Multiple sequence alignment - TraesCS2B01G457800

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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 TraesCS2B01G457800 chr2B 100.000 2952 0 0 1 2952 652412409 652415360 0.000000e+00 5452.0
1 TraesCS2B01G457800 chr2D 94.874 1307 41 12 1184 2466 545855003 545856307 0.000000e+00 2019.0
2 TraesCS2B01G457800 chr2D 90.396 656 44 8 1 656 545853640 545854276 0.000000e+00 845.0
3 TraesCS2B01G457800 chr2D 91.412 524 34 6 670 1186 545854381 545854900 0.000000e+00 708.0
4 TraesCS2B01G457800 chr2D 84.131 397 25 11 244 639 451009169 451008810 1.680000e-92 350.0
5 TraesCS2B01G457800 chr2A 90.590 1254 79 15 1 1249 689201537 689200318 0.000000e+00 1626.0
6 TraesCS2B01G457800 chr2A 94.090 1049 33 8 1508 2543 689199759 689198727 0.000000e+00 1567.0
7 TraesCS2B01G457800 chr2A 93.676 253 11 3 1254 1503 689200171 689199921 9.990000e-100 374.0
8 TraesCS2B01G457800 chr2A 79.726 365 41 16 2550 2906 689198678 689198339 1.770000e-57 233.0
9 TraesCS2B01G457800 chr5A 81.269 977 124 31 746 1676 345361111 345360148 0.000000e+00 736.0
10 TraesCS2B01G457800 chr5A 77.844 167 23 11 2569 2733 679141514 679141360 1.130000e-14 91.6
11 TraesCS2B01G457800 chr5A 87.097 62 8 0 2558 2619 44323455 44323394 1.470000e-08 71.3
12 TraesCS2B01G457800 chr3A 89.258 391 38 3 1611 2001 108028107 108028493 1.230000e-133 486.0
13 TraesCS2B01G457800 chr3A 81.818 88 14 2 2558 2644 218471146 218471232 4.080000e-09 73.1
14 TraesCS2B01G457800 chr1A 89.003 391 39 3 1611 2001 537063778 537063392 5.720000e-132 481.0
15 TraesCS2B01G457800 chr7B 84.344 511 54 10 137 647 60368814 60368330 7.400000e-131 477.0
16 TraesCS2B01G457800 chr7B 83.048 525 49 17 137 647 486730815 486731313 9.710000e-120 440.0
17 TraesCS2B01G457800 chr4B 84.344 511 54 10 137 647 59871465 59871949 7.400000e-131 477.0
18 TraesCS2B01G457800 chr6D 84.615 468 46 9 180 647 14447767 14448208 2.700000e-120 442.0
19 TraesCS2B01G457800 chr5B 85.449 323 25 10 137 459 42945218 42945518 1.710000e-82 316.0
20 TraesCS2B01G457800 chr5B 81.690 71 10 3 2558 2627 645237939 645237871 4.110000e-04 56.5
21 TraesCS2B01G457800 chr3D 86.250 80 9 2 2661 2738 461209289 461209368 5.240000e-13 86.1
22 TraesCS2B01G457800 chr6A 81.818 88 14 2 2558 2644 535538179 535538093 4.080000e-09 73.1
23 TraesCS2B01G457800 chr4A 81.818 88 14 2 2558 2644 210983418 210983332 4.080000e-09 73.1
24 TraesCS2B01G457800 chr4A 85.938 64 8 1 2558 2621 684393129 684393191 1.900000e-07 67.6
