Multiple sequence alignment - TraesCS6B01G165900

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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 TraesCS6B01G165900 chr6B 100.000 3389 0 0 1 3389 172466937 172463549 0.000000e+00 6259.0
1 TraesCS6B01G165900 chr6B 88.731 1340 121 15 1070 2396 172575850 172574528 0.000000e+00 1611.0
2 TraesCS6B01G165900 chr6B 85.779 1540 158 28 836 2332 172369403 172367882 0.000000e+00 1574.0
3 TraesCS6B01G165900 chr6B 95.349 172 3 3 2624 2793 696483389 696483557 5.570000e-68 268.0
4 TraesCS6B01G165900 chr6B 93.407 182 8 2 2616 2797 208178878 208179055 2.000000e-67 267.0
5 TraesCS6B01G165900 chr6D 89.037 1350 130 9 1051 2396 90193893 90195228 0.000000e+00 1657.0
6 TraesCS6B01G165900 chr6D 83.941 1700 186 50 836 2475 90347368 90349040 0.000000e+00 1546.0
7 TraesCS6B01G165900 chr6D 93.103 174 8 2 2618 2790 352878496 352878326 5.610000e-63 252.0
8 TraesCS6B01G165900 chr6A 87.112 1451 145 20 958 2390 108653092 108651666 0.000000e+00 1605.0
9 TraesCS6B01G165900 chr6A 85.649 1533 161 30 836 2341 108217505 108216005 0.000000e+00 1557.0
10 TraesCS6B01G165900 chr6A 96.059 812 20 4 874 1677 108332809 108332002 0.000000e+00 1312.0
11 TraesCS6B01G165900 chr6A 96.322 734 26 1 1723 2456 108332002 108331270 0.000000e+00 1205.0
12 TraesCS6B01G165900 chr6A 91.982 449 26 5 2779 3221 108257496 108257052 3.710000e-174 621.0
13 TraesCS6B01G165900 chr6A 94.828 232 10 2 641 870 108333082 108332851 8.940000e-96 361.0
14 TraesCS6B01G165900 chr6A 91.192 193 13 1 2431 2623 108257912 108257724 3.350000e-65 259.0
15 TraesCS6B01G165900 chr6A 96.970 33 1 0 652 684 53442849 53442881 4.720000e-04 56.5
16 TraesCS6B01G165900 chr2B 93.818 647 34 6 1 643 787340073 787339429 0.000000e+00 968.0
17 TraesCS6B01G165900 chr2B 93.944 644 32 5 1 643 632980229 632980866 0.000000e+00 966.0
18 TraesCS6B01G165900 chr2B 93.663 647 34 6 1 645 744322678 744322037 0.000000e+00 961.0
19 TraesCS6B01G165900 chr2B 93.468 643 37 5 2 643 106503649 106504287 0.000000e+00 950.0
20 TraesCS6B01G165900 chr2B 93.220 649 36 5 2 643 787722512 787723159 0.000000e+00 948.0
21 TraesCS6B01G165900 chr2B 93.323 644 38 4 1 643 291235030 291234391 0.000000e+00 946.0
22 TraesCS6B01G165900 chr2B 93.077 650 32 8 1 643 779906322 779906965 0.000000e+00 939.0
23 TraesCS6B01G165900 chr2B 95.294 170 4 2 2622 2790 594834041 594833875 2.000000e-67 267.0
24 TraesCS6B01G165900 chr2B 94.286 175 5 3 2619 2792 736244879 736245049 2.590000e-66 263.0
25 TraesCS6B01G165900 chr7B 93.168 644 34 7 1 643 122313808 122313174 0.000000e+00 937.0
26 TraesCS6B01G165900 chr7B 90.116 172 16 1 3218 3389 609668090 609667920 4.400000e-54 222.0
27 TraesCS6B01G165900 chr3B 93.168 644 35 4 1 643 30034687 30034052 0.000000e+00 937.0
28 TraesCS6B01G165900 chr2D 92.973 185 8 3 2620 2802 348190634 348190815 7.210000e-67 265.0
29 TraesCS6B01G165900 chr2D 100.000 29 0 0 652 680 10557795 10557767 2.000000e-03 54.7
30 TraesCS6B01G165900 chr4A 94.286 175 4 4 2624 2797 601248856 601248687 2.590000e-66 263.0
31 TraesCS6B01G165900 chr5B 93.333 180 7 3 2622 2800 162720165 162719990 9.330000e-66 261.0
32 TraesCS6B01G165900 chr5B 93.333 180 7 3 2619 2797 577516219 577516044 9.330000e-66 261.0
33 TraesCS6B01G165900 chr7D 90.698 172 14 2 3218 3389 561394987 561394818 9.460000e-56 228.0
34 TraesCS6B01G165900 chr7D 90.116 172 15 2 3218 3389 561269566 561269397 4.400000e-54 222.0
35 TraesCS6B01G165900 chr7D 90.116 172 15 2 3218 3389 561302471 561302302 4.400000e-54 222.0
36 TraesCS6B01G165900 chr7D 90.116 172 15 2 3218 3389 561371551 561371382 4.400000e-54 222.0
37 TraesCS6B01G165900 chr7D 90.116 172 16 1 3218 3389 561444743 561444573 4.400000e-54 222.0
38 TraesCS6B01G165900 chr7D 89.535 172 16 2 3218 3389 561253577 561253408 2.050000e-52 217.0
39 TraesCS6B01G165900 chr7D 89.535 172 16 2 3218 3389 561325645 561325476 2.050000e-52 217.0
40 TraesCS6B01G165900 chr7A 89.080 174 18 1 3216 3389 645719594 645719766 7.370000e-52 215.0
41 TraesCS6B01G165900 chr3A 81.860 215 17 10 3027 3224 494723335 494723126 9.730000e-36 161.0
