Multiple sequence alignment - TraesCS3B01G314800

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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 TraesCS3B01G314800 chr3B 100.000 3199 0 0 1 3199 506621873 506618675 0.000000e+00 5908.0
1 TraesCS3B01G314800 chr3B 97.452 157 4 0 318 474 115400159 115400003 5.260000e-68 268.0
2 TraesCS3B01G314800 chr3D 91.411 1991 72 30 472 2436 389074833 389072916 0.000000e+00 2638.0
3 TraesCS3B01G314800 chr3D 89.591 807 30 24 2430 3199 389072893 389072104 0.000000e+00 976.0
4 TraesCS3B01G314800 chr3D 90.625 320 21 3 1 313 86206948 86206631 1.780000e-112 416.0
5 TraesCS3B01G314800 chr3D 90.312 320 21 3 1 313 494236629 494236945 8.260000e-111 411.0
6 TraesCS3B01G314800 chr3D 90.850 153 13 1 318 470 494237085 494237236 1.500000e-48 204.0
7 TraesCS3B01G314800 chr3A 86.520 1951 82 64 505 2410 509997267 509995453 0.000000e+00 1978.0
8 TraesCS3B01G314800 chr3A 87.220 759 61 14 2430 3160 509995392 509994642 0.000000e+00 832.0
9 TraesCS3B01G314800 chr4B 99.361 313 1 1 1 313 464957235 464957546 1.670000e-157 566.0
10 TraesCS3B01G314800 chr4B 98.710 155 2 0 318 472 464957685 464957839 3.140000e-70 276.0
11 TraesCS3B01G314800 chr7D 91.562 320 18 3 1 313 472096729 472097046 1.760000e-117 433.0
12 TraesCS3B01G314800 chr7D 90.402 323 19 7 1 313 104137164 104137484 6.380000e-112 414.0
13 TraesCS3B01G314800 chr7D 90.062 322 19 8 1 313 19576311 19576628 3.840000e-109 405.0
14 TraesCS3B01G314800 chr7D 91.358 162 12 2 318 479 472097186 472097345 1.490000e-53 220.0
15 TraesCS3B01G314800 chr7D 88.535 157 18 0 318 474 19576768 19576924 1.170000e-44 191.0
16 TraesCS3B01G314800 chr2D 89.457 313 28 4 1 313 353065240 353065547 1.080000e-104 390.0
17 TraesCS3B01G314800 chr2D 92.000 125 9 1 318 442 353065687 353065810 1.180000e-39 174.0
18 TraesCS3B01G314800 chr1D 89.347 291 21 5 10 290 80845633 80845343 1.090000e-94 357.0
19 TraesCS3B01G314800 chr5A 85.574 305 29 13 10 313 282536062 282535772 4.010000e-79 305.0
20 TraesCS3B01G314800 chr1B 91.304 161 13 1 318 478 623668126 623668285 5.370000e-53 219.0
21 TraesCS3B01G314800 chr4A 88.079 151 16 2 323 472 352631631 352631780 9.120000e-41 178.0
22 TraesCS3B01G314800 chr6B 87.417 151 17 2 323 472 625072093 625072242 4.240000e-39 172.0
23 TraesCS3B01G314800 chr5D 87.692 65 7 1 2429 2493 402954018 402953955 1.230000e-09 75.0
24 TraesCS3B01G314800 chr5B 86.154 65 8 1 2429 2493 482291329 482291266 5.730000e-08 69.4


