Multiple sequence alignment - TraesCS4A01G211100

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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 TraesCS4A01G211100 chr4A 100.000 4740 0 0 1 4740 504793520 504788781 0.000000e+00 8754
1 TraesCS4A01G211100 chr4D 93.570 3888 153 50 1 3845 80833801 80837634 0.000000e+00 5705
2 TraesCS4A01G211100 chr4D 91.572 878 54 12 3870 4738 80837760 80838626 0.000000e+00 1194
3 TraesCS4A01G211100 chr4B 92.738 1859 57 30 2039 3872 112920901 112922706 0.000000e+00 2614
4 TraesCS4A01G211100 chr4B 91.021 1459 72 31 610 2040 112919392 112920819 0.000000e+00 1914
5 TraesCS4A01G211100 chr4B 98.450 516 5 1 1 516 112918565 112919077 0.000000e+00 905
6 TraesCS4A01G211100 chr4B 93.506 616 24 9 4126 4738 112923198 112923800 0.000000e+00 902
7 TraesCS4A01G211100 chr4B 94.118 255 13 1 3870 4124 112922796 112923048 2.070000e-103 387
8 TraesCS4A01G211100 chr3D 81.122 196 37 0 2783 2978 546198931 546198736 1.770000e-34 158


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 TraesCS4A01G211100 chr4A 504788781 504793520 4739 True 8754.0 8754 100.0000 1 4740 1 chr4A.!!$R1 4739
1 TraesCS4A01G211100 chr4D 80833801 80838626 4825 False 3449.5 5705 92.5710 1 4738 2 chr4D.!!$F1 4737
2 TraesCS4A01G211100 chr4B 112918565 112923800 5235 False 1344.4 2614 93.9666 1 4738 5 chr4B.!!$F1 4737


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
556 557 0.179048 TGCGTTGCATATGGAGGAGG 60.179 55.0 4.56 0.0 31.71 4.30 F
558 559 0.250467 CGTTGCATATGGAGGAGGGG 60.250 60.0 4.56 0.0 0.00 4.79 F
561 562 0.474466 TGCATATGGAGGAGGGGAGG 60.474 60.0 4.56 0.0 0.00 4.30 F
563 564 0.548682 CATATGGAGGAGGGGAGGGG 60.549 65.0 0.00 0.0 0.00 4.79 F
756 978 0.729478 CCTACACACACGCACGAGAG 60.729 60.0 0.00 0.0 0.00 3.20 F
891 1116 0.853586 TCCCCAAACCCTAGCCCAAT 60.854 55.0 0.00 0.0 0.00 3.16 F
1310 1535 0.876342 GAAACTGCCGGCCTATCTCG 60.876 60.0 26.77 5.8 0.00 4.04 F
2953 3337 1.148310 CTGACAACGCCGTCAAGAAT 58.852 50.0 8.64 0.0 44.97 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1569 1801 0.598065 AAAAACTAAGCCCAGCGCAG 59.402 50.000 11.47 0.0 41.38 5.18 R
2234 2579 0.690762 AACACACCCTACCGCATCTT 59.309 50.000 0.00 0.0 0.00 2.40 R
2286 2641 1.745087 CGTGCTTTGCCTGGTGATTAT 59.255 47.619 0.00 0.0 0.00 1.28 R
2455 2816 5.392165 GGCACATAAAGGTTATTGCGTACAA 60.392 40.000 0.00 0.0 40.87 2.41 R
