Multiple sequence alignment - TraesCS5A01G110200

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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 TraesCS5A01G110200 chr5A 100.000 4061 0 0 1 4061 207663146 207659086 0.000000e+00 7500.0
1 TraesCS5A01G110200 chr5D 98.044 3169 53 6 897 4061 158172962 158169799 0.000000e+00 5500.0
2 TraesCS5A01G110200 chr5D 87.205 891 66 15 19 880 158243625 158242754 0.000000e+00 970.0
3 TraesCS5A01G110200 chr5B 86.873 518 47 11 322 838 159708370 159708867 9.860000e-156 560.0
4 TraesCS5A01G110200 chr5B 82.410 415 63 9 325 733 546324509 546324099 1.800000e-93 353.0
5 TraesCS5A01G110200 chr5B 100.000 122 0 0 3940 4061 159711444 159711565 4.080000e-55 226.0
6 TraesCS5A01G110200 chr2B 86.420 405 52 3 331 732 563040841 563041245 1.340000e-119 440.0
7 TraesCS5A01G110200 chr2B 85.204 392 53 4 326 713 764818185 764817795 8.180000e-107 398.0
8 TraesCS5A01G110200 chr7B 84.798 421 52 10 322 739 123438732 123439143 2.920000e-111 412.0
9 TraesCS5A01G110200 chr2A 81.022 548 69 19 325 863 212629059 212628538 1.760000e-108 403.0
10 TraesCS5A01G110200 chr4D 88.545 323 33 4 325 644 259882990 259882669 4.920000e-104 388.0
11 TraesCS5A01G110200 chr7A 83.373 415 58 9 322 733 162531306 162531712 1.380000e-99 374.0
12 TraesCS5A01G110200 chr1A 92.405 79 6 0 256 334 472439530 472439608 3.320000e-21 113.0
13 TraesCS5A01G110200 chr4B 89.011 91 9 1 238 327 421921665 421921755 1.190000e-20 111.0
14 TraesCS5A01G110200 chr7D 89.655 87 7 2 241 326 600475530 600475445 4.290000e-20 110.0
15 TraesCS5A01G110200 chr7D 87.097 93 11 1 232 323 514073559 514073651 2.000000e-18 104.0
16 TraesCS5A01G110200 chr7D 86.517 89 11 1 736 823 615864077 615864165 3.340000e-16 97.1
17 TraesCS5A01G110200 chr6B 87.912 91 11 0 241 331 279200730 279200640 1.540000e-19 108.0
18 TraesCS5A01G110200 chr6D 88.764 89 6 4 237 323 409369355 409369441 5.550000e-19 106.0
19 TraesCS5A01G110200 chr6D 88.764 89 6 4 237 323 409436048 409436134 5.550000e-19 106.0
20 TraesCS5A01G110200 chr3B 84.615 104 13 3 225 327 17340273 17340172 2.580000e-17 100.0


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 TraesCS5A01G110200 chr5A 207659086 207663146 4060 True 7500 7500 100.0000 1 4061 1 chr5A.!!$R1 4060
