Multiple sequence alignment - TraesCS7A01G326400

Loading Multiple Alignment...

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 TraesCS7A01G326400 chr7A 100.000 3916 0 0 1 3916 474298884 474294969 0.000000e+00 7232
1 TraesCS7A01G326400 chr7B 92.428 3777 158 47 231 3916 427305294 427301555 0.000000e+00 5273
2 TraesCS7A01G326400 chr7B 91.667 180 4 3 1 174 427305471 427305297 5.060000e-59 239
3 TraesCS7A01G326400 chr7D 93.238 3150 133 34 1 3083 412888369 412885233 0.000000e+00 4564
4 TraesCS7A01G326400 chr7D 93.375 800 27 4 3138 3916 412885225 412884431 0.000000e+00 1160
5 TraesCS7A01G326400 chr1A 78.022 364 59 14 2557 2917 466927706 466927361 3.960000e-50 209
6 TraesCS7A01G326400 chr1B 77.901 362 59 15 2556 2917 491983006 491982666 5.130000e-49 206
7 TraesCS7A01G326400 chr1D 77.348 362 61 15 2556 2917 367429517 367429177 1.110000e-45 195
8 TraesCS7A01G326400 chr6B 89.516 124 13 0 657 780 138632187 138632310 1.460000e-34 158
9 TraesCS7A01G326400 chr6B 87.903 124 15 0 657 780 138656920 138657043 3.150000e-31 147
10 TraesCS7A01G326400 chrUn 88.710 124 14 0 657 780 194986370 194986247 6.780000e-33 152
11 TraesCS7A01G326400 chr3A 88.889 117 13 0 2556 2672 627864874 627864990 1.130000e-30 145
12 TraesCS7A01G326400 chr4B 84.615 143 19 3 2545 2684 126597731 126597589 5.280000e-29 139
13 TraesCS7A01G326400 chr3B 87.500 120 15 0 2556 2675 647680721 647680840 5.280000e-29 139
14 TraesCS7A01G326400 chr4D 85.385 130 19 0 2557 2686 89537823 89537694 6.830000e-28 135


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 TraesCS7A01G326400 chr7A 474294969 474298884 3915 True 7232 7232 100.0000 1 3916 1 chr7A.!!$R1 3915
1 TraesCS7A01G326400 chr7B 427301555 427305471 3916 True 2756 5273 92.0475 1 3916 2 chr7B.!!$R1 3915
2 TraesCS7A01G326400 chr7D 412884431 412888369 3938 True 2862 4564 93.3065 1 3916 2 chr7D.!!$R1 3915

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
936 991 0.678048 AGTGCCGGAAAGCTCATTCC 60.678 55.0 5.05 7.07 44.50 3.01 F
986 1041 0.798776 GTTCTGGTTGTCATCGCAGG 59.201 55.0 0.00 0.00 0.00 4.85 F
2180 2271 0.604511 TCGTCTACGACACTCAGCCA 60.605 55.0 0.14 0.00 44.22 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2015 2095 1.014044 TGCTTGACCGCGAGATGTTC 61.014 55.000 8.23 0.0 0.00 3.18 R
2414 2505 1.111116 AGGACTCGTCAAACGGACCA 61.111 55.000 0.00 0.0 43.95 4.02 R