2567 2928 3.624326 TTGCAAGGACGTGAAATTCTG 57.376 42.857 0.00 0.0 0.00 3.02 R
2845 3229 0.106619 GCTCCTCCTCTTCCTCCGTA 60.107 60.000 0.00 0.0 0.00 4.02 R
3273 3660 1.045911 GGAGGAGAAGGCGATGGAGT 61.046 60.000 0.00 0.0 0.00 3.85 R
4500 5156 2.557924 GGTTGTTCATGCAGTTCCATCA 59.442 45.455 0.00 0.0 0.00 3.07 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
473 474 3.585748 TTGAAACGAAGCGTCAAGAAG 57.414 42.857 0.00 0.00 39.99 2.85
540 541 5.039480 AGAAAGTTGATGATGTCTTTGCG 57.961 39.130 0.00 0.00 31.56 4.85
546 547 2.488937 TGATGATGTCTTTGCGTTGCAT 59.511 40.909 0.00 0.00 38.76 3.96
552 553 2.419673 TGTCTTTGCGTTGCATATGGAG 59.580 45.455 4.56 0.00 38.76 3.86
553 554 2.016318 TCTTTGCGTTGCATATGGAGG 58.984 47.619 4.56 0.00 38.76 4.30
554 555 2.016318 CTTTGCGTTGCATATGGAGGA 58.984 47.619 4.56 0.00 38.76 3.71
555 556 1.667236 TTGCGTTGCATATGGAGGAG 58.333 50.000 4.56 0.00 38.76 3.69
556 557 0.179048 TGCGTTGCATATGGAGGAGG 60.179 55.000 4.56 0.00 31.71 4.30
557 558 0.886490 GCGTTGCATATGGAGGAGGG 60.886 60.000 4.56 0.00 0.00 4.30
558 559 0.250467 CGTTGCATATGGAGGAGGGG 60.250 60.000 4.56 0.00 0.00 4.79
559 560 1.140312 GTTGCATATGGAGGAGGGGA 58.860 55.000 4.56 0.00 0.00 4.81
560 561 1.072965 GTTGCATATGGAGGAGGGGAG 59.927 57.143 4.56 0.00 0.00 4.30
561 562 0.474466 TGCATATGGAGGAGGGGAGG 60.474 60.000 4.56 0.00 0.00 4.30
562 563 1.204113 GCATATGGAGGAGGGGAGGG 61.204 65.000 4.56 0.00 0.00 4.30
563 564 0.548682 CATATGGAGGAGGGGAGGGG 60.549 65.000 0.00 0.00 0.00 4.79
603 604 9.322769 AGGGAAGTTAGAGAAGAAGTACAAATA 57.677 33.333 0.00 0.00 0.00 1.40
752 974 2.480853 TAGCCCTACACACACGCACG 62.481 60.000 0.00 0.00 0.00 5.34
753 975 2.337170 CCCTACACACACGCACGA 59.663 61.111 0.00 0.00 0.00 4.35
754 976 1.733041 CCCTACACACACGCACGAG 60.733 63.158 0.00 0.00 0.00 4.18
755 977 1.284715 CCTACACACACGCACGAGA 59.715 57.895 0.00 0.00 0.00 4.04
756 978 0.729478 CCTACACACACGCACGAGAG 60.729 60.000 0.00 0.00 0.00 3.20
891 1116 0.853586 TCCCCAAACCCTAGCCCAAT 60.854 55.000 0.00 0.00 0.00 3.16
982 1207 6.755607 TCACTCTACCTCTATATACATACGCG 59.244 42.308 3.53 3.53 0.00 6.01
1087 1312 2.419198 CCAGGCTTCGATCCTCCG 59.581 66.667 3.96 0.00 0.00 4.63
1105 1330 4.715523 CCTTTTCTCCGGCCGGCA 62.716 66.667 39.89 25.26 34.68 5.69
1142 1367 2.051971 TCGTCGACGACCAACACG 60.052 61.111 34.97 8.94 44.22 4.49
1302 1527 3.670377 GTGGGTGAAACTGCCGGC 61.670 66.667 22.73 22.73 36.74 6.13
