Multiple sequence alignment - TraesCS6D01G302500

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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 TraesCS6D01G302500 chr6D 100.000 4053 0 0 1 4053 411669032 411673084 0.000000e+00 7485.0
1 TraesCS6D01G302500 chr6A 89.900 4109 279 62 3 4053 556553852 556557882 0.000000e+00 5164.0
2 TraesCS6D01G302500 chr6B 93.733 3255 147 20 840 4053 619028462 619031700 0.000000e+00 4828.0
3 TraesCS6D01G302500 chr6B 81.787 582 71 21 205 772 619027872 619028432 4.780000e-124 455.0
4 TraesCS6D01G302500 chr6B 85.185 54 6 2 656 708 619028410 619028462 2.000000e-03 54.7
5 TraesCS6D01G302500 chr7B 76.944 733 162 6 3326 4053 730398064 730398794 1.050000e-110 411.0
6 TraesCS6D01G302500 chr7D 76.671 733 158 12 3326 4050 628520424 628521151 1.060000e-105 394.0
7 TraesCS6D01G302500 chr7A 76.327 735 157 15 3329 4053 724654628 724653901 1.060000e-100 377.0


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 TraesCS6D01G302500 chr6D 411669032 411673084 4052 False 7485.000000 7485 100.000000 1 4053 1 chr6D.!!$F1 4052
1 TraesCS6D01G302500 chr6A 556553852 556557882 4030 False 5164.000000 5164 89.900000 3 4053 1 chr6A.!!$F1 4050
2 TraesCS6D01G302500 chr6B 619027872 619031700 3828 False 1779.233333 4828 86.901667 205 4053 3 chr6B.!!$F1 3848
3 TraesCS6D01G302500 chr7B 730398064 730398794 730 False 411.000000 411 76.944000 3326 4053 1 chr7B.!!$F1 727
4 TraesCS6D01G302500 chr7D 628520424 628521151 727 False 394.000000 394 76.671000 3326 4050 1 chr7D.!!$F1 724
5 TraesCS6D01G302500 chr7A 724653901 724654628 727 True 377.000000 377 76.327000 3329 4053 1 chr7A.!!$R1 724

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
387 394 0.099613 CGATCATAGATCGGGAGGCG 59.900 60.000 18.74 0.0 37.84 5.52 F
467 476 0.599558 CTCCGTCGTTACCCAACTCA 59.400 55.000 0.00 0.0 32.09 3.41 F
906 930 1.153823 GACGTCGATGACACCCCTG 60.154 63.158 12.58 0.0 32.09 4.45 F
2568 2657 1.009829 CTGAATGCCGCTACTTCACC 58.990 55.000 0.00 0.0 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1927 1992 2.069273 ACCTCGCAGAATTTTCAGTCG 58.931 47.619 0.0 0.0 34.09 4.18 R
2441 2530 2.129607 CCAAAAGCATGTGTTGTCAGC 58.870 47.619 0.0 0.0 0.00 4.26 R
2875 2968 3.490348 CAACCCACCTGAGACAGAAAAT 58.510 45.455 0.0 0.0 32.44 1.82 R
