Multiple sequence alignment - TraesCS2B01G611900

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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 TraesCS2B01G611900 chr2B 100.000 3909 0 0 1 3909 790756509 790752601 0.000000e+00 7219.0
1 TraesCS2B01G611900 chr2B 86.372 1717 201 21 731 2424 790863320 790861614 0.000000e+00 1844.0
2 TraesCS2B01G611900 chr2B 84.809 1231 150 24 993 2198 790858324 790857106 0.000000e+00 1203.0
3 TraesCS2B01G611900 chr2B 89.872 859 68 7 2530 3369 790861374 790860516 0.000000e+00 1086.0
4 TraesCS2B01G611900 chr2B 79.821 669 83 32 27 656 790863996 790863341 1.290000e-119 440.0
5 TraesCS2B01G611900 chr2B 90.000 320 13 10 120 431 790859211 790858903 2.830000e-106 396.0
6 TraesCS2B01G611900 chr2B 78.672 497 82 14 1955 2441 790953352 790952870 3.790000e-80 309.0
7 TraesCS2B01G611900 chr2B 84.862 218 30 3 2542 2758 790856760 790856545 2.370000e-52 217.0
8 TraesCS2B01G611900 chr2B 100.000 32 0 0 285 316 790863699 790863730 4.220000e-05 60.2
9 TraesCS2B01G611900 chr2A 92.248 3973 177 55 2 3909 770008752 770012658 0.000000e+00 5509.0
10 TraesCS2B01G611900 chr2A 85.207 1014 118 25 1205 2198 770005166 770006167 0.000000e+00 1013.0
11 TraesCS2B01G611900 chr2A 81.702 1175 152 36 1047 2198 769983747 769984881 0.000000e+00 920.0
12 TraesCS2B01G611900 chr2A 80.815 1006 113 45 1 962 769982784 769983753 0.000000e+00 715.0
13 TraesCS2B01G611900 chr2A 80.599 768 132 14 1437 2198 769489119 769489875 9.420000e-161 577.0
14 TraesCS2B01G611900 chr2A 80.355 677 73 23 10 641 770000092 770000753 3.560000e-125 459.0
15 TraesCS2B01G611900 chr2A 81.752 411 62 7 731 1132 770004730 770005136 8.100000e-87 331.0
16 TraesCS2B01G611900 chr2A 81.232 341 57 5 1458 1797 757869745 757870079 6.440000e-68 268.0
17 TraesCS2B01G611900 chr2A 83.628 226 32 3 2536 2758 769985220 769985443 1.420000e-49 207.0
18 TraesCS2B01G611900 chr2A 85.492 193 24 2 2568 2758 770006537 770006727 8.570000e-47 198.0
19 TraesCS2B01G611900 chr2D 92.441 3863 190 41 119 3906 644717620 644721455 0.000000e+00 5422.0
20 TraesCS2B01G611900 chr2D 79.551 758 134 14 1440 2192 644286521 644287262 4.480000e-144 521.0
21 TraesCS2B01G611900 chr2D 79.691 453 72 13 2607 3044 644518777 644519224 3.790000e-80 309.0
22 TraesCS2B01G611900 chr3D 88.087 1511 141 14 1778 3268 588315854 588317345 0.000000e+00 1757.0
23 TraesCS2B01G611900 chr3D 76.239 787 86 46 3207 3909 588317343 588318112 1.350000e-84 324.0
24 TraesCS2B01G611900 chr3A 81.015 1222 142 36 2753 3909 718351467 718352663 0.000000e+00 889.0