3575 3720 1.003118 TGATTGTATATGAGCGCCCCC 59.997 52.381 2.29 0.0 0.00 5.40 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
27 28 1.609072 GGAAAGCCTTTTTCTCGCTGT 59.391 47.619 0.00 0.00 31.92 4.40
48 49 2.048503 AGAAAGGTCGCGGGTTCG 60.049 61.111 6.13 0.00 39.81 3.95
153 160 2.974489 CTCGCTGCTGGCCACAAAG 61.974 63.158 0.00 0.00 37.74 2.77
195 208 5.149977 GCGGAAGAATCTCTTTCAAGTTTG 58.850 41.667 0.00 0.00 36.73 2.93
198 211 5.536538 GGAAGAATCTCTTTCAAGTTTGGGT 59.463 40.000 0.00 0.00 36.73 4.51
199 212 6.715264 GGAAGAATCTCTTTCAAGTTTGGGTA 59.285 38.462 0.00 0.00 36.73 3.69
241 266 2.932130 GATGGCCGCTCCTCCTTCAC 62.932 65.000 0.00 0.00 35.26 3.18
253 280 2.909662 CCTCCTTCACTTCTTCCTCCTT 59.090 50.000 0.00 0.00 0.00 3.36
254 281 3.055458 CCTCCTTCACTTCTTCCTCCTTC 60.055 52.174 0.00 0.00 0.00 3.46
276 303 0.680921 ATCCACCAACGCCTCCATTG 60.681 55.000 0.00 0.00 0.00 2.82
282 309 3.866379 AACGCCTCCATTGCTGGCA 62.866 57.895 15.22 0.00 46.39 4.92
286 313 2.191513 CCTCCATTGCTGGCATCCG 61.192 63.158 0.00 0.00 42.80 4.18
291 318 1.026584 CATTGCTGGCATCCGATTCA 58.973 50.000 0.00 0.00 0.00 2.57
301 328 3.243201 GGCATCCGATTCATCCACTTTTC 60.243 47.826 0.00 0.00 0.00 2.29
304 331 1.064060 CCGATTCATCCACTTTTCGCC 59.936 52.381 0.00 0.00 0.00 5.54
313 340 1.005867 ACTTTTCGCCGCGGACTTA 60.006 52.632 33.48 7.99 0.00 2.24
317 344 0.942962 TTTCGCCGCGGACTTAAAAA 59.057 45.000 33.48 15.30 0.00 1.94
373 403 9.912634 TCATTCCATGTTTATTTTCTTCTGTTC 57.087 29.630 0.00 0.00 0.00 3.18
417 448 5.789643 TCTTTTTCCCTTCCATTTCACAG 57.210 39.130 0.00 0.00 0.00 3.66
422 453 3.620488 TCCCTTCCATTTCACAGCATAC 58.380 45.455 0.00 0.00 0.00 2.39
471 503 2.234908 AGATCTTGTACCTGCCACAGTC 59.765 50.000 0.00 0.00 0.00 3.51
472 504 0.685097 TCTTGTACCTGCCACAGTCC 59.315 55.000 0.00 0.00 0.00 3.85
499 546 1.825090 TGCACTGCAGGTCATAAAGG 58.175 50.000 19.93 0.00 33.32 3.11
500 547 1.350684 TGCACTGCAGGTCATAAAGGA 59.649 47.619 19.93 0.00 33.32 3.36
501 548 2.025981 TGCACTGCAGGTCATAAAGGAT 60.026 45.455 19.93 0.00 33.32 3.24
502 549 3.199727 TGCACTGCAGGTCATAAAGGATA 59.800 43.478 19.93 0.00 33.32 2.59
503 550 4.199310 GCACTGCAGGTCATAAAGGATAA 58.801 43.478 19.93 0.00 0.00 1.75
504 551 4.640201 GCACTGCAGGTCATAAAGGATAAA 59.360 41.667 19.93 0.00 0.00 1.40
505 552 5.125417 GCACTGCAGGTCATAAAGGATAAAA 59.875 40.000 19.93 0.00 0.00 1.52
506 553 6.678900 GCACTGCAGGTCATAAAGGATAAAAG 60.679 42.308 19.93 0.00 0.00 2.27
