Multiple sequence alignment - TraesCS4A01G486200

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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 TraesCS4A01G486200 chr4A 100.000 3283 0 0 1 3283 739585879 739589161 0.000000e+00 6063.0
1 TraesCS4A01G486200 chr7D 92.338 2545 113 35 272 2788 4027519 4025029 0.000000e+00 3544.0
2 TraesCS4A01G486200 chr7D 94.717 265 12 1 1 265 4027882 4027620 8.480000e-111 411.0
3 TraesCS4A01G486200 chr7D 92.419 277 15 3 2832 3106 4025035 4024763 1.100000e-104 390.0
4 TraesCS4A01G486200 chr7D 79.365 252 41 9 1324 1568 420742663 420742416 2.030000e-37 167.0
5 TraesCS4A01G486200 chr7D 100.000 33 0 0 2782 2814 4025111 4025079 9.840000e-06 62.1
6 TraesCS4A01G486200 chr7A 90.282 2408 138 55 339 2703 3860876 3858522 0.000000e+00 3062.0
7 TraesCS4A01G486200 chr7A 92.917 480 19 3 2805 3283 3858469 3858004 0.000000e+00 684.0
8 TraesCS4A01G486200 chr7A 92.248 258 16 2 8 265 3861282 3861029 2.410000e-96 363.0
9 TraesCS4A01G486200 chr7A 81.696 224 35 5 1348 1568 455395571 455395351 7.240000e-42 182.0
10 TraesCS4A01G486200 chr7A 81.140 228 35 6 1348 1568 512328960 512329186 3.370000e-40 176.0
11 TraesCS4A01G486200 chr7A 90.909 55 5 0 272 326 3860928 3860874 1.260000e-09 75.0
12 TraesCS4A01G486200 chr6A 86.066 244 32 2 1341 1583 447178897 447178655 9.040000e-66 261.0
13 TraesCS4A01G486200 chr6B 85.892 241 32 2 1341 1580 515577927 515578166 4.200000e-64 255.0
14 TraesCS4A01G486200 chr6D 85.246 244 34 2 1341 1583 310888070 310887828 1.960000e-62 250.0
15 TraesCS4A01G486200 chr7B 79.762 252 40 9 1324 1568 436787606 436787359 4.360000e-39 172.0


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 TraesCS4A01G486200 chr4A 739585879 739589161 3282 False 6063.000 6063 100.0000 1 3283 1 chr4A.!!$F1 3282
1 TraesCS4A01G486200 chr7D 4024763 4027882 3119 True 1101.775 3544 94.8685 1 3106 4 chr7D.!!$R2 3105
2 TraesCS4A01G486200 chr7A 3858004 3861282 3278 True 1046.000 3062 91.5890 8 3283 4 chr7A.!!$R2 3275

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
800 903 0.107312 ATGCTTGCCTGCTCGATCTT 60.107 50.0 0.0 0.0 0.0 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2452 2594 0.03759 ATGCCCCTGAAGCACGTAAA 59.962 50.0 0.0 0.0 44.4 2.01 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
201 202 7.049754 TGTAAGTACATGCATGTTGAGATGAT 58.950 34.615 35.45 16.04 41.97 2.45