25 TraesCS2B01G457800 chr7A 87.097 62 8 0 2558 2619 23306550 23306489 1.470000e-08 71.3
26 TraesCS2B01G457800 chr7A 84.375 64 9 1 2558 2621 112480852 112480790 8.830000e-06 62.1


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 TraesCS2B01G457800 chr2B 652412409 652415360 2951 False 5452.000000 5452 100.000000 1 2952 1 chr2B.!!$F1 2951
1 TraesCS2B01G457800 chr2D 545853640 545856307 2667 False 1190.666667 2019 92.227333 1 2466 3 chr2D.!!$F1 2465
2 TraesCS2B01G457800 chr2A 689198339 689201537 3198 True 950.000000 1626 89.520500 1 2906 4 chr2A.!!$R1 2905
3 TraesCS2B01G457800 chr5A 345360148 345361111 963 True 736.000000 736 81.269000 746 1676 1 chr5A.!!$R2 930

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
390 394 0.525761 GCTCCCGCTGTTGCAATTTA 59.474 50.0 0.59 0.0 39.64 1.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2246 2797 1.708341 AGCTTTGCCAATGTTCACCT 58.292 45.0 0.0 0.0 0.0 4.0 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
60 64 1.254026 ACCGAGTGGATCTGAAACGA 58.746 50.000 0.00 0.00 39.21 3.85
111 115 2.147958 ACAACGATACAATTGTGCGGT 58.852 42.857 27.69 22.94 37.64 5.68
112 116 3.327626 ACAACGATACAATTGTGCGGTA 58.672 40.909 27.69 9.81 37.64 4.02
189 193 1.664873 GATAGCTTTTCCCCACGGAC 58.335 55.000 0.00 0.00 38.14 4.79
350 354 3.188786 GCGTGATGCTGGGTCGTC 61.189 66.667 0.00 0.00 41.73 4.20
355 359 1.215647 GATGCTGGGTCGTCTCGTT 59.784 57.895 0.00 0.00 0.00 3.85
360 364 1.939838 GCTGGGTCGTCTCGTTGATTT 60.940 52.381 0.00 0.00 0.00 2.17
390 394 0.525761 GCTCCCGCTGTTGCAATTTA 59.474 50.000 0.59 0.00 39.64 1.40
410 414 1.001378 AGGCGCTGTTTGTTTGATGAC 60.001 47.619 7.64 0.00 0.00 3.06
490 494 2.093235 GCCTCTGTTGCTGGATCTTAGT 60.093 50.000 0.00 0.00 0.00 2.24
524 528 2.286365 TTTGCAGTTTGAGGTAGGGG 57.714 50.000 0.00 0.00 0.00 4.79
525 529 1.440618 TTGCAGTTTGAGGTAGGGGA 58.559 50.000 0.00 0.00 0.00 4.81
526 530 1.440618 TGCAGTTTGAGGTAGGGGAA 58.559 50.000 0.00 0.00 0.00 3.97
527 531 1.777878 TGCAGTTTGAGGTAGGGGAAA 59.222 47.619 0.00 0.00 0.00 3.13
532 536 2.374170 GTTTGAGGTAGGGGAAAGTCCA 59.626 50.000 0.00 0.00 38.64 4.02
539 543 5.544682 AGGTAGGGGAAAGTCCATAATGTA 58.455 41.667 0.00 0.00 38.64 2.29
568 572 1.949257 GCTGGCGTGTAAGCTTGTT 59.051 52.632 9.86 0.00 36.47 2.83
575 579 3.364664 GGCGTGTAAGCTTGTTTAGAACC 60.365 47.826 9.86 0.00 37.29 3.62
659 758 2.030805 GCTTGCTGTTCCAAGGTAGTTG 60.031 50.000 4.33 0.00 41.88 3.16
667 766 3.957288 CAAGGTAGTTGGGTCCTGG 57.043 57.895 0.00 0.00 31.82 4.45
