Multiple sequence alignment - TraesCS2D01G187100

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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 TraesCS2D01G187100 chr2D 100.000 3633 0 0 1 3633 131165291 131161659 0.000000e+00 6709.0
1 TraesCS2D01G187100 chr2D 84.856 1215 119 36 1321 2510 129837262 129838436 0.000000e+00 1164.0
2 TraesCS2D01G187100 chr2D 85.851 834 94 16 1553 2372 129941568 129942391 0.000000e+00 865.0
3 TraesCS2D01G187100 chr2D 90.000 560 49 5 271 829 29662836 29663389 0.000000e+00 717.0
4 TraesCS2D01G187100 chr2D 84.694 392 47 7 3070 3460 129839267 129839646 2.650000e-101 379.0
5 TraesCS2D01G187100 chr2D 77.283 449 55 22 3187 3627 129945445 129945854 1.700000e-53 220.0
6 TraesCS2D01G187100 chr2D 81.250 160 24 4 1331 1489 129941404 129941558 1.370000e-24 124.0
7 TraesCS2D01G187100 chr2D 81.651 109 17 3 3521 3627 129839681 129839788 1.800000e-13 87.9
8 TraesCS2D01G187100 chr2A 89.717 1799 113 27 860 2617 137260847 137259080 0.000000e+00 2231.0
9 TraesCS2D01G187100 chr2A 90.590 542 43 6 271 811 3862149 3862683 0.000000e+00 712.0
10 TraesCS2D01G187100 chr2A 89.643 560 50 6 271 829 16906926 16907478 0.000000e+00 706.0
11 TraesCS2D01G187100 chr2A 89.343 563 50 7 271 830 7379799 7380354 0.000000e+00 699.0
12 TraesCS2D01G187100 chr2A 88.980 490 28 5 2977 3463 137256719 137256253 1.880000e-162 582.0
13 TraesCS2D01G187100 chr2A 84.391 583 81 9 1591 2168 755060872 755061449 6.810000e-157 564.0
14 TraesCS2D01G187100 chr2A 88.205 195 14 5 2713 2906 137256932 137256746 1.310000e-54 224.0
15 TraesCS2D01G187100 chr2A 95.455 132 6 0 3502 3633 137256243 137256112 1.020000e-50 211.0
16 TraesCS2D01G187100 chr2A 89.344 122 9 3 2595 2714 137257411 137257292 2.260000e-32 150.0
17 TraesCS2D01G187100 chr2B 92.634 1344 68 14 856 2180 184663665 184662334 0.000000e+00 1905.0
18 TraesCS2D01G187100 chr2B 86.128 1449 79 44 2235 3633 184662235 184660859 0.000000e+00 1450.0
19 TraesCS2D01G187100 chr2B 82.136 1058 141 28 1321 2372 183211537 183212552 0.000000e+00 863.0
20 TraesCS2D01G187100 chr2B 88.215 577 60 6 254 829 730305209 730304640 0.000000e+00 682.0
21 TraesCS2D01G187100 chr2B 84.534 569 80 7 1604 2168 751603762 751603198 1.140000e-154 556.0
22 TraesCS2D01G187100 chr2B 83.677 582 87 8 1591 2168 765562114 765562691 3.190000e-150 542.0
23 TraesCS2D01G187100 chr2B 87.843 255 25 2 2938 3188 183262691 183262943 9.870000e-76 294.0
