Multiple sequence alignment - TraesCS3D01G447400

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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 TraesCS3D01G447400 chr3D 100.000 2534 0 0 1 2534 555802420 555799887 0.000000e+00 4680.0
1 TraesCS3D01G447400 chr3D 81.506 757 73 37 1002 1725 555912555 555911833 6.120000e-156 560.0
2 TraesCS3D01G447400 chr3A 92.631 1737 64 13 859 2534 692724068 692722335 0.000000e+00 2440.0
3 TraesCS3D01G447400 chr3A 92.535 710 15 10 1 701 692724749 692724069 0.000000e+00 983.0
4 TraesCS3D01G447400 chr3A 88.368 576 50 8 4 573 692954984 692954420 0.000000e+00 676.0
5 TraesCS3D01G447400 chr3A 78.603 687 81 42 1002 1653 692945274 692944619 6.570000e-106 394.0
6 TraesCS3D01G447400 chr3A 93.865 163 10 0 699 861 648037008 648037170 1.950000e-61 246.0
7 TraesCS3D01G447400 chr3B 95.736 774 26 6 1047 1816 738757564 738756794 0.000000e+00 1240.0
8 TraesCS3D01G447400 chr3B 95.246 589 13 6 1 584 738759668 738759090 0.000000e+00 918.0
9 TraesCS3D01G447400 chr3B 87.571 708 63 11 4 704 738993723 738993034 0.000000e+00 797.0
10 TraesCS3D01G447400 chr3B 90.860 558 30 7 1998 2534 738756802 738756245 0.000000e+00 728.0
11 TraesCS3D01G447400 chr3B 84.959 605 82 7 1773 2372 463483507 463484107 2.790000e-169 604.0
12 TraesCS3D01G447400 chr3B 84.463 605 85 7 1773 2372 534159001 534159601 2.810000e-164 588.0
13 TraesCS3D01G447400 chr3B 82.276 615 46 13 867 1439 738910934 738910341 8.200000e-130 473.0
14 TraesCS3D01G447400 chr3B 91.813 171 13 1 534 704 738911105 738910936 1.170000e-58 237.0
15 TraesCS3D01G447400 chr3B 97.500 120 3 0 581 700 738758705 738758586 3.300000e-49 206.0
16 TraesCS3D01G447400 chr3B 86.979 192 1 5 859 1027 738758588 738758398 7.150000e-46 195.0
17 TraesCS3D01G447400 chr3B 73.784 473 103 18 1905 2369 144483160 144483619 1.560000e-37 167.0
18 TraesCS3D01G447400 chr7B 84.793 605 83 7 1773 2372 380072651 380073251 1.300000e-167 599.0
19 TraesCS3D01G447400 chr7B 93.529 170 11 0 696 865 741942531 741942700 1.160000e-63 254.0
20 TraesCS3D01G447400 chr7B 92.941 170 12 0 696 865 741871534 741871703 5.410000e-62 248.0
21 TraesCS3D01G447400 chr7B 92.442 172 12 1 699 870 697802576 697802746 7.000000e-61 244.0
22 TraesCS3D01G447400 chr2B 85.324 586 78 4 1792 2372 134253081 134253663 1.300000e-167 599.0
23 TraesCS3D01G447400 chr2B 93.373 166 11 0 698 863 761845911 761846076 1.950000e-61 246.0
24 TraesCS3D01G447400 chr6B 84.628 605 84 7 1773 2372 61211527 61212127 6.040000e-166 593.0
25 TraesCS3D01G447400 chr6B 75.046 541 117 17 1837 2365 173026966 173027500 4.210000e-58 235.0
26 TraesCS3D01G447400 chr5B 84.628 605 84 7 1773 2372 710236287 710235687 6.040000e-166 593.0