42 TraesCS6B01G165900 chr3D 80.930 215 18 12 3027 3224 373323084 373322876 7.580000e-32 148.0
43 TraesCS6B01G165900 chr1A 87.209 86 9 1 3070 3153 20368101 20368186 2.780000e-16 97.1
44 TraesCS6B01G165900 chr1D 83.721 86 12 1 3070 3153 18392578 18392663 2.800000e-11 80.5


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 TraesCS6B01G165900 chr6B 172463549 172466937 3388 True 6259.000000 6259 100.000000 1 3389 1 chr6B.!!$R2 3388
1 TraesCS6B01G165900 chr6B 172574528 172575850 1322 True 1611.000000 1611 88.731000 1070 2396 1 chr6B.!!$R3 1326
2 TraesCS6B01G165900 chr6B 172367882 172369403 1521 True 1574.000000 1574 85.779000 836 2332 1 chr6B.!!$R1 1496
3 TraesCS6B01G165900 chr6D 90193893 90195228 1335 False 1657.000000 1657 89.037000 1051 2396 1 chr6D.!!$F1 1345
4 TraesCS6B01G165900 chr6D 90347368 90349040 1672 False 1546.000000 1546 83.941000 836 2475 1 chr6D.!!$F2 1639
5 TraesCS6B01G165900 chr6A 108651666 108653092 1426 True 1605.000000 1605 87.112000 958 2390 1 chr6A.!!$R2 1432
6 TraesCS6B01G165900 chr6A 108216005 108217505 1500 True 1557.000000 1557 85.649000 836 2341 1 chr6A.!!$R1 1505
7 TraesCS6B01G165900 chr6A 108331270 108333082 1812 True 959.333333 1312 95.736333 641 2456 3 chr6A.!!$R4 1815
8 TraesCS6B01G165900 chr6A 108257052 108257912 860 True 440.000000 621 91.587000 2431 3221 2 chr6A.!!$R3 790
9 TraesCS6B01G165900 chr2B 787339429 787340073 644 True 968.000000 968 93.818000 1 643 1 chr2B.!!$R4 642
10 TraesCS6B01G165900 chr2B 632980229 632980866 637 False 966.000000 966 93.944000 1 643 1 chr2B.!!$F2 642
11 TraesCS6B01G165900 chr2B 744322037 744322678 641 True 961.000000 961 93.663000 1 645 1 chr2B.!!$R3 644
12 TraesCS6B01G165900 chr2B 106503649 106504287 638 False 950.000000 950 93.468000 2 643 1 chr2B.!!$F1 641
13 TraesCS6B01G165900 chr2B 787722512 787723159 647 False 948.000000 948 93.220000 2 643 1 chr2B.!!$F5 641
14 TraesCS6B01G165900 chr2B 291234391 291235030 639 True 946.000000 946 93.323000 1 643 1 chr2B.!!$R1 642
15 TraesCS6B01G165900 chr2B 779906322 779906965 643 False 939.000000 939 93.077000 1 643 1 chr2B.!!$F4 642
16 TraesCS6B01G165900 chr7B 122313174 122313808 634 True 937.000000 937 93.168000 1 643 1 chr7B.!!$R1 642
17 TraesCS6B01G165900 chr3B 30034052 30034687 635 True 937.000000 937 93.168000 1 643 1 chr3B.!!$R1 642

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
279 284 0.166814 GTACGTAGCGTCGACCAAGT 59.833 55.0 10.58 6.62 41.54 3.16 F
782 793 0.255604 ATGCATGGACGATGGACCAA 59.744 50.0 0.00 0.00 41.25 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1948 2099 0.321387 AGTGGAGCTCGTCGTAGTCA 60.321 55.0 7.83 0.0 0.0 3.41 R
2479 2653 0.243365 TGCGTGATTGTTGGATTGGC 59.757 50.0 0.00 0.0 0.0 4.52 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
156 161 3.445450 CGACCAATCTCTCAGAGAAGGAA 59.555 47.826 25.76 0.00 42.27 3.36
162 167 4.119556 TCTCTCAGAGAAGGAAAGGTGA 57.880 45.455 0.32 0.00 35.59 4.02
165 170 3.772025 TCTCAGAGAAGGAAAGGTGATCC 59.228 47.826 0.00 0.00 37.22 3.36
251 256 1.745232 AGCGTGTCTAGTCCTCTCTG 58.255 55.000 0.00 0.00 0.00 3.35
279 284 0.166814 GTACGTAGCGTCGACCAAGT 59.833 55.000 10.58 6.62 41.54 3.16
582 591 1.812571 GTACCGACACTTTAGTCCCGA 59.187 52.381 0.00 0.00 35.07 5.14
645 655 8.755977 CAATAGGTCCTTTTTCTACTAGTGGTA 58.244 37.037 5.39 0.00 0.00 3.25
646 656 9.503369 AATAGGTCCTTTTTCTACTAGTGGTAT 57.497 33.333 5.39 0.00 0.00 2.73
649 659 8.925338 AGGTCCTTTTTCTACTAGTGGTATATG 58.075 37.037 5.39 0.00 0.00 1.78
650 660 7.656542 GGTCCTTTTTCTACTAGTGGTATATGC 59.343 40.741 5.39 0.00 0.00 3.14
651 661 7.381678 GTCCTTTTTCTACTAGTGGTATATGCG 59.618 40.741 5.39 0.00 0.00 4.73
652 662 6.145696 CCTTTTTCTACTAGTGGTATATGCGC 59.854 42.308 5.39 0.00 0.00 6.09
733 743 3.118075 AGGCAAGAGATTAGCTTTCTCCC 60.118 47.826 18.00 13.71 40.43 4.30
782 793 0.255604 ATGCATGGACGATGGACCAA 59.744 50.000 0.00 0.00 41.25 3.67
788 799 1.073125 TGGACGATGGACCAACAATGT 59.927 47.619 0.00 0.00 35.02 2.71
792 803 3.009723 ACGATGGACCAACAATGTCATC 58.990 45.455 0.00 2.92 34.36 2.92