25 TraesCS2B01G611900 chr3A 88.630 343 30 6 2407 2747 718350867 718351202 3.640000e-110 409.0
26 TraesCS2B01G611900 chr3B 81.588 869 80 35 2830 3639 786723154 786724001 0.000000e+00 645.0


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 TraesCS2B01G611900 chr2B 790752601 790756509 3908 True 7219.000000 7219 100.000000 1 3909 1 chr2B.!!$R1 3908
1 TraesCS2B01G611900 chr2B 790856545 790863996 7451 True 864.333333 1844 85.956000 27 3369 6 chr2B.!!$R3 3342
2 TraesCS2B01G611900 chr2A 770000092 770012658 12566 False 1502.000000 5509 85.010800 2 3909 5 chr2A.!!$F4 3907
3 TraesCS2B01G611900 chr2A 769982784 769985443 2659 False 614.000000 920 82.048333 1 2758 3 chr2A.!!$F3 2757
4 TraesCS2B01G611900 chr2A 769489119 769489875 756 False 577.000000 577 80.599000 1437 2198 1 chr2A.!!$F2 761
5 TraesCS2B01G611900 chr2D 644717620 644721455 3835 False 5422.000000 5422 92.441000 119 3906 1 chr2D.!!$F3 3787
6 TraesCS2B01G611900 chr2D 644286521 644287262 741 False 521.000000 521 79.551000 1440 2192 1 chr2D.!!$F1 752
7 TraesCS2B01G611900 chr3D 588315854 588318112 2258 False 1040.500000 1757 82.163000 1778 3909 2 chr3D.!!$F1 2131
8 TraesCS2B01G611900 chr3A 718350867 718352663 1796 False 649.000000 889 84.822500 2407 3909 2 chr3A.!!$F1 1502
9 TraesCS2B01G611900 chr3B 786723154 786724001 847 False 645.000000 645 81.588000 2830 3639 1 chr3B.!!$F1 809

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
841 9595 0.039074 AGAACAGAGTTGAGTCGGCG 60.039 55.0 0.0 0.0 0.00 6.46 F
1532 10330 0.381801 CGCTGGACAAGTTTGCTGTT 59.618 50.0 0.0 0.0 0.00 3.16 F
2833 12109 0.030501 TCGAGGGGGACCATTACCAT 60.031 55.0 0.0 0.0 44.85 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1810 10608 3.444029 TGGAGATCACCTTCACTGATGA 58.556 45.455 10.73 0.00 0.00 2.92 R
2875 12151 1.602851 ACGATATGACGGAACTCCTCG 59.397 52.381 0.00 2.34 37.61 4.63 R
3753 16416 3.539604 CTCCTTTTGTGGAGCTCCTATG 58.460 50.000 32.28 15.87 45.84 2.23 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
20 22 0.249826 GGTTTCCAACACGACCGGTA 60.250 55.000 7.34 0.00 0.00 4.02
25 27 0.672401 CCAACACGACCGGTATTGCT 60.672 55.000 7.34 0.00 0.00 3.91
29 31 1.202486 ACACGACCGGTATTGCTATGG 60.202 52.381 7.34 0.00 0.00 2.74
46 49 1.001393 GGGGGAGGCAAATCGAACA 60.001 57.895 0.00 0.00 0.00 3.18
55 58 2.539547 GGCAAATCGAACATCCACATCG 60.540 50.000 0.00 0.00 37.90 3.84
63 66 2.498807 ACATCCACATCGATCTGACG 57.501 50.000 1.81 0.00 0.00 4.35
70 74 1.681793 ACATCGATCTGACGGTTAGGG 59.318 52.381 0.00 0.00 0.00 3.53
71 75 1.954382 CATCGATCTGACGGTTAGGGA 59.046 52.381 0.00 0.00 0.00 4.20
