Multiple sequence alignment - TraesCS2B01G028300

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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 TraesCS2B01G028300 chr2B 100.000 2981 0 0 1 2981 13202249 13205229 0.000000e+00 5505.0
1 TraesCS2B01G028300 chr2B 93.779 2379 128 11 1 2363 13389147 13391521 0.000000e+00 3555.0
2 TraesCS2B01G028300 chr2B 93.763 2373 121 14 1 2363 13338482 13340837 0.000000e+00 3537.0
3 TraesCS2B01G028300 chr2B 94.237 1579 80 5 1 1568 13358538 13360116 0.000000e+00 2401.0
4 TraesCS2B01G028300 chr2B 92.555 1276 92 3 1175 2449 13144730 13146003 0.000000e+00 1827.0
5 TraesCS2B01G028300 chr2B 75.741 911 202 14 1066 1968 117992690 117991791 9.810000e-120 440.0
6 TraesCS2B01G028300 chr2B 94.318 176 7 2 2749 2924 13146118 13146290 1.760000e-67 267.0
7 TraesCS2B01G028300 chr2B 93.023 86 5 1 2663 2747 13146002 13146087 1.120000e-24 124.0
8 TraesCS2B01G028300 chr2D 94.761 2577 125 9 1 2570 9857101 9859674 0.000000e+00 4002.0
9 TraesCS2B01G028300 chr2D 76.190 903 202 10 1079 1976 76752455 76751561 5.820000e-127 464.0
10 TraesCS2B01G028300 chr2D 97.159 176 4 1 2749 2924 9859903 9860077 2.250000e-76 296.0
11 TraesCS2B01G028300 chr2A 92.223 2456 179 10 1 2449 9938865 9936415 0.000000e+00 3467.0
12 TraesCS2B01G028300 chrUn 93.412 425 28 0 991 1415 476519407 476519831 5.420000e-177 630.0
13 TraesCS2B01G028300 chrUn 98.256 172 3 0 1 172 479131823 479131994 4.830000e-78 302.0
14 TraesCS2B01G028300 chr3D 75.408 919 213 12 1043 1957 32586007 32586916 1.640000e-117 433.0
15 TraesCS2B01G028300 chr4A 94.828 58 2 1 2924 2981 196609107 196609051 4.090000e-14 89.8


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 TraesCS2B01G028300 chr2B 13202249 13205229 2980 False 5505.000000 5505 100.000000 1 2981 1 chr2B.!!$F1 2980
1 TraesCS2B01G028300 chr2B 13389147 13391521 2374 False 3555.000000 3555 93.779000 1 2363 1 chr2B.!!$F4 2362
2 TraesCS2B01G028300 chr2B 13338482 13340837 2355 False 3537.000000 3537 93.763000 1 2363 1 chr2B.!!$F2 2362
3 TraesCS2B01G028300 chr2B 13358538 13360116 1578 False 2401.000000 2401 94.237000 1 1568 1 chr2B.!!$F3 1567
4 TraesCS2B01G028300 chr2B 13144730 13146290 1560 False 739.333333 1827 93.298667 1175 2924 3 chr2B.!!$F5 1749
5 TraesCS2B01G028300 chr2B 117991791 117992690 899 True 440.000000 440 75.741000 1066 1968 1 chr2B.!!$R1 902
6 TraesCS2B01G028300 chr2D 9857101 9860077 2976 False 2149.000000 4002 95.960000 1 2924 2 chr2D.!!$F1 2923