202 203 6.373186 AAGTACATGCATGTTGAGATGATG 57.627 37.500 35.45 5.78 41.97 3.07
285 380 4.970662 ATATCAACTTGCACATGACCAC 57.029 40.909 0.00 0.00 0.00 4.16
287 382 0.662619 CAACTTGCACATGACCACGT 59.337 50.000 0.00 0.00 0.00 4.49
288 383 1.870402 CAACTTGCACATGACCACGTA 59.130 47.619 0.00 0.00 0.00 3.57
332 427 1.391577 TACACATCCATGCACCATGC 58.608 50.000 0.00 0.00 45.29 4.06
407 502 1.477553 CATAAAGCATGCCCACCAGT 58.522 50.000 15.66 0.00 0.00 4.00
546 649 8.755941 CAAGTAGCACATACATATGTTCACTAC 58.244 37.037 14.77 16.65 43.99 2.73
623 726 4.090090 TCTACCTTTGAGCAGTAGAAGCT 58.910 43.478 0.00 0.00 46.82 3.74
634 737 3.690460 CAGTAGAAGCTGGGGAACATTT 58.310 45.455 0.00 0.00 33.11 2.32
728 831 4.993028 TCCCAGCATTACCACTACTTTTT 58.007 39.130 0.00 0.00 0.00 1.94
732 835 5.944007 CCAGCATTACCACTACTTTTTACCT 59.056 40.000 0.00 0.00 0.00 3.08
733 836 7.107542 CCAGCATTACCACTACTTTTTACCTA 58.892 38.462 0.00 0.00 0.00 3.08
800 903 0.107312 ATGCTTGCCTGCTCGATCTT 60.107 50.000 0.00 0.00 0.00 2.40
811 914 4.815308 CCTGCTCGATCTTCATCAAATTCT 59.185 41.667 0.00 0.00 0.00 2.40
943 1054 6.091577 TCACACGCCACAGTTATGTAATTAAG 59.908 38.462 0.00 0.00 37.65 1.85
968 1091 5.969423 AGATTTCCATACATTTTGCAGGTG 58.031 37.500 0.00 0.00 0.00 4.00
985 1108 4.852104 GCAGGTGTAGTTATACATCGATCG 59.148 45.833 9.36 9.36 45.99 3.69
1005 1128 2.869503 ATTGGACGGACGACATGGGC 62.870 60.000 0.00 0.00 0.00 5.36
1047 1170 4.408378 CCGGGTTTTCGGTTCCAT 57.592 55.556 0.00 0.00 44.60 3.41
1168 1291 5.580403 AGAGCCATGGGATCTCCAAGGTA 62.580 52.174 15.13 0.00 46.28 3.08
1270 1395 4.100344 TGACAACTTAGTGTAGCCTTGACA 59.900 41.667 0.00 0.00 0.00 3.58
1600 1737 2.360852 CCCTCCACAGGCAAGCTG 60.361 66.667 0.00 0.00 38.72 4.24
1602 1739 1.228367 CCTCCACAGGCAAGCTGTT 60.228 57.895 0.00 0.00 30.98 3.16
1620 1762 6.054035 GCTGTTGCTTCTCCAACTTATATC 57.946 41.667 6.59 0.00 44.12 1.63
1624 1766 6.543465 TGTTGCTTCTCCAACTTATATCCATG 59.457 38.462 6.59 0.00 44.12 3.66
1628 1770 6.597280 GCTTCTCCAACTTATATCCATGGATC 59.403 42.308 30.61 6.83 39.33 3.36
1647 1789 3.175438 TCCTCTGTCCATCTTGACTCA 57.825 47.619 0.00 0.00 36.21 3.41
1670 1812 7.505258 TCACATACATATAAACCTGCAAGCTA 58.495 34.615 0.00 0.00 0.00 3.32
1676 1818 7.967908 ACATATAAACCTGCAAGCTACTCTAT 58.032 34.615 0.00 0.00 0.00 1.98
1757 1899 4.019231 AGGGTGTTCAAGAAGAGATTACCC 60.019 45.833 0.00 0.00 44.31 3.69
