Multiple sequence alignment - TraesCS1D01G169400

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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 TraesCS1D01G169400 chr1D 100.000 2770 0 0 1 2770 243968848 243971617 0.000000e+00 5116
1 TraesCS1D01G169400 chr1D 93.586 2557 129 17 1 2535 51835600 51833057 0.000000e+00 3781
2 TraesCS1D01G169400 chr1D 94.878 1640 70 7 907 2535 254453904 254455540 0.000000e+00 2551
3 TraesCS1D01G169400 chr1D 92.083 240 17 2 2531 2769 244038355 244038593 1.230000e-88 337
4 TraesCS1D01G169400 chr3A 94.926 2562 99 12 1 2535 105560614 105558057 0.000000e+00 3982
5 TraesCS1D01G169400 chr3A 87.356 174 19 3 2598 2770 305237123 305236952 2.180000e-46 196
6 TraesCS1D01G169400 chr3A 79.498 239 38 10 2536 2770 341977410 341977641 2.860000e-35 159
7 TraesCS1D01G169400 chr1A 94.817 2566 98 13 1 2535 554478600 554481161 0.000000e+00 3969
8 TraesCS1D01G169400 chr1B 94.601 2556 110 16 1 2535 633713328 633715876 0.000000e+00 3930
9 TraesCS1D01G169400 chr1B 91.705 217 9 1 758 965 482960920 482960704 2.700000e-75 292
10 TraesCS1D01G169400 chr4A 92.879 2556 142 18 1 2535 309450040 309447504 0.000000e+00 3675
11 TraesCS1D01G169400 chr7B 94.798 1730 69 9 1 1710 137682763 137684491 0.000000e+00 2676
12 TraesCS1D01G169400 chr7B 91.133 203 18 0 816 1018 270062360 270062562 2.720000e-70 276
13 TraesCS1D01G169400 chr6B 94.188 1755 76 13 1 1731 18741924 18740172 0.000000e+00 2652
14 TraesCS1D01G169400 chr6B 98.131 107 1 1 786 891 551795768 551795874 4.710000e-43 185
15 TraesCS1D01G169400 chr5D 94.562 1655 75 7 893 2535 481592215 481593866 0.000000e+00 2543
16 TraesCS1D01G169400 chr5D 94.313 1653 81 7 893 2535 503310759 503312408 0.000000e+00 2519
17 TraesCS1D01G169400 chr5D 95.275 1545 61 6 1000 2535 503336802 503338343 0.000000e+00 2438
18 TraesCS1D01G169400 chr4D 93.372 1720 98 12 826 2535 19887653 19889366 0.000000e+00 2531
19 TraesCS1D01G169400 chr4D 93.797 806 41 5 1 798 19886582 19887386 0.000000e+00 1203
20 TraesCS1D01G169400 chr4D 83.051 236 34 6 2536 2769 239131170 239131401 2.800000e-50 209
21 TraesCS1D01G169400 chr4D 81.405 242 37 8 2531 2769 168803877 168803641 1.010000e-44 191
22 TraesCS1D01G169400 chr6D 93.368 1357 69 12 1 1342 210719564 210720914 0.000000e+00 1988
23 TraesCS1D01G169400 chrUn 94.617 1226 51 6 44 1255 53261135 53259911 0.000000e+00 1884
24 TraesCS1D01G169400 chr2B 86.367 1489 150 26 1 1452 721091184 721092656 0.000000e+00 1576
25 TraesCS1D01G169400 chr6A 91.379 232 18 2 2531 2761 58571134 58570904 1.600000e-82 316
26 TraesCS1D01G169400 chr3D 83.817 241 35 3 2531 2770 251055878 251056115 2.780000e-55 226
27 TraesCS1D01G169400 chr2D 83.058 242 35 5 2531 2770 276687567 276687330 6.010000e-52 215
28 TraesCS1D01G169400 chr5A 79.747 237 41 7 2536 2769 208323228 208322996 6.140000e-37 165


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 TraesCS1D01G169400 chr1D 243968848 243971617 2769 False 5116 5116 100.0000 1 2770 1 chr1D.!!$F1 2769
1 TraesCS1D01G169400 chr1D 51833057 51835600 2543 True 3781 3781 93.5860 1 2535 1 chr1D.!!$R1 2534
2 TraesCS1D01G169400 chr1D 254453904 254455540 1636 False 2551 2551 94.8780 907 2535 1 chr1D.!!$F3 1628
3 TraesCS1D01G169400 chr3A 105558057 105560614 2557 True 3982 3982 94.9260 1 2535 1 chr3A.!!$R1 2534
4 TraesCS1D01G169400 chr1A 554478600 554481161 2561 False 3969 3969 94.8170 1 2535 1 chr1A.!!$F1 2534
5 TraesCS1D01G169400 chr1B 633713328 633715876 2548 False 3930 3930 94.6010 1 2535 1 chr1B.!!$F1 2534
6 TraesCS1D01G169400 chr4A 309447504 309450040 2536 True 3675 3675 92.8790 1 2535 1 chr4A.!!$R1 2534
7 TraesCS1D01G169400 chr7B 137682763 137684491 1728 False 2676 2676 94.7980 1 1710 1 chr7B.!!$F1 1709
8 TraesCS1D01G169400 chr6B 18740172 18741924 1752 True 2652 2652 94.1880 1 1731 1 chr6B.!!$R1 1730
9 TraesCS1D01G169400 chr5D 481592215 481593866 1651 False 2543 2543 94.5620 893 2535 1 chr5D.!!$F1 1642
10 TraesCS1D01G169400 chr5D 503310759 503312408 1649 False 2519 2519 94.3130 893 2535 1 chr5D.!!$F2 1642
11 TraesCS1D01G169400 chr5D 503336802 503338343 1541 False 2438 2438 95.2750 1000 2535 1 chr5D.!!$F3 1535
12 TraesCS1D01G169400 chr4D 19886582 19889366 2784 False 1867 2531 93.5845 1 2535 2 chr4D.!!$F2 2534
13 TraesCS1D01G169400 chr6D 210719564 210720914 1350 False 1988 1988 93.3680 1 1342 1 chr6D.!!$F1 1341