27 TraesCS3D01G447400 chr1D 84.551 602 84 7 1776 2372 466406465 466407062 2.810000e-164 588.0
28 TraesCS3D01G447400 chr1D 95.954 173 7 0 696 868 109948022 109948194 5.340000e-72 281.0
29 TraesCS3D01G447400 chrUn 84.298 605 86 7 1773 2372 136394677 136395277 1.310000e-162 582.0
30 TraesCS3D01G447400 chrUn 93.865 163 10 0 699 861 129563470 129563632 1.950000e-61 246.0
31 TraesCS3D01G447400 chrUn 95.349 43 2 0 2483 2525 297891266 297891224 4.520000e-08 69.4
32 TraesCS3D01G447400 chr7D 78.440 705 88 31 1002 1688 175443554 175444212 3.930000e-108 401.0
33 TraesCS3D01G447400 chr7D 76.971 647 103 18 1779 2411 626006753 626007367 6.760000e-86 327.0
34 TraesCS3D01G447400 chr1A 79.452 657 66 38 862 1476 510456987 510457616 3.930000e-108 401.0
35 TraesCS3D01G447400 chr1A 100.000 38 0 0 2481 2518 506544443 506544480 1.260000e-08 71.3
36 TraesCS3D01G447400 chr1A 88.136 59 4 3 2459 2516 536892646 536892702 1.630000e-07 67.6
37 TraesCS3D01G447400 chr6A 80.492 528 46 19 1267 1773 14098706 14099197 4.010000e-93 351.0
38 TraesCS3D01G447400 chr6A 88.477 243 26 2 205 446 14072726 14072967 2.470000e-75 292.0
39 TraesCS3D01G447400 chr6A 75.838 567 105 19 1808 2367 149868154 149867613 2.500000e-65 259.0
40 TraesCS3D01G447400 chr6A 93.056 72 4 1 1053 1124 14073657 14073727 1.240000e-18 104.0
41 TraesCS3D01G447400 chr5D 93.491 169 11 0 695 863 60140761 60140929 4.180000e-63 252.0
42 TraesCS3D01G447400 chr1B 93.939 165 10 0 699 863 70500219 70500383 1.510000e-62 250.0
43 TraesCS3D01G447400 chr4A 85.135 222 32 1 2145 2365 21075498 21075277 2.540000e-55 226.0
44 TraesCS3D01G447400 chr5A 86.207 116 13 2 2256 2369 533290875 533290761 3.420000e-24 122.0
45 TraesCS3D01G447400 chr2A 97.619 42 1 0 2477 2518 778616483 778616524 3.500000e-09 73.1
46 TraesCS3D01G447400 chr2A 100.000 38 0 0 2479 2516 694455389 694455352 1.260000e-08 71.3
47 TraesCS3D01G447400 chr4D 90.566 53 3 2 2466 2516 320593715 320593767 4.520000e-08 69.4
48 TraesCS3D01G447400 chr7A 93.182 44 3 0 2368 2411 721494219 721494262 5.850000e-07 65.8
49 TraesCS3D01G447400 chr4B 85.000 60 5 4 2466 2523 28542248 28542305 9.790000e-05 58.4


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 TraesCS3D01G447400 chr3D 555799887 555802420 2533 True 4680.0 4680 100.0000 1 2534 1 chr3D.!!$R1 2533
1 TraesCS3D01G447400 chr3D 555911833 555912555 722 True 560.0 560 81.5060 1002 1725 1 chr3D.!!$R2 723
2 TraesCS3D01G447400 chr3A 692722335 692724749 2414 True 1711.5 2440 92.5830 1 2534 2 chr3A.!!$R3 2533
3 TraesCS3D01G447400 chr3A 692954420 692954984 564 True 676.0 676 88.3680 4 573 1 chr3A.!!$R2 569
4 TraesCS3D01G447400 chr3A 692944619 692945274 655 True 394.0 394 78.6030 1002 1653 1 chr3A.!!$R1 651
5 TraesCS3D01G447400 chr3B 738993034 738993723 689 True 797.0 797 87.5710 4 704 1 chr3B.!!$R1 700
