Multiple sequence alignment - TraesCS7A01G408500

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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 TraesCS7A01G408500 chr7A 100.000 5190 0 0 1 5190 594463279 594458090 0.000000e+00 9585
1 TraesCS7A01G408500 chr7A 82.609 713 88 15 2595 3301 593680713 593680031 9.620000e-167 597
2 TraesCS7A01G408500 chr7A 88.675 468 51 2 1856 2322 593681349 593680883 2.100000e-158 569
3 TraesCS7A01G408500 chr7A 84.615 169 23 2 1281 1448 593694072 593693906 1.160000e-36 165
4 TraesCS7A01G408500 chr7D 93.661 3707 143 23 753 4442 518783396 518779765 0.000000e+00 5459
5 TraesCS7A01G408500 chr7D 87.419 461 53 3 1856 2312 518664226 518663767 4.600000e-145 525
6 TraesCS7A01G408500 chr7D 88.520 392 32 8 2595 2982 518663587 518663205 3.660000e-126 462
7 TraesCS7A01G408500 chr7D 95.694 209 6 1 405 613 518783619 518783414 3.000000e-87 333
8 TraesCS7A01G408500 chr7D 97.740 177 4 0 73 249 518783795 518783619 6.530000e-79 305
9 TraesCS7A01G408500 chr7D 80.802 349 48 9 1280 1612 518682505 518682160 6.670000e-64 255
10 TraesCS7A01G408500 chr7B 95.157 3159 119 21 1302 4439 552118658 552115513 0.000000e+00 4955
11 TraesCS7A01G408500 chr7B 94.848 660 14 5 1 659 552120447 552119807 0.000000e+00 1013
12 TraesCS7A01G408500 chr7B 100.000 500 0 0 4436 4935 600533659 600534158 0.000000e+00 924
13 TraesCS7A01G408500 chr7B 94.872 507 19 3 642 1145 552119687 552119185 0.000000e+00 785
14 TraesCS7A01G408500 chr7B 86.376 712 79 11 2595 3298 552010838 552010137 0.000000e+00 761
15 TraesCS7A01G408500 chr7B 86.495 622 73 7 1705 2322 552011624 552011010 0.000000e+00 673
16 TraesCS7A01G408500 chr7B 76.431 297 43 11 3823 4094 552009837 552009543 9.070000e-28 135
17 TraesCS7A01G408500 chr7B 97.436 78 2 0 1226 1303 552118859 552118782 3.260000e-27 134
18 TraesCS7A01G408500 chr3B 99.603 755 3 0 4436 5190 217970229 217969475 0.000000e+00 1378
19 TraesCS7A01G408500 chr3B 98.952 763 7 1 4428 5190 217963035 217963796 0.000000e+00 1363
20 TraesCS7A01G408500 chr3B 99.073 755 6 1 4436 5190 220782298 220781545 0.000000e+00 1354
21 TraesCS7A01G408500 chr3B 97.219 755 3 2 4436 5190 565440195 565440931 0.000000e+00 1262
22 TraesCS7A01G408500 chr1B 99.338 755 5 0 4436 5190 70690700 70691454 0.000000e+00 1367
23 TraesCS7A01G408500 chr6A 98.808 755 5 2 4436 5190 539542408 539541658 0.000000e+00 1341
