Multiple sequence alignment - TraesCS5A01G198200

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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 TraesCS5A01G198200 chr5A 100.000 3766 0 0 1 3766 402539171 402542936 0.000000e+00 6955
1 TraesCS5A01G198200 chr5D 93.954 3341 125 26 43 3327 309352790 309356109 0.000000e+00 4979
2 TraesCS5A01G198200 chr5D 81.116 233 28 13 3328 3548 309356163 309356391 5.000000e-39 172
3 TraesCS5A01G198200 chr5B 93.554 1629 83 9 1 1617 354509505 354511123 0.000000e+00 2407
4 TraesCS5A01G198200 chr5B 93.222 1018 41 6 2335 3327 354512026 354513040 0.000000e+00 1472
5 TraesCS5A01G198200 chr5B 95.455 374 15 2 1936 2309 354511658 354512029 2.500000e-166 595
6 TraesCS5A01G198200 chr5B 97.239 326 4 3 1614 1939 354511216 354511536 7.110000e-152 547
7 TraesCS5A01G198200 chr5B 81.498 227 35 5 3328 3549 354513240 354513464 2.990000e-41 180
8 TraesCS5A01G198200 chr5B 84.659 176 13 4 3598 3763 354513790 354513961 3.010000e-36 163


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 TraesCS5A01G198200 chr5A 402539171 402542936 3765 False 6955.0 6955 100.000000 1 3766 1 chr5A.!!$F1 3765
1 TraesCS5A01G198200 chr5D 309352790 309356391 3601 False 2575.5 4979 87.535000 43 3548 2 chr5D.!!$F1 3505
2 TraesCS5A01G198200 chr5B 354509505 354513961 4456 False 894.0 2407 90.937833 1 3763 6 chr5B.!!$F1 3762

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
693 703 0.034477 ACCTTTAATGGGGCCTGTCG 60.034 55.0 11.78 0.0 0.00 4.35 F
1377 1400 0.456995 CCTCCTTCGCAGTTCTCGTC 60.457 60.0 0.00 0.0 0.00 4.20 F
2288 2543 1.208259 CCGCAAGAAAAACAAGGCAC 58.792 50.0 0.00 0.0 43.02 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1524 1547 0.982704 CATGGCATGTTTTTCCCCCA 59.017 50.000 19.32 0.0 0.0 4.96 R
2392 2649 1.452025 CGCAAAGACCGCATACTATCG 59.548 52.381 0.00 0.0 0.0 2.92 R
3743 4538 0.108186 TGGCATGTAGAGAAGCACGG 60.108 55.000 0.00 0.0 0.0 4.94 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
22 23 0.249911 AGCCACCTCAACGTGAACTC 60.250 55.000 0.00 0.00 35.68 3.01
26 27 1.986378 CACCTCAACGTGAACTCGATC 59.014 52.381 0.00 0.00 35.68 3.69
28 29 1.202582 CCTCAACGTGAACTCGATCCT 59.797 52.381 0.00 0.00 34.70 3.24
54 55 4.897076 TCCCAATAATAGTCTCCGCTACAA 59.103 41.667 0.00 0.00 0.00 2.41
57 58 6.812160 CCCAATAATAGTCTCCGCTACAATAC 59.188 42.308 0.00 0.00 0.00 1.89
58 59 6.527023 CCAATAATAGTCTCCGCTACAATACG 59.473 42.308 0.00 0.00 0.00 3.06
