Multiple sequence alignment - TraesCS7B01G400600

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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 TraesCS7B01G400600 chr7B 100.000 3219 0 0 1 3219 667072548 667069330 0.000000e+00 5945
1 TraesCS7B01G400600 chr7D 93.350 3143 152 26 113 3219 594731742 594728621 0.000000e+00 4593
2 TraesCS7B01G400600 chr7A 92.917 2612 132 23 132 2719 686936129 686938711 0.000000e+00 3749
3 TraesCS7B01G400600 chr7A 87.324 426 52 2 2794 3219 686938945 686939368 1.340000e-133 486
4 TraesCS7B01G400600 chr2D 87.541 305 36 2 2634 2936 618294473 618294777 5.110000e-93 351
5 TraesCS7B01G400600 chr2D 86.957 161 17 4 1974 2130 450235652 450235812 9.180000e-41 178
6 TraesCS7B01G400600 chr2A 87.541 305 34 3 2637 2937 197420284 197419980 1.840000e-92 350
7 TraesCS7B01G400600 chr2A 83.186 226 26 9 1081 1300 594580390 594580609 2.530000e-46 196
8 TraesCS7B01G400600 chr2A 86.286 175 18 6 1964 2132 594581062 594581236 5.480000e-43 185
9 TraesCS7B01G400600 chr5B 87.417 302 35 3 2637 2936 339911105 339910805 8.550000e-91 344
10 TraesCS7B01G400600 chr3B 87.171 304 36 3 2636 2936 449806545 449806848 3.080000e-90 342
11 TraesCS7B01G400600 chr3B 86.645 307 37 4 2633 2936 191186855 191186550 1.430000e-88 337
12 TraesCS7B01G400600 chr5D 87.043 301 38 1 2637 2936 504790563 504790863 3.980000e-89 339
13 TraesCS7B01G400600 chr4B 87.043 301 37 2 2638 2936 814407 814107 3.980000e-89 339
14 TraesCS7B01G400600 chr6D 86.885 305 35 2 2637 2936 318368594 318368898 1.430000e-88 337
15 TraesCS7B01G400600 chr6D 88.485 165 16 2 1966 2130 110443600 110443439 2.530000e-46 196
16 TraesCS7B01G400600 chr6B 80.519 308 37 17 1018 1309 198986205 198985905 6.990000e-52 215
17 TraesCS7B01G400600 chr6B 86.387 191 23 2 1966 2153 198985195 198985005 4.210000e-49 206
18 TraesCS7B01G400600 chr6A 80.519 308 37 18 1018 1309 134949350 134949050 6.990000e-52 215
19 TraesCS7B01G400600 chr6A 89.542 153 14 2 1966 2117 134948347 134948196 3.280000e-45 193
20 TraesCS7B01G400600 chr2B 83.645 214 23 9 1093 1300 530306641 530306848 1.180000e-44 191
21 TraesCS7B01G400600 chr2B 86.705 173 17 6 1964 2130 530307305 530307477 1.520000e-43 187


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 TraesCS7B01G400600 chr7B 667069330 667072548 3218 True 5945.0 5945 100.0000 1 3219 1 chr7B.!!$R1 3218
1 TraesCS7B01G400600 chr7D 594728621 594731742 3121 True 4593.0 4593 93.3500 113 3219 1 chr7D.!!$R1 3106
2 TraesCS7B01G400600 chr7A 686936129 686939368 3239 False 2117.5 3749 90.1205 132 3219 2 chr7A.!!$F1 3087
3 TraesCS7B01G400600 chr6B 198985005 198986205 1200 True 210.5 215 83.4530 1018 2153 2 chr6B.!!$R1 1135