14 TraesCS1D01G169400 chrUn 53259911 53261135 1224 True 1884 1884 94.6170 44 1255 1 chrUn.!!$R1 1211
15 TraesCS1D01G169400 chr2B 721091184 721092656 1472 False 1576 1576 86.3670 1 1452 1 chr2B.!!$F1 1451

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
407 409 3.681593 TCCCAGAATACCCAAAGTTTCG 58.318 45.455 0.0 0.0 0.0 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2232 2533 3.117888 GGGCCATGTTCTTCTCCAATCTA 60.118 47.826 4.39 0.0 0.0 1.98 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
42 43 6.684686 CGCATTCAATTGATTCATTATCCCT 58.315 36.000 9.40 0.00 31.87 4.20
77 78 5.193325 AGGAGAATTGAGGATTGGAATGAGT 59.807 40.000 0.00 0.00 0.00 3.41
407 409 3.681593 TCCCAGAATACCCAAAGTTTCG 58.318 45.455 0.00 0.00 0.00 3.46
415 417 7.495934 CAGAATACCCAAAGTTTCGTATCTGAT 59.504 37.037 15.91 0.00 0.00 2.90
543 547 3.758554 CCTGTTGGTACTGGATTCCAAAG 59.241 47.826 6.88 0.00 43.92 2.77
546 550 5.009631 TGTTGGTACTGGATTCCAAAGATG 58.990 41.667 6.88 0.00 41.86 2.90
778 798 9.444600 AGACTTTTGAACTTAGAACACTAACAA 57.555 29.630 0.00 0.00 0.00 2.83
976 1254 7.573968 AAATTCTGTAATGGAATGCTAGGAC 57.426 36.000 0.00 0.00 34.19 3.85
1085 1368 8.058235 TGGTCATGGTATTAAGAAATGGAATCA 58.942 33.333 0.00 0.00 0.00 2.57
1109 1392 5.382664 AATATGACCCCTTACATTTCGGT 57.617 39.130 0.00 0.00 0.00 4.69
1114 1397 4.041938 TGACCCCTTACATTTCGGTAAAGT 59.958 41.667 0.00 0.00 33.18 2.66
1123 1406 6.308371 ACATTTCGGTAAAGTGTAAAGGTG 57.692 37.500 0.00 0.00 0.00 4.00
1128 1411 3.185797 CGGTAAAGTGTAAAGGTGCTCAC 59.814 47.826 0.00 0.00 0.00 3.51
1202 1485 2.275134 TTTGATGCAGCAAGTCAGGA 57.725 45.000 17.90 0.00 0.00 3.86
1363 1651 9.528489 AGACTCTCAATTTAGAGACTTAAGAGT 57.472 33.333 20.90 0.00 43.16 3.24
1425 1715 4.515361 AGATGTGGCAATCTTGAAGAGAG 58.485 43.478 0.00 0.00 37.93 3.20
1426 1716 3.777106 TGTGGCAATCTTGAAGAGAGT 57.223 42.857 0.00 0.00 37.93 3.24
1639 1929 5.812642 ACGATGACACTATGACTTCAATTCC 59.187 40.000 0.00 0.00 0.00 3.01
1761 2051 8.612619 ACTGCGTAAATTTATGGAATCACTTAG 58.387 33.333 17.14 4.78 0.00 2.18
1974 2275 8.924511 TGAAGTTCAATTTTTATCAGAGGACT 57.075 30.769 2.20 0.00 0.00 3.85
2087 2388 2.493278 AGGAGGTTTCCAAATTCATGCG 59.507 45.455 0.00 0.00 46.64 4.73
2091 2392 2.805099 GGTTTCCAAATTCATGCGCAAA 59.195 40.909 17.11 5.32 0.00 3.68
2116 2417 4.177026 CTCATCACTTCTTGGGTCGTAAG 58.823 47.826 0.00 0.00 0.00 2.34
2122 2423 5.769662 TCACTTCTTGGGTCGTAAGTACTAA 59.230 40.000 0.00 0.00 39.48 2.24
2141 2442 5.681639 ACTAACTTGCTAGGTTCAGTTGTT 58.318 37.500 0.00 0.00 0.00 2.83
2169 2470 3.081804 GTTCGGAATCCACAAACCATCT 58.918 45.455 0.00 0.00 0.00 2.90
2172 2473 2.819608 CGGAATCCACAAACCATCTTGT 59.180 45.455 0.00 0.00 40.17 3.16
2173 2474 3.255642 CGGAATCCACAAACCATCTTGTT 59.744 43.478 0.00 0.00 37.43 2.83
2183 2484 3.685139 ACCATCTTGTTCGACAGTCAT 57.315 42.857 0.41 0.00 0.00 3.06
2191 2492 9.055248 CATCTTGTTCGACAGTCATAATTTTTC 57.945 33.333 0.41 0.00 0.00 2.29
2232 2533 6.861065 TTATTCGAGACTTGAGCAAAACTT 57.139 33.333 0.00 0.00 0.00 2.66
2247 2548 7.041098 TGAGCAAAACTTAGATTGGAGAAGAAC 60.041 37.037 0.00 0.00 0.00 3.01
2252 2553 5.189180 ACTTAGATTGGAGAAGAACATGGC 58.811 41.667 0.00 0.00 0.00 4.40
2259 2560 1.142688 AGAAGAACATGGCCCCTGGT 61.143 55.000 0.00 0.00 0.00 4.00
2260 2561 0.681243 GAAGAACATGGCCCCTGGTC 60.681 60.000 11.58 11.58 0.00 4.02
2437 2739 6.537301 CGGCATACTTTTATGTTGGTCTTAGA 59.463 38.462 0.00 0.00 37.92 2.10
2535 2837 8.686334 AGATTTCACAAAACCATTATCGCTTAT 58.314 29.630 0.00 0.00 0.00 1.73
2536 2838 8.633075 ATTTCACAAAACCATTATCGCTTATG 57.367 30.769 0.00 0.00 0.00 1.90
2537 2839 6.751514 TCACAAAACCATTATCGCTTATGT 57.248 33.333 0.00 0.00 0.00 2.29
2538 2840 6.781138 TCACAAAACCATTATCGCTTATGTC 58.219 36.000 0.00 0.00 0.00 3.06
2539 2841 5.676744 CACAAAACCATTATCGCTTATGTCG 59.323 40.000 0.00 0.00 0.00 4.35
2540 2842 4.468095 AAACCATTATCGCTTATGTCGC 57.532 40.909 0.00 0.00 0.00 5.19
2549 2851 3.788434 CGCTTATGTCGCGGAAAATAT 57.212 42.857 6.13 0.00 46.32 1.28
2550 2852 4.896562 CGCTTATGTCGCGGAAAATATA 57.103 40.909 6.13 0.00 46.32 0.86
2551 2853 4.625135 CGCTTATGTCGCGGAAAATATAC 58.375 43.478 6.13 0.00 46.32 1.47
2552 2854 4.149221 CGCTTATGTCGCGGAAAATATACA 59.851 41.667 6.13 0.00 46.32 2.29
2553 2855 5.609088 GCTTATGTCGCGGAAAATATACAG 58.391 41.667 6.13 0.00 0.00 2.74
2554 2856 5.389516 GCTTATGTCGCGGAAAATATACAGG 60.390 44.000 6.13 0.00 0.00 4.00
2555 2857 2.828877 TGTCGCGGAAAATATACAGGG 58.171 47.619 6.13 0.00 0.00 4.45