59 60 6.814506 ATAATAGTCTCCGCTACAATACGT 57.185 37.500 0.00 0.00 0.00 3.57
60 61 7.912056 ATAATAGTCTCCGCTACAATACGTA 57.088 36.000 0.00 0.00 0.00 3.57
96 97 1.447838 AGGTACATTCACGCGGCTG 60.448 57.895 12.47 0.00 0.00 4.85
173 174 2.126463 CGAAGCGAGACCAAGCGA 60.126 61.111 0.00 0.00 38.61 4.93
398 399 3.432588 ACACGCTCTCTCGTCGGG 61.433 66.667 0.00 0.00 41.21 5.14
399 400 3.432588 CACGCTCTCTCGTCGGGT 61.433 66.667 0.00 0.00 41.21 5.28
400 401 3.126225 ACGCTCTCTCGTCGGGTC 61.126 66.667 0.00 0.00 38.44 4.46
514 522 3.125573 GGGGGTTTCGCTTCTCGC 61.126 66.667 0.00 0.00 38.27 5.03
524 532 2.863153 CTTCTCGCTGCGTTTGGG 59.137 61.111 22.48 8.38 0.00 4.12
536 544 4.986708 TTTGGGGTCTTGCCGGGC 62.987 66.667 13.32 13.32 38.44 6.13
558 566 1.581447 GGTTTTCGAGCAGGCAAGG 59.419 57.895 0.00 0.00 0.00 3.61
636 646 1.538047 CCCAGTGTTGATCCTGTTGG 58.462 55.000 0.00 0.00 0.00 3.77
641 651 4.216257 CCAGTGTTGATCCTGTTGGTTTAG 59.784 45.833 0.00 0.00 34.23 1.85
654 664 1.384222 GGTTTAGCGCCTGGATTGGG 61.384 60.000 2.29 0.00 0.00 4.12
656 666 0.329931 TTTAGCGCCTGGATTGGGAA 59.670 50.000 2.29 0.00 0.00 3.97
657 667 0.329931 TTAGCGCCTGGATTGGGAAA 59.670 50.000 2.29 0.00 0.00 3.13
688 698 1.784358 GGGTTACCTTTAATGGGGCC 58.216 55.000 11.78 0.00 0.00 5.80
690 700 2.384828 GGTTACCTTTAATGGGGCCTG 58.615 52.381 11.78 0.00 0.00 4.85
693 703 0.034477 ACCTTTAATGGGGCCTGTCG 60.034 55.000 11.78 0.00 0.00 4.35
698 708 2.265467 TAATGGGGCCTGTCGCTTCC 62.265 60.000 0.84 0.00 37.74 3.46
732 742 6.090088 CGAATCAGTGGACTAGAACAAGAAAG 59.910 42.308 0.00 0.00 0.00 2.62
803 813 1.743394 GCGGCACCTTTATTTGCTACT 59.257 47.619 0.00 0.00 38.85 2.57
804 814 2.477863 GCGGCACCTTTATTTGCTACTG 60.478 50.000 0.00 0.00 38.85 2.74
937 951 4.763594 TTTCGTTTGATTTTGCCGAAAC 57.236 36.364 0.00 0.00 41.09 2.78
992 1006 3.804759 GCAAGGAGCAAGGCATTTTTCTT 60.805 43.478 0.00 0.00 44.79 2.52
1278 1301 2.114411 GGTTGCCTTTCCGGGTCA 59.886 61.111 0.00 0.00 0.00 4.02
1371 1394 1.976112 GGAGACCTCCTTCGCAGTT 59.024 57.895 8.76 0.00 46.16 3.16
1377 1400 0.456995 CCTCCTTCGCAGTTCTCGTC 60.457 60.000 0.00 0.00 0.00 4.20
1513 1536 7.724305 TCTACCAAGTTCTTGTGTTTACATC 57.276 36.000 10.93 0.00 36.53 3.06
1518 1541 3.058914 AGTTCTTGTGTTTACATCTGCGC 60.059 43.478 0.00 0.00 36.53 6.09
1522 1545 2.488952 TGTGTTTACATCTGCGCAGAA 58.511 42.857 40.83 24.33 41.36 3.02
1523 1546 3.073678 TGTGTTTACATCTGCGCAGAAT 58.926 40.909 40.83 32.19 41.36 2.40