24 TraesCS7A01G408500 chr6A 98.556 762 4 2 4436 5190 81876337 81877098 0.000000e+00 1339
25 TraesCS7A01G408500 chr6A 97.222 756 5 2 4436 5190 68988013 68987273 0.000000e+00 1266
26 TraesCS7A01G408500 chr1A 97.884 756 1 1 4435 5190 394601099 394600359 0.000000e+00 1293
27 TraesCS7A01G408500 chr4B 100.000 589 0 0 4436 5024 564143241 564142653 0.000000e+00 1088
28 TraesCS7A01G408500 chrUn 100.000 552 0 0 4473 5024 400616363 400615812 0.000000e+00 1020


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 TraesCS7A01G408500 chr7A 594458090 594463279 5189 True 9585.000000 9585 100.000000 1 5190 1 chr7A.!!$R2 5189
1 TraesCS7A01G408500 chr7A 593680031 593681349 1318 True 583.000000 597 85.642000 1856 3301 2 chr7A.!!$R3 1445
2 TraesCS7A01G408500 chr7D 518779765 518783795 4030 True 2032.333333 5459 95.698333 73 4442 3 chr7D.!!$R3 4369
3 TraesCS7A01G408500 chr7D 518663205 518664226 1021 True 493.500000 525 87.969500 1856 2982 2 chr7D.!!$R2 1126
4 TraesCS7A01G408500 chr7B 552115513 552120447 4934 True 1721.750000 4955 95.578250 1 4439 4 chr7B.!!$R2 4438
5 TraesCS7A01G408500 chr7B 552009543 552011624 2081 True 523.000000 761 83.100667 1705 4094 3 chr7B.!!$R1 2389
6 TraesCS7A01G408500 chr3B 217969475 217970229 754 True 1378.000000 1378 99.603000 4436 5190 1 chr3B.!!$R1 754
7 TraesCS7A01G408500 chr3B 217963035 217963796 761 False 1363.000000 1363 98.952000 4428 5190 1 chr3B.!!$F1 762
8 TraesCS7A01G408500 chr3B 220781545 220782298 753 True 1354.000000 1354 99.073000 4436 5190 1 chr3B.!!$R2 754
9 TraesCS7A01G408500 chr3B 565440195 565440931 736 False 1262.000000 1262 97.219000 4436 5190 1 chr3B.!!$F2 754
10 TraesCS7A01G408500 chr1B 70690700 70691454 754 False 1367.000000 1367 99.338000 4436 5190 1 chr1B.!!$F1 754
11 TraesCS7A01G408500 chr6A 539541658 539542408 750 True 1341.000000 1341 98.808000 4436 5190 1 chr6A.!!$R2 754
12 TraesCS7A01G408500 chr6A 81876337 81877098 761 False 1339.000000 1339 98.556000 4436 5190 1 chr6A.!!$F1 754
13 TraesCS7A01G408500 chr6A 68987273 68988013 740 True 1266.000000 1266 97.222000 4436 5190 1 chr6A.!!$R1 754
14 TraesCS7A01G408500 chr1A 394600359 394601099 740 True 1293.000000 1293 97.884000 4435 5190 1 chr1A.!!$R1 755
15 TraesCS7A01G408500 chr4B 564142653 564143241 588 True 1088.000000 1088 100.000000 4436 5024 1 chr4B.!!$R1 588
16 TraesCS7A01G408500 chrUn 400615812 400616363 551 True 1020.000000 1020 100.000000 4473 5024 1 chrUn.!!$R1 551