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 TraesCS3B01G314800 chr3B 506618675 506621873 3198 True 5908.0 5908 100.0000 1 3199 1 chr3B.!!$R2 3198
1 TraesCS3B01G314800 chr3D 389072104 389074833 2729 True 1807.0 2638 90.5010 472 3199 2 chr3D.!!$R2 2727
2 TraesCS3B01G314800 chr3D 494236629 494237236 607 False 307.5 411 90.5810 1 470 2 chr3D.!!$F1 469
3 TraesCS3B01G314800 chr3A 509994642 509997267 2625 True 1405.0 1978 86.8700 505 3160 2 chr3A.!!$R1 2655
4 TraesCS3B01G314800 chr4B 464957235 464957839 604 False 421.0 566 99.0355 1 472 2 chr4B.!!$F1 471
5 TraesCS3B01G314800 chr7D 472096729 472097345 616 False 326.5 433 91.4600 1 479 2 chr7D.!!$F3 478
6 TraesCS3B01G314800 chr7D 19576311 19576924 613 False 298.0 405 89.2985 1 474 2 chr7D.!!$F2 473
7 TraesCS3B01G314800 chr2D 353065240 353065810 570 False 282.0 390 90.7285 1 442 2 chr2D.!!$F1 441

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
815 994 0.105142 GGGCCATCTCCCCACTACTA 60.105 60.0 4.39 0.0 42.36 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2659 2929 0.107897 AACGATCCACATGCGCCTAA 60.108 50.0 4.18 0.0 0.0 2.69 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
368 513 0.905357 AAACGGATCCAGGGTCTGAG 59.095 55.000 16.30 2.30 32.44 3.35
497 643 6.695278 TCCTTTTAATCGCAAACTTTTCTGTG 59.305 34.615 0.00 0.00 0.00 3.66
500 646 2.473530 TCGCAAACTTTTCTGTGCTG 57.526 45.000 0.00 0.00 34.79 4.41
503 649 2.531508 CGCAAACTTTTCTGTGCTGAAC 59.468 45.455 0.00 0.00 34.79 3.18
540 686 1.106351 AAATTGCACCGTGTCCAGCA 61.106 50.000 0.00 0.00 34.79 4.41
541 687 1.795170 AATTGCACCGTGTCCAGCAC 61.795 55.000 0.00 0.00 44.36 4.40
542 688 4.927782 TGCACCGTGTCCAGCACC 62.928 66.667 0.00 0.00 44.97 5.01
543 689 4.927782 GCACCGTGTCCAGCACCA 62.928 66.667 0.00 0.00 44.97 4.17
544 690 2.972505 CACCGTGTCCAGCACCAC 60.973 66.667 0.00 0.00 44.97 4.16
545 691 3.161450 ACCGTGTCCAGCACCACT 61.161 61.111 0.00 0.00 44.97 4.00
546 692 2.666190 CCGTGTCCAGCACCACTG 60.666 66.667 0.00 0.00 44.97 3.66
547 693 3.349006 CGTGTCCAGCACCACTGC 61.349 66.667 0.00 0.00 45.78 4.40
548 694 2.203195 GTGTCCAGCACCACTGCA 60.203 61.111 0.00 0.00 46.97 4.41
570 716 4.209288 CACCAGTTCTTACGAAGTTCACAG 59.791 45.833 3.32 0.00 37.78 3.66
573 719 4.681942 CAGTTCTTACGAAGTTCACAGAGG 59.318 45.833 3.32 0.00 37.78 3.69
715 883 1.665137 TCCAGGAGGGGAGGTAAAAC 58.335 55.000 0.00 0.00 37.22 2.43