2556 2858 2.140717 GTCGCGGAAAATATACAGGGG 58.859 52.381 6.13 0.00 0.00 4.79
2557 2859 1.764134 TCGCGGAAAATATACAGGGGT 59.236 47.619 6.13 0.00 0.00 4.95
2558 2860 2.964464 TCGCGGAAAATATACAGGGGTA 59.036 45.455 6.13 0.00 0.00 3.69
2559 2861 3.579586 TCGCGGAAAATATACAGGGGTAT 59.420 43.478 6.13 0.00 42.71 2.73
2560 2862 3.682858 CGCGGAAAATATACAGGGGTATG 59.317 47.826 0.00 0.00 40.40 2.39
2561 2863 3.439129 GCGGAAAATATACAGGGGTATGC 59.561 47.826 0.00 0.00 40.40 3.14
2562 2864 4.647611 CGGAAAATATACAGGGGTATGCA 58.352 43.478 0.00 0.00 40.40 3.96
2563 2865 5.067273 CGGAAAATATACAGGGGTATGCAA 58.933 41.667 0.00 0.00 40.40 4.08
2564 2866 5.710099 CGGAAAATATACAGGGGTATGCAAT 59.290 40.000 0.00 0.00 40.40 3.56
2565 2867 6.208599 CGGAAAATATACAGGGGTATGCAATT 59.791 38.462 0.00 0.00 40.40 2.32
2566 2868 7.255801 CGGAAAATATACAGGGGTATGCAATTT 60.256 37.037 0.00 0.00 40.40 1.82
2567 2869 8.428852 GGAAAATATACAGGGGTATGCAATTTT 58.571 33.333 0.00 0.00 40.40 1.82
2568 2870 9.830975 GAAAATATACAGGGGTATGCAATTTTT 57.169 29.630 0.00 0.00 40.40 1.94
2569 2871 9.830975 AAAATATACAGGGGTATGCAATTTTTC 57.169 29.630 0.00 0.00 40.40 2.29
2570 2872 5.869649 ATACAGGGGTATGCAATTTTTCC 57.130 39.130 0.00 0.00 38.76 3.13
2571 2873 2.837591 ACAGGGGTATGCAATTTTTCCC 59.162 45.455 0.00 0.00 34.68 3.97
2574 2876 3.541996 GGGTATGCAATTTTTCCCCTG 57.458 47.619 0.00 0.00 0.00 4.45
2575 2877 3.103742 GGGTATGCAATTTTTCCCCTGA 58.896 45.455 0.00 0.00 0.00 3.86
2576 2878 3.118775 GGGTATGCAATTTTTCCCCTGAC 60.119 47.826 0.00 0.00 0.00 3.51
2577 2879 3.769300 GGTATGCAATTTTTCCCCTGACT 59.231 43.478 0.00 0.00 0.00 3.41
2578 2880 4.142160 GGTATGCAATTTTTCCCCTGACTC 60.142 45.833 0.00 0.00 0.00 3.36
2579 2881 1.885887 TGCAATTTTTCCCCTGACTCG 59.114 47.619 0.00 0.00 0.00 4.18
2580 2882 1.886542 GCAATTTTTCCCCTGACTCGT 59.113 47.619 0.00 0.00 0.00 4.18
2581 2883 2.351738 GCAATTTTTCCCCTGACTCGTG 60.352 50.000 0.00 0.00 0.00 4.35
2582 2884 1.534729 ATTTTTCCCCTGACTCGTGC 58.465 50.000 0.00 0.00 0.00 5.34
2583 2885 0.181587 TTTTTCCCCTGACTCGTGCA 59.818 50.000 0.00 0.00 0.00 4.57
2584 2886 0.534203 TTTTCCCCTGACTCGTGCAC 60.534 55.000 6.82 6.82 0.00 4.57
2585 2887 2.709125 TTTCCCCTGACTCGTGCACG 62.709 60.000 32.76 32.76 41.45 5.34
2587 2889 2.430921 CCCTGACTCGTGCACGAC 60.431 66.667 36.40 27.29 44.22 4.34
2588 2890 2.335011 CCTGACTCGTGCACGACA 59.665 61.111 36.40 30.06 44.22 4.35
2589 2891 1.299850 CCTGACTCGTGCACGACAA 60.300 57.895 36.40 22.64 44.22 3.18
2590 2892 1.278172 CCTGACTCGTGCACGACAAG 61.278 60.000 36.40 29.01 44.22 3.16
2591 2893 1.880601 CTGACTCGTGCACGACAAGC 61.881 60.000 36.40 23.95 44.22 4.01
2592 2894 2.658707 GACTCGTGCACGACAAGCC 61.659 63.158 36.40 17.14 44.22 4.35
2593 2895 2.661537 CTCGTGCACGACAAGCCA 60.662 61.111 36.40 15.83 44.22 4.75
2594 2896 2.202946 TCGTGCACGACAAGCCAA 60.203 55.556 36.40 13.53 44.22 4.52
2595 2897 2.162921 CTCGTGCACGACAAGCCAAG 62.163 60.000 36.40 20.69 44.22 3.61
2596 2898 2.639286 GTGCACGACAAGCCAAGG 59.361 61.111 0.00 0.00 0.00 3.61
2597 2899 3.286751 TGCACGACAAGCCAAGGC 61.287 61.111 2.02 2.02 42.33 4.35
2598 2900 4.043200 GCACGACAAGCCAAGGCC 62.043 66.667 7.62 0.00 43.17 5.19
2599 2901 2.594303 CACGACAAGCCAAGGCCA 60.594 61.111 5.01 0.00 43.17 5.36
2600 2902 2.192861 CACGACAAGCCAAGGCCAA 61.193 57.895 5.01 0.00 43.17 4.52
2601 2903 1.898574 ACGACAAGCCAAGGCCAAG 60.899 57.895 5.01 0.00 43.17 3.61
2602 2904 2.653115 GACAAGCCAAGGCCAAGC 59.347 61.111 5.01 4.17 43.17 4.01
2617 2919 4.725790 GCCAAGCCAGAATACAAGAAAT 57.274 40.909 0.00 0.00 0.00 2.17
2618 2920 4.427312 GCCAAGCCAGAATACAAGAAATG 58.573 43.478 0.00 0.00 0.00 2.32
2619 2921 4.158394 GCCAAGCCAGAATACAAGAAATGA 59.842 41.667 0.00 0.00 0.00 2.57
2620 2922 5.336690 GCCAAGCCAGAATACAAGAAATGAA 60.337 40.000 0.00 0.00 0.00 2.57
2621 2923 6.327934 CCAAGCCAGAATACAAGAAATGAAG 58.672 40.000 0.00 0.00 0.00 3.02
2622 2924 6.327934 CAAGCCAGAATACAAGAAATGAAGG 58.672 40.000 0.00 0.00 0.00 3.46
2623 2925 4.952335 AGCCAGAATACAAGAAATGAAGGG 59.048 41.667 0.00 0.00 0.00 3.95
2624 2926 4.949856 GCCAGAATACAAGAAATGAAGGGA 59.050 41.667 0.00 0.00 0.00 4.20
2625 2927 5.595952 GCCAGAATACAAGAAATGAAGGGAT 59.404 40.000 0.00 0.00 0.00 3.85
2626 2928 6.238869 GCCAGAATACAAGAAATGAAGGGATC 60.239 42.308 0.00 0.00 0.00 3.36
2627 2929 7.059156 CCAGAATACAAGAAATGAAGGGATCT 58.941 38.462 0.00 0.00 0.00 2.75
2628 2930 7.013083 CCAGAATACAAGAAATGAAGGGATCTG 59.987 40.741 0.00 0.00 0.00 2.90