1524 1547 3.501828 TGTGTTTACATCTGCGCAGAATT 59.498 39.130 40.83 30.97 41.36 2.17
1525 1548 3.848019 GTGTTTACATCTGCGCAGAATTG 59.152 43.478 40.83 34.87 41.36 2.32
1529 1553 1.454479 ATCTGCGCAGAATTGGGGG 60.454 57.895 40.83 12.82 41.36 5.40
1678 1800 4.327680 AGTCTGGCACCTTTTCAGTTATC 58.672 43.478 0.00 0.00 0.00 1.75
1771 1893 6.128795 GGATAAGCCGATAAGATTCGTTCTTG 60.129 42.308 11.84 0.00 44.54 3.02
1828 1950 5.050490 CACAACTACTACTGGTCATATGCC 58.950 45.833 0.00 3.57 0.00 4.40
1924 2054 4.637534 TTTGAGATTCCTATGCTCAACAGC 59.362 41.667 0.00 0.00 45.30 4.40
2153 2408 2.290641 GTGTGCTGTAGTTGAGGTTTGG 59.709 50.000 0.00 0.00 0.00 3.28
2192 2447 3.987868 TGTGCTACTTCGACTTGTGAATC 59.012 43.478 0.00 0.00 0.00 2.52
2195 2450 3.301116 GCTACTTCGACTTGTGAATCGAC 59.699 47.826 0.00 0.00 46.41 4.20
2204 2459 5.681982 CGACTTGTGAATCGACTCTATAACC 59.318 44.000 0.00 0.00 40.86 2.85
2288 2543 1.208259 CCGCAAGAAAAACAAGGCAC 58.792 50.000 0.00 0.00 43.02 5.01
2319 2574 8.946085 CATATTACTTTATTACACCCGCATCAT 58.054 33.333 0.00 0.00 0.00 2.45
2392 2649 5.212194 CACCAGCACTGTATTTGTTACAAC 58.788 41.667 0.00 0.00 40.27 3.32
2556 2813 0.469070 TGCCTGCTTGTGCCATTTTT 59.531 45.000 0.00 0.00 38.71 1.94
2703 2979 6.641169 ATTTTTCTGACACTCTTCTTTCCC 57.359 37.500 0.00 0.00 0.00 3.97
2715 2991 0.768622 TCTTTCCCTTTTCCGCTCCA 59.231 50.000 0.00 0.00 0.00 3.86
2788 3064 4.857509 ATCTGGAATCTCCGTTAGCTAC 57.142 45.455 0.00 0.00 40.17 3.58
3144 3426 5.053811 TGGTGTCATTTGCCGTGTATATAG 58.946 41.667 0.00 0.00 0.00 1.31
3257 3539 4.151512 AGCTTTTTGTGTTTTTGTGGAACG 59.848 37.500 0.00 0.00 42.39 3.95
3385 3866 2.001076 TCCTGCAAGACTGAGACTGA 57.999 50.000 0.00 0.00 34.07 3.41
3390 3871 2.695147 TGCAAGACTGAGACTGAACTGA 59.305 45.455 0.00 0.00 0.00 3.41
3396 3877 6.418057 AGACTGAGACTGAACTGAAGATTT 57.582 37.500 0.00 0.00 0.00 2.17
3418 3899 0.881118 AGTACGGCCTTGCAAATGTG 59.119 50.000 0.00 0.00 0.00 3.21
3456 3937 3.643159 GGTTTGGACCTGTTGATCAAC 57.357 47.619 28.10 28.10 42.99 3.18
3457 3938 2.296190 GGTTTGGACCTGTTGATCAACC 59.704 50.000 30.66 18.24 42.99 3.77
3458 3939 3.222603 GTTTGGACCTGTTGATCAACCT 58.777 45.455 30.66 16.16 40.46 3.50
3459 3940 2.859165 TGGACCTGTTGATCAACCTC 57.141 50.000 30.66 22.00 40.46 3.85
3500 4008 5.958955 AGAAGGCATGCATTCTTTTTAGAC 58.041 37.500 35.11 13.19 43.34 2.59
3514 4022 5.815740 TCTTTTTAGACGCTGAGAACTTTGT 59.184 36.000 0.00 0.00 0.00 2.83
