Multiple sequence alignment - TraesCS7B01G095000

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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 TraesCS7B01G095000 chr7B 100.000 2327 0 0 1 2327 108828414 108830740 0.000000e+00 4298
1 TraesCS7B01G095000 chr7B 87.057 734 68 7 624 1356 75744950 75744243 0.000000e+00 804
2 TraesCS7B01G095000 chr7B 89.492 590 53 5 5 593 75745526 75744945 0.000000e+00 737
3 TraesCS7B01G095000 chr7B 84.977 639 81 9 1698 2327 212896555 212897187 3.260000e-178 634
4 TraesCS7B01G095000 chr6D 91.546 970 80 2 374 1342 353299103 353300071 0.000000e+00 1336
5 TraesCS7B01G095000 chr6D 93.103 377 21 3 4 376 353220600 353220975 4.370000e-152 547
6 TraesCS7B01G095000 chr6D 84.466 309 48 0 1024 1332 435980868 435980560 2.900000e-79 305
7 TraesCS7B01G095000 chr7D 88.163 980 111 5 1350 2327 146391053 146392029 0.000000e+00 1162
8 TraesCS7B01G095000 chr7D 81.478 988 132 22 1350 2308 236578130 236579095 0.000000e+00 763
9 TraesCS7B01G095000 chr6A 83.525 1044 161 8 318 1360 604833219 604832186 0.000000e+00 965
10 TraesCS7B01G095000 chr7A 92.566 417 30 1 1911 2327 147081204 147081619 4.280000e-167 597
11 TraesCS7B01G095000 chr7A 83.301 521 66 10 1402 1905 147071958 147072474 5.860000e-126 460
12 TraesCS7B01G095000 chr5D 81.731 520 66 10 1822 2327 72504273 72503769 7.740000e-110 407
13 TraesCS7B01G095000 chr5D 85.340 382 49 5 427 806 464348811 464349187 2.800000e-104 388
14 TraesCS7B01G095000 chr5D 86.239 327 39 5 61 385 464348486 464348808 1.320000e-92 350
15 TraesCS7B01G095000 chr5D 87.778 90 10 1 815 903 464391694 464391783 1.140000e-18 104
16 TraesCS7B01G095000 chr5B 80.688 523 69 13 1822 2327 81480365 81480872 6.070000e-101 377
17 TraesCS7B01G095000 chr5B 86.842 190 23 1 197 386 571501561 571501748 6.510000e-51 211
18 TraesCS7B01G095000 chr5B 85.263 190 22 5 199 386 571486240 571486425 8.490000e-45 191
19 TraesCS7B01G095000 chr3B 84.444 270 36 1 2064 2327 140995103 140994834 6.380000e-66 261


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 TraesCS7B01G095000 chr7B 108828414 108830740 2326 False 4298.0 4298 100.0000 1 2327 1 chr7B.!!$F1 2326
1 TraesCS7B01G095000 chr7B 75744243 75745526 1283 True 770.5 804 88.2745 5 1356 2 chr7B.!!$R1 1351
2 TraesCS7B01G095000 chr7B 212896555 212897187 632 False 634.0 634 84.9770 1698 2327 1 chr7B.!!$F2 629