6 TraesCS3D01G447400 chr3B 738756245 738759668 3423 True 657.4 1240 93.2642 1 2534 5 chr3B.!!$R2 2533
7 TraesCS3D01G447400 chr3B 463483507 463484107 600 False 604.0 604 84.9590 1773 2372 1 chr3B.!!$F2 599
8 TraesCS3D01G447400 chr3B 534159001 534159601 600 False 588.0 588 84.4630 1773 2372 1 chr3B.!!$F3 599
9 TraesCS3D01G447400 chr3B 738910341 738911105 764 True 355.0 473 87.0445 534 1439 2 chr3B.!!$R3 905
10 TraesCS3D01G447400 chr7B 380072651 380073251 600 False 599.0 599 84.7930 1773 2372 1 chr7B.!!$F1 599
11 TraesCS3D01G447400 chr2B 134253081 134253663 582 False 599.0 599 85.3240 1792 2372 1 chr2B.!!$F1 580
12 TraesCS3D01G447400 chr6B 61211527 61212127 600 False 593.0 593 84.6280 1773 2372 1 chr6B.!!$F1 599
13 TraesCS3D01G447400 chr6B 173026966 173027500 534 False 235.0 235 75.0460 1837 2365 1 chr6B.!!$F2 528
14 TraesCS3D01G447400 chr5B 710235687 710236287 600 True 593.0 593 84.6280 1773 2372 1 chr5B.!!$R1 599
15 TraesCS3D01G447400 chr1D 466406465 466407062 597 False 588.0 588 84.5510 1776 2372 1 chr1D.!!$F2 596
16 TraesCS3D01G447400 chrUn 136394677 136395277 600 False 582.0 582 84.2980 1773 2372 1 chrUn.!!$F2 599
17 TraesCS3D01G447400 chr7D 175443554 175444212 658 False 401.0 401 78.4400 1002 1688 1 chr7D.!!$F1 686
18 TraesCS3D01G447400 chr7D 626006753 626007367 614 False 327.0 327 76.9710 1779 2411 1 chr7D.!!$F2 632
19 TraesCS3D01G447400 chr1A 510456987 510457616 629 False 401.0 401 79.4520 862 1476 1 chr1A.!!$F2 614
20 TraesCS3D01G447400 chr6A 149867613 149868154 541 True 259.0 259 75.8380 1808 2367 1 chr6A.!!$R1 559

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
713 1160 1.006758 TGATGTACTCCCTCCGTTCCT 59.993 52.381 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1949 3327 0.319555 CGCCACCTCGTCTTCTTGAA 60.32 55.0 0.0 0.0 0.0 2.69 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
44 45 8.348507 ACTAAATAGATACGTCTTTCGGGTAAG 58.651 37.037 0.00 0.00 44.69 2.34
150 151 9.539825 ACAGTTAGATGACTAATAATCTTGCAG 57.460 33.333 0.00 0.00 40.15 4.41
610 1057 2.626266 TGCTCGGGATACATCGTACAAT 59.374 45.455 0.00 0.00 39.74 2.71
688 1135 6.936279 ACGGGACATGTGAATATATCCTAAG 58.064 40.000 1.15 0.00 0.00 2.18
708 1155 1.344763 GGGAATGATGTACTCCCTCCG 59.655 57.143 9.40 0.00 44.81 4.63
709 1156 2.040178 GGAATGATGTACTCCCTCCGT 58.960 52.381 0.00 0.00 0.00 4.69
710 1157 2.434702 GGAATGATGTACTCCCTCCGTT 59.565 50.000 0.00 0.00 0.00 4.44
711 1158 3.492829 GGAATGATGTACTCCCTCCGTTC 60.493 52.174 0.00 0.00 0.00 3.95
712 1159 1.481871 TGATGTACTCCCTCCGTTCC 58.518 55.000 0.00 0.00 0.00 3.62
713 1160 1.006758 TGATGTACTCCCTCCGTTCCT 59.993 52.381 0.00 0.00 0.00 3.36
714 1161 2.242965 TGATGTACTCCCTCCGTTCCTA 59.757 50.000 0.00 0.00 0.00 2.94