1773 1915 6.784031 AGATTACCCACAACAAGAAGAGATT 58.216 36.000 0.00 0.00 0.00 2.40
1787 1929 6.244552 AGAAGAGATTTAGACCATGATGCA 57.755 37.500 0.00 0.00 0.00 3.96
1841 1983 0.247460 TGCATGACCTCAACTCTCCG 59.753 55.000 0.00 0.00 0.00 4.63
1952 2094 2.741517 GCAATACCAAATGCCAAACCAC 59.258 45.455 0.00 0.00 36.56 4.16
2006 2148 1.843206 GAGAGCCCTTCTTCCTTCCAT 59.157 52.381 0.00 0.00 35.87 3.41
2227 2369 0.603975 GAGAAGGCGCAAGAGTTGGT 60.604 55.000 10.83 0.00 43.02 3.67
2452 2594 2.279741 CTGTGTGTAGTGTTGTGCTGT 58.720 47.619 0.00 0.00 0.00 4.40
2460 2602 1.063469 AGTGTTGTGCTGTTTACGTGC 59.937 47.619 0.00 0.00 0.00 5.34
2598 2742 9.498307 CACGGTTCAGTTATGTAATTTTAATCC 57.502 33.333 0.00 0.00 0.00 3.01
2623 2767 5.545658 TGGTCTTTCAACGATTTGATAGC 57.454 39.130 0.00 0.00 41.50 2.97
2624 2768 4.092821 TGGTCTTTCAACGATTTGATAGCG 59.907 41.667 0.00 0.00 41.50 4.26
2647 2794 6.205071 CGCATATGTACAATTGTGCCAATAA 58.795 36.000 21.42 3.75 0.00 1.40
2648 2795 6.694844 CGCATATGTACAATTGTGCCAATAAA 59.305 34.615 21.42 3.01 0.00 1.40
2668 2815 7.807687 ATAAATATATGCTCGAACACCGTAC 57.192 36.000 0.00 0.00 39.75 3.67
2675 2822 2.084681 CGAACACCGTACCGACTGC 61.085 63.158 0.00 0.00 0.00 4.40
2700 2847 8.103924 GCGCTCATTTTTATAACAAGACATTTG 58.896 33.333 0.00 0.00 0.00 2.32
2729 2876 4.159506 ACATTTGTTGCCCGTTGCTATAAT 59.840 37.500 0.00 0.00 42.00 1.28
2733 2880 2.543777 TGCCCGTTGCTATAATCCTC 57.456 50.000 0.00 0.00 42.00 3.71
2734 2881 2.047061 TGCCCGTTGCTATAATCCTCT 58.953 47.619 0.00 0.00 42.00 3.69
2735 2882 2.438021 TGCCCGTTGCTATAATCCTCTT 59.562 45.455 0.00 0.00 42.00 2.85
2736 2883 2.808543 GCCCGTTGCTATAATCCTCTTG 59.191 50.000 0.00 0.00 36.87 3.02
2737 2884 3.744530 GCCCGTTGCTATAATCCTCTTGT 60.745 47.826 0.00 0.00 36.87 3.16
2738 2885 4.058817 CCCGTTGCTATAATCCTCTTGTC 58.941 47.826 0.00 0.00 0.00 3.18
2739 2886 4.442893 CCCGTTGCTATAATCCTCTTGTCA 60.443 45.833 0.00 0.00 0.00 3.58
2740 2887 4.747108 CCGTTGCTATAATCCTCTTGTCAG 59.253 45.833 0.00 0.00 0.00 3.51
2741 2888 5.451937 CCGTTGCTATAATCCTCTTGTCAGA 60.452 44.000 0.00 0.00 0.00 3.27
2742 2889 5.689514 CGTTGCTATAATCCTCTTGTCAGAG 59.310 44.000 0.00 0.00 45.79 3.35
2776 2923 7.667043 TTTTAGCAGACTTAACCATGTACAG 57.333 36.000 0.33 0.00 0.00 2.74
2777 2924 6.599356 TTAGCAGACTTAACCATGTACAGA 57.401 37.500 0.33 0.00 0.00 3.41
2778 2925 4.822026 AGCAGACTTAACCATGTACAGAC 58.178 43.478 0.33 0.00 0.00 3.51