4 TraesCS7B01G400600 chr6A 134948196 134949350 1154 True 204.0 215 85.0305 1018 2117 2 chr6A.!!$R1 1099

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
972 992 0.107703 CCATTGCCTGTCGGAGCTAA 60.108 55.0 0.0 0.0 0.0 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2750 3157 0.033796 ACGTCTCCTCCCACCGAATA 60.034 55.0 0.0 0.0 0.0 1.75 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
63 64 5.359194 TTTTTGTGGCCCATGTAAGAAAA 57.641 34.783 0.00 0.00 0.00 2.29
64 65 5.559148 TTTTGTGGCCCATGTAAGAAAAT 57.441 34.783 0.00 0.00 0.00 1.82
65 66 4.533919 TTGTGGCCCATGTAAGAAAATG 57.466 40.909 0.00 0.00 0.00 2.32
66 67 3.772387 TGTGGCCCATGTAAGAAAATGA 58.228 40.909 0.00 0.00 0.00 2.57
67 68 4.155709 TGTGGCCCATGTAAGAAAATGAA 58.844 39.130 0.00 0.00 0.00 2.57
68 69 4.220382 TGTGGCCCATGTAAGAAAATGAAG 59.780 41.667 0.00 0.00 0.00 3.02
69 70 4.220602 GTGGCCCATGTAAGAAAATGAAGT 59.779 41.667 0.00 0.00 0.00 3.01
70 71 4.837860 TGGCCCATGTAAGAAAATGAAGTT 59.162 37.500 0.00 0.00 0.00 2.66
71 72 5.306678 TGGCCCATGTAAGAAAATGAAGTTT 59.693 36.000 0.00 0.00 0.00 2.66
72 73 5.639082 GGCCCATGTAAGAAAATGAAGTTTG 59.361 40.000 0.00 0.00 0.00 2.93
73 74 6.454795 GCCCATGTAAGAAAATGAAGTTTGA 58.545 36.000 0.00 0.00 0.00 2.69
74 75 6.928492 GCCCATGTAAGAAAATGAAGTTTGAA 59.072 34.615 0.00 0.00 0.00 2.69
75 76 7.116805 GCCCATGTAAGAAAATGAAGTTTGAAG 59.883 37.037 0.00 0.00 0.00 3.02
76 77 8.143835 CCCATGTAAGAAAATGAAGTTTGAAGT 58.856 33.333 0.00 0.00 0.00 3.01
77 78 8.971321 CCATGTAAGAAAATGAAGTTTGAAGTG 58.029 33.333 0.00 0.00 0.00 3.16
78 79 9.520204 CATGTAAGAAAATGAAGTTTGAAGTGT 57.480 29.630 0.00 0.00 0.00 3.55
89 90 8.958119 TGAAGTTTGAAGTGTAGAAATAGTGT 57.042 30.769 0.00 0.00 0.00 3.55
90 91 9.391006 TGAAGTTTGAAGTGTAGAAATAGTGTT 57.609 29.630 0.00 0.00 0.00 3.32
91 92 9.651718 GAAGTTTGAAGTGTAGAAATAGTGTTG 57.348 33.333 0.00 0.00 0.00 3.33
92 93 7.639945 AGTTTGAAGTGTAGAAATAGTGTTGC 58.360 34.615 0.00 0.00 0.00 4.17
93 94 7.282224 AGTTTGAAGTGTAGAAATAGTGTTGCA 59.718 33.333 0.00 0.00 0.00 4.08
94 95 7.561021 TTGAAGTGTAGAAATAGTGTTGCAA 57.439 32.000 0.00 0.00 0.00 4.08
95 96 7.561021 TGAAGTGTAGAAATAGTGTTGCAAA 57.439 32.000 0.00 0.00 0.00 3.68
96 97 7.990917 TGAAGTGTAGAAATAGTGTTGCAAAA 58.009 30.769 0.00 0.00 0.00 2.44
97 98 8.629158 TGAAGTGTAGAAATAGTGTTGCAAAAT 58.371 29.630 0.00 0.00 0.00 1.82
98 99 8.801715 AAGTGTAGAAATAGTGTTGCAAAATG 57.198 30.769 0.00 0.00 0.00 2.32
99 100 7.940850 AGTGTAGAAATAGTGTTGCAAAATGT 58.059 30.769 0.00 0.00 0.00 2.71
100 101 8.076178 AGTGTAGAAATAGTGTTGCAAAATGTC 58.924 33.333 0.00 0.00 0.00 3.06
101 102 8.076178 GTGTAGAAATAGTGTTGCAAAATGTCT 58.924 33.333 0.00 5.58 0.00 3.41
102 103 8.629158 TGTAGAAATAGTGTTGCAAAATGTCTT 58.371 29.630 0.00 0.00 0.00 3.01