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
296 298 1.111116 GTGGGCATGGTGGGATGATG 61.111 60.0 0.0 0.0 0.0 3.07 F
631 633 2.610232 GGTTTGATGTGGTGTGGCATTC 60.610 50.0 0.0 0.0 0.0 2.67 F
1422 1934 0.720027 CTCTGATGCAAGCACTGTCG 59.280 55.0 0.0 0.0 0.0 4.35 F
3012 3582 0.179032 TCCGCCTTCACTCTTTTGCA 60.179 50.0 0.0 0.0 0.0 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1167 1309 0.328258 ATCAAACGAACAGGGGGAGG 59.672 55.000 0.00 0.0 0.0 4.30 R
1891 2418 0.549169 CCCCTTTCACCCCCAGTCTA 60.549 60.000 0.00 0.0 0.0 2.59 R
3214 3784 3.214328 ACTGCAGATTTTCCAAAGACGT 58.786 40.909 23.35 0.0 0.0 4.34 R
4261 4860 1.013596 CTCCAACTGCAACACGAACA 58.986 50.000 0.00 0.0 0.0 3.18 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
118 120 7.893658 ACATGATTCAAGCATCTTCTTTTCTT 58.106 30.769 0.00 0.00 0.00 2.52
260 262 6.516718 CATGTATCGGTCATTTCTCTTAGGT 58.483 40.000 0.00 0.00 0.00 3.08
275 277 7.700022 TCTCTTAGGTTAGTACTTCTTGGTC 57.300 40.000 0.00 0.00 0.00 4.02
276 278 7.236529 TCTCTTAGGTTAGTACTTCTTGGTCA 58.763 38.462 0.00 0.00 0.00 4.02
277 279 7.393796 TCTCTTAGGTTAGTACTTCTTGGTCAG 59.606 40.741 0.00 0.00 0.00 3.51
296 298 1.111116 GTGGGCATGGTGGGATGATG 61.111 60.000 0.00 0.00 0.00 3.07
484 486 5.821097 AGAAGATGGAAACCCTAAGGAAAG 58.179 41.667 0.00 0.00 36.73 2.62
613 615 3.511146 CAGGGAAGTATTTGTGCATGGTT 59.489 43.478 0.00 0.00 0.00 3.67
614 616 4.021192 CAGGGAAGTATTTGTGCATGGTTT 60.021 41.667 0.00 0.00 0.00 3.27
615 617 4.021192 AGGGAAGTATTTGTGCATGGTTTG 60.021 41.667 0.00 0.00 0.00 2.93
631 633 2.610232 GGTTTGATGTGGTGTGGCATTC 60.610 50.000 0.00 0.00 0.00 2.67
777 919 4.968719 GAGGTTCCATTTTCCCCCAATATT 59.031 41.667 0.00 0.00 0.00 1.28
815 957 3.898123 ACTGCTCAGTGGAGAAAGACTTA 59.102 43.478 1.15 0.00 44.26 2.24
912 1054 3.987868 ACTAGTGTGAACTGTACGCAATG 59.012 43.478 0.00 0.00 0.00 2.82
914 1056 2.800544 AGTGTGAACTGTACGCAATGAC 59.199 45.455 0.00 0.00 0.00 3.06
1125 1267 2.813754 CAAATCAGGGAAGAGTTTCGCA 59.186 45.455 7.03 0.00 45.77 5.10
1141 1283 2.629051 TCGCAAGTCTCGTATCTCAGA 58.371 47.619 0.00 0.00 39.48 3.27
1199 1341 5.968848 TGTTCGTTTGATTTGCTAGTTGTTC 59.031 36.000 0.00 0.00 0.00 3.18
1215 1357 8.175716 GCTAGTTGTTCGCTATTTCTGTAATTT 58.824 33.333 0.00 0.00 0.00 1.82
1217 1359 8.728088 AGTTGTTCGCTATTTCTGTAATTTTG 57.272 30.769 0.00 0.00 0.00 2.44
1218 1360 7.807907 AGTTGTTCGCTATTTCTGTAATTTTGG 59.192 33.333 0.00 0.00 0.00 3.28