24 TraesCS2D01G187100 chr2B 88.202 178 21 0 6 183 730305721 730305544 2.840000e-51 213.0
25 TraesCS2D01G187100 chr2B 93.750 112 7 0 3201 3312 794020959 794021070 6.240000e-38 169.0
26 TraesCS2D01G187100 chr2B 90.698 86 8 0 1 86 77926626 77926711 8.240000e-22 115.0
27 TraesCS2D01G187100 chr7D 89.647 821 78 5 1 820 194501592 194500778 0.000000e+00 1038.0
28 TraesCS2D01G187100 chr7D 88.916 830 84 6 1 829 102957095 102957917 0.000000e+00 1016.0
29 TraesCS2D01G187100 chr7D 84.655 580 77 11 1593 2166 534655136 534654563 5.260000e-158 568.0
30 TraesCS2D01G187100 chr3B 91.453 585 45 3 238 821 392840286 392839706 0.000000e+00 798.0
31 TraesCS2D01G187100 chr1B 89.381 565 50 7 271 832 671461332 671460775 0.000000e+00 702.0
32 TraesCS2D01G187100 chrUn 90.417 480 34 7 2923 3390 17475511 17475990 3.980000e-174 621.0
33 TraesCS2D01G187100 chr4B 93.525 139 9 0 3174 3312 668616212 668616350 1.320000e-49 207.0


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 TraesCS2D01G187100 chr2D 131161659 131165291 3632 True 6709.000000 6709 100.000000 1 3633 1 chr2D.!!$R1 3632
1 TraesCS2D01G187100 chr2D 29662836 29663389 553 False 717.000000 717 90.000000 271 829 1 chr2D.!!$F1 558
2 TraesCS2D01G187100 chr2D 129837262 129839788 2526 False 543.633333 1164 83.733667 1321 3627 3 chr2D.!!$F2 2306
3 TraesCS2D01G187100 chr2D 129941404 129945854 4450 False 403.000000 865 81.461333 1331 3627 3 chr2D.!!$F3 2296
4 TraesCS2D01G187100 chr2A 3862149 3862683 534 False 712.000000 712 90.590000 271 811 1 chr2A.!!$F1 540
5 TraesCS2D01G187100 chr2A 16906926 16907478 552 False 706.000000 706 89.643000 271 829 1 chr2A.!!$F3 558
6 TraesCS2D01G187100 chr2A 7379799 7380354 555 False 699.000000 699 89.343000 271 830 1 chr2A.!!$F2 559
7 TraesCS2D01G187100 chr2A 137256112 137260847 4735 True 679.600000 2231 90.340200 860 3633 5 chr2A.!!$R1 2773
8 TraesCS2D01G187100 chr2A 755060872 755061449 577 False 564.000000 564 84.391000 1591 2168 1 chr2A.!!$F4 577
9 TraesCS2D01G187100 chr2B 184660859 184663665 2806 True 1677.500000 1905 89.381000 856 3633 2 chr2B.!!$R2 2777
10 TraesCS2D01G187100 chr2B 183211537 183212552 1015 False 863.000000 863 82.136000 1321 2372 1 chr2B.!!$F2 1051
11 TraesCS2D01G187100 chr2B 751603198 751603762 564 True 556.000000 556 84.534000 1604 2168 1 chr2B.!!$R1 564
12 TraesCS2D01G187100 chr2B 765562114 765562691 577 False 542.000000 542 83.677000 1591 2168 1 chr2B.!!$F4 577