3972 4073 0.172803 CCTCGGACGGATTCGAAGTT 59.827 55.000 0.0 0.0 40.11 2.66 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 6.576185 TCGTACAAATTATAGTCCAACCTCC 58.424 40.000 0.00 0.00 0.00 4.30
34 35 9.627123 CAAATTATAGTCCAACCTCCATTCTAA 57.373 33.333 0.00 0.00 0.00 2.10
57 58 4.154942 TCCCTACTAACCACGAGACTTTT 58.845 43.478 0.00 0.00 0.00 2.27
59 60 4.689345 CCCTACTAACCACGAGACTTTTTG 59.311 45.833 0.00 0.00 0.00 2.44
61 62 5.176958 CCTACTAACCACGAGACTTTTTGTG 59.823 44.000 0.00 0.00 33.14 3.33
66 67 4.957296 ACCACGAGACTTTTTGTGTCTAT 58.043 39.130 0.00 0.00 43.88 1.98
73 74 7.065324 ACGAGACTTTTTGTGTCTATTTGTGAA 59.935 33.333 0.00 0.00 43.88 3.18
116 117 9.461312 TTTTAATGTAGCCTCACATAGACATTT 57.539 29.630 3.64 0.00 38.19 2.32
142 143 8.199176 TGTGTCTTTTCGTGAGTTAACATTTA 57.801 30.769 8.61 0.00 0.00 1.40
240 242 2.292292 GGTGTTGGCGTGATTTGTAACT 59.708 45.455 0.00 0.00 0.00 2.24
241 243 3.296628 GTGTTGGCGTGATTTGTAACTG 58.703 45.455 0.00 0.00 0.00 3.16
296 298 2.092592 GTGATGGTCGAAAAGGGGGTAT 60.093 50.000 0.00 0.00 0.00 2.73
319 326 1.654105 GTGAAGTAGATGGACGCAACG 59.346 52.381 0.00 0.00 0.00 4.10
321 328 2.288579 TGAAGTAGATGGACGCAACGTT 60.289 45.455 0.00 0.00 41.37 3.99
323 330 2.334838 AGTAGATGGACGCAACGTTTC 58.665 47.619 0.00 0.00 41.37 2.78
328 335 2.181521 GGACGCAACGTTTCCCACA 61.182 57.895 0.00 0.00 41.37 4.17
350 357 1.270550 CAAACTGCCACCATCAACCTC 59.729 52.381 0.00 0.00 0.00 3.85
351 358 0.478072 AACTGCCACCATCAACCTCA 59.522 50.000 0.00 0.00 0.00 3.86
369 376 1.407618 TCAGGGGTTATCATCGACACG 59.592 52.381 0.00 0.00 0.00 4.49
387 394 0.099613 CGATCATAGATCGGGAGGCG 59.900 60.000 18.74 0.00 37.84 5.52
388 395 1.178276 GATCATAGATCGGGAGGCGT 58.822 55.000 0.00 0.00 0.00 5.68
436 445 5.713861 ACTGAGATGGCTATGCTTTCTTTTT 59.286 36.000 0.00 0.00 0.00 1.94
454 463 6.628185 TCTTTTTCCTTACTCATACTCCGTC 58.372 40.000 0.00 0.00 0.00 4.79
458 467 4.769688 TCCTTACTCATACTCCGTCGTTA 58.230 43.478 0.00 0.00 0.00 3.18
459 468 4.572389 TCCTTACTCATACTCCGTCGTTAC 59.428 45.833 0.00 0.00 0.00 2.50
460 469 4.260948 CCTTACTCATACTCCGTCGTTACC 60.261 50.000 0.00 0.00 0.00 2.85
461 470 2.019984 ACTCATACTCCGTCGTTACCC 58.980 52.381 0.00 0.00 0.00 3.69
462 471 2.019249 CTCATACTCCGTCGTTACCCA 58.981 52.381 0.00 0.00 0.00 4.51
465 474 1.909700 TACTCCGTCGTTACCCAACT 58.090 50.000 0.00 0.00 32.09 3.16
466 475 0.600057 ACTCCGTCGTTACCCAACTC 59.400 55.000 0.00 0.00 32.09 3.01
