Multiple sequence alignment - TraesCS4D01G009600

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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 TraesCS4D01G009600 chr4D 100.000 4400 0 0 1 4400 4487822 4492221 0.000000e+00 8126
1 TraesCS4D01G009600 chr4D 73.201 556 104 34 971 1513 4471988 4472511 4.550000e-35 159
2 TraesCS4D01G009600 chr4A 94.546 2347 79 10 2048 4360 598779915 598777584 0.000000e+00 3579
3 TraesCS4D01G009600 chr4A 92.495 1026 33 17 512 1528 598781992 598781002 0.000000e+00 1428
4 TraesCS4D01G009600 chr4A 90.631 523 23 7 1539 2035 598780539 598780017 0.000000e+00 671
5 TraesCS4D01G009600 chr4B 87.992 2590 198 43 1159 3678 7463004 7465550 0.000000e+00 2955
6 TraesCS4D01G009600 chr4B 87.992 2590 198 43 1159 3678 7476842 7479388 0.000000e+00 2955
7 TraesCS4D01G009600 chr4B 82.034 1308 171 35 2341 3628 7485080 7486343 0.000000e+00 1055
8 TraesCS4D01G009600 chr4B 80.815 761 95 20 3647 4378 7465550 7466288 2.310000e-152 549
9 TraesCS4D01G009600 chr4B 80.683 761 96 20 3647 4378 7479388 7480126 1.080000e-150 544
10 TraesCS4D01G009600 chr1B 87.251 1859 135 46 512 2303 46000742 46002565 0.000000e+00 2026
11 TraesCS4D01G009600 chr1B 87.144 1859 137 46 512 2303 46059651 46061474 0.000000e+00 2015
12 TraesCS4D01G009600 chr1B 92.167 1366 89 11 2314 3670 46002549 46003905 0.000000e+00 1914
13 TraesCS4D01G009600 chr1B 92.437 1071 63 11 2610 3670 46061712 46062774 0.000000e+00 1513
14 TraesCS4D01G009600 chr1B 92.461 451 34 0 3950 4400 46017782 46018232 0.000000e+00 645
15 TraesCS4D01G009600 chr1B 88.692 451 34 1 3950 4400 46087794 46088227 6.480000e-148 534
16 TraesCS4D01G009600 chr1B 85.206 534 56 14 1 516 492861578 492861050 1.080000e-145 527
17 TraesCS4D01G009600 chr1B 92.691 301 17 2 3657 3954 46003944 46004242 3.140000e-116 429
18 TraesCS4D01G009600 chr1B 91.954 261 20 1 2314 2574 46061458 46061717 8.990000e-97 364
19 TraesCS4D01G009600 chr7D 96.296 513 9 1 1 513 39194948 39195450 0.000000e+00 833
20 TraesCS4D01G009600 chr7A 91.068 515 41 5 1 512 130380309 130379797 0.000000e+00 691
21 TraesCS4D01G009600 chr6D 87.526 473 39 11 44 511 356737716 356738173 3.010000e-146 529
22 TraesCS4D01G009600 chr2D 87.158 475 41 12 44 513 626389774 626389315 5.040000e-144 521
23 TraesCS4D01G009600 chr2D 84.470 528 37 16 1 509 440332599 440333100 3.080000e-131 479
24 TraesCS4D01G009600 chr2D 84.112 535 39 16 1 515 43794049 43793541 3.980000e-130 475