715 1162 2.905415 TGTACTCCCTCCGTTCCTAA 57.095 50.000 0.00 0.00 0.00 2.69
716 1163 3.173953 TGTACTCCCTCCGTTCCTAAA 57.826 47.619 0.00 0.00 0.00 1.85
717 1164 3.716431 TGTACTCCCTCCGTTCCTAAAT 58.284 45.455 0.00 0.00 0.00 1.40
718 1165 4.870636 TGTACTCCCTCCGTTCCTAAATA 58.129 43.478 0.00 0.00 0.00 1.40
719 1166 5.461327 TGTACTCCCTCCGTTCCTAAATAT 58.539 41.667 0.00 0.00 0.00 1.28
720 1167 6.613699 TGTACTCCCTCCGTTCCTAAATATA 58.386 40.000 0.00 0.00 0.00 0.86
721 1168 7.068702 TGTACTCCCTCCGTTCCTAAATATAA 58.931 38.462 0.00 0.00 0.00 0.98
722 1169 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
723 1170 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
724 1171 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
725 1172 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
726 1173 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
727 1174 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
728 1175 8.645110 CCCTCCGTTCCTAAATATAAGTCTTTA 58.355 37.037 0.00 0.00 0.00 1.85
775 1222 9.890629 ATGTACGGATGTATATAGATGCATTTT 57.109 29.630 11.19 0.00 38.38 1.82
791 1238 9.321562 AGATGCATTTTAAATGTGGATTCATTC 57.678 29.630 17.51 7.06 37.09 2.67
792 1239 9.100554 GATGCATTTTAAATGTGGATTCATTCA 57.899 29.630 17.51 5.02 37.09 2.57
793 1240 9.621629 ATGCATTTTAAATGTGGATTCATTCAT 57.378 25.926 17.51 6.84 37.09 2.57
794 1241 9.451002 TGCATTTTAAATGTGGATTCATTCATT 57.549 25.926 17.51 0.00 37.09 2.57
799 1246 9.504708 TTTAAATGTGGATTCATTCATTTTGCT 57.495 25.926 7.64 0.00 39.86 3.91
800 1247 7.605410 AAATGTGGATTCATTCATTTTGCTC 57.395 32.000 0.00 0.00 37.25 4.26
801 1248 5.075858 TGTGGATTCATTCATTTTGCTCC 57.924 39.130 0.00 0.00 0.00 4.70
802 1249 4.107622 GTGGATTCATTCATTTTGCTCCG 58.892 43.478 0.00 0.00 0.00 4.63
803 1250 3.763360 TGGATTCATTCATTTTGCTCCGT 59.237 39.130 0.00 0.00 0.00 4.69
804 1251 4.946772 TGGATTCATTCATTTTGCTCCGTA 59.053 37.500 0.00 0.00 0.00 4.02
805 1252 5.593909 TGGATTCATTCATTTTGCTCCGTAT 59.406 36.000 0.00 0.00 0.00 3.06
806 1253 6.096705 TGGATTCATTCATTTTGCTCCGTATT 59.903 34.615 0.00 0.00 0.00 1.89
807 1254 6.980397 GGATTCATTCATTTTGCTCCGTATTT 59.020 34.615 0.00 0.00 0.00 1.40
808 1255 8.134895 GGATTCATTCATTTTGCTCCGTATTTA 58.865 33.333 0.00 0.00 0.00 1.40
809 1256 9.173939 GATTCATTCATTTTGCTCCGTATTTAG 57.826 33.333 0.00 0.00 0.00 1.85
810 1257 7.624360 TCATTCATTTTGCTCCGTATTTAGT 57.376 32.000 0.00 0.00 0.00 2.24
811 1258 7.693952 TCATTCATTTTGCTCCGTATTTAGTC 58.306 34.615 0.00 0.00 0.00 2.59
812 1259 6.431198 TTCATTTTGCTCCGTATTTAGTCC 57.569 37.500 0.00 0.00 0.00 3.85
813 1260 5.492895 TCATTTTGCTCCGTATTTAGTCCA 58.507 37.500 0.00 0.00 0.00 4.02
814 1261 6.119536 TCATTTTGCTCCGTATTTAGTCCAT 58.880 36.000 0.00 0.00 0.00 3.41