2779 2926 3.612860 GCAGACTTAACCATGTACAGACG 59.387 47.826 0.33 0.00 0.00 4.18
2780 2927 3.612860 CAGACTTAACCATGTACAGACGC 59.387 47.826 0.33 0.00 0.00 5.19
2825 3011 9.035607 CATAGCCTTACATGTTTCTAGTACTTG 57.964 37.037 2.30 0.00 0.00 3.16
2865 3051 4.066646 TGACAACGTGAAGATCTTCCAA 57.933 40.909 28.40 11.67 38.77 3.53
2870 3056 7.227711 TGACAACGTGAAGATCTTCCAATTAAA 59.772 33.333 28.40 8.89 38.77 1.52
2871 3057 8.110860 ACAACGTGAAGATCTTCCAATTAAAT 57.889 30.769 28.40 8.31 38.77 1.40
3103 3291 2.807676 ACAGAAACAAAGGGCTATGGG 58.192 47.619 0.00 0.00 0.00 4.00
3111 3299 2.954318 CAAAGGGCTATGGGATGAAGTG 59.046 50.000 0.00 0.00 0.00 3.16
3127 3315 6.852853 GGATGAAGTGTTTATGATTACATGCG 59.147 38.462 0.00 0.00 37.87 4.73
3131 3319 4.394610 AGTGTTTATGATTACATGCGTGCA 59.605 37.500 5.64 0.00 37.87 4.57
3145 3333 7.258022 ACATGCGTGCAGTATATTTGATTAA 57.742 32.000 5.64 0.00 0.00 1.40
3150 3338 8.286800 TGCGTGCAGTATATTTGATTAAATACC 58.713 33.333 4.91 0.41 40.51 2.73
3221 3410 6.768381 CACCAAGAAAATTATCTAGGTCCCTC 59.232 42.308 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 8.783093 CCACAAGAAAATAGAACATACAGACAA 58.217 33.333 0.00 0.00 0.00 3.18
201 202 2.908688 AGTAGACATGCACACACACA 57.091 45.000 0.00 0.00 0.00 3.72
202 203 5.862924 ATAAAGTAGACATGCACACACAC 57.137 39.130 0.00 0.00 0.00 3.82
265 266 2.741517 CGTGGTCATGTGCAAGTTGATA 59.258 45.455 7.16 0.00 0.00 2.15
266 267 1.536766 CGTGGTCATGTGCAAGTTGAT 59.463 47.619 7.16 0.00 0.00 2.57
267 268 0.943673 CGTGGTCATGTGCAAGTTGA 59.056 50.000 7.16 0.00 0.00 3.18
269 270 2.248280 TACGTGGTCATGTGCAAGTT 57.752 45.000 0.00 0.00 0.00 2.66
270 271 2.472695 ATACGTGGTCATGTGCAAGT 57.527 45.000 0.00 0.00 0.00 3.16
332 427 5.614308 TGGAGGATACATTTAGCACTCATG 58.386 41.667 0.00 0.00 41.41 3.07
333 428 5.894298 TGGAGGATACATTTAGCACTCAT 57.106 39.130 0.00 0.00 41.41 2.90
334 429 5.692115 TTGGAGGATACATTTAGCACTCA 57.308 39.130 0.00 0.00 41.41 3.41
335 430 8.150945 TCTATTTGGAGGATACATTTAGCACTC 58.849 37.037 0.00 0.00 41.41 3.51
336 431 8.034313 TCTATTTGGAGGATACATTTAGCACT 57.966 34.615 0.00 0.00 41.41 4.40
370 465 6.743773 GCTTTATGCCTGGATCTGATCTAAGT 60.744 42.308 16.61 3.60 35.15 2.24
531 628 8.063200 AGCTACTTGTGTAGTGAACATATGTA 57.937 34.615 9.21 0.00 45.84 2.29
535 632 6.662234 ACCTAGCTACTTGTGTAGTGAACATA 59.338 38.462 0.00 0.00 45.84 2.29
546 649 3.067461 CCTGCTCTACCTAGCTACTTGTG 59.933 52.174 0.00 0.00 43.19 3.33