25 TraesCS4D01G009600 chr5D 84.615 533 37 20 1 516 36207510 36207006 5.110000e-134 488
26 TraesCS4D01G009600 chrUn 95.261 211 10 0 4150 4360 47268154 47267944 7.050000e-88 335


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 TraesCS4D01G009600 chr4D 4487822 4492221 4399 False 8126.000000 8126 100.000000 1 4400 1 chr4D.!!$F2 4399
1 TraesCS4D01G009600 chr4A 598777584 598781992 4408 True 1892.666667 3579 92.557333 512 4360 3 chr4A.!!$R1 3848
2 TraesCS4D01G009600 chr4B 7463004 7466288 3284 False 1752.000000 2955 84.403500 1159 4378 2 chr4B.!!$F2 3219
3 TraesCS4D01G009600 chr4B 7476842 7480126 3284 False 1749.500000 2955 84.337500 1159 4378 2 chr4B.!!$F3 3219
4 TraesCS4D01G009600 chr4B 7485080 7486343 1263 False 1055.000000 1055 82.034000 2341 3628 1 chr4B.!!$F1 1287
5 TraesCS4D01G009600 chr1B 46000742 46004242 3500 False 1456.333333 2026 90.703000 512 3954 3 chr1B.!!$F3 3442
6 TraesCS4D01G009600 chr1B 46059651 46062774 3123 False 1297.333333 2015 90.511667 512 3670 3 chr1B.!!$F4 3158
7 TraesCS4D01G009600 chr1B 492861050 492861578 528 True 527.000000 527 85.206000 1 516 1 chr1B.!!$R1 515
8 TraesCS4D01G009600 chr7D 39194948 39195450 502 False 833.000000 833 96.296000 1 513 1 chr7D.!!$F1 512
9 TraesCS4D01G009600 chr7A 130379797 130380309 512 True 691.000000 691 91.068000 1 512 1 chr7A.!!$R1 511
10 TraesCS4D01G009600 chr2D 440332599 440333100 501 False 479.000000 479 84.470000 1 509 1 chr2D.!!$F1 508
11 TraesCS4D01G009600 chr2D 43793541 43794049 508 True 475.000000 475 84.112000 1 515 1 chr2D.!!$R1 514
12 TraesCS4D01G009600 chr5D 36207006 36207510 504 True 488.000000 488 84.615000 1 516 1 chr5D.!!$R1 515

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
733 761 0.744414 TTACCGGACGTACGCTAGCT 60.744 55.0 16.58 2.46 0.00 3.32 F
1443 1484 0.602106 CCGAGATTCGCATGCAGGAT 60.602 55.0 19.57 10.69 38.82 3.24 F
1581 2074 1.019673 ATGTTGTGCGATCCAGATGC 58.980 50.0 0.00 0.00 0.00 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1698 2196 0.172578 CTCGTGGAGCCGTAACATCA 59.827 55.000 0.0 0.0 0.00 3.07 R
2318 2952 3.312146 CCGCATGTTGATACACATAAGCA 59.688 43.478 0.0 0.0 35.51 3.91 R
3490 4138 1.028905 CACCCTCGAAAGCCAAACAA 58.971 50.000 0.0 0.0 0.00 2.83 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
145 164 1.070289 GAGAGAGGAACAACCAACCGT 59.930 52.381 0.00 0.00 42.04 4.83
334 354 7.750014 CCAAATTCAAACAAGACAAAAACCAAG 59.250 33.333 0.00 0.00 0.00 3.61
