Multiple sequence alignment - TraesCS2B01G389600

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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 TraesCS2B01G389600 chr2B 100.000 3478 0 0 1 3478 553611863 553615340 0.000000e+00 6423
1 TraesCS2B01G389600 chr2D 90.574 3522 202 59 1 3464 473274652 473278101 0.000000e+00 4545
2 TraesCS2B01G389600 chr2A 89.804 3521 200 53 1 3464 615343015 615346433 0.000000e+00 4366
3 TraesCS2B01G389600 chr1B 84.384 365 42 5 2373 2736 599469634 599469984 9.240000e-91 344
4 TraesCS2B01G389600 chr6B 78.571 280 44 12 1342 1616 476110916 476110648 1.660000e-38 171
5 TraesCS2B01G389600 chr6A 77.389 314 51 14 1342 1648 445581423 445581723 5.970000e-38 169


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 TraesCS2B01G389600 chr2B 553611863 553615340 3477 False 6423 6423 100.000 1 3478 1 chr2B.!!$F1 3477
1 TraesCS2B01G389600 chr2D 473274652 473278101 3449 False 4545 4545 90.574 1 3464 1 chr2D.!!$F1 3463
2 TraesCS2B01G389600 chr2A 615343015 615346433 3418 False 4366 4366 89.804 1 3464 1 chr2A.!!$F1 3463

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
943 973 0.257328 TGTGTCTGTTTGCCCTTCCA 59.743 50.0 0.0 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2763 2847 0.247736 ACTACTGTGCTGCTACTGCC 59.752 55.0 0.0 0.0 38.71 4.85 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
81 82 5.105997 GGAATATGCCAAGCCATTTAGCTAG 60.106 44.000 0.00 0.00 44.11 3.42
123 124 1.377202 CACGATCCCCACCTGTTGG 60.377 63.158 0.00 0.00 46.47 3.77
234 236 1.422531 GCATCTCATCCTCTCCACCT 58.577 55.000 0.00 0.00 0.00 4.00
259 261 4.918588 TCCTCCTTGGTTTAGTCAAATCC 58.081 43.478 0.00 0.00 37.07 3.01
332 334 4.322567 CTGGGATCAGCTTTAATCTAGCC 58.677 47.826 0.00 0.00 39.47 3.93
344 359 2.386661 ATCTAGCCAACGTTGTCCAG 57.613 50.000 25.63 12.84 0.00 3.86
365 382 0.958382 TCCACTATGCAAACCGTGGC 60.958 55.000 17.27 0.00 44.99 5.01
456 474 1.593265 CTTGCCTTGAACATGGGGC 59.407 57.895 0.00 3.45 44.31 5.80
457 475 2.216750 CTTGCCTTGAACATGGGGCG 62.217 60.000 0.00 0.00 46.72 6.13
474 493 1.715585 CGGTCAAATACTGCAGCGG 59.284 57.895 15.27 0.00 0.00 5.52
502 521 2.423538 GTGGGCATAAGCTAGTGGTTTG 59.576 50.000 0.00 0.00 41.70 2.93
503 522 2.024414 GGGCATAAGCTAGTGGTTTGG 58.976 52.381 0.00 0.00 41.70 3.28
507 526 4.380550 GGCATAAGCTAGTGGTTTGGTTTC 60.381 45.833 0.00 0.00 41.70 2.78