717 885 1.272807 CAGGAGGGGAGGTAAAACGA 58.727 55.000 0.00 0.00 0.00 3.85
725 893 3.532542 GGGAGGTAAAACGAGATCCAAG 58.467 50.000 0.00 0.00 0.00 3.61
726 894 3.197116 GGGAGGTAAAACGAGATCCAAGA 59.803 47.826 0.00 0.00 0.00 3.02
727 895 4.182339 GGAGGTAAAACGAGATCCAAGAC 58.818 47.826 0.00 0.00 0.00 3.01
815 994 0.105142 GGGCCATCTCCCCACTACTA 60.105 60.000 4.39 0.00 42.36 1.82
816 995 1.049402 GGCCATCTCCCCACTACTAC 58.951 60.000 0.00 0.00 0.00 2.73
817 996 1.413227 GGCCATCTCCCCACTACTACT 60.413 57.143 0.00 0.00 0.00 2.57
849 1028 3.112205 GCGCCTGTCCCCATCATCT 62.112 63.158 0.00 0.00 0.00 2.90
896 1075 3.184291 CCCCCATCCATCCATCCC 58.816 66.667 0.00 0.00 0.00 3.85
897 1076 1.466788 CCCCCATCCATCCATCCCT 60.467 63.158 0.00 0.00 0.00 4.20
898 1077 1.076095 CCCCCATCCATCCATCCCTT 61.076 60.000 0.00 0.00 0.00 3.95
899 1078 0.113776 CCCCATCCATCCATCCCTTG 59.886 60.000 0.00 0.00 0.00 3.61
913 1092 1.681486 CCCTTGGTTGGCGGTTTTGT 61.681 55.000 0.00 0.00 0.00 2.83
926 1105 1.193874 GGTTTTGTTTCGAGATCGCGT 59.806 47.619 18.44 0.00 39.60 6.01
927 1106 2.483207 GTTTTGTTTCGAGATCGCGTC 58.517 47.619 18.44 10.71 39.60 5.19
928 1107 0.706184 TTTGTTTCGAGATCGCGTCG 59.294 50.000 18.44 8.86 39.60 5.12
929 1108 1.670971 TTGTTTCGAGATCGCGTCGC 61.671 55.000 18.44 7.29 39.60 5.19
1058 1242 1.934463 CGCGCTCTCTCTCTCTCTC 59.066 63.158 5.56 0.00 0.00 3.20
1059 1243 0.530650 CGCGCTCTCTCTCTCTCTCT 60.531 60.000 5.56 0.00 0.00 3.10
1060 1244 0.940126 GCGCTCTCTCTCTCTCTCTG 59.060 60.000 0.00 0.00 0.00 3.35
1061 1245 1.743772 GCGCTCTCTCTCTCTCTCTGT 60.744 57.143 0.00 0.00 0.00 3.41
1062 1246 2.205074 CGCTCTCTCTCTCTCTCTGTC 58.795 57.143 0.00 0.00 0.00 3.51
1063 1247 2.205074 GCTCTCTCTCTCTCTCTGTCG 58.795 57.143 0.00 0.00 0.00 4.35
1064 1248 2.159099 GCTCTCTCTCTCTCTCTGTCGA 60.159 54.545 0.00 0.00 0.00 4.20
1065 1249 3.711086 CTCTCTCTCTCTCTCTGTCGAG 58.289 54.545 0.00 0.00 38.67 4.04
1066 1250 3.096852 TCTCTCTCTCTCTCTGTCGAGT 58.903 50.000 0.00 0.00 38.45 4.18
1067 1251 3.119137 TCTCTCTCTCTCTCTGTCGAGTG 60.119 52.174 0.00 0.00 38.45 3.51
1068 1252 2.565391 TCTCTCTCTCTCTGTCGAGTGT 59.435 50.000 0.00 0.00 38.45 3.55
1069 1253 2.930040 CTCTCTCTCTCTGTCGAGTGTC 59.070 54.545 0.00 0.00 38.45 3.67
1070 1254 2.006888 CTCTCTCTCTGTCGAGTGTCC 58.993 57.143 0.00 0.00 38.45 4.02
1071 1255 1.348036 TCTCTCTCTGTCGAGTGTCCA 59.652 52.381 0.00 0.00 38.45 4.02
1072 1256 1.466950 CTCTCTCTGTCGAGTGTCCAC 59.533 57.143 0.00 0.00 38.45 4.02