1310 1535 0.876342 GAAACTGCCGGCCTATCTCG 60.876 60.000 26.77 5.80 0.00 4.04
1458 1686 2.335316 ACGCACCTTGGTTCAGTTTA 57.665 45.000 0.00 0.00 0.00 2.01
1459 1687 2.858745 ACGCACCTTGGTTCAGTTTAT 58.141 42.857 0.00 0.00 0.00 1.40
1569 1801 3.196685 CCTTCCTCGAGGGGAATGATATC 59.803 52.174 30.80 0.00 43.44 1.63
1657 1913 7.448748 AATTATGCCTCGTTAGTGAGTTTTT 57.551 32.000 0.00 0.00 34.04 1.94
1672 1928 8.068892 AGTGAGTTTTTGTGTTATACCCAAAA 57.931 30.769 0.00 0.00 36.56 2.44
1725 1981 2.157668 GTGCACGATGACGAGTTGAATT 59.842 45.455 0.00 0.00 42.66 2.17
1733 1989 5.386323 CGATGACGAGTTGAATTTGTTTTGC 60.386 40.000 0.00 0.00 42.66 3.68
1763 2019 7.287927 ACCTATATAGTTCTCTTGCTGTGCTTA 59.712 37.037 8.92 0.00 0.00 3.09
1978 2238 7.667557 CAGTTCGGAATTAGTTATATCCCTGA 58.332 38.462 0.00 0.00 0.00 3.86
2054 2397 7.478322 CATGACTACTAGCTTGCAAAATTCAT 58.522 34.615 0.00 0.00 0.00 2.57
2077 2420 4.280425 TGAACAAGGTGAAATTAGCATGCA 59.720 37.500 21.98 0.00 0.00 3.96
2204 2549 5.390387 AGGTAAAGGGAAGCAACAACATAA 58.610 37.500 0.00 0.00 0.00 1.90
2213 2558 5.924254 GGAAGCAACAACATAACTAAAACCC 59.076 40.000 0.00 0.00 0.00 4.11
2234 2579 7.081857 ACCCTGTACAGTTCCTTAATGTAAA 57.918 36.000 21.18 0.00 31.61 2.01
2286 2641 6.092670 GCAACACTGAGACAGCATTAATTAGA 59.907 38.462 0.00 0.00 34.37 2.10
2455 2816 5.677091 GCAGGTTGATGCAACTAAATCGATT 60.677 40.000 4.39 4.39 45.77 3.34
2533 2894 6.950545 TGTAATTACTCGCCCGATTAATTTG 58.049 36.000 22.26 1.62 39.25 2.32
2536 2897 2.285977 ACTCGCCCGATTAATTTGTCC 58.714 47.619 0.00 0.00 0.00 4.02
2558 2919 5.943416 TCCCACAAATCCTACAACATTACAG 59.057 40.000 0.00 0.00 0.00 2.74
2567 2928 9.712305 AATCCTACAACATTACAGTGCTATATC 57.288 33.333 0.00 0.00 0.00 1.63
2613 2974 6.509418 TTGCACTACTTAACCATGAATTCC 57.491 37.500 2.27 0.00 0.00 3.01
2668 3048 6.467047 CGAATTCTTCCTTCGTCAATGAATTG 59.533 38.462 3.52 0.00 40.36 2.32
2724 3108 4.693283 TGCTAGAATGTATTTCCCTGACG 58.307 43.478 0.00 0.00 34.67 4.35
2731 3115 4.274602 TGTATTTCCCTGACGTGCTAAA 57.725 40.909 0.00 0.00 0.00 1.85
2845 3229 1.579429 GATCAACAAGCGGCCGTTT 59.421 52.632 28.70 25.59 0.00 3.60
2953 3337 1.148310 CTGACAACGCCGTCAAGAAT 58.852 50.000 8.64 0.00 44.97 2.40
3206 3593 1.359459 CTACGGCGCTTCAGGAAACC 61.359 60.000 6.90 0.00 0.00 3.27
3241 3628 3.015675 AGGTACAGTAGCTACCTGGAC 57.984 52.381 20.31 20.93 42.15 4.02
3346 3733 4.864334 GGCGGCCCTGACCATCAG 62.864 72.222 8.12 0.00 43.91 2.90