3 TraesCS7B01G095000 chr6D 353299103 353300071 968 False 1336.0 1336 91.5460 374 1342 1 chr6D.!!$F2 968
4 TraesCS7B01G095000 chr7D 146391053 146392029 976 False 1162.0 1162 88.1630 1350 2327 1 chr7D.!!$F1 977
5 TraesCS7B01G095000 chr7D 236578130 236579095 965 False 763.0 763 81.4780 1350 2308 1 chr7D.!!$F2 958
6 TraesCS7B01G095000 chr6A 604832186 604833219 1033 True 965.0 965 83.5250 318 1360 1 chr6A.!!$R1 1042
7 TraesCS7B01G095000 chr7A 147071958 147072474 516 False 460.0 460 83.3010 1402 1905 1 chr7A.!!$F1 503
8 TraesCS7B01G095000 chr5D 72503769 72504273 504 True 407.0 407 81.7310 1822 2327 1 chr5D.!!$R1 505
9 TraesCS7B01G095000 chr5D 464348486 464349187 701 False 369.0 388 85.7895 61 806 2 chr5D.!!$F2 745
10 TraesCS7B01G095000 chr5B 81480365 81480872 507 False 377.0 377 80.6880 1822 2327 1 chr5B.!!$F1 505

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
912 916 0.335019 GGGGATGGGGCTTTGTAACT 59.665 55.0 0.0 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1912 1943 0.534203 TTGCGACTTGGTGGGACTTC 60.534 55.0 0.0 0.0 0.0 3.01 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 7.229306 GGCAATAATATCAACATCTGGTCAGAA 59.771 37.037 4.67 0.00 41.36 3.02
69 70 8.275758 AGGTATCACTAGAAAGATCACTACTCA 58.724 37.037 0.00 0.00 0.00 3.41
102 103 6.537301 CAGGAACTTAATAAACATGGTCGCTA 59.463 38.462 0.00 0.00 34.60 4.26
128 129 6.126652 ACCTGATTGATCCTGCTACAAATACT 60.127 38.462 0.00 0.00 0.00 2.12
140 142 6.472016 TGCTACAAATACTTGGATGAAGACA 58.528 36.000 0.00 0.00 36.82 3.41
195 197 7.992180 CAAAGGTGATATTGCAAATTCCTAC 57.008 36.000 1.71 0.00 0.00 3.18
197 199 6.949352 AGGTGATATTGCAAATTCCTACTG 57.051 37.500 1.71 0.00 0.00 2.74
204 206 4.019792 TGCAAATTCCTACTGAAGAGCA 57.980 40.909 0.00 0.00 36.14 4.26
205 207 4.592942 TGCAAATTCCTACTGAAGAGCAT 58.407 39.130 0.00 0.00 36.14 3.79
208 210 5.008118 GCAAATTCCTACTGAAGAGCATACC 59.992 44.000 0.00 0.00 36.14 2.73
209 211 6.352516 CAAATTCCTACTGAAGAGCATACCT 58.647 40.000 0.00 0.00 36.14 3.08
221 223 9.941325 CTGAAGAGCATACCTAAGATTTCATAT 57.059 33.333 0.00 0.00 0.00 1.78
293 295 0.617413 AGCAGTGGATAGCACAGCTT 59.383 50.000 0.00 0.00 41.53 3.74
308 311 4.036498 GCACAGCTTATGAATCTCTTGCAT 59.964 41.667 0.00 0.00 0.00 3.96
326 329 3.055819 TGCATGACTAACTTCCTCCTCAC 60.056 47.826 0.00 0.00 0.00 3.51