467 476 0.599558 CTCCGTCGTTACCCAACTCA 59.400 55.000 0.00 0.00 32.09 3.41
474 486 2.094906 TCGTTACCCAACTCAGATGTCG 60.095 50.000 0.00 0.00 32.09 4.35
496 508 5.935789 TCGTTATCCAACTTACCTCAAAAGG 59.064 40.000 0.00 0.00 39.43 3.11
534 547 8.624776 CATAACCACTATCCAATCCTTCTTTTC 58.375 37.037 0.00 0.00 0.00 2.29
536 549 6.552008 ACCACTATCCAATCCTTCTTTTCAA 58.448 36.000 0.00 0.00 0.00 2.69
549 562 8.533569 TCCTTCTTTTCAAAAGGTACAATTCT 57.466 30.769 10.06 0.00 42.28 2.40
551 564 9.899226 CCTTCTTTTCAAAAGGTACAATTCTAG 57.101 33.333 10.06 0.00 37.78 2.43
752 776 3.732892 CGAACAACCGGCGCCAAT 61.733 61.111 28.98 11.02 0.00 3.16
899 923 2.544480 TCACAGATGACGTCGATGAC 57.456 50.000 12.58 5.81 0.00 3.06
906 930 1.153823 GACGTCGATGACACCCCTG 60.154 63.158 12.58 0.00 32.09 4.45
1181 1220 2.815647 GCACTCGCCTGTAGGTGC 60.816 66.667 6.60 0.00 45.93 5.01
1182 1221 2.125512 CACTCGCCTGTAGGTGCC 60.126 66.667 6.60 0.00 45.04 5.01
1290 1329 2.434884 CGCATCACCGAGGTGCTT 60.435 61.111 16.95 4.73 45.04 3.91
1403 1449 8.630054 AACTGCAGTACATTTAGGTTGAAATA 57.370 30.769 22.01 0.00 0.00 1.40
1408 1454 7.645340 GCAGTACATTTAGGTTGAAATATGCTG 59.355 37.037 0.00 2.19 38.33 4.41
1427 1479 6.968131 TGCTGTCATCTTGTGTAATTCTAC 57.032 37.500 0.00 0.00 0.00 2.59
1477 1529 6.682746 TCTTCTCAAACTTAGCAGAGTAGTG 58.317 40.000 0.00 0.00 30.51 2.74
1487 1539 3.983741 AGCAGAGTAGTGTCAACTTGTC 58.016 45.455 0.00 0.00 37.88 3.18
1584 1636 3.195698 GGCATCACGGCGAGAACC 61.196 66.667 16.62 13.96 33.57 3.62
1608 1660 1.302752 TGCTGTAAGGCTGGTGCTG 60.303 57.895 0.00 0.00 39.59 4.41
1624 1676 3.694072 GGTGCTGCCTGTAATTGTTGATA 59.306 43.478 0.00 0.00 0.00 2.15
1625 1677 4.339247 GGTGCTGCCTGTAATTGTTGATAT 59.661 41.667 0.00 0.00 0.00 1.63
1626 1678 5.163519 GGTGCTGCCTGTAATTGTTGATATT 60.164 40.000 0.00 0.00 0.00 1.28
1627 1679 6.332630 GTGCTGCCTGTAATTGTTGATATTT 58.667 36.000 0.00 0.00 0.00 1.40
1633 1685 7.601886 TGCCTGTAATTGTTGATATTTTTGTGG 59.398 33.333 0.00 0.00 0.00 4.17
1727 1780 2.646297 AGGAGGGCATGCATATGTGTAT 59.354 45.455 21.36 0.00 36.65 2.29
1942 2007 3.498397 TGAACCTCGACTGAAAATTCTGC 59.502 43.478 0.57 0.00 0.00 4.26
1965 2030 4.218312 GAGGTGCCCATTTTCTTGGATAT 58.782 43.478 0.00 0.00 39.25 1.63
2014 2079 6.322712 TGTTTGCTTTAGTTGAATGTTAGGGT 59.677 34.615 0.00 0.00 0.00 4.34