3376 3763 4.784427 GGATTACCATGTCGACGGCGAT 62.784 54.545 20.29 1.64 41.55 4.58
3591 3978 1.473677 GCATGCACTGTTTATGGCAGA 59.526 47.619 14.21 0.00 39.95 4.26
3632 4026 9.671279 TTAATTAGAACTGTGATGATCATGTGT 57.329 29.630 14.30 3.46 0.00 3.72
3634 4028 9.671279 AATTAGAACTGTGATGATCATGTGTAA 57.329 29.630 14.30 7.08 0.00 2.41
3635 4029 9.842775 ATTAGAACTGTGATGATCATGTGTAAT 57.157 29.630 14.30 8.82 0.00 1.89
3636 4030 7.549615 AGAACTGTGATGATCATGTGTAATG 57.450 36.000 14.30 0.00 0.00 1.90
3637 4031 7.108194 AGAACTGTGATGATCATGTGTAATGT 58.892 34.615 14.30 0.10 0.00 2.71
3638 4032 6.673154 ACTGTGATGATCATGTGTAATGTG 57.327 37.500 14.30 0.00 0.00 3.21
3754 4148 0.516877 TGTTGTGTGCTAATCGCTGC 59.483 50.000 0.00 0.00 40.11 5.25
3821 4218 4.099419 TGCTAATCACCATCAGACGTGTAT 59.901 41.667 0.00 0.00 0.00 2.29
3851 4249 1.534729 AAAGGCAACAAGATCCCGTC 58.465 50.000 0.00 0.00 41.41 4.79
3926 4425 0.938168 GGTGAATATCGTCGTCCCGC 60.938 60.000 0.00 0.00 0.00 6.13
3981 4480 7.910010 AGGGACTATATATGGCTAAATTACCCA 59.090 37.037 0.00 0.00 36.02 4.51
4068 4570 9.281371 CATAGCCATAAGATCAAGATTTTCTCA 57.719 33.333 0.00 0.00 0.00 3.27
4105 4607 5.052481 TGCATAACTCATGAAAGATCGAGG 58.948 41.667 0.00 0.00 36.69 4.63
4142 4793 9.654663 ACTGACTTGTAATAATAGTCACCTTTC 57.345 33.333 0.00 0.00 42.31 2.62
4421 5073 9.177608 TCCATGATAAAGAATTTTACTGTCTGG 57.822 33.333 0.00 0.00 40.09 3.86
4492 5148 9.921637 CTCTAGAAAGAAAATAGTGTGAAGTCT 57.078 33.333 0.00 0.00 0.00 3.24
4510 5166 6.820152 TGAAGTCTATTCACATGATGGAACTG 59.180 38.462 0.00 0.00 0.00 3.16
4630 5293 7.624706 AATAGACGAGCATGTTAAATAGACG 57.375 36.000 0.00 0.00 0.00 4.18
4738 5401 2.559668 CAGGTTGTTGCAACTCCATGAT 59.440 45.455 30.55 16.80 0.00 2.45
4739 5402 3.758023 CAGGTTGTTGCAACTCCATGATA 59.242 43.478 30.55 11.22 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
393 394 3.485463 TCACAGATCAAACGGGACTTT 57.515 42.857 0.00 0.00 0.00 2.66
394 395 3.244561 ACATCACAGATCAAACGGGACTT 60.245 43.478 0.00 0.00 0.00 3.01
395 396 2.303022 ACATCACAGATCAAACGGGACT 59.697 45.455 0.00 0.00 0.00 3.85
398 399 8.601845 TTATATTACATCACAGATCAAACGGG 57.398 34.615 0.00 0.00 0.00 5.28
473 474 1.375523 CCCTGCCCTGTTGTACGTC 60.376 63.158 0.00 0.00 0.00 4.34
521 522 4.539870 CAACGCAAAGACATCATCAACTT 58.460 39.130 0.00 0.00 0.00 2.66
525 526 1.878734 TGCAACGCAAAGACATCATCA 59.121 42.857 0.00 0.00 34.76 3.07