2629 2931 7.013083 CAGAATACAAGAAATGAAGGGATCTGG 59.987 40.741 0.00 0.00 0.00 3.86
2630 2932 4.934797 ACAAGAAATGAAGGGATCTGGA 57.065 40.909 0.00 0.00 0.00 3.86
2631 2933 4.853007 ACAAGAAATGAAGGGATCTGGAG 58.147 43.478 0.00 0.00 0.00 3.86
2632 2934 4.205587 CAAGAAATGAAGGGATCTGGAGG 58.794 47.826 0.00 0.00 0.00 4.30
2633 2935 3.740780 AGAAATGAAGGGATCTGGAGGA 58.259 45.455 0.00 0.00 0.00 3.71
2634 2936 4.114597 AGAAATGAAGGGATCTGGAGGAA 58.885 43.478 0.00 0.00 0.00 3.36
2635 2937 3.941704 AATGAAGGGATCTGGAGGAAC 57.058 47.619 0.00 0.00 0.00 3.62
2636 2938 1.584724 TGAAGGGATCTGGAGGAACC 58.415 55.000 0.00 0.00 36.31 3.62
2637 2939 1.081174 TGAAGGGATCTGGAGGAACCT 59.919 52.381 0.00 0.00 37.11 3.50
2638 2940 1.488393 GAAGGGATCTGGAGGAACCTG 59.512 57.143 0.00 0.00 37.11 4.00
2639 2941 0.985490 AGGGATCTGGAGGAACCTGC 60.985 60.000 5.42 5.42 37.11 4.85
2640 2942 1.274703 GGGATCTGGAGGAACCTGCA 61.275 60.000 13.89 13.89 42.01 4.41
2641 2943 0.842635 GGATCTGGAGGAACCTGCAT 59.157 55.000 14.86 2.05 43.20 3.96
2642 2944 1.476471 GGATCTGGAGGAACCTGCATG 60.476 57.143 14.86 9.66 43.20 4.06
2643 2945 1.487976 GATCTGGAGGAACCTGCATGA 59.512 52.381 14.86 13.86 43.20 3.07
2644 2946 1.361204 TCTGGAGGAACCTGCATGAA 58.639 50.000 14.86 2.52 43.20 2.57
2645 2947 1.280133 TCTGGAGGAACCTGCATGAAG 59.720 52.381 14.86 0.00 43.20 3.02
2646 2948 1.004044 CTGGAGGAACCTGCATGAAGT 59.996 52.381 14.86 0.00 43.20 3.01
2647 2949 1.003580 TGGAGGAACCTGCATGAAGTC 59.996 52.381 10.85 0.00 39.44 3.01
2648 2950 1.680249 GGAGGAACCTGCATGAAGTCC 60.680 57.143 7.47 0.79 34.41 3.85
2649 2951 1.003580 GAGGAACCTGCATGAAGTCCA 59.996 52.381 11.95 0.00 0.00 4.02
2650 2952 1.425066 AGGAACCTGCATGAAGTCCAA 59.575 47.619 11.95 0.00 0.00 3.53
2651 2953 2.158475 AGGAACCTGCATGAAGTCCAAA 60.158 45.455 11.95 0.00 0.00 3.28
2652 2954 2.229784 GGAACCTGCATGAAGTCCAAAG 59.770 50.000 5.61 0.00 0.00 2.77
2653 2955 2.957402 ACCTGCATGAAGTCCAAAGA 57.043 45.000 0.00 0.00 0.00 2.52
2654 2956 2.787994 ACCTGCATGAAGTCCAAAGAG 58.212 47.619 0.00 0.00 0.00 2.85
2655 2957 2.373169 ACCTGCATGAAGTCCAAAGAGA 59.627 45.455 0.00 0.00 0.00 3.10
2656 2958 2.746362 CCTGCATGAAGTCCAAAGAGAC 59.254 50.000 0.00 0.00 37.01 3.36
2657 2959 2.746362 CTGCATGAAGTCCAAAGAGACC 59.254 50.000 0.00 0.00 37.49 3.85
2658 2960 2.106338 TGCATGAAGTCCAAAGAGACCA 59.894 45.455 0.00 0.00 37.49 4.02
2659 2961 3.149196 GCATGAAGTCCAAAGAGACCAA 58.851 45.455 0.00 0.00 37.49 3.67
2660 2962 3.190118 GCATGAAGTCCAAAGAGACCAAG 59.810 47.826 0.00 0.00 37.49 3.61
2661 2963 4.645535 CATGAAGTCCAAAGAGACCAAGA 58.354 43.478 0.00 0.00 37.49 3.02
2662 2964 4.982241 TGAAGTCCAAAGAGACCAAGAT 57.018 40.909 0.00 0.00 37.49 2.40
2663 2965 4.899502 TGAAGTCCAAAGAGACCAAGATC 58.100 43.478 0.00 0.00 37.49 2.75
2664 2966 3.601443 AGTCCAAAGAGACCAAGATCG 57.399 47.619 0.00 0.00 37.49 3.69
2665 2967 3.165875 AGTCCAAAGAGACCAAGATCGA 58.834 45.455 0.00 0.00 37.49 3.59
2666 2968 3.194542 AGTCCAAAGAGACCAAGATCGAG 59.805 47.826 0.00 0.00 37.49 4.04
2667 2969 2.093973 TCCAAAGAGACCAAGATCGAGC 60.094 50.000 0.00 0.00 0.00 5.03
2668 2970 2.275318 CAAAGAGACCAAGATCGAGCC 58.725 52.381 0.00 0.00 0.00 4.70
2669 2971 1.561643 AAGAGACCAAGATCGAGCCA 58.438 50.000 0.00 0.00 0.00 4.75
2670 2972 1.110442 AGAGACCAAGATCGAGCCAG 58.890 55.000 0.00 0.00 0.00 4.85
2671 2973 1.107114 GAGACCAAGATCGAGCCAGA 58.893 55.000 0.00 0.00 0.00 3.86
2672 2974 1.478510 GAGACCAAGATCGAGCCAGAA 59.521 52.381 0.00 0.00 0.00 3.02
2673 2975 1.480137 AGACCAAGATCGAGCCAGAAG 59.520 52.381 0.00 0.00 0.00 2.85
2674 2976 1.478510 GACCAAGATCGAGCCAGAAGA 59.521 52.381 0.00 0.00 0.00 2.87
2675 2977 1.480137 ACCAAGATCGAGCCAGAAGAG 59.520 52.381 0.00 0.00 0.00 2.85
2676 2978 1.569708 CAAGATCGAGCCAGAAGAGC 58.430 55.000 0.00 0.00 0.00 4.09
2677 2979 1.134877 CAAGATCGAGCCAGAAGAGCA 60.135 52.381 0.00 0.00 0.00 4.26
2678 2980 1.189752 AGATCGAGCCAGAAGAGCAA 58.810 50.000 0.00 0.00 0.00 3.91
2679 2981 1.136695 AGATCGAGCCAGAAGAGCAAG 59.863 52.381 0.00 0.00 0.00 4.01
2680 2982 1.135915 GATCGAGCCAGAAGAGCAAGA 59.864 52.381 0.00 0.00 0.00 3.02
2681 2983 1.189752 TCGAGCCAGAAGAGCAAGAT 58.810 50.000 0.00 0.00 0.00 2.40
2682 2984 2.379005 TCGAGCCAGAAGAGCAAGATA 58.621 47.619 0.00 0.00 0.00 1.98
2683 2985 2.961741 TCGAGCCAGAAGAGCAAGATAT 59.038 45.455 0.00 0.00 0.00 1.63
2684 2986 3.386078 TCGAGCCAGAAGAGCAAGATATT 59.614 43.478 0.00 0.00 0.00 1.28
2685 2987 3.493877 CGAGCCAGAAGAGCAAGATATTG 59.506 47.826 0.00 0.00 0.00 1.90