668 767 1.358152 CAAGGTAGTTGGGTCCTGGA 58.642 55.000 0.00 0.00 31.82 3.86
697 796 2.032054 AGGCGATTGCGTATGAATGTTG 59.968 45.455 0.00 0.00 44.10 3.33
706 805 2.285834 CGTATGAATGTTGAAGCCGCTC 60.286 50.000 0.00 0.00 0.00 5.03
712 811 2.742372 TTGAAGCCGCTCGAAGCC 60.742 61.111 0.00 0.00 38.18 4.35
715 814 2.045926 AAGCCGCTCGAAGCCAAT 60.046 55.556 0.00 0.00 38.18 3.16
716 815 2.315038 GAAGCCGCTCGAAGCCAATG 62.315 60.000 0.00 0.00 38.18 2.82
717 816 4.543084 GCCGCTCGAAGCCAATGC 62.543 66.667 0.00 0.00 38.18 3.56
847 949 6.368791 TCTGTAAAACTGCAGCTAGTTACATG 59.631 38.462 22.13 17.82 39.86 3.21
917 1024 5.353394 TGGGATGTTAGGTGACATTCTAC 57.647 43.478 0.00 0.00 40.21 2.59
974 1082 7.129622 GCATACCATTTGCATTTCATTGATTG 58.870 34.615 0.00 0.00 39.90 2.67
1008 1116 0.610232 GCAGCCCAAACATGGACTCT 60.610 55.000 0.00 0.00 0.00 3.24
1291 1660 8.029522 TCTTGTCTGCTATACTAAGTGAACTTG 58.970 37.037 5.95 0.00 37.40 3.16
1351 1723 7.914859 TGAGATCATCATCTGGTTTATAGCAT 58.085 34.615 0.00 0.00 39.71 3.79
1406 1782 8.662141 TCTTTGCGTAATATTGTCTTTCTTACC 58.338 33.333 0.00 0.00 0.00 2.85
1408 1784 9.656040 TTTGCGTAATATTGTCTTTCTTACCTA 57.344 29.630 0.00 0.00 0.00 3.08
1489 1878 5.843673 TGTTGAGTTGGCAAAATCTGTTA 57.156 34.783 0.00 0.00 31.64 2.41
1496 1885 6.042143 AGTTGGCAAAATCTGTTAACAGTTG 58.958 36.000 29.83 26.18 44.12 3.16
1569 2118 8.709646 CACTACGAAGCTGAAATTAAAGTACTT 58.290 33.333 1.12 1.12 0.00 2.24
1587 2136 8.989653 AAGTACTTCTATCTACTTTTGTCTGC 57.010 34.615 1.12 0.00 30.47 4.26
1591 2140 7.224297 ACTTCTATCTACTTTTGTCTGCCAAA 58.776 34.615 0.00 0.00 41.25 3.28
1936 2487 1.300931 GCTTCTGAGGCACGTCACA 60.301 57.895 6.91 0.00 0.00 3.58
2157 2708 5.594724 TCGTAAATTTTGTCGATTTCCGT 57.405 34.783 0.00 0.00 39.75 4.69
2160 2711 3.842732 AATTTTGTCGATTTCCGTCCC 57.157 42.857 0.00 0.00 39.75 4.46
2260 2813 5.798125 TTTTAATCAGGTGAACATTGGCA 57.202 34.783 0.00 0.00 0.00 4.92
2403 2961 7.872483 TGATTCAAATCGTAATGCAGCTATAGA 59.128 33.333 3.21 0.00 38.26 1.98
2417 2975 5.105392 GCAGCTATAGACTATTGGATCTGCT 60.105 44.000 18.53 8.92 39.79 4.24
2467 3026 5.376625 TCTTAGGATATGTTTGGATGGTGC 58.623 41.667 0.00 0.00 0.00 5.01
2476 3035 8.766994 ATATGTTTGGATGGTGCTAAACTTAT 57.233 30.769 0.00 0.00 39.21 1.73
2515 3074 7.836685 TGGTCATGTCCAAAATATTAGCCTTTA 59.163 33.333 9.39 0.00 34.24 1.85
2545 3104 9.590451 GGATTGTTTCCATATATTTGGCATATG 57.410 33.333 7.29 0.00 44.74 1.78
2546 3105 9.090692 GATTGTTTCCATATATTTGGCATATGC 57.909 33.333 19.79 19.79 35.78 3.14