357 360 4.753107 TGAAGACGTGGATGGTTTTAACTC 59.247 41.667 0.00 0.00 0.00 3.01
448 451 3.608474 GCTTACCATTGCGAACGAAACTT 60.608 43.478 0.00 0.00 0.00 2.66
451 454 2.286772 ACCATTGCGAACGAAACTTCAC 60.287 45.455 0.00 0.00 0.00 3.18
517 520 3.081804 GTTGGACGAAGATGTTGGGAAT 58.918 45.455 0.00 0.00 0.00 3.01
678 681 2.226962 ACATGCATCCTTCTTTGGCT 57.773 45.000 0.00 0.00 0.00 4.75
737 740 8.885494 AGATACTATTGAAACTTCTGATGAGC 57.115 34.615 0.00 0.00 0.00 4.26
741 744 8.885494 ACTATTGAAACTTCTGATGAGCTATC 57.115 34.615 0.00 0.00 36.29 2.08
742 745 8.703743 ACTATTGAAACTTCTGATGAGCTATCT 58.296 33.333 0.00 0.00 36.71 1.98
747 750 6.558488 AACTTCTGATGAGCTATCTTCCTT 57.442 37.500 0.00 0.00 36.71 3.36
789 792 8.758715 CATGATTGTTTTGAAGGAGAAGAAAAC 58.241 33.333 0.00 0.00 38.31 2.43
820 823 5.835113 AACAGAAGCAACAAACTACACAT 57.165 34.783 0.00 0.00 0.00 3.21
830 833 6.294508 GCAACAAACTACACATAAATGGTCCT 60.295 38.462 0.00 0.00 0.00 3.85
863 866 4.277423 CCGGAACCTTGAAAGTTAACACAT 59.723 41.667 8.61 0.00 0.00 3.21
911 915 0.686441 GGGGGATGGGGCTTTGTAAC 60.686 60.000 0.00 0.00 0.00 2.50
912 916 0.335019 GGGGATGGGGCTTTGTAACT 59.665 55.000 0.00 0.00 0.00 2.24
1000 1004 0.466007 TGCTGAAGCTTTGGCACTGA 60.466 50.000 18.82 2.00 42.66 3.41
1034 1038 5.716228 TCAACATAGCAAGTCAAATGGGATT 59.284 36.000 0.00 0.00 0.00 3.01
1062 1066 4.574599 AGTGCTGTTTGAAACTGATTCC 57.425 40.909 17.42 2.08 37.22 3.01
1083 1087 1.872237 GCACAACTGAAGACTGCGGTA 60.872 52.381 0.00 0.00 0.00 4.02
1114 1118 6.826231 TGAAGAATATGATTTGGCGGTTCTAA 59.174 34.615 0.00 0.00 0.00 2.10
1117 1121 7.227156 AGAATATGATTTGGCGGTTCTAAGAT 58.773 34.615 0.00 0.00 0.00 2.40
1159 1163 4.868450 TTTCAGTTGTGTGTAGGTTTCG 57.132 40.909 0.00 0.00 0.00 3.46
1211 1215 5.163754 GGACTTGTAATTCTGTAGCGCATTT 60.164 40.000 11.47 0.00 0.00 2.32
1212 1216 5.869350 ACTTGTAATTCTGTAGCGCATTTC 58.131 37.500 11.47 0.00 0.00 2.17
1234 1238 1.871080 AGCTACGCATGGTGCTAATC 58.129 50.000 0.00 0.00 42.25 1.75
1282 1286 3.263369 TGGGACAGGTACCAGACTTAA 57.737 47.619 15.94 0.00 39.06 1.85
1294 1298 9.263446 AGGTACCAGACTTAATACTGAATGTTA 57.737 33.333 15.94 0.00 36.38 2.41
1303 1307 7.339212 ACTTAATACTGAATGTTATTGCTGGCA 59.661 33.333 0.00 0.00 0.00 4.92
1379 1383 0.596577 GAAAAGGCTCGTTGTTCCCC 59.403 55.000 0.00 0.00 0.00 4.81
1380 1384 0.106419 AAAAGGCTCGTTGTTCCCCA 60.106 50.000 0.00 0.00 0.00 4.96