103 104 9.463443 GTAGAAATAGTGTTGCAAAATGTCTTT 57.537 29.630 0.00 0.00 0.00 2.52
110 111 7.820648 AGTGTTGCAAAATGTCTTTATAGAGG 58.179 34.615 0.00 0.00 0.00 3.69
111 112 7.665559 AGTGTTGCAAAATGTCTTTATAGAGGA 59.334 33.333 0.00 0.00 0.00 3.71
157 160 2.676342 GGCATACGTCCATCTTTTTCGT 59.324 45.455 0.00 0.00 38.30 3.85
166 169 1.135972 CATCTTTTTCGTGGCCTGTCG 60.136 52.381 3.32 6.77 0.00 4.35
222 225 2.588620 ACTGGTTTTTGATTGCGGGTA 58.411 42.857 0.00 0.00 0.00 3.69
265 268 5.183904 TCTCCAAGAAAAAGGCTAATGCTTC 59.816 40.000 0.00 0.00 39.59 3.86
282 285 3.201726 CTTCGTACAAAGCATTGGGTG 57.798 47.619 6.62 0.00 41.01 4.61
298 301 1.546323 GGGTGCCATGATACAGATGGG 60.546 57.143 0.00 0.00 40.80 4.00
316 320 1.548719 GGGGGTCAAAGGAAATTTCGG 59.451 52.381 11.95 2.35 0.00 4.30
336 340 2.805099 GGAGAGATACGAATACGACGGT 59.195 50.000 0.00 0.00 42.66 4.83
346 350 5.928465 CGAATACGACGGTGCAATCATGC 62.928 52.174 0.00 0.00 46.89 4.06
498 511 1.453155 CCGTGGTAGCAAAATCAGCT 58.547 50.000 0.00 0.00 45.77 4.24
600 613 0.324614 TGGCATCACAGTTCACGGAT 59.675 50.000 0.00 0.00 0.00 4.18
626 639 3.414272 GGCATCACCGTGAGCATC 58.586 61.111 18.54 5.05 0.00 3.91
627 640 2.528743 GGCATCACCGTGAGCATCG 61.529 63.158 18.54 3.87 38.61 3.84
629 642 1.756375 GCATCACCGTGAGCATCGAC 61.756 60.000 7.41 0.00 38.61 4.20
700 717 4.974721 AGCCAAGCCAACCCACCG 62.975 66.667 0.00 0.00 0.00 4.94
707 724 4.263572 CCAACCCACCGAGCACCA 62.264 66.667 0.00 0.00 0.00 4.17
924 942 4.161942 CACCTCAGATCAATCACTCTTCCT 59.838 45.833 0.00 0.00 0.00 3.36
925 943 4.405358 ACCTCAGATCAATCACTCTTCCTC 59.595 45.833 0.00 0.00 0.00 3.71
926 944 4.650588 CCTCAGATCAATCACTCTTCCTCT 59.349 45.833 0.00 0.00 0.00 3.69
929 947 3.966665 AGATCAATCACTCTTCCTCTCCC 59.033 47.826 0.00 0.00 0.00 4.30
930 948 3.190383 TCAATCACTCTTCCTCTCCCA 57.810 47.619 0.00 0.00 0.00 4.37
931 949 2.834549 TCAATCACTCTTCCTCTCCCAC 59.165 50.000 0.00 0.00 0.00 4.61
932 950 2.836981 CAATCACTCTTCCTCTCCCACT 59.163 50.000 0.00 0.00 0.00 4.00
933 951 4.026744 CAATCACTCTTCCTCTCCCACTA 58.973 47.826 0.00 0.00 0.00 2.74
946 966 2.736995 CACTACCACCACCGCGTG 60.737 66.667 4.92 3.32 0.00 5.34
972 992 0.107703 CCATTGCCTGTCGGAGCTAA 60.108 55.000 0.00 0.00 0.00 3.09
994 1025 4.394712 ACGTGCAGGGGTGCTAGC 62.395 66.667 8.10 8.10 35.49 3.42
1026 1057 2.347490 CTGCGCAAGTACTGGGGT 59.653 61.111 13.05 0.00 38.41 4.95
1606 1676 4.814294 ACTTCGCGTGCGGGATCC 62.814 66.667 14.89 1.92 40.25 3.36
1844 1965 3.357203 AGCTTAGAGATCGACTTCACCA 58.643 45.455 0.00 0.00 0.00 4.17
2191 2409 1.819903 ACCTCCTACTTGCTCGACTTC 59.180 52.381 0.00 0.00 0.00 3.01
2227 2445 3.154473 TCCTTCTGATCCGCCGGG 61.154 66.667 1.90 0.00 0.00 5.73
2294 2517 3.752359 ACAGTAGTAGGGGACTAGCAA 57.248 47.619 0.00 0.00 45.49 3.91