540 541 1.072965 CTCCCCTCCTCCATATGCAAC 59.927 57.143 0.00 0.00 0.00 4.17
546 547 2.421329 CCCCCTCCCCTCCTCCATA 61.421 68.421 0.00 0.00 0.00 2.74
561 562 4.415846 ACTTCCCTAACAATATTCTCCCCC 59.584 45.833 0.00 0.00 0.00 5.40
562 563 5.648330 ACTTCCCTAACAATATTCTCCCC 57.352 43.478 0.00 0.00 0.00 4.81
563 564 8.030913 TCTAACTTCCCTAACAATATTCTCCC 57.969 38.462 0.00 0.00 0.00 4.30
603 604 2.292267 CGGATTACTTCCAGCTGCAAT 58.708 47.619 8.66 1.96 45.78 3.56
752 974 4.164221 TCTCTCTTTCTCCCTCTCTCTCTC 59.836 50.000 0.00 0.00 0.00 3.20
753 975 4.111577 TCTCTCTTTCTCCCTCTCTCTCT 58.888 47.826 0.00 0.00 0.00 3.10
754 976 4.503714 TCTCTCTTTCTCCCTCTCTCTC 57.496 50.000 0.00 0.00 0.00 3.20
755 977 4.230502 ACATCTCTCTTTCTCCCTCTCTCT 59.769 45.833 0.00 0.00 0.00 3.10
756 978 4.536765 ACATCTCTCTTTCTCCCTCTCTC 58.463 47.826 0.00 0.00 0.00 3.20
891 1116 1.134936 ACGCAGGTAATGACACGCATA 60.135 47.619 0.00 0.00 35.78 3.14
982 1207 0.610232 AATGGCCACAAGTCAGAGGC 60.610 55.000 8.16 0.00 43.46 4.70
1156 1381 2.032681 ACAAGGACGCTGGCTTCC 59.967 61.111 9.67 9.67 34.93 3.46
1163 1388 4.379243 CTCGGGCACAAGGACGCT 62.379 66.667 0.00 0.00 0.00 5.07
1164 1389 4.373116 TCTCGGGCACAAGGACGC 62.373 66.667 0.00 0.00 0.00 5.19
1302 1527 3.433957 AGATCGACGATCAACGAGATAGG 59.566 47.826 32.97 0.00 45.77 2.57
1310 1535 3.250744 TGGAAACAGATCGACGATCAAC 58.749 45.455 32.97 19.99 41.12 3.18
1362 1587 6.542005 TCAAGGTTATATGCATCAACGTCATT 59.458 34.615 0.19 0.49 0.00 2.57
1511 1741 3.516615 TGGCACAAACAGCTAAAACAAC 58.483 40.909 0.00 0.00 31.92 3.32
1569 1801 0.598065 AAAAACTAAGCCCAGCGCAG 59.402 50.000 11.47 0.00 41.38 5.18
1640 1892 5.479716 AACACAAAAACTCACTAACGAGG 57.520 39.130 0.00 0.00 37.34 4.63
1672 1928 9.314321 CGAACAACTTATATGATCCTACTGTTT 57.686 33.333 0.00 0.00 0.00 2.83
1702 1958 1.070821 CAACTCGTCATCGTGCACAT 58.929 50.000 18.64 6.80 38.33 3.21
1725 1981 7.558604 AGAACTATATAGGTACCGCAAAACAA 58.441 34.615 14.25 0.00 0.00 2.83
1733 1989 6.207025 ACAGCAAGAGAACTATATAGGTACCG 59.793 42.308 14.25 0.00 0.00 4.02
1937 2197 7.209471 TCCGAACTGCTAAAATTTTGTATGT 57.791 32.000 13.76 4.95 0.00 2.29
1938 2198 8.687824 ATTCCGAACTGCTAAAATTTTGTATG 57.312 30.769 13.76 4.37 0.00 2.39
1940 2200 9.834628 CTAATTCCGAACTGCTAAAATTTTGTA 57.165 29.630 13.76 2.92 0.00 2.41
1941 2201 8.357402 ACTAATTCCGAACTGCTAAAATTTTGT 58.643 29.630 13.76 0.00 0.00 2.83
1953 2213 7.667557 TCAGGGATATAACTAATTCCGAACTG 58.332 38.462 0.00 0.00 0.00 3.16