13 TraesCS2D01G187100 chr2B 730304640 730305721 1081 True 447.500000 682 88.208500 6 829 2 chr2B.!!$R3 823
14 TraesCS2D01G187100 chr7D 194500778 194501592 814 True 1038.000000 1038 89.647000 1 820 1 chr7D.!!$R1 819
15 TraesCS2D01G187100 chr7D 102957095 102957917 822 False 1016.000000 1016 88.916000 1 829 1 chr7D.!!$F1 828
16 TraesCS2D01G187100 chr7D 534654563 534655136 573 True 568.000000 568 84.655000 1593 2166 1 chr7D.!!$R2 573
17 TraesCS2D01G187100 chr3B 392839706 392840286 580 True 798.000000 798 91.453000 238 821 1 chr3B.!!$R1 583
18 TraesCS2D01G187100 chr1B 671460775 671461332 557 True 702.000000 702 89.381000 271 832 1 chr1B.!!$R1 561

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
352 620 0.538287 GCAGTTCCCTTTCAGTGCCT 60.538 55.0 0.00 0.0 33.84 4.75 F
363 631 0.714180 TCAGTGCCTAGGTTCCCCTA 59.286 55.0 11.31 0.0 42.66 3.53 F
1325 1604 0.610232 GTGTGCCCTTCTCCTGCAAT 60.610 55.0 0.00 0.0 36.65 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1325 1604 0.906775 CCCGCTCAACCCCTTACTAA 59.093 55.000 0.00 0.00 0.0 2.24 R
1548 1847 1.768888 ACCGGTGAAGTTGGGGTCT 60.769 57.895 6.12 0.00 0.0 3.85 R
3197 7949 0.180406 CCTGAGGACAATTACCCGGG 59.820 60.000 22.25 22.25 0.0 5.73 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
28 29 0.693622 TGGTGAGTTTTGGGGCGATA 59.306 50.000 0.00 0.00 0.00 2.92
84 85 1.978455 TTGGTTGGAGTCTGCGGTGT 61.978 55.000 0.00 0.00 0.00 4.16
88 89 1.021202 TTGGAGTCTGCGGTGTTTTG 58.979 50.000 0.00 0.00 0.00 2.44
115 117 3.679980 CGCTGCTTATTATGTTCGCCTAT 59.320 43.478 0.00 0.00 0.00 2.57
121 123 6.018262 TGCTTATTATGTTCGCCTATTGTGTC 60.018 38.462 0.00 0.00 0.00 3.67
125 127 2.598589 TGTTCGCCTATTGTGTCGTAC 58.401 47.619 0.00 0.00 0.00 3.67
148 150 2.771639 CGGTCATCTCTTCGGCGGA 61.772 63.158 7.21 0.00 0.00 5.54
209 211 4.612279 TGGGTGCCGTGGCCATTT 62.612 61.111 9.72 0.00 41.09 2.32
225 227 1.815003 CATTTTGAGGGGTGTGAGCTC 59.185 52.381 6.82 6.82 0.00 4.09
268 534 4.863925 GCGTCTCTCTGCTCCGCC 62.864 72.222 0.00 0.00 38.52 6.13
313 581 1.873591 GTCATCAACAGTCTTGCCGTT 59.126 47.619 0.00 0.00 0.00 4.44
314 582 2.290641 GTCATCAACAGTCTTGCCGTTT 59.709 45.455 0.00 0.00 0.00 3.60
320 588 4.336993 TCAACAGTCTTGCCGTTTATTTGT 59.663 37.500 0.00 0.00 0.00 2.83
343 611 1.071471 CCTCGTGTGCAGTTCCCTT 59.929 57.895 0.00 0.00 0.00 3.95
352 620 0.538287 GCAGTTCCCTTTCAGTGCCT 60.538 55.000 0.00 0.00 33.84 4.75
363 631 0.714180 TCAGTGCCTAGGTTCCCCTA 59.286 55.000 11.31 0.00 42.66 3.53
