Multiple sequence alignment - TraesCS5D01G210000

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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 TraesCS5D01G210000 chr5D 100.000 5047 0 0 1 5047 318440828 318445874 0.000000e+00 9321
1 TraesCS5D01G210000 chr5D 75.377 597 131 13 1341 1929 204075212 204075800 1.790000e-69 274
2 TraesCS5D01G210000 chr5D 92.308 91 7 0 4322 4412 125171180 125171270 4.100000e-26 130
3 TraesCS5D01G210000 chr5A 91.622 5168 173 99 53 5047 413040272 413045352 0.000000e+00 6905
4 TraesCS5D01G210000 chr5A 74.539 597 136 14 1341 1929 238694896 238695484 3.900000e-61 246
5 TraesCS5D01G210000 chr5B 94.414 3133 104 27 1 3081 368485094 368488207 0.000000e+00 4750
6 TraesCS5D01G210000 chr5B 90.524 1087 52 20 3135 4199 368488209 368489266 0.000000e+00 1389
7 TraesCS5D01G210000 chr5B 87.016 439 21 11 4472 4877 368489797 368490232 3.560000e-126 462
8 TraesCS5D01G210000 chr5B 74.874 597 134 13 1341 1929 208258255 208258843 1.800000e-64 257
9 TraesCS5D01G210000 chr4B 85.897 156 19 3 4265 4418 218843535 218843689 4.040000e-36 163
10 TraesCS5D01G210000 chr3B 82.781 151 23 3 4265 4413 282200196 282200047 1.140000e-26 132
11 TraesCS5D01G210000 chr6B 82.353 153 22 4 4265 4413 645636582 645636431 1.470000e-25 128


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 TraesCS5D01G210000 chr5D 318440828 318445874 5046 False 9321.000000 9321 100.000000 1 5047 1 chr5D.!!$F3 5046
1 TraesCS5D01G210000 chr5D 204075212 204075800 588 False 274.000000 274 75.377000 1341 1929 1 chr5D.!!$F2 588
2 TraesCS5D01G210000 chr5A 413040272 413045352 5080 False 6905.000000 6905 91.622000 53 5047 1 chr5A.!!$F2 4994
3 TraesCS5D01G210000 chr5A 238694896 238695484 588 False 246.000000 246 74.539000 1341 1929 1 chr5A.!!$F1 588
4 TraesCS5D01G210000 chr5B 368485094 368490232 5138 False 2200.333333 4750 90.651333 1 4877 3 chr5B.!!$F2 4876
5 TraesCS5D01G210000 chr5B 208258255 208258843 588 False 257.000000 257 74.874000 1341 1929 1 chr5B.!!$F1 588

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
51 52 0.883370 GGAAACCGTGGTGACTGACC 60.883 60.0 0.00 0.0 46.37 4.02 F
595 668 1.014564 CGCCACCCTCTTTCGAGTTC 61.015 60.0 0.00 0.0 35.43 3.01 F
1704 1792 0.665835 TGCGCAAGAAATTCAACCGT 59.334 45.0 8.16 0.0 43.02 4.83 F