559 662 4.202245 TGTATGTTTGTCCCTGCTCTAC 57.798 45.455 0.00 0.00 0.00 2.59
634 737 1.142667 TCACTCATTGCACCTTGTGGA 59.857 47.619 8.56 0.00 37.04 4.02
728 831 5.478407 CGTGCATGTGATAATGGATAGGTA 58.522 41.667 0.00 0.00 30.09 3.08
732 835 4.006780 AGCGTGCATGTGATAATGGATA 57.993 40.909 7.93 0.00 30.09 2.59
733 836 2.854963 AGCGTGCATGTGATAATGGAT 58.145 42.857 7.93 0.00 30.09 3.41
811 914 5.459536 TGCATGCCTGTGTTAATTTAACA 57.540 34.783 16.68 16.17 45.66 2.41
943 1054 6.532657 CACCTGCAAAATGTATGGAAATCTTC 59.467 38.462 0.00 0.00 0.00 2.87
968 1091 6.465149 CGTCCAATCGATCGATGTATAACTAC 59.535 42.308 29.99 17.18 34.70 2.73
985 1108 0.810031 CCCATGTCGTCCGTCCAATC 60.810 60.000 0.00 0.00 0.00 2.67
1005 1128 3.531920 CTGCGGCTGTGTGTTGCTG 62.532 63.158 0.00 0.00 38.49 4.41
1047 1170 1.745864 GAGCTCCTCGTCAGTCGGA 60.746 63.158 0.87 0.00 40.32 4.55
1239 1364 6.128634 GGCTACACTAAGTTGTCATTGTACAC 60.129 42.308 0.00 0.00 0.00 2.90
1514 1651 0.326522 TCTGGCCATTGGGAGCTCTA 60.327 55.000 14.64 0.00 35.59 2.43
1600 1737 6.016777 CCATGGATATAAGTTGGAGAAGCAAC 60.017 42.308 5.56 0.00 0.00 4.17
1602 1739 5.369404 TCCATGGATATAAGTTGGAGAAGCA 59.631 40.000 11.44 0.00 32.80 3.91
1606 1743 6.334296 AGGATCCATGGATATAAGTTGGAGA 58.666 40.000 27.38 0.00 39.68 3.71
1607 1744 6.443206 AGAGGATCCATGGATATAAGTTGGAG 59.557 42.308 27.38 0.00 39.68 3.86
1612 1754 5.723887 GGACAGAGGATCCATGGATATAAGT 59.276 44.000 27.38 20.19 36.15 2.24
1613 1755 5.723405 TGGACAGAGGATCCATGGATATAAG 59.277 44.000 27.38 17.38 41.47 1.73
1624 1766 3.037549 AGTCAAGATGGACAGAGGATCC 58.962 50.000 2.48 2.48 40.29 3.36
1628 1770 2.564504 TGTGAGTCAAGATGGACAGAGG 59.435 50.000 0.00 0.00 40.29 3.69
1647 1789 7.509546 AGTAGCTTGCAGGTTTATATGTATGT 58.490 34.615 0.00 0.00 0.00 2.29
1698 1840 5.538813 ACCCTTCCTCCTGAAATTTACAAAC 59.461 40.000 0.00 0.00 31.06 2.93
1702 1844 4.017126 CCACCCTTCCTCCTGAAATTTAC 58.983 47.826 0.00 0.00 31.06 2.01
1703 1845 3.011257 CCCACCCTTCCTCCTGAAATTTA 59.989 47.826 0.00 0.00 31.06 1.40
1757 1899 7.388776 TCATGGTCTAAATCTCTTCTTGTTGTG 59.611 37.037 0.00 0.00 0.00 3.33
1773 1915 2.300433 GCATGGTGCATCATGGTCTAA 58.700 47.619 34.82 0.00 44.26 2.10
1841 1983 2.031768 GGCGGCATCCCTCTCATC 59.968 66.667 3.07 0.00 0.00 2.92
1850 1992 2.821366 CTGTGGTGAGGCGGCATC 60.821 66.667 13.08 7.84 0.00 3.91
1874 2016 0.312102 GGAGGTGTTGTTCTTGCAGC 59.688 55.000 0.00 0.00 0.00 5.25