365 385 1.078988 GGTGATAACGGGCGGACAA 60.079 57.895 0.00 0.00 0.00 3.18
439 462 1.755179 AAACCAGCATGAATCTCCGG 58.245 50.000 0.00 0.00 39.69 5.14
494 517 3.563808 ACGAATTGCAAAACACTCAGCTA 59.436 39.130 1.71 0.00 0.00 3.32
576 599 4.086457 GTTGGTTCTAATTCCATGGGTGT 58.914 43.478 13.02 0.00 33.50 4.16
584 607 4.540359 AATTCCATGGGTGTGTTGATTG 57.460 40.909 13.02 0.00 0.00 2.67
682 707 2.142292 AAAATCGGGCACTCCAGGCT 62.142 55.000 0.00 0.00 34.36 4.58
702 727 1.813178 TGCAGAGAAGAGTACTCCACG 59.187 52.381 19.38 3.91 35.27 4.94
724 752 2.867975 CACAACTTTCTTTACCGGACGT 59.132 45.455 9.46 0.00 0.00 4.34
725 753 4.050553 CACAACTTTCTTTACCGGACGTA 58.949 43.478 9.46 0.00 0.00 3.57
733 761 0.744414 TTACCGGACGTACGCTAGCT 60.744 55.000 16.58 2.46 0.00 3.32
742 770 3.195591 TACGCTAGCTAGCTGCCGC 62.196 63.158 36.02 22.79 46.85 6.53
968 999 1.953231 GCAGCTCCAATTTCCCCAGC 61.953 60.000 0.00 0.00 0.00 4.85
969 1000 1.379044 AGCTCCAATTTCCCCAGCG 60.379 57.895 0.00 0.00 35.14 5.18
970 1001 3.068729 GCTCCAATTTCCCCAGCGC 62.069 63.158 0.00 0.00 0.00 5.92
971 1002 2.749839 TCCAATTTCCCCAGCGCG 60.750 61.111 0.00 0.00 0.00 6.86
1005 1039 2.677524 GACCTGCAAGCCATGGCA 60.678 61.111 37.18 16.84 44.88 4.92
1052 1086 0.729116 CTCATCGCCACCATGTTCAC 59.271 55.000 0.00 0.00 0.00 3.18
1071 1105 2.283966 ACGGTGAGTCCCCCTCTG 60.284 66.667 0.00 0.00 41.11 3.35
1354 1395 1.964223 CTGATGTCCGTATACCAGCCT 59.036 52.381 0.00 0.00 0.00 4.58
1360 1401 1.217183 TCCGTATACCAGCCTCCTCTT 59.783 52.381 0.00 0.00 0.00 2.85
1387 1428 2.427453 TCTGCTCTCGTTATTCTGGTCC 59.573 50.000 0.00 0.00 0.00 4.46
1425 1466 3.446873 TCATCTTGTCTCTTCTCTGCTCC 59.553 47.826 0.00 0.00 0.00 4.70
1443 1484 0.602106 CCGAGATTCGCATGCAGGAT 60.602 55.000 19.57 10.69 38.82 3.24
1450 1491 2.203112 GCATGCAGGATCGAGCCA 60.203 61.111 23.83 0.54 0.00 4.75
1517 1558 2.360852 CCTGCAGCAGGTGGAAGG 60.361 66.667 30.97 6.74 45.82 3.46
1533 1574 3.033368 GAAGGCCTTTCCTCTATAGCG 57.967 52.381 21.54 0.00 46.94 4.26
1560 2053 6.204688 CCCTATGTTTATTTCTTCGCTGCATA 59.795 38.462 0.00 0.00 0.00 3.14
1581 2074 1.019673 ATGTTGTGCGATCCAGATGC 58.980 50.000 0.00 0.00 0.00 3.91
1698 2196 5.116084 AGTATGGTATTGATGCCAACAGT 57.884 39.130 4.89 0.00 45.66 3.55
1760 2258 7.045096 CGCGAGCGTTCCTACTATTAATTATAC 60.045 40.741 0.00 0.00 34.35 1.47
1769 2294 9.293404 TCCTACTATTAATTATACGCTGTGTCT 57.707 33.333 0.00 0.00 0.00 3.41
1815 2340 3.615496 GTCGTTTATGGTTGTCGTATGCT 59.385 43.478 0.00 0.00 0.00 3.79