7 TraesCS2B01G028300 chr2D 76751561 76752455 894 True 464.000000 464 76.190000 1079 1976 1 chr2D.!!$R1 897
8 TraesCS2B01G028300 chr2A 9936415 9938865 2450 True 3467.000000 3467 92.223000 1 2449 1 chr2A.!!$R1 2448
9 TraesCS2B01G028300 chr3D 32586007 32586916 909 False 433.000000 433 75.408000 1043 1957 1 chr3D.!!$F1 914

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
156 157 1.787058 TCCAGCTCCAGGCCTATACTA 59.213 52.381 3.98 0.0 43.05 1.82 F
1297 1309 1.289160 AGGTGGCAGAAGGATGCTTA 58.711 50.000 0.00 0.0 45.75 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1382 1394 0.814457 GGCAACACCGATGGCAATTA 59.186 50.0 0.00 0.0 42.45 1.40 R
2585 2605 0.039798 GAGTGTCGACAGCGGTAACA 60.040 55.0 20.73 0.0 38.28 2.41 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
156 157 1.787058 TCCAGCTCCAGGCCTATACTA 59.213 52.381 3.98 0.00 43.05 1.82
295 302 4.922206 TGTCAGGCAATAACTTTCTCCAT 58.078 39.130 0.00 0.00 0.00 3.41
587 596 2.038295 GCTGGATGATAGAAGAGGTGGG 59.962 54.545 0.00 0.00 0.00 4.61
601 610 3.118112 AGAGGTGGGTGCATGAGAAATAG 60.118 47.826 0.00 0.00 0.00 1.73
606 615 3.209410 GGGTGCATGAGAAATAGTCCAG 58.791 50.000 0.00 0.00 0.00 3.86
641 650 4.162812 ACAGCAACAAAAGTAACACAACG 58.837 39.130 0.00 0.00 0.00 4.10
643 652 3.440872 AGCAACAAAAGTAACACAACGGA 59.559 39.130 0.00 0.00 0.00 4.69
827 836 7.233389 TGGCCAACTTATTAATGTAAAGCAA 57.767 32.000 0.61 0.00 0.00 3.91
893 904 3.889134 TTGCTGCTGGAGAGGTGCG 62.889 63.158 0.00 0.00 0.00 5.34
957 968 2.024414 GGTCTCACTGTTGGTGCTTTT 58.976 47.619 0.00 0.00 44.98 2.27
987 998 6.377712 TGTTGGTGATGCTATTGATGATTTGA 59.622 34.615 0.00 0.00 0.00 2.69
1206 1218 2.367567 ACGCCAAGGAGAGAAACAGTTA 59.632 45.455 0.00 0.00 0.00 2.24
1283 1295 1.480137 TGGTTTTTGCTGTGAAGGTGG 59.520 47.619 0.00 0.00 0.00 4.61
1297 1309 1.289160 AGGTGGCAGAAGGATGCTTA 58.711 50.000 0.00 0.00 45.75 3.09
1351 1363 5.122707 TGTCCATATATTCCAAGGCAACA 57.877 39.130 0.00 0.00 41.41 3.33
1382 1394 4.162509 GCTAGATTGGAGTACAAGGTTCCT 59.837 45.833 0.00 0.00 43.48 3.36
1401 1413 0.814457 TAATTGCCATCGGTGTTGCC 59.186 50.000 0.00 0.00 0.00 4.52
1507 1519 3.056304 GCGCTTGTTCCTAAAATTGCAA 58.944 40.909 0.00 0.00 0.00 4.08
1612 1624 0.846693 ATGGATTAGTGGGGTGGCTC 59.153 55.000 0.00 0.00 0.00 4.70
1713 1725 7.201591 CCTCAAGAATGTACAAGCAATAGTGAG 60.202 40.741 0.00 5.40 0.00 3.51
1936 1948 0.106519 GCTTGATATGCCCCCAGTGT 60.107 55.000 0.00 0.00 0.00 3.55