2295 2518 4.267341 ACAGTAGTAGGGGACTAGCAAT 57.733 45.455 0.00 0.00 45.49 3.56
2296 2519 4.216708 ACAGTAGTAGGGGACTAGCAATC 58.783 47.826 0.00 0.00 45.49 2.67
2297 2520 3.574826 CAGTAGTAGGGGACTAGCAATCC 59.425 52.174 0.00 0.00 45.49 3.01
2304 2527 2.553904 GGGGACTAGCAATCCATCCATG 60.554 54.545 0.71 0.00 38.06 3.66
2325 2548 2.896685 GCATGTACTCCTCCTGAGCTAT 59.103 50.000 0.00 0.00 45.61 2.97
2326 2549 4.082845 GCATGTACTCCTCCTGAGCTATA 58.917 47.826 0.00 0.00 45.61 1.31
2487 2716 9.507329 AAGTTTATGGCGATTATGTTCATCTAT 57.493 29.630 0.00 0.00 0.00 1.98
2489 2718 9.155975 GTTTATGGCGATTATGTTCATCTATCT 57.844 33.333 0.00 0.00 0.00 1.98
2538 2768 2.608016 GCGAATGCTCCTGTGATCGATA 60.608 50.000 0.00 0.00 38.39 2.92
2629 2859 3.514645 GGTATGCACCAAATCAGCTTTG 58.485 45.455 0.00 0.00 45.04 2.77
2635 2865 5.423015 TGCACCAAATCAGCTTTGTAAAAA 58.577 33.333 0.00 0.00 42.29 1.94
2666 2896 0.546598 GTGGGTGGATGGTTAGAGGG 59.453 60.000 0.00 0.00 0.00 4.30
2674 2904 3.828418 TGGTTAGAGGGACCATGGT 57.172 52.632 19.89 19.89 42.06 3.55
2679 2909 3.588569 GTTAGAGGGACCATGGTATCCT 58.411 50.000 29.35 29.35 35.54 3.24
2689 2919 2.848694 CCATGGTATCCTAGCCCATCAT 59.151 50.000 2.57 0.00 36.85 2.45
2697 2928 2.173356 TCCTAGCCCATCATGGTTCAAG 59.827 50.000 2.07 0.00 35.17 3.02
2700 2931 1.637553 AGCCCATCATGGTTCAAGTCT 59.362 47.619 2.07 0.00 35.17 3.24
2703 2934 2.756760 CCCATCATGGTTCAAGTCTTGG 59.243 50.000 12.66 0.00 35.17 3.61
2715 2946 2.472695 AGTCTTGGTGCTCGCATTTA 57.527 45.000 0.00 0.00 0.00 1.40
2719 2950 3.375299 GTCTTGGTGCTCGCATTTATTCT 59.625 43.478 0.00 0.00 0.00 2.40
2722 3129 2.423185 TGGTGCTCGCATTTATTCTTGG 59.577 45.455 0.00 0.00 0.00 3.61
2733 3140 9.734620 TCGCATTTATTCTTGGATTTATTTCAG 57.265 29.630 0.00 0.00 0.00 3.02
2741 3148 8.663209 TTCTTGGATTTATTTCAGGATTTCCA 57.337 30.769 0.00 0.00 38.89 3.53
2744 3151 6.197168 TGGATTTATTTCAGGATTTCCAGCT 58.803 36.000 0.00 0.00 38.89 4.24
2750 3157 3.870538 TCAGGATTTCCAGCTATGCAT 57.129 42.857 3.79 3.79 38.89 3.96
2755 3162 4.940046 AGGATTTCCAGCTATGCATATTCG 59.060 41.667 6.92 0.00 38.89 3.34
2783 3190 3.025619 ACGTTTCCGTCGACGACT 58.974 55.556 37.65 15.09 46.28 4.18
2789 3196 1.915614 TTCCGTCGACGACTAGGTGC 61.916 60.000 37.65 0.00 43.02 5.01
2795 3202 1.086067 CGACGACTAGGTGCCTACGA 61.086 60.000 13.03 0.00 0.00 3.43
2827 3234 6.293407 CGTAAATTTCAAGATGATATGCCGGT 60.293 38.462 1.90 0.00 0.00 5.28
2838 3245 3.055458 TGATATGCCGGTTCAGTCTTTCA 60.055 43.478 1.90 0.00 0.00 2.69
2849 3256 2.700371 TCAGTCTTTCAGAGGTGCTCAA 59.300 45.455 0.00 0.00 32.06 3.02
2850 3257 3.326006 TCAGTCTTTCAGAGGTGCTCAAT 59.674 43.478 0.00 0.00 32.06 2.57
2853 3260 4.067896 GTCTTTCAGAGGTGCTCAATGAA 58.932 43.478 0.00 0.00 32.06 2.57