1869 2394 7.164230 TGTGTTTCCAGTAACAAAATTGTCT 57.836 32.000 0.00 0.00 41.31 3.41
1904 2429 1.400242 GCGATGCTCTTGGTTGTCAAC 60.400 52.381 7.20 7.20 0.00 3.18
1928 2453 9.988350 AACGACAAGCATTTCTTATAATAAGTG 57.012 29.630 0.00 2.79 32.74 3.16
2243 2877 6.473778 TCAAACCATTTATTGTGTTGACAACG 59.526 34.615 13.46 0.00 44.90 4.10
2357 2991 2.168201 CGGCAGTGGCGTTTAATAAC 57.832 50.000 29.14 0.00 46.33 1.89
2362 2996 4.261031 GGCAGTGGCGTTTAATAACTATGG 60.261 45.833 0.00 0.00 42.47 2.74
2398 3035 3.748048 TCCTGATCTTGCTCTTTTTGACG 59.252 43.478 0.00 0.00 0.00 4.35
2463 3100 1.071385 ACACTTCACTCCTGAGGCAAG 59.929 52.381 0.00 3.04 0.00 4.01
2473 3110 3.214328 TCCTGAGGCAAGAAACAAAGAC 58.786 45.455 0.00 0.00 0.00 3.01
2491 3128 2.039480 AGACGGGTCAGTAGTCAGTACA 59.961 50.000 1.17 0.00 37.36 2.90
2826 3466 5.564550 ACCATTTCAGCTCAGTTCACTTAT 58.435 37.500 0.00 0.00 0.00 1.73
2839 3479 7.551585 TCAGTTCACTTATTCTCTCCAGATTC 58.448 38.462 0.00 0.00 0.00 2.52
2953 3595 8.633724 AGATCATAATGGAGGTAGTCCCTTATA 58.366 37.037 0.00 0.00 46.51 0.98
3090 3735 3.620488 AGAGGTGCTGTTTTGTTTCTCA 58.380 40.909 0.00 0.00 0.00 3.27
3220 3865 3.954258 AGTGGAGTTTCTTTGTTTCCCAG 59.046 43.478 0.00 0.00 0.00 4.45
3222 3867 2.959030 GGAGTTTCTTTGTTTCCCAGCT 59.041 45.455 0.00 0.00 0.00 4.24
3490 4138 1.786937 TGTGGGCAGTTTTCATTGGT 58.213 45.000 0.00 0.00 0.00 3.67
3628 4280 3.213506 TGTTTCTGTCTGGATGTTGGTG 58.786 45.455 0.00 0.00 0.00 4.17
3629 4281 3.118075 TGTTTCTGTCTGGATGTTGGTGA 60.118 43.478 0.00 0.00 0.00 4.02
3630 4282 2.839486 TCTGTCTGGATGTTGGTGAC 57.161 50.000 0.00 0.00 0.00 3.67
3632 4284 2.037641 TCTGTCTGGATGTTGGTGACTG 59.962 50.000 0.00 0.00 0.00 3.51
3633 4285 1.768275 TGTCTGGATGTTGGTGACTGT 59.232 47.619 0.00 0.00 0.00 3.55
3670 4345 6.267492 TCTCTCTCTCTCTCTCTCTCTCTA 57.733 45.833 0.00 0.00 0.00 2.43
3774 4510 6.918569 GCTAGAAGAGCGACTCACAATATTTA 59.081 38.462 9.09 0.00 42.62 1.40
3959 4702 2.403252 ATCACGTTTCTGGGCTTAGG 57.597 50.000 0.00 0.00 0.00 2.69
4103 4848 1.928503 GAAAATGCATGGCCATGTTCG 59.071 47.619 39.08 20.30 40.80 3.95
4153 4898 6.169800 GCCCTCTCCTAAATCTTCATGTATC 58.830 44.000 0.00 0.00 0.00 2.24
4160 4905 9.421806 CTCCTAAATCTTCATGTATCTGATGAC 57.578 37.037 0.00 0.00 33.65 3.06
4183 4928 2.222908 GCATTCGCTCTTCTACAGTTGC 60.223 50.000 0.00 0.00 34.30 4.17
4206 4951 0.461163 CCATACGGCCATGTTCGTCA 60.461 55.000 12.71 3.01 40.31 4.35