2116 2182 6.426646 AACTATGCTAATCTGAGTTAGGGG 57.573 41.667 8.13 0.00 33.31 4.79
2125 2191 7.202066 GCTAATCTGAGTTAGGGGGTATGTTTA 60.202 40.741 8.13 0.00 33.31 2.01
2318 2406 6.128138 ACTTCATCCTATATTGCCCCTAAC 57.872 41.667 0.00 0.00 0.00 2.34
2323 2411 6.331572 TCATCCTATATTGCCCCTAACTTGAA 59.668 38.462 0.00 0.00 0.00 2.69
2399 2487 5.890334 ACCAAATGCCAGTTATACAAATCG 58.110 37.500 0.00 0.00 0.00 3.34
2464 2553 2.223782 TGACAACACATGCTTTTGGCTC 60.224 45.455 8.42 0.00 42.39 4.70
2520 2609 3.128242 CCTTTGCAACATCTAGCTTGAGG 59.872 47.826 8.27 8.27 0.00 3.86
2528 2617 5.939764 ACATCTAGCTTGAGGTGTTGATA 57.060 39.130 14.47 0.00 37.52 2.15
2568 2657 1.009829 CTGAATGCCGCTACTTCACC 58.990 55.000 0.00 0.00 0.00 4.02
2571 2660 2.235155 TGAATGCCGCTACTTCACCTTA 59.765 45.455 0.00 0.00 0.00 2.69
2722 2815 7.768582 TGGTTGTTCCTATAACACTGTATCATG 59.231 37.037 0.00 0.00 37.07 3.07
2772 2865 1.849823 AGCTCTGGGGCTTTCCACT 60.850 57.895 0.00 0.00 39.86 4.00
2875 2968 9.066892 GTCTGAGCATATTTATCCACCATTTTA 57.933 33.333 0.00 0.00 0.00 1.52
3047 3140 2.232452 CCGAAGAACACTCTCAGACCAT 59.768 50.000 0.00 0.00 0.00 3.55
3106 3199 4.566907 GGCCTTAACAACTCACCCAATCTA 60.567 45.833 0.00 0.00 0.00 1.98
3122 3215 1.904287 TCTAATGGCGGCACTTTTGT 58.096 45.000 16.34 0.00 0.00 2.83
3136 3229 3.242478 CACTTTTGTGTTGCCAAATGCAG 60.242 43.478 0.00 0.00 45.97 4.41
3155 3249 2.030007 CAGTGTGTTTATTGCCCACTGG 60.030 50.000 9.60 0.00 45.73 4.00
3172 3266 4.440525 CCACTGGAAAACATGCCATGTATC 60.441 45.833 11.38 12.18 44.07 2.24
3349 3447 0.966179 GTTTCCAAATCCAAGGCCGT 59.034 50.000 0.00 0.00 0.00 5.68
3405 3503 1.069765 CACCTCGCAGAACCTGTGT 59.930 57.895 7.30 0.00 41.99 3.72
3479 3577 1.478105 GGAACGGGGGTTCTTCTTGTT 60.478 52.381 6.89 0.00 34.06 2.83
3608 3706 1.580845 CGAAACCCTGGCTGAAGCAG 61.581 60.000 4.43 0.27 44.36 4.24
3633 3731 2.289592 AGTGGACCGAGTTAGTCAGT 57.710 50.000 0.00 0.00 35.89 3.41
3642 3740 2.161030 GAGTTAGTCAGTGACCGGTCT 58.839 52.381 33.39 16.03 32.18 3.85
3735 3833 4.612412 TCTTTCGGGTGCGCGGTT 62.612 61.111 8.83 0.00 0.00 4.44
3790 3888 3.330267 GACACCTGTCCAATGTCTTCTC 58.670 50.000 0.00 0.00 39.72 2.87
3804 3905 1.616865 TCTTCTCCGACGGTTGTGATT 59.383 47.619 14.79 0.00 0.00 2.57
3840 3941 2.133281 TCGTAGGGTTCTCCGAATGA 57.867 50.000 0.00 0.00 41.52 2.57
3948 4049 1.019805 GCGCGGCCTCTAGAGTTTTT 61.020 55.000 18.42 0.00 0.00 1.94