2854 3261 4.516698 GTCTTTCAGAGGTGCTCAATGAAA 59.483 41.667 10.09 10.09 34.54 2.69
2857 3264 6.596888 TCTTTCAGAGGTGCTCAATGAAATAG 59.403 38.462 10.63 3.94 35.59 1.73
2863 3270 3.129287 GGTGCTCAATGAAATAGGGTGTG 59.871 47.826 0.00 0.00 0.00 3.82
2865 3272 2.223340 GCTCAATGAAATAGGGTGTGCG 60.223 50.000 0.00 0.00 0.00 5.34
2876 3283 2.350760 GTGTGCGTGTGTGCGTTC 60.351 61.111 0.00 0.00 37.81 3.95
2880 3287 0.233590 GTGCGTGTGTGCGTTCATAA 59.766 50.000 0.00 0.00 37.81 1.90
2894 3301 6.426937 GTGCGTTCATAAGGGTGAATGTATAT 59.573 38.462 9.71 0.00 43.66 0.86
2923 3330 1.438651 TAATCGCTTGTGTCTGCACC 58.561 50.000 0.00 0.00 44.65 5.01
2929 3336 1.577468 CTTGTGTCTGCACCGTGTTA 58.423 50.000 0.00 0.00 44.65 2.41
3043 3451 0.741574 TGGCAACTTGTGTTCGTCGT 60.742 50.000 0.00 0.00 33.52 4.34
3193 3601 4.824479 TGCCATGACTAAAGATCTGACA 57.176 40.909 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 5.359194 TTTTCTTACATGGGCCACAAAAA 57.641 34.783 9.28 6.89 0.00 1.94
42 43 5.070981 TCATTTTCTTACATGGGCCACAAAA 59.929 36.000 9.28 7.98 0.00 2.44
43 44 4.590647 TCATTTTCTTACATGGGCCACAAA 59.409 37.500 9.28 2.17 0.00 2.83
44 45 4.155709 TCATTTTCTTACATGGGCCACAA 58.844 39.130 9.28 2.17 0.00 3.33
45 46 3.772387 TCATTTTCTTACATGGGCCACA 58.228 40.909 9.28 0.00 0.00 4.17
46 47 4.220602 ACTTCATTTTCTTACATGGGCCAC 59.779 41.667 9.28 0.00 0.00 5.01
47 48 4.415596 ACTTCATTTTCTTACATGGGCCA 58.584 39.130 9.61 9.61 0.00 5.36
48 49 5.405935 AACTTCATTTTCTTACATGGGCC 57.594 39.130 0.00 0.00 0.00 5.80
49 50 6.454795 TCAAACTTCATTTTCTTACATGGGC 58.545 36.000 0.00 0.00 0.00 5.36
50 51 8.143835 ACTTCAAACTTCATTTTCTTACATGGG 58.856 33.333 0.00 0.00 0.00 4.00
51 52 8.971321 CACTTCAAACTTCATTTTCTTACATGG 58.029 33.333 0.00 0.00 0.00 3.66
52 53 9.520204 ACACTTCAAACTTCATTTTCTTACATG 57.480 29.630 0.00 0.00 0.00 3.21
63 64 9.561069 ACACTATTTCTACACTTCAAACTTCAT 57.439 29.630 0.00 0.00 0.00 2.57
64 65 8.958119 ACACTATTTCTACACTTCAAACTTCA 57.042 30.769 0.00 0.00 0.00 3.02
65 66 9.651718 CAACACTATTTCTACACTTCAAACTTC 57.348 33.333 0.00 0.00 0.00 3.01
66 67 8.129211 GCAACACTATTTCTACACTTCAAACTT 58.871 33.333 0.00 0.00 0.00 2.66
67 68 7.282224 TGCAACACTATTTCTACACTTCAAACT 59.718 33.333 0.00 0.00 0.00 2.66
68 69 7.414436 TGCAACACTATTTCTACACTTCAAAC 58.586 34.615 0.00 0.00 0.00 2.93
69 70 7.561021 TGCAACACTATTTCTACACTTCAAA 57.439 32.000 0.00 0.00 0.00 2.69
70 71 7.561021 TTGCAACACTATTTCTACACTTCAA 57.439 32.000 0.00 0.00 0.00 2.69
71 72 7.561021 TTTGCAACACTATTTCTACACTTCA 57.439 32.000 0.00 0.00 0.00 3.02
72 73 8.905702 CATTTTGCAACACTATTTCTACACTTC 58.094 33.333 0.00 0.00 0.00 3.01
73 74 8.413229 ACATTTTGCAACACTATTTCTACACTT 58.587 29.630 0.00 0.00 0.00 3.16