815 1262 6.601613 TCATTTTGCTCCGTATTTAGTCCATT 59.398 34.615 0.00 0.00 0.00 3.16
816 1263 6.827586 TTTTGCTCCGTATTTAGTCCATTT 57.172 33.333 0.00 0.00 0.00 2.32
817 1264 7.925043 TTTTGCTCCGTATTTAGTCCATTTA 57.075 32.000 0.00 0.00 0.00 1.40
818 1265 7.548196 TTTGCTCCGTATTTAGTCCATTTAG 57.452 36.000 0.00 0.00 0.00 1.85
819 1266 6.229936 TGCTCCGTATTTAGTCCATTTAGT 57.770 37.500 0.00 0.00 0.00 2.24
820 1267 7.350744 TGCTCCGTATTTAGTCCATTTAGTA 57.649 36.000 0.00 0.00 0.00 1.82
821 1268 7.431249 TGCTCCGTATTTAGTCCATTTAGTAG 58.569 38.462 0.00 0.00 0.00 2.57
822 1269 7.286087 TGCTCCGTATTTAGTCCATTTAGTAGA 59.714 37.037 0.00 0.00 0.00 2.59
823 1270 8.139989 GCTCCGTATTTAGTCCATTTAGTAGAA 58.860 37.037 0.00 0.00 0.00 2.10
826 1273 9.420551 CCGTATTTAGTCCATTTAGTAGAATCC 57.579 37.037 0.00 0.00 0.00 3.01
827 1274 9.420551 CGTATTTAGTCCATTTAGTAGAATCCC 57.579 37.037 0.00 0.00 0.00 3.85
844 1291 9.668497 GTAGAATCCCTACAAAGACTTACATTT 57.332 33.333 0.00 0.00 45.51 2.32
846 1293 9.892130 AGAATCCCTACAAAGACTTACATTTAG 57.108 33.333 0.00 0.00 0.00 1.85
847 1294 9.110502 GAATCCCTACAAAGACTTACATTTAGG 57.889 37.037 0.00 0.00 0.00 2.69
848 1295 7.801893 TCCCTACAAAGACTTACATTTAGGA 57.198 36.000 0.00 0.00 0.00 2.94
849 1296 8.209802 TCCCTACAAAGACTTACATTTAGGAA 57.790 34.615 0.00 0.00 0.00 3.36
850 1297 8.319146 TCCCTACAAAGACTTACATTTAGGAAG 58.681 37.037 0.00 0.00 0.00 3.46
851 1298 7.553044 CCCTACAAAGACTTACATTTAGGAAGG 59.447 40.741 0.00 0.00 0.00 3.46
852 1299 7.553044 CCTACAAAGACTTACATTTAGGAAGGG 59.447 40.741 0.00 0.00 0.00 3.95
853 1300 7.086685 ACAAAGACTTACATTTAGGAAGGGA 57.913 36.000 0.00 0.00 0.00 4.20
854 1301 7.168905 ACAAAGACTTACATTTAGGAAGGGAG 58.831 38.462 0.00 0.00 0.00 4.30
855 1302 5.959583 AGACTTACATTTAGGAAGGGAGG 57.040 43.478 0.00 0.00 0.00 4.30
856 1303 4.722279 AGACTTACATTTAGGAAGGGAGGG 59.278 45.833 0.00 0.00 0.00 4.30
857 1304 4.706616 ACTTACATTTAGGAAGGGAGGGA 58.293 43.478 0.00 0.00 0.00 4.20
1610 2978 4.095185 CCGTTCTTGTAACTTGTTGGAACA 59.905 41.667 0.00 0.00 37.08 3.18
1640 3009 3.753294 TCTCAGTGACCAAGAAGAACC 57.247 47.619 0.00 0.00 0.00 3.62
1805 3174 4.158764 CCTCGTGAAAACTCTCATCTAGGT 59.841 45.833 0.00 0.00 0.00 3.08
1929 3307 6.415867 GCTCCGTTTTTAGGTGTTTTTAGTTC 59.584 38.462 0.00 0.00 0.00 3.01
1949 3327 2.158534 TCTGTTAGGGTTTGTGGCATGT 60.159 45.455 0.00 0.00 0.00 3.21
2057 3441 3.050275 GAGGGCGTGTGAAGGTGC 61.050 66.667 0.00 0.00 0.00 5.01
2241 3626 1.608283 GCCTTAGCACAACGACTTCCT 60.608 52.381 0.00 0.00 39.53 3.36
2299 3688 2.730733 GAGGAGCGATGATGGCGA 59.269 61.111 0.00 0.00 35.00 5.54
2465 3875 1.909302 AGGACGGACATGGATCTTTGT 59.091 47.619 0.00 0.00 0.00 2.83
2466 3876 2.009774 GGACGGACATGGATCTTTGTG 58.990 52.381 0.00 0.00 0.00 3.33