507 554 5.888161 ACTGCAGGTCATAAAGGATAAAAGG 59.112 40.000 19.93 0.00 0.00 3.11
614 665 1.745232 TACCAGTAAAATGGCGCCTG 58.255 50.000 29.70 15.48 44.80 4.85
625 676 3.198489 GCGCCTGCTGTTAGCCTC 61.198 66.667 0.00 0.00 41.51 4.70
670 721 1.962822 CATCCACCCATCGCCATCG 60.963 63.158 0.00 0.00 0.00 3.84
709 760 4.646492 GTGTAGCCAATTTCCCATCATCTT 59.354 41.667 0.00 0.00 0.00 2.40
712 763 3.708121 AGCCAATTTCCCATCATCTTTCC 59.292 43.478 0.00 0.00 0.00 3.13
797 848 9.688592 ATGGTATTAGTAACGAAGCTGTATTAC 57.311 33.333 0.00 0.00 0.00 1.89
827 878 2.031437 AGTCCGCGATTCGTTAGTCTAC 59.969 50.000 8.23 0.00 36.19 2.59
898 952 5.848406 AGACGCTAATCTTCCTCCTATTTG 58.152 41.667 0.00 0.00 0.00 2.32
899 953 5.598830 AGACGCTAATCTTCCTCCTATTTGA 59.401 40.000 0.00 0.00 0.00 2.69
936 991 0.678048 AGTGCCGGAAAGCTCATTCC 60.678 55.000 5.05 7.07 44.50 3.01
986 1041 0.798776 GTTCTGGTTGTCATCGCAGG 59.201 55.000 0.00 0.00 0.00 4.85
1125 1180 1.073098 ATCACCGGGGGAAGTCTTTT 58.927 50.000 2.42 0.00 0.00 2.27
1136 1191 2.203437 GTCTTTTGGGCCACCGGT 60.203 61.111 5.23 0.00 40.75 5.28
1383 1438 6.148150 CGCTTAAACAGGTAAACATCCAAGTA 59.852 38.462 0.00 0.00 0.00 2.24
1384 1439 7.527457 GCTTAAACAGGTAAACATCCAAGTAG 58.473 38.462 0.00 0.00 0.00 2.57
1385 1440 5.959618 AAACAGGTAAACATCCAAGTAGC 57.040 39.130 0.00 0.00 0.00 3.58
1387 1442 4.579869 ACAGGTAAACATCCAAGTAGCTG 58.420 43.478 0.00 7.08 44.05 4.24
1394 1465 2.224621 ACATCCAAGTAGCTGTGCTGTT 60.225 45.455 0.00 0.00 40.10 3.16
1479 1553 2.063266 GAAACAGTGGTCGCGTGAATA 58.937 47.619 5.77 0.00 0.00 1.75
1580 1657 6.934048 AAGATATGCCTGCTTAGAAAAGTC 57.066 37.500 0.00 0.00 34.99 3.01
1581 1658 5.372373 AGATATGCCTGCTTAGAAAAGTCC 58.628 41.667 0.00 0.00 34.99 3.85
1645 1725 4.153411 AGACATGCCTACATAGTACTCCC 58.847 47.826 0.00 0.00 33.67 4.30
1646 1726 4.140900 AGACATGCCTACATAGTACTCCCT 60.141 45.833 0.00 0.00 33.67 4.20
1649 1729 4.537945 TGCCTACATAGTACTCCCTCTT 57.462 45.455 0.00 0.00 0.00 2.85
1650 1730 4.880164 TGCCTACATAGTACTCCCTCTTT 58.120 43.478 0.00 0.00 0.00 2.52
1652 1732 5.832060 TGCCTACATAGTACTCCCTCTTTAC 59.168 44.000 0.00 0.00 0.00 2.01
1655 1735 7.288560 CCTACATAGTACTCCCTCTTTACAGA 58.711 42.308 0.00 0.00 0.00 3.41
1902 1982 1.239296 TTGCTGGATGCTGTGCTGAC 61.239 55.000 0.00 0.00 43.37 3.51
2061 2141 5.127682 GGCTATGTTGGAAAAATGAGGTGAT 59.872 40.000 0.00 0.00 0.00 3.06
2180 2271 0.604511 TCGTCTACGACACTCAGCCA 60.605 55.000 0.14 0.00 44.22 4.75