1 TraesCS5A01G110200 chr5D 158169799 158172962 3163 True 5500 5500 98.0440 897 4061 1 chr5D.!!$R1 3164
2 TraesCS5A01G110200 chr5D 158242754 158243625 871 True 970 970 87.2050 19 880 1 chr5D.!!$R2 861
3 TraesCS5A01G110200 chr5B 159708370 159711565 3195 False 393 560 93.4365 322 4061 2 chr5B.!!$F1 3739
4 TraesCS5A01G110200 chr2A 212628538 212629059 521 True 403 403 81.0220 325 863 1 chr2A.!!$R1 538

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
278 304 0.471191 TGAGGTGGATAGGCTGCATG 59.529 55.0 0.5 0.0 0.0 4.06 F
1890 2753 0.250989 TCCGGTGGATGGTGGAAAAC 60.251 55.0 0.0 0.0 0.0 2.43 F
2634 3497 0.323957 AACCTCTCCCGTTAGTTGCC 59.676 55.0 0.0 0.0 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2217 3080 0.233848 GAACAGTACCAACCGCAACG 59.766 55.0 0.00 0.00 0.00 4.10 R
2892 3755 0.902531 ACCCTTGTACCATGGAGTCG 59.097 55.0 21.47 2.27 31.33 4.18 R
3918 4960 2.206322 TGGTGCCTACTCCCCATTAT 57.794 50.0 0.00 0.00 0.00 1.28 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 21 2.779506 GTTGGGAAATGGAGTCGAAGT 58.220 47.619 0.00 0.00 0.00 3.01
21 22 2.472695 TGGGAAATGGAGTCGAAGTG 57.527 50.000 0.00 0.00 0.00 3.16
22 23 1.003118 TGGGAAATGGAGTCGAAGTGG 59.997 52.381 0.00 0.00 0.00 4.00
23 24 1.278127 GGGAAATGGAGTCGAAGTGGA 59.722 52.381 0.00 0.00 0.00 4.02
24 25 2.290071 GGGAAATGGAGTCGAAGTGGAA 60.290 50.000 0.00 0.00 0.00 3.53
25 26 3.003480 GGAAATGGAGTCGAAGTGGAAG 58.997 50.000 0.00 0.00 0.00 3.46
26 27 3.557264 GGAAATGGAGTCGAAGTGGAAGT 60.557 47.826 0.00 0.00 0.00 3.01
43 44 0.482446 AGTGGAAGGGGAACATGCAA 59.518 50.000 0.00 0.00 0.00 4.08
44 45 0.603065 GTGGAAGGGGAACATGCAAC 59.397 55.000 0.00 0.00 0.00 4.17
53 54 3.243401 GGGGAACATGCAACGAATTATCC 60.243 47.826 0.00 0.00 0.00 2.59
56 57 2.639065 ACATGCAACGAATTATCCGGT 58.361 42.857 0.00 0.00 0.00 5.28
63 64 0.852777 CGAATTATCCGGTGACTGCG 59.147 55.000 0.00 0.00 0.00 5.18
72 73 1.571460 GGTGACTGCGTTTCTGCTG 59.429 57.895 0.00 0.00 39.43 4.41
146 147 2.551032 TCGTTCTGTTCGCTAGTCAAGA 59.449 45.455 0.00 0.00 0.00 3.02
151 152 2.989840 CTGTTCGCTAGTCAAGAAGTGG 59.010 50.000 0.00 0.00 0.00 4.00
152 153 1.727335 GTTCGCTAGTCAAGAAGTGGC 59.273 52.381 0.00 0.00 0.00 5.01
186 187 1.670380 GCAGAGAGGGTCGTTCTGTTC 60.670 57.143 3.07 0.00 40.29 3.18
217 218 0.899720 GGTAACGGAGGGTGATGTGA 59.100 55.000 0.00 0.00 0.00 3.58