73 77 0.669077 CGATCTGACGGTTAGGGAGG 59.331 60.000 0.00 0.00 0.00 4.30
74 78 0.389757 GATCTGACGGTTAGGGAGGC 59.610 60.000 0.00 0.00 0.00 4.70
76 80 0.970937 TCTGACGGTTAGGGAGGCAG 60.971 60.000 0.00 0.00 0.00 4.85
78 82 2.284699 ACGGTTAGGGAGGCAGCT 60.285 61.111 0.00 0.00 0.00 4.24
93 97 6.874664 GGGAGGCAGCTATAACTCTTAATTAC 59.125 42.308 0.00 0.00 0.00 1.89
100 104 9.601217 CAGCTATAACTCTTAATTACCAGTTGT 57.399 33.333 14.58 11.70 31.52 3.32
107 111 7.346471 ACTCTTAATTACCAGTTGTATGCCAT 58.654 34.615 0.00 0.00 0.00 4.40
108 112 7.283127 ACTCTTAATTACCAGTTGTATGCCATG 59.717 37.037 0.00 0.00 0.00 3.66
148 154 8.669394 AAAATAGCCTTTATTTTCGAAGAACG 57.331 30.769 0.00 0.00 45.90 3.95
166 186 7.853929 CGAAGAACGGTAAAGAAAAATCTGAAA 59.146 33.333 0.00 0.00 38.46 2.69
261 313 1.230324 GTGCGGCCCAGATTAATCTC 58.770 55.000 15.24 4.66 34.22 2.75
264 316 1.609320 GCGGCCCAGATTAATCTCTCC 60.609 57.143 15.24 14.11 34.22 3.71
267 8994 2.343625 GCCCAGATTAATCTCTCCCCT 58.656 52.381 15.24 0.00 34.22 4.79
273 9000 5.221823 CCAGATTAATCTCTCCCCTTCTTCC 60.222 48.000 15.24 0.00 34.22 3.46
389 9117 0.107654 ATTTTCCCTTCTCCGGCGAG 60.108 55.000 9.30 4.01 37.48 5.03
464 9206 5.127491 ACGTCAGTTTGAATCCCTGTTAAA 58.873 37.500 0.00 0.00 0.00 1.52
492 9234 0.461339 GGCGCGTTCCTCAATTCCTA 60.461 55.000 8.43 0.00 0.00 2.94
509 9251 7.728083 TCAATTCCTAAGAGAAAAACAATCCCA 59.272 33.333 0.00 0.00 0.00 4.37
511 9253 7.524717 TTCCTAAGAGAAAAACAATCCCAAG 57.475 36.000 0.00 0.00 0.00 3.61
513 9255 6.010219 CCTAAGAGAAAAACAATCCCAAGGA 58.990 40.000 0.00 0.00 35.55 3.36
518 9260 7.413446 AGAGAAAAACAATCCCAAGGATGATA 58.587 34.615 0.00 0.00 42.27 2.15
546 9288 3.309296 TGGAGGCTAGGATCTTGGTTAG 58.691 50.000 0.00 0.00 0.00 2.34
567 9312 3.118371 AGTTATCCAGTTCCAATCCCGAC 60.118 47.826 0.00 0.00 0.00 4.79
571 9316 0.392998 CAGTTCCAATCCCGACCCTG 60.393 60.000 0.00 0.00 0.00 4.45
597 9342 6.183360 CGATCCCGATTGCAAAATTTTGAATT 60.183 34.615 30.40 18.53 37.98 2.17
601 9346 6.302786 CCCGATTGCAAAATTTTGAATTTTCG 59.697 34.615 30.40 24.95 40.55 3.46
632 9377 5.236478 CGATCCCCATTGTAGTGTAATGTTC 59.764 44.000 0.00 0.00 34.51 3.18
634 9379 4.538490 TCCCCATTGTAGTGTAATGTTCCT 59.462 41.667 0.00 0.00 34.51 3.36
642 9387 2.375174 AGTGTAATGTTCCTTCAGGCCA 59.625 45.455 5.01 0.00 34.44 5.36
656 9404 6.213195 TCCTTCAGGCCAATTTTAAACATGAT 59.787 34.615 5.01 0.00 34.44 2.45
714 9467 3.455990 GCCAAGGCTAGTAACCTACTC 57.544 52.381 3.29 0.00 40.14 2.59
715 9468 2.102757 GCCAAGGCTAGTAACCTACTCC 59.897 54.545 3.29 0.00 40.14 3.85