2470 3880 4.253685 ACGGACATGGATCTTTGTGTAAG 58.746 43.478 0.00 0.00 35.04 2.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 0.605319 TGATCAGGTGTGGAAACGGC 60.605 55.000 0.00 0.00 0.00 5.68
277 280 8.554528 GTCATCTAACCATGTCAATGTAATCAG 58.445 37.037 0.00 0.00 31.27 2.90
314 317 6.655078 AAATTTGTGGCTAGACTTTCATGT 57.345 33.333 0.00 0.00 0.00 3.21
484 531 2.800985 CGACGGTCGGTCTGTCTATCTA 60.801 54.545 22.18 0.00 46.89 1.98
745 1192 9.185680 TGCATCTATATACATCCGTACATAGTT 57.814 33.333 0.00 0.00 36.74 2.24
746 1193 8.747538 TGCATCTATATACATCCGTACATAGT 57.252 34.615 0.00 0.00 36.74 2.12
749 1196 9.890629 AAAATGCATCTATATACATCCGTACAT 57.109 29.630 0.00 0.00 0.00 2.29
765 1212 9.321562 GAATGAATCCACATTTAAAATGCATCT 57.678 29.630 0.00 0.00 40.03 2.90
766 1213 9.100554 TGAATGAATCCACATTTAAAATGCATC 57.899 29.630 0.00 0.00 40.03 3.91
767 1214 9.621629 ATGAATGAATCCACATTTAAAATGCAT 57.378 25.926 0.00 0.00 40.03 3.96
768 1215 9.451002 AATGAATGAATCCACATTTAAAATGCA 57.549 25.926 0.00 0.00 40.03 3.96
773 1220 9.504708 AGCAAAATGAATGAATCCACATTTAAA 57.495 25.926 0.00 0.00 40.48 1.52
774 1221 9.153721 GAGCAAAATGAATGAATCCACATTTAA 57.846 29.630 0.00 0.00 40.48 1.52
775 1222 7.765360 GGAGCAAAATGAATGAATCCACATTTA 59.235 33.333 0.00 0.00 40.48 1.40
776 1223 6.596497 GGAGCAAAATGAATGAATCCACATTT 59.404 34.615 0.00 0.00 42.25 2.32
777 1224 6.110707 GGAGCAAAATGAATGAATCCACATT 58.889 36.000 0.00 0.00 42.19 2.71
778 1225 5.667466 GGAGCAAAATGAATGAATCCACAT 58.333 37.500 0.00 0.00 0.00 3.21
779 1226 4.380761 CGGAGCAAAATGAATGAATCCACA 60.381 41.667 0.00 0.00 0.00 4.17
780 1227 4.107622 CGGAGCAAAATGAATGAATCCAC 58.892 43.478 0.00 0.00 0.00 4.02
781 1228 3.763360 ACGGAGCAAAATGAATGAATCCA 59.237 39.130 0.00 0.00 0.00 3.41
782 1229 4.376340 ACGGAGCAAAATGAATGAATCC 57.624 40.909 0.00 0.00 0.00 3.01
783 1230 7.992180 AAATACGGAGCAAAATGAATGAATC 57.008 32.000 0.00 0.00 0.00 2.52
784 1231 8.686334 ACTAAATACGGAGCAAAATGAATGAAT 58.314 29.630 0.00 0.00 0.00 2.57
785 1232 8.050778 ACTAAATACGGAGCAAAATGAATGAA 57.949 30.769 0.00 0.00 0.00 2.57
786 1233 7.201696 GGACTAAATACGGAGCAAAATGAATGA 60.202 37.037 0.00 0.00 0.00 2.57
787 1234 6.912591 GGACTAAATACGGAGCAAAATGAATG 59.087 38.462 0.00 0.00 0.00 2.67
788 1235 6.601613 TGGACTAAATACGGAGCAAAATGAAT 59.398 34.615 0.00 0.00 0.00 2.57
789 1236 5.941058 TGGACTAAATACGGAGCAAAATGAA 59.059 36.000 0.00 0.00 0.00 2.57
790 1237 5.492895 TGGACTAAATACGGAGCAAAATGA 58.507 37.500 0.00 0.00 0.00 2.57
791 1238 5.811399 TGGACTAAATACGGAGCAAAATG 57.189 39.130 0.00 0.00 0.00 2.32
792 1239 7.404671 AAATGGACTAAATACGGAGCAAAAT 57.595 32.000 0.00 0.00 0.00 1.82
793 1240 6.827586 AAATGGACTAAATACGGAGCAAAA 57.172 33.333 0.00 0.00 0.00 2.44
794 1241 7.107542 ACTAAATGGACTAAATACGGAGCAAA 58.892 34.615 0.00 0.00 0.00 3.68