3972 4073 1.065199 CAGGGCCAGCTCATAGTGAAA 60.065 52.381 6.18 0.00 0.00 2.69
3996 4097 1.437986 GAATCCGTCCGAGGTGAGG 59.562 63.158 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.532657 AGGTTGGACTATAATTTGTACGAACG 59.467 38.462 0.00 0.00 0.00 3.95
1 2 7.010830 GGAGGTTGGACTATAATTTGTACGAAC 59.989 40.741 0.00 0.00 0.00 3.95
27 28 6.264744 TCTCGTGGTTAGTAGGGATTAGAATG 59.735 42.308 0.00 0.00 0.00 2.67
34 35 3.666345 AGTCTCGTGGTTAGTAGGGAT 57.334 47.619 0.00 0.00 0.00 3.85
94 95 6.886459 ACAAAATGTCTATGTGAGGCTACATT 59.114 34.615 12.60 8.71 41.31 2.71
112 113 7.483375 TGTTAACTCACGAAAAGACACAAAATG 59.517 33.333 7.22 0.00 0.00 2.32
116 117 6.671614 ATGTTAACTCACGAAAAGACACAA 57.328 33.333 7.22 0.00 0.00 3.33
207 208 2.365582 GCCAACACCATATTCTCCGTT 58.634 47.619 0.00 0.00 0.00 4.44
209 210 0.937304 CGCCAACACCATATTCTCCG 59.063 55.000 0.00 0.00 0.00 4.63
212 213 2.779755 TCACGCCAACACCATATTCT 57.220 45.000 0.00 0.00 0.00 2.40
240 242 5.362717 TCCCGTCAAGCTTTATCTATCTTCA 59.637 40.000 0.00 0.00 0.00 3.02
241 243 5.692654 GTCCCGTCAAGCTTTATCTATCTTC 59.307 44.000 0.00 0.00 0.00 2.87
256 258 1.766496 ACTTCTCCTTTGTCCCGTCAA 59.234 47.619 0.00 0.00 0.00 3.18
296 298 1.621317 TGCGTCCATCTACTTCACCAA 59.379 47.619 0.00 0.00 0.00 3.67
319 326 1.686052 TGGCAGTTTGATGTGGGAAAC 59.314 47.619 0.00 0.00 33.11 2.78
321 328 1.327303 GTGGCAGTTTGATGTGGGAA 58.673 50.000 0.00 0.00 0.00 3.97
323 330 0.827089 TGGTGGCAGTTTGATGTGGG 60.827 55.000 0.00 0.00 0.00 4.61
328 335 1.895131 GGTTGATGGTGGCAGTTTGAT 59.105 47.619 0.00 0.00 0.00 2.57
350 357 1.407618 TCGTGTCGATGATAACCCCTG 59.592 52.381 0.00 0.00 0.00 4.45
351 358 1.771565 TCGTGTCGATGATAACCCCT 58.228 50.000 0.00 0.00 0.00 4.79
362 369 1.804748 CCCGATCTATGATCGTGTCGA 59.195 52.381 22.71 0.00 39.67 4.20
363 370 1.804748 TCCCGATCTATGATCGTGTCG 59.195 52.381 22.71 11.25 39.67 4.35
369 376 1.178276 ACGCCTCCCGATCTATGATC 58.822 55.000 0.00 0.00 41.02 2.92
413 421 5.831702 AAAAGAAAGCATAGCCATCTCAG 57.168 39.130 0.00 0.00 0.00 3.35
421 430 7.145932 TGAGTAAGGAAAAAGAAAGCATAGC 57.854 36.000 0.00 0.00 0.00 2.97
454 463 2.259618 CGACATCTGAGTTGGGTAACG 58.740 52.381 0.00 0.00 41.71 3.18
458 467 3.118738 GGATAACGACATCTGAGTTGGGT 60.119 47.826 0.00 0.00 0.00 4.51
459 468 3.118775 TGGATAACGACATCTGAGTTGGG 60.119 47.826 0.00 0.00 0.00 4.12