3527 4035 4.079253 AGAACTTTGTGGTGGCGATTATT 58.921 39.130 0.00 0.00 0.00 1.40
3532 4040 5.047377 ACTTTGTGGTGGCGATTATTGAAAT 60.047 36.000 0.00 0.00 0.00 2.17
3550 4058 8.688747 ATTGAAATAATCTGGAACTCAGGATC 57.311 34.615 0.00 0.00 43.53 3.36
3553 4061 5.720371 ATAATCTGGAACTCAGGATCTCG 57.280 43.478 0.00 0.00 43.53 4.04
3562 4268 4.744795 ACTCAGGATCTCGCTAAATTGT 57.255 40.909 0.00 0.00 0.00 2.71
3580 4286 3.520290 TGTGAGCCTCCTTATTACACG 57.480 47.619 0.00 0.00 0.00 4.49
3584 4290 1.553248 AGCCTCCTTATTACACGCACA 59.447 47.619 0.00 0.00 0.00 4.57
3608 4393 4.095334 CCGTTCATGGCATATATCACATGG 59.905 45.833 18.89 8.79 40.69 3.66
3623 4408 4.606961 TCACATGGCGAAAAAGAAGTTTC 58.393 39.130 0.00 0.00 34.71 2.78
3625 4410 2.766970 TGGCGAAAAAGAAGTTTCCG 57.233 45.000 0.00 0.00 34.59 4.30
3627 4412 1.335597 GGCGAAAAAGAAGTTTCCGGG 60.336 52.381 0.00 0.00 34.59 5.73
3647 4442 4.401022 GGGCCTTCATGATCATACAATGA 58.599 43.478 8.15 0.00 44.55 2.57
3649 4444 5.278660 GGGCCTTCATGATCATACAATGAAC 60.279 44.000 8.15 0.00 43.50 3.18
3679 4474 2.577772 TTGTCGCCTGCAGCTCTCT 61.578 57.895 8.66 0.00 40.39 3.10
3690 4485 1.112950 CAGCTCTCTGATGCCTCTCA 58.887 55.000 0.00 0.00 42.95 3.27
3693 4488 1.067516 GCTCTCTGATGCCTCTCAGAC 59.932 57.143 6.63 0.00 45.13 3.51
3694 4489 2.377073 CTCTCTGATGCCTCTCAGACA 58.623 52.381 6.63 0.00 45.13 3.41
3695 4490 2.359848 CTCTCTGATGCCTCTCAGACAG 59.640 54.545 6.63 3.68 45.13 3.51
3696 4491 2.101783 CTCTGATGCCTCTCAGACAGT 58.898 52.381 6.63 0.00 45.13 3.55
3699 4494 2.233186 CTGATGCCTCTCAGACAGTCAA 59.767 50.000 2.66 0.00 44.48 3.18
3716 4511 8.153550 AGACAGTCAAGTGATATCTGAAGTTTT 58.846 33.333 2.66 0.00 0.00 2.43
3763 4558 1.675714 CCGTGCTTCTCTACATGCCAA 60.676 52.381 0.00 0.00 0.00 4.52
3764 4559 2.283298 CGTGCTTCTCTACATGCCAAT 58.717 47.619 0.00 0.00 0.00 3.16
3765 4560 2.031314 CGTGCTTCTCTACATGCCAATG 59.969 50.000 0.00 0.00 39.89 2.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.557443 CGAGTTCACGTTGAGGTGGC 61.557 60.000 4.24 0.00 38.46 5.01
7 8 1.067776 GGATCGAGTTCACGTTGAGGT 60.068 52.381 0.00 0.00 34.70 3.85
22 23 6.406400 GGAGACTATTATTGGGATGAGGATCG 60.406 46.154 0.00 0.00 38.61 3.69
26 27 4.621747 GCGGAGACTATTATTGGGATGAGG 60.622 50.000 0.00 0.00 0.00 3.86
28 29 4.160329 AGCGGAGACTATTATTGGGATGA 58.840 43.478 0.00 0.00 0.00 2.92
57 58 7.337377 ACCTGGAATGGTTACACGTACTACG 62.337 48.000 7.07 7.07 41.95 3.51
58 59 4.082026 ACCTGGAATGGTTACACGTACTAC 60.082 45.833 0.00 0.00 36.89 2.73