533 803 1.749635 CGGAGATGGAGGAGGTCGTAA 60.750 57.143 0.00 0.00 0.00 3.18
611 881 1.078823 TGTCTCCTCAAGGCCTTCCTA 59.921 52.381 17.29 3.03 43.40 2.94
620 890 2.031495 AGGCCTTCCTAGTGTCACTT 57.969 50.000 11.54 0.00 42.06 3.16
624 894 2.233922 GCCTTCCTAGTGTCACTTAGCA 59.766 50.000 11.54 0.00 0.00 3.49
639 909 3.324846 ACTTAGCAGTGGACTGTGATTGA 59.675 43.478 8.54 0.00 45.45 2.57
668 938 3.345414 CTTCATCCTCTTCAAGCTGCTT 58.655 45.455 9.53 9.53 0.00 3.91
690 962 6.483307 GCTTTTGGGCTTTAGTTTTCTTCATT 59.517 34.615 0.00 0.00 0.00 2.57
770 1043 8.508875 TCTCTTAGTTGTTTCGTTTTTCTTGTT 58.491 29.630 0.00 0.00 0.00 2.83
771 1044 9.124807 CTCTTAGTTGTTTCGTTTTTCTTGTTT 57.875 29.630 0.00 0.00 0.00 2.83
776 1049 6.683090 TGTTTCGTTTTTCTTGTTTCTGTG 57.317 33.333 0.00 0.00 0.00 3.66
802 1075 3.356290 GGTTGATGTTGTAATCCTGGCT 58.644 45.455 0.00 0.00 0.00 4.75
811 1084 2.308570 TGTAATCCTGGCTGGTTGATGT 59.691 45.455 10.44 0.00 37.07 3.06
812 1085 2.610438 AATCCTGGCTGGTTGATGTT 57.390 45.000 10.44 0.00 37.07 2.71
821 1094 5.734720 TGGCTGGTTGATGTTTTTGTTAAA 58.265 33.333 0.00 0.00 0.00 1.52
822 1095 6.352516 TGGCTGGTTGATGTTTTTGTTAAAT 58.647 32.000 0.00 0.00 0.00 1.40
823 1096 6.825721 TGGCTGGTTGATGTTTTTGTTAAATT 59.174 30.769 0.00 0.00 0.00 1.82
824 1097 7.337942 TGGCTGGTTGATGTTTTTGTTAAATTT 59.662 29.630 0.00 0.00 0.00 1.82
825 1098 8.831550 GGCTGGTTGATGTTTTTGTTAAATTTA 58.168 29.630 0.00 0.00 0.00 1.40
832 1105 9.620259 TGATGTTTTTGTTAAATTTAAAGGCCT 57.380 25.926 12.14 0.00 0.00 5.19
1020 1299 3.309388 CGGATATAGCTGAACCTGAACG 58.691 50.000 0.00 0.00 0.00 3.95
1191 1470 1.301479 GAACCGGAGCGTGGTCTTT 60.301 57.895 9.46 0.00 39.29 2.52
1199 1478 3.726517 CGTGGTCTTTGCCGGCAG 61.727 66.667 30.75 19.71 0.00 4.85
1294 1573 2.623915 AAGACGGTCCTCGACGTGG 61.624 63.158 9.69 9.69 44.24 4.94
1324 1603 1.228245 GTGTGCCCTTCTCCTGCAA 60.228 57.895 0.00 0.00 36.65 4.08
1325 1604 0.610232 GTGTGCCCTTCTCCTGCAAT 60.610 55.000 0.00 0.00 36.65 3.56
1328 1607 2.019984 GTGCCCTTCTCCTGCAATTAG 58.980 52.381 0.00 0.00 36.65 1.73
1329 1608 1.635487 TGCCCTTCTCCTGCAATTAGT 59.365 47.619 0.00 0.00 30.85 2.24
1434 1717 5.592104 AAATTTTATTTACTCCCCTGCGG 57.408 39.130 0.00 0.00 0.00 5.69
1452 1747 2.587956 CGGTTGATTCGTTCGTACTGA 58.412 47.619 0.00 0.00 0.00 3.41
1482 1777 3.068165 AGCGGAGATGTATTTGATCGACA 59.932 43.478 0.00 0.00 0.00 4.35
1505 1800 8.771920 ACACAACGAACTCAATTCTCAATATA 57.228 30.769 0.00 0.00 34.88 0.86