2686 2988 3.814283 GAGCCAGAAGAGCAAGATATTGG 59.186 47.826 1.67 0.00 0.00 3.16
2687 2989 2.292845 GCCAGAAGAGCAAGATATTGGC 59.707 50.000 1.67 0.00 42.45 4.52
2688 2990 3.548770 CCAGAAGAGCAAGATATTGGCA 58.451 45.455 1.67 0.00 0.00 4.92
2689 2991 3.949754 CCAGAAGAGCAAGATATTGGCAA 59.050 43.478 0.68 0.68 0.00 4.52
2690 2992 4.036498 CCAGAAGAGCAAGATATTGGCAAG 59.964 45.833 5.96 0.00 0.00 4.01
2691 2993 4.880120 CAGAAGAGCAAGATATTGGCAAGA 59.120 41.667 5.96 0.09 0.00 3.02
2692 2994 5.007823 CAGAAGAGCAAGATATTGGCAAGAG 59.992 44.000 5.96 0.00 0.00 2.85
2693 2995 4.767578 AGAGCAAGATATTGGCAAGAGA 57.232 40.909 5.96 0.00 0.00 3.10
2694 2996 5.108187 AGAGCAAGATATTGGCAAGAGAA 57.892 39.130 5.96 0.00 0.00 2.87
2695 2997 5.124645 AGAGCAAGATATTGGCAAGAGAAG 58.875 41.667 5.96 0.00 0.00 2.85
2696 2998 4.205587 AGCAAGATATTGGCAAGAGAAGG 58.794 43.478 5.96 0.00 0.00 3.46
2697 2999 3.317430 GCAAGATATTGGCAAGAGAAGGG 59.683 47.826 5.96 0.00 0.00 3.95
2698 3000 3.220674 AGATATTGGCAAGAGAAGGGC 57.779 47.619 5.96 0.00 0.00 5.19
2702 3004 2.273776 GGCAAGAGAAGGGCCTCC 59.726 66.667 6.46 0.00 44.32 4.30
2703 3005 2.273776 GCAAGAGAAGGGCCTCCC 59.726 66.667 6.46 1.38 45.90 4.30
2719 3021 2.046892 CCTTGTCGGGCAGGTGAG 60.047 66.667 0.00 0.00 0.00 3.51
2720 3022 2.743928 CTTGTCGGGCAGGTGAGC 60.744 66.667 0.00 0.00 0.00 4.26
2721 3023 3.535629 CTTGTCGGGCAGGTGAGCA 62.536 63.158 0.00 0.00 35.83 4.26
2722 3024 3.825160 TTGTCGGGCAGGTGAGCAC 62.825 63.158 0.00 0.00 35.83 4.40
2728 3030 3.730761 GCAGGTGAGCACGGCAAG 61.731 66.667 9.92 0.00 34.03 4.01
2729 3031 3.052082 CAGGTGAGCACGGCAAGG 61.052 66.667 0.00 0.00 0.00 3.61
2730 3032 4.335647 AGGTGAGCACGGCAAGGG 62.336 66.667 0.00 0.00 0.00 3.95
2748 3050 2.107953 GCAAGGCCACCGCAAAAA 59.892 55.556 5.01 0.00 36.38 1.94
2749 3051 1.955663 GCAAGGCCACCGCAAAAAG 60.956 57.895 5.01 0.00 36.38 2.27
2750 3052 1.955663 CAAGGCCACCGCAAAAAGC 60.956 57.895 5.01 0.00 40.87 3.51
2751 3053 2.430610 AAGGCCACCGCAAAAAGCA 61.431 52.632 5.01 0.00 46.13 3.91
2752 3054 2.356194 GGCCACCGCAAAAAGCAG 60.356 61.111 0.00 0.00 46.13 4.24
2753 3055 2.356194 GCCACCGCAAAAAGCAGG 60.356 61.111 0.00 0.00 46.13 4.85
2754 3056 2.356194 CCACCGCAAAAAGCAGGC 60.356 61.111 0.00 0.00 46.13 4.85
2755 3057 2.416678 CACCGCAAAAAGCAGGCA 59.583 55.556 0.00 0.00 46.13 4.75
2756 3058 1.227205 CACCGCAAAAAGCAGGCAA 60.227 52.632 0.00 0.00 46.13 4.52
2757 3059 1.227234 ACCGCAAAAAGCAGGCAAC 60.227 52.632 0.00 0.00 46.13 4.17
2758 3060 1.955663 CCGCAAAAAGCAGGCAACC 60.956 57.895 0.00 0.00 46.13 3.77
2759 3061 2.302230 CGCAAAAAGCAGGCAACCG 61.302 57.895 0.00 0.00 46.13 4.44
2760 3062 1.067250 GCAAAAAGCAGGCAACCGA 59.933 52.632 0.00 0.00 44.79 4.69
2761 3063 0.940991 GCAAAAAGCAGGCAACCGAG 60.941 55.000 0.00 0.00 44.79 4.63
2762 3064 0.318955 CAAAAAGCAGGCAACCGAGG 60.319 55.000 0.00 0.00 37.17 4.63
2763 3065 2.087462 AAAAAGCAGGCAACCGAGGC 62.087 55.000 0.00 0.00 37.17 4.70
2764 3066 3.790416 AAAGCAGGCAACCGAGGCA 62.790 57.895 0.00 0.00 36.37 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
332 334 9.866798 CTGATAATAGATCGATTCATCCAAAGA 57.133 33.333 4.16 0.00 0.00 2.52
357 359 6.324770 CCTTGTTATTCCCAATAAGATTGCCT 59.675 38.462 0.00 0.00 34.23 4.75
390 392 6.942976 TCAGATACGAAACTTTGGGTATTCT 58.057 36.000 0.00 0.00 0.00 2.40
407 409 8.078596 AGTTTCTTGAAAACTTGCATCAGATAC 58.921 33.333 0.00 0.00 37.18 2.24
415 417 5.123186 TCGAGAAGTTTCTTGAAAACTTGCA 59.877 36.000 17.81 0.00 46.81 4.08
434 436 5.008316 GGGAAACTTTTGCTAAAACTCGAGA 59.992 40.000 21.68 0.00 0.00 4.04
559 563 6.540914 TCGAAATAAAGGTTCTTGTCTTGTGT 59.459 34.615 0.00 0.00 0.00 3.72
674 691 4.946160 AATGGGGGTTCTTATGTCTCAA 57.054 40.909 0.00 0.00 0.00 3.02
1085 1368 7.086685 ACCGAAATGTAAGGGGTCATATTAT 57.913 36.000 0.00 0.00 0.00 1.28
1089 1372 5.954153 TTACCGAAATGTAAGGGGTCATA 57.046 39.130 0.00 0.00 32.29 2.15
1093 1376 4.202493 ACACTTTACCGAAATGTAAGGGGT 60.202 41.667 0.00 0.00 38.96 4.95
1109 1392 9.727859 TTATAATGTGAGCACCTTTACACTTTA 57.272 29.630 0.00 0.00 37.32 1.85
1114 1397 9.461312 AAGATTTATAATGTGAGCACCTTTACA 57.539 29.630 0.00 0.00 0.00 2.41
1123 1406 8.006590 CGTTCTAGCAAGATTTATAATGTGAGC 58.993 37.037 0.00 0.00 0.00 4.26
1128 1411 8.420945 CGAGTCGTTCTAGCAAGATTTATAATG 58.579 37.037 3.82 0.00 0.00 1.90
1454 1744 6.595326 GCAATCTCGTCATATATTTGATCCCA 59.405 38.462 0.00 0.00 0.00 4.37
1673 1963 6.474630 TCTTATATAGAGAGAACGACCCTCC 58.525 44.000 0.00 0.00 0.00 4.30