1382 1386 1.705997 AAGGCTCGTTGTTCCCCACT 61.706 55.000 0.00 0.00 0.00 4.00
1383 1387 0.834687 AGGCTCGTTGTTCCCCACTA 60.835 55.000 0.00 0.00 0.00 2.74
1431 1436 2.573869 CTCGTGGTGCCGTGATCT 59.426 61.111 0.00 0.00 0.00 2.75
1455 1460 2.173669 CCTCGCGCCAAATCATCGT 61.174 57.895 0.00 0.00 0.00 3.73
1458 1463 2.798501 CGCGCCAAATCATCGTCGT 61.799 57.895 0.00 0.00 0.00 4.34
1466 1471 3.561310 CCAAATCATCGTCGTGATTGGAT 59.439 43.478 18.60 6.83 45.49 3.41
1473 1478 1.270305 CGTCGTGATTGGATGGCCTAT 60.270 52.381 3.32 0.00 34.31 2.57
1481 1486 1.427809 TGGATGGCCTATGACCTCAG 58.572 55.000 3.32 0.00 34.31 3.35
1489 1494 3.853355 CCTATGACCTCAGGCTCATTT 57.147 47.619 12.38 0.00 30.50 2.32
1526 1531 2.843545 GGACCTTGTGCCCCTTCA 59.156 61.111 0.00 0.00 0.00 3.02
1530 1535 1.151450 CCTTGTGCCCCTTCACTGT 59.849 57.895 0.00 0.00 37.81 3.55
1536 1541 2.672996 CCCCTTCACTGTTGCCGG 60.673 66.667 0.00 0.00 0.00 6.13
1545 1550 1.541147 CACTGTTGCCGGTTCATTGAT 59.459 47.619 1.90 0.00 0.00 2.57
1549 1554 1.401905 GTTGCCGGTTCATTGATCTCC 59.598 52.381 1.90 0.00 0.00 3.71
1562 1567 3.037851 TGATCTCCTGTGTATCTGCCT 57.962 47.619 0.00 0.00 0.00 4.75
1565 1570 0.538584 CTCCTGTGTATCTGCCTGCA 59.461 55.000 0.00 0.00 0.00 4.41
1566 1571 1.140452 CTCCTGTGTATCTGCCTGCAT 59.860 52.381 0.00 0.00 0.00 3.96
1570 1575 1.340308 TGTGTATCTGCCTGCATTGCT 60.340 47.619 10.49 0.00 0.00 3.91
1573 1578 2.228059 GTATCTGCCTGCATTGCTGAT 58.772 47.619 24.16 24.16 45.55 2.90
1580 1585 1.944709 CCTGCATTGCTGATGATTCGA 59.055 47.619 16.19 0.00 38.03 3.71
1628 1645 1.344438 GTCGCCATCATCATCCCAGTA 59.656 52.381 0.00 0.00 0.00 2.74
1643 1660 0.319040 CAGTATGCGTCTCCATCCCG 60.319 60.000 0.00 0.00 0.00 5.14
1650 1667 0.812811 CGTCTCCATCCCGTCGACTA 60.813 60.000 14.70 0.00 0.00 2.59
1696 1717 4.817517 CCGAAGGTAAGAACAAGCTTCTA 58.182 43.478 0.00 0.00 45.10 2.10
1766 1788 9.072294 GTATGAATAGTTACGCTTGCAATTTTT 57.928 29.630 0.00 0.00 0.00 1.94
1771 1793 4.502645 AGTTACGCTTGCAATTTTTGTGTC 59.497 37.500 0.00 0.00 0.00 3.67
1818 1849 4.761235 AGAATGCATCTGACAACAACAG 57.239 40.909 0.00 0.00 36.88 3.16
1849 1880 8.421249 AAACTTGAATCTATGGACCAATTTGA 57.579 30.769 0.00 0.00 0.00 2.69
1863 1894 9.527157 TGGACCAATTTGAACTGATTTATCTTA 57.473 29.630 0.00 0.00 0.00 2.10
1906 1937 1.009903 CACATTGCCACACATTGCCG 61.010 55.000 0.00 0.00 33.77 5.69