1073 1257 0.167033 CTCTCTGTCGAGTGTCCACG 59.833 60.000 0.00 0.00 38.45 4.94
1074 1258 1.442857 CTCTGTCGAGTGTCCACGC 60.443 63.158 0.00 0.00 36.20 5.34
1075 1259 2.130073 CTCTGTCGAGTGTCCACGCA 62.130 60.000 2.22 0.00 36.20 5.24
1076 1260 2.016704 CTGTCGAGTGTCCACGCAC 61.017 63.158 2.22 0.00 39.51 5.34
1077 1261 3.097728 GTCGAGTGTCCACGCACG 61.098 66.667 4.01 4.01 43.61 5.34
1098 1282 2.534019 CGCACGCACACAAAGGACT 61.534 57.895 0.00 0.00 0.00 3.85
1102 1286 1.227823 CGCACACAAAGGACTGGGA 60.228 57.895 0.00 0.00 0.00 4.37
1567 1757 4.697756 CCGCTGCCGAGGTGGAAA 62.698 66.667 0.00 0.00 42.00 3.13
1577 1767 4.344865 GGTGGAAAGAGCGGCCCA 62.345 66.667 0.00 0.00 0.00 5.36
1684 1874 2.163509 CAGAACCTCTTCTCGTCCAGA 58.836 52.381 0.00 0.00 34.20 3.86
2014 2204 0.458716 GCTTGCTGGAGACGTACCTC 60.459 60.000 11.61 4.51 0.00 3.85
2095 2285 2.650116 GCTCTGCCCCTGAACTCGA 61.650 63.158 0.00 0.00 0.00 4.04
2096 2286 1.965754 GCTCTGCCCCTGAACTCGAT 61.966 60.000 0.00 0.00 0.00 3.59
2097 2287 0.103937 CTCTGCCCCTGAACTCGATC 59.896 60.000 0.00 0.00 0.00 3.69
2100 2290 2.423898 GCCCCTGAACTCGATCGGA 61.424 63.158 16.41 1.00 0.00 4.55
2101 2291 1.749334 GCCCCTGAACTCGATCGGAT 61.749 60.000 16.41 0.06 0.00 4.18
2102 2292 0.032678 CCCCTGAACTCGATCGGATG 59.967 60.000 16.41 8.58 0.00 3.51
2104 2294 1.269309 CCCTGAACTCGATCGGATGTC 60.269 57.143 16.41 8.48 0.00 3.06
2142 2335 5.633601 GCGATCGATGTTGATAGGATTAACA 59.366 40.000 21.57 0.03 41.95 2.41
2145 2338 8.164790 CGATCGATGTTGATAGGATTAACATTG 58.835 37.037 10.26 14.04 45.74 2.82
2147 2340 8.141835 TCGATGTTGATAGGATTAACATTGTG 57.858 34.615 17.34 9.51 45.74 3.33
2151 2346 6.318648 TGTTGATAGGATTAACATTGTGGAGC 59.681 38.462 0.00 0.00 34.37 4.70
2289 2489 2.039137 AGTTCCGGACTCCCCCTC 59.961 66.667 1.83 0.00 31.20 4.30
2452 2696 2.162681 CTCCTCCCGCAAAATCAACTT 58.837 47.619 0.00 0.00 0.00 2.66
2507 2751 5.798132 TGGCTATTGCGATAGAATCATCTT 58.202 37.500 22.98 0.00 37.97 2.40
2580 2849 6.653273 TTGACTCTGAAATTCGCTTCATAG 57.347 37.500 5.93 5.93 36.25 2.23
2581 2850 5.724328 TGACTCTGAAATTCGCTTCATAGT 58.276 37.500 10.42 10.42 42.31 2.12
2582 2851 6.863275 TGACTCTGAAATTCGCTTCATAGTA 58.137 36.000 10.54 2.13 40.72 1.82
2616 2885 1.446272 GAACGAGCTCCCCACGAAG 60.446 63.158 8.47 0.00 0.00 3.79
2632 2902 1.135689 CGAAGCAAAACTCAATCCCCG 60.136 52.381 0.00 0.00 0.00 5.73
2659 2929 0.782384 GAAACGACGACGCACATTCT 59.218 50.000 7.30 0.00 43.96 2.40
2697 2967 5.969423 TCGTTTCCAACCGAATACTCTAAT 58.031 37.500 0.00 0.00 0.00 1.73