1506 1801 8.873830 ACACAACGAACTCAATTCTCAATATAG 58.126 33.333 0.00 0.00 34.88 1.31
1548 1847 2.341318 CGTTCATCGTATCGCCCATA 57.659 50.000 0.00 0.00 34.52 2.74
1656 1961 2.975536 CCCGGCGTCCTCAAGTTA 59.024 61.111 6.01 0.00 0.00 2.24
1881 2186 1.956297 CCAAAACGGTGTACTGTCCA 58.044 50.000 0.00 0.00 33.61 4.02
1896 2201 2.195727 TGTCCATACAGGGAATGCTCA 58.804 47.619 0.00 0.00 39.05 4.26
2193 2518 6.462552 TCAGATTAGAACTCCTGACAGATG 57.537 41.667 3.32 0.00 31.45 2.90
2201 2534 3.378512 ACTCCTGACAGATGGCTCATTA 58.621 45.455 3.32 0.00 0.00 1.90
2226 2559 7.250569 ACTATGCTTGACAAATGGAAATTACG 58.749 34.615 0.00 0.00 0.00 3.18
2266 2625 0.326595 TGCGGCTCCCTTGTTTGATA 59.673 50.000 0.00 0.00 0.00 2.15
2378 2737 2.095853 CGATTTGCTTGGTTACGCATCT 59.904 45.455 0.00 0.00 35.85 2.90
2385 2750 3.682858 GCTTGGTTACGCATCTAAAGTGA 59.317 43.478 0.00 0.00 0.00 3.41
2387 2752 4.530710 TGGTTACGCATCTAAAGTGAGT 57.469 40.909 0.00 0.00 34.08 3.41
2403 2768 1.226746 GAGTTTTCACCGGTCACCAG 58.773 55.000 2.59 0.00 0.00 4.00
2412 2777 3.357079 GGTCACCAGCAAGGCACG 61.357 66.667 0.00 0.00 43.14 5.34
2518 2937 3.179443 TCTCGGCATGATTACAGAACC 57.821 47.619 0.00 0.00 0.00 3.62
2524 2943 3.627577 GGCATGATTACAGAACCACGAAT 59.372 43.478 0.00 0.00 0.00 3.34
2541 2965 5.243954 CCACGAATATTATCTCCCTGACTCA 59.756 44.000 0.00 0.00 0.00 3.41
2577 3002 5.415701 AGTTGTGCTTGTAAATATGTGAGGG 59.584 40.000 0.00 0.00 0.00 4.30
2634 4807 6.016192 TGGTTCATGCGGTTACATTTCTTAAA 60.016 34.615 0.00 0.00 0.00 1.52
2857 7592 3.234630 TTGCCGTCCAGTCGAAGGG 62.235 63.158 5.42 1.45 40.27 3.95
2907 7646 4.107622 GCCACAACGTACGTATACAAGAT 58.892 43.478 23.12 0.00 0.00 2.40
2909 7648 4.736793 CCACAACGTACGTATACAAGATCC 59.263 45.833 23.12 0.00 0.00 3.36
2910 7649 5.449588 CCACAACGTACGTATACAAGATCCT 60.450 44.000 23.12 0.00 0.00 3.24
2911 7650 5.680229 CACAACGTACGTATACAAGATCCTC 59.320 44.000 23.12 0.00 0.00 3.71
2912 7651 5.355071 ACAACGTACGTATACAAGATCCTCA 59.645 40.000 23.12 0.00 0.00 3.86
2913 7652 6.127925 ACAACGTACGTATACAAGATCCTCAA 60.128 38.462 23.12 0.00 0.00 3.02
2915 7654 6.855836 ACGTACGTATACAAGATCCTCAAAA 58.144 36.000 21.41 0.00 0.00 2.44
2916 7655 7.315142 ACGTACGTATACAAGATCCTCAAAAA 58.685 34.615 21.41 0.00 0.00 1.94
3012 7755 1.134280 CCTCGTCCTTGATCATGGCTT 60.134 52.381 20.32 0.00 0.00 4.35
3220 7972 0.107654 GGTAATTGTCCTCAGGCGCT 60.108 55.000 7.64 0.00 0.00 5.92
3291 8049 1.066908 CAGCACGGCCAAGAAAAGAAA 59.933 47.619 2.24 0.00 0.00 2.52