716 9469 3.644335 CCAAGGCTAGTAACCTACTCCT 58.356 50.000 0.00 0.00 40.14 3.69
717 9470 3.637694 CCAAGGCTAGTAACCTACTCCTC 59.362 52.174 0.00 0.00 40.14 3.71
718 9471 4.538738 CAAGGCTAGTAACCTACTCCTCT 58.461 47.826 0.00 0.00 40.14 3.69
719 9472 4.173290 AGGCTAGTAACCTACTCCTCTG 57.827 50.000 0.00 0.00 40.14 3.35
720 9473 3.787013 AGGCTAGTAACCTACTCCTCTGA 59.213 47.826 0.00 0.00 40.14 3.27
721 9474 4.417518 AGGCTAGTAACCTACTCCTCTGAT 59.582 45.833 0.00 0.00 40.14 2.90
722 9475 4.521256 GGCTAGTAACCTACTCCTCTGATG 59.479 50.000 0.00 0.00 40.14 3.07
723 9476 5.134661 GCTAGTAACCTACTCCTCTGATGT 58.865 45.833 0.00 0.00 40.14 3.06
724 9477 5.595133 GCTAGTAACCTACTCCTCTGATGTT 59.405 44.000 0.00 0.00 40.14 2.71
725 9478 6.771749 GCTAGTAACCTACTCCTCTGATGTTA 59.228 42.308 0.00 0.00 40.14 2.41
726 9479 7.255208 GCTAGTAACCTACTCCTCTGATGTTAC 60.255 44.444 0.00 0.00 40.14 2.50
727 9480 4.985538 AACCTACTCCTCTGATGTTACG 57.014 45.455 0.00 0.00 0.00 3.18
728 9481 3.965694 ACCTACTCCTCTGATGTTACGT 58.034 45.455 0.00 0.00 0.00 3.57
729 9482 3.695060 ACCTACTCCTCTGATGTTACGTG 59.305 47.826 0.00 0.00 0.00 4.49
730 9483 3.945921 CCTACTCCTCTGATGTTACGTGA 59.054 47.826 0.00 0.00 0.00 4.35
731 9484 4.398358 CCTACTCCTCTGATGTTACGTGAA 59.602 45.833 0.00 0.00 0.00 3.18
732 9485 4.442375 ACTCCTCTGATGTTACGTGAAG 57.558 45.455 0.00 0.00 0.00 3.02
733 9486 4.079970 ACTCCTCTGATGTTACGTGAAGA 58.920 43.478 0.00 0.00 0.00 2.87
734 9487 4.707448 ACTCCTCTGATGTTACGTGAAGAT 59.293 41.667 0.00 0.00 0.00 2.40
735 9488 5.886474 ACTCCTCTGATGTTACGTGAAGATA 59.114 40.000 0.00 0.00 0.00 1.98
736 9489 6.038825 ACTCCTCTGATGTTACGTGAAGATAG 59.961 42.308 0.00 0.00 0.00 2.08
756 9509 9.454859 AAGATAGGAGTTACAAAAATGAAGAGG 57.545 33.333 0.00 0.00 0.00 3.69
771 9524 5.633830 TGAAGAGGAAAATCTTGTGATGC 57.366 39.130 0.00 0.00 39.63 3.91
794 9547 6.371548 TGCAAGATACCTGATACAAGTTTGTC 59.628 38.462 0.00 0.00 42.35 3.18
804 9557 6.375377 TGATACAAGTTTGTCGCCAAATTAC 58.625 36.000 0.00 0.00 42.26 1.89
841 9595 0.039074 AGAACAGAGTTGAGTCGGCG 60.039 55.000 0.00 0.00 0.00 6.46
863 9617 4.318332 GGGATTCATGATCACGATTGCTA 58.682 43.478 0.00 0.00 36.43 3.49
970 9734 1.322442 ACTTCTTCTTTGCTGCCACC 58.678 50.000 0.00 0.00 0.00 4.61
1038 9803 4.455877 AGCCAAGAACTTTCGATCGAAAAT 59.544 37.500 35.09 27.54 42.61 1.82
1422 10220 3.062763 GCCATCATTAGAGACACGGATG 58.937 50.000 0.00 0.00 33.66 3.51
1455 10253 2.842496 TCCTGGACTGCTGAATTCATCT 59.158 45.455 8.96 0.00 0.00 2.90
1466 10264 5.124936 TGCTGAATTCATCTTCAATGTGGAG 59.875 40.000 8.96 0.00 34.86 3.86
1532 10330 0.381801 CGCTGGACAAGTTTGCTGTT 59.618 50.000 0.00 0.00 0.00 3.16