2728 2998 4.510340 GGAATATATTCCGTGCTTCGTTGT 59.490 41.667 25.16 0.00 46.01 3.32
2740 3010 1.000283 CTTCGTTGTGACTCTGCTCCT 60.000 52.381 0.00 0.00 0.00 3.69
2750 3020 6.806751 TGTGACTCTGCTCCTATACAATAAC 58.193 40.000 0.00 0.00 0.00 1.89
2765 3035 4.888917 ACAATAACCAAACAAAATCCGGG 58.111 39.130 0.00 0.00 0.00 5.73
2786 3056 0.109723 AGGAGTAGCCGGCAAACAAA 59.890 50.000 31.54 3.10 43.43 2.83
2838 3124 4.411327 CTCTCTCTCTCAAGTAAACGCAG 58.589 47.826 0.00 0.00 0.00 5.18
2839 3125 3.191581 TCTCTCTCTCAAGTAAACGCAGG 59.808 47.826 0.00 0.00 0.00 4.85
2842 3128 0.669318 TCTCAAGTAAACGCAGGCGG 60.669 55.000 18.63 0.14 44.69 6.13
2844 3130 3.053896 AAGTAAACGCAGGCGGGC 61.054 61.111 18.63 4.96 44.69 6.13
2911 3201 1.656095 GAAGTCTTCGGCGTGAATGAG 59.344 52.381 6.85 0.00 35.63 2.90
2925 3216 1.002430 GAATGAGTGTGTCCTGGCTCA 59.998 52.381 3.88 3.88 41.43 4.26
2975 3266 0.961358 CTCGCCGGCTAGCTAGGTAT 60.961 60.000 26.68 0.00 0.00 2.73
3045 3348 2.433239 GCTAGATTGGTAGGAACGGGAA 59.567 50.000 0.00 0.00 0.00 3.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
313 323 0.625849 AAAGAATGGCCAGGATCCGT 59.374 50.000 13.05 0.00 0.00 4.69
314 324 1.027357 CAAAGAATGGCCAGGATCCG 58.973 55.000 13.05 1.07 0.00 4.18
316 326 1.477553 TGCAAAGAATGGCCAGGATC 58.522 50.000 13.05 9.82 0.00 3.36
368 513 6.152932 TGAACTGTATAATCCCGGTCTAAC 57.847 41.667 0.00 0.00 0.00 2.34
497 643 1.734465 CGGTTTCATCAGGAGTTCAGC 59.266 52.381 0.00 0.00 0.00 4.26
500 646 2.289444 TGACCGGTTTCATCAGGAGTTC 60.289 50.000 9.42 0.00 0.00 3.01
503 649 2.472695 TTGACCGGTTTCATCAGGAG 57.527 50.000 9.42 0.00 0.00 3.69
540 686 1.540363 CGTAAGAACTGGTGCAGTGGT 60.540 52.381 0.00 0.00 44.62 4.16
541 687 1.148310 CGTAAGAACTGGTGCAGTGG 58.852 55.000 0.00 0.00 44.62 4.00
542 688 2.148916 TCGTAAGAACTGGTGCAGTG 57.851 50.000 0.00 0.00 44.62 3.66
573 719 3.708734 CAAACGTGGCCGACCGAC 61.709 66.667 15.13 0.00 39.70 4.79
715 883 0.863538 CTGCGTCGTCTTGGATCTCG 60.864 60.000 0.00 0.00 0.00 4.04
717 885 1.153745 GCTGCGTCGTCTTGGATCT 60.154 57.895 0.00 0.00 0.00 2.75
762 930 3.553765 TTACGCGCGATGCTGCTG 61.554 61.111 39.36 3.76 43.27 4.41
763 931 3.554692 GTTACGCGCGATGCTGCT 61.555 61.111 39.36 15.18 43.27 4.24
764 932 4.575245 GGTTACGCGCGATGCTGC 62.575 66.667 39.36 18.43 43.27 5.25
765 933 4.265630 CGGTTACGCGCGATGCTG 62.266 66.667 39.36 24.19 43.27 4.41
797 970 1.049402 GTAGTAGTGGGGAGATGGCC 58.951 60.000 0.00 0.00 0.00 5.36