1219 1361 7.209471 TGTTCGCTATTTCTGTAATTTTGGT 57.791 32.000 0.00 0.00 0.00 3.67
1220 1362 7.653647 TGTTCGCTATTTCTGTAATTTTGGTT 58.346 30.769 0.00 0.00 0.00 3.67
1221 1363 8.138712 TGTTCGCTATTTCTGTAATTTTGGTTT 58.861 29.630 0.00 0.00 0.00 3.27
1222 1364 8.635983 GTTCGCTATTTCTGTAATTTTGGTTTC 58.364 33.333 0.00 0.00 0.00 2.78
1223 1365 8.106247 TCGCTATTTCTGTAATTTTGGTTTCT 57.894 30.769 0.00 0.00 0.00 2.52
1224 1366 9.221933 TCGCTATTTCTGTAATTTTGGTTTCTA 57.778 29.630 0.00 0.00 0.00 2.10
1235 1622 7.759489 AATTTTGGTTTCTACATGCTACTGA 57.241 32.000 0.00 0.00 0.00 3.41
1333 1845 4.581409 ACGCTATTTTGGGTGTTACTGTTT 59.419 37.500 0.00 0.00 0.00 2.83
1374 1886 9.014297 ACGAGATGTATCACATATCTCATTACA 57.986 33.333 11.02 0.00 46.83 2.41
1422 1934 0.720027 CTCTGATGCAAGCACTGTCG 59.280 55.000 0.00 0.00 0.00 4.35
1489 2001 9.597170 CTGTCAGATTAGAGAGAATGATTTTCA 57.403 33.333 0.00 0.00 30.97 2.69
1518 2030 4.865365 GCTGTTAGCGAGGTATATTCCATC 59.135 45.833 0.78 0.00 0.00 3.51
1526 2038 6.071840 AGCGAGGTATATTCCATCTCTGTAAC 60.072 42.308 0.78 0.00 0.00 2.50
1563 2075 7.658179 TTTTACGGATCTTGATATGCTGATC 57.342 36.000 0.00 0.00 35.78 2.92
1652 2164 5.250082 AGCTTATCATATGATCTGGGCTTCA 59.750 40.000 21.42 0.00 36.05 3.02
1679 2191 5.725362 CTTATCCAGGGAAATCTCGGATAC 58.275 45.833 11.10 0.00 38.21 2.24
1691 2204 9.186837 GGAAATCTCGGATACCAATAGAGTATA 57.813 37.037 0.00 0.00 30.57 1.47
1785 2309 1.132977 TCCTGAGGGACACCACACTTA 60.133 52.381 0.00 0.00 40.13 2.24
1880 2407 3.375642 CAGACTATCAACGACGATGCAT 58.624 45.455 0.00 0.00 0.00 3.96
1911 2438 3.585525 GACTGGGGGTGAAAGGGGC 62.586 68.421 0.00 0.00 0.00 5.80
2101 2628 5.474578 ACAGCTCATTCTTCAGTCAACTA 57.525 39.130 0.00 0.00 0.00 2.24
2331 2861 8.031864 AGCTGTATACGAGATTGGATCATTTAG 58.968 37.037 0.00 0.00 0.00 1.85
2334 2864 8.523658 TGTATACGAGATTGGATCATTTAGAGG 58.476 37.037 0.00 0.00 0.00 3.69
2506 3036 6.371548 CGAGGAATTTTTAGTGATCCACAGAA 59.628 38.462 0.00 0.00 36.74 3.02
2620 3173 3.689161 TGTCATTAGGTCCTTCAAATGCG 59.311 43.478 0.00 0.00 30.99 4.73
2624 3177 5.941058 TCATTAGGTCCTTCAAATGCGTTTA 59.059 36.000 3.00 0.00 30.99 2.01
3012 3582 0.179032 TCCGCCTTCACTCTTTTGCA 60.179 50.000 0.00 0.00 0.00 4.08
3058 3628 3.739810 CGGTGATGCTATCAGACTTCATG 59.260 47.826 0.00 0.00 40.53 3.07
3118 3688 7.504926 TGGGAAGCTTTTTACTTAGATCCTA 57.495 36.000 0.00 0.00 0.00 2.94