460 469 4.123497 TGGATAACGACATCTGAGTTGG 57.877 45.455 0.00 0.00 0.00 3.77
461 470 5.171476 AGTTGGATAACGACATCTGAGTTG 58.829 41.667 0.00 0.00 41.71 3.16
462 471 5.407407 AGTTGGATAACGACATCTGAGTT 57.593 39.130 0.00 0.00 41.71 3.01
465 474 5.421056 AGGTAAGTTGGATAACGACATCTGA 59.579 40.000 0.00 0.00 41.71 3.27
466 475 5.661458 AGGTAAGTTGGATAACGACATCTG 58.339 41.667 0.00 0.00 41.71 2.90
467 476 5.421056 TGAGGTAAGTTGGATAACGACATCT 59.579 40.000 0.00 0.00 41.71 2.90
474 486 7.379098 CTCCTTTTGAGGTAAGTTGGATAAC 57.621 40.000 0.00 0.00 37.45 1.89
496 508 8.426489 TGGATAGTGGTTATGTTGTTATACCTC 58.574 37.037 0.00 0.00 0.00 3.85
510 522 7.695055 TGAAAAGAAGGATTGGATAGTGGTTA 58.305 34.615 0.00 0.00 0.00 2.85
549 562 9.628500 TTCTAGTGATGACATCTTAAGCTACTA 57.372 33.333 16.25 11.71 0.00 1.82
551 564 9.757227 AATTCTAGTGATGACATCTTAAGCTAC 57.243 33.333 16.25 4.59 0.00 3.58
752 776 8.284693 GCCTCTAGTTGTTTTGTATTTTTCGTA 58.715 33.333 0.00 0.00 0.00 3.43
886 910 0.970937 AGGGGTGTCATCGACGTCAT 60.971 55.000 17.16 5.54 34.95 3.06
899 923 2.438434 GGATGGAACGCAGGGGTG 60.438 66.667 0.00 0.00 0.00 4.61
906 930 4.778143 ACGGCTGGGATGGAACGC 62.778 66.667 0.00 0.00 0.00 4.84
1290 1329 4.507388 CGCCAAAAAGAAAAGAAGATTGCA 59.493 37.500 0.00 0.00 0.00 4.08
1393 1439 5.948162 ACAAGATGACAGCATATTTCAACCT 59.052 36.000 0.00 0.00 33.91 3.50
1403 1449 7.279536 CAGTAGAATTACACAAGATGACAGCAT 59.720 37.037 0.00 0.00 32.92 3.79
1408 1454 6.874134 ACCACAGTAGAATTACACAAGATGAC 59.126 38.462 0.00 0.00 31.96 3.06
1427 1479 2.693591 ACGTATCCTCATGGTACCACAG 59.306 50.000 19.09 15.84 34.23 3.66
1477 1529 6.892691 AGATCAAAAATCGAGACAAGTTGAC 58.107 36.000 10.54 3.09 0.00 3.18
1592 1644 3.583383 GCAGCACCAGCCTTACAG 58.417 61.111 0.00 0.00 43.56 2.74
1608 1660 7.816995 TCCACAAAAATATCAACAATTACAGGC 59.183 33.333 0.00 0.00 0.00 4.85
1624 1676 5.665360 CCCCCTATTACCATTCCACAAAAAT 59.335 40.000 0.00 0.00 0.00 1.82
1625 1677 5.026790 CCCCCTATTACCATTCCACAAAAA 58.973 41.667 0.00 0.00 0.00 1.94
1626 1678 4.295238 TCCCCCTATTACCATTCCACAAAA 59.705 41.667 0.00 0.00 0.00 2.44
1627 1679 3.859248 TCCCCCTATTACCATTCCACAAA 59.141 43.478 0.00 0.00 0.00 2.83
1633 1685 5.538813 GGTCAAAATCCCCCTATTACCATTC 59.461 44.000 0.00 0.00 0.00 2.67
1727 1780 4.482990 TCATGTGGAGTCCATAGCATAGA 58.517 43.478 16.67 11.05 35.28 1.98
1927 1992 2.069273 ACCTCGCAGAATTTTCAGTCG 58.931 47.619 0.00 0.00 34.09 4.18