59 60 4.088634 ACCTGGAATGGTTACACGTACTA 58.911 43.478 0.00 0.00 36.89 1.82
60 61 2.901839 ACCTGGAATGGTTACACGTACT 59.098 45.455 0.00 0.00 36.89 2.73
170 171 4.050934 CCGGCTGGGGTTTTTCGC 62.051 66.667 2.57 0.00 0.00 4.70
347 348 2.758770 TATAATCCGCTCGCCACGCC 62.759 60.000 0.00 0.00 0.00 5.68
351 352 3.780902 CACATATATAATCCGCTCGCCA 58.219 45.455 0.00 0.00 0.00 5.69
398 399 0.685097 TAGGAGCAACCACCACTGAC 59.315 55.000 2.96 0.00 42.04 3.51
399 400 0.976641 CTAGGAGCAACCACCACTGA 59.023 55.000 2.96 0.00 42.04 3.41
400 401 0.687354 ACTAGGAGCAACCACCACTG 59.313 55.000 0.00 0.00 42.04 3.66
427 428 8.715998 CGGATCCAGATTGTGATTAATAAAGAG 58.284 37.037 13.41 0.00 0.00 2.85
514 522 2.644992 GCAAGACCCCAAACGCAG 59.355 61.111 0.00 0.00 0.00 5.18
558 566 7.984422 AATCACCCAAAATTGAAAGGAAATC 57.016 32.000 0.00 0.00 0.00 2.17
568 576 6.318396 ACAGGAAAACAAATCACCCAAAATTG 59.682 34.615 0.00 0.00 0.00 2.32
636 646 0.393808 TCCCAATCCAGGCGCTAAAC 60.394 55.000 7.64 0.00 0.00 2.01
641 651 0.536724 AAATTTCCCAATCCAGGCGC 59.463 50.000 0.00 0.00 0.00 6.53
688 698 2.504244 GACGACGGGAAGCGACAG 60.504 66.667 0.00 0.00 0.00 3.51
698 708 2.202440 ACTGATTCGCGACGACGG 60.202 61.111 9.15 10.92 40.15 4.79
821 831 6.829298 TGAAACAGACACAATGGGTAACTTTA 59.171 34.615 0.00 0.00 0.00 1.85
937 951 2.814269 TCGCTCCGATCAGATCAAAAG 58.186 47.619 11.12 5.46 0.00 2.27
1014 1028 1.168714 GCCAGTGTGTGAATCTTCCC 58.831 55.000 0.00 0.00 0.00 3.97
1017 1031 2.551721 CCAGAGCCAGTGTGTGAATCTT 60.552 50.000 0.00 0.00 0.00 2.40
1018 1032 1.002888 CCAGAGCCAGTGTGTGAATCT 59.997 52.381 0.00 0.00 0.00 2.40
1215 1238 1.376543 TGTCGTACTCCCTGTCGATC 58.623 55.000 0.00 0.00 33.46 3.69
1263 1286 1.374947 CTCTGACCCGGAAAGGCAA 59.625 57.895 0.73 0.00 39.21 4.52
1368 1391 0.971447 GGTAGCAGGGGACGAGAACT 60.971 60.000 0.00 0.00 0.00 3.01
1371 1394 2.439701 CGGTAGCAGGGGACGAGA 60.440 66.667 0.00 0.00 0.00 4.04
1513 1536 1.250154 TTTCCCCCAATTCTGCGCAG 61.250 55.000 31.53 31.53 0.00 5.18
1518 1541 3.337358 GCATGTTTTTCCCCCAATTCTG 58.663 45.455 0.00 0.00 0.00 3.02
1522 1545 1.739750 TGGCATGTTTTTCCCCCAAT 58.260 45.000 0.00 0.00 0.00 3.16
1523 1546 1.350351 CATGGCATGTTTTTCCCCCAA 59.650 47.619 19.32 0.00 0.00 4.12
1524 1547 0.982704 CATGGCATGTTTTTCCCCCA 59.017 50.000 19.32 0.00 0.00 4.96
1525 1548 0.983467 ACATGGCATGTTTTTCCCCC 59.017 50.000 26.78 0.00 41.63 5.40
1771 1893 3.113260 AGTACAACAGCAAGAGACACC 57.887 47.619 0.00 0.00 0.00 4.16