249 275 3.389656 TGTGGTGGTAGAAGTTGATGTGA 59.610 43.478 0.00 0.00 0.00 3.58
252 278 3.305813 GGTGGTAGAAGTTGATGTGACGA 60.306 47.826 0.00 0.00 0.00 4.20
277 303 0.763652 CTGAGGTGGATAGGCTGCAT 59.236 55.000 0.50 0.00 0.00 3.96
278 304 0.471191 TGAGGTGGATAGGCTGCATG 59.529 55.000 0.50 0.00 0.00 4.06
292 318 4.080695 AGGCTGCATGTCAAGAGAAATAGA 60.081 41.667 0.50 0.00 0.00 1.98
294 320 5.448360 GGCTGCATGTCAAGAGAAATAGAAC 60.448 44.000 0.50 0.00 0.00 3.01
315 341 6.443849 AGAACAGTGGGGATCAACTATTTAGA 59.556 38.462 0.00 0.00 0.00 2.10
447 473 9.958180 TCACCAAGATCTATGAACTAAAATTGA 57.042 29.630 0.00 0.00 0.00 2.57
631 662 7.765695 AAAACTAGATGAAACATGTCATGGT 57.234 32.000 17.08 7.75 38.38 3.55
641 672 8.458573 TGAAACATGTCATGGTAACTTTAGTT 57.541 30.769 17.08 0.29 36.99 2.24
663 694 7.916552 AGTTTAAATACTATGACAATGTCGGC 58.083 34.615 9.00 0.00 34.95 5.54
673 704 1.392168 ACAATGTCGGCGTAAACATCG 59.608 47.619 12.29 5.08 35.10 3.84
698 730 8.769891 CGTGGAAACTTTTGGCTAAAATAAATT 58.230 29.630 8.54 2.25 35.39 1.82
771 803 6.513180 AGATCTCGTCGAGGCAAATTTAATA 58.487 36.000 21.63 0.00 0.00 0.98
877 913 6.745450 GTCATTTGTTTTGACGTCTTTTCTGA 59.255 34.615 17.92 6.78 34.67 3.27
884 920 9.268268 TGTTTTGACGTCTTTTCTGATAATACT 57.732 29.630 17.92 0.00 0.00 2.12
909 945 7.324935 TGAAGTGCCGACTACTTAATTAATCA 58.675 34.615 0.00 0.00 38.42 2.57
1009 1045 4.260355 CGCTCGCCATGGCCATTG 62.260 66.667 30.79 14.90 37.98 2.82
1035 1400 1.613610 CTCGACCTCCTCCCCTGTA 59.386 63.158 0.00 0.00 0.00 2.74
1038 1403 2.042843 ACCTCCTCCCCTGTAGCG 60.043 66.667 0.00 0.00 0.00 4.26
1044 1409 3.751049 CTCCCCTGTAGCGGCCCTA 62.751 68.421 0.00 0.00 0.00 3.53
1077 1538 1.573108 TTCTAGACTCCAAGGCCCTG 58.427 55.000 0.00 0.00 0.00 4.45
1401 1908 3.802866 CTCCAATGAGTTTCTCCTAGCC 58.197 50.000 0.00 0.00 33.70 3.93
1689 2552 1.237285 ACGCCATGCTGGTCAAGAAC 61.237 55.000 4.45 0.00 40.46 3.01
1846 2709 2.203294 GGTTCGCACACAAGGGGT 60.203 61.111 0.00 0.00 0.00 4.95
1890 2753 0.250989 TCCGGTGGATGGTGGAAAAC 60.251 55.000 0.00 0.00 0.00 2.43
1979 2842 3.321950 ACTTAGGGAGGGAGATTCATGG 58.678 50.000 0.00 0.00 0.00 3.66
2217 3080 2.962421 AGAAGGAATCCGACCAGATCTC 59.038 50.000 0.00 0.00 0.00 2.75
2337 3200 5.268544 CCAAATGTCTCATTATGCACTTCG 58.731 41.667 0.00 0.00 0.00 3.79