508 527 4.217550 GCATAAGCTAGTGGTTTGGTTTCA 59.782 41.667 0.00 0.00 37.91 2.69
509 528 5.105756 GCATAAGCTAGTGGTTTGGTTTCAT 60.106 40.000 0.00 0.00 37.91 2.57
510 529 6.572314 GCATAAGCTAGTGGTTTGGTTTCATT 60.572 38.462 0.00 0.00 37.91 2.57
511 530 5.869649 AAGCTAGTGGTTTGGTTTCATTT 57.130 34.783 0.00 0.00 0.00 2.32
512 531 5.869649 AGCTAGTGGTTTGGTTTCATTTT 57.130 34.783 0.00 0.00 0.00 1.82
516 535 7.286775 AGCTAGTGGTTTGGTTTCATTTTCTTA 59.713 33.333 0.00 0.00 0.00 2.10
567 586 4.576216 AGGATAGCATGTCAGTAGAACG 57.424 45.455 0.00 0.00 0.00 3.95
708 728 2.716424 AGAAAGATGGTGGGTTCTTCCA 59.284 45.455 0.00 0.00 38.11 3.53
728 755 1.304381 GGGGAGTCCATTGCTTGCA 60.304 57.895 12.30 0.00 35.00 4.08
748 778 1.720781 AAAAGGGCAAATGGAGTGCT 58.279 45.000 0.00 0.00 41.88 4.40
749 779 1.720781 AAAGGGCAAATGGAGTGCTT 58.279 45.000 0.00 0.00 41.88 3.91
750 780 2.603075 AAGGGCAAATGGAGTGCTTA 57.397 45.000 0.00 0.00 41.88 3.09
751 781 2.834638 AGGGCAAATGGAGTGCTTAT 57.165 45.000 0.00 0.00 41.88 1.73
752 782 3.951563 AGGGCAAATGGAGTGCTTATA 57.048 42.857 0.00 0.00 41.88 0.98
753 783 3.825328 AGGGCAAATGGAGTGCTTATAG 58.175 45.455 0.00 0.00 41.88 1.31
781 811 5.316167 AGTTATTCTCTGGCACATTGACAA 58.684 37.500 0.00 0.00 33.21 3.18
903 933 1.561542 CTGCCTGTTATCTGAACCCCT 59.438 52.381 0.00 0.00 0.00 4.79
922 952 3.431486 CCCTTTTGTTGTTTAGCAGGCAA 60.431 43.478 0.00 0.00 0.00 4.52
939 969 1.392589 CAACTGTGTCTGTTTGCCCT 58.607 50.000 0.00 0.00 0.00 5.19
940 970 1.750778 CAACTGTGTCTGTTTGCCCTT 59.249 47.619 0.00 0.00 0.00 3.95
941 971 1.680338 ACTGTGTCTGTTTGCCCTTC 58.320 50.000 0.00 0.00 0.00 3.46
943 973 0.257328 TGTGTCTGTTTGCCCTTCCA 59.743 50.000 0.00 0.00 0.00 3.53
945 975 0.550914 TGTCTGTTTGCCCTTCCACT 59.449 50.000 0.00 0.00 0.00 4.00
956 986 2.162408 GCCCTTCCACTCTCGAATTTTG 59.838 50.000 0.00 0.00 0.00 2.44
966 996 9.046846 TCCACTCTCGAATTTTGGGATATATAT 57.953 33.333 0.00 0.00 0.00 0.86
979 1009 9.532494 TTTGGGATATATATTAAGCACTGCATT 57.468 29.630 3.30 0.00 0.00 3.56
1002 1033 0.963962 CTTGCTGTGTGCCTTCCAAT 59.036 50.000 0.00 0.00 42.00 3.16
1005 1036 0.244721 GCTGTGTGCCTTCCAATTCC 59.755 55.000 0.00 0.00 35.15 3.01
1061 1112 5.280328 TGGTTATAGGTGTTTTAAACGCG 57.720 39.130 14.07 3.53 42.69 6.01
1067 1128 3.606422 AGGTGTTTTAAACGCGTTAACG 58.394 40.909 26.87 23.40 42.69 3.18
1081 1142 3.844943 GCGTTAACGGCTTCATGATTAGC 60.845 47.826 27.82 10.41 40.23 3.09