1828 1950 5.291178 TCAACAGCTCCAAACATGAAAATG 58.709 37.500 0.00 0.00 0.00 2.32
2067 2322 6.884836 ACAAGTTTAACAACTGAAGAGGTCTT 59.115 34.615 0.00 0.00 42.89 3.01
2153 2408 2.129607 CACATTTTGACACAGCAAGCC 58.870 47.619 0.00 0.00 0.00 4.35
2192 2447 8.934507 AAAGAAGAATGAAGGTTATAGAGTCG 57.065 34.615 0.00 0.00 0.00 4.18
2195 2450 8.825745 GCTGAAAGAAGAATGAAGGTTATAGAG 58.174 37.037 0.00 0.00 34.07 2.43
2204 2459 6.853720 ACATGATGCTGAAAGAAGAATGAAG 58.146 36.000 0.00 0.00 34.07 3.02
2288 2543 7.858879 GCGGGTGTAATAAAGTAATATGTTTGG 59.141 37.037 0.00 0.00 0.00 3.28
2392 2649 1.452025 CGCAAAGACCGCATACTATCG 59.548 52.381 0.00 0.00 0.00 2.92
2401 2658 2.349532 GCTATTATTCCGCAAAGACCGC 60.350 50.000 0.00 0.00 0.00 5.68
2618 2875 6.633500 AACATTGCTAGCAACTAAAACTCA 57.367 33.333 31.51 6.59 38.88 3.41
2715 2991 8.463930 TGTTCTACAAAATTCTTTCCATCTGT 57.536 30.769 0.00 0.00 0.00 3.41
2788 3064 9.736023 TGATACTGAGCAATAATATATACAGCG 57.264 33.333 0.00 0.00 0.00 5.18
2859 3135 6.530019 TGCTCCTCTTTTTGTTCTTTTTCT 57.470 33.333 0.00 0.00 0.00 2.52
3199 3481 3.511146 TGAATTTCACAAGGAGCAATCCC 59.489 43.478 0.00 0.00 0.00 3.85
3240 3522 1.893801 ACCCGTTCCACAAAAACACAA 59.106 42.857 0.00 0.00 0.00 3.33
3257 3539 3.573967 TCAGAAAATTGAGCCAAGAACCC 59.426 43.478 0.00 0.00 0.00 4.11
3371 3852 5.193663 TCTTCAGTTCAGTCTCAGTCTTG 57.806 43.478 0.00 0.00 0.00 3.02
3375 3856 8.207545 ACTTTAAATCTTCAGTTCAGTCTCAGT 58.792 33.333 0.00 0.00 0.00 3.41
3385 3866 5.557866 AGGCCGTACTTTAAATCTTCAGTT 58.442 37.500 0.00 0.00 0.00 3.16
3390 3871 4.076394 TGCAAGGCCGTACTTTAAATCTT 58.924 39.130 0.00 0.00 0.00 2.40
3396 3877 3.057876 CACATTTGCAAGGCCGTACTTTA 60.058 43.478 0.00 0.00 0.00 1.85
3418 3899 1.136147 CTCGCTGAATGCCAACTGC 59.864 57.895 0.00 0.00 38.78 4.40
3419 3900 0.957395 ACCTCGCTGAATGCCAACTG 60.957 55.000 0.00 0.00 38.78 3.16
3420 3901 0.250901 AACCTCGCTGAATGCCAACT 60.251 50.000 0.00 0.00 38.78 3.16
3421 3902 0.598065 AAACCTCGCTGAATGCCAAC 59.402 50.000 0.00 0.00 38.78 3.77
3422 3903 0.597568 CAAACCTCGCTGAATGCCAA 59.402 50.000 0.00 0.00 38.78 4.52
3423 3904 1.243342 CCAAACCTCGCTGAATGCCA 61.243 55.000 0.00 0.00 38.78 4.92
3424 3905 0.960364 TCCAAACCTCGCTGAATGCC 60.960 55.000 0.00 0.00 38.78 4.40
3425 3906 0.169009 GTCCAAACCTCGCTGAATGC 59.831 55.000 0.00 0.00 38.57 3.56
3426 3907 0.804989 GGTCCAAACCTCGCTGAATG 59.195 55.000 0.00 0.00 42.80 2.67