2356 3219 1.108776 GCTCATCACCCTGTACGGTA 58.891 55.000 0.00 0.00 33.67 4.02
2574 3437 7.798596 CTCTGATATTGGAGCATTACAACTT 57.201 36.000 0.00 0.00 0.00 2.66
2634 3497 0.323957 AACCTCTCCCGTTAGTTGCC 59.676 55.000 0.00 0.00 0.00 4.52
2719 3582 2.192263 GAACAGACTCCAAGGGATCCT 58.808 52.381 12.58 0.00 33.87 3.24
2892 3755 5.558653 GCATGATGAAGCTCTCGAGATTTTC 60.559 44.000 17.03 20.60 37.15 2.29
2992 3926 3.426568 GGACTGCCGAAGCACAGC 61.427 66.667 0.00 0.00 46.52 4.40
3194 4186 7.663905 TGTTACTAACAAGTAATGCCATCAGTT 59.336 33.333 0.00 0.00 38.72 3.16
3314 4308 3.386726 GGGGTTTGGGTTTATGGCTTATC 59.613 47.826 0.00 0.00 0.00 1.75
3332 4326 5.751028 GCTTATCTGTTCGCTTCAGTTAGAT 59.249 40.000 0.00 0.00 34.86 1.98
3494 4488 8.320396 TGTATAGCTAGTAGTCTAATTGTCCG 57.680 38.462 0.00 0.00 0.00 4.79
3495 4489 7.935755 TGTATAGCTAGTAGTCTAATTGTCCGT 59.064 37.037 0.00 0.00 0.00 4.69
3496 4490 5.754543 AGCTAGTAGTCTAATTGTCCGTC 57.245 43.478 0.00 0.00 0.00 4.79
3497 4491 5.438833 AGCTAGTAGTCTAATTGTCCGTCT 58.561 41.667 0.00 0.00 0.00 4.18
3506 4500 8.307921 AGTCTAATTGTCCGTCTTCTTTTTAC 57.692 34.615 0.00 0.00 0.00 2.01
3743 4784 0.107831 ACTTCTAGTGGTTTGCGGCA 59.892 50.000 0.00 0.00 0.00 5.69
3755 4796 2.437200 TTGCGGCATTTCCTTTTGAG 57.563 45.000 2.28 0.00 0.00 3.02
3918 4960 2.859404 TCTCCTCTCCATCCAAGGACTA 59.141 50.000 0.00 0.00 35.38 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.484264 CACTTCGACTCCATTTCCCAAC 59.516 50.000 0.00 0.00 0.00 3.77
1 2 2.552155 CCACTTCGACTCCATTTCCCAA 60.552 50.000 0.00 0.00 0.00 4.12
5 6 3.433615 CACTTCCACTTCGACTCCATTTC 59.566 47.826 0.00 0.00 0.00 2.17
7 8 2.289694 CCACTTCCACTTCGACTCCATT 60.290 50.000 0.00 0.00 0.00 3.16
8 9 1.276421 CCACTTCCACTTCGACTCCAT 59.724 52.381 0.00 0.00 0.00 3.41
9 10 0.679505 CCACTTCCACTTCGACTCCA 59.320 55.000 0.00 0.00 0.00 3.86
10 11 0.966920 TCCACTTCCACTTCGACTCC 59.033 55.000 0.00 0.00 0.00 3.85
11 12 2.610727 CCTTCCACTTCCACTTCGACTC 60.611 54.545 0.00 0.00 0.00 3.36
12 13 1.344763 CCTTCCACTTCCACTTCGACT 59.655 52.381 0.00 0.00 0.00 4.18
13 14 1.608283 CCCTTCCACTTCCACTTCGAC 60.608 57.143 0.00 0.00 0.00 4.20
14 15 0.685097 CCCTTCCACTTCCACTTCGA 59.315 55.000 0.00 0.00 0.00 3.71
15 16 0.321653 CCCCTTCCACTTCCACTTCG 60.322 60.000 0.00 0.00 0.00 3.79
16 17 1.064825 TCCCCTTCCACTTCCACTTC 58.935 55.000 0.00 0.00 0.00 3.01