3367 8128 0.029300 CTTTCTTGGCGTGTGTGTGG 59.971 55.000 0.00 0.00 0.00 4.17
3407 8168 0.898320 ATGTTAGCTCTCCACTGCGT 59.102 50.000 0.00 0.00 0.00 5.24
3435 8196 3.780902 TCGTACTTATAGGACGTGACGA 58.219 45.455 13.70 0.00 37.81 4.20
3469 8240 1.576421 GTGAGCGTGGCCTTTTCTG 59.424 57.895 3.32 0.00 0.00 3.02
3487 8258 5.545658 TTCTGTTCACAAGTGTGTTTCTC 57.454 39.130 11.06 0.83 45.76 2.87
3499 8275 1.059584 TGTTTCTCAGGGTCTGGGCA 61.060 55.000 0.00 0.00 30.92 5.36
3589 8371 3.490759 CGCATGTGTGTCTCGGGC 61.491 66.667 0.00 0.00 0.00 6.13
3627 8409 1.676014 CGGGAGATCAGGTTTGGTGAC 60.676 57.143 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.047801 CCCCAAAACTCACCAAAGGG 58.952 55.000 0.00 0.00 41.29 3.95
42 43 2.043980 CCGCCAAACGCCTACCAAT 61.044 57.895 0.00 0.00 41.76 3.16
65 66 1.227823 CACCGCAGACTCCAACCAA 60.228 57.895 0.00 0.00 0.00 3.67
84 85 0.902516 AATAAGCAGCGCCCCCAAAA 60.903 50.000 2.29 0.00 0.00 2.44
88 89 0.537371 ACATAATAAGCAGCGCCCCC 60.537 55.000 2.29 0.00 0.00 5.40
141 143 2.125552 CTGAATGCTGTCCGCCGA 60.126 61.111 0.00 0.00 38.05 5.54
148 150 1.822990 CAAATGGGCTCTGAATGCTGT 59.177 47.619 0.00 0.00 0.00 4.40
209 211 2.583441 CCGAGCTCACACCCCTCAA 61.583 63.158 15.40 0.00 0.00 3.02
225 227 3.865745 CCAGTTCACAAGTAATAGCTCCG 59.134 47.826 0.00 0.00 0.00 4.63
232 234 2.514803 GCCACCCAGTTCACAAGTAAT 58.485 47.619 0.00 0.00 0.00 1.89
236 238 1.507141 GACGCCACCCAGTTCACAAG 61.507 60.000 0.00 0.00 0.00 3.16
240 242 1.816863 GAGAGACGCCACCCAGTTCA 61.817 60.000 0.00 0.00 0.00 3.18
268 534 0.685131 TGCAATGGAGGAAGCCCATG 60.685 55.000 0.00 0.00 43.20 3.66
313 581 4.130857 TGCACACGAGGAGAAACAAATAA 58.869 39.130 0.00 0.00 0.00 1.40
314 582 3.734463 TGCACACGAGGAGAAACAAATA 58.266 40.909 0.00 0.00 0.00 1.40
320 588 1.540363 GGAACTGCACACGAGGAGAAA 60.540 52.381 0.00 0.00 0.00 2.52
424 693 4.363999 CAAGAGCTAAGATGAGTAACCGG 58.636 47.826 0.00 0.00 0.00 5.28
456 725 2.768833 CGATCCGTCGGAAGATACAA 57.231 50.000 19.76 0.00 45.19 2.41
533 803 2.964978 GCTGCAGCCAAAACGGAT 59.035 55.556 28.76 0.00 36.56 4.18
624 894 2.238144 CCTCCATCAATCACAGTCCACT 59.762 50.000 0.00 0.00 0.00 4.00
668 938 8.672815 CAAAAATGAAGAAAACTAAAGCCCAAA 58.327 29.630 0.00 0.00 0.00 3.28
690 962 5.534654 AGCTTCATACAACCTACAAGCAAAA 59.465 36.000 4.43 0.00 38.98 2.44
726 998 4.468713 AGAGATACATAGTGCTCTGCTGA 58.531 43.478 0.00 0.00 36.44 4.26
727 999 4.852134 AGAGATACATAGTGCTCTGCTG 57.148 45.455 0.00 0.00 36.44 4.41