1095 1156 4.591321 TGATTAGCCCCACTTTTCTGAT 57.409 40.909 0.00 0.00 0.00 2.90
1096 1157 4.272489 TGATTAGCCCCACTTTTCTGATG 58.728 43.478 0.00 0.00 0.00 3.07
1097 1158 4.018506 TGATTAGCCCCACTTTTCTGATGA 60.019 41.667 0.00 0.00 0.00 2.92
1113 1174 5.494724 TCTGATGACTTCTCCTTTCCATTG 58.505 41.667 0.00 0.00 0.00 2.82
1140 1201 6.491383 TGTATTCCTACTGTCTACTGACCTT 58.509 40.000 0.00 0.00 42.28 3.50
1142 1203 4.931027 TCCTACTGTCTACTGACCTTCT 57.069 45.455 0.00 0.00 42.28 2.85
1143 1204 6.384342 TTCCTACTGTCTACTGACCTTCTA 57.616 41.667 0.00 0.00 42.28 2.10
1146 1207 7.411808 TCCTACTGTCTACTGACCTTCTATTT 58.588 38.462 0.00 0.00 42.28 1.40
1203 1270 1.522668 TGTTTGCGACAGCTAGCATT 58.477 45.000 18.83 2.01 43.42 3.56
1318 1385 2.233566 AGTGGGGAGATGCCTGCAA 61.234 57.895 0.00 0.00 36.66 4.08
1332 1399 3.326981 GCAACCGCAACCGCAAAC 61.327 61.111 0.00 0.00 38.40 2.93
1443 1510 1.433471 CATCTACGAGTGGCTGCGA 59.567 57.895 0.00 0.00 0.00 5.10
1446 1513 4.111016 TACGAGTGGCTGCGACCG 62.111 66.667 18.36 18.36 0.00 4.79
1461 1528 2.106332 CCGTCGGTGGTATCAGCC 59.894 66.667 2.08 0.00 38.08 4.85
1605 1672 1.375396 CATTCCTCGACGGCCAACA 60.375 57.895 2.24 0.00 0.00 3.33
1803 1870 3.062466 CACTCGACGGCTGGAGGA 61.062 66.667 0.00 0.00 34.58 3.71
1890 1957 1.153429 CTACACAAGCCCCTACGCC 60.153 63.158 0.00 0.00 0.00 5.68
1893 1960 3.633116 ACAAGCCCCTACGCCGTT 61.633 61.111 0.00 0.00 0.00 4.44
1986 2053 3.626217 GGTTCTTCCTCTTCGTGTTTGTT 59.374 43.478 0.00 0.00 0.00 2.83
1989 2056 3.621268 TCTTCCTCTTCGTGTTTGTTGTG 59.379 43.478 0.00 0.00 0.00 3.33
2155 2225 6.485388 ACTTATATAGTGATGGGGAGAGGA 57.515 41.667 0.00 0.00 35.19 3.71
2163 2233 3.071747 GTGATGGGGAGAGGATAAGGAAC 59.928 52.174 0.00 0.00 0.00 3.62
2164 2234 2.191981 TGGGGAGAGGATAAGGAACC 57.808 55.000 0.00 0.00 0.00 3.62
2291 2361 2.038557 GTCTTGCCTCAGTACCAGGAAA 59.961 50.000 11.92 7.10 31.91 3.13
2312 2382 6.777580 GGAAATCCATTACCTGAACCATACAT 59.222 38.462 0.00 0.00 35.64 2.29
2360 2431 6.179756 TCTGTCACTACCATGTAATGCAAAT 58.820 36.000 0.00 0.00 44.97 2.32
2365 2436 7.275560 GTCACTACCATGTAATGCAAATTTTCC 59.724 37.037 0.00 0.00 44.97 3.13
2366 2437 7.178274 TCACTACCATGTAATGCAAATTTTCCT 59.822 33.333 0.00 0.00 44.97 3.36
2371 2442 7.098477 CCATGTAATGCAAATTTTCCTCTCAA 58.902 34.615 0.00 0.00 44.97 3.02
2419 2490 3.747854 TGTTCTTGCATTTGATTGGCA 57.252 38.095 0.00 0.00 35.41 4.92
2442 2515 1.361793 TGCCGTTACTGGATTTACGC 58.638 50.000 0.00 0.00 32.97 4.42