17 18 1.145119 GTTCCCCTTCCACTTCCACTT 59.855 52.381 0.00 0.00 0.00 3.16
18 19 0.771755 GTTCCCCTTCCACTTCCACT 59.228 55.000 0.00 0.00 0.00 4.00
19 20 0.476771 TGTTCCCCTTCCACTTCCAC 59.523 55.000 0.00 0.00 0.00 4.02
20 21 1.075374 CATGTTCCCCTTCCACTTCCA 59.925 52.381 0.00 0.00 0.00 3.53
21 22 1.839424 CATGTTCCCCTTCCACTTCC 58.161 55.000 0.00 0.00 0.00 3.46
22 23 1.177401 GCATGTTCCCCTTCCACTTC 58.823 55.000 0.00 0.00 0.00 3.01
23 24 0.482446 TGCATGTTCCCCTTCCACTT 59.518 50.000 0.00 0.00 0.00 3.16
24 25 0.482446 TTGCATGTTCCCCTTCCACT 59.518 50.000 0.00 0.00 0.00 4.00
25 26 0.603065 GTTGCATGTTCCCCTTCCAC 59.397 55.000 0.00 0.00 0.00 4.02
26 27 0.893270 CGTTGCATGTTCCCCTTCCA 60.893 55.000 0.00 0.00 0.00 3.53
43 44 1.801395 CGCAGTCACCGGATAATTCGT 60.801 52.381 9.46 0.00 0.00 3.85
44 45 0.852777 CGCAGTCACCGGATAATTCG 59.147 55.000 9.46 0.37 0.00 3.34
53 54 1.956170 AGCAGAAACGCAGTCACCG 60.956 57.895 0.00 0.00 45.00 4.94
56 57 2.597713 CGCAGCAGAAACGCAGTCA 61.598 57.895 0.00 0.00 45.00 3.41
63 64 1.071605 CTCACCTACGCAGCAGAAAC 58.928 55.000 0.00 0.00 0.00 2.78
72 73 1.153549 CTTGGCTCCTCACCTACGC 60.154 63.158 0.00 0.00 0.00 4.42
146 147 1.153086 GCATCATCCTCCGCCACTT 60.153 57.895 0.00 0.00 0.00 3.16
151 152 4.916293 TGCCGCATCATCCTCCGC 62.916 66.667 0.00 0.00 0.00 5.54
152 153 2.664185 CTGCCGCATCATCCTCCG 60.664 66.667 0.00 0.00 0.00 4.63
204 205 0.107945 GCTCTGTCACATCACCCTCC 60.108 60.000 0.00 0.00 0.00 4.30
205 206 0.610174 TGCTCTGTCACATCACCCTC 59.390 55.000 0.00 0.00 0.00 4.30
206 207 0.612229 CTGCTCTGTCACATCACCCT 59.388 55.000 0.00 0.00 0.00 4.34
209 210 1.077123 CAGCTGCTCTGTCACATCAC 58.923 55.000 0.00 0.00 38.02 3.06
277 303 5.513094 CCCCACTGTTCTATTTCTCTTGACA 60.513 44.000 0.00 0.00 0.00 3.58
278 304 4.938226 CCCCACTGTTCTATTTCTCTTGAC 59.062 45.833 0.00 0.00 0.00 3.18
292 318 6.636454 TCTAAATAGTTGATCCCCACTGTT 57.364 37.500 0.00 0.00 0.00 3.16
323 349 3.540617 AGTGCGTGTATCATGGCAAATA 58.459 40.909 0.00 0.00 37.12 1.40
339 365 4.165779 GGACCATGACAAATTTTAGTGCG 58.834 43.478 0.00 0.00 0.00 5.34
422 448 9.994432 GTCAATTTTAGTTCATAGATCTTGGTG 57.006 33.333 0.00 0.00 0.00 4.17
641 672 6.044046 ACGCCGACATTGTCATAGTATTTAA 58.956 36.000 16.61 0.00 32.09 1.52
646 677 4.635833 TTACGCCGACATTGTCATAGTA 57.364 40.909 16.61 12.61 32.09 1.82