1045 1119 1.613630 AGATGGGGAGTCGCAGGTT 60.614 57.895 9.66 0.00 39.23 3.50
1364 1483 5.505654 GGGTGCTTATGTTATGTGTGTATGC 60.506 44.000 0.00 0.00 0.00 3.14
1564 1683 2.675317 CGCGTCCTTCAAGAAGATCCTT 60.675 50.000 11.25 0.00 40.79 3.36
1651 1785 2.346244 GCATGCGTTGTCAATTTCATGG 59.654 45.455 0.00 7.55 33.81 3.66
1948 2099 1.302033 CCAGAGCAACGTCAAGGCT 60.302 57.895 4.00 4.00 41.35 4.58
2104 2255 2.324330 CGCCATGCAGTTCGTCCAA 61.324 57.895 0.00 0.00 0.00 3.53
2322 2475 3.864686 CACACCGCTGCGCCATAC 61.865 66.667 18.00 0.00 0.00 2.39
2350 2513 7.500227 TGCTAGATGGAATTCTTAGGATGTTTG 59.500 37.037 5.23 0.00 0.00 2.93
2403 2576 9.900264 GACGCCAATAAATGAATAATTTTCAAC 57.100 29.630 7.01 0.00 39.29 3.18
2490 2664 2.929903 GCAAGCGGCCAATCCAACA 61.930 57.895 2.24 0.00 36.11 3.33
2543 2717 2.756760 CCCACAATCCCACTCATCTTTG 59.243 50.000 0.00 0.00 0.00 2.77
2557 2731 7.281100 CCACTCATCTTTGAAGAGGTATTTACC 59.719 40.741 5.45 0.00 46.82 2.85
2575 2749 1.196808 ACCTGCAACGCTATCAAAACG 59.803 47.619 0.00 0.00 0.00 3.60
2579 2753 4.459606 CTGCAACGCTATCAAAACGTTTA 58.540 39.130 15.03 0.00 46.96 2.01
2580 2754 4.212911 TGCAACGCTATCAAAACGTTTAC 58.787 39.130 15.03 0.00 46.96 2.01
2581 2755 3.293605 GCAACGCTATCAAAACGTTTACG 59.706 43.478 15.03 13.10 46.96 3.18
2606 2780 3.427909 CGGTTTGCGATGGTACTACAGTA 60.428 47.826 0.00 0.00 0.00 2.74
2617 2791 4.940046 TGGTACTACAGTAGACTTTCCTCG 59.060 45.833 14.94 0.00 0.00 4.63
2623 2797 4.396522 ACAGTAGACTTTCCTCGTGTACT 58.603 43.478 0.00 0.00 40.71 2.73
2625 2799 5.411053 ACAGTAGACTTTCCTCGTGTACTAC 59.589 44.000 0.00 0.00 38.82 2.73
2627 2801 5.874261 AGTAGACTTTCCTCGTGTACTACTC 59.126 44.000 0.00 0.00 39.00 2.59
2631 2805 2.706339 TCCTCGTGTACTACTCCCTC 57.294 55.000 0.00 0.00 0.00 4.30
2633 2807 1.297664 CTCGTGTACTACTCCCTCCG 58.702 60.000 0.00 0.00 0.00 4.63
2637 2811 1.747924 GTGTACTACTCCCTCCGTTCC 59.252 57.143 0.00 0.00 0.00 3.62
2638 2812 1.637553 TGTACTACTCCCTCCGTTCCT 59.362 52.381 0.00 0.00 0.00 3.36
2639 2813 2.846206 TGTACTACTCCCTCCGTTCCTA 59.154 50.000 0.00 0.00 0.00 2.94
2645 2837 6.141790 ACTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
2650 2842 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2651 2843 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2652 2844 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
2670 2862 9.541143 TTTGTCTTTTTAGGATTTCAAATGGAC 57.459 29.630 0.00 0.00 0.00 4.02
2671 2863 8.477419 TGTCTTTTTAGGATTTCAAATGGACT 57.523 30.769 0.00 0.00 0.00 3.85
2672 2864 9.581289 TGTCTTTTTAGGATTTCAAATGGACTA 57.419 29.630 0.00 0.00 0.00 2.59
2673 2865 9.841880 GTCTTTTTAGGATTTCAAATGGACTAC 57.158 33.333 0.00 0.00 0.00 2.73
2688 2930 4.476297 TGGACTACCACATACGGATGTAT 58.524 43.478 14.23 7.46 44.82 2.29
2689 2931 5.633117 TGGACTACCACATACGGATGTATA 58.367 41.667 14.23 8.27 44.82 1.47
2690 2932 6.250711 TGGACTACCACATACGGATGTATAT 58.749 40.000 14.23 4.37 44.82 0.86
2692 2934 7.555195 TGGACTACCACATACGGATGTATATAG 59.445 40.741 14.23 16.35 44.82 1.31
2694 2936 8.503458 ACTACCACATACGGATGTATATAGAC 57.497 38.462 22.62 0.00 44.82 2.59
2696 2938 7.956328 ACCACATACGGATGTATATAGACAT 57.044 36.000 14.23 12.70 44.82 3.06
2727 2969 6.734104 AGTGTAGACTCATTCATTTTGCTC 57.266 37.500 0.00 0.00 0.00 4.26
2728 2970 5.645497 AGTGTAGACTCATTCATTTTGCTCC 59.355 40.000 0.00 0.00 0.00 4.70
2729 2971 4.631377 TGTAGACTCATTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
2730 2972 3.679389 AGACTCATTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
2732 2974 5.431765 AGACTCATTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
2733 2975 5.295292 AGACTCATTCATTTTGCTCCGTATG 59.705 40.000 0.00 0.00 0.00 2.39
2734 2976 4.943705 ACTCATTCATTTTGCTCCGTATGT 59.056 37.500 0.00 0.00 0.00 2.29
2735 2977 6.112734 ACTCATTCATTTTGCTCCGTATGTA 58.887 36.000 0.00 0.00 0.00 2.29
2736 2978 6.258727 ACTCATTCATTTTGCTCCGTATGTAG 59.741 38.462 0.00 0.00 0.00 2.74
2738 2980 6.257849 TCATTCATTTTGCTCCGTATGTAGTC 59.742 38.462 0.00 0.00 0.00 2.59
2739 2981 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