1855 2156 4.851639 AGGATACCAAGAAAGCACATCT 57.148 40.909 0.00 0.00 37.17 2.90
1887 2188 8.725148 CAACTCAGCAACTTGAAGTATTAATCT 58.275 33.333 0.00 0.00 0.00 2.40
1888 2189 8.721478 TCAACTCAGCAACTTGAAGTATTAATC 58.279 33.333 0.00 0.00 0.00 1.75
1889 2190 8.621532 TCAACTCAGCAACTTGAAGTATTAAT 57.378 30.769 0.00 0.00 0.00 1.40
2087 2388 4.702131 ACCCAAGAAGTGATGAGTATTTGC 59.298 41.667 0.00 0.00 0.00 3.68
2091 2392 3.769844 ACGACCCAAGAAGTGATGAGTAT 59.230 43.478 0.00 0.00 0.00 2.12
2116 2417 6.221659 ACAACTGAACCTAGCAAGTTAGTAC 58.778 40.000 0.00 0.00 0.00 2.73
2122 2423 5.875359 GCTATAACAACTGAACCTAGCAAGT 59.125 40.000 0.00 0.00 32.41 3.16
2141 2442 4.746535 TTGTGGATTCCGAACAGCTATA 57.253 40.909 0.00 0.00 0.00 1.31
2169 2470 8.148807 TCAGAAAAATTATGACTGTCGAACAA 57.851 30.769 2.98 0.00 0.00 2.83
2205 2506 5.845985 TTGCTCAAGTCTCGAATAAACTG 57.154 39.130 0.00 0.00 0.00 3.16
2232 2533 3.117888 GGGCCATGTTCTTCTCCAATCTA 60.118 47.826 4.39 0.00 0.00 1.98
2259 2560 5.494706 AGGAACATAGTTCCAATAAAGGGGA 59.505 40.000 25.72 0.00 41.00 4.81
2260 2561 5.766590 AGGAACATAGTTCCAATAAAGGGG 58.233 41.667 25.72 0.00 41.00 4.79
2535 2837 2.484065 CCCCTGTATATTTTCCGCGACA 60.484 50.000 8.23 0.00 0.00 4.35
2536 2838 2.140717 CCCCTGTATATTTTCCGCGAC 58.859 52.381 8.23 0.00 0.00 5.19
2537 2839 1.764134 ACCCCTGTATATTTTCCGCGA 59.236 47.619 8.23 0.00 0.00 5.87
2538 2840 2.249844 ACCCCTGTATATTTTCCGCG 57.750 50.000 0.00 0.00 0.00 6.46
2539 2841 3.439129 GCATACCCCTGTATATTTTCCGC 59.561 47.826 0.00 0.00 35.89 5.54
2540 2842 4.647611 TGCATACCCCTGTATATTTTCCG 58.352 43.478 0.00 0.00 35.89 4.30
2541 2843 7.539034 AATTGCATACCCCTGTATATTTTCC 57.461 36.000 0.00 0.00 35.89 3.13
2542 2844 9.830975 AAAAATTGCATACCCCTGTATATTTTC 57.169 29.630 0.00 0.00 34.79 2.29
2543 2845 9.830975 GAAAAATTGCATACCCCTGTATATTTT 57.169 29.630 0.00 0.00 36.05 1.82
2544 2846 8.428852 GGAAAAATTGCATACCCCTGTATATTT 58.571 33.333 0.00 0.00 35.89 1.40
2545 2847 7.016170 GGGAAAAATTGCATACCCCTGTATATT 59.984 37.037 0.00 0.00 35.89 1.28
2546 2848 6.496911 GGGAAAAATTGCATACCCCTGTATAT 59.503 38.462 0.00 0.00 35.89 0.86
2547 2849 5.836358 GGGAAAAATTGCATACCCCTGTATA 59.164 40.000 0.00 0.00 35.89 1.47
2548 2850 4.653801 GGGAAAAATTGCATACCCCTGTAT 59.346 41.667 0.00 0.00 38.21 2.29
2549 2851 4.027437 GGGAAAAATTGCATACCCCTGTA 58.973 43.478 0.00 0.00 0.00 2.74
2550 2852 2.837591 GGGAAAAATTGCATACCCCTGT 59.162 45.455 0.00 0.00 0.00 4.00
2551 2853 3.541996 GGGAAAAATTGCATACCCCTG 57.458 47.619 0.00 0.00 0.00 4.45
2554 2856 3.103742 TCAGGGGAAAAATTGCATACCC 58.896 45.455 0.00 0.00 36.93 3.69
2555 2857 3.769300 AGTCAGGGGAAAAATTGCATACC 59.231 43.478 0.00 0.00 0.00 2.73
2556 2858 4.438744 CGAGTCAGGGGAAAAATTGCATAC 60.439 45.833 0.00 0.00 0.00 2.39
2557 2859 3.694072 CGAGTCAGGGGAAAAATTGCATA 59.306 43.478 0.00 0.00 0.00 3.14
2558 2860 2.493278 CGAGTCAGGGGAAAAATTGCAT 59.507 45.455 0.00 0.00 0.00 3.96
2559 2861 1.885887 CGAGTCAGGGGAAAAATTGCA 59.114 47.619 0.00 0.00 0.00 4.08
2560 2862 1.886542 ACGAGTCAGGGGAAAAATTGC 59.113 47.619 0.00 0.00 0.00 3.56
2561 2863 2.351738 GCACGAGTCAGGGGAAAAATTG 60.352 50.000 0.00 0.00 0.00 2.32
2562 2864 1.886542 GCACGAGTCAGGGGAAAAATT 59.113 47.619 0.00 0.00 0.00 1.82
2563 2865 1.202879 TGCACGAGTCAGGGGAAAAAT 60.203 47.619 0.00 0.00 0.00 1.82
2564 2866 0.181587 TGCACGAGTCAGGGGAAAAA 59.818 50.000 0.00 0.00 0.00 1.94
2565 2867 0.534203 GTGCACGAGTCAGGGGAAAA 60.534 55.000 0.00 0.00 0.00 2.29
2566 2868 1.070786 GTGCACGAGTCAGGGGAAA 59.929 57.895 0.00 0.00 0.00 3.13
2567 2869 2.741092 GTGCACGAGTCAGGGGAA 59.259 61.111 0.00 0.00 0.00 3.97
2568 2870 3.680786 CGTGCACGAGTCAGGGGA 61.681 66.667 34.93 0.00 43.02 4.81
2569 2871 3.680786 TCGTGCACGAGTCAGGGG 61.681 66.667 36.40 7.06 44.22 4.79
2578 2880 2.249309 CTTGGCTTGTCGTGCACG 59.751 61.111 32.76 32.76 41.45 5.34
2579 2881 2.639286 CCTTGGCTTGTCGTGCAC 59.361 61.111 6.82 6.82 0.00 4.57
2580 2882 3.286751 GCCTTGGCTTGTCGTGCA 61.287 61.111 4.11 0.00 0.00 4.57
2581 2883 4.043200 GGCCTTGGCTTGTCGTGC 62.043 66.667 11.71 0.00 0.00 5.34
2582 2884 2.133742 CTTGGCCTTGGCTTGTCGTG 62.134 60.000 11.71 0.00 0.00 4.35
2583 2885 1.898574 CTTGGCCTTGGCTTGTCGT 60.899 57.895 11.71 0.00 0.00 4.34
2584 2886 2.956987 CTTGGCCTTGGCTTGTCG 59.043 61.111 11.71 0.00 0.00 4.35
2585 2887 2.653115 GCTTGGCCTTGGCTTGTC 59.347 61.111 11.71 0.00 0.00 3.18
2586 2888 2.919328 GGCTTGGCCTTGGCTTGT 60.919 61.111 11.71 0.00 46.69 3.16