2585 3186 9.282247 CTAACATATTTCTCTCAACATGCAAAC 57.718 33.333 0.00 0.00 0.00 2.93
2602 3203 0.685097 AACGTACCACCTCAGCATGT 59.315 50.000 0.00 0.00 37.40 3.21
2628 3229 5.940470 ACATACATGAGAAAAAGGTCACCTC 59.060 40.000 0.00 0.00 30.89 3.85
2644 3245 2.615447 CACCTCGATATGCAAACATGCT 59.385 45.455 0.00 0.00 37.04 3.79
2645 3246 3.065786 CACCTCGATATGCAAACATGCTT 59.934 43.478 0.00 0.00 37.04 3.91
2646 3247 3.065786 ACCTCGATATGCAAACATGCTTG 59.934 43.478 4.42 4.42 37.04 4.01
2647 3248 3.313249 CCTCGATATGCAAACATGCTTGA 59.687 43.478 12.98 0.00 37.04 3.02
2648 3249 4.524749 CTCGATATGCAAACATGCTTGAG 58.475 43.478 12.98 0.00 37.04 3.02
2649 3250 4.190772 TCGATATGCAAACATGCTTGAGA 58.809 39.130 12.98 0.00 37.04 3.27
2650 3251 4.635324 TCGATATGCAAACATGCTTGAGAA 59.365 37.500 12.98 0.00 37.04 2.87
2651 3252 5.297527 TCGATATGCAAACATGCTTGAGAAT 59.702 36.000 12.98 5.43 37.04 2.40
2652 3253 5.975344 CGATATGCAAACATGCTTGAGAATT 59.025 36.000 12.98 0.00 37.04 2.17
2653 3254 6.474427 CGATATGCAAACATGCTTGAGAATTT 59.526 34.615 12.98 0.00 37.04 1.82
2660 3261 5.534207 ACATGCTTGAGAATTTTTGTCCA 57.466 34.783 6.60 0.00 0.00 4.02
2661 3262 5.916318 ACATGCTTGAGAATTTTTGTCCAA 58.084 33.333 6.60 0.00 0.00 3.53
2807 3408 8.601047 TCCATGTTCCATAAAATCAAATACCA 57.399 30.769 0.00 0.00 0.00 3.25
2808 3409 9.211410 TCCATGTTCCATAAAATCAAATACCAT 57.789 29.630 0.00 0.00 0.00 3.55
2809 3410 9.835389 CCATGTTCCATAAAATCAAATACCATT 57.165 29.630 0.00 0.00 0.00 3.16
2832 3458 1.508632 TACACCTTCTGAACAAGCGC 58.491 50.000 0.00 0.00 0.00 5.92
2851 3477 3.430931 CGCGTTGGGTTTTATGTTATGG 58.569 45.455 0.00 0.00 0.00 2.74
2852 3478 3.127203 CGCGTTGGGTTTTATGTTATGGA 59.873 43.478 0.00 0.00 0.00 3.41
2858 3484 6.827586 TGGGTTTTATGTTATGGACAGTTC 57.172 37.500 0.00 0.00 42.62 3.01
2860 3486 5.949952 GGGTTTTATGTTATGGACAGTTCCT 59.050 40.000 0.00 0.00 43.31 3.36
2864 3490 4.640771 ATGTTATGGACAGTTCCTGTGT 57.359 40.909 0.86 0.00 45.44 3.72
2897 3523 0.738975 TGTAAGGATCGCCTCACTCG 59.261 55.000 0.00 0.00 46.28 4.18
2901 3527 2.583593 GATCGCCTCACTCGTGCC 60.584 66.667 0.00 0.00 0.00 5.01
2906 3532 4.803426 CCTCACTCGTGCCGCCTC 62.803 72.222 0.00 0.00 0.00 4.70
2907 3533 4.056125 CTCACTCGTGCCGCCTCA 62.056 66.667 0.00 0.00 0.00 3.86
2908 3534 4.357947 TCACTCGTGCCGCCTCAC 62.358 66.667 0.00 0.00 0.00 3.51
2914 3540 4.947147 GTGCCGCCTCACCCACAA 62.947 66.667 0.00 0.00 0.00 3.33
2915 3541 4.196778 TGCCGCCTCACCCACAAA 62.197 61.111 0.00 0.00 0.00 2.83