2741 2983 6.112734 TCATTTTGCTCCGTATGTAGTCATT 58.887 36.000 0.00 0.00 35.70 2.57
2742 2984 6.597672 TCATTTTGCTCCGTATGTAGTCATTT 59.402 34.615 0.00 0.00 35.70 2.32
2743 2985 5.794687 TTTGCTCCGTATGTAGTCATTTG 57.205 39.130 0.00 0.00 35.70 2.32
2744 2986 4.465632 TGCTCCGTATGTAGTCATTTGT 57.534 40.909 0.00 0.00 35.70 2.83
2745 2987 4.827692 TGCTCCGTATGTAGTCATTTGTT 58.172 39.130 0.00 0.00 35.70 2.83
2746 2988 5.968254 TGCTCCGTATGTAGTCATTTGTTA 58.032 37.500 0.00 0.00 35.70 2.41
2747 2989 6.399743 TGCTCCGTATGTAGTCATTTGTTAA 58.600 36.000 0.00 0.00 35.70 2.01
2748 2990 6.874664 TGCTCCGTATGTAGTCATTTGTTAAA 59.125 34.615 0.00 0.00 35.70 1.52
2750 2992 8.395633 GCTCCGTATGTAGTCATTTGTTAAAAT 58.604 33.333 0.00 0.00 36.39 1.82
2783 3025 8.943909 AAGACAAATAGTATTTAGGAACGGAG 57.056 34.615 7.80 0.00 0.00 4.63
2823 3069 1.768870 ACACTTTGCAGGGTAGTGAGT 59.231 47.619 20.21 3.71 41.33 3.41
2839 3085 2.291741 GTGAGTTTCCTTTGTGCCAGAG 59.708 50.000 0.00 0.00 0.00 3.35
2851 3097 0.325933 TGCCAGAGTCATGTGAAGGG 59.674 55.000 0.00 0.00 0.00 3.95
2919 3165 1.654105 CGTGTACGTGGAAATCTCTGC 59.346 52.381 0.00 0.00 34.11 4.26
2978 3224 5.860941 ACAGATGGTGAGGAGTAATAGTG 57.139 43.478 0.00 0.00 0.00 2.74
3006 3252 2.291209 TGGCATTGGTGATCAAGTGT 57.709 45.000 0.00 0.00 38.95 3.55
3010 3256 2.352030 GCATTGGTGATCAAGTGTGGTG 60.352 50.000 0.00 0.00 38.95 4.17
3020 3266 0.751643 AAGTGTGGTGCGGCTTTTCT 60.752 50.000 0.00 0.00 0.00 2.52
3027 3273 1.300481 GTGCGGCTTTTCTATCCTCC 58.700 55.000 0.00 0.00 0.00 4.30
3028 3274 1.134371 GTGCGGCTTTTCTATCCTCCT 60.134 52.381 0.00 0.00 0.00 3.69
3109 3355 1.004891 CTTAGGGCCCCTCCTCCTT 59.995 63.158 21.43 0.00 38.30 3.36
3113 3359 2.770475 GGCCCCTCCTCCTTCCTC 60.770 72.222 0.00 0.00 0.00 3.71
3118 3364 1.598856 CCCTCCTCCTTCCTCCTCCT 61.599 65.000 0.00 0.00 0.00 3.69
3129 3375 3.071206 TCCTCCTCTCACCGCTGC 61.071 66.667 0.00 0.00 0.00 5.25
3131 3377 4.504916 CTCCTCTCACCGCTGCCG 62.505 72.222 0.00 0.00 0.00 5.69
3240 3492 4.052229 CTCCGGCGTCGTTCACCT 62.052 66.667 9.28 0.00 33.95 4.00
3241 3493 3.569049 CTCCGGCGTCGTTCACCTT 62.569 63.158 9.28 0.00 33.95 3.50
3242 3494 3.110178 CCGGCGTCGTTCACCTTC 61.110 66.667 9.28 0.00 33.95 3.46
3243 3495 2.049433 CGGCGTCGTTCACCTTCT 60.049 61.111 0.00 0.00 0.00 2.85
3244 3496 1.663702 CGGCGTCGTTCACCTTCTT 60.664 57.895 0.00 0.00 0.00 2.52
3245 3497 1.860078 GGCGTCGTTCACCTTCTTG 59.140 57.895 0.00 0.00 0.00 3.02
3246 3498 0.599204 GGCGTCGTTCACCTTCTTGA 60.599 55.000 0.00 0.00 0.00 3.02
3247 3499 1.214367 GCGTCGTTCACCTTCTTGAA 58.786 50.000 0.00 0.00 32.94 2.69
3248 3500 1.192534 GCGTCGTTCACCTTCTTGAAG 59.807 52.381 3.55 3.55 36.15 3.02
3249 3501 1.792949 CGTCGTTCACCTTCTTGAAGG 59.207 52.381 23.44 23.44 45.46 3.46
3250 3502 1.531578 GTCGTTCACCTTCTTGAAGGC 59.468 52.381 24.58 10.80 43.80 4.35
3251 3503 0.512952 CGTTCACCTTCTTGAAGGCG 59.487 55.000 24.58 17.57 43.80 5.52
3252 3504 0.875059 GTTCACCTTCTTGAAGGCGG 59.125 55.000 24.58 18.18 43.80 6.13
3253 3505 0.472471 TTCACCTTCTTGAAGGCGGT 59.528 50.000 24.58 7.90 43.80 5.68
3254 3506 1.344065 TCACCTTCTTGAAGGCGGTA 58.656 50.000 24.58 8.78 43.80 4.02
3255 3507 1.906574 TCACCTTCTTGAAGGCGGTAT 59.093 47.619 24.58 6.50 43.80 2.73
3256 3508 2.093658 TCACCTTCTTGAAGGCGGTATC 60.094 50.000 24.58 0.00 43.80 2.24
3257 3509 1.134788 ACCTTCTTGAAGGCGGTATCG 60.135 52.381 24.58 0.00 43.80 2.92
3267 3519 3.538841 CGGTATCGCGATCTTGCC 58.461 61.111 27.45 20.73 0.00 4.52
3268 3520 2.022129 CGGTATCGCGATCTTGCCC 61.022 63.158 27.45 16.63 0.00 5.36
3269 3521 1.367840 GGTATCGCGATCTTGCCCT 59.632 57.895 27.45 1.59 0.00 5.19
3270 3522 0.667792 GGTATCGCGATCTTGCCCTC 60.668 60.000 27.45 6.86 0.00 4.30
3271 3523 0.032130 GTATCGCGATCTTGCCCTCA 59.968 55.000 27.45 0.75 0.00 3.86
3272 3524 0.032130 TATCGCGATCTTGCCCTCAC 59.968 55.000 27.45 0.00 0.00 3.51
3273 3525 2.650813 ATCGCGATCTTGCCCTCACC 62.651 60.000 17.62 0.00 0.00 4.02
3274 3526 2.514824 GCGATCTTGCCCTCACCC 60.515 66.667 0.00 0.00 0.00 4.61
3275 3527 3.036429 GCGATCTTGCCCTCACCCT 62.036 63.158 0.00 0.00 0.00 4.34
3276 3528 1.144936 CGATCTTGCCCTCACCCTC 59.855 63.158 0.00 0.00 0.00 4.30