3506 3605 0.881796 GGTGAAGCCACAGGTAAAGC 59.118 55.0 0.00 0.0 44.93 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1704 1792 1.376466 GAAGAAGCCCAGCCTGACA 59.624 57.895 0.00 0.0 0.00 3.58 R
2450 2538 1.471684 GCATGCTCTTCTTCCTTGTGG 59.528 52.381 11.37 0.0 0.00 4.17 R
3685 3799 0.171231 CGACGCAGAGGATGAAGTCA 59.829 55.000 0.00 0.0 37.72 3.41 R
4897 5509 0.250124 CCGTCTAAGCAACACCACCA 60.250 55.000 0.00 0.0 0.00 4.17 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
51 52 0.883370 GGAAACCGTGGTGACTGACC 60.883 60.000 0.00 0.00 46.37 4.02
62 63 2.416162 GGTGACTGACCGATCTCTTGTC 60.416 54.545 0.00 0.00 34.02 3.18
202 227 2.813908 GCTGTTAGGTGGACGGCG 60.814 66.667 4.80 4.80 39.36 6.46
254 289 4.683400 CGATGTTTATCCAGGGTGCTTAGT 60.683 45.833 0.00 0.00 0.00 2.24
375 411 9.267084 GAGAAAAATACTCTATCCATTCCAGTC 57.733 37.037 0.00 0.00 0.00 3.51
376 412 8.997734 AGAAAAATACTCTATCCATTCCAGTCT 58.002 33.333 0.00 0.00 0.00 3.24
377 413 9.620259 GAAAAATACTCTATCCATTCCAGTCTT 57.380 33.333 0.00 0.00 0.00 3.01
378 414 9.620259 AAAAATACTCTATCCATTCCAGTCTTC 57.380 33.333 0.00 0.00 0.00 2.87
379 415 7.921041 AATACTCTATCCATTCCAGTCTTCA 57.079 36.000 0.00 0.00 0.00 3.02
380 416 5.606348 ACTCTATCCATTCCAGTCTTCAC 57.394 43.478 0.00 0.00 0.00 3.18
384 439 6.409704 TCTATCCATTCCAGTCTTCACAAAG 58.590 40.000 0.00 0.00 0.00 2.77
503 566 4.626081 CGATCACCCCCGCATCCC 62.626 72.222 0.00 0.00 0.00 3.85
595 668 1.014564 CGCCACCCTCTTTCGAGTTC 61.015 60.000 0.00 0.00 35.43 3.01
605 678 2.287915 TCTTTCGAGTTCTTGTTGCTGC 59.712 45.455 0.00 0.00 0.00 5.25
619 692 1.026182 TGCTGCTTAATGCTGGTCCG 61.026 55.000 0.00 0.00 43.37 4.79
857 933 2.143925 CTAAATCTCGCCCGGATTTCC 58.856 52.381 0.73 0.00 41.66 3.13
1704 1792 0.665835 TGCGCAAGAAATTCAACCGT 59.334 45.000 8.16 0.00 43.02 4.83
1716 1804 4.643387 AACCGTGTCAGGCTGGGC 62.643 66.667 15.73 8.78 33.69 5.36
1964 2052 1.478654 GCCGGTGGGGATACATTTGAT 60.479 52.381 1.90 0.00 38.47 2.57
2104 2192 2.399916 AGGCATCAGTCTGAAGCTTC 57.600 50.000 24.82 19.89 40.56 3.86
2418 2506 2.897271 TTGCTAGGCAAGGGAATGAA 57.103 45.000 0.51 0.00 43.99 2.57
2484 2572 1.959899 GCATGCTTGTCGTGTCGGAG 61.960 60.000 11.37 0.00 34.19 4.63
2499 2587 1.699656 CGGAGTTCATTGGCTGCTCG 61.700 60.000 0.00 0.00 0.00 5.03
2547 2635 3.117701 TGAACCCTTGGAACATTGAGTCA 60.118 43.478 0.00 0.00 39.30 3.41
2850 2938 3.318275 TCTTGGACTATGATGGTACGCTC 59.682 47.826 0.00 0.00 0.00 5.03