2202 2293 1.344953 ATACAATGCCGGGAGCCTCA 61.345 55.000 2.18 0.00 42.71 3.86
2216 2307 4.457496 CTCATCCCGTGCCAGCGT 62.457 66.667 0.00 0.00 0.00 5.07
2423 2514 2.750350 CTGCTCCCTGGTCCGTTT 59.250 61.111 0.00 0.00 0.00 3.60
2483 2574 0.322277 CCATGGCAGACTTCAGCAGT 60.322 55.000 0.00 0.00 39.07 4.40
2552 2643 1.482177 CGAGAGGAGGAAGATGGGGAT 60.482 57.143 0.00 0.00 0.00 3.85
2576 2667 2.239654 CAAGGAGAGGCCATTGGTTCTA 59.760 50.000 5.01 0.00 40.02 2.10
2761 2864 1.813513 CTCCAGCCGTCAAGTTCATT 58.186 50.000 0.00 0.00 0.00 2.57
2768 2871 2.131972 CCGTCAAGTTCATTGTCGTCA 58.868 47.619 6.52 0.00 45.22 4.35
2972 3075 6.016860 TGTGACAAGTCCATCAAGATCTTTTG 60.017 38.462 4.86 8.59 0.00 2.44
3052 3155 5.515270 GCAAGAAATATAAAGGTTTGGTCGC 59.485 40.000 0.00 0.00 0.00 5.19
3083 3186 5.850557 TTTTCATGCCTCTGAACTTTTCA 57.149 34.783 0.00 0.00 34.96 2.69
3084 3187 6.409524 TTTTCATGCCTCTGAACTTTTCAT 57.590 33.333 0.00 0.00 39.30 2.57
3085 3188 5.381174 TTCATGCCTCTGAACTTTTCATG 57.619 39.130 0.00 0.00 39.30 3.07
3087 3190 5.258841 TCATGCCTCTGAACTTTTCATGAT 58.741 37.500 0.00 0.00 39.30 2.45
3089 3192 6.885918 TCATGCCTCTGAACTTTTCATGATAA 59.114 34.615 0.00 0.00 39.30 1.75
3090 3193 7.394077 TCATGCCTCTGAACTTTTCATGATAAA 59.606 33.333 0.00 0.00 39.30 1.40
3091 3194 7.707624 TGCCTCTGAACTTTTCATGATAAAT 57.292 32.000 0.00 0.00 39.30 1.40
3092 3195 8.806429 TGCCTCTGAACTTTTCATGATAAATA 57.194 30.769 0.00 0.00 39.30 1.40
3118 3243 7.048000 TCTTTGAATTATGCGTGCATTTTTC 57.952 32.000 13.20 15.20 37.82 2.29
3161 3286 6.749578 GTGTACTCACATGAAGTCATCTGTAG 59.250 42.308 0.00 0.00 43.37 2.74
3183 3308 4.520111 AGTAAATCATGCTGCAAACAGTCA 59.480 37.500 6.36 0.00 46.30 3.41
3194 3319 5.389859 TGCAAACAGTCAAATAGGGATTG 57.610 39.130 0.00 0.00 0.00 2.67
3354 3499 6.432472 ACTCTTCCTGGAATCTTGCTAAAAAG 59.568 38.462 10.03 0.00 0.00 2.27
3355 3500 6.542821 TCTTCCTGGAATCTTGCTAAAAAGA 58.457 36.000 10.03 0.00 40.36 2.52
3356 3501 7.004086 TCTTCCTGGAATCTTGCTAAAAAGAA 58.996 34.615 10.03 0.00 39.54 2.52
3357 3502 7.505585 TCTTCCTGGAATCTTGCTAAAAAGAAA 59.494 33.333 10.03 0.00 39.54 2.52
3392 3537 9.831737 CTACAATCTCTTAAAACCTTCACAATG 57.168 33.333 0.00 0.00 0.00 2.82
3440 3585 6.314896 CAGAAAGAGACCTATCACCAATCAAC 59.685 42.308 0.00 0.00 0.00 3.18
3504 3649 7.553334 AGCATATGCCATATTCATCCAAATTC 58.447 34.615 23.96 0.00 43.38 2.17
3515 3660 4.423913 TCATCCAAATTCCAAACATCCCA 58.576 39.130 0.00 0.00 0.00 4.37