1976 1988 7.454380 AGCTATATCAGGAAGCTCTTCTACAAT 59.546 37.037 9.23 2.51 42.89 2.71
2148 2166 1.757118 GGGCAGCTAGTGTATCTGTGA 59.243 52.381 0.00 0.00 0.00 3.58
2155 2173 6.016693 GCAGCTAGTGTATCTGTGATTCTAGA 60.017 42.308 0.00 0.00 0.00 2.43
2160 2180 9.190858 CTAGTGTATCTGTGATTCTAGATTTGC 57.809 37.037 0.00 0.00 35.42 3.68
2166 2186 5.587443 TCTGTGATTCTAGATTTGCCATGTG 59.413 40.000 0.00 0.00 0.00 3.21
2191 2211 4.558470 CGCCATTTGTATCAACATGTCAAC 59.442 41.667 0.00 0.00 34.97 3.18
2201 2221 6.890663 ATCAACATGTCAACTGTTTGTTTG 57.109 33.333 0.00 3.59 36.63 2.93
2257 2277 7.778470 CAAAAGTTTGTAGCCAAAATACCAA 57.222 32.000 0.00 0.00 41.99 3.67
2280 2300 2.009774 CCATGACGGGTGTTCTTCATC 58.990 52.381 0.00 0.00 0.00 2.92
2293 2313 6.149633 GTGTTCTTCATCGCACCTTAATTTT 58.850 36.000 0.00 0.00 0.00 1.82
2294 2314 6.640907 GTGTTCTTCATCGCACCTTAATTTTT 59.359 34.615 0.00 0.00 0.00 1.94
2352 2372 4.938575 TGGTTCTTTTTATCTGCCCCTA 57.061 40.909 0.00 0.00 0.00 3.53
2431 2451 3.278668 TCCAGAAACCGGTGTTTAACA 57.721 42.857 8.52 0.00 44.57 2.41
2452 2472 1.472662 CGACCAAGGACCCTCAGTGT 61.473 60.000 0.00 0.00 0.00 3.55
2469 2489 4.999311 TCAGTGTCAGACATCAGAAAATGG 59.001 41.667 6.51 0.00 0.00 3.16
2503 2523 8.527810 ACTAAAGGAAACAAATTCACAGAAACA 58.472 29.630 0.00 0.00 39.98 2.83
2514 2534 7.656707 AATTCACAGAAACATTATTTGTGGC 57.343 32.000 3.44 0.00 38.99 5.01
2529 2549 1.180029 GTGGCGGTTACCTGTCTAGA 58.820 55.000 0.00 0.00 0.00 2.43
2533 2553 3.220940 GGCGGTTACCTGTCTAGACTAT 58.779 50.000 23.01 11.12 0.00 2.12
2536 2556 4.499357 GCGGTTACCTGTCTAGACTATTGG 60.499 50.000 23.01 19.49 0.00 3.16
2537 2557 4.643784 CGGTTACCTGTCTAGACTATTGGT 59.356 45.833 23.01 23.14 0.00 3.67
2553 2573 3.869272 GTCGGAGCATTGGCAGCG 61.869 66.667 0.00 0.00 44.61 5.18
2577 2597 3.589881 GCCATCTGCCACGCCATC 61.590 66.667 0.00 0.00 0.00 3.51
2578 2598 2.903855 CCATCTGCCACGCCATCC 60.904 66.667 0.00 0.00 0.00 3.51
2579 2599 2.903855 CATCTGCCACGCCATCCC 60.904 66.667 0.00 0.00 0.00 3.85
2580 2600 4.552365 ATCTGCCACGCCATCCCG 62.552 66.667 0.00 0.00 0.00 5.14
2588 2608 4.752879 CGCCATCCCGACCGTGTT 62.753 66.667 0.00 0.00 0.00 3.32
2589 2609 2.580276 GCCATCCCGACCGTGTTA 59.420 61.111 0.00 0.00 0.00 2.41
2590 2610 1.812507 GCCATCCCGACCGTGTTAC 60.813 63.158 0.00 0.00 0.00 2.50
2591 2611 1.153509 CCATCCCGACCGTGTTACC 60.154 63.158 0.00 0.00 0.00 2.85
2592 2612 1.517694 CATCCCGACCGTGTTACCG 60.518 63.158 0.00 0.00 0.00 4.02