2869 2957 2.606725 CTCATGCCTGAGTCATCGTTTC 59.393 50.000 10.57 0.00 43.35 2.78
2938 3026 2.003301 GCGATGAGAAGAACTTGGTCC 58.997 52.381 0.00 0.00 0.00 4.46
3074 3164 6.490040 CCCTGAAAATTCTCAAGTACCTTCAA 59.510 38.462 0.00 0.00 0.00 2.69
3091 3181 9.612620 GTACCTTCAATGTTGAAATGAAACTAG 57.387 33.333 9.24 0.00 45.61 2.57
3093 3183 8.137437 ACCTTCAATGTTGAAATGAAACTAGTG 58.863 33.333 9.24 0.00 45.61 2.74
3123 3222 9.517609 CTACTATGACTTTGTACTGTACATTCC 57.482 37.037 20.31 11.01 38.68 3.01
3133 3232 8.911918 TTGTACTGTACATTCCAATTAACACT 57.088 30.769 20.31 0.00 38.68 3.55
3261 3360 3.721370 AATGGGAGACATGCGGCCC 62.721 63.158 9.75 9.75 40.44 5.80
3382 3481 2.033194 GTGGTGCTACAAGGACGCC 61.033 63.158 0.00 0.00 37.44 5.68
3506 3605 0.881796 GGTGAAGCCACAGGTAAAGC 59.118 55.000 0.00 0.00 44.93 3.51
3553 3655 3.719268 TTCCTACCGTACCTAGTGTGA 57.281 47.619 0.00 0.00 0.00 3.58
3558 3660 2.176889 ACCGTACCTAGTGTGATTGCT 58.823 47.619 0.00 0.00 0.00 3.91
3560 3662 2.930040 CCGTACCTAGTGTGATTGCTTG 59.070 50.000 0.00 0.00 0.00 4.01
3561 3663 2.348666 CGTACCTAGTGTGATTGCTTGC 59.651 50.000 0.00 0.00 0.00 4.01
3709 3823 2.123251 ATCCTCTGCGTCGGGGAT 60.123 61.111 2.12 2.12 34.16 3.85
3802 3916 1.675641 GGTCTTCGCCTGCACCATT 60.676 57.895 0.00 0.00 0.00 3.16
3918 4032 3.077556 GCTGGAGGAGGGCGAAGA 61.078 66.667 0.00 0.00 0.00 2.87
3919 4033 3.087666 GCTGGAGGAGGGCGAAGAG 62.088 68.421 0.00 0.00 0.00 2.85
3955 4069 2.157833 AGACCCTCCTTACCCTTTCCTT 60.158 50.000 0.00 0.00 0.00 3.36
4129 4248 1.452145 TTGTTCTGCCTGTTTCGCCC 61.452 55.000 0.00 0.00 0.00 6.13
4130 4249 1.896660 GTTCTGCCTGTTTCGCCCA 60.897 57.895 0.00 0.00 0.00 5.36
4221 4722 7.463544 GCTGTTTTAATTTGCACTTTCTTTGT 58.536 30.769 0.00 0.00 0.00 2.83
4271 4800 2.245159 TGCTGTTGGTCTGAGAACTG 57.755 50.000 0.00 0.00 0.00 3.16
4272 4801 1.202687 TGCTGTTGGTCTGAGAACTGG 60.203 52.381 0.00 0.00 0.00 4.00
4273 4802 1.879796 GCTGTTGGTCTGAGAACTGGG 60.880 57.143 0.00 0.00 0.00 4.45
4274 4803 0.108585 TGTTGGTCTGAGAACTGGGC 59.891 55.000 0.00 0.00 0.00 5.36
4275 4804 0.951040 GTTGGTCTGAGAACTGGGCG 60.951 60.000 0.00 0.00 0.00 6.13
4276 4805 1.407656 TTGGTCTGAGAACTGGGCGT 61.408 55.000 0.00 0.00 0.00 5.68
4277 4806 0.541063 TGGTCTGAGAACTGGGCGTA 60.541 55.000 0.00 0.00 0.00 4.42
4318 4847 4.641645 TTCGCACCCAGCCCACTG 62.642 66.667 0.00 0.00 44.05 3.66
4332 4861 0.673985 CCACTGGTGTTCGAGTCTCA 59.326 55.000 0.00 0.00 30.46 3.27