3575 3720 6.376978 CCTGAAAACTATTTCTCACTGCAAG 58.623 40.000 3.31 0.00 44.32 4.01
3578 3723 3.356529 ACTATTTCTCACTGCAAGGGG 57.643 47.619 0.00 0.00 38.52 4.79
3579 3724 2.025887 ACTATTTCTCACTGCAAGGGGG 60.026 50.000 0.00 0.00 41.61 5.40
3716 3861 6.440647 TCTCAGTAATGGTTCTGGTCATAACT 59.559 38.462 0.00 0.00 33.13 2.24
3755 3900 2.463876 TCACTTCTGCGATATCTTGCG 58.536 47.619 0.34 0.00 34.16 4.85
3791 3936 2.354203 GCCCAACTCTAAGTCACTCAGG 60.354 54.545 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 0.901580 AACCCGCGACCTTTCTCCTA 60.902 55.000 8.23 0.00 0.00 2.94
48 49 1.338200 ACGAGCTTTCCACCTGTGATC 60.338 52.381 0.00 0.00 0.00 2.92
148 149 1.636003 GAGGAGATCCCAACCCTTTGT 59.364 52.381 0.00 0.00 37.41 2.83
153 160 1.403687 CGGAGAGGAGATCCCAACCC 61.404 65.000 0.00 0.00 37.41 4.11
195 208 0.106894 CCCCAAATCGAGCTCTACCC 59.893 60.000 12.85 0.00 0.00 3.69
198 211 1.830145 GGCCCCAAATCGAGCTCTA 59.170 57.895 12.85 0.00 0.00 2.43
199 212 2.592308 GGCCCCAAATCGAGCTCT 59.408 61.111 12.85 0.00 0.00 4.09
241 266 1.208052 TGGATGCGAAGGAGGAAGAAG 59.792 52.381 0.00 0.00 0.00 2.85
253 280 3.950794 GAGGCGTTGGTGGATGCGA 62.951 63.158 0.00 0.00 32.29 5.10
254 281 3.499737 GAGGCGTTGGTGGATGCG 61.500 66.667 0.00 0.00 32.29 4.73
276 303 0.535780 TGGATGAATCGGATGCCAGC 60.536 55.000 0.00 0.00 0.00 4.85
282 309 2.614057 GCGAAAAGTGGATGAATCGGAT 59.386 45.455 0.00 0.00 0.00 4.18
286 313 1.531883 GCGGCGAAAAGTGGATGAATC 60.532 52.381 12.98 0.00 0.00 2.52
291 318 3.124921 CCGCGGCGAAAAGTGGAT 61.125 61.111 25.92 0.00 40.26 3.41
319 346 1.294659 GAGCGCTGCAAACTGCTAGT 61.295 55.000 18.48 0.00 45.31 2.57
417 448 7.171678 ACTTCAGAGAAAACTGTACTTGTATGC 59.828 37.037 0.00 0.00 38.79 3.14
422 453 8.119226 CAGAAACTTCAGAGAAAACTGTACTTG 58.881 37.037 0.00 0.00 38.79 3.16
496 543 9.256228 GACCTTTTTATCCTTCCTTTTATCCTT 57.744 33.333 0.00 0.00 0.00 3.36
497 544 8.398743 TGACCTTTTTATCCTTCCTTTTATCCT 58.601 33.333 0.00 0.00 0.00 3.24
498 545 8.589701 TGACCTTTTTATCCTTCCTTTTATCC 57.410 34.615 0.00 0.00 0.00 2.59
501 548 9.429109 AGTTTGACCTTTTTATCCTTCCTTTTA 57.571 29.630 0.00 0.00 0.00 1.52
502 549 8.319057 AGTTTGACCTTTTTATCCTTCCTTTT 57.681 30.769 0.00 0.00 0.00 2.27
503 550 7.914427 AGTTTGACCTTTTTATCCTTCCTTT 57.086 32.000 0.00 0.00 0.00 3.11
504 551 7.914427 AAGTTTGACCTTTTTATCCTTCCTT 57.086 32.000 0.00 0.00 0.00 3.36
505 552 7.344612 ACAAAGTTTGACCTTTTTATCCTTCCT 59.655 33.333 22.23 0.00 32.42 3.36