816 995 1.413368 GCGCCACGTAACAACGTAG 59.587 57.895 2.95 0.00 45.26 3.51
817 996 2.021039 GGCGCCACGTAACAACGTA 61.021 57.895 24.80 0.00 45.26 3.57
880 1059 0.113776 CAAGGGATGGATGGATGGGG 59.886 60.000 0.00 0.00 0.00 4.96
891 1070 1.184970 AAACCGCCAACCAAGGGATG 61.185 55.000 0.00 0.00 0.00 3.51
892 1071 0.471022 AAAACCGCCAACCAAGGGAT 60.471 50.000 0.00 0.00 0.00 3.85
893 1072 1.075896 AAAACCGCCAACCAAGGGA 60.076 52.632 0.00 0.00 0.00 4.20
894 1073 1.068921 CAAAACCGCCAACCAAGGG 59.931 57.895 0.00 0.00 0.00 3.95
895 1074 0.176910 AACAAAACCGCCAACCAAGG 59.823 50.000 0.00 0.00 0.00 3.61
896 1075 1.930503 GAAACAAAACCGCCAACCAAG 59.069 47.619 0.00 0.00 0.00 3.61
897 1076 1.736032 CGAAACAAAACCGCCAACCAA 60.736 47.619 0.00 0.00 0.00 3.67
898 1077 0.179134 CGAAACAAAACCGCCAACCA 60.179 50.000 0.00 0.00 0.00 3.67
899 1078 0.100861 TCGAAACAAAACCGCCAACC 59.899 50.000 0.00 0.00 0.00 3.77
900 1079 1.064357 TCTCGAAACAAAACCGCCAAC 59.936 47.619 0.00 0.00 0.00 3.77
930 1109 2.984718 TTTTAACCGCCCCGTGCC 60.985 61.111 0.00 0.00 36.24 5.01
931 1110 2.564458 CTTTTAACCGCCCCGTGC 59.436 61.111 0.00 0.00 0.00 5.34
932 1111 2.985117 GCCTTTTAACCGCCCCGTG 61.985 63.158 0.00 0.00 0.00 4.94
933 1112 2.674033 GCCTTTTAACCGCCCCGT 60.674 61.111 0.00 0.00 0.00 5.28
934 1113 3.445687 GGCCTTTTAACCGCCCCG 61.446 66.667 0.00 0.00 36.63 5.73
935 1114 2.283316 TGGCCTTTTAACCGCCCC 60.283 61.111 3.32 0.00 42.29 5.80
936 1115 2.348104 CCTGGCCTTTTAACCGCCC 61.348 63.158 3.32 0.00 42.29 6.13
937 1116 3.001902 GCCTGGCCTTTTAACCGCC 62.002 63.158 7.66 0.00 43.32 6.13
938 1117 2.571757 GCCTGGCCTTTTAACCGC 59.428 61.111 7.66 0.00 0.00 5.68
1058 1242 2.016704 GTGCGTGGACACTCGACAG 61.017 63.158 0.56 0.00 37.58 3.51
1059 1243 2.027024 GTGCGTGGACACTCGACA 59.973 61.111 0.56 0.00 37.58 4.35
1060 1244 3.097728 CGTGCGTGGACACTCGAC 61.098 66.667 0.56 0.00 38.45 4.20
1061 1245 4.994201 GCGTGCGTGGACACTCGA 62.994 66.667 12.71 0.00 38.45 4.04
1063 1247 3.702555 GTGCGTGCGTGGACACTC 61.703 66.667 0.56 0.00 38.45 3.51
1076 1260 4.877882 TTTGTGTGCGTGCGTGCG 62.878 61.111 0.00 0.00 37.81 5.34
1077 1261 3.018428 CTTTGTGTGCGTGCGTGC 61.018 61.111 0.00 0.00 0.00 5.34
1098 1282 4.351938 CGGCGACTTGTCGTCCCA 62.352 66.667 19.77 0.00 41.87 4.37
1282 1469 2.359230 GTCGCAGCCTTCTTGCCT 60.359 61.111 0.00 0.00 0.00 4.75
1665 1855 2.588464 TCTGGACGAGAAGAGGTTCT 57.412 50.000 0.00 0.00 46.32 3.01
1684 1874 0.609681 ACGAGTCGGAGGAGAAGCTT 60.610 55.000 18.30 0.00 0.00 3.74