663 694 4.673311 CCAAAAGTTTCCACGATGTTTACG 59.327 41.667 0.00 0.00 0.00 3.18
735 767 6.438259 TCGACGAGATCTTCAAAACTAGAT 57.562 37.500 0.00 0.00 0.00 1.98
736 768 5.163744 CCTCGACGAGATCTTCAAAACTAGA 60.164 44.000 26.11 0.00 0.00 2.43
737 769 5.031578 CCTCGACGAGATCTTCAAAACTAG 58.968 45.833 26.11 0.10 0.00 2.57
738 770 4.674623 GCCTCGACGAGATCTTCAAAACTA 60.675 45.833 26.11 0.00 0.00 2.24
739 771 3.839293 CCTCGACGAGATCTTCAAAACT 58.161 45.455 26.11 0.00 0.00 2.66
740 772 2.345942 GCCTCGACGAGATCTTCAAAAC 59.654 50.000 26.11 0.00 0.00 2.43
741 773 2.029380 TGCCTCGACGAGATCTTCAAAA 60.029 45.455 26.11 0.00 0.00 2.44
742 774 1.544246 TGCCTCGACGAGATCTTCAAA 59.456 47.619 26.11 0.00 0.00 2.69
743 775 1.173913 TGCCTCGACGAGATCTTCAA 58.826 50.000 26.11 0.73 0.00 2.69
744 776 1.173913 TTGCCTCGACGAGATCTTCA 58.826 50.000 26.11 11.91 0.00 3.02
745 777 2.279582 TTTGCCTCGACGAGATCTTC 57.720 50.000 26.11 9.65 0.00 2.87
746 778 2.969628 ATTTGCCTCGACGAGATCTT 57.030 45.000 26.11 4.14 0.00 2.40
747 779 2.969628 AATTTGCCTCGACGAGATCT 57.030 45.000 26.11 0.00 0.00 2.75
748 780 5.659048 ATTAAATTTGCCTCGACGAGATC 57.341 39.130 26.11 16.58 0.00 2.75
749 781 6.201044 CACTATTAAATTTGCCTCGACGAGAT 59.799 38.462 26.11 8.65 0.00 2.75
771 803 6.766467 AGTCCGACTAAAAATCTGTTTTCACT 59.234 34.615 0.00 0.00 36.55 3.41
840 876 6.533012 TCAAAACAAATGACATCAGCGAAAAA 59.467 30.769 0.00 0.00 0.00 1.94
842 878 5.458452 GTCAAAACAAATGACATCAGCGAAA 59.542 36.000 2.01 0.00 45.13 3.46
869 905 6.535150 TCGGCACTTCAGTATTATCAGAAAAG 59.465 38.462 0.00 0.00 0.00 2.27
877 913 6.466885 AAGTAGTCGGCACTTCAGTATTAT 57.533 37.500 0.00 0.00 30.36 1.28
884 920 7.324935 TGATTAATTAAGTAGTCGGCACTTCA 58.675 34.615 7.89 0.00 37.42 3.02
909 945 1.204941 GCCACCTACAGATCGTTCACT 59.795 52.381 0.00 0.00 0.00 3.41
919 955 3.643792 AGCTAGATTTAGGCCACCTACAG 59.356 47.826 5.01 0.00 35.63 2.74
1009 1045 4.554036 GGAGGTCGAGGCCATGGC 62.554 72.222 29.47 29.47 41.06 4.40
1035 1400 4.426313 GGGTGCTTTAGGGCCGCT 62.426 66.667 0.00 0.00 0.00 5.52
1038 1403 2.529930 AATGGGGGTGCTTTAGGGCC 62.530 60.000 0.00 0.00 0.00 5.80
1044 1409 3.076032 AGTCTAGAAAATGGGGGTGCTTT 59.924 43.478 0.00 0.00 0.00 3.51
1077 1538 2.783064 CGCGCGCTTGAGAGACTTC 61.783 63.158 30.48 0.00 0.00 3.01
1401 1908 1.405821 AGATAAACCTCGACGAGCCTG 59.594 52.381 19.55 8.61 0.00 4.85