506 553 7.497595 ACAAAGTTTGACCTTTTTATCCTTCC 58.502 34.615 22.23 0.00 32.42 3.46
507 554 8.942338 AACAAAGTTTGACCTTTTTATCCTTC 57.058 30.769 22.23 0.00 32.42 3.46
584 631 8.073768 CGCCATTTTACTGGTATAAACCTAATG 58.926 37.037 0.00 0.00 46.91 1.90
670 721 0.394565 ACACAGACAGCCAACTCTCC 59.605 55.000 0.00 0.00 0.00 3.71
797 848 3.186817 ACGAATCGCGGACTAGAGATTAG 59.813 47.826 6.13 0.00 46.49 1.73
898 952 5.506317 GGCACTGCATATACACAAGGAAATC 60.506 44.000 2.82 0.00 0.00 2.17
899 953 4.339247 GGCACTGCATATACACAAGGAAAT 59.661 41.667 2.82 0.00 0.00 2.17
936 991 0.179134 CCTAGCGGTCAAGGTCTTCG 60.179 60.000 0.00 0.00 0.00 3.79
986 1041 1.333177 AGACATATCTGCCGGAGACC 58.667 55.000 5.05 0.00 32.29 3.85
1152 1207 1.748122 CTGATCAGCCACCACAGCC 60.748 63.158 10.38 0.00 0.00 4.85
1383 1438 1.971481 TCATGAACAACAGCACAGCT 58.029 45.000 0.00 0.00 40.77 4.24
1384 1439 2.592194 CATCATGAACAACAGCACAGC 58.408 47.619 0.00 0.00 0.00 4.40
1385 1440 2.094906 CCCATCATGAACAACAGCACAG 60.095 50.000 0.00 0.00 0.00 3.66
1387 1442 1.888512 ACCCATCATGAACAACAGCAC 59.111 47.619 0.00 0.00 0.00 4.40
1394 1465 3.719268 ACAAGCTACCCATCATGAACA 57.281 42.857 0.00 0.00 0.00 3.18
1645 1725 7.043961 TCATATGTACTGCCTCTGTAAAGAG 57.956 40.000 2.55 2.55 35.78 2.85
1646 1726 7.418337 TTCATATGTACTGCCTCTGTAAAGA 57.582 36.000 1.90 0.00 0.00 2.52
1649 1729 7.182817 ACTTTCATATGTACTGCCTCTGTAA 57.817 36.000 1.90 0.00 0.00 2.41
1650 1730 6.791867 ACTTTCATATGTACTGCCTCTGTA 57.208 37.500 1.90 0.00 0.00 2.74
1652 1732 6.676456 GCAAACTTTCATATGTACTGCCTCTG 60.676 42.308 1.90 0.00 0.00 3.35
1655 1735 5.009631 TGCAAACTTTCATATGTACTGCCT 58.990 37.500 1.90 0.00 0.00 4.75
1657 1737 5.095490 GGTGCAAACTTTCATATGTACTGC 58.905 41.667 1.90 5.53 0.00 4.40
1658 1738 6.072508 ACAGGTGCAAACTTTCATATGTACTG 60.073 38.462 1.90 0.00 0.00 2.74
1659 1739 6.003950 ACAGGTGCAAACTTTCATATGTACT 58.996 36.000 1.90 0.00 0.00 2.73
1902 1982 8.919661 CACAGCTACATGTCACATAACATATAG 58.080 37.037 0.00 0.00 38.89 1.31
2015 2095 1.014044 TGCTTGACCGCGAGATGTTC 61.014 55.000 8.23 0.00 0.00 3.18
2061 2141 3.133362 AGAACGTTGTGAAGGAAGGTACA 59.867 43.478 5.00 0.00 0.00 2.90
2180 2271 1.152963 GCTCCCGGCATTGTATGGT 60.153 57.895 0.00 0.00 41.35 3.55
2321 2412 2.586079 CACTGCATACGCCTCGGG 60.586 66.667 0.00 0.00 37.32 5.14
2348 2439 3.797353 GCAGAGGCCGGGATGGAA 61.797 66.667 2.18 0.00 42.00 3.53
2414 2505 1.111116 AGGACTCGTCAAACGGACCA 61.111 55.000 0.00 0.00 43.95 4.02