74 75 7.940850 ACATTTTGCAACACTATTTCTACACT 58.059 30.769 0.00 0.00 0.00 3.55
75 76 8.076178 AGACATTTTGCAACACTATTTCTACAC 58.924 33.333 0.00 0.00 0.00 2.90
76 77 8.165239 AGACATTTTGCAACACTATTTCTACA 57.835 30.769 0.00 0.00 0.00 2.74
77 78 9.463443 AAAGACATTTTGCAACACTATTTCTAC 57.537 29.630 0.00 0.00 0.00 2.59
84 85 8.946085 CCTCTATAAAGACATTTTGCAACACTA 58.054 33.333 0.00 0.00 0.00 2.74
85 86 7.665559 TCCTCTATAAAGACATTTTGCAACACT 59.334 33.333 0.00 0.00 0.00 3.55
86 87 7.816640 TCCTCTATAAAGACATTTTGCAACAC 58.183 34.615 0.00 0.00 0.00 3.32
87 88 7.994425 TCCTCTATAAAGACATTTTGCAACA 57.006 32.000 0.00 0.00 0.00 3.33
88 89 8.515414 ACTTCCTCTATAAAGACATTTTGCAAC 58.485 33.333 0.00 0.00 0.00 4.17
89 90 8.635765 ACTTCCTCTATAAAGACATTTTGCAA 57.364 30.769 0.00 0.00 0.00 4.08
90 91 9.162764 GTACTTCCTCTATAAAGACATTTTGCA 57.837 33.333 0.00 0.00 0.00 4.08
91 92 9.162764 TGTACTTCCTCTATAAAGACATTTTGC 57.837 33.333 0.00 0.00 0.00 3.68
96 97 9.696572 TGTACTGTACTTCCTCTATAAAGACAT 57.303 33.333 17.98 0.00 0.00 3.06
97 98 9.524496 TTGTACTGTACTTCCTCTATAAAGACA 57.476 33.333 17.98 0.00 0.00 3.41
98 99 9.786105 GTTGTACTGTACTTCCTCTATAAAGAC 57.214 37.037 17.98 0.00 0.00 3.01
99 100 9.524496 TGTTGTACTGTACTTCCTCTATAAAGA 57.476 33.333 17.98 0.00 0.00 2.52
103 104 9.570468 CCTATGTTGTACTGTACTTCCTCTATA 57.430 37.037 17.98 7.23 0.00 1.31
104 105 7.506261 CCCTATGTTGTACTGTACTTCCTCTAT 59.494 40.741 17.98 6.59 0.00 1.98
105 106 6.832384 CCCTATGTTGTACTGTACTTCCTCTA 59.168 42.308 17.98 3.42 0.00 2.43
106 107 5.657302 CCCTATGTTGTACTGTACTTCCTCT 59.343 44.000 17.98 2.54 0.00 3.69
107 108 5.421374 ACCCTATGTTGTACTGTACTTCCTC 59.579 44.000 17.98 5.76 0.00 3.71
108 109 5.339477 ACCCTATGTTGTACTGTACTTCCT 58.661 41.667 17.98 7.47 0.00 3.36
109 110 5.672421 ACCCTATGTTGTACTGTACTTCC 57.328 43.478 17.98 7.19 0.00 3.46
110 111 6.127897 ACGTACCCTATGTTGTACTGTACTTC 60.128 42.308 17.98 11.40 36.13 3.01
111 112 5.711976 ACGTACCCTATGTTGTACTGTACTT 59.288 40.000 17.98 4.51 36.13 2.24
144 147 1.202879 ACAGGCCACGAAAAAGATGGA 60.203 47.619 5.01 0.00 35.33 3.41
157 160 1.519408 GCTAAAAGTTCGACAGGCCA 58.481 50.000 5.01 0.00 0.00 5.36
245 248 4.798574 ACGAAGCATTAGCCTTTTTCTTG 58.201 39.130 0.00 0.00 43.56 3.02
248 251 5.291293 TGTACGAAGCATTAGCCTTTTTC 57.709 39.130 0.00 0.00 43.56 2.29
282 285 0.773644 ACCCCCATCTGTATCATGGC 59.226 55.000 0.00 0.00 39.78 4.40
298 301 3.418047 TCTCCGAAATTTCCTTTGACCC 58.582 45.455 12.54 0.00 0.00 4.46
316 320 3.796783 CACCGTCGTATTCGTATCTCTC 58.203 50.000 0.00 0.00 38.33 3.20
482 495 2.643551 GGCTAGCTGATTTTGCTACCA 58.356 47.619 15.72 0.00 41.46 3.25
600 613 3.305314 GGTGATGCCGGACTGGTA 58.695 61.111 5.05 0.00 41.21 3.25
623 636 4.489679 TCTTATCATGTCCTCGTCGATG 57.510 45.455 0.00 0.00 0.00 3.84