4229 4974 1.309499 TTTTATCGGCCGCCAAGGTG 61.309 55.000 23.51 0.00 43.70 4.00
4373 5125 4.398319 TCCTTCATGAACCTTGTTCCTTC 58.602 43.478 3.38 0.00 0.00 3.46
4378 5130 2.294074 TGAACCTTGTTCCTTCGGTTG 58.706 47.619 4.65 0.00 39.69 3.77
4379 5131 2.294979 GAACCTTGTTCCTTCGGTTGT 58.705 47.619 0.00 0.00 39.69 3.32
4380 5132 2.430248 ACCTTGTTCCTTCGGTTGTT 57.570 45.000 0.00 0.00 0.00 2.83
4381 5133 2.294979 ACCTTGTTCCTTCGGTTGTTC 58.705 47.619 0.00 0.00 0.00 3.18
4382 5134 1.607148 CCTTGTTCCTTCGGTTGTTCC 59.393 52.381 0.00 0.00 0.00 3.62
4383 5135 2.294074 CTTGTTCCTTCGGTTGTTCCA 58.706 47.619 0.00 0.00 35.57 3.53
4384 5136 2.649531 TGTTCCTTCGGTTGTTCCAT 57.350 45.000 0.00 0.00 35.57 3.41
4385 5137 3.773418 TGTTCCTTCGGTTGTTCCATA 57.227 42.857 0.00 0.00 35.57 2.74
4386 5138 3.670625 TGTTCCTTCGGTTGTTCCATAG 58.329 45.455 0.00 0.00 35.57 2.23
4387 5139 3.071892 TGTTCCTTCGGTTGTTCCATAGT 59.928 43.478 0.00 0.00 35.57 2.12
4388 5140 3.604875 TCCTTCGGTTGTTCCATAGTC 57.395 47.619 0.00 0.00 35.57 2.59
4389 5141 2.235402 TCCTTCGGTTGTTCCATAGTCC 59.765 50.000 0.00 0.00 35.57 3.85
4390 5142 2.629051 CTTCGGTTGTTCCATAGTCCC 58.371 52.381 0.00 0.00 35.57 4.46
4391 5143 1.646912 TCGGTTGTTCCATAGTCCCA 58.353 50.000 0.00 0.00 35.57 4.37
4392 5144 1.553248 TCGGTTGTTCCATAGTCCCAG 59.447 52.381 0.00 0.00 35.57 4.45
4393 5145 1.553248 CGGTTGTTCCATAGTCCCAGA 59.447 52.381 0.00 0.00 35.57 3.86
4394 5146 2.170607 CGGTTGTTCCATAGTCCCAGAT 59.829 50.000 0.00 0.00 35.57 2.90
4395 5147 3.545703 GGTTGTTCCATAGTCCCAGATG 58.454 50.000 0.00 0.00 35.97 2.90
4396 5148 3.545703 GTTGTTCCATAGTCCCAGATGG 58.454 50.000 0.00 0.00 43.51 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
145 164 1.304630 TCTTCGATCCCCGGTGTCA 60.305 57.895 0.00 0.00 39.14 3.58
349 369 1.893544 TTTTTGTCCGCCCGTTATCA 58.106 45.000 0.00 0.00 0.00 2.15
365 385 2.349297 TTTTGTCGTGCACGGTTTTT 57.651 40.000 36.41 0.00 40.29 1.94
390 413 3.703127 GGGCTCGTTTCCGGGTCT 61.703 66.667 0.00 0.00 39.74 3.85
439 462 0.593008 GTTGTCGGTCCGTTTTTGCC 60.593 55.000 11.88 0.00 0.00 4.52
452 475 3.698420 TCGTCATTCGAATTGTTGTCG 57.302 42.857 8.21 8.70 45.98 4.35
548 571 6.768861 CCCATGGAATTAGAACCAACGTATTA 59.231 38.462 15.22 0.00 39.69 0.98
576 599 1.548081 CATCCACCAGCCAATCAACA 58.452 50.000 0.00 0.00 0.00 3.33
584 607 1.228367 CATAGCCCATCCACCAGCC 60.228 63.158 0.00 0.00 0.00 4.85
682 707 1.813178 CGTGGAGTACTCTTCTCTGCA 59.187 52.381 21.88 7.19 33.06 4.41
702 727 2.349155 CGTCCGGTAAAGAAAGTTGTGC 60.349 50.000 0.00 0.00 0.00 4.57