2593 2613 3.360956 ATCCCGACCGTGTTACCGC 62.361 63.158 0.00 0.00 0.00 5.68
2598 2618 2.049802 ACCGTGTTACCGCTGTCG 60.050 61.111 0.00 0.00 0.00 4.35
2601 2621 1.370778 CGTGTTACCGCTGTCGACA 60.371 57.895 18.88 18.88 38.10 4.35
2614 2634 1.202964 TGTCGACACTCTGAAGGGGTA 60.203 52.381 15.76 0.00 0.00 3.69
2616 2636 1.202964 TCGACACTCTGAAGGGGTACA 60.203 52.381 0.00 0.00 0.00 2.90
2634 2686 4.323562 GGTACAGAGGTGATAAACAGGCTT 60.324 45.833 0.00 0.00 0.00 4.35
2659 2711 5.320549 TCTTCGGTTCTGTAATAGACACC 57.679 43.478 0.00 0.00 34.43 4.16
2661 2713 2.424601 TCGGTTCTGTAATAGACACCCG 59.575 50.000 0.00 0.00 40.28 5.28
2694 2747 6.541934 TTTGGAATGAATGGTGCATCAATA 57.458 33.333 2.42 0.00 0.00 1.90
2748 2801 4.785511 ATCTGTGGTCTATATGCCGTAC 57.214 45.455 0.00 0.00 0.00 3.67
2750 2803 2.292569 CTGTGGTCTATATGCCGTACGT 59.707 50.000 15.21 0.00 0.00 3.57
2751 2804 2.033675 TGTGGTCTATATGCCGTACGTG 59.966 50.000 15.21 6.95 0.00 4.49
2752 2805 2.033801 GTGGTCTATATGCCGTACGTGT 59.966 50.000 15.21 2.02 0.00 4.49
2872 2953 6.010850 AGCTGTACCGAGGAATCATATAGAA 58.989 40.000 0.00 0.00 0.00 2.10
2924 3005 3.304928 CCTTGGAGCACAGCTAAACAAAG 60.305 47.826 0.00 0.00 39.88 2.77
2925 3006 2.229792 TGGAGCACAGCTAAACAAAGG 58.770 47.619 0.00 0.00 39.88 3.11
2926 3007 1.541588 GGAGCACAGCTAAACAAAGGG 59.458 52.381 0.00 0.00 39.88 3.95
2927 3008 2.230660 GAGCACAGCTAAACAAAGGGT 58.769 47.619 0.00 0.00 39.88 4.34
2928 3009 2.226674 GAGCACAGCTAAACAAAGGGTC 59.773 50.000 0.00 0.00 39.88 4.46
2929 3010 1.069227 GCACAGCTAAACAAAGGGTCG 60.069 52.381 0.00 0.00 0.00 4.79
2930 3011 1.069227 CACAGCTAAACAAAGGGTCGC 60.069 52.381 0.00 0.00 0.00 5.19
2931 3012 1.234821 CAGCTAAACAAAGGGTCGCA 58.765 50.000 0.00 0.00 0.00 5.10
2932 3013 1.069227 CAGCTAAACAAAGGGTCGCAC 60.069 52.381 0.00 0.00 0.00 5.34
2933 3014 1.202770 AGCTAAACAAAGGGTCGCACT 60.203 47.619 0.00 0.00 0.00 4.40
2934 3015 2.038033 AGCTAAACAAAGGGTCGCACTA 59.962 45.455 0.00 0.00 0.00 2.74
2935 3016 2.809696 GCTAAACAAAGGGTCGCACTAA 59.190 45.455 0.00 0.00 0.00 2.24
2936 3017 3.364664 GCTAAACAAAGGGTCGCACTAAC 60.365 47.826 0.00 0.00 0.00 2.34
2937 3018 2.632987 AACAAAGGGTCGCACTAACT 57.367 45.000 0.00 0.00 0.00 2.24
2938 3019 1.878953 ACAAAGGGTCGCACTAACTG 58.121 50.000 0.00 0.00 0.00 3.16
2939 3020 0.517316 CAAAGGGTCGCACTAACTGC 59.483 55.000 0.00 0.00 43.21 4.40
2940 3021 0.605589 AAAGGGTCGCACTAACTGCC 60.606 55.000 0.00 0.00 43.84 4.85