1524 2387 3.765257 ATCCCCTGCCTCTCTCCGG 62.765 68.421 0.00 0.00 0.00 5.14
1846 2709 0.473694 TCCAGTGCCTCCCTCTTCAA 60.474 55.000 0.00 0.00 0.00 2.69
1890 2753 0.388649 CCGAGTTCACCTTGACTCCG 60.389 60.000 0.00 0.00 0.00 4.63
1945 2808 1.134907 CCCTAAGTTCCGTGCACGTAT 60.135 52.381 34.81 18.89 37.74 3.06
1979 2842 2.034685 GGAAACTTCTTCAGCACCAACC 59.965 50.000 0.00 0.00 0.00 3.77
2217 3080 0.233848 GAACAGTACCAACCGCAACG 59.766 55.000 0.00 0.00 0.00 4.10
2337 3200 1.108776 TACCGTACAGGGTGATGAGC 58.891 55.000 3.88 0.00 46.96 4.26
2356 3219 6.699204 CGAGAGTATTCTAAATGACAGCATGT 59.301 38.462 0.00 0.00 43.88 3.21
2484 3347 1.648504 TCGACAGCAGCATTGATCTG 58.351 50.000 0.00 0.00 34.79 2.90
2574 3437 1.144708 TGACCATGAACTTCCTTGCCA 59.855 47.619 0.00 0.00 0.00 4.92
2634 3497 5.323900 CCATACATGTTAACAAGTTCTGCG 58.676 41.667 20.38 9.68 0.00 5.18
2719 3582 4.249661 TCTATTATTGCAGTGCACGTCAA 58.750 39.130 19.58 22.52 38.71 3.18
2892 3755 0.902531 ACCCTTGTACCATGGAGTCG 59.097 55.000 21.47 2.27 31.33 4.18
2992 3926 3.362304 GCAGCTTTCAAATCAGCAAAACG 60.362 43.478 0.00 0.00 38.61 3.60
3178 4170 4.202441 CCTAGCAACTGATGGCATTACTT 58.798 43.478 0.00 0.00 0.00 2.24
3194 4186 8.617809 GGTTAATATTGAATTTTCGACCTAGCA 58.382 33.333 0.00 0.00 0.00 3.49
3431 4425 7.084486 CACCTATTGCTGGAAAAAGAACTTAC 58.916 38.462 0.00 0.00 0.00 2.34
3494 4488 8.617809 TGTTCCACATAACAGTAAAAAGAAGAC 58.382 33.333 0.00 0.00 34.50 3.01
3495 4489 8.740123 TGTTCCACATAACAGTAAAAAGAAGA 57.260 30.769 0.00 0.00 34.50 2.87
3496 4490 9.965824 AATGTTCCACATAACAGTAAAAAGAAG 57.034 29.630 0.00 0.00 42.33 2.85
3497 4491 9.743057 CAATGTTCCACATAACAGTAAAAAGAA 57.257 29.630 0.00 0.00 42.33 2.52
3506 4500 5.964958 AAGGTCAATGTTCCACATAACAG 57.035 39.130 0.00 0.00 42.33 3.16
3620 4614 7.665559 AGTTATCAGCTATGTTCTGTTCCAAAA 59.334 33.333 0.00 0.00 33.48 2.44
3814 4856 6.310149 AGATTTCACAGAAATGAAGTTCCCT 58.690 36.000 9.49 0.00 39.68 4.20
3815 4857 6.432472 AGAGATTTCACAGAAATGAAGTTCCC 59.568 38.462 9.49 0.00 39.68 3.97
3831 4873 7.398618 AGACCAGAACAGAAGATAGAGATTTCA 59.601 37.037 0.00 0.00 0.00 2.69
3918 4960 2.206322 TGGTGCCTACTCCCCATTAT 57.794 50.000 0.00 0.00 0.00 1.28


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

AutoCloner maintained by Alex Coulton.