2916 3542 3.365265 GCCGCCTCACCCACAAAG 61.365 66.667 0.00 0.00 0.00 2.77
2917 3543 2.113139 CCGCCTCACCCACAAAGT 59.887 61.111 0.00 0.00 0.00 2.66
2918 3544 1.528309 CCGCCTCACCCACAAAGTT 60.528 57.895 0.00 0.00 0.00 2.66
2919 3545 1.106944 CCGCCTCACCCACAAAGTTT 61.107 55.000 0.00 0.00 0.00 2.66
2920 3546 1.600023 CGCCTCACCCACAAAGTTTA 58.400 50.000 0.00 0.00 0.00 2.01
2921 3547 1.265905 CGCCTCACCCACAAAGTTTAC 59.734 52.381 0.00 0.00 0.00 2.01
2922 3548 2.583143 GCCTCACCCACAAAGTTTACT 58.417 47.619 0.00 0.00 0.00 2.24
2923 3549 3.746940 GCCTCACCCACAAAGTTTACTA 58.253 45.455 0.00 0.00 0.00 1.82
2924 3550 4.139038 GCCTCACCCACAAAGTTTACTAA 58.861 43.478 0.00 0.00 0.00 2.24
2925 3551 4.023450 GCCTCACCCACAAAGTTTACTAAC 60.023 45.833 0.00 0.00 34.36 2.34
2926 3552 5.127491 CCTCACCCACAAAGTTTACTAACA 58.873 41.667 0.00 0.00 36.70 2.41
2927 3553 5.768164 CCTCACCCACAAAGTTTACTAACAT 59.232 40.000 0.00 0.00 36.70 2.71
2928 3554 6.938030 CCTCACCCACAAAGTTTACTAACATA 59.062 38.462 0.00 0.00 36.70 2.29
2929 3555 7.446013 CCTCACCCACAAAGTTTACTAACATAA 59.554 37.037 0.00 0.00 36.70 1.90
2930 3556 8.927675 TCACCCACAAAGTTTACTAACATAAT 57.072 30.769 0.00 0.00 36.70 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 1.810412 CGAATAGGGCCTGTTAGCACC 60.810 57.143 18.53 2.25 36.58 5.01
154 158 2.817463 GCTATCCTCTGCTGCTCCTCTA 60.817 54.545 0.00 0.00 0.00 2.43
335 339 1.517257 CGAGACGACCCAGCATCAC 60.517 63.158 0.00 0.00 0.00 3.06
350 354 2.283617 CGAGCAGGATCAAATCAACGAG 59.716 50.000 0.00 0.00 0.00 4.18
355 359 1.473965 GGAGCGAGCAGGATCAAATCA 60.474 52.381 0.00 0.00 0.00 2.57
360 364 3.531207 CGGGAGCGAGCAGGATCA 61.531 66.667 0.00 0.00 0.00 2.92
380 384 2.064573 AACAGCGCCTAAATTGCAAC 57.935 45.000 2.29 0.00 0.00 4.17
390 394 1.001378 GTCATCAAACAAACAGCGCCT 60.001 47.619 2.29 0.00 0.00 5.52
410 414 1.605712 GCTTATCCTCAATCGACCGGG 60.606 57.143 6.32 0.00 0.00 5.73
490 494 4.851843 ACTGCAAATCCAGATCAGATCAA 58.148 39.130 13.14 0.00 36.67 2.57
532 536 4.627255 GCCAGCTAGATGCCCATACATTAT 60.627 45.833 1.39 0.00 44.23 1.28
539 543 2.429058 CGCCAGCTAGATGCCCAT 59.571 61.111 1.39 0.00 44.23 4.00
568 572 2.037144 GATCTACCCAGGCGGTTCTAA 58.963 52.381 0.00 0.00 45.36 2.10
575 579 1.410004 TAGTTGGATCTACCCAGGCG 58.590 55.000 0.00 0.00 37.53 5.52
665 764 1.971481 CAATCGCCTGATTCCATCCA 58.029 50.000 0.00 0.00 42.94 3.41
666 765 0.595095 GCAATCGCCTGATTCCATCC 59.405 55.000 0.00 0.00 42.94 3.51
667 766 0.236711 CGCAATCGCCTGATTCCATC 59.763 55.000 0.00 0.00 42.94 3.51