1563 10361 4.811557 GTCTCCGCAGAAAGCATAAGTATT 59.188 41.667 0.00 0.00 46.13 1.89
1793 10591 5.704053 CGGTATCACAAACCTTAGGAAACTT 59.296 40.000 4.77 0.00 37.03 2.66
1810 10608 6.375174 AGGAAACTTACACTAAAAACGGTGTT 59.625 34.615 4.11 0.00 37.44 3.32
2199 11003 3.704061 GGATCAGGTCTGCTCTAGAAAGT 59.296 47.826 0.00 0.00 37.12 2.66
2523 11368 4.103469 TCTGTTGCTTCTGTTTAACCCCTA 59.897 41.667 0.00 0.00 0.00 3.53
2833 12109 0.030501 TCGAGGGGGACCATTACCAT 60.031 55.000 0.00 0.00 44.85 3.55
2875 12151 0.172803 CAGAGCAAATCCTTGGCAGC 59.827 55.000 0.00 0.00 32.76 5.25
2959 12245 9.249457 CTATTTATATATGCCGACGATTGATGT 57.751 33.333 0.00 0.00 0.00 3.06
2980 12266 2.223803 TATGGGCGTGGTGGAAAAAT 57.776 45.000 0.00 0.00 0.00 1.82
2988 12274 3.427503 GCGTGGTGGAAAAATGATCGATT 60.428 43.478 0.00 0.00 0.00 3.34
3092 12378 4.101942 GCACGAAAATTCAGTGTTGTCAA 58.898 39.130 14.72 0.00 35.60 3.18
3112 12399 4.100653 TCAACATTTTGGTTGCAATCTGGA 59.899 37.500 11.73 0.00 45.98 3.86
3179 12476 2.989166 GCAGTTGGTAGCAATTTTGAGC 59.011 45.455 11.06 2.74 0.00 4.26
3192 12493 8.552083 AGCAATTTTGAGCGATATATATGTGA 57.448 30.769 0.00 0.00 35.48 3.58
3273 12643 7.976175 GTGTATGATACTGTCAAGATTCAGTGA 59.024 37.037 4.03 0.00 43.46 3.41
3288 12658 3.159472 TCAGTGATTTCCTTGCTGCAAT 58.841 40.909 16.38 0.00 0.00 3.56
3422 12862 4.583489 TCACCTACTAATTCGCCCTTCTAG 59.417 45.833 0.00 0.00 0.00 2.43
3478 12942 4.890499 AGTGAGAGGAGAAGAGGGAATA 57.110 45.455 0.00 0.00 0.00 1.75
3479 12943 5.417170 AGTGAGAGGAGAAGAGGGAATAT 57.583 43.478 0.00 0.00 0.00 1.28
3480 12944 5.147032 AGTGAGAGGAGAAGAGGGAATATG 58.853 45.833 0.00 0.00 0.00 1.78
3514 14325 4.808558 TCTGCATATTTTGGTGAGTTTGC 58.191 39.130 0.00 0.00 0.00 3.68
3616 16279 0.846693 AACAAGGGGACAGAGCAACT 59.153 50.000 0.00 0.00 0.00 3.16
3621 16284 4.080863 ACAAGGGGACAGAGCAACTATTAG 60.081 45.833 0.00 0.00 0.00 1.73
3672 16335 1.249407 TGCAACCCGTCCAAATTACC 58.751 50.000 0.00 0.00 0.00 2.85
3753 16416 3.795561 CACTTGCAGTGCTGTAACTAC 57.204 47.619 17.60 0.00 39.62 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.144730 CAATACCGGTCGTGTTGGAAA 58.855 47.619 12.40 0.00 39.28 3.13
14 16 0.400815 TCCCCCATAGCAATACCGGT 60.401 55.000 13.98 13.98 0.00 5.28
20 22 0.636101 TTTGCCTCCCCCATAGCAAT 59.364 50.000 0.00 0.00 44.10 3.56
25 27 1.133915 GTTCGATTTGCCTCCCCCATA 60.134 52.381 0.00 0.00 0.00 2.74
29 31 1.025041 GATGTTCGATTTGCCTCCCC 58.975 55.000 0.00 0.00 0.00 4.81
46 49 1.403814 ACCGTCAGATCGATGTGGAT 58.596 50.000 21.13 3.29 0.00 3.41
55 58 0.389757 GCCTCCCTAACCGTCAGATC 59.610 60.000 0.00 0.00 0.00 2.75