3427 3908 3.249687 GGTCCAAACCTCGCTGAAT 57.750 52.632 0.00 0.00 42.80 2.57
3428 3909 4.792087 GGTCCAAACCTCGCTGAA 57.208 55.556 0.00 0.00 42.80 3.02
3436 3917 2.296190 GGTTGATCAACAGGTCCAAACC 59.704 50.000 33.42 14.31 42.85 3.27
3498 4006 1.261619 CACCACAAAGTTCTCAGCGTC 59.738 52.381 0.00 0.00 0.00 5.19
3500 4008 0.588252 CCACCACAAAGTTCTCAGCG 59.412 55.000 0.00 0.00 0.00 5.18
3527 4035 7.443302 AGATCCTGAGTTCCAGATTATTTCA 57.557 36.000 0.00 0.00 45.78 2.69
3532 4040 3.319405 GCGAGATCCTGAGTTCCAGATTA 59.681 47.826 0.00 0.00 45.78 1.75
3536 4044 1.110442 AGCGAGATCCTGAGTTCCAG 58.890 55.000 0.00 0.00 42.55 3.86
3540 4048 4.872691 CACAATTTAGCGAGATCCTGAGTT 59.127 41.667 0.00 0.00 0.00 3.01
3545 4053 3.462021 GCTCACAATTTAGCGAGATCCT 58.538 45.455 0.00 0.00 0.00 3.24
3549 4057 2.418746 GGAGGCTCACAATTTAGCGAGA 60.419 50.000 17.69 0.00 39.71 4.04
3550 4058 1.936547 GGAGGCTCACAATTTAGCGAG 59.063 52.381 17.69 0.00 39.71 5.03
3553 4061 6.542370 TGTAATAAGGAGGCTCACAATTTAGC 59.458 38.462 17.69 6.80 38.03 3.09
3562 4268 1.828595 TGCGTGTAATAAGGAGGCTCA 59.171 47.619 17.69 0.00 0.00 4.26
3580 4286 1.024271 ATATGCCATGAACGGTGTGC 58.976 50.000 0.00 0.00 0.00 4.57
3584 4290 4.350368 TGTGATATATGCCATGAACGGT 57.650 40.909 0.00 0.00 0.00 4.83
3592 4298 3.415457 TTCGCCATGTGATATATGCCA 57.585 42.857 0.00 0.00 0.00 4.92
3594 4300 6.000891 TCTTTTTCGCCATGTGATATATGC 57.999 37.500 0.00 0.00 0.00 3.14
3608 4393 1.929038 GCCCGGAAACTTCTTTTTCGC 60.929 52.381 0.73 0.00 43.89 4.70
3623 4408 1.072173 TGTATGATCATGAAGGCCCGG 59.928 52.381 18.72 0.00 0.00 5.73
3625 4410 4.401022 TCATTGTATGATCATGAAGGCCC 58.599 43.478 18.72 0.00 33.59 5.80
3627 4412 5.446709 CGTTCATTGTATGATCATGAAGGC 58.553 41.667 18.72 3.08 39.39 4.35
3647 4442 1.768112 CGACAACAAACTCCGGCGTT 61.768 55.000 3.39 3.39 0.00 4.84
3649 4444 2.549282 CGACAACAAACTCCGGCG 59.451 61.111 0.00 0.00 0.00 6.46
3679 4474 1.928868 TGACTGTCTGAGAGGCATCA 58.071 50.000 6.21 0.00 0.00 3.07
3690 4485 6.849085 ACTTCAGATATCACTTGACTGTCT 57.151 37.500 9.51 0.00 0.00 3.41
3716 4511 1.810151 GGCGGTGATCTGCACTTAAAA 59.190 47.619 7.32 0.00 46.86 1.52
3718 4513 0.323302 TGGCGGTGATCTGCACTTAA 59.677 50.000 7.32 0.00 46.86 1.85
3743 4538 0.108186 TGGCATGTAGAGAAGCACGG 60.108 55.000 0.00 0.00 0.00 4.94
3744 4539 1.725641 TTGGCATGTAGAGAAGCACG 58.274 50.000 0.00 0.00 0.00 5.34


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

AutoCloner maintained by Alex Coulton.