624 637 4.082517 CCATCTTATCATGTCCTCGTCGAT 60.083 45.833 0.00 0.00 0.00 3.59
625 638 3.253432 CCATCTTATCATGTCCTCGTCGA 59.747 47.826 0.00 0.00 0.00 4.20
626 639 3.569548 CCATCTTATCATGTCCTCGTCG 58.430 50.000 0.00 0.00 0.00 5.12
627 640 3.574396 TCCCATCTTATCATGTCCTCGTC 59.426 47.826 0.00 0.00 0.00 4.20
629 642 4.815533 ATCCCATCTTATCATGTCCTCG 57.184 45.455 0.00 0.00 0.00 4.63
700 717 3.745803 GCTGCTGGCTTGGTGCTC 61.746 66.667 0.00 0.00 42.39 4.26
849 867 1.844296 AATAGTGGGTGGGGGAGGGA 61.844 60.000 0.00 0.00 0.00 4.20
924 942 1.608336 CGGTGGTGGTAGTGGGAGA 60.608 63.158 0.00 0.00 0.00 3.71
925 943 2.978824 CGGTGGTGGTAGTGGGAG 59.021 66.667 0.00 0.00 0.00 4.30
926 944 3.315949 GCGGTGGTGGTAGTGGGA 61.316 66.667 0.00 0.00 0.00 4.37
929 947 2.736995 CACGCGGTGGTGGTAGTG 60.737 66.667 12.47 0.00 34.27 2.74
930 948 4.675029 GCACGCGGTGGTGGTAGT 62.675 66.667 12.47 0.00 38.36 2.73
931 949 4.673298 TGCACGCGGTGGTGGTAG 62.673 66.667 12.47 0.00 38.36 3.18
932 950 4.973055 GTGCACGCGGTGGTGGTA 62.973 66.667 12.47 0.00 38.36 3.25
972 992 3.314331 CACCCCTGCACGTCCTCT 61.314 66.667 0.00 0.00 0.00 3.69
1371 1432 3.144120 CTCGTCCTGATCCGCCCTG 62.144 68.421 0.00 0.00 0.00 4.45
1419 1480 0.518636 CCACGTTGAGGTTCAGCATG 59.481 55.000 0.00 0.00 37.54 4.06
1682 1767 2.593148 TTCGCGCCAAGGCAAAGA 60.593 55.556 12.19 4.09 42.06 2.52
1828 1949 0.820871 GCCTGGTGAAGTCGATCTCT 59.179 55.000 0.00 0.00 0.00 3.10
1936 2130 1.515954 CTCCGGCACCGTCAAGTAT 59.484 57.895 8.49 0.00 37.81 2.12
2158 2376 2.047179 GAGGTGGAAGACGGCACC 60.047 66.667 0.00 0.00 37.95 5.01
2294 2517 2.984604 AGGAGTACATGCATGGATGGAT 59.015 45.455 29.41 14.94 39.56 3.41
2295 2518 2.369860 GAGGAGTACATGCATGGATGGA 59.630 50.000 29.41 19.73 0.00 3.41
2296 2519 2.551721 GGAGGAGTACATGCATGGATGG 60.552 54.545 29.41 12.47 0.00 3.51
2297 2520 2.371179 AGGAGGAGTACATGCATGGATG 59.629 50.000 29.41 24.00 0.00 3.51
2304 2527 1.118838 AGCTCAGGAGGAGTACATGC 58.881 55.000 0.00 0.00 45.88 4.06
2325 2548 1.292992 TCACTAGCGCGATCGAACTA 58.707 50.000 21.57 17.15 38.10 2.24
2326 2549 0.663688 ATCACTAGCGCGATCGAACT 59.336 50.000 21.57 16.93 38.10 3.01
2457 2686 8.725405 TGAACATAATCGCCATAAACTTAGAA 57.275 30.769 0.00 0.00 0.00 2.10
2476 2705 7.831193 AGCCTTGTTTTGTAGATAGATGAACAT 59.169 33.333 0.00 0.00 0.00 2.71
2487 2716 5.972935 TCATATCGAGCCTTGTTTTGTAGA 58.027 37.500 0.00 0.00 0.00 2.59
2489 2718 6.844696 GATCATATCGAGCCTTGTTTTGTA 57.155 37.500 0.00 0.00 0.00 2.41
2527 2757 9.162793 GCAGACAAATTTTAATATCGATCACAG 57.837 33.333 0.00 0.00 0.00 3.66
2622 2852 7.381139 ACATATTGGTTCGTTTTTACAAAGCTG 59.619 33.333 0.00 0.00 0.00 4.24
2629 2859 5.859648 CACCCACATATTGGTTCGTTTTTAC 59.140 40.000 4.06 0.00 45.25 2.01