56 59 0.325296 TGCCTCCCTAACCGTCAGAT 60.325 55.000 0.00 0.00 0.00 2.90
57 60 0.970937 CTGCCTCCCTAACCGTCAGA 60.971 60.000 0.00 0.00 0.00 3.27
58 61 1.517832 CTGCCTCCCTAACCGTCAG 59.482 63.158 0.00 0.00 0.00 3.51
59 62 2.656069 GCTGCCTCCCTAACCGTCA 61.656 63.158 0.00 0.00 0.00 4.35
63 66 2.973406 AGTTATAGCTGCCTCCCTAACC 59.027 50.000 0.00 0.00 0.00 2.85
70 74 7.442656 TGGTAATTAAGAGTTATAGCTGCCTC 58.557 38.462 0.00 0.00 0.00 4.70
71 75 7.071321 ACTGGTAATTAAGAGTTATAGCTGCCT 59.929 37.037 0.00 0.00 0.00 4.75
73 77 8.552034 CAACTGGTAATTAAGAGTTATAGCTGC 58.448 37.037 0.00 0.00 0.00 5.25
74 78 9.601217 ACAACTGGTAATTAAGAGTTATAGCTG 57.399 33.333 0.00 2.30 0.00 4.24
93 97 2.642427 TGCTACATGGCATACAACTGG 58.358 47.619 0.00 0.00 37.29 4.00
100 104 0.817634 GGCGGTTGCTACATGGCATA 60.818 55.000 0.00 0.00 42.09 3.14
104 108 1.745232 TTTAGGCGGTTGCTACATGG 58.255 50.000 0.00 0.00 42.25 3.66
135 141 9.177304 GATTTTTCTTTACCGTTCTTCGAAAAT 57.823 29.630 0.00 0.00 42.86 1.82
140 146 6.884187 TCAGATTTTTCTTTACCGTTCTTCG 58.116 36.000 0.00 0.00 39.52 3.79
196 219 7.855784 ATGTTCTCCCAACCTTTATTTTCTT 57.144 32.000 0.00 0.00 0.00 2.52
199 222 6.154534 GGCTATGTTCTCCCAACCTTTATTTT 59.845 38.462 0.00 0.00 0.00 1.82
261 313 3.635510 CGGGAGGAAGAAGGGGAG 58.364 66.667 0.00 0.00 0.00 4.30
341 9068 3.865929 AACACGCAGGAGCTCACCG 62.866 63.158 17.19 16.12 39.10 4.94
389 9117 4.475135 GAGCCTCTCCCAACGGGC 62.475 72.222 0.00 0.00 43.94 6.13
435 9177 4.081807 AGGGATTCAAACTGACGTACCTAC 60.082 45.833 0.00 0.00 27.18 3.18
443 9185 8.764287 CAATTTTTAACAGGGATTCAAACTGAC 58.236 33.333 8.61 0.00 36.17 3.51
450 9192 6.576045 GCCCATCAATTTTTAACAGGGATTCA 60.576 38.462 0.00 0.00 37.22 2.57
464 9206 0.965363 AGGAACGCGCCCATCAATTT 60.965 50.000 18.56 0.00 0.00 1.82
492 9234 6.077322 TCATCCTTGGGATTGTTTTTCTCTT 58.923 36.000 0.00 0.00 39.79 2.85
509 9251 4.850963 AGCCTCCATTCAGATATCATCCTT 59.149 41.667 5.32 0.00 0.00 3.36
511 9253 4.840716 AGCCTCCATTCAGATATCATCC 57.159 45.455 5.32 0.00 0.00 3.51
513 9255 5.597758 TCCTAGCCTCCATTCAGATATCAT 58.402 41.667 5.32 0.00 0.00 2.45
518 9260 4.144825 AGATCCTAGCCTCCATTCAGAT 57.855 45.455 0.00 0.00 0.00 2.90
546 9288 3.203716 GTCGGGATTGGAACTGGATAAC 58.796 50.000 0.00 0.00 0.00 1.89
567 9312 2.974698 GCAATCGGGATCGCAGGG 60.975 66.667 10.70 0.00 36.13 4.45
571 9316 2.208326 AATTTTGCAATCGGGATCGC 57.792 45.000 0.00 0.00 36.13 4.58
601 9346 0.820891 ACAATGGGGATCGCTCATGC 60.821 55.000 9.90 0.00 0.00 4.06
632 9377 5.792741 TCATGTTTAAAATTGGCCTGAAGG 58.207 37.500 3.32 0.00 38.53 3.46