3214 3784 2.036571 CAGCTCAGCCGTGAATGCA 61.037 57.895 0.00 0.00 30.14 3.96
3561 4134 9.906660 TTATTTTGTTTGACATATGTGAAGGTC 57.093 29.630 14.43 6.56 0.00 3.85
3589 4162 3.181471 CGATAGAATGACTCCAAGGTGCT 60.181 47.826 0.00 0.00 39.76 4.40
3753 4327 7.857885 CAGTGTTTGTCCTTGTCTATTTTCTTC 59.142 37.037 0.00 0.00 0.00 2.87
4146 4745 2.215196 GTGCGACTTGTGGGAAACTTA 58.785 47.619 0.00 0.00 0.00 2.24
4223 4822 3.583086 TCCTTTTGTTTTTGTGTTGGGGA 59.417 39.130 0.00 0.00 0.00 4.81
4282 4882 0.179234 TTCGTGTTGCAGTTGGAGGA 59.821 50.000 0.00 0.00 0.00 3.71
4283 4883 0.179234 TCGTGTTGCAGTTGGAGGAA 59.821 50.000 0.00 0.00 0.00 3.36
4284 4884 1.202758 TCGTGTTGCAGTTGGAGGAAT 60.203 47.619 0.00 0.00 0.00 3.01
4285 4885 1.069022 CGTGTTGCAGTTGGAGGAATG 60.069 52.381 0.00 0.00 0.00 2.67
4286 4886 1.956477 GTGTTGCAGTTGGAGGAATGT 59.044 47.619 0.00 0.00 0.00 2.71
4287 4887 1.955778 TGTTGCAGTTGGAGGAATGTG 59.044 47.619 0.00 0.00 0.00 3.21
4288 4888 2.229792 GTTGCAGTTGGAGGAATGTGA 58.770 47.619 0.00 0.00 0.00 3.58
4289 4889 2.189594 TGCAGTTGGAGGAATGTGAG 57.810 50.000 0.00 0.00 0.00 3.51
4290 4890 1.271543 TGCAGTTGGAGGAATGTGAGG 60.272 52.381 0.00 0.00 0.00 3.86
4355 4963 2.230660 GCTTTCCTACAGTTGCCAACT 58.769 47.619 3.74 3.74 44.06 3.16
4371 4979 0.254178 AACTGCCATGATCGCCTCTT 59.746 50.000 0.00 0.00 0.00 2.85
5054 5671 6.062095 TCATCATCATCCTCAACGTAGTCTA 58.938 40.000 0.00 0.00 45.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
118 120 9.070179 CATGATTATCTCCATGGACAATTGTTA 57.930 33.333 11.44 5.75 37.19 2.41
260 262 3.007614 GCCCACTGACCAAGAAGTACTAA 59.992 47.826 0.00 0.00 0.00 2.24
275 277 1.755395 CATCCCACCATGCCCACTG 60.755 63.158 0.00 0.00 0.00 3.66
276 278 1.291459 ATCATCCCACCATGCCCACT 61.291 55.000 0.00 0.00 0.00 4.00
277 279 1.111116 CATCATCCCACCATGCCCAC 61.111 60.000 0.00 0.00 0.00 4.61
296 298 8.519799 TTCAAATTCACCTCCCTATATTTGTC 57.480 34.615 0.00 0.00 35.54 3.18
464 466 3.923425 ACCTTTCCTTAGGGTTTCCATCT 59.077 43.478 0.00 0.00 39.76 2.90
465 467 4.018324 AGACCTTTCCTTAGGGTTTCCATC 60.018 45.833 0.00 0.00 39.76 3.51
466 468 3.923425 AGACCTTTCCTTAGGGTTTCCAT 59.077 43.478 0.00 0.00 39.76 3.41
484 486 4.017177 AGTTAAGGCACCAAAGTAGACC 57.983 45.455 0.00 0.00 0.00 3.85
613 615 1.992538 TGAATGCCACACCACATCAA 58.007 45.000 0.00 0.00 0.00 2.57
614 616 1.819903 CATGAATGCCACACCACATCA 59.180 47.619 0.00 0.00 0.00 3.07
615 617 1.820519 ACATGAATGCCACACCACATC 59.179 47.619 0.00 0.00 0.00 3.06