1952 2094 4.142315 GGAATGGTGTTGAGAACATGATGG 60.142 45.833 0.00 0.00 44.35 3.51
2227 2369 1.739466 AGGTCGACGCGTAATCAGTTA 59.261 47.619 13.97 0.00 0.00 2.24
2294 2436 4.811557 GGGATGCTAGTATATTCGATTGGC 59.188 45.833 0.00 0.00 0.00 4.52
2452 2594 0.037590 ATGCCCCTGAAGCACGTAAA 59.962 50.000 0.00 0.00 44.40 2.01
2460 2602 7.936847 TGTATATTTAGTACAATGCCCCTGAAG 59.063 37.037 0.00 0.00 0.00 3.02
2566 2710 1.199097 CATAACTGAACCGTGTTGCCC 59.801 52.381 0.00 0.00 0.00 5.36
2615 2759 7.131565 CACAATTGTACATATGCGCTATCAAA 58.868 34.615 11.53 0.00 0.00 2.69
2616 2760 6.657888 CACAATTGTACATATGCGCTATCAA 58.342 36.000 11.53 5.62 0.00 2.57
2618 2762 5.082059 GCACAATTGTACATATGCGCTATC 58.918 41.667 11.53 0.00 0.00 2.08
2619 2763 4.083324 GGCACAATTGTACATATGCGCTAT 60.083 41.667 11.53 3.00 33.85 2.97
2620 2764 3.249799 GGCACAATTGTACATATGCGCTA 59.750 43.478 11.53 0.00 33.85 4.26
2621 2765 2.033299 GGCACAATTGTACATATGCGCT 59.967 45.455 11.53 0.00 33.85 5.92
2622 2766 2.223456 TGGCACAATTGTACATATGCGC 60.223 45.455 11.53 7.71 33.85 6.09
2623 2767 3.689309 TGGCACAATTGTACATATGCG 57.311 42.857 11.53 0.00 33.85 4.73
2647 2794 4.553323 GGTACGGTGTTCGAGCATATATT 58.447 43.478 4.92 0.00 42.43 1.28
2648 2795 4.170292 GGTACGGTGTTCGAGCATATAT 57.830 45.455 4.92 0.00 42.43 0.86
2668 2815 4.201773 TGTTATAAAAATGAGCGCAGTCGG 60.202 41.667 11.47 0.00 35.95 4.79
2675 2822 9.128107 ACAAATGTCTTGTTATAAAAATGAGCG 57.872 29.630 0.00 0.00 0.00 5.03
2700 2847 3.636282 ACGGGCAACAAATGTAGAAAC 57.364 42.857 0.00 0.00 39.74 2.78
2751 2898 7.934665 TCTGTACATGGTTAAGTCTGCTAAAAA 59.065 33.333 0.00 0.00 0.00 1.94
2752 2899 7.386848 GTCTGTACATGGTTAAGTCTGCTAAAA 59.613 37.037 0.00 0.00 0.00 1.52
2753 2900 6.872020 GTCTGTACATGGTTAAGTCTGCTAAA 59.128 38.462 0.00 0.00 0.00 1.85
2754 2901 6.395629 GTCTGTACATGGTTAAGTCTGCTAA 58.604 40.000 0.00 0.00 0.00 3.09
2755 2902 5.392703 CGTCTGTACATGGTTAAGTCTGCTA 60.393 44.000 0.00 0.00 0.00 3.49
2756 2903 4.618460 CGTCTGTACATGGTTAAGTCTGCT 60.618 45.833 0.00 0.00 0.00 4.24
2757 2904 3.612860 CGTCTGTACATGGTTAAGTCTGC 59.387 47.826 0.00 0.00 0.00 4.26
2758 2905 3.612860 GCGTCTGTACATGGTTAAGTCTG 59.387 47.826 0.00 0.00 0.00 3.51
2759 2906 3.510360 AGCGTCTGTACATGGTTAAGTCT 59.490 43.478 0.00 0.00 0.00 3.24
2760 2907 3.846360 AGCGTCTGTACATGGTTAAGTC 58.154 45.455 0.00 0.00 0.00 3.01
2761 2908 3.955650 AGCGTCTGTACATGGTTAAGT 57.044 42.857 0.00 0.00 0.00 2.24