742 770 4.727725 CTGACGAGACGACGACAG 57.272 61.111 0.00 14.74 45.10 3.51
1052 1086 3.391382 GAGGGGGACTCACCGTGG 61.391 72.222 0.00 0.00 45.85 4.94
1062 1096 2.257541 GATGGGAGGACAGAGGGGGA 62.258 65.000 0.00 0.00 0.00 4.81
1071 1105 1.221021 GGGACGTTGATGGGAGGAC 59.779 63.158 0.00 0.00 0.00 3.85
1354 1395 0.415429 AGAGCAGAGGGGAAAGAGGA 59.585 55.000 0.00 0.00 0.00 3.71
1360 1401 2.160721 ATAACGAGAGCAGAGGGGAA 57.839 50.000 0.00 0.00 0.00 3.97
1387 1428 1.267261 GATGAGTCTGTATCCGACCGG 59.733 57.143 0.00 0.00 31.83 5.28
1425 1466 0.788995 GATCCTGCATGCGAATCTCG 59.211 55.000 14.09 0.00 43.89 4.04
1443 1484 1.228894 AAGTCCACCTCTGGCTCGA 60.229 57.895 0.00 0.00 37.49 4.04
1450 1491 0.969894 CCTTGTCGAAGTCCACCTCT 59.030 55.000 0.00 0.00 0.00 3.69
1517 1558 0.320858 GGGCGCTATAGAGGAAAGGC 60.321 60.000 7.64 0.00 0.00 4.35
1531 1572 3.303791 CGAAGAAATAAACATAGGGGCGC 60.304 47.826 0.00 0.00 0.00 6.53
1533 1574 3.883489 AGCGAAGAAATAAACATAGGGGC 59.117 43.478 0.00 0.00 0.00 5.80
1560 2053 2.011947 CATCTGGATCGCACAACATGT 58.988 47.619 0.00 0.00 0.00 3.21
1581 2074 3.262420 CATACTCCTGACAAGGGAAACG 58.738 50.000 0.00 0.00 44.62 3.60
1698 2196 0.172578 CTCGTGGAGCCGTAACATCA 59.827 55.000 0.00 0.00 0.00 3.07
1760 2258 6.036470 TCTGAATAGAAATACAGACACAGCG 58.964 40.000 0.00 0.00 35.01 5.18
1769 2294 5.523552 CACGGCATGTCTGAATAGAAATACA 59.476 40.000 0.00 0.00 34.01 2.29
1772 2297 4.517285 ACACGGCATGTCTGAATAGAAAT 58.483 39.130 0.00 0.00 36.54 2.17
1800 2325 5.428253 ACTTTATGAGCATACGACAACCAT 58.572 37.500 0.00 0.00 0.00 3.55
1801 2326 4.827692 ACTTTATGAGCATACGACAACCA 58.172 39.130 0.00 0.00 0.00 3.67
1815 2340 6.406400 GGCTCAGCTCTTCTTCTACTTTATGA 60.406 42.308 0.00 0.00 0.00 2.15
1869 2394 1.801771 CATCGCGTTGGTAGGAAAACA 59.198 47.619 5.77 0.00 0.00 2.83
1926 2451 1.094785 AAGGACATTGGCGCATACAC 58.905 50.000 10.83 0.00 0.00 2.90
1928 2453 2.163412 TGAAAAGGACATTGGCGCATAC 59.837 45.455 10.83 0.00 0.00 2.39
1995 2529 4.373116 CGTACACACCCCTGCGCT 62.373 66.667 9.73 0.00 0.00 5.92
2243 2877 3.194968 TCAAGGAGTCGTTTCCTATCACC 59.805 47.826 10.19 0.00 46.90 4.02
2314 2948 6.073602 CGCATGTTGATACACATAAGCATACT 60.074 38.462 0.00 0.00 35.51 2.12
2315 2949 6.073369 CGCATGTTGATACACATAAGCATAC 58.927 40.000 0.00 0.00 35.51 2.39
2316 2950 5.179182 CCGCATGTTGATACACATAAGCATA 59.821 40.000 0.00 0.00 35.51 3.14
2317 2951 4.023792 CCGCATGTTGATACACATAAGCAT 60.024 41.667 0.00 0.00 35.51 3.79