699 838 3.815401 CTGTTTGTTCCTGGTGTTCCTAG 59.185 47.826 0.00 0.00 34.23 3.02
777 919 4.966168 TGAGCAGTAGACCCCACATATTAA 59.034 41.667 0.00 0.00 0.00 1.40
815 957 2.517875 GGCGAGATGGCTGGCAAT 60.518 61.111 8.35 0.00 46.36 3.56
868 1010 7.085052 AGTTTGTCGCCTTTTCCTTATAATC 57.915 36.000 0.00 0.00 0.00 1.75
912 1054 3.896122 TCAGCGCAAAATTACAAAGGTC 58.104 40.909 11.47 0.00 0.00 3.85
914 1056 2.663119 GCTCAGCGCAAAATTACAAAGG 59.337 45.455 11.47 0.00 38.92 3.11
1039 1181 0.673644 GACCACCTCCATCACAACCG 60.674 60.000 0.00 0.00 0.00 4.44
1119 1261 3.439129 TCTGAGATACGAGACTTGCGAAA 59.561 43.478 0.00 0.00 0.00 3.46
1125 1267 5.004448 TCACAGTTCTGAGATACGAGACTT 58.996 41.667 6.83 0.00 0.00 3.01
1167 1309 0.328258 ATCAAACGAACAGGGGGAGG 59.672 55.000 0.00 0.00 0.00 4.30
1168 1310 2.200373 AATCAAACGAACAGGGGGAG 57.800 50.000 0.00 0.00 0.00 4.30
1169 1311 2.235016 CAAATCAAACGAACAGGGGGA 58.765 47.619 0.00 0.00 0.00 4.81
1170 1312 1.336795 GCAAATCAAACGAACAGGGGG 60.337 52.381 0.00 0.00 0.00 5.40
1171 1313 1.613437 AGCAAATCAAACGAACAGGGG 59.387 47.619 0.00 0.00 0.00 4.79
1172 1314 3.502211 ACTAGCAAATCAAACGAACAGGG 59.498 43.478 0.00 0.00 0.00 4.45
1174 1316 5.510671 ACAACTAGCAAATCAAACGAACAG 58.489 37.500 0.00 0.00 0.00 3.16
1176 1318 5.113529 CGAACAACTAGCAAATCAAACGAAC 59.886 40.000 0.00 0.00 0.00 3.95
1199 1341 9.274065 GTAGAAACCAAAATTACAGAAATAGCG 57.726 33.333 0.00 0.00 0.00 4.26
1223 1365 8.706547 ATGATCTATCACGCTCAGTAGCATGTA 61.707 40.741 0.00 0.00 42.49 2.29
1224 1366 7.966189 ATGATCTATCACGCTCAGTAGCATGT 61.966 42.308 0.00 0.00 42.49 3.21
1235 1622 7.416101 CCACATACATCTATGATCTATCACGCT 60.416 40.741 0.00 0.00 40.03 5.07
1237 1624 7.989826 TCCACATACATCTATGATCTATCACG 58.010 38.462 0.00 0.00 40.03 4.35
1312 1824 6.079424 TCAAACAGTAACACCCAAAATAGC 57.921 37.500 0.00 0.00 0.00 2.97
1333 1845 2.899976 TCTCGTGCACTTTCAAGTTCA 58.100 42.857 16.19 0.00 37.08 3.18
1422 1934 4.500116 GTCTCGGGCTCGTCTGGC 62.500 72.222 5.57 0.00 37.69 4.85
1489 2001 7.067251 GGAATATACCTCGCTAACAGCTACTAT 59.933 40.741 0.00 0.00 39.60 2.12
1526 2038 8.853345 CAAGATCCGTAAAAAGTCAATGAAATG 58.147 33.333 0.00 0.00 0.00 2.32
1563 2075 6.103997 TCCTGTTCTAAGCTTTAACATACCG 58.896 40.000 20.81 12.65 33.01 4.02
1652 2164 3.181461 CGAGATTTCCCTGGATAAGCTGT 60.181 47.826 0.00 0.00 0.00 4.40
1679 2191 8.596781 AGTTATGCCCTAGTATACTCTATTGG 57.403 38.462 9.12 5.32 0.00 3.16