728 1000 6.068010 ACTAAGAGATACATAGTGCTCTGCT 58.932 40.000 0.00 0.00 37.75 4.24
767 1040 3.213506 CATCAACCCACTCACAGAAACA 58.786 45.455 0.00 0.00 0.00 2.83
768 1041 3.214328 ACATCAACCCACTCACAGAAAC 58.786 45.455 0.00 0.00 0.00 2.78
770 1043 3.213506 CAACATCAACCCACTCACAGAA 58.786 45.455 0.00 0.00 0.00 3.02
771 1044 2.172505 ACAACATCAACCCACTCACAGA 59.827 45.455 0.00 0.00 0.00 3.41
776 1049 4.396166 CAGGATTACAACATCAACCCACTC 59.604 45.833 0.00 0.00 0.00 3.51
852 1125 7.710897 CCATGTGGAATGAACGTGTCGTTTT 62.711 44.000 8.83 0.98 43.58 2.43
853 1126 6.321686 CCATGTGGAATGAACGTGTCGTTT 62.322 45.833 8.83 0.00 43.58 3.60
854 1127 4.899709 CCATGTGGAATGAACGTGTCGTT 61.900 47.826 7.24 7.24 45.18 3.85
937 1216 4.675029 AAACTCGTCGCCGGTGGG 62.675 66.667 16.49 7.94 33.95 4.61
1020 1299 0.804989 CTTGGTTCGGTTGGATCTGC 59.195 55.000 0.00 0.00 0.00 4.26
1062 1341 4.821589 GCGCTTCTCCCACTCCGG 62.822 72.222 0.00 0.00 0.00 5.14
1112 1391 1.304217 ACGGCGAGGAGAAGAAGGA 60.304 57.895 16.62 0.00 0.00 3.36
1199 1478 4.101790 CCGTGGCGGTGATGTTGC 62.102 66.667 0.00 0.00 42.73 4.17
1256 1535 2.897350 CCGGATTGGCCTCTTCGC 60.897 66.667 3.32 0.00 0.00 4.70
1324 1603 1.489230 CCCGCTCAACCCCTTACTAAT 59.511 52.381 0.00 0.00 0.00 1.73
1325 1604 0.906775 CCCGCTCAACCCCTTACTAA 59.093 55.000 0.00 0.00 0.00 2.24
1328 1607 2.437895 GCCCGCTCAACCCCTTAC 60.438 66.667 0.00 0.00 0.00 2.34
1329 1608 4.090588 CGCCCGCTCAACCCCTTA 62.091 66.667 0.00 0.00 0.00 2.69
1434 1717 2.344741 GCCTCAGTACGAACGAATCAAC 59.655 50.000 0.14 0.00 0.00 3.18
1452 1747 3.842923 CATCTCCGCTCCGTGCCT 61.843 66.667 0.00 0.00 38.78 4.75
1482 1777 9.088512 GACTATATTGAGAATTGAGTTCGTTGT 57.911 33.333 0.00 0.00 41.84 3.32
1505 1800 1.982938 GGCCTGGGTACACGAGACT 60.983 63.158 0.00 0.00 0.00 3.24
1506 1801 2.227089 CTGGCCTGGGTACACGAGAC 62.227 65.000 3.32 0.00 0.00 3.36
1548 1847 1.768888 ACCGGTGAAGTTGGGGTCT 60.769 57.895 6.12 0.00 0.00 3.85
1738 2043 3.053291 GTCGGGGCATTTGACGCA 61.053 61.111 1.16 0.00 35.46 5.24
1804 2109 2.477176 CGAGCAGGTCCGAGGAGAG 61.477 68.421 0.00 0.00 0.00 3.20
1881 2186 3.694364 CGCTGAGCATTCCCTGTAT 57.306 52.632 4.88 0.00 0.00 2.29
2193 2518 5.818136 TTTGTCAAGCATAGTAATGAGCC 57.182 39.130 0.00 0.00 34.84 4.70
2201 2534 7.120579 TCGTAATTTCCATTTGTCAAGCATAGT 59.879 33.333 0.00 0.00 0.00 2.12
2266 2625 7.962441 AGCTGTTTCCACACCTAAAATAAATT 58.038 30.769 0.00 0.00 0.00 1.82