2444 2517 1.591619 GCCGTTACTGGATTTACGCTC 59.408 52.381 0.00 0.00 32.97 5.03
2447 2520 3.869246 CCGTTACTGGATTTACGCTCATT 59.131 43.478 0.00 0.00 32.97 2.57
2463 2536 3.748568 GCTCATTAATCTCCCCATTCGTC 59.251 47.826 0.00 0.00 0.00 4.20
2484 2557 5.052040 CGTCGTTTGTGCAATTAATGTGTTT 60.052 36.000 0.00 0.00 0.00 2.83
2540 2613 4.927425 AGAACATCTCAAAATGCACATTGC 59.073 37.500 8.14 0.00 45.29 3.56
2594 2667 3.058293 TCGCGCATCAGAAAAGAATTGTT 60.058 39.130 8.75 0.00 0.00 2.83
2647 2731 7.064253 GCCGTGCCCTACTTTATTGTATAATAG 59.936 40.741 0.00 0.00 30.84 1.73
2663 2747 6.943146 TGTATAATAGAAGTGTTTGCCCAACA 59.057 34.615 0.00 0.00 43.55 3.33
2677 2761 1.201647 CCCAACAGCATCTTTCTGCAG 59.798 52.381 7.63 7.63 44.77 4.41
2763 2847 4.135153 CTGTCCGGTGAGAGGGCG 62.135 72.222 0.00 0.00 35.82 6.13
2887 2971 1.065031 CAAACGGCGGCAAAATCTCG 61.065 55.000 13.24 0.00 0.00 4.04
2904 2988 9.760660 CAAAATCTCGGAATTTTAACAGAGTAG 57.239 33.333 7.90 0.00 36.86 2.57
2936 3020 7.019418 CCAATATGCATGACAAGTGATAATCG 58.981 38.462 10.16 0.00 0.00 3.34
3000 3087 5.232202 CACAATAGTACGGTTACATGAGCTG 59.768 44.000 0.00 0.00 0.00 4.24
3001 3088 2.295253 AGTACGGTTACATGAGCTGC 57.705 50.000 0.00 0.00 0.00 5.25
3002 3089 1.134788 AGTACGGTTACATGAGCTGCC 60.135 52.381 0.00 0.00 0.00 4.85
3280 3368 6.016276 TGTCCTTTTTCTTAAGGCAATGACTC 60.016 38.462 1.85 0.00 43.62 3.36
3281 3369 6.207614 GTCCTTTTTCTTAAGGCAATGACTCT 59.792 38.462 1.85 0.00 43.62 3.24
3282 3370 6.777580 TCCTTTTTCTTAAGGCAATGACTCTT 59.222 34.615 1.85 0.00 43.62 2.85
3283 3371 7.287696 TCCTTTTTCTTAAGGCAATGACTCTTT 59.712 33.333 1.85 0.00 43.62 2.52
3284 3372 7.928167 CCTTTTTCTTAAGGCAATGACTCTTTT 59.072 33.333 1.85 0.00 38.39 2.27
3285 3373 9.317936 CTTTTTCTTAAGGCAATGACTCTTTTT 57.682 29.630 1.85 0.00 0.00 1.94
3311 3399 2.238521 GGTCCTGTTGAATTTGGCAGA 58.761 47.619 5.89 0.00 0.00 4.26
3321 3409 8.347004 TGTTGAATTTGGCAGATTATCAAGTA 57.653 30.769 2.90 0.00 0.00 2.24
3322 3410 8.801299 TGTTGAATTTGGCAGATTATCAAGTAA 58.199 29.630 2.90 0.00 0.00 2.24
3323 3411 9.807649 GTTGAATTTGGCAGATTATCAAGTAAT 57.192 29.630 2.90 0.00 35.71 1.89
3351 3439 7.104939 AGATATTGCAGATTTCCTAGATCAGC 58.895 38.462 0.00 0.00 36.79 4.26
3357 3445 5.449725 GCAGATTTCCTAGATCAGCCAAAAC 60.450 44.000 0.00 0.00 31.99 2.43
3450 3542 7.681939 TCATGTAATCCCTCTGTAAACAAAC 57.318 36.000 0.00 0.00 0.00 2.93