2423 2514 2.962569 CTGCGGAAGGACTCGTCA 59.037 61.111 0.00 0.00 0.00 4.35
2576 2667 2.731691 ATCTCGGCACCTTGTTGCGT 62.732 55.000 0.00 0.00 44.00 5.24
2952 3055 5.640189 AGCAAAAGATCTTGATGGACTTG 57.360 39.130 9.17 8.89 0.00 3.16
2972 3075 7.412137 AATCAACAACAGCAATAGAAAAAGC 57.588 32.000 0.00 0.00 0.00 3.51
3052 3155 4.397103 TCAGAGGCATGAAAAACATAGCAG 59.603 41.667 0.00 0.00 37.46 4.24
3087 3190 9.964303 ATGCACGCATAATTCAAAGATTATTTA 57.036 25.926 1.86 0.00 34.49 1.40
3089 3192 8.876275 AATGCACGCATAATTCAAAGATTATT 57.124 26.923 4.68 0.00 35.31 1.40
3090 3193 8.876275 AAATGCACGCATAATTCAAAGATTAT 57.124 26.923 4.68 0.00 35.31 1.28
3091 3194 8.700722 AAAATGCACGCATAATTCAAAGATTA 57.299 26.923 4.68 0.00 35.31 1.75
3092 3195 7.599630 AAAATGCACGCATAATTCAAAGATT 57.400 28.000 4.68 0.00 35.31 2.40
3094 3197 6.090628 GGAAAAATGCACGCATAATTCAAAGA 59.909 34.615 21.47 0.00 35.07 2.52
3097 3200 5.477510 AGGAAAAATGCACGCATAATTCAA 58.522 33.333 21.47 0.00 35.07 2.69
3099 3202 4.504097 GGAGGAAAAATGCACGCATAATTC 59.496 41.667 4.68 11.90 35.31 2.17
3101 3204 3.181476 GGGAGGAAAAATGCACGCATAAT 60.181 43.478 4.68 0.00 35.31 1.28
3102 3205 2.165437 GGGAGGAAAAATGCACGCATAA 59.835 45.455 4.68 0.00 35.31 1.90
3118 3243 4.847367 GCCATTGGCCAGGGGAGG 62.847 72.222 24.61 15.52 44.06 4.30
3161 3286 4.797471 TGACTGTTTGCAGCATGATTTAC 58.203 39.130 0.00 0.00 46.30 2.01
3183 3308 7.124599 TGACATGCAGAATTTCAATCCCTATTT 59.875 33.333 0.00 0.00 0.00 1.40
3194 3319 3.676646 GCTGGTTTGACATGCAGAATTTC 59.323 43.478 0.00 0.00 0.00 2.17
3392 3537 8.668353 TCTGTAAACATCTCAGTTATGCATTTC 58.332 33.333 3.54 0.00 0.00 2.17
3440 3585 3.707316 TGTAGGATTTGGGGAATGTTGG 58.293 45.455 0.00 0.00 0.00 3.77
3490 3635 6.671340 TGGGATGTTTGGAATTTGGATGAATA 59.329 34.615 0.00 0.00 0.00 1.75
3504 3649 3.068064 GGGCCGTGGGATGTTTGG 61.068 66.667 0.00 0.00 0.00 3.28
3515 3660 3.374402 CTCGTCAGTGAGGGCCGT 61.374 66.667 12.65 0.00 32.18 5.68
3575 3720 1.003118 TGATTGTATATGAGCGCCCCC 59.997 52.381 2.29 0.00 0.00 5.40
3578 3723 1.391485 CGCTGATTGTATATGAGCGCC 59.609 52.381 2.29 0.00 45.13 6.53
3579 3724 2.776694 CGCTGATTGTATATGAGCGC 57.223 50.000 0.00 0.00 45.13 5.92
3716 3861 3.196469 GTGATTCAGACACTGAGATCCCA 59.804 47.826 0.98 0.00 41.75 4.37
3755 3900 1.250154 TGGGCACTACAAGCAATGGC 61.250 55.000 0.00 0.00 41.61 4.40


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

AutoCloner maintained by Alex Coulton.