4356 4885 3.345808 GCGCTTGGTGCTCACGAA 61.346 61.111 0.00 0.00 40.11 3.85
4357 4886 2.892334 GCGCTTGGTGCTCACGAAA 61.892 57.895 0.00 0.00 40.11 3.46
4403 4932 2.317530 GCTAGTCTAGCCCAAGTTGG 57.682 55.000 19.57 15.52 45.95 3.77
4404 4933 1.555533 GCTAGTCTAGCCCAAGTTGGT 59.444 52.381 19.57 5.71 45.95 3.67
4405 4934 2.418884 GCTAGTCTAGCCCAAGTTGGTC 60.419 54.545 19.57 8.15 45.95 4.02
4406 4935 2.031495 AGTCTAGCCCAAGTTGGTCT 57.969 50.000 20.54 15.87 35.17 3.85
4494 5028 1.139520 GCGCCAATGATTTCGCCTT 59.860 52.632 9.55 0.00 41.53 4.35
4752 5305 1.164411 GGTTGGTTGATCATCGTGCA 58.836 50.000 0.00 0.00 0.00 4.57
4760 5313 0.871592 GATCATCGTGCACGCTAGCA 60.872 55.000 33.63 17.29 43.35 3.49
4855 5442 3.012730 AGATTGGATTGGGTTGGATTGGA 59.987 43.478 0.00 0.00 0.00 3.53
4859 5446 3.245911 TGGATTGGGTTGGATTGGATTGA 60.246 43.478 0.00 0.00 0.00 2.57
4864 5451 2.566724 GGGTTGGATTGGATTGAAGCAA 59.433 45.455 0.00 0.00 0.00 3.91
4897 5509 8.331931 TGGTTAGGTTAATGAATCTACTCCAT 57.668 34.615 3.31 0.00 32.24 3.41
4914 5528 1.812571 CCATGGTGGTGTTGCTTAGAC 59.187 52.381 2.57 0.00 31.35 2.59
4931 5545 2.127758 CGGAAGACGCAACGCAAC 60.128 61.111 0.00 0.00 34.82 4.17
4932 5546 2.127758 GGAAGACGCAACGCAACG 60.128 61.111 0.00 0.00 0.00 4.10
4933 5547 2.591311 GGAAGACGCAACGCAACGA 61.591 57.895 0.00 0.00 0.00 3.85
4934 5548 1.436606 GAAGACGCAACGCAACGAC 60.437 57.895 0.00 0.00 0.00 4.34
4935 5549 3.205260 AAGACGCAACGCAACGACG 62.205 57.895 0.00 0.00 39.50 5.12
5022 5643 2.258286 GCATGGCAACCAACGTCC 59.742 61.111 0.00 0.00 36.95 4.79
5030 5651 1.675552 CAACCAACGTCCCTGTCTTT 58.324 50.000 0.00 0.00 0.00 2.52
5031 5652 1.602377 CAACCAACGTCCCTGTCTTTC 59.398 52.381 0.00 0.00 0.00 2.62
5032 5653 0.108019 ACCAACGTCCCTGTCTTTCC 59.892 55.000 0.00 0.00 0.00 3.13
5033 5654 0.396811 CCAACGTCCCTGTCTTTCCT 59.603 55.000 0.00 0.00 0.00 3.36
5034 5655 1.202770 CCAACGTCCCTGTCTTTCCTT 60.203 52.381 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 5.574830 CACTTTCTTACAGGACAAGAGATCG 59.425 44.000 0.00 0.00 33.72 3.69
56 57 4.100963 TGCTCACTTTCTTACAGGACAAGA 59.899 41.667 0.00 0.00 0.00 3.02
62 63 5.220548 CGATCAATGCTCACTTTCTTACAGG 60.221 44.000 0.00 0.00 0.00 4.00
225 260 2.154462 CCTGGATAAACATCGGGATGC 58.846 52.381 8.53 0.00 42.39 3.91
226 261 2.106511 ACCCTGGATAAACATCGGGATG 59.893 50.000 7.11 7.11 44.15 3.51