3277 3529 1.333636 CGATCTTGCCCTCACCCTCT 61.334 60.000 0.00 0.00 0.00 3.69
3278 3530 0.467804 GATCTTGCCCTCACCCTCTC 59.532 60.000 0.00 0.00 0.00 3.20
3279 3531 0.043940 ATCTTGCCCTCACCCTCTCT 59.956 55.000 0.00 0.00 0.00 3.10
3280 3532 0.178891 TCTTGCCCTCACCCTCTCTT 60.179 55.000 0.00 0.00 0.00 2.85
3281 3533 0.251634 CTTGCCCTCACCCTCTCTTC 59.748 60.000 0.00 0.00 0.00 2.87
3282 3534 1.201429 TTGCCCTCACCCTCTCTTCC 61.201 60.000 0.00 0.00 0.00 3.46
3283 3535 1.306568 GCCCTCACCCTCTCTTCCT 60.307 63.158 0.00 0.00 0.00 3.36
3284 3536 0.032017 GCCCTCACCCTCTCTTCCTA 60.032 60.000 0.00 0.00 0.00 2.94
3285 3537 1.413808 GCCCTCACCCTCTCTTCCTAT 60.414 57.143 0.00 0.00 0.00 2.57
3286 3538 2.604139 CCCTCACCCTCTCTTCCTATC 58.396 57.143 0.00 0.00 0.00 2.08
3287 3539 2.604139 CCTCACCCTCTCTTCCTATCC 58.396 57.143 0.00 0.00 0.00 2.59
3288 3540 2.178984 CCTCACCCTCTCTTCCTATCCT 59.821 54.545 0.00 0.00 0.00 3.24
3289 3541 3.230134 CTCACCCTCTCTTCCTATCCTG 58.770 54.545 0.00 0.00 0.00 3.86
3290 3542 2.091055 TCACCCTCTCTTCCTATCCTGG 60.091 54.545 0.00 0.00 0.00 4.45
3291 3543 1.221781 ACCCTCTCTTCCTATCCTGGG 59.778 57.143 0.00 0.00 39.26 4.45
3292 3544 1.221781 CCCTCTCTTCCTATCCTGGGT 59.778 57.143 0.00 0.00 0.00 4.51
3293 3545 2.324541 CCTCTCTTCCTATCCTGGGTG 58.675 57.143 0.00 0.00 0.00 4.61
3294 3546 2.091055 CCTCTCTTCCTATCCTGGGTGA 60.091 54.545 0.00 0.00 0.00 4.02
3295 3547 3.631087 CCTCTCTTCCTATCCTGGGTGAA 60.631 52.174 0.00 0.00 0.00 3.18
3296 3548 4.033709 CTCTCTTCCTATCCTGGGTGAAA 58.966 47.826 0.00 0.00 0.00 2.69
3297 3549 4.033709 TCTCTTCCTATCCTGGGTGAAAG 58.966 47.826 0.00 0.00 0.00 2.62
3298 3550 2.505819 TCTTCCTATCCTGGGTGAAAGC 59.494 50.000 0.00 0.00 0.00 3.51
3309 3561 0.811281 GGTGAAAGCCCAAATCTCCG 59.189 55.000 0.00 0.00 0.00 4.63
3310 3562 0.811281 GTGAAAGCCCAAATCTCCGG 59.189 55.000 0.00 0.00 0.00 5.14
3311 3563 0.695924 TGAAAGCCCAAATCTCCGGA 59.304 50.000 2.93 2.93 0.00 5.14
3312 3564 1.284785 TGAAAGCCCAAATCTCCGGAT 59.715 47.619 3.57 0.00 0.00 4.18
3313 3565 2.291540 TGAAAGCCCAAATCTCCGGATT 60.292 45.455 3.57 0.00 43.26 3.01
3314 3566 1.767759 AAGCCCAAATCTCCGGATTG 58.232 50.000 3.57 6.99 40.86 2.67
3315 3567 0.106519 AGCCCAAATCTCCGGATTGG 60.107 55.000 23.20 23.20 40.86 3.16
3317 3569 0.258774 CCCAAATCTCCGGATTGGGT 59.741 55.000 33.20 7.60 46.63 4.51
3318 3570 1.392589 CCAAATCTCCGGATTGGGTG 58.607 55.000 22.64 10.41 44.29 4.61
3319 3571 1.392589 CAAATCTCCGGATTGGGTGG 58.607 55.000 3.57 0.00 40.86 4.61
3320 3572 0.999712 AAATCTCCGGATTGGGTGGT 59.000 50.000 3.57 0.00 40.86 4.16
3321 3573 0.255890 AATCTCCGGATTGGGTGGTG 59.744 55.000 3.57 0.00 40.30 4.17
3322 3574 0.620410 ATCTCCGGATTGGGTGGTGA 60.620 55.000 3.57 0.00 38.76 4.02
3323 3575 1.078426 CTCCGGATTGGGTGGTGAC 60.078 63.158 3.57 0.00 38.76 3.67
3324 3576 2.435938 CCGGATTGGGTGGTGACG 60.436 66.667 0.00 0.00 0.00 4.35
3325 3577 2.435938 CGGATTGGGTGGTGACGG 60.436 66.667 0.00 0.00 0.00 4.79
3326 3578 2.750237 GGATTGGGTGGTGACGGC 60.750 66.667 0.00 0.00 0.00 5.68
3327 3579 3.124921 GATTGGGTGGTGACGGCG 61.125 66.667 4.80 4.80 0.00 6.46
3342 3594 4.759096 GCGCGCCAGCATCGTTTT 62.759 61.111 23.24 0.00 45.49 2.43
3343 3595 2.574212 CGCGCCAGCATCGTTTTC 60.574 61.111 0.00 0.00 45.49 2.29
3344 3596 2.870372 GCGCCAGCATCGTTTTCT 59.130 55.556 0.00 0.00 44.35 2.52
3345 3597 1.210155 GCGCCAGCATCGTTTTCTT 59.790 52.632 0.00 0.00 44.35 2.52
3346 3598 0.794605 GCGCCAGCATCGTTTTCTTC 60.795 55.000 0.00 0.00 44.35 2.87
3347 3599 0.798776 CGCCAGCATCGTTTTCTTCT 59.201 50.000 0.00 0.00 0.00 2.85
3348 3600 1.197721 CGCCAGCATCGTTTTCTTCTT 59.802 47.619 0.00 0.00 0.00 2.52
3349 3601 2.589014 GCCAGCATCGTTTTCTTCTTG 58.411 47.619 0.00 0.00 0.00 3.02
3350 3602 2.226437 GCCAGCATCGTTTTCTTCTTGA 59.774 45.455 0.00 0.00 0.00 3.02
3351 3603 3.304659 GCCAGCATCGTTTTCTTCTTGAA 60.305 43.478 0.00 0.00 0.00 2.69
3352 3604 4.470462 CCAGCATCGTTTTCTTCTTGAAG 58.530 43.478 4.13 4.13 35.89 3.02
3353 3605 4.214119 CCAGCATCGTTTTCTTCTTGAAGA 59.786 41.667 8.80 8.80 35.89 2.87
3354 3606 5.142962 CAGCATCGTTTTCTTCTTGAAGAC 58.857 41.667 12.06 2.37 36.69 3.01