795 1242 6.646267 ACTAAATGGACTAAATACGGAGCAA 58.354 36.000 0.00 0.00 0.00 3.91
796 1243 6.229936 ACTAAATGGACTAAATACGGAGCA 57.770 37.500 0.00 0.00 0.00 4.26
797 1244 7.655490 TCTACTAAATGGACTAAATACGGAGC 58.345 38.462 0.00 0.00 0.00 4.70
800 1247 9.420551 GGATTCTACTAAATGGACTAAATACGG 57.579 37.037 0.00 0.00 0.00 4.02
801 1248 9.420551 GGGATTCTACTAAATGGACTAAATACG 57.579 37.037 0.00 0.00 0.00 3.06
805 1252 9.496710 TGTAGGGATTCTACTAAATGGACTAAA 57.503 33.333 5.03 0.00 46.45 1.85
806 1253 9.496710 TTGTAGGGATTCTACTAAATGGACTAA 57.503 33.333 5.03 0.00 46.45 2.24
807 1254 9.496710 TTTGTAGGGATTCTACTAAATGGACTA 57.503 33.333 5.03 0.00 46.45 2.59
808 1255 7.989947 TTGTAGGGATTCTACTAAATGGACT 57.010 36.000 5.03 0.00 46.45 3.85
809 1256 8.483758 TCTTTGTAGGGATTCTACTAAATGGAC 58.516 37.037 5.03 0.00 46.45 4.02
810 1257 8.483758 GTCTTTGTAGGGATTCTACTAAATGGA 58.516 37.037 5.03 0.00 46.45 3.41
811 1258 8.487028 AGTCTTTGTAGGGATTCTACTAAATGG 58.513 37.037 5.03 0.00 46.45 3.16
812 1259 9.892130 AAGTCTTTGTAGGGATTCTACTAAATG 57.108 33.333 5.03 0.00 46.45 2.32
815 1262 9.537852 TGTAAGTCTTTGTAGGGATTCTACTAA 57.462 33.333 0.00 3.21 46.45 2.24
816 1263 9.710818 ATGTAAGTCTTTGTAGGGATTCTACTA 57.289 33.333 0.00 0.00 46.45 1.82
817 1264 8.611051 ATGTAAGTCTTTGTAGGGATTCTACT 57.389 34.615 0.00 0.00 46.45 2.57
818 1265 9.668497 AAATGTAAGTCTTTGTAGGGATTCTAC 57.332 33.333 0.00 0.00 46.49 2.59
820 1267 9.892130 CTAAATGTAAGTCTTTGTAGGGATTCT 57.108 33.333 0.00 0.00 0.00 2.40
821 1268 9.110502 CCTAAATGTAAGTCTTTGTAGGGATTC 57.889 37.037 0.00 0.00 0.00 2.52
822 1269 8.832735 TCCTAAATGTAAGTCTTTGTAGGGATT 58.167 33.333 0.00 0.00 0.00 3.01
823 1270 8.388656 TCCTAAATGTAAGTCTTTGTAGGGAT 57.611 34.615 0.00 0.00 0.00 3.85
824 1271 7.801893 TCCTAAATGTAAGTCTTTGTAGGGA 57.198 36.000 0.00 0.00 0.00 4.20
825 1272 7.553044 CCTTCCTAAATGTAAGTCTTTGTAGGG 59.447 40.741 0.00 0.00 0.00 3.53
826 1273 7.553044 CCCTTCCTAAATGTAAGTCTTTGTAGG 59.447 40.741 0.00 0.00 0.00 3.18
827 1274 8.319146 TCCCTTCCTAAATGTAAGTCTTTGTAG 58.681 37.037 0.00 0.00 0.00 2.74
828 1275 8.209802 TCCCTTCCTAAATGTAAGTCTTTGTA 57.790 34.615 0.00 0.00 0.00 2.41
829 1276 7.086685 TCCCTTCCTAAATGTAAGTCTTTGT 57.913 36.000 0.00 0.00 0.00 2.83
830 1277 6.599638 CCTCCCTTCCTAAATGTAAGTCTTTG 59.400 42.308 0.00 0.00 0.00 2.77
831 1278 6.297068 CCCTCCCTTCCTAAATGTAAGTCTTT 60.297 42.308 0.00 0.00 0.00 2.52
832 1279 5.191921 CCCTCCCTTCCTAAATGTAAGTCTT 59.808 44.000 0.00 0.00 0.00 3.01
833 1280 4.722279 CCCTCCCTTCCTAAATGTAAGTCT 59.278 45.833 0.00 0.00 0.00 3.24
834 1281 4.720273 TCCCTCCCTTCCTAAATGTAAGTC 59.280 45.833 0.00 0.00 0.00 3.01
835 1282 4.706616 TCCCTCCCTTCCTAAATGTAAGT 58.293 43.478 0.00 0.00 0.00 2.24
836 1283 4.722279 ACTCCCTCCCTTCCTAAATGTAAG 59.278 45.833 0.00 0.00 0.00 2.34