2762 2909 5.647589 TCTTAGCGTCTGTACATGGTTAAG 58.352 41.667 0.00 7.05 0.00 1.85
2763 2910 5.648178 TCTTAGCGTCTGTACATGGTTAA 57.352 39.130 0.00 0.00 0.00 2.01
2764 2911 5.416639 TCTTCTTAGCGTCTGTACATGGTTA 59.583 40.000 0.00 0.00 0.00 2.85
2765 2912 4.219944 TCTTCTTAGCGTCTGTACATGGTT 59.780 41.667 0.00 0.00 0.00 3.67
2766 2913 3.762288 TCTTCTTAGCGTCTGTACATGGT 59.238 43.478 0.00 0.00 0.00 3.55
2767 2914 4.371855 TCTTCTTAGCGTCTGTACATGG 57.628 45.455 0.00 0.00 0.00 3.66
2768 2915 5.344066 ACATCTTCTTAGCGTCTGTACATG 58.656 41.667 0.00 0.00 0.00 3.21
2769 2916 5.584253 ACATCTTCTTAGCGTCTGTACAT 57.416 39.130 0.00 0.00 0.00 2.29
2770 2917 5.386958 AACATCTTCTTAGCGTCTGTACA 57.613 39.130 0.00 0.00 0.00 2.90
2771 2918 7.988904 ATAAACATCTTCTTAGCGTCTGTAC 57.011 36.000 0.00 0.00 0.00 2.90
2772 2919 8.900781 AGTATAAACATCTTCTTAGCGTCTGTA 58.099 33.333 0.00 0.00 0.00 2.74
2773 2920 7.773149 AGTATAAACATCTTCTTAGCGTCTGT 58.227 34.615 0.00 0.00 0.00 3.41
2774 2921 7.915923 TGAGTATAAACATCTTCTTAGCGTCTG 59.084 37.037 0.00 0.00 0.00 3.51
2775 2922 7.997482 TGAGTATAAACATCTTCTTAGCGTCT 58.003 34.615 0.00 0.00 0.00 4.18
2776 2923 8.804688 ATGAGTATAAACATCTTCTTAGCGTC 57.195 34.615 0.00 0.00 0.00 5.19
2777 2924 9.900710 CTATGAGTATAAACATCTTCTTAGCGT 57.099 33.333 0.00 0.00 0.00 5.07
2778 2925 8.855279 GCTATGAGTATAAACATCTTCTTAGCG 58.145 37.037 0.00 0.00 0.00 4.26
2779 2926 9.145865 GGCTATGAGTATAAACATCTTCTTAGC 57.854 37.037 8.03 8.03 0.00 3.09
2825 3011 9.210426 CGTTGTCATTTGTACTTCTTATTATGC 57.790 33.333 0.00 0.00 0.00 3.14
3103 3291 7.374228 CACGCATGTAATCATAAACACTTCATC 59.626 37.037 0.00 0.00 32.47 2.92
3111 3299 4.908736 ACTGCACGCATGTAATCATAAAC 58.091 39.130 0.00 0.00 32.47 2.01
3145 3333 7.181125 AGCAAGCTAGCTACCATTATAGGTATT 59.819 37.037 19.70 0.00 44.50 1.89
3150 3338 6.459066 TCAAGCAAGCTAGCTACCATTATAG 58.541 40.000 19.70 2.60 45.89 1.31
3153 3341 4.753516 TCAAGCAAGCTAGCTACCATTA 57.246 40.909 19.70 0.00 45.89 1.90
3155 3343 3.274288 GTTCAAGCAAGCTAGCTACCAT 58.726 45.455 19.70 0.00 45.89 3.55
3189 3378 8.213679 CCTAGATAATTTTCTTGGTGATCCTCA 58.786 37.037 15.00 0.00 34.93 3.86
3252 3441 3.066760 GGCCCATGCATTACTAACTGTTC 59.933 47.826 0.00 0.00 40.13 3.18
3261 3450 2.431782 ACATTTCAGGCCCATGCATTAC 59.568 45.455 0.00 0.00 40.13 1.89


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

AutoCloner maintained by Alex Coulton.