3355 3607 4.816385 AGCATCGTTTTCTTCTTGAAGACA 59.184 37.500 12.06 4.07 39.05 3.41
3356 3608 4.906437 GCATCGTTTTCTTCTTGAAGACAC 59.094 41.667 12.06 10.82 39.05 3.67
3357 3609 5.444122 CATCGTTTTCTTCTTGAAGACACC 58.556 41.667 12.06 0.00 39.05 4.16
3358 3610 4.509616 TCGTTTTCTTCTTGAAGACACCA 58.490 39.130 12.06 0.19 39.05 4.17
3359 3611 4.331717 TCGTTTTCTTCTTGAAGACACCAC 59.668 41.667 12.06 6.50 39.05 4.16
3360 3612 4.495844 CGTTTTCTTCTTGAAGACACCACC 60.496 45.833 12.06 0.00 39.05 4.61
3361 3613 4.503714 TTTCTTCTTGAAGACACCACCT 57.496 40.909 12.06 0.00 35.89 4.00
3362 3614 4.503714 TTCTTCTTGAAGACACCACCTT 57.496 40.909 12.06 0.00 0.00 3.50
3363 3615 4.503714 TCTTCTTGAAGACACCACCTTT 57.496 40.909 8.80 0.00 0.00 3.11
3364 3616 4.199310 TCTTCTTGAAGACACCACCTTTG 58.801 43.478 8.80 0.00 0.00 2.77
3365 3617 7.801483 TTTCTTCTTGAAGACACCACCTTTGG 61.801 42.308 12.06 0.00 41.44 3.28
3374 3626 4.323477 CACCTTTGGGACGGCGGA 62.323 66.667 13.24 0.00 36.25 5.54
3375 3627 4.016706 ACCTTTGGGACGGCGGAG 62.017 66.667 13.24 0.00 36.25 4.63
3376 3628 4.016706 CCTTTGGGACGGCGGAGT 62.017 66.667 13.24 0.00 33.58 3.85
3377 3629 2.742372 CTTTGGGACGGCGGAGTG 60.742 66.667 13.24 0.00 0.00 3.51
3378 3630 4.323477 TTTGGGACGGCGGAGTGG 62.323 66.667 13.24 0.00 0.00 4.00
3383 3635 4.736896 GACGGCGGAGTGGTGGTC 62.737 72.222 13.24 0.00 0.00 4.02
3385 3637 4.308458 CGGCGGAGTGGTGGTCAA 62.308 66.667 0.00 0.00 0.00 3.18
3386 3638 2.112297 GGCGGAGTGGTGGTCAAA 59.888 61.111 0.00 0.00 0.00 2.69
3387 3639 1.966451 GGCGGAGTGGTGGTCAAAG 60.966 63.158 0.00 0.00 0.00 2.77
3388 3640 2.617274 GCGGAGTGGTGGTCAAAGC 61.617 63.158 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 94 1.602851 CTGACGCTACGTACTGGCTAT 59.397 52.381 0.00 0.00 41.37 2.97
162 167 6.496218 TGCATACAGAGAGAAGTGATATGGAT 59.504 38.462 0.00 0.00 0.00 3.41
165 170 9.303537 CATATGCATACAGAGAGAAGTGATATG 57.696 37.037 8.99 0.00 0.00 1.78
279 284 4.774660 AGTGTCCTCTCTTATCTCCGTA 57.225 45.455 0.00 0.00 0.00 4.02
314 319 9.045223 TGTTTCATATATTGTGTTAGCTAGCTG 57.955 33.333 27.68 6.46 0.00 4.24
409 417 2.099062 CGCGTCAGCATTTCAGGC 59.901 61.111 0.00 0.00 45.49 4.85
512 520 1.280710 TGCATAAACCGGGACAGATGT 59.719 47.619 6.32 0.00 0.00 3.06
582 591 3.307129 GGCCATTTGTCCCGGTTTTAAAT 60.307 43.478 0.00 0.00 0.00 1.40
645 655 1.134367 ACACAGTACAGACGCGCATAT 59.866 47.619 5.73 0.00 0.00 1.78
646 656 0.524414 ACACAGTACAGACGCGCATA 59.476 50.000 5.73 0.00 0.00 3.14
647 657 0.319555 AACACAGTACAGACGCGCAT 60.320 50.000 5.73 0.00 0.00 4.73
648 658 0.937699 GAACACAGTACAGACGCGCA 60.938 55.000 5.73 0.00 0.00 6.09
649 659 0.937699 TGAACACAGTACAGACGCGC 60.938 55.000 5.73 0.00 0.00 6.86
650 660 1.483316 TTGAACACAGTACAGACGCG 58.517 50.000 3.53 3.53 0.00 6.01
651 661 3.936902 TTTTGAACACAGTACAGACGC 57.063 42.857 0.00 0.00 0.00 5.19
713 723 4.149511 AGGGAGAAAGCTAATCTCTTGC 57.850 45.455 22.03 10.66 42.38 4.01
782 793 3.305335 GCGGGAAGTTTTGATGACATTGT 60.305 43.478 0.00 0.00 0.00 2.71
788 799 4.392921 TTTTTGCGGGAAGTTTTGATGA 57.607 36.364 0.00 0.00 0.00 2.92
812 823 5.076182 TGAGAAGATGTGGTTTTTATGGCA 58.924 37.500 0.00 0.00 0.00 4.92
870 884 4.937620 CGTAAGGCGGAGGTATATACTACA 59.062 45.833 12.54 0.00 36.85 2.74
871 885 4.938226 ACGTAAGGCGGAGGTATATACTAC 59.062 45.833 12.54 6.99 46.52 2.73
954 1021 8.934023 TTGGTGTCCTTTTATAGAACTTCATT 57.066 30.769 0.00 0.00 0.00 2.57
1136 1231 0.806868 AGTCACCGAACGCGAAGATA 59.193 50.000 15.93 0.00 40.82 1.98
1364 1483 2.730672 CGAACGCCTCCGCTGAAAG 61.731 63.158 0.00 0.00 38.22 2.62
1546 1665 2.675348 CGCAAGGATCTTCTTGAAGGAC 59.325 50.000 13.91 5.26 44.98 3.85
1638 1762 3.843422 ACTGAACCCCATGAAATTGACA 58.157 40.909 0.00 0.00 0.00 3.58
1703 1854 0.699399 AGGGACTCGTTGAGGAGAGA 59.301 55.000 7.62 0.00 37.87 3.10
1711 1862 1.669115 CAGCACCAGGGACTCGTTG 60.669 63.158 0.00 0.00 34.60 4.10
1948 2099 0.321387 AGTGGAGCTCGTCGTAGTCA 60.321 55.000 7.83 0.00 0.00 3.41
1981 2132 3.007506 TGTGCTTCTGGGAGAATTCGTTA 59.992 43.478 0.00 0.00 33.13 3.18
2036 2187 4.329545 GCCAGGGTTCTGCGACCA 62.330 66.667 6.13 0.00 41.65 4.02