2023 2283 5.427378 TGCAAGCTAGTAGTCATGCAAATA 58.573 37.500 18.21 2.62 40.47 1.40
2054 2397 4.280425 TGCATGCTAATTTCACCTTGTTCA 59.720 37.500 20.33 0.00 0.00 3.18
2077 2420 9.692325 AAGAGGAGATTTAGAATAAAGTTGCAT 57.308 29.630 0.00 0.00 0.00 3.96
2204 2549 5.641789 AAGGAACTGTACAGGGTTTTAGT 57.358 39.130 26.12 0.90 40.86 2.24
2234 2579 0.690762 AACACACCCTACCGCATCTT 59.309 50.000 0.00 0.00 0.00 2.40
2286 2641 1.745087 CGTGCTTTGCCTGGTGATTAT 59.255 47.619 0.00 0.00 0.00 1.28
2455 2816 5.392165 GGCACATAAAGGTTATTGCGTACAA 60.392 40.000 0.00 0.00 40.87 2.41
2533 2894 5.708230 TGTAATGTTGTAGGATTTGTGGGAC 59.292 40.000 0.00 0.00 0.00 4.46
2536 2897 6.611381 CACTGTAATGTTGTAGGATTTGTGG 58.389 40.000 0.00 0.00 0.00 4.17
2558 2919 5.986135 AGGACGTGAAATTCTGATATAGCAC 59.014 40.000 0.00 0.00 0.00 4.40
2567 2928 3.624326 TTGCAAGGACGTGAAATTCTG 57.376 42.857 0.00 0.00 0.00 3.02
2653 3033 4.408993 TCAGTGCAATTCATTGACGAAG 57.591 40.909 3.60 0.00 40.14 3.79
2658 3038 9.878667 AAATCATAATTCAGTGCAATTCATTGA 57.121 25.926 3.60 7.01 39.29 2.57
2763 3147 8.301002 TCTTGCCTACAATTAATTACCACAAAC 58.699 33.333 0.00 0.00 34.61 2.93
2845 3229 0.106619 GCTCCTCCTCTTCCTCCGTA 60.107 60.000 0.00 0.00 0.00 4.02
2884 3268 4.141144 CACTTGTTGCCGTGGACT 57.859 55.556 0.00 0.00 0.00 3.85
2953 3337 2.335011 CTGACGACGTGCCAGTGA 59.665 61.111 4.58 0.00 0.00 3.41
3273 3660 1.045911 GGAGGAGAAGGCGATGGAGT 61.046 60.000 0.00 0.00 0.00 3.85
3346 3733 2.945668 GACATGGTAATCCTTCCTGTGC 59.054 50.000 0.00 0.00 34.23 4.57
3376 3763 3.269538 TCCTTCGTTTTCAGTGGTTCA 57.730 42.857 0.00 0.00 0.00 3.18
3379 3766 1.880027 GCATCCTTCGTTTTCAGTGGT 59.120 47.619 0.00 0.00 0.00 4.16
3486 3873 0.976641 TCGACAAGTTGATGGAGGCT 59.023 50.000 10.54 0.00 0.00 4.58
3632 4026 7.326968 TCATGTTCAACAGTTCAACACATTA 57.673 32.000 4.69 0.00 32.96 1.90
3633 4027 6.206395 TCATGTTCAACAGTTCAACACATT 57.794 33.333 4.69 0.00 32.96 2.71
3634 4028 5.833406 TCATGTTCAACAGTTCAACACAT 57.167 34.783 4.69 0.00 32.96 3.21
3635 4029 5.356470 TGATCATGTTCAACAGTTCAACACA 59.644 36.000 4.69 0.00 32.96 3.72
3636 4030 5.820131 TGATCATGTTCAACAGTTCAACAC 58.180 37.500 4.69 0.00 32.96 3.32
3637 4031 6.440436 CATGATCATGTTCAACAGTTCAACA 58.560 36.000 24.87 5.09 34.61 3.33
3638 4032 6.922980 CATGATCATGTTCAACAGTTCAAC 57.077 37.500 24.87 0.00 34.23 3.18
3754 4148 6.487103 GTCTCAACAATCGGCCTTTAATAAG 58.513 40.000 0.00 0.00 0.00 1.73