668 767 0.464373 ACGCAATCGCCTGATTCCAT 60.464 50.000 0.00 0.00 42.94 3.41
680 779 4.037690 GGCTTCAACATTCATACGCAATC 58.962 43.478 0.00 0.00 0.00 2.67
697 796 2.109126 ATTGGCTTCGAGCGGCTTC 61.109 57.895 2.97 0.00 43.62 3.86
712 811 3.338249 ACCACAGCAGTAAGTAGCATTG 58.662 45.455 0.00 0.00 0.00 2.82
715 814 3.162666 ACTACCACAGCAGTAAGTAGCA 58.837 45.455 14.73 0.00 37.32 3.49
716 815 3.870633 ACTACCACAGCAGTAAGTAGC 57.129 47.619 14.73 0.00 37.32 3.58
717 816 5.989777 ACAAAACTACCACAGCAGTAAGTAG 59.010 40.000 13.74 13.74 38.65 2.57
722 821 4.039973 AGCTACAAAACTACCACAGCAGTA 59.960 41.667 0.00 0.00 0.00 2.74
723 822 3.139077 GCTACAAAACTACCACAGCAGT 58.861 45.455 0.00 0.00 0.00 4.40
726 825 2.742589 GGAGCTACAAAACTACCACAGC 59.257 50.000 0.00 0.00 0.00 4.40
759 861 8.552034 GCTACTCAGAATACCAAATATCAACAC 58.448 37.037 0.00 0.00 0.00 3.32
821 923 6.464222 TGTAACTAGCTGCAGTTTTACAGAT 58.536 36.000 18.43 5.28 39.45 2.90
847 949 4.527509 ATCACTATCCATGATGTCCGAC 57.472 45.455 0.00 0.00 35.44 4.79
888 993 5.389520 TGTCACCTAACATCCCAAAAATCA 58.610 37.500 0.00 0.00 0.00 2.57
891 996 6.074648 AGAATGTCACCTAACATCCCAAAAA 58.925 36.000 0.00 0.00 38.92 1.94
905 1010 3.678548 GGTCTGAAACGTAGAATGTCACC 59.321 47.826 0.00 0.00 0.00 4.02
917 1024 3.262420 CATGGTTAGGAGGTCTGAAACG 58.738 50.000 0.00 0.00 0.00 3.60
967 1075 5.163513 GCGGAATGAAGAACAACAATCAAT 58.836 37.500 0.00 0.00 0.00 2.57
974 1082 1.401539 GGCTGCGGAATGAAGAACAAC 60.402 52.381 0.00 0.00 0.00 3.32
1291 1660 6.115446 TGGGACAACATCTATCATGACTTTC 58.885 40.000 0.00 0.00 31.92 2.62
1360 1733 4.238514 AGAAGTTACAGAACGCTAGCAAG 58.761 43.478 16.45 1.28 40.76 4.01
1406 1782 7.814264 AAGAAAAGATGACATGGCCTATTAG 57.186 36.000 3.32 0.00 0.00 1.73
1408 1784 7.038799 ACAAAAGAAAAGATGACATGGCCTATT 60.039 33.333 3.32 0.00 0.00 1.73
1489 1878 8.046708 TCTATGGTATATGCTTTGACAACTGTT 58.953 33.333 0.00 0.00 0.00 3.16
1533 2082 7.667043 TTCAGCTTCGTAGTGAACAATAATT 57.333 32.000 0.00 0.00 31.87 1.40
1587 2136 6.373495 TGACAGAGACATCAGATTTCATTTGG 59.627 38.462 0.00 0.00 0.00 3.28
1591 2140 5.104859 AGCTGACAGAGACATCAGATTTCAT 60.105 40.000 6.65 0.00 44.32 2.57
1802 2353 2.219325 GAGTCACCGCTGGTCTGGAG 62.219 65.000 0.00 0.00 31.02 3.86
1936 2487 7.054124 TCATCAACCTTTAGTTCTTCACAGTT 58.946 34.615 0.00 0.00 36.18 3.16
2157 2708 2.418669 ACAAGGGAGAGACAAAAGGGA 58.581 47.619 0.00 0.00 0.00 4.20
2160 2711 3.691609 GCCATACAAGGGAGAGACAAAAG 59.308 47.826 0.00 0.00 0.00 2.27