2296 2449 4.373116 AGCGGTGTGTCGGCGAAT 62.373 61.111 12.92 0.00 45.16 3.34
2322 2475 7.222872 ACATCCTAAGAATTCCATCTAGCAAG 58.777 38.462 0.65 0.00 0.00 4.01
2350 2513 5.524284 ACAGCTACATCAGTCGATCATAAC 58.476 41.667 0.00 0.00 0.00 1.89
2479 2653 0.243365 TGCGTGATTGTTGGATTGGC 59.757 50.000 0.00 0.00 0.00 4.52
2490 2664 3.242739 GGTGCTAATTCGATTGCGTGATT 60.243 43.478 0.00 0.00 38.98 2.57
2557 2731 2.594529 ACGTTTTGATAGCGTTGCAG 57.405 45.000 0.00 0.00 35.11 4.41
2575 2749 2.472723 CCATCGCAAACCGTACGTAAAC 60.473 50.000 15.21 0.00 38.35 2.01
2579 2753 0.243365 TACCATCGCAAACCGTACGT 59.757 50.000 15.21 0.00 38.35 3.57
2580 2754 0.641783 GTACCATCGCAAACCGTACG 59.358 55.000 8.69 8.69 38.35 3.67
2581 2755 2.000429 AGTACCATCGCAAACCGTAC 58.000 50.000 0.00 0.00 38.35 3.67
2582 2756 2.491298 TGTAGTACCATCGCAAACCGTA 59.509 45.455 0.00 0.00 38.35 4.02
2590 2764 4.897025 AAGTCTACTGTAGTACCATCGC 57.103 45.455 14.11 0.00 0.00 4.58
2591 2765 5.589452 AGGAAAGTCTACTGTAGTACCATCG 59.411 44.000 14.11 0.00 0.00 3.84
2606 2780 4.009002 GGAGTAGTACACGAGGAAAGTCT 58.991 47.826 2.52 0.00 0.00 3.24
2617 2791 1.747924 GGAACGGAGGGAGTAGTACAC 59.252 57.143 2.52 0.00 0.00 2.90
2623 2797 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
2625 2799 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
2627 2801 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
2645 2837 8.923270 AGTCCATTTGAAATCCTAAAAAGACAA 58.077 29.630 0.00 0.00 30.54 3.18
2650 2842 8.581578 GTGGTAGTCCATTTGAAATCCTAAAAA 58.418 33.333 0.00 0.00 46.20 1.94
2651 2843 7.726291 TGTGGTAGTCCATTTGAAATCCTAAAA 59.274 33.333 0.00 0.00 46.20 1.52
2652 2844 7.235079 TGTGGTAGTCCATTTGAAATCCTAAA 58.765 34.615 0.00 0.00 46.20 1.85
2655 2847 5.255397 TGTGGTAGTCCATTTGAAATCCT 57.745 39.130 0.00 0.00 46.20 3.24
2656 2848 6.238374 CGTATGTGGTAGTCCATTTGAAATCC 60.238 42.308 0.00 0.00 46.20 3.01
2661 2853 3.770388 TCCGTATGTGGTAGTCCATTTGA 59.230 43.478 0.00 0.00 46.20 2.69
2662 2854 4.131649 TCCGTATGTGGTAGTCCATTTG 57.868 45.455 0.00 0.00 46.20 2.32
2667 2859 6.770746 ATATACATCCGTATGTGGTAGTCC 57.229 41.667 3.56 0.00 45.99 3.85
2668 2860 8.610896 GTCTATATACATCCGTATGTGGTAGTC 58.389 40.741 3.56 0.00 45.99 2.59
2670 2862 8.502105 TGTCTATATACATCCGTATGTGGTAG 57.498 38.462 3.56 3.93 45.99 3.18
2672 2864 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
2706 2948 4.631377 CGGAGCAAAATGAATGAGTCTACA 59.369 41.667 0.00 0.00 0.00 2.74
2707 2949 4.631813 ACGGAGCAAAATGAATGAGTCTAC 59.368 41.667 0.00 0.00 0.00 2.59
2708 2950 4.832248 ACGGAGCAAAATGAATGAGTCTA 58.168 39.130 0.00 0.00 0.00 2.59
2709 2951 3.679389 ACGGAGCAAAATGAATGAGTCT 58.321 40.909 0.00 0.00 0.00 3.24
2711 2953 4.943705 ACATACGGAGCAAAATGAATGAGT 59.056 37.500 0.00 0.00 0.00 3.41
2712 2954 5.490139 ACATACGGAGCAAAATGAATGAG 57.510 39.130 0.00 0.00 0.00 2.90
2713 2955 6.112734 ACTACATACGGAGCAAAATGAATGA 58.887 36.000 0.00 0.00 0.00 2.57
2714 2956 6.037062 TGACTACATACGGAGCAAAATGAATG 59.963 38.462 0.00 0.00 0.00 2.67
2716 2958 5.483811 TGACTACATACGGAGCAAAATGAA 58.516 37.500 0.00 0.00 0.00 2.57
2717 2959 5.079689 TGACTACATACGGAGCAAAATGA 57.920 39.130 0.00 0.00 0.00 2.57
2718 2960 5.991328 ATGACTACATACGGAGCAAAATG 57.009 39.130 0.00 0.00 34.71 2.32
2719 2961 6.374333 ACAAATGACTACATACGGAGCAAAAT 59.626 34.615 0.00 0.00 35.50 1.82
2723 2965 4.465632 ACAAATGACTACATACGGAGCA 57.534 40.909 0.00 0.00 35.50 4.26
2724 2966 6.897259 TTAACAAATGACTACATACGGAGC 57.103 37.500 0.00 0.00 35.50 4.70
2756 2998 9.374838 TCCGTTCCTAAATACTATTTGTCTTTC 57.625 33.333 4.52 0.00 0.00 2.62
2757 2999 9.379791 CTCCGTTCCTAAATACTATTTGTCTTT 57.620 33.333 4.52 0.00 0.00 2.52
2758 3000 7.985752 CCTCCGTTCCTAAATACTATTTGTCTT 59.014 37.037 4.52 0.00 0.00 3.01
2760 3002 6.704937 CCCTCCGTTCCTAAATACTATTTGTC 59.295 42.308 4.52 0.00 0.00 3.18
2762 3004 6.823497 TCCCTCCGTTCCTAAATACTATTTG 58.177 40.000 4.52 0.00 0.00 2.32
2763 3005 6.614496 ACTCCCTCCGTTCCTAAATACTATTT 59.386 38.462 0.00 0.00 0.00 1.40
2764 3006 6.141790 ACTCCCTCCGTTCCTAAATACTATT 58.858 40.000 0.00 0.00 0.00 1.73
2765 3007 5.713807 ACTCCCTCCGTTCCTAAATACTAT 58.286 41.667 0.00 0.00 0.00 2.12