3460 3552 6.128634 CCCTCTGTAAACAAACATAAGACGTC 60.129 42.308 7.70 7.70 0.00 4.34
3464 3556 9.701098 TCTGTAAACAAACATAAGACGTCTTAT 57.299 29.630 34.67 34.67 46.81 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 9.918630 CCAAAAGGATCATCATTTAACATATCC 57.081 33.333 0.00 0.00 29.52 2.59
123 124 7.652909 TCTCACAATTGAATCATTGGAAAACAC 59.347 33.333 13.59 0.00 32.40 3.32
130 131 6.327934 GTTCCTCTCACAATTGAATCATTGG 58.672 40.000 13.59 5.53 32.40 3.16
143 144 0.472471 GTTGTGGGGTTCCTCTCACA 59.528 55.000 0.00 0.00 38.21 3.58
205 206 1.983119 GATGAGATGCCCCGTCCCAA 61.983 60.000 0.00 0.00 0.00 4.12
234 236 2.334977 TGACTAAACCAAGGAGGAGCA 58.665 47.619 0.00 0.00 41.22 4.26
329 331 1.227853 GACCTGGACAACGTTGGCT 60.228 57.895 31.85 13.90 36.14 4.75
330 332 2.258726 GGACCTGGACAACGTTGGC 61.259 63.158 30.34 28.49 34.70 4.52
331 333 1.147376 TGGACCTGGACAACGTTGG 59.853 57.895 30.34 15.89 0.00 3.77
332 334 0.179056 AGTGGACCTGGACAACGTTG 60.179 55.000 26.20 26.20 0.00 4.10
344 359 0.802494 CACGGTTTGCATAGTGGACC 59.198 55.000 0.00 0.00 0.00 4.46
437 455 1.891722 GCCCCATGTTCAAGGCAAGG 61.892 60.000 0.00 0.00 45.07 3.61
456 474 1.705337 CCCGCTGCAGTATTTGACCG 61.705 60.000 16.64 7.35 0.00 4.79
457 475 0.392461 TCCCGCTGCAGTATTTGACC 60.392 55.000 16.64 0.00 0.00 4.02
474 493 2.112815 GCTTATGCCCACCGTGTCC 61.113 63.158 0.00 0.00 0.00 4.02
502 521 7.886338 ACCTGAATCACTAAGAAAATGAAACC 58.114 34.615 0.00 0.00 0.00 3.27
503 522 9.750125 AAACCTGAATCACTAAGAAAATGAAAC 57.250 29.630 0.00 0.00 0.00 2.78
563 582 3.049708 ACCCTAAGCCACTTTACGTTC 57.950 47.619 0.00 0.00 0.00 3.95
567 586 7.825761 TGTTATTCTAACCCTAAGCCACTTTAC 59.174 37.037 0.00 0.00 0.00 2.01
728 755 2.049372 AGCACTCCATTTGCCCTTTTT 58.951 42.857 0.00 0.00 41.18 1.94
751 781 9.764363 CAATGTGCCAGAGAATAACTATAACTA 57.236 33.333 0.00 0.00 0.00 2.24
752 782 8.486210 TCAATGTGCCAGAGAATAACTATAACT 58.514 33.333 0.00 0.00 0.00 2.24
753 783 8.552034 GTCAATGTGCCAGAGAATAACTATAAC 58.448 37.037 0.00 0.00 0.00 1.89
781 811 0.927029 GGTAAAGCCCCTGGATTCCT 59.073 55.000 3.95 0.00 27.99 3.36
879 909 3.019564 GGTTCAGATAACAGGCAGCATT 58.980 45.455 0.00 0.00 0.00 3.56
903 933 4.180057 CAGTTGCCTGCTAAACAACAAAA 58.820 39.130 7.73 0.00 44.77 2.44
922 952 1.680338 GAAGGGCAAACAGACACAGT 58.320 50.000 0.00 0.00 0.00 3.55
933 963 0.984230 ATTCGAGAGTGGAAGGGCAA 59.016 50.000 0.00 0.00 0.00 4.52