837 1284 4.706616 ACTCCCTCCCTTCCTAAATGTAA 58.293 43.478 0.00 0.00 0.00 2.41
838 1285 4.363546 ACTCCCTCCCTTCCTAAATGTA 57.636 45.455 0.00 0.00 0.00 2.29
839 1286 3.222394 ACTCCCTCCCTTCCTAAATGT 57.778 47.619 0.00 0.00 0.00 2.71
840 1287 4.299485 ACTACTCCCTCCCTTCCTAAATG 58.701 47.826 0.00 0.00 0.00 2.32
841 1288 4.645968 ACTACTCCCTCCCTTCCTAAAT 57.354 45.455 0.00 0.00 0.00 1.40
842 1289 4.629694 CGTACTACTCCCTCCCTTCCTAAA 60.630 50.000 0.00 0.00 0.00 1.85
843 1290 3.117738 CGTACTACTCCCTCCCTTCCTAA 60.118 52.174 0.00 0.00 0.00 2.69
844 1291 2.441001 CGTACTACTCCCTCCCTTCCTA 59.559 54.545 0.00 0.00 0.00 2.94
845 1292 1.214923 CGTACTACTCCCTCCCTTCCT 59.785 57.143 0.00 0.00 0.00 3.36
846 1293 1.064091 ACGTACTACTCCCTCCCTTCC 60.064 57.143 0.00 0.00 0.00 3.46
847 1294 2.433662 ACGTACTACTCCCTCCCTTC 57.566 55.000 0.00 0.00 0.00 3.46
848 1295 3.895998 CTTACGTACTACTCCCTCCCTT 58.104 50.000 0.00 0.00 0.00 3.95
849 1296 2.422661 GCTTACGTACTACTCCCTCCCT 60.423 54.545 0.00 0.00 0.00 4.20
850 1297 1.952990 GCTTACGTACTACTCCCTCCC 59.047 57.143 0.00 0.00 0.00 4.30
851 1298 1.952990 GGCTTACGTACTACTCCCTCC 59.047 57.143 0.00 0.00 0.00 4.30
852 1299 2.648059 TGGCTTACGTACTACTCCCTC 58.352 52.381 0.00 0.00 0.00 4.30
853 1300 2.814805 TGGCTTACGTACTACTCCCT 57.185 50.000 0.00 0.00 0.00 4.20
854 1301 4.392940 TCTATGGCTTACGTACTACTCCC 58.607 47.826 0.00 0.00 0.00 4.30
855 1302 7.769970 AGATATCTATGGCTTACGTACTACTCC 59.230 40.741 2.53 0.00 0.00 3.85
856 1303 8.721019 AGATATCTATGGCTTACGTACTACTC 57.279 38.462 2.53 0.00 0.00 2.59
1222 2544 7.591165 AGCCAAGAATTATGATCAATCAATCG 58.409 34.615 0.00 0.00 40.69 3.34
1444 2774 1.007734 GGTTGCAGAGACGACGACA 60.008 57.895 0.00 0.00 0.00 4.35
1610 2978 2.568956 TGGTCACTGAGAAATAGCAGCT 59.431 45.455 0.00 0.00 35.57 4.24
1640 3009 1.518325 TGTATGCAACTTGGTGGACG 58.482 50.000 0.00 0.00 0.00 4.79
1805 3174 1.374947 CCGGTGAGAGGCAGGAAAA 59.625 57.895 0.00 0.00 0.00 2.29
1929 3307 2.238521 ACATGCCACAAACCCTAACAG 58.761 47.619 0.00 0.00 0.00 3.16
1949 3327 0.319555 CGCCACCTCGTCTTCTTGAA 60.320 55.000 0.00 0.00 0.00 2.69
2057 3441 0.933097 CATGAGATCCGCCAGAAACG 59.067 55.000 0.00 0.00 0.00 3.60
2266 3651 1.152943 CTCCCTCATCGGAGTCGGA 60.153 63.158 2.53 2.53 43.94 4.55
2435 3845 5.806818 TCCATGTCCGTCCTTAATTTAACA 58.193 37.500 0.00 0.00 0.00 2.41
2450 3860 4.009675 TGCTTACACAAAGATCCATGTCC 58.990 43.478 0.00 0.00 37.38 4.02
2465 3875 8.951614 AGGGAGTATATTATAGTGTGCTTACA 57.048 34.615 0.00 0.00 0.00 2.41
2466 3876 9.245481 AGAGGGAGTATATTATAGTGTGCTTAC 57.755 37.037 0.00 0.00 0.00 2.34
2470 3880 7.469537 ACAGAGGGAGTATATTATAGTGTGC 57.530 40.000 0.00 0.00 0.00 4.57


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

AutoCloner maintained by Alex Coulton.