2318 2952 3.312146 CCGCATGTTGATACACATAAGCA 59.688 43.478 0.00 0.00 35.51 3.91
2319 2953 3.849645 GCCGCATGTTGATACACATAAGC 60.850 47.826 0.00 0.00 35.51 3.09
2398 3035 6.806751 TCTCTTAGCACCAACACTGATATAC 58.193 40.000 0.00 0.00 0.00 1.47
2463 3100 3.725490 ACTACTGACCCGTCTTTGTTTC 58.275 45.455 0.00 0.00 0.00 2.78
2473 3110 5.769484 ATAATGTACTGACTACTGACCCG 57.231 43.478 0.00 0.00 0.00 5.28
2826 3466 3.513119 CCTGTGTCAGAATCTGGAGAGAA 59.487 47.826 10.71 0.00 32.44 2.87
2839 3479 8.292448 GGAATAATGCAAATATACCTGTGTCAG 58.708 37.037 0.00 0.00 0.00 3.51
2953 3595 8.041143 TGGTAGTAAAAATACAGCATAGGGAT 57.959 34.615 0.00 0.00 0.00 3.85
2991 3633 9.645128 TCCTCAACCAATCAATGTATTATGATT 57.355 29.630 0.00 0.00 44.81 2.57
3090 3735 3.648545 AGAGACCTGGAACTAAAGTGCTT 59.351 43.478 0.00 0.00 0.00 3.91
3222 3867 4.632688 GGTACTTGGCGATGCTTAACTTAA 59.367 41.667 0.00 0.00 0.00 1.85
3327 3975 6.727824 AGAAGAACACGTCAATGATTAAGG 57.272 37.500 0.00 0.00 0.00 2.69
3490 4138 1.028905 CACCCTCGAAAGCCAAACAA 58.971 50.000 0.00 0.00 0.00 2.83
3538 4186 2.487428 CTGCGAGACTGGACTCCG 59.513 66.667 0.00 0.00 33.83 4.63
3628 4280 8.819643 AGAGAGAATAACTTACAACAACAGTC 57.180 34.615 0.00 0.00 0.00 3.51
3629 4281 8.643324 AGAGAGAGAATAACTTACAACAACAGT 58.357 33.333 0.00 0.00 0.00 3.55
3630 4282 9.134734 GAGAGAGAGAATAACTTACAACAACAG 57.865 37.037 0.00 0.00 0.00 3.16
3632 4284 9.349145 GAGAGAGAGAGAATAACTTACAACAAC 57.651 37.037 0.00 0.00 0.00 3.32
3633 4285 9.303116 AGAGAGAGAGAGAATAACTTACAACAA 57.697 33.333 0.00 0.00 0.00 2.83
3711 4430 4.142381 GCGGGATTTCTGAGCACTTATTTT 60.142 41.667 0.00 0.00 0.00 1.82
3774 4510 7.871853 ACTGCAAAGAAATGTTTAATACGTCT 58.128 30.769 0.00 0.00 0.00 4.18
3959 4702 8.095937 ACTGTTTCATACTAAAGCAAACCTAC 57.904 34.615 0.00 0.00 0.00 3.18
4016 4759 6.408662 GCCTAGAGAATCAGGTTCCAGTTATT 60.409 42.308 0.00 0.00 37.56 1.40
4020 4763 2.769095 GCCTAGAGAATCAGGTTCCAGT 59.231 50.000 0.00 0.00 37.56 4.00
4103 4848 5.086727 GGTTTGCAACTATAAAAGAGCGAC 58.913 41.667 0.00 0.00 34.11 5.19
4177 4922 1.506262 GCCGTATGGGTTGCAACTG 59.494 57.895 27.64 11.39 38.44 3.16
4183 4928 0.738389 GAACATGGCCGTATGGGTTG 59.262 55.000 0.00 0.00 38.44 3.77
4206 4951 3.199891 GGCGGCCGATAAAAGCGT 61.200 61.111 33.48 0.00 0.00 5.07
4229 4974 5.196695 AGAATTTGAGGCCACCTTCTAATC 58.803 41.667 5.01 0.00 31.76 1.75


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

AutoCloner maintained by Alex Coulton.