.00 40.46 1.94
1873 2714 7.766278 ACAAAATTACTGTATGTGCCAACAAAA 59.234 29.630 0.00 0.00 40.46 2.44
1874 2715 7.268586 ACAAAATTACTGTATGTGCCAACAAA 58.731 30.769 0.00 0.00 40.46 2.83
1875 2716 6.810911 ACAAAATTACTGTATGTGCCAACAA 58.189 32.000 0.00 0.00 40.46 2.83
1876 2717 6.398234 ACAAAATTACTGTATGTGCCAACA 57.602 33.333 0.00 0.00 41.58 3.33
1898 2740 2.997303 TGAACACGTGCATGTGGTATAC 59.003 45.455 35.60 21.94 40.61 1.47
1918 2760 4.849926 CGTGAGACAGCATTTTTCATTCTG 59.150 41.667 0.00 0.00 0.00 3.02
1942 2784 0.035176 ACCCCATGCAACATGTTTGC 59.965 50.000 19.66 19.66 45.11 3.68
2009 2893 6.449698 CAATGCTTGGCGATATTTTTATCCT 58.550 36.000 0.00 0.00 0.00 3.24
2055 2939 1.495951 CGCCACGGAGCAAGTTAAC 59.504 57.895 0.00 0.00 0.00 2.01
2075 2959 1.033746 CACTCACCATGGGCCATGAC 61.034 60.000 41.10 0.00 43.81 3.06
2077 2961 0.612732 AACACTCACCATGGGCCATG 60.613 55.000 34.76 34.76 41.10 3.66
2078 2962 0.612732 CAACACTCACCATGGGCCAT 60.613 55.000 14.78 14.78 0.00 4.40
2079 2963 1.228521 CAACACTCACCATGGGCCA 60.229 57.895 18.09 9.61 0.00 5.36
2082 2994 2.489329 GACATTCAACACTCACCATGGG 59.511 50.000 18.09 5.22 0.00 4.00
2146 3058 4.081365 TGCCTACATTGTGTCTCCGAAATA 60.081 41.667 0.00 0.00 0.00 1.40
2147 3059 3.270877 GCCTACATTGTGTCTCCGAAAT 58.729 45.455 0.00 0.00 0.00 2.17
2148 3060 2.037902 TGCCTACATTGTGTCTCCGAAA 59.962 45.455 0.00 0.00 0.00 3.46
2149 3061 1.621317 TGCCTACATTGTGTCTCCGAA 59.379 47.619 0.00 0.00 0.00 4.30
2150 3062 1.262417 TGCCTACATTGTGTCTCCGA 58.738 50.000 0.00 0.00 0.00 4.55
2151 3063 2.093306 TTGCCTACATTGTGTCTCCG 57.907 50.000 0.00 0.00 0.00 4.63
2168 3080 8.133627 GGATGAGGACAATAATTCTTGACATTG 58.866 37.037 10.27 3.12 35.10 2.82
2173 3085 8.648698 TTTTGGATGAGGACAATAATTCTTGA 57.351 30.769 10.27 0.00 0.00 3.02
2193 3105 4.081697 GTGGGGTCCAATATGTTCTTTTGG 60.082 45.833 0.00 0.00 41.04 3.28
2215 3127 8.706322 ACAGGTGAAGTTCAATATTTTAAGGT 57.294 30.769 7.25 0.00 0.00 3.50
2255 3167 4.466015 GCCTCCCAATTGAAATAGGTCAAA 59.534 41.667 7.12 0.00 40.76 2.69
2263 3175 5.901276 AGATAACATGCCTCCCAATTGAAAT 59.099 36.000 7.12 0.00 0.00 2.17
2268 3180 4.524802 TCAGATAACATGCCTCCCAATT 57.475 40.909 0.00 0.00 0.00 2.32
2364 3276 6.487331 CCAGACAGAGGTAGTACATACTTAGG 59.513 46.154 2.06 0.00 37.73 2.69
2370 3282 4.875578 ACCCAGACAGAGGTAGTACATA 57.124 45.455 2.06 0.00 33.52 2.29
2372 3284 3.537795 AACCCAGACAGAGGTAGTACA 57.462 47.619 2.06 0.00 34.45 2.90
2383 3295 4.348020 AGAGGACCTATAAACCCAGACA 57.652 45.455 0.00 0.00 0.00 3.41
2416 3328 7.612677 AGTCAAATCTACGGTCAAACTTAGAT 58.387 34.615 0.00 0.00 33.56 1.98
2419 3331 8.143193 TGTTAGTCAAATCTACGGTCAAACTTA 58.857 33.333 0.00 0.00 0.00 2.24
2422 3334 6.774354 TGTTAGTCAAATCTACGGTCAAAC 57.226 37.500 0.00 0.00 0.00 2.93
2498 3411 7.067494 ACCACAAAGATAGTATCATTGAAAGCC 59.933 37.037 26.75 0.00 39.59 4.35


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

AutoCloner maintained by Alex Coulton.