1912 1943 1.507630 CCACACATTGCCGGTCATG 59.492 57.895 1.90 8.44 0.00 3.07
1994 2031 6.183361 GGAACTCCTACCTTACTAGCTACCTA 60.183 46.154 0.00 0.00 0.00 3.08
2078 2134 2.173519 ACCAAAATGGGTCAGCATCTG 58.826 47.619 0.87 0.00 43.37 2.90
2087 2143 2.344950 GGTCAGCATCTGTGTCTTCAG 58.655 52.381 0.00 0.00 36.85 3.02
2131 2194 5.941733 TCAATGAAACATTCCATGAACTCG 58.058 37.500 0.00 0.00 0.00 4.18
2185 2256 1.621992 TGGCCCGTTTTGCTGATTTA 58.378 45.000 0.00 0.00 0.00 1.40
2189 2260 3.370672 GGCCCGTTTTGCTGATTTATTTG 59.629 43.478 0.00 0.00 0.00 2.32
2215 2286 6.491403 AGACAACCTTCTTTACCGAACTAGTA 59.509 38.462 0.00 0.00 0.00 1.82
2219 2290 7.944729 ACCTTCTTTACCGAACTAGTATGTA 57.055 36.000 0.00 0.00 0.00 2.29
2221 2292 8.246871 ACCTTCTTTACCGAACTAGTATGTAAC 58.753 37.037 0.00 0.00 0.00 2.50
2245 2316 8.641498 ACATTATGTTCTCATTTTCTTCCTGT 57.359 30.769 0.00 0.00 35.70 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.832900 TGACCAGATGTTGATATTATTGCCAA 59.167 34.615 0.00 0.00 0.00 4.52
1 2 6.363882 TGACCAGATGTTGATATTATTGCCA 58.636 36.000 0.00 0.00 0.00 4.92
2 3 6.712095 TCTGACCAGATGTTGATATTATTGCC 59.288 38.462 0.00 0.00 31.41 4.52
102 103 4.574674 TTGTAGCAGGATCAATCAGGTT 57.425 40.909 0.00 0.00 0.00 3.50
128 129 5.164620 TGCTTCACTATGTCTTCATCCAA 57.835 39.130 0.00 0.00 35.70 3.53
140 142 7.168219 TCTGGTAGAAACATTTGCTTCACTAT 58.832 34.615 0.00 0.00 0.00 2.12
195 197 9.941325 ATATGAAATCTTAGGTATGCTCTTCAG 57.059 33.333 0.00 0.00 0.00 3.02
197 199 9.935241 TGATATGAAATCTTAGGTATGCTCTTC 57.065 33.333 0.00 0.00 0.00 2.87
204 206 9.986157 AATGCCATGATATGAAATCTTAGGTAT 57.014 29.630 0.00 0.00 0.00 2.73
208 210 9.154847 TCGTAATGCCATGATATGAAATCTTAG 57.845 33.333 0.00 0.00 0.00 2.18
209 211 8.935844 GTCGTAATGCCATGATATGAAATCTTA 58.064 33.333 0.00 0.00 0.00 2.10
242 244 9.866655 ATAGGCAGATTTTATGGAGAAAATACA 57.133 29.630 0.00 0.00 38.76 2.29
293 295 7.712639 GGAAGTTAGTCATGCAAGAGATTCATA 59.287 37.037 0.00 0.00 0.00 2.15
308 311 2.557056 CACGTGAGGAGGAAGTTAGTCA 59.443 50.000 10.90 0.00 0.00 3.41
326 329 0.388520 TCCACGTCTTCATCTGCACG 60.389 55.000 0.00 0.00 38.24 5.34
448 451 5.330233 TCCACTTTCATACCTCTGTAGTGA 58.670 41.667 0.00 0.00 34.65 3.41
451 454 7.504238 AGAGTATCCACTTTCATACCTCTGTAG 59.496 40.741 0.00 0.00 34.21 2.74
598 601 6.982160 TCCATAAAGCTTATGGCATCATTT 57.018 33.333 21.08 3.96 43.12 2.32