2372 2731 4.666655 CGGTGAAAACTCACTTTAGATGCG 60.667 45.833 5.33 0.00 40.28 4.73
2378 2737 3.872771 GTGACCGGTGAAAACTCACTTTA 59.127 43.478 14.63 0.00 40.28 1.85
2385 2750 0.818040 GCTGGTGACCGGTGAAAACT 60.818 55.000 14.63 0.00 31.34 2.66
2387 2752 0.394488 TTGCTGGTGACCGGTGAAAA 60.394 50.000 14.63 0.00 31.34 2.29
2395 2760 3.357079 CGTGCCTTGCTGGTGACC 61.357 66.667 0.00 0.00 38.35 4.02
2403 2768 0.375106 GCTCAGTATTCGTGCCTTGC 59.625 55.000 0.00 0.00 0.00 4.01
2450 2816 5.928839 ACATGACCAAGATGAAGCGATATAC 59.071 40.000 0.00 0.00 0.00 1.47
2501 2867 1.327460 CGTGGTTCTGTAATCATGCCG 59.673 52.381 0.00 0.00 0.00 5.69
2518 2937 6.332735 TGAGTCAGGGAGATAATATTCGTG 57.667 41.667 0.00 0.00 0.00 4.35
2524 2943 6.556495 AGCTGAATTGAGTCAGGGAGATAATA 59.444 38.462 10.08 0.00 44.43 0.98
2541 2965 4.142093 ACAAGCACAACTGAAAGCTGAATT 60.142 37.500 0.00 0.00 37.60 2.17
2577 3002 3.515330 ATTGAGCATGCTGCCTAAAAC 57.485 42.857 28.27 8.49 46.52 2.43
2792 7527 6.575162 AAAAATCCTGTGATACAGTGTTCC 57.425 37.500 0.00 0.00 44.50 3.62
2819 7554 5.520288 GGCAAGTGTGTATGTCTACATGTAG 59.480 44.000 24.37 24.37 39.93 2.74
2820 7555 5.416083 GGCAAGTGTGTATGTCTACATGTA 58.584 41.667 5.25 5.25 39.93 2.29
2857 7592 2.661594 TGTGCTCGTATGATCGTATGC 58.338 47.619 9.02 9.17 0.00 3.14
2885 7620 3.500982 TCTTGTATACGTACGTTGTGGC 58.499 45.455 27.92 12.78 33.36 5.01
2916 7655 6.435428 CATGCTCCTTTTGTACGTACTTTTT 58.565 36.000 25.12 0.00 0.00 1.94
2920 7659 3.259876 TCCATGCTCCTTTTGTACGTACT 59.740 43.478 25.12 0.00 0.00 2.73
2923 7662 2.423577 GTCCATGCTCCTTTTGTACGT 58.576 47.619 0.00 0.00 0.00 3.57
2924 7663 1.393539 CGTCCATGCTCCTTTTGTACG 59.606 52.381 0.00 0.00 0.00 3.67
2925 7664 1.737793 CCGTCCATGCTCCTTTTGTAC 59.262 52.381 0.00 0.00 0.00 2.90
2926 7665 1.948611 GCCGTCCATGCTCCTTTTGTA 60.949 52.381 0.00 0.00 0.00 2.41
2928 7667 1.243342 TGCCGTCCATGCTCCTTTTG 61.243 55.000 0.00 0.00 0.00 2.44
3037 7780 1.153147 GATTCCCGGGTTCAGCTCC 60.153 63.158 22.86 0.00 0.00 4.70
3160 7912 1.446366 GCCTGAGGACGATTACCCC 59.554 63.158 0.65 0.00 0.00 4.95
3197 7949 0.180406 CCTGAGGACAATTACCCGGG 59.820 60.000 22.25 22.25 0.00 5.73
3367 8128 0.835941 ACATCACAGAGATCAGCCCC 59.164 55.000 0.00 0.00 33.72 5.80
3407 8168 3.431233 CGTCCTATAAGTACGATCGAGCA 59.569 47.826 24.34 3.21 38.89 4.26
3589 8371 1.067635 CCGGCAGATTTCCAACCAAAG 60.068 52.381 0.00 0.00 0.00 2.77


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

AutoCloner maintained by Alex Coulton.