2635 2865 1.631388 TCCACCCACATATTGGTTCGT 59.369 47.619 4.06 0.00 45.25 3.85
2651 2881 1.580059 TGGTCCCTCTAACCATCCAC 58.420 55.000 0.00 0.00 41.84 4.02
2666 2896 1.729586 TGGGCTAGGATACCATGGTC 58.270 55.000 23.76 8.00 37.17 4.02
2673 2903 3.327757 TGAACCATGATGGGCTAGGATAC 59.672 47.826 17.04 0.00 43.37 2.24
2674 2904 3.597182 TGAACCATGATGGGCTAGGATA 58.403 45.455 17.04 0.00 43.37 2.59
2679 2909 2.846206 AGACTTGAACCATGATGGGCTA 59.154 45.455 17.04 3.69 43.37 3.93
2689 2919 1.810031 CGAGCACCAAGACTTGAACCA 60.810 52.381 16.99 0.00 0.00 3.67
2697 2928 3.375299 AGAATAAATGCGAGCACCAAGAC 59.625 43.478 0.00 0.00 0.00 3.01
2700 2931 3.119531 CCAAGAATAAATGCGAGCACCAA 60.120 43.478 0.00 0.00 0.00 3.67
2703 2934 4.558538 ATCCAAGAATAAATGCGAGCAC 57.441 40.909 0.00 0.00 0.00 4.40
2715 2946 9.270707 TGGAAATCCTGAAATAAATCCAAGAAT 57.729 29.630 0.44 0.00 33.06 2.40
2719 2950 6.669154 AGCTGGAAATCCTGAAATAAATCCAA 59.331 34.615 10.20 0.00 35.46 3.53
2722 3129 7.811713 GCATAGCTGGAAATCCTGAAATAAATC 59.188 37.037 10.20 0.00 37.15 2.17
2733 3140 4.095483 CCGAATATGCATAGCTGGAAATCC 59.905 45.833 12.79 0.00 0.00 3.01
2741 3148 1.977854 TCCCACCGAATATGCATAGCT 59.022 47.619 12.79 1.56 0.00 3.32
2744 3151 2.567169 CTCCTCCCACCGAATATGCATA 59.433 50.000 9.27 9.27 0.00 3.14
2750 3157 0.033796 ACGTCTCCTCCCACCGAATA 60.034 55.000 0.00 0.00 0.00 1.75
2755 3162 1.295746 GGAAACGTCTCCTCCCACC 59.704 63.158 0.00 0.00 32.21 4.61
2783 3190 1.674441 CGAAGTCATCGTAGGCACCTA 59.326 52.381 0.00 0.00 46.52 3.08
2827 3234 2.700371 TGAGCACCTCTGAAAGACTGAA 59.300 45.455 0.00 0.00 38.67 3.02
2838 3245 3.525199 ACCCTATTTCATTGAGCACCTCT 59.475 43.478 0.00 0.00 0.00 3.69
2849 3256 2.083774 CACACGCACACCCTATTTCAT 58.916 47.619 0.00 0.00 0.00 2.57
2850 3257 1.202710 ACACACGCACACCCTATTTCA 60.203 47.619 0.00 0.00 0.00 2.69
2853 3260 1.234615 GCACACACGCACACCCTATT 61.235 55.000 0.00 0.00 0.00 1.73
2854 3261 1.671054 GCACACACGCACACCCTAT 60.671 57.895 0.00 0.00 0.00 2.57
2863 3270 0.179225 CCTTATGAACGCACACACGC 60.179 55.000 0.00 0.00 36.19 5.34
2865 3272 1.196808 CACCCTTATGAACGCACACAC 59.803 52.381 0.00 0.00 0.00 3.82
2894 3301 6.854381 CAGACACAAGCGATTATATACACGTA 59.146 38.462 0.00 0.00 0.00 3.57
2957 3365 0.596082 CATCCGGGTCCACAAACAAC 59.404 55.000 0.00 0.00 0.00 3.32
3016 3424 1.542030 ACACAAGTTGCCACGAAAACA 59.458 42.857 1.81 0.00 0.00 2.83
3020 3428 0.375454 CGAACACAAGTTGCCACGAA 59.625 50.000 1.81 0.00 38.30 3.85
3023 3431 0.315869 CGACGAACACAAGTTGCCAC 60.316 55.000 1.81 0.00 38.30 5.01
3084 3492 9.965902 ACAGTAATTTCCTTAGACAGAATGAAT 57.034 29.630 0.00 0.00 39.69 2.57


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

AutoCloner maintained by Alex Coulton.