229 264 1.967319 CACCCTGGATAAACATCGGG 58.033 55.000 0.00 0.00 37.70 5.14
232 267 4.576463 CACTAAGCACCCTGGATAAACATC 59.424 45.833 0.00 0.00 0.00 3.06
233 268 4.526970 CACTAAGCACCCTGGATAAACAT 58.473 43.478 0.00 0.00 0.00 2.71
254 289 8.172484 CGGATTAAATATAATCGGAATTTCGCA 58.828 33.333 0.00 0.00 45.57 5.10
375 411 2.605580 GGCGAGGCTTTTCTTTGTGAAG 60.606 50.000 0.00 0.00 35.89 3.02
376 412 1.336755 GGCGAGGCTTTTCTTTGTGAA 59.663 47.619 0.00 0.00 0.00 3.18
377 413 0.951558 GGCGAGGCTTTTCTTTGTGA 59.048 50.000 0.00 0.00 0.00 3.58
378 414 0.954452 AGGCGAGGCTTTTCTTTGTG 59.046 50.000 0.00 0.00 0.00 3.33
379 415 1.239347 GAGGCGAGGCTTTTCTTTGT 58.761 50.000 0.00 0.00 0.00 2.83
380 416 0.523519 GGAGGCGAGGCTTTTCTTTG 59.476 55.000 0.00 0.00 0.00 2.77
384 439 0.735471 GAATGGAGGCGAGGCTTTTC 59.265 55.000 0.00 2.09 0.00 2.29
605 678 1.152963 CCCCCGGACCAGCATTAAG 60.153 63.158 0.73 0.00 0.00 1.85
777 853 3.383761 CCAGAAGCGCAGAAACAAATTT 58.616 40.909 11.47 0.00 0.00 1.82
1086 1165 1.949133 CGTCATCACCCGCGGTATG 60.949 63.158 26.12 22.69 32.11 2.39
1704 1792 1.376466 GAAGAAGCCCAGCCTGACA 59.624 57.895 0.00 0.00 0.00 3.58
1716 1804 2.037136 CGGGCTGTGCAGGAAGAAG 61.037 63.158 1.11 0.00 0.00 2.85
2104 2192 1.743958 CAAGAGCTCCTCAAATGCCAG 59.256 52.381 10.93 0.00 32.06 4.85
2418 2506 2.922283 ACCCAGGATCCTGTCAATCTTT 59.078 45.455 34.49 10.93 42.15 2.52
2450 2538 1.471684 GCATGCTCTTCTTCCTTGTGG 59.528 52.381 11.37 0.00 0.00 4.17
2547 2635 3.329889 TCCATTGCCTCGGCCACT 61.330 61.111 2.24 0.00 41.09 4.00
2790 2878 0.390860 CCTTCCGGTAGGCTGAGATG 59.609 60.000 14.87 0.00 37.47 2.90
2791 2879 2.827715 CCTTCCGGTAGGCTGAGAT 58.172 57.895 14.87 0.00 37.47 2.75
2820 2908 4.445305 CCATCATAGTCCAAGAGAATGGCA 60.445 45.833 0.00 0.00 40.46 4.92
2850 2938 1.325640 CGAAACGATGACTCAGGCATG 59.674 52.381 0.00 0.00 0.00 4.06
2869 2957 0.179111 TTGGAGCTCGGCATCTTACG 60.179 55.000 7.83 0.00 0.00 3.18
2938 3026 2.159517 GGGTCTTTGTGCTTGCGATTAG 60.160 50.000 0.00 0.00 0.00 1.73
3074 3164 7.986085 AGTAGCACTAGTTTCATTTCAACAT 57.014 32.000 0.00 0.00 0.00 2.71
3091 3181 7.536855 ACAGTACAAAGTCATAGTAGTAGCAC 58.463 38.462 0.00 0.00 0.00 4.40
3093 3183 8.671921 TGTACAGTACAAAGTCATAGTAGTAGC 58.328 37.037 11.21 0.00 35.38 3.58
3133 3232 9.701098 AGTGATAGTAGTTTCGTTTCAACAATA 57.299 29.630 0.00 0.00 0.00 1.90