2596 2898 4.158394 TCATTTCTTGTATTCTGGCTTGGC 59.842 41.667 0.00 0.00 0.00 4.52
2597 2899 5.902613 TCATTTCTTGTATTCTGGCTTGG 57.097 39.130 0.00 0.00 0.00 3.61
2598 2900 6.327934 CCTTCATTTCTTGTATTCTGGCTTG 58.672 40.000 0.00 0.00 0.00 4.01
2599 2901 5.420104 CCCTTCATTTCTTGTATTCTGGCTT 59.580 40.000 0.00 0.00 0.00 4.35
2600 2902 4.952335 CCCTTCATTTCTTGTATTCTGGCT 59.048 41.667 0.00 0.00 0.00 4.75
2601 2903 4.949856 TCCCTTCATTTCTTGTATTCTGGC 59.050 41.667 0.00 0.00 0.00 4.85
2602 2904 7.013083 CAGATCCCTTCATTTCTTGTATTCTGG 59.987 40.741 0.00 0.00 0.00 3.86
2603 2905 7.013083 CCAGATCCCTTCATTTCTTGTATTCTG 59.987 40.741 0.00 0.00 0.00 3.02
2604 2906 7.059156 CCAGATCCCTTCATTTCTTGTATTCT 58.941 38.462 0.00 0.00 0.00 2.40
2605 2907 7.056635 TCCAGATCCCTTCATTTCTTGTATTC 58.943 38.462 0.00 0.00 0.00 1.75
2606 2908 6.973642 TCCAGATCCCTTCATTTCTTGTATT 58.026 36.000 0.00 0.00 0.00 1.89
2607 2909 6.410157 CCTCCAGATCCCTTCATTTCTTGTAT 60.410 42.308 0.00 0.00 0.00 2.29
2608 2910 5.104360 CCTCCAGATCCCTTCATTTCTTGTA 60.104 44.000 0.00 0.00 0.00 2.41
2609 2911 4.324874 CCTCCAGATCCCTTCATTTCTTGT 60.325 45.833 0.00 0.00 0.00 3.16
2610 2912 4.080129 TCCTCCAGATCCCTTCATTTCTTG 60.080 45.833 0.00 0.00 0.00 3.02
2611 2913 4.114597 TCCTCCAGATCCCTTCATTTCTT 58.885 43.478 0.00 0.00 0.00 2.52
2612 2914 3.740780 TCCTCCAGATCCCTTCATTTCT 58.259 45.455 0.00 0.00 0.00 2.52
2613 2915 4.203226 GTTCCTCCAGATCCCTTCATTTC 58.797 47.826 0.00 0.00 0.00 2.17
2614 2916 3.053320 GGTTCCTCCAGATCCCTTCATTT 60.053 47.826 0.00 0.00 35.97 2.32
2615 2917 2.511637 GGTTCCTCCAGATCCCTTCATT 59.488 50.000 0.00 0.00 35.97 2.57
2616 2918 2.131023 GGTTCCTCCAGATCCCTTCAT 58.869 52.381 0.00 0.00 35.97 2.57
2617 2919 1.081174 AGGTTCCTCCAGATCCCTTCA 59.919 52.381 0.00 0.00 35.22 3.02
2618 2920 1.488393 CAGGTTCCTCCAGATCCCTTC 59.512 57.143 0.00 0.00 35.22 3.46
2619 2921 1.589414 CAGGTTCCTCCAGATCCCTT 58.411 55.000 0.00 0.00 35.22 3.95
2620 2922 0.985490 GCAGGTTCCTCCAGATCCCT 60.985 60.000 0.00 0.00 35.22 4.20
2621 2923 1.274703 TGCAGGTTCCTCCAGATCCC 61.275 60.000 0.00 0.00 35.22 3.85
2622 2924 0.842635 ATGCAGGTTCCTCCAGATCC 59.157 55.000 0.00 0.00 39.02 3.36
2623 2925 1.487976 TCATGCAGGTTCCTCCAGATC 59.512 52.381 0.00 0.00 39.02 2.75
2624 2926 1.588239 TCATGCAGGTTCCTCCAGAT 58.412 50.000 0.00 0.00 39.02 2.90
2625 2927 1.280133 CTTCATGCAGGTTCCTCCAGA 59.720 52.381 0.00 0.00 39.02 3.86
2626 2928 1.004044 ACTTCATGCAGGTTCCTCCAG 59.996 52.381 0.00 0.00 39.02 3.86
2627 2929 1.003580 GACTTCATGCAGGTTCCTCCA 59.996 52.381 0.00 0.00 39.02 3.86
2628 2930 1.680249 GGACTTCATGCAGGTTCCTCC 60.680 57.143 0.00 0.00 0.00 4.30
2629 2931 1.003580 TGGACTTCATGCAGGTTCCTC 59.996 52.381 14.44 0.54 0.00 3.71
2630 2932 1.067295 TGGACTTCATGCAGGTTCCT 58.933 50.000 14.44 0.00 0.00 3.36
2631 2933 1.909700 TTGGACTTCATGCAGGTTCC 58.090 50.000 0.00 3.94 0.00 3.62
2632 2934 3.149196 TCTTTGGACTTCATGCAGGTTC 58.851 45.455 0.00 0.00 0.00 3.62
2633 2935 3.152341 CTCTTTGGACTTCATGCAGGTT 58.848 45.455 0.00 0.00 0.00 3.50
2634 2936 2.373169 TCTCTTTGGACTTCATGCAGGT 59.627 45.455 0.00 0.00 0.00 4.00
2635 2937 2.746362 GTCTCTTTGGACTTCATGCAGG 59.254 50.000 0.00 0.00 33.81 4.85
2636 2938 2.746362 GGTCTCTTTGGACTTCATGCAG 59.254 50.000 0.00 0.00 36.55 4.41
2637 2939 2.106338 TGGTCTCTTTGGACTTCATGCA 59.894 45.455 0.00 0.00 36.55 3.96
2638 2940 2.783135 TGGTCTCTTTGGACTTCATGC 58.217 47.619 0.00 0.00 36.55 4.06
2639 2941 4.645535 TCTTGGTCTCTTTGGACTTCATG 58.354 43.478 0.00 0.00 36.55 3.07
2640 2942 4.982241 TCTTGGTCTCTTTGGACTTCAT 57.018 40.909 0.00 0.00 36.55 2.57
2641 2943 4.561530 CGATCTTGGTCTCTTTGGACTTCA 60.562 45.833 0.00 0.00 36.55 3.02
2642 2944 3.929610 CGATCTTGGTCTCTTTGGACTTC 59.070 47.826 0.00 0.00 36.55 3.01
2643 2945 3.578716 TCGATCTTGGTCTCTTTGGACTT 59.421 43.478 0.00 0.00 36.55 3.01
2644 2946 3.165875 TCGATCTTGGTCTCTTTGGACT 58.834 45.455 0.00 0.00 36.55 3.85
2645 2947 3.516615 CTCGATCTTGGTCTCTTTGGAC 58.483 50.000 0.00 0.00 35.66 4.02
2646 2948 2.093973 GCTCGATCTTGGTCTCTTTGGA 60.094 50.000 0.00 0.00 0.00 3.53
2647 2949 2.275318 GCTCGATCTTGGTCTCTTTGG 58.725 52.381 0.00 0.00 0.00 3.28
2648 2950 2.275318 GGCTCGATCTTGGTCTCTTTG 58.725 52.381 0.00 0.00 0.00 2.77
2649 2951 1.902508 TGGCTCGATCTTGGTCTCTTT 59.097 47.619 0.00 0.00 0.00 2.52
2650 2952 1.480137 CTGGCTCGATCTTGGTCTCTT 59.520 52.381 0.00 0.00 0.00 2.85
2651 2953 1.110442 CTGGCTCGATCTTGGTCTCT 58.890 55.000 0.00 0.00 0.00 3.10