768 771 7.461182 TCTGTTTTCTTCTCCTTCAAAACAA 57.539 32.000 9.41 0.88 44.18 2.83
789 792 4.637483 TGTTGCTTCTGTTTTCCTTCTG 57.363 40.909 0.00 0.00 0.00 3.02
863 866 4.068599 TGAGTCATTTTGAACGCACCATA 58.931 39.130 0.00 0.00 0.00 2.74
879 883 2.509548 CCATCCCCCAGTATTTGAGTCA 59.490 50.000 0.00 0.00 0.00 3.41
911 915 7.925483 CCTTAACTTCTCCATGTTCATCTCTAG 59.075 40.741 0.00 0.00 0.00 2.43
912 916 7.633772 GCCTTAACTTCTCCATGTTCATCTCTA 60.634 40.741 0.00 0.00 0.00 2.43
949 953 0.692419 ATGACCCTCTCCGGATTGCT 60.692 55.000 3.57 0.00 33.16 3.91
956 960 1.070445 GCATCCATGACCCTCTCCG 59.930 63.158 0.00 0.00 0.00 4.63
1000 1004 2.312390 TGCTATGTTGATGGCATGCAT 58.688 42.857 21.36 11.12 40.85 3.96
1016 1020 4.016444 GTGGAATCCCATTTGACTTGCTA 58.984 43.478 0.00 0.00 45.68 3.49
1034 1038 3.509575 AGTTTCAAACAGCACTTTGTGGA 59.490 39.130 2.41 0.00 33.54 4.02
1045 1049 3.243035 TGTGCGGAATCAGTTTCAAACAG 60.243 43.478 2.41 0.00 35.94 3.16
1083 1087 6.324819 CGCCAAATCATATTCTTCAGTTGTT 58.675 36.000 0.00 0.00 0.00 2.83
1159 1163 4.093408 ACACGAAATGACACATACATCAGC 59.907 41.667 0.00 0.00 0.00 4.26
1234 1238 2.768527 TCTCATAGGTTCCAGCTTCCAG 59.231 50.000 0.00 0.00 0.00 3.86
1281 1285 6.528537 TTGCCAGCAATAACATTCAGTATT 57.471 33.333 0.00 0.00 0.00 1.89
1282 1286 6.720112 ATTGCCAGCAATAACATTCAGTAT 57.280 33.333 15.97 0.00 43.92 2.12
1313 1317 7.284489 ACATTGTATTCCATTATAAAGTGCCGT 59.716 33.333 0.00 0.00 0.00 5.68
1356 1360 3.565516 GGAACAACGAGCCTTTTCATTC 58.434 45.455 0.00 0.00 0.00 2.67
1358 1362 1.886542 GGGAACAACGAGCCTTTTCAT 59.113 47.619 0.00 0.00 0.00 2.57
1359 1363 1.314730 GGGAACAACGAGCCTTTTCA 58.685 50.000 0.00 0.00 0.00 2.69
1366 1370 0.606604 TCTAGTGGGGAACAACGAGC 59.393 55.000 0.00 0.00 0.00 5.03
1379 1383 2.490217 CGGTGGCGGAGTCTAGTG 59.510 66.667 0.00 0.00 0.00 2.74
1380 1384 3.450115 GCGGTGGCGGAGTCTAGT 61.450 66.667 0.00 0.00 0.00 2.57
1382 1386 3.449227 CAGCGGTGGCGGAGTCTA 61.449 66.667 6.74 0.00 46.35 2.59
1420 1425 3.188786 GTCGGCAGATCACGGCAC 61.189 66.667 9.00 3.58 38.87 5.01
1455 1460 2.046292 TCATAGGCCATCCAATCACGA 58.954 47.619 5.01 0.00 33.74 4.35
1458 1463 2.373169 GAGGTCATAGGCCATCCAATCA 59.627 50.000 5.01 0.00 33.74 2.57
1481 1486 2.253414 GAACCGGCGACAAATGAGCC 62.253 60.000 9.30 12.30 46.88 4.70
1517 1522 2.203480 GGCAACAGTGAAGGGGCA 60.203 61.111 0.00 0.00 0.00 5.36