3261 3360 1.572085 CCAGCTGAAGTCTGTTGCCG 61.572 60.000 17.39 0.00 0.00 5.69
3382 3481 2.476185 GCAAGATCCAAAATCACGGTCG 60.476 50.000 0.00 0.00 0.00 4.79
3561 3663 1.129251 CATTACAGAAGTGCAGTGGCG 59.871 52.381 0.00 0.00 45.35 5.69
3685 3799 0.171231 CGACGCAGAGGATGAAGTCA 59.829 55.000 0.00 0.00 37.72 3.41
3709 3823 4.710167 TCCTCGTCGGAGCGGTCA 62.710 66.667 17.59 0.00 39.06 4.02
3902 4016 3.087666 GCTCTTCGCCCTCCTCCAG 62.088 68.421 0.00 0.00 0.00 3.86
3903 4017 3.077556 GCTCTTCGCCCTCCTCCA 61.078 66.667 0.00 0.00 0.00 3.86
3904 4018 2.762043 AGCTCTTCGCCCTCCTCC 60.762 66.667 0.00 0.00 40.39 4.30
3905 4019 2.498726 CAGCTCTTCGCCCTCCTC 59.501 66.667 0.00 0.00 40.39 3.71
3906 4020 3.080121 CCAGCTCTTCGCCCTCCT 61.080 66.667 0.00 0.00 40.39 3.69
3907 4021 3.077556 TCCAGCTCTTCGCCCTCC 61.078 66.667 0.00 0.00 40.39 4.30
3908 4022 2.498726 CTCCAGCTCTTCGCCCTC 59.501 66.667 0.00 0.00 40.39 4.30
3909 4023 3.080121 CCTCCAGCTCTTCGCCCT 61.080 66.667 0.00 0.00 40.39 5.19
3910 4024 3.077556 TCCTCCAGCTCTTCGCCC 61.078 66.667 0.00 0.00 40.39 6.13
3911 4025 2.498726 CTCCTCCAGCTCTTCGCC 59.501 66.667 0.00 0.00 40.39 5.54
3912 4026 2.498726 CCTCCTCCAGCTCTTCGC 59.501 66.667 0.00 0.00 39.57 4.70
3913 4027 3.087666 GCCCTCCTCCAGCTCTTCG 62.088 68.421 0.00 0.00 0.00 3.79
3914 4028 2.907236 GCCCTCCTCCAGCTCTTC 59.093 66.667 0.00 0.00 0.00 2.87
3915 4029 3.080121 CGCCCTCCTCCAGCTCTT 61.080 66.667 0.00 0.00 0.00 2.85
3916 4030 3.608759 TTCGCCCTCCTCCAGCTCT 62.609 63.158 0.00 0.00 0.00 4.09
3917 4031 3.077556 TTCGCCCTCCTCCAGCTC 61.078 66.667 0.00 0.00 0.00 4.09
3918 4032 3.080121 CTTCGCCCTCCTCCAGCT 61.080 66.667 0.00 0.00 0.00 4.24
3919 4033 3.077556 TCTTCGCCCTCCTCCAGC 61.078 66.667 0.00 0.00 0.00 4.85
3920 4034 2.726351 GGTCTTCGCCCTCCTCCAG 61.726 68.421 0.00 0.00 0.00 3.86
4008 4122 1.675801 CTGCTGGTCTTCTCTGCCA 59.324 57.895 0.00 0.00 0.00 4.92
4129 4248 7.921214 AGTTCAACGGAGTCTATATACACAATG 59.079 37.037 0.00 0.00 45.00 2.82
4130 4249 8.008513 AGTTCAACGGAGTCTATATACACAAT 57.991 34.615 0.00 0.00 45.00 2.71
4236 4737 3.709987 ACAGCAAAGAAAGTGCATTGTC 58.290 40.909 0.00 0.00 44.74 3.18
4271 4800 2.820037 GCCAACTGAGCTACGCCC 60.820 66.667 0.00 0.00 0.00 6.13
4272 4801 2.047274 TGCCAACTGAGCTACGCC 60.047 61.111 0.00 0.00 0.00 5.68
4273 4802 2.103042 CCTGCCAACTGAGCTACGC 61.103 63.158 0.00 0.00 0.00 4.42
4274 4803 1.448540 CCCTGCCAACTGAGCTACG 60.449 63.158 0.00 0.00 0.00 3.51