1987 2052 7.382218 CCCTAACATTCAACTAAAGCAAACAAG 59.618 37.037 0.00 0.00 0.00 3.16
2014 2079 4.819105 AATGAACCGACTCCACTATTGA 57.181 40.909 0.00 0.00 0.00 2.57
2185 2255 2.556622 AGTGGGGCGACAAAAGTAAATG 59.443 45.455 0.00 0.00 0.00 2.32
2300 2388 6.780198 TTCAAGTTAGGGGCAATATAGGAT 57.220 37.500 0.00 0.00 0.00 3.24
2349 2437 6.214191 TGATTTTCTACTCCAGCTGTCTAG 57.786 41.667 13.81 9.53 0.00 2.43
2441 2530 2.129607 CCAAAAGCATGTGTTGTCAGC 58.870 47.619 0.00 0.00 0.00 4.26
2464 2553 6.813152 CAGGTGATAAATTGGCCTTTTTACAG 59.187 38.462 3.32 0.00 0.00 2.74
2534 2623 5.576895 GGCATTCAGCTCAAACTAGATTTC 58.423 41.667 0.00 0.00 44.79 2.17
2568 2657 8.622948 AGTTCCAGTCCTACAGAAATTTTAAG 57.377 34.615 0.00 0.00 0.00 1.85
2571 2660 9.588096 AATAAGTTCCAGTCCTACAGAAATTTT 57.412 29.630 0.00 0.00 30.21 1.82
2722 2815 5.123027 CCTGAATAAGAAGGCAAGAACAGTC 59.877 44.000 0.00 0.00 0.00 3.51
2875 2968 3.490348 CAACCCACCTGAGACAGAAAAT 58.510 45.455 0.00 0.00 32.44 1.82
3047 3140 1.128200 CCATATCCGGGTCTTCACCA 58.872 55.000 0.00 0.00 45.94 4.17
3106 3199 0.463620 AACACAAAAGTGCCGCCATT 59.536 45.000 0.00 0.00 0.00 3.16
3136 3229 2.235016 TCCAGTGGGCAATAAACACAC 58.765 47.619 9.92 0.00 37.58 3.82
3145 3238 0.392336 GCATGTTTTCCAGTGGGCAA 59.608 50.000 9.92 0.00 0.00 4.52
3155 3249 6.882610 TCATAGGATACATGGCATGTTTTC 57.117 37.500 35.36 28.73 41.63 2.29
3172 3266 3.514539 TCCAGATGGACCAGATCATAGG 58.485 50.000 0.00 0.00 39.78 2.57
3349 3447 1.947456 CGATGTGACTCGGAGATGGTA 59.053 52.381 12.86 0.00 35.03 3.25
3466 3564 2.358322 TGGACCAACAAGAAGAACCC 57.642 50.000 0.00 0.00 0.00 4.11
3479 3577 1.134936 CATACACCGTCGATTGGACCA 60.135 52.381 13.03 0.00 42.99 4.02
3608 3706 3.087781 ACTAACTCGGTCCACTACTTCC 58.912 50.000 0.00 0.00 0.00 3.46
3788 3886 1.790755 TTCAATCACAACCGTCGGAG 58.209 50.000 20.51 12.52 0.00 4.63
3790 3888 1.130373 CCATTCAATCACAACCGTCGG 59.870 52.381 10.48 10.48 0.00 4.79
3804 3905 5.511373 CCCTACGAAATCTATGCTCCATTCA 60.511 44.000 0.00 0.00 0.00 2.57
3840 3941 1.974236 CTCTTCTCTCCACACTGGGTT 59.026 52.381 0.00 0.00 38.32 4.11
3961 4062 5.577164 ACGGATTCGAAGTTTTCACTATGAG 59.423 40.000 0.00 0.00 40.11 2.90
3972 4073 0.172803 CCTCGGACGGATTCGAAGTT 59.827 55.000 0.00 0.00 40.11 2.66


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

AutoCloner maintained by Alex Coulton.