2941 3022 1.764571 AAGGGTCGCACTAACTGCCA 61.765 55.000 0.00 0.00 43.84 4.92
2942 3023 2.033194 GGGTCGCACTAACTGCCAC 61.033 63.158 0.00 0.00 43.84 5.01
2943 3024 1.301401 GGTCGCACTAACTGCCACA 60.301 57.895 0.00 0.00 43.84 4.17
2944 3025 0.673644 GGTCGCACTAACTGCCACAT 60.674 55.000 0.00 0.00 43.84 3.21
2945 3026 0.443869 GTCGCACTAACTGCCACATG 59.556 55.000 0.00 0.00 43.84 3.21
2946 3027 0.034756 TCGCACTAACTGCCACATGT 59.965 50.000 0.00 0.00 43.84 3.21
2947 3028 0.166597 CGCACTAACTGCCACATGTG 59.833 55.000 19.31 19.31 43.84 3.21
2948 3029 1.238439 GCACTAACTGCCACATGTGT 58.762 50.000 23.79 8.06 40.42 3.72
2949 3030 2.422597 GCACTAACTGCCACATGTGTA 58.577 47.619 23.79 11.85 40.42 2.90
2950 3031 2.416547 GCACTAACTGCCACATGTGTAG 59.583 50.000 23.79 21.57 40.42 2.74
2951 3032 2.416547 CACTAACTGCCACATGTGTAGC 59.583 50.000 23.79 20.24 33.28 3.58
2952 3033 2.038426 ACTAACTGCCACATGTGTAGCA 59.962 45.455 23.79 23.33 40.17 3.49
2956 3037 2.268762 TGCCACATGTGTAGCAGAAA 57.731 45.000 23.79 3.26 37.73 2.52
2957 3038 2.153645 TGCCACATGTGTAGCAGAAAG 58.846 47.619 23.79 6.82 37.73 2.62
2958 3039 1.470098 GCCACATGTGTAGCAGAAAGG 59.530 52.381 23.79 6.15 32.91 3.11
2959 3040 2.086869 CCACATGTGTAGCAGAAAGGG 58.913 52.381 23.79 0.50 0.00 3.95
2960 3041 2.290260 CCACATGTGTAGCAGAAAGGGA 60.290 50.000 23.79 0.00 0.00 4.20
2961 3042 3.005554 CACATGTGTAGCAGAAAGGGAG 58.994 50.000 18.03 0.00 0.00 4.30
2962 3043 2.906389 ACATGTGTAGCAGAAAGGGAGA 59.094 45.455 0.00 0.00 0.00 3.71
2963 3044 3.265791 CATGTGTAGCAGAAAGGGAGAC 58.734 50.000 0.00 0.00 0.00 3.36
2964 3045 1.272490 TGTGTAGCAGAAAGGGAGACG 59.728 52.381 0.00 0.00 0.00 4.18
2965 3046 0.246635 TGTAGCAGAAAGGGAGACGC 59.753 55.000 0.00 0.00 0.00 5.19
2966 3047 0.246635 GTAGCAGAAAGGGAGACGCA 59.753 55.000 0.00 0.00 0.00 5.24
2967 3048 0.246635 TAGCAGAAAGGGAGACGCAC 59.753 55.000 0.00 0.00 0.00 5.34
2968 3049 2.035442 GCAGAAAGGGAGACGCACC 61.035 63.158 0.00 0.00 0.00 5.01
2969 3050 1.371183 CAGAAAGGGAGACGCACCA 59.629 57.895 0.00 0.00 0.00 4.17
2970 3051 0.951040 CAGAAAGGGAGACGCACCAC 60.951 60.000 0.00 0.00 0.00 4.16
2971 3052 1.070786 GAAAGGGAGACGCACCACA 59.929 57.895 0.00 0.00 0.00 4.17
2972 3053 1.227853 AAAGGGAGACGCACCACAC 60.228 57.895 0.00 0.00 0.00 3.82
2973 3054 2.989055 AAAGGGAGACGCACCACACG 62.989 60.000 0.00 0.00 0.00 4.49
2980 3061 3.365976 ACGCACCACACGTCTTTAA 57.634 47.368 0.00 0.00 40.28 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