1691 2204 3.022557 TCGTGGTAGTTATGCCCTAGT 57.977 47.619 0.00 0.00 0.00 2.57
1785 2309 5.936187 TGCCACAACCATCAATATCAATT 57.064 34.783 0.00 0.00 0.00 2.32
1880 2407 1.413082 CCCCAGTCTACTCCATGCCTA 60.413 57.143 0.00 0.00 0.00 3.93
1891 2418 0.549169 CCCCTTTCACCCCCAGTCTA 60.549 60.000 0.00 0.00 0.00 2.59
1911 2438 1.443407 CCAGGGAGGACTATGCACG 59.557 63.158 0.00 0.00 41.22 5.34
2101 2628 8.756486 TGATTCACAAGACATAATGGAATGAT 57.244 30.769 0.00 0.00 0.00 2.45
2331 2861 7.881751 TGATATGTCCTCAAAATGATCATCCTC 59.118 37.037 9.06 0.00 0.00 3.71
2334 2864 9.227777 TGATGATATGTCCTCAAAATGATCATC 57.772 33.333 9.06 12.44 27.84 2.92
2506 3036 3.944015 GCTCTGTACCTGAATGCTTTGAT 59.056 43.478 0.00 0.00 0.00 2.57
2541 3071 7.720957 TGCTTTTGTATTATCACCAGATAGCAT 59.279 33.333 0.00 0.00 37.97 3.79
2554 3084 6.183360 GGGCATACCTGTTGCTTTTGTATTAT 60.183 38.462 0.00 0.00 40.03 1.28
3012 3582 4.395959 CCAATACTTGGCTGCATCAATT 57.604 40.909 0.50 1.74 45.17 2.32
3180 3750 3.268330 GAGCTGATCAAAGACAGATGCA 58.732 45.455 0.00 0.00 36.38 3.96
3181 3751 3.268330 TGAGCTGATCAAAGACAGATGC 58.732 45.455 0.00 0.00 34.02 3.91
3214 3784 3.214328 ACTGCAGATTTTCCAAAGACGT 58.786 40.909 23.35 0.00 0.00 4.34
3216 3786 4.301628 CCAACTGCAGATTTTCCAAAGAC 58.698 43.478 23.35 0.00 0.00 3.01
3257 3827 6.998968 ATGAACTTGATGAAATCTCAGGAC 57.001 37.500 0.00 0.00 45.81 3.85
3589 4162 5.614308 ACTTGTCAGACTGATGAACATTGA 58.386 37.500 8.73 0.00 0.00 2.57
3753 4327 2.393271 AGGAATTCCTGTCTTCAGCG 57.607 50.000 26.52 0.00 46.55 5.18
4146 4745 7.195374 TCAACCTAGATAAATGGTAGCAAGT 57.805 36.000 0.00 0.00 33.17 3.16
4223 4822 9.177608 TGCAGTTCAGCTAACATAATAAATCTT 57.822 29.630 8.23 0.00 40.83 2.40
4261 4860 1.013596 CTCCAACTGCAACACGAACA 58.986 50.000 0.00 0.00 0.00 3.18
4282 4882 3.763897 GGCTTAACCACATTCCTCACATT 59.236 43.478 0.00 0.00 38.86 2.71
4283 4883 3.245229 TGGCTTAACCACATTCCTCACAT 60.245 43.478 0.00 0.00 46.36 3.21
4284 4884 2.107378 TGGCTTAACCACATTCCTCACA 59.893 45.455 0.00 0.00 46.36 3.58
4285 4885 2.790433 TGGCTTAACCACATTCCTCAC 58.210 47.619 0.00 0.00 46.36 3.51
4311 4911 1.974875 CCTGATGCACAGCCAGCAA 60.975 57.895 9.88 0.00 46.27 3.91
4355 4963 1.820906 GCAAGAGGCGATCATGGCA 60.821 57.895 0.00 0.00 36.77 4.92
4371 4979 1.885233 CGAGATCTGCTCTATGAGGCA 59.115 52.381 0.00 0.00 41.66 4.75
5054 5671 1.289244 AATGCGGAGGGGGAGGATTT 61.289 55.000 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.