1526 1531 1.812571 GATCAATGAACCGGCAACAGT 59.187 47.619 0.00 0.00 0.00 3.55
1530 1535 1.281867 AGGAGATCAATGAACCGGCAA 59.718 47.619 0.00 0.00 0.00 4.52
1536 1541 5.236047 GCAGATACACAGGAGATCAATGAAC 59.764 44.000 0.00 0.00 0.00 3.18
1545 1550 0.826715 GCAGGCAGATACACAGGAGA 59.173 55.000 0.00 0.00 0.00 3.71
1549 1554 1.065102 GCAATGCAGGCAGATACACAG 59.935 52.381 0.00 0.00 0.00 3.66
1562 1567 1.944709 CCTCGAATCATCAGCAATGCA 59.055 47.619 8.35 0.00 35.17 3.96
1565 1570 2.437281 AGGTCCTCGAATCATCAGCAAT 59.563 45.455 0.00 0.00 0.00 3.56
1566 1571 1.833630 AGGTCCTCGAATCATCAGCAA 59.166 47.619 0.00 0.00 0.00 3.91
1570 1575 1.757118 GGTGAGGTCCTCGAATCATCA 59.243 52.381 14.34 0.00 32.35 3.07
1573 1578 1.320344 CGGGTGAGGTCCTCGAATCA 61.320 60.000 14.34 0.00 32.35 2.57
1580 1585 4.640690 AGGTGCGGGTGAGGTCCT 62.641 66.667 0.00 0.00 0.00 3.85
1628 1645 2.815308 GACGGGATGGAGACGCAT 59.185 61.111 0.00 0.00 0.00 4.73
1643 1660 3.432592 GGAGCAAGGAAGTTTTAGTCGAC 59.567 47.826 7.70 7.70 0.00 4.20
1650 1667 2.893489 GGTGATGGAGCAAGGAAGTTTT 59.107 45.455 0.00 0.00 0.00 2.43
1766 1788 3.088532 AGCAACAAAGAAACTGGACACA 58.911 40.909 0.00 0.00 0.00 3.72
1771 1793 4.637483 TCAGAAGCAACAAAGAAACTGG 57.363 40.909 0.00 0.00 0.00 4.00
1847 1878 9.904198 TCACCAATCATAAGATAAATCAGTTCA 57.096 29.630 0.00 0.00 33.08 3.18
1906 1937 1.073923 ACTTGGTGGGACTTCATGACC 59.926 52.381 0.00 0.00 0.00 4.02
1912 1943 0.534203 TTGCGACTTGGTGGGACTTC 60.534 55.000 0.00 0.00 0.00 3.01
2055 2097 1.786937 TGCTGACCCATTTTGGTTGT 58.213 45.000 0.00 0.00 39.24 3.32
2078 2134 4.319177 ACAACTCCTATTGCTGAAGACAC 58.681 43.478 0.00 0.00 32.47 3.67
2087 2143 6.925610 TGATATGTTGACAACTCCTATTGC 57.074 37.500 18.73 4.64 32.47 3.56
2131 2194 6.250104 CGAATGAAGCAAGCTCTGAAAAATAC 59.750 38.462 0.00 0.00 0.00 1.89
2185 2256 5.617252 TCGGTAAAGAAGGTTGTCTCAAAT 58.383 37.500 0.00 0.00 0.00 2.32
2189 2260 4.629092 AGTTCGGTAAAGAAGGTTGTCTC 58.371 43.478 0.00 0.00 0.00 3.36
2219 2290 9.082313 ACAGGAAGAAAATGAGAACATAATGTT 57.918 29.630 0.00 0.00 44.37 2.71
2221 2292 9.350357 CAACAGGAAGAAAATGAGAACATAATG 57.650 33.333 0.00 0.00 35.50 1.90
2233 2304 3.512724 CCATCAGCCAACAGGAAGAAAAT 59.487 43.478 0.00 0.00 0.00 1.82
2245 2316 5.327732 AGAGAAGATTTTTCCATCAGCCAA 58.672 37.500 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.