282 289 8.840321 CGATGAATTTGGTATGGAGAAAGTTAT 58.160 33.333 0.00 0.00 0.00 1.89
334 341 1.754380 TTGGATCCGTCGGGGCATAG 61.754 60.000 12.29 0.00 34.94 2.23
587 596 5.907207 TCTACTGGACTATTTCTCATGCAC 58.093 41.667 0.00 0.00 0.00 4.57
601 610 3.365364 GCTGTTGCAATGTTCTACTGGAC 60.365 47.826 0.59 0.00 39.41 4.02
692 701 2.917701 TTGTTTCCATGCTATGTGCG 57.082 45.000 0.00 0.00 46.63 5.34
841 850 4.962155 AGAATCTCTCCGTCACTGTTTTT 58.038 39.130 0.00 0.00 0.00 1.94
846 857 3.929610 GGAAAAGAATCTCTCCGTCACTG 59.070 47.826 0.00 0.00 0.00 3.66
893 904 5.989168 CCTTTTATGTTGTTTCCCCAACTTC 59.011 40.000 5.73 0.00 44.01 3.01
957 968 4.148079 TCAATAGCATCACCAACAAACCA 58.852 39.130 0.00 0.00 0.00 3.67
987 998 2.090775 ACACCACATCCTTTTCCCCTTT 60.091 45.455 0.00 0.00 0.00 3.11
1283 1295 5.064707 TGTTCGTAAATAAGCATCCTTCTGC 59.935 40.000 0.00 0.00 42.62 4.26
1297 1309 4.083003 ACGATTTGCCATGTGTTCGTAAAT 60.083 37.500 0.00 1.08 37.98 1.40
1351 1363 6.791867 TGTACTCCAATCTAGCATAGTGTT 57.208 37.500 0.00 0.00 40.38 3.32
1382 1394 0.814457 GGCAACACCGATGGCAATTA 59.186 50.000 0.00 0.00 42.45 1.40
1401 1413 4.701651 TCATGCAAGTAGGACAATCCTTTG 59.298 41.667 1.99 4.00 46.91 2.77
1507 1519 5.945191 CCATAAGTTTTGCCATCCCAAAATT 59.055 36.000 3.75 0.00 43.93 1.82
1612 1624 8.531530 GCTGTAAACATCAACTTTTTGTGTAAG 58.468 33.333 0.00 0.00 34.02 2.34
1713 1725 5.170021 TGCACAGGAAAATAAACATCATGC 58.830 37.500 0.00 0.00 0.00 4.06
1803 1815 2.143925 CTTTCAACCTCCTCCACGTTC 58.856 52.381 0.00 0.00 0.00 3.95
1936 1948 6.709397 CCTGATATAGCTTGAAGCAATCTTGA 59.291 38.462 20.45 3.41 45.56 3.02
2148 2166 3.313526 GCGACACATGGCAAATCTAGAAT 59.686 43.478 0.00 0.00 0.00 2.40
2155 2173 4.093966 TGGCGACACATGGCAAAT 57.906 50.000 0.00 0.00 39.13 2.32
2160 2180 8.551332 ATGTTGATACAAATGGCGACACATGG 62.551 42.308 9.70 0.00 40.02 3.66
2166 2186 4.142708 TGACATGTTGATACAAATGGCGAC 60.143 41.667 0.00 0.00 37.91 5.19
2254 2274 1.472480 GAACACCCGTCATGGAATTGG 59.528 52.381 0.00 0.00 42.00 3.16
2257 2277 2.039746 TGAAGAACACCCGTCATGGAAT 59.960 45.455 0.00 0.00 42.00 3.01
2306 2326 3.768757 TGTTGGGCAAGGATGAAAATAGG 59.231 43.478 0.00 0.00 0.00 2.57
2391 2411 0.666913 TACTTGGATAGAGCGGCGTC 59.333 55.000 9.37 5.00 0.00 5.19
2431 2451 2.203788 TGAGGGTCCTTGGTCGCT 60.204 61.111 3.50 3.50 0.00 4.93
2434 2454 0.321996 GACACTGAGGGTCCTTGGTC 59.678 60.000 2.74 0.00 0.00 4.02
2503 2523 3.692593 GACAGGTAACCGCCACAAATAAT 59.307 43.478 0.00 0.00 37.17 1.28