634 9379 6.767456 ACATCATGTTTAAAATTGGCCTGAA 58.233 32.000 3.32 0.00 0.00 3.02
642 9387 8.806146 ACCTGAAGCTACATCATGTTTAAAATT 58.194 29.630 0.00 0.00 0.00 1.82
656 9404 4.699925 AAACCAGTAACCTGAAGCTACA 57.300 40.909 0.00 0.00 41.50 2.74
688 9438 1.280998 GTTACTAGCCTTGGCTGGGAA 59.719 52.381 25.00 21.27 0.00 3.97
712 9465 4.703645 TCTTCACGTAACATCAGAGGAG 57.296 45.455 0.00 0.00 0.00 3.69
713 9466 5.299531 CCTATCTTCACGTAACATCAGAGGA 59.700 44.000 0.00 0.00 0.00 3.71
714 9467 5.299531 TCCTATCTTCACGTAACATCAGAGG 59.700 44.000 0.00 0.00 0.00 3.69
715 9468 6.038825 ACTCCTATCTTCACGTAACATCAGAG 59.961 42.308 0.00 0.00 0.00 3.35
716 9469 5.886474 ACTCCTATCTTCACGTAACATCAGA 59.114 40.000 0.00 0.00 0.00 3.27
717 9470 6.137794 ACTCCTATCTTCACGTAACATCAG 57.862 41.667 0.00 0.00 0.00 2.90
718 9471 6.525578 AACTCCTATCTTCACGTAACATCA 57.474 37.500 0.00 0.00 0.00 3.07
719 9472 7.478322 TGTAACTCCTATCTTCACGTAACATC 58.522 38.462 0.00 0.00 0.00 3.06
720 9473 7.400599 TGTAACTCCTATCTTCACGTAACAT 57.599 36.000 0.00 0.00 0.00 2.71
721 9474 6.822667 TGTAACTCCTATCTTCACGTAACA 57.177 37.500 0.00 0.00 0.00 2.41
722 9475 8.524870 TTTTGTAACTCCTATCTTCACGTAAC 57.475 34.615 0.00 0.00 0.00 2.50
723 9476 9.715121 ATTTTTGTAACTCCTATCTTCACGTAA 57.285 29.630 0.00 0.00 0.00 3.18
724 9477 9.146984 CATTTTTGTAACTCCTATCTTCACGTA 57.853 33.333 0.00 0.00 0.00 3.57
725 9478 7.876068 TCATTTTTGTAACTCCTATCTTCACGT 59.124 33.333 0.00 0.00 0.00 4.49
726 9479 8.251750 TCATTTTTGTAACTCCTATCTTCACG 57.748 34.615 0.00 0.00 0.00 4.35
730 9483 9.454859 CCTCTTCATTTTTGTAACTCCTATCTT 57.545 33.333 0.00 0.00 0.00 2.40
731 9484 8.826765 TCCTCTTCATTTTTGTAACTCCTATCT 58.173 33.333 0.00 0.00 0.00 1.98
732 9485 9.449719 TTCCTCTTCATTTTTGTAACTCCTATC 57.550 33.333 0.00 0.00 0.00 2.08
733 9486 9.807921 TTTCCTCTTCATTTTTGTAACTCCTAT 57.192 29.630 0.00 0.00 0.00 2.57
734 9487 9.635404 TTTTCCTCTTCATTTTTGTAACTCCTA 57.365 29.630 0.00 0.00 0.00 2.94
735 9488 8.533569 TTTTCCTCTTCATTTTTGTAACTCCT 57.466 30.769 0.00 0.00 0.00 3.69
736 9489 9.411801 GATTTTCCTCTTCATTTTTGTAACTCC 57.588 33.333 0.00 0.00 0.00 3.85
763 9516 5.988287 TGTATCAGGTATCTTGCATCACAA 58.012 37.500 0.00 0.00 36.62 3.33
771 9524 6.455646 GCGACAAACTTGTATCAGGTATCTTG 60.456 42.308 0.00 0.00 42.43 3.02
794 9547 5.854338 ACAAAACAGATAACGTAATTTGGCG 59.146 36.000 0.00 0.00 32.20 5.69
841 9595 3.144506 AGCAATCGTGATCATGAATCCC 58.855 45.455 21.10 10.13 33.01 3.85
889 9650 4.201871 GCAATCGTTATCATTGGTTTCGGA 60.202 41.667 0.00 0.00 32.66 4.55
1038 9803 2.094182 CCTACTGAAACCAGCGCTCTTA 60.094 50.000 7.13 0.00 35.09 2.10