934 964 0.984230 AATTCGAGAGTGGAAGGGCA 59.016 50.000 0.00 0.00 0.00 5.36
935 965 2.115343 AAATTCGAGAGTGGAAGGGC 57.885 50.000 0.00 0.00 0.00 5.19
939 969 3.780804 TCCCAAAATTCGAGAGTGGAA 57.219 42.857 7.78 0.00 0.00 3.53
940 970 5.630415 ATATCCCAAAATTCGAGAGTGGA 57.370 39.130 7.78 1.55 0.00 4.02
941 971 9.672673 AATATATATCCCAAAATTCGAGAGTGG 57.327 33.333 0.00 0.00 0.00 4.00
956 986 8.834465 CAGAATGCAGTGCTTAATATATATCCC 58.166 37.037 17.60 0.00 0.00 3.85
1002 1033 7.974504 ACTAGATAAACACCAAGAAAGAGGAA 58.025 34.615 0.00 0.00 0.00 3.36
1005 1036 7.616313 AGGACTAGATAAACACCAAGAAAGAG 58.384 38.462 0.00 0.00 0.00 2.85
1081 1142 4.006319 GAGAAGTCATCAGAAAAGTGGGG 58.994 47.826 0.00 0.00 0.00 4.96
1095 1156 3.507162 TGCAATGGAAAGGAGAAGTCA 57.493 42.857 0.00 0.00 0.00 3.41
1096 1157 4.367386 CATGCAATGGAAAGGAGAAGTC 57.633 45.455 0.00 0.00 41.79 3.01
1113 1174 6.210078 GTCAGTAGACAGTAGGAATACATGC 58.790 44.000 0.00 0.00 44.34 4.06
1140 1201 8.394877 CACGGTACTGCAATCAAATAAAATAGA 58.605 33.333 0.23 0.00 0.00 1.98
1142 1203 8.270080 TCACGGTACTGCAATCAAATAAAATA 57.730 30.769 0.23 0.00 0.00 1.40
1143 1204 7.094377 ACTCACGGTACTGCAATCAAATAAAAT 60.094 33.333 0.23 0.00 0.00 1.82
1146 1207 5.242434 ACTCACGGTACTGCAATCAAATAA 58.758 37.500 0.23 0.00 0.00 1.40
1203 1270 2.173356 CCCACCTTCCATAGCAATCAGA 59.827 50.000 0.00 0.00 0.00 3.27
1257 1324 0.179029 CGGACACTGGAGGTTGGTTT 60.179 55.000 0.00 0.00 0.00 3.27
1443 1510 2.718073 GGCTGATACCACCGACGGT 61.718 63.158 15.37 15.37 43.46 4.83
1446 1513 1.442148 GGAGGCTGATACCACCGAC 59.558 63.158 0.00 0.00 30.33 4.79
1605 1672 0.606401 CAACATTCTCCCGGTGCACT 60.606 55.000 17.98 0.00 0.00 4.40
1803 1870 2.679716 GCCATCCCTCCAAGCACT 59.320 61.111 0.00 0.00 0.00 4.40
1986 2053 2.401583 ACAAGAGCAGACACAACACA 57.598 45.000 0.00 0.00 0.00 3.72
1989 2056 3.198068 TCAGAACAAGAGCAGACACAAC 58.802 45.455 0.00 0.00 0.00 3.32
2147 2217 1.790818 ACGGTTCCTTATCCTCTCCC 58.209 55.000 0.00 0.00 0.00 4.30
2148 2218 5.298347 CATTAACGGTTCCTTATCCTCTCC 58.702 45.833 0.00 0.00 0.00 3.71
2155 2225 7.549615 GTTAAGAGCATTAACGGTTCCTTAT 57.450 36.000 0.00 0.00 0.00 1.73
2164 2234 8.708883 CGATAGAGACCGTTAAGAGCATTAACG 61.709 44.444 27.00 27.00 46.57 3.18
2291 2361 7.405292 CCATATGTATGGTTCAGGTAATGGAT 58.595 38.462 10.31 0.00 46.42 3.41
2312 2382 0.972883 GGCAAACCAAACAGGCCATA 59.027 50.000 5.01 0.00 44.01 2.74
2360 2431 8.482852 AAAGAAAATCCAGATTGAGAGGAAAA 57.517 30.769 0.00 0.00 34.62 2.29