2514 2534 4.643784 ACCAATAGTCTAGACAGGTAACCG 59.356 45.833 24.44 6.64 37.17 4.44
2529 2549 1.747206 GCCAATGCTCCGACCAATAGT 60.747 52.381 0.00 0.00 33.53 2.12
2533 2553 1.675310 CTGCCAATGCTCCGACCAA 60.675 57.895 0.00 0.00 38.71 3.67
2536 2556 3.869272 CGCTGCCAATGCTCCGAC 61.869 66.667 0.00 0.00 38.71 4.79
2560 2580 3.589881 GATGGCGTGGCAGATGGC 61.590 66.667 1.74 0.00 43.74 4.40
2563 2583 4.552365 CGGGATGGCGTGGCAGAT 62.552 66.667 1.74 0.00 0.00 2.90
2571 2591 3.359515 TAACACGGTCGGGATGGCG 62.360 63.158 0.00 0.00 0.00 5.69
2572 2592 1.812507 GTAACACGGTCGGGATGGC 60.813 63.158 0.00 0.00 0.00 4.40
2573 2593 1.153509 GGTAACACGGTCGGGATGG 60.154 63.158 0.00 0.00 0.00 3.51
2574 2594 1.517694 CGGTAACACGGTCGGGATG 60.518 63.158 0.00 0.00 0.00 3.51
2575 2595 2.887360 CGGTAACACGGTCGGGAT 59.113 61.111 0.00 0.00 0.00 3.85
2576 2596 4.054825 GCGGTAACACGGTCGGGA 62.055 66.667 0.00 0.00 0.00 5.14
2577 2597 4.060038 AGCGGTAACACGGTCGGG 62.060 66.667 0.00 0.00 41.12 5.14
2578 2598 2.807895 CAGCGGTAACACGGTCGG 60.808 66.667 0.00 0.00 43.39 4.79
2579 2599 2.049802 ACAGCGGTAACACGGTCG 60.050 61.111 0.00 0.00 43.39 4.79
2580 2600 2.084681 CGACAGCGGTAACACGGTC 61.085 63.158 0.00 0.00 43.39 4.79
2582 2602 2.084681 GTCGACAGCGGTAACACGG 61.085 63.158 11.55 0.00 38.28 4.94
2583 2603 1.370778 TGTCGACAGCGGTAACACG 60.371 57.895 15.76 0.00 38.28 4.49
2584 2604 0.318445 AGTGTCGACAGCGGTAACAC 60.318 55.000 20.73 20.31 41.01 3.32
2585 2605 0.039798 GAGTGTCGACAGCGGTAACA 60.040 55.000 20.73 0.00 38.28 2.41
2586 2606 0.240411 AGAGTGTCGACAGCGGTAAC 59.760 55.000 20.73 5.13 38.28 2.50
2587 2607 0.240145 CAGAGTGTCGACAGCGGTAA 59.760 55.000 20.73 0.00 38.28 2.85
2588 2608 0.604511 TCAGAGTGTCGACAGCGGTA 60.605 55.000 20.73 1.82 38.28 4.02
2589 2609 1.452953 TTCAGAGTGTCGACAGCGGT 61.453 55.000 20.73 3.72 38.28 5.68
2590 2610 0.730834 CTTCAGAGTGTCGACAGCGG 60.731 60.000 20.73 14.65 38.28 5.52
2591 2611 0.730834 CCTTCAGAGTGTCGACAGCG 60.731 60.000 20.73 7.78 39.35 5.18
2592 2612 0.389166 CCCTTCAGAGTGTCGACAGC 60.389 60.000 20.73 14.28 0.00 4.40
2593 2613 0.244994 CCCCTTCAGAGTGTCGACAG 59.755 60.000 20.73 7.40 0.00 3.51
2598 2618 2.526432 TCTGTACCCCTTCAGAGTGTC 58.474 52.381 0.00 0.00 36.04 3.67
2614 2634 4.373156 AAAGCCTGTTTATCACCTCTGT 57.627 40.909 0.00 0.00 0.00 3.41
2616 2636 5.635120 AGAAAAAGCCTGTTTATCACCTCT 58.365 37.500 0.00 0.00 0.00 3.69
2634 2686 6.647895 GGTGTCTATTACAGAACCGAAGAAAA 59.352 38.462 0.00 0.00 39.29 2.29