1455 10253 3.684305 CGCAATACACTCTCCACATTGAA 59.316 43.478 0.00 0.00 0.00 2.69
1466 10264 0.673644 ACAGTGGGCGCAATACACTC 60.674 55.000 18.94 0.00 43.09 3.51
1532 10330 2.559698 TTCTGCGGAGACCAAATTCA 57.440 45.000 5.97 0.00 0.00 2.57
1563 10361 7.719633 GGAAAAGCTAACCCATCTATCAATGTA 59.280 37.037 0.00 0.00 0.00 2.29
1793 10591 6.018588 CACTGATGAACACCGTTTTTAGTGTA 60.019 38.462 0.00 0.00 46.22 2.90
1810 10608 3.444029 TGGAGATCACCTTCACTGATGA 58.556 45.455 10.73 0.00 0.00 2.92
2249 11094 8.574196 AAACAGTGCACAGATACAAAATTAAC 57.426 30.769 21.04 0.00 0.00 2.01
2833 12109 4.129380 CAAACATCCTATTCTGATCGGCA 58.871 43.478 0.00 0.00 0.00 5.69
2875 12151 1.602851 ACGATATGACGGAACTCCTCG 59.397 52.381 0.00 2.34 37.61 4.63
2959 12245 3.367646 TTTTTCCACCACGCCCATATA 57.632 42.857 0.00 0.00 0.00 0.86
2980 12266 4.687901 TCATAAAGCTCCCAATCGATCA 57.312 40.909 0.00 0.00 0.00 2.92
3046 12332 5.012239 ACACACTACTGCATCCAATCATTT 58.988 37.500 0.00 0.00 0.00 2.32
3074 12360 7.904461 CCAAAATGTTGACAACACTGAATTTTC 59.096 33.333 22.80 0.00 45.50 2.29
3092 12378 4.895668 ATCCAGATTGCAACCAAAATGT 57.104 36.364 0.00 0.00 34.05 2.71
3112 12399 7.755373 GCCGAAAAAGAAGAAAGCATAGTTAAT 59.245 33.333 0.00 0.00 0.00 1.40
3273 12643 6.343703 GGAAGATTAATTGCAGCAAGGAAAT 58.656 36.000 14.47 12.17 0.00 2.17
3404 12843 7.486647 CAGTTAACTAGAAGGGCGAATTAGTA 58.513 38.462 8.04 0.00 0.00 1.82
3413 12853 3.440522 CCTTTGCAGTTAACTAGAAGGGC 59.559 47.826 23.41 16.45 30.90 5.19
3422 12862 3.686016 TGAGATCCCCTTTGCAGTTAAC 58.314 45.455 0.00 0.00 0.00 2.01
3478 12942 3.947612 ATGCAGAACTCCCTTCATCAT 57.052 42.857 0.00 0.00 0.00 2.45
3479 12943 5.378230 AATATGCAGAACTCCCTTCATCA 57.622 39.130 0.00 0.00 0.00 3.07
3480 12944 6.460676 CCAAAATATGCAGAACTCCCTTCATC 60.461 42.308 0.00 0.00 0.00 2.92
3514 14325 7.223193 TGTGATTCTTTCAAGCAAGACAAAATG 59.777 33.333 0.00 0.00 35.70 2.32
3600 15709 4.362677 TCTAATAGTTGCTCTGTCCCCTT 58.637 43.478 0.00 0.00 0.00 3.95
3621 16284 8.464770 TTGCACATTAAAATAATGTTCTGCTC 57.535 30.769 11.90 1.48 38.69 4.26
3672 16335 4.662145 AGTGAAAAAGTTTGAAGTCGCAG 58.338 39.130 0.00 0.00 0.00 5.18
3753 16416 3.539604 CTCCTTTTGTGGAGCTCCTATG 58.460 50.000 32.28 15.87 45.84 2.23
3780 16490 7.039853 TGCTGAAGTGATGGATTTGTTTTCATA 60.040 33.333 0.00 0.00 0.00 2.15
3781 16491 6.161381 GCTGAAGTGATGGATTTGTTTTCAT 58.839 36.000 0.00 0.00 0.00 2.57
3844 16579 7.203910 ACTTATTAGACAGTCTTAGATTGGCG 58.796 38.462 8.80 0.00 32.35 5.69


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

AutoCloner maintained by Alex Coulton.