4275 4804 1.746991 GCCCTGCCAACTGAGCTAC 60.747 63.158 0.00 0.00 0.00 3.58
4276 4805 2.671070 GCCCTGCCAACTGAGCTA 59.329 61.111 0.00 0.00 0.00 3.32
4277 4806 4.711949 CGCCCTGCCAACTGAGCT 62.712 66.667 0.00 0.00 0.00 4.09
4279 4808 2.032528 TTCGCCCTGCCAACTGAG 59.967 61.111 0.00 0.00 0.00 3.35
4281 4810 3.058160 CCTTCGCCCTGCCAACTG 61.058 66.667 0.00 0.00 0.00 3.16
4282 4811 3.249189 TCCTTCGCCCTGCCAACT 61.249 61.111 0.00 0.00 0.00 3.16
4283 4812 2.747855 CTCCTTCGCCCTGCCAAC 60.748 66.667 0.00 0.00 0.00 3.77
4318 4847 3.410098 GAGCTGAGACTCGAACACC 57.590 57.895 0.00 0.00 0.00 4.16
4343 4872 4.338118 AGAAGAAAATTTCGTGAGCACCAA 59.662 37.500 0.00 0.00 34.02 3.67
4384 4913 2.418884 GACCAACTTGGGCTAGACTAGC 60.419 54.545 23.84 23.84 44.12 3.42
4505 5039 1.289066 CACGAGCCGAACCAGAAGA 59.711 57.895 1.50 0.00 0.00 2.87
4507 5041 2.357034 GCACGAGCCGAACCAGAA 60.357 61.111 0.00 0.00 33.58 3.02
4667 5209 1.900545 GCACCTGACCTACCTCCCAC 61.901 65.000 0.00 0.00 0.00 4.61
4668 5210 1.612442 GCACCTGACCTACCTCCCA 60.612 63.158 0.00 0.00 0.00 4.37
4671 5213 0.905337 ACCAGCACCTGACCTACCTC 60.905 60.000 0.00 0.00 32.44 3.85
4672 5214 0.905337 GACCAGCACCTGACCTACCT 60.905 60.000 0.00 0.00 32.44 3.08
4729 5277 1.094785 CGATGATCAACCAACCCACC 58.905 55.000 0.00 0.00 0.00 4.61
4730 5278 1.468520 CACGATGATCAACCAACCCAC 59.531 52.381 0.00 0.00 0.00 4.61
4731 5279 1.819928 CACGATGATCAACCAACCCA 58.180 50.000 0.00 0.00 0.00 4.51
4752 5305 0.321671 ATGGCCGAATATGCTAGCGT 59.678 50.000 15.08 15.08 0.00 5.07
4815 5402 8.577751 TCCAATCTGGCAGAGGATCTCTCTTA 62.578 46.154 23.24 0.00 42.99 2.10
4837 5424 3.106054 CAATCCAATCCAACCCAATCCA 58.894 45.455 0.00 0.00 0.00 3.41
4855 5442 2.601905 ACCAGAAGGCTTTGCTTCAAT 58.398 42.857 0.00 0.00 39.06 2.57
4859 5446 2.158460 ACCTAACCAGAAGGCTTTGCTT 60.158 45.455 0.00 0.00 37.67 3.91
4864 5451 5.514500 TCATTAACCTAACCAGAAGGCTT 57.486 39.130 0.00 0.00 37.67 4.35
4897 5509 0.250124 CCGTCTAAGCAACACCACCA 60.250 55.000 0.00 0.00 0.00 4.17
4914 5528 2.127758 GTTGCGTTGCGTCTTCCG 60.128 61.111 0.00 0.00 40.40 4.30
5007 5621 1.603455 CAGGGACGTTGGTTGCCAT 60.603 57.895 0.00 0.00 31.53 4.40
5015 5636 2.143925 GAAGGAAAGACAGGGACGTTG 58.856 52.381 0.00 0.00 0.00 4.10
5022 5643 2.074547 TTACGCGAAGGAAAGACAGG 57.925 50.000 15.93 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.