2652 2954 1.107114 TCTGGCTCGATCTTGGTCTC 58.893 55.000 0.00 0.00 0.00 3.36
2653 2955 1.480137 CTTCTGGCTCGATCTTGGTCT 59.520 52.381 0.00 0.00 0.00 3.85
2654 2956 1.478510 TCTTCTGGCTCGATCTTGGTC 59.521 52.381 0.00 0.00 0.00 4.02
2655 2957 1.480137 CTCTTCTGGCTCGATCTTGGT 59.520 52.381 0.00 0.00 0.00 3.67
2656 2958 1.805871 GCTCTTCTGGCTCGATCTTGG 60.806 57.143 0.00 0.00 0.00 3.61
2657 2959 1.134877 TGCTCTTCTGGCTCGATCTTG 60.135 52.381 0.00 0.00 0.00 3.02
2658 2960 1.189752 TGCTCTTCTGGCTCGATCTT 58.810 50.000 0.00 0.00 0.00 2.40
2659 2961 1.136695 CTTGCTCTTCTGGCTCGATCT 59.863 52.381 0.00 0.00 0.00 2.75
2660 2962 1.135915 TCTTGCTCTTCTGGCTCGATC 59.864 52.381 0.00 0.00 0.00 3.69
2661 2963 1.189752 TCTTGCTCTTCTGGCTCGAT 58.810 50.000 0.00 0.00 0.00 3.59
2662 2964 1.189752 ATCTTGCTCTTCTGGCTCGA 58.810 50.000 0.00 0.00 0.00 4.04
2663 2965 2.879002 TATCTTGCTCTTCTGGCTCG 57.121 50.000 0.00 0.00 0.00 5.03
2664 2966 3.814283 CCAATATCTTGCTCTTCTGGCTC 59.186 47.826 0.00 0.00 0.00 4.70
2665 2967 3.818180 CCAATATCTTGCTCTTCTGGCT 58.182 45.455 0.00 0.00 0.00 4.75
2666 2968 2.292845 GCCAATATCTTGCTCTTCTGGC 59.707 50.000 0.00 0.00 41.14 4.85
2667 2969 3.548770 TGCCAATATCTTGCTCTTCTGG 58.451 45.455 0.00 0.00 0.00 3.86
2668 2970 4.880120 TCTTGCCAATATCTTGCTCTTCTG 59.120 41.667 0.00 0.00 0.00 3.02
2669 2971 5.104610 TCTCTTGCCAATATCTTGCTCTTCT 60.105 40.000 0.00 0.00 0.00 2.85
2670 2972 5.121811 TCTCTTGCCAATATCTTGCTCTTC 58.878 41.667 0.00 0.00 0.00 2.87
2671 2973 5.108187 TCTCTTGCCAATATCTTGCTCTT 57.892 39.130 0.00 0.00 0.00 2.85
2672 2974 4.767578 TCTCTTGCCAATATCTTGCTCT 57.232 40.909 0.00 0.00 0.00 4.09
2673 2975 4.275443 CCTTCTCTTGCCAATATCTTGCTC 59.725 45.833 0.00 0.00 0.00 4.26
2674 2976 4.205587 CCTTCTCTTGCCAATATCTTGCT 58.794 43.478 0.00 0.00 0.00 3.91
2675 2977 3.317430 CCCTTCTCTTGCCAATATCTTGC 59.683 47.826 0.00 0.00 0.00 4.01
2676 2978 3.317430 GCCCTTCTCTTGCCAATATCTTG 59.683 47.826 0.00 0.00 0.00 3.02
2677 2979 3.560105 GCCCTTCTCTTGCCAATATCTT 58.440 45.455 0.00 0.00 0.00 2.40
2678 2980 2.158549 GGCCCTTCTCTTGCCAATATCT 60.159 50.000 0.00 0.00 44.70 1.98
2679 2981 2.234143 GGCCCTTCTCTTGCCAATATC 58.766 52.381 0.00 0.00 44.70 1.63
2680 2982 2.371658 GGCCCTTCTCTTGCCAATAT 57.628 50.000 0.00 0.00 44.70 1.28
2681 2983 3.903208 GGCCCTTCTCTTGCCAATA 57.097 52.632 0.00 0.00 44.70 1.90
2682 2984 4.772678 GGCCCTTCTCTTGCCAAT 57.227 55.556 0.00 0.00 44.70 3.16
2685 2987 2.273776 GGAGGCCCTTCTCTTGCC 59.726 66.667 0.00 0.00 45.70 4.52
2686 2988 2.273776 GGGAGGCCCTTCTCTTGC 59.726 66.667 0.00 0.00 41.34 4.01
2702 3004 2.046892 CTCACCTGCCCGACAAGG 60.047 66.667 0.00 0.00 40.63 3.61
2703 3005 2.743928 GCTCACCTGCCCGACAAG 60.744 66.667 0.00 0.00 0.00 3.16
2704 3006 3.555324 TGCTCACCTGCCCGACAA 61.555 61.111 0.00 0.00 0.00 3.18
2705 3007 4.314440 GTGCTCACCTGCCCGACA 62.314 66.667 0.00 0.00 0.00 4.35
2711 3013 3.730761 CTTGCCGTGCTCACCTGC 61.731 66.667 0.00 0.00 0.00 4.85
2712 3014 3.052082 CCTTGCCGTGCTCACCTG 61.052 66.667 0.00 0.00 0.00 4.00
2713 3015 4.335647 CCCTTGCCGTGCTCACCT 62.336 66.667 0.00 0.00 0.00 4.00
2731 3033 1.955663 CTTTTTGCGGTGGCCTTGC 60.956 57.895 3.32 5.83 38.85 4.01
2732 3034 1.955663 GCTTTTTGCGGTGGCCTTG 60.956 57.895 3.32 0.00 38.85 3.61
2733 3035 2.367868 CTGCTTTTTGCGGTGGCCTT 62.368 55.000 3.32 0.00 46.63 4.35
2734 3036 2.837291 TGCTTTTTGCGGTGGCCT 60.837 55.556 3.32 0.00 46.63 5.19
2735 3037 2.356194 CTGCTTTTTGCGGTGGCC 60.356 61.111 0.00 0.00 46.63 5.36
2736 3038 2.356194 CCTGCTTTTTGCGGTGGC 60.356 61.111 0.00 0.00 46.27 5.01
2737 3039 2.356194 GCCTGCTTTTTGCGGTGG 60.356 61.111 0.00 0.00 46.27 4.61
2738 3040 1.227205 TTGCCTGCTTTTTGCGGTG 60.227 52.632 0.00 0.00 46.27 4.94
2739 3041 1.227234 GTTGCCTGCTTTTTGCGGT 60.227 52.632 0.00 0.00 46.27 5.68
2740 3042 1.955663 GGTTGCCTGCTTTTTGCGG 60.956 57.895 0.00 0.00 46.63 5.69
2741 3043 2.302230 CGGTTGCCTGCTTTTTGCG 61.302 57.895 0.00 0.00 46.63 4.85
2742 3044 0.940991 CTCGGTTGCCTGCTTTTTGC 60.941 55.000 0.00 0.00 43.25 3.68
2743 3045 0.318955 CCTCGGTTGCCTGCTTTTTG 60.319 55.000 0.00 0.00 0.00 2.44
2744 3046 2.041153 CCTCGGTTGCCTGCTTTTT 58.959 52.632 0.00 0.00 0.00 1.94
2745 3047 2.564721 GCCTCGGTTGCCTGCTTTT 61.565 57.895 0.00 0.00 0.00 2.27
2746 3048 2.985847 GCCTCGGTTGCCTGCTTT 60.986 61.111 0.00 0.00 0.00 3.51
2747 3049 4.269523 TGCCTCGGTTGCCTGCTT 62.270 61.111 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.