2419 2490 3.434299 CGTAAATCCAGTAACGGCAAACT 59.566 43.478 0.00 0.00 0.00 2.66
2426 2497 6.578020 TTAATGAGCGTAAATCCAGTAACG 57.422 37.500 0.00 0.00 38.34 3.18
2442 2515 3.990469 CGACGAATGGGGAGATTAATGAG 59.010 47.826 0.00 0.00 0.00 2.90
2444 2517 3.728845 ACGACGAATGGGGAGATTAATG 58.271 45.455 0.00 0.00 0.00 1.90
2447 2520 3.055675 ACAAACGACGAATGGGGAGATTA 60.056 43.478 0.00 0.00 0.00 1.75
2463 2536 7.613146 TGTTAAACACATTAATTGCACAAACG 58.387 30.769 0.00 0.00 35.98 3.60
2511 2584 6.476380 TGTGCATTTTGAGATGTTCTGAAAAC 59.524 34.615 4.41 0.00 41.11 2.43
2540 2613 6.592220 TCCATGTCATTCAATTTGCAAATCTG 59.408 34.615 24.28 21.45 0.00 2.90
2562 2635 0.249826 TGATGCGCGATATGCTTCCA 60.250 50.000 12.10 0.00 43.27 3.53
2563 2636 0.441533 CTGATGCGCGATATGCTTCC 59.558 55.000 12.10 0.00 43.27 3.46
2647 2731 0.459489 TGCTGTTGGGCAAACACTTC 59.541 50.000 2.56 0.00 43.96 3.01
2663 2747 0.879765 GCACACTGCAGAAAGATGCT 59.120 50.000 23.35 0.00 46.63 3.79
2677 2761 2.225019 CACATGACTTCTCCTTGCACAC 59.775 50.000 0.00 0.00 0.00 3.82
2711 2795 4.038080 GTTTGCCCGGCACCGAAG 62.038 66.667 13.00 2.54 38.71 3.79
2763 2847 0.247736 ACTACTGTGCTGCTACTGCC 59.752 55.000 0.00 0.00 38.71 4.85
2768 2852 2.362397 GGCATCTACTACTGTGCTGCTA 59.638 50.000 0.00 0.00 37.70 3.49
2843 2927 9.944376 TGCAAATATAATCAGTATAGTTCCTCC 57.056 33.333 0.00 0.00 32.05 4.30
2887 2971 6.128254 GGTCAGTGCTACTCTGTTAAAATTCC 60.128 42.308 0.00 0.00 34.86 3.01
2904 2988 2.684374 TGTCATGCATATTGGTCAGTGC 59.316 45.455 0.00 0.00 38.05 4.40
2936 3020 1.079750 GCCTCGTCTCTTGTGGGAC 60.080 63.158 0.00 0.00 0.00 4.46
2963 3047 5.965334 CGTACTATTGTGCAAATGGATTGAC 59.035 40.000 10.38 0.00 41.85 3.18
3000 3087 4.944048 ACTGGTACAAAAACTGAATTGGC 58.056 39.130 0.00 0.00 38.70 4.52
3001 3088 6.142818 TGACTGGTACAAAAACTGAATTGG 57.857 37.500 0.00 0.00 38.70 3.16
3002 3089 7.479980 TCTTGACTGGTACAAAAACTGAATTG 58.520 34.615 0.00 0.00 38.70 2.32
3200 3287 7.722795 TGAATGACTCGTGATAAGTTTTCAA 57.277 32.000 0.00 0.00 31.68 2.69
3240 3328 8.787852 AGAAAAAGGACACAAAGTTATCTGATC 58.212 33.333 0.00 0.00 0.00 2.92
3291 3379 2.238521 TCTGCCAAATTCAACAGGACC 58.761 47.619 0.00 0.00 0.00 4.46
3334 3422 5.649395 TGTTTTGGCTGATCTAGGAAATCTG 59.351 40.000 0.00 0.00 0.00 2.90
3433 3525 6.594159 CGTCTTATGTTTGTTTACAGAGGGAT 59.406 38.462 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.