1816 2006 1.483424 GCGGCATCTCGAAGCTGTAC 61.483 60.000 12.72 0.00 39.31 2.90
2142 2335 1.140589 CTCGCTCTCGCTCCACAAT 59.859 57.895 0.00 0.00 35.26 2.71
2145 2338 0.663688 TAATCTCGCTCTCGCTCCAC 59.336 55.000 0.00 0.00 35.26 4.02
2147 2340 2.323959 CATTAATCTCGCTCTCGCTCC 58.676 52.381 0.00 0.00 35.26 4.70
2151 2346 1.789464 GTGCCATTAATCTCGCTCTCG 59.211 52.381 0.00 0.00 0.00 4.04
2163 2358 2.267426 CAACTCGATCGTGTGCCATTA 58.733 47.619 22.14 0.00 0.00 1.90
2289 2489 5.906113 AGTACCATCACTGACAGAACTAG 57.094 43.478 10.08 0.00 0.00 2.57
2327 2527 5.744345 CGCTGGACTAGTAGAAGTTAACATG 59.256 44.000 8.61 0.00 0.00 3.21
2338 2538 2.196295 GCAGAACGCTGGACTAGTAG 57.804 55.000 0.00 0.00 42.53 2.57
2360 2563 3.787826 CACAAACTGACGAGAACATTCG 58.212 45.455 0.00 0.00 45.70 3.34
2427 2642 2.167662 GATTTTGCGGGAGGAGGAAAA 58.832 47.619 0.00 0.00 41.68 2.29
2452 2696 6.806249 GGTCGACTGAATTTGCAATTTGAATA 59.194 34.615 16.46 0.00 0.00 1.75
2507 2751 3.228188 ACCCAGAGTTGAATCAAGCAA 57.772 42.857 0.00 0.00 0.00 3.91
2580 2849 3.782893 CGTTCAACGAAGGAGATACGTAC 59.217 47.826 3.01 0.00 46.05 3.67
2581 2850 4.007282 CGTTCAACGAAGGAGATACGTA 57.993 45.455 3.01 0.00 46.05 3.57
2582 2851 2.860062 CGTTCAACGAAGGAGATACGT 58.140 47.619 3.01 0.00 46.05 3.57
2616 2885 1.740025 CTCTCGGGGATTGAGTTTTGC 59.260 52.381 0.00 0.00 34.99 3.68
2632 2902 0.703466 CGTCGTCGTTTCTTGCTCTC 59.297 55.000 0.00 0.00 0.00 3.20
2659 2929 0.107897 AACGATCCACATGCGCCTAA 60.108 50.000 4.18 0.00 0.00 2.69
2728 2998 5.897250 TGGTTATTGTATAGGAGCAGAGTCA 59.103 40.000 0.00 0.00 0.00 3.41
2740 3010 7.614583 TCCCGGATTTTGTTTGGTTATTGTATA 59.385 33.333 0.73 0.00 0.00 1.47
2750 3020 2.231235 CTCCTTCCCGGATTTTGTTTGG 59.769 50.000 0.73 0.00 42.12 3.28
2765 3035 0.321298 TGTTTGCCGGCTACTCCTTC 60.321 55.000 29.70 9.63 0.00 3.46
2851 3137 1.554042 GGTAATGGCCGCGACATACG 61.554 60.000 8.23 0.00 45.66 3.06
2852 3138 1.554042 CGGTAATGGCCGCGACATAC 61.554 60.000 8.23 10.39 45.47 2.39
2853 3139 1.300311 CGGTAATGGCCGCGACATA 60.300 57.895 8.23 0.00 45.47 2.29
2854 3140 2.587753 CGGTAATGGCCGCGACAT 60.588 61.111 8.23 9.31 45.47 3.06
2863 3149 9.567848 GTTTGCATATTATAAATCCGGTAATGG 57.432 33.333 0.00 0.00 0.00 3.16
2875 3164 7.042321 CCGAAGACTTCCGTTTGCATATTATAA 60.042 37.037 9.63 0.00 0.00 0.98
2911 3201 0.242017 GCAAATGAGCCAGGACACAC 59.758 55.000 0.00 0.00 0.00 3.82


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

AutoCloner maintained by Alex Coulton.