2246 2797 1.708341 AGCTTTGCCAATGTTCACCT 58.292 45.000 0.00 0.00 0.00 4.00
2260 2813 4.756084 GTTGTCAGAGCAACATAGCTTT 57.244 40.909 0.00 0.00 46.75 3.51
2375 2933 4.877823 AGCTGCATTACGATTTGAATCAGA 59.122 37.500 1.02 0.00 35.11 3.27
2403 2961 7.112122 TGAACATACAAAGCAGATCCAATAGT 58.888 34.615 0.00 0.00 0.00 2.12
2543 3102 2.158682 TGTTAGTGTTGTGTGGAGGCAT 60.159 45.455 0.00 0.00 0.00 4.40
2544 3103 1.210722 TGTTAGTGTTGTGTGGAGGCA 59.789 47.619 0.00 0.00 0.00 4.75
2545 3104 1.961793 TGTTAGTGTTGTGTGGAGGC 58.038 50.000 0.00 0.00 0.00 4.70
2546 3105 6.655003 AGAAATATGTTAGTGTTGTGTGGAGG 59.345 38.462 0.00 0.00 0.00 4.30
2547 3106 7.604164 AGAGAAATATGTTAGTGTTGTGTGGAG 59.396 37.037 0.00 0.00 0.00 3.86
2549 3108 7.387673 TGAGAGAAATATGTTAGTGTTGTGTGG 59.612 37.037 0.00 0.00 0.00 4.17
2550 3109 8.310406 TGAGAGAAATATGTTAGTGTTGTGTG 57.690 34.615 0.00 0.00 0.00 3.82
2553 3112 8.902540 TGTTGAGAGAAATATGTTAGTGTTGT 57.097 30.769 0.00 0.00 0.00 3.32
2554 3113 9.764870 CATGTTGAGAGAAATATGTTAGTGTTG 57.235 33.333 0.00 0.00 0.00 3.33
2585 3186 2.268298 GTTACATGCTGAGGTGGTACG 58.732 52.381 0.00 0.00 0.00 3.67
2602 3203 7.458397 AGGTGACCTTTTTCTCATGTATGTTA 58.542 34.615 0.00 0.00 0.00 2.41
2644 3245 8.899427 TTGCATAATTGGACAAAAATTCTCAA 57.101 26.923 0.00 0.00 0.00 3.02
2645 3246 9.504708 AATTGCATAATTGGACAAAAATTCTCA 57.495 25.926 0.00 0.00 35.26 3.27
2805 3406 6.573664 TTGTTCAGAAGGTGTATTCAATGG 57.426 37.500 0.00 0.00 0.00 3.16
2806 3407 6.088824 GCTTGTTCAGAAGGTGTATTCAATG 58.911 40.000 0.00 0.00 0.00 2.82
2807 3408 5.106555 CGCTTGTTCAGAAGGTGTATTCAAT 60.107 40.000 0.00 0.00 0.00 2.57
2808 3409 4.213270 CGCTTGTTCAGAAGGTGTATTCAA 59.787 41.667 0.00 0.00 0.00 2.69
2809 3410 3.745975 CGCTTGTTCAGAAGGTGTATTCA 59.254 43.478 0.00 0.00 0.00 2.57
2810 3411 3.424962 GCGCTTGTTCAGAAGGTGTATTC 60.425 47.826 0.00 0.00 0.00 1.75
2832 3458 5.182380 ACTGTCCATAACATAAAACCCAACG 59.818 40.000 0.00 0.00 37.23 4.10
2858 3484 5.086104 ACACTAAACATAGCCTACACAGG 57.914 43.478 0.00 0.00 45.77 4.00
2860 3486 6.438108 TCCTTACACTAAACATAGCCTACACA 59.562 38.462 0.00 0.00 0.00 3.72
2862 3488 7.469594 CGATCCTTACACTAAACATAGCCTACA 60.470 40.741 0.00 0.00 0.00 2.74
2864 3490 6.516194 GCGATCCTTACACTAAACATAGCCTA 60.516 42.308 0.00 0.00 0.00 3.93
2897 3523 4.947147 TTGTGGGTGAGGCGGCAC 62.947 66.667 13.08 5.35 38.05 5.01
2901 3527 1.265905 GTAAACTTTGTGGGTGAGGCG 59.734 52.381 0.00 0.00 0.00 5.52


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

AutoCloner maintained by Alex Coulton.