2659 2711 2.060284 CATTCCAAAACACATGTGCGG 58.940 47.619 25.68 19.39 0.00 5.69
2661 2713 4.152759 CCATTCATTCCAAAACACATGTGC 59.847 41.667 25.68 0.00 0.00 4.57
2694 2747 8.893563 TCCAATGTTTCCAAAGGAAGTATAAT 57.106 30.769 0.00 0.00 43.06 1.28
2718 2771 6.073331 GCATATAGACCACAGATTCAGCTTTC 60.073 42.308 0.00 0.00 0.00 2.62
2748 2801 2.125147 ATGGACCGATGCCACACG 60.125 61.111 0.00 0.00 38.44 4.49
2750 2803 2.438254 GCATGGACCGATGCCACA 60.438 61.111 14.50 0.00 42.57 4.17
2751 2804 0.534877 TATGCATGGACCGATGCCAC 60.535 55.000 19.71 1.78 46.98 5.01
2752 2805 0.250424 CTATGCATGGACCGATGCCA 60.250 55.000 19.71 11.90 46.98 4.92
2826 2907 3.876914 TCGGAATAAATCATGGTGCAGAC 59.123 43.478 0.00 0.00 0.00 3.51
2872 2953 1.199558 GCTTTGAGGACGTACGTCTCT 59.800 52.381 38.47 32.90 44.04 3.10
2939 3020 2.086869 CCCTTTCTGCTACACATGTGG 58.913 52.381 28.64 13.70 34.19 4.17
2940 3021 3.005554 CTCCCTTTCTGCTACACATGTG 58.994 50.000 24.25 24.25 0.00 3.21
2941 3022 2.906389 TCTCCCTTTCTGCTACACATGT 59.094 45.455 0.00 0.00 0.00 3.21
2942 3023 3.265791 GTCTCCCTTTCTGCTACACATG 58.734 50.000 0.00 0.00 0.00 3.21
2943 3024 2.093973 CGTCTCCCTTTCTGCTACACAT 60.094 50.000 0.00 0.00 0.00 3.21
2944 3025 1.272490 CGTCTCCCTTTCTGCTACACA 59.728 52.381 0.00 0.00 0.00 3.72
2945 3026 1.997669 CGTCTCCCTTTCTGCTACAC 58.002 55.000 0.00 0.00 0.00 2.90
2946 3027 0.246635 GCGTCTCCCTTTCTGCTACA 59.753 55.000 0.00 0.00 0.00 2.74
2947 3028 0.246635 TGCGTCTCCCTTTCTGCTAC 59.753 55.000 0.00 0.00 0.00 3.58
2948 3029 0.246635 GTGCGTCTCCCTTTCTGCTA 59.753 55.000 0.00 0.00 0.00 3.49
2949 3030 1.004440 GTGCGTCTCCCTTTCTGCT 60.004 57.895 0.00 0.00 0.00 4.24
2950 3031 2.035442 GGTGCGTCTCCCTTTCTGC 61.035 63.158 0.00 0.00 0.00 4.26
2951 3032 0.951040 GTGGTGCGTCTCCCTTTCTG 60.951 60.000 0.00 0.00 0.00 3.02
2952 3033 1.371558 GTGGTGCGTCTCCCTTTCT 59.628 57.895 0.00 0.00 0.00 2.52
2953 3034 1.070786 TGTGGTGCGTCTCCCTTTC 59.929 57.895 0.00 0.00 0.00 2.62
2954 3035 1.227853 GTGTGGTGCGTCTCCCTTT 60.228 57.895 0.00 0.00 0.00 3.11
2955 3036 2.426023 GTGTGGTGCGTCTCCCTT 59.574 61.111 0.00 0.00 0.00 3.95
2956 3037 3.991051 CGTGTGGTGCGTCTCCCT 61.991 66.667 0.00 0.00 0.00 4.20
2957 3038 4.295119 ACGTGTGGTGCGTCTCCC 62.295 66.667 0.00 0.00 38.23 4.30
2962 3043 3.365976 TTAAAGACGTGTGGTGCGT 57.634 47.368 0.00 0.00 45.86 5.24


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

AutoCloner maintained by Alex Coulton.