3861 4259 3.435566 CATGTGAATGTGATCTTGCTGC 58.564 45.455 0.00 0.00 0.00 5.25
3862 4260 3.692593 TCCATGTGAATGTGATCTTGCTG 59.307 43.478 0.00 0.00 0.00 4.41
3864 4262 4.707030 TTCCATGTGAATGTGATCTTGC 57.293 40.909 0.00 0.00 0.00 4.01
3865 4263 7.148205 TGTGTATTCCATGTGAATGTGATCTTG 60.148 37.037 15.59 0.00 43.57 3.02
3867 4265 6.417258 TGTGTATTCCATGTGAATGTGATCT 58.583 36.000 15.59 0.00 43.57 2.75
3868 4266 6.682423 TGTGTATTCCATGTGAATGTGATC 57.318 37.500 15.59 0.00 43.57 2.92
3992 4494 8.758633 TCTAAGTCGATTTAGCCATAAATAGC 57.241 34.615 19.73 0.00 40.83 2.97
3997 4499 8.038944 ACTGTTTCTAAGTCGATTTAGCCATAA 58.961 33.333 19.73 8.61 32.01 1.90
4136 4787 6.981722 AGCGATTTTGTTATTTCAGAAAGGT 58.018 32.000 1.28 0.00 0.00 3.50
4421 5073 8.818057 GTCAATGTAGATTTGTCCATGTACTAC 58.182 37.037 0.00 0.00 0.00 2.73
4492 5148 5.438833 TCATGCAGTTCCATCATGTGAATA 58.561 37.500 0.00 0.00 38.82 1.75
4494 5150 3.688235 TCATGCAGTTCCATCATGTGAA 58.312 40.909 0.00 0.00 38.82 3.18
4500 5156 2.557924 GGTTGTTCATGCAGTTCCATCA 59.442 45.455 0.00 0.00 0.00 3.07
4613 5276 5.235186 ACATGCTCGTCTATTTAACATGCTC 59.765 40.000 0.00 0.00 37.52 4.26
4614 5277 5.118990 ACATGCTCGTCTATTTAACATGCT 58.881 37.500 0.00 0.00 37.52 3.79
4615 5278 5.409643 ACATGCTCGTCTATTTAACATGC 57.590 39.130 0.00 0.00 37.52 4.06
4616 5279 9.425893 CTTTAACATGCTCGTCTATTTAACATG 57.574 33.333 0.00 0.00 39.38 3.21
4617 5280 9.162764 ACTTTAACATGCTCGTCTATTTAACAT 57.837 29.630 0.00 0.00 0.00 2.71
4618 5281 8.542497 ACTTTAACATGCTCGTCTATTTAACA 57.458 30.769 0.00 0.00 0.00 2.41
4621 5284 9.309516 CCTTACTTTAACATGCTCGTCTATTTA 57.690 33.333 0.00 0.00 0.00 1.40
4622 5285 7.822822 ACCTTACTTTAACATGCTCGTCTATTT 59.177 33.333 0.00 0.00 0.00 1.40
4623 5286 7.328737 ACCTTACTTTAACATGCTCGTCTATT 58.671 34.615 0.00 0.00 0.00 1.73
4624 5287 6.875076 ACCTTACTTTAACATGCTCGTCTAT 58.125 36.000 0.00 0.00 0.00 1.98
4625 5288 6.276832 ACCTTACTTTAACATGCTCGTCTA 57.723 37.500 0.00 0.00 0.00 2.59
4626 5289 5.148651 ACCTTACTTTAACATGCTCGTCT 57.851 39.130 0.00 0.00 0.00 4.18
4627 5290 8.638685 TTATACCTTACTTTAACATGCTCGTC 57.361 34.615 0.00 0.00 0.00 4.20
4628 5291 8.255905 ACTTATACCTTACTTTAACATGCTCGT 58.744 33.333 0.00 0.00 0.00 4.18
4629 5292 8.644318 ACTTATACCTTACTTTAACATGCTCG 57.356 34.615 0.00 0.00 0.00 5.03



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

AutoCloner maintained by Alex Coulton.