2767 3009 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
2768 3010 4.892345 ACTACTCCCTCCGTTCCTAAATAC 59.108 45.833 0.00 0.00 0.00 1.89
2769 3011 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
2770 3012 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
2771 3013 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
2772 3014 3.686691 GCTACTACTCCCTCCGTTCCTAA 60.687 52.174 0.00 0.00 0.00 2.69
2775 3017 1.031235 GCTACTACTCCCTCCGTTCC 58.969 60.000 0.00 0.00 0.00 3.62
2776 3018 2.055684 AGCTACTACTCCCTCCGTTC 57.944 55.000 0.00 0.00 0.00 3.95
2777 3019 3.659183 TTAGCTACTACTCCCTCCGTT 57.341 47.619 0.00 0.00 0.00 4.44
2778 3020 3.659183 TTTAGCTACTACTCCCTCCGT 57.341 47.619 0.00 0.00 0.00 4.69
2779 3021 3.243468 GCTTTTAGCTACTACTCCCTCCG 60.243 52.174 0.00 0.00 38.45 4.63
2780 3022 3.069872 GGCTTTTAGCTACTACTCCCTCC 59.930 52.174 0.00 0.00 41.99 4.30
2823 3069 2.727123 TGACTCTGGCACAAAGGAAA 57.273 45.000 0.00 0.00 38.70 3.13
2839 3085 2.567615 ACACTCCTACCCTTCACATGAC 59.432 50.000 0.00 0.00 0.00 3.06
2851 3097 5.388408 AACACTAGTAGCAACACTCCTAC 57.612 43.478 0.00 0.00 35.33 3.18
2889 3135 9.440773 AGATTTCCACGTACACGATATATACTA 57.559 33.333 9.04 0.00 43.02 1.82
2890 3136 8.332996 AGATTTCCACGTACACGATATATACT 57.667 34.615 9.04 0.00 43.02 2.12
2919 3165 3.156293 TGATCAATGTTTGGACCCACAG 58.844 45.455 0.00 0.00 0.00 3.66
2978 3224 7.981225 ACTTGATCACCAATGCCATTTATTAAC 59.019 33.333 0.00 0.00 33.68 2.01
3006 3252 0.618458 AGGATAGAAAAGCCGCACCA 59.382 50.000 0.00 0.00 0.00 4.17
3010 3256 1.541452 GGAGGAGGATAGAAAAGCCGC 60.541 57.143 0.00 0.00 0.00 6.53
3020 3266 1.080927 GGAGGAGGGGGAGGAGGATA 61.081 65.000 0.00 0.00 0.00 2.59
3027 3273 4.179599 GGAGGGGAGGAGGGGGAG 62.180 77.778 0.00 0.00 0.00 4.30
3109 3355 2.043852 GCGGTGAGAGGAGGAGGA 60.044 66.667 0.00 0.00 0.00 3.71
3113 3359 4.154347 GGCAGCGGTGAGAGGAGG 62.154 72.222 20.69 0.00 0.00 4.30
3228 3480 1.192534 CTTCAAGAAGGTGAACGACGC 59.807 52.381 1.86 0.00 33.92 5.19
3250 3502 2.022129 GGGCAAGATCGCGATACCG 61.022 63.158 23.76 13.81 39.16 4.02
3251 3503 0.667792 GAGGGCAAGATCGCGATACC 60.668 60.000 23.76 19.71 0.00 2.73
3252 3504 0.032130 TGAGGGCAAGATCGCGATAC 59.968 55.000 23.76 15.34 0.00 2.24
3253 3505 0.032130 GTGAGGGCAAGATCGCGATA 59.968 55.000 23.76 0.00 0.00 2.92
3254 3506 1.227380 GTGAGGGCAAGATCGCGAT 60.227 57.895 23.97 23.97 0.00 4.58
3255 3507 2.184322 GTGAGGGCAAGATCGCGA 59.816 61.111 13.09 13.09 0.00 5.87
3256 3508 2.892425 GGTGAGGGCAAGATCGCG 60.892 66.667 0.00 0.00 0.00 5.87
3257 3509 2.514824 GGGTGAGGGCAAGATCGC 60.515 66.667 0.00 0.00 0.00 4.58
3258 3510 1.144936 GAGGGTGAGGGCAAGATCG 59.855 63.158 0.00 0.00 0.00 3.69
3259 3511 0.467804 GAGAGGGTGAGGGCAAGATC 59.532 60.000 0.00 0.00 0.00 2.75
3260 3512 0.043940 AGAGAGGGTGAGGGCAAGAT 59.956 55.000 0.00 0.00 0.00 2.40
3261 3513 0.178891 AAGAGAGGGTGAGGGCAAGA 60.179 55.000 0.00 0.00 0.00 3.02
3262 3514 0.251634 GAAGAGAGGGTGAGGGCAAG 59.748 60.000 0.00 0.00 0.00 4.01
3263 3515 1.201429 GGAAGAGAGGGTGAGGGCAA 61.201 60.000 0.00 0.00 0.00 4.52
3264 3516 1.613630 GGAAGAGAGGGTGAGGGCA 60.614 63.158 0.00 0.00 0.00 5.36
3265 3517 0.032017 TAGGAAGAGAGGGTGAGGGC 60.032 60.000 0.00 0.00 0.00 5.19
3266 3518 2.604139 GATAGGAAGAGAGGGTGAGGG 58.396 57.143 0.00 0.00 0.00 4.30
3267 3519 2.178984 AGGATAGGAAGAGAGGGTGAGG 59.821 54.545 0.00 0.00 0.00 3.86
3268 3520 3.230134 CAGGATAGGAAGAGAGGGTGAG 58.770 54.545 0.00 0.00 0.00 3.51
3269 3521 2.091055 CCAGGATAGGAAGAGAGGGTGA 60.091 54.545 0.00 0.00 0.00 4.02
3270 3522 2.324541 CCAGGATAGGAAGAGAGGGTG 58.675 57.143 0.00 0.00 0.00 4.61
3271 3523 1.221781 CCCAGGATAGGAAGAGAGGGT 59.778 57.143 0.00 0.00 0.00 4.34
3272 3524 1.221781 ACCCAGGATAGGAAGAGAGGG 59.778 57.143 0.00 0.00 40.88 4.30
3273 3525 2.091055 TCACCCAGGATAGGAAGAGAGG 60.091 54.545 0.00 0.00 0.00 3.69
3274 3526 3.320610 TCACCCAGGATAGGAAGAGAG 57.679 52.381 0.00 0.00 0.00 3.20
3275 3527 3.776731 TTCACCCAGGATAGGAAGAGA 57.223 47.619 0.00 0.00 0.00 3.10
3276 3528 3.432890 GCTTTCACCCAGGATAGGAAGAG 60.433 52.174 0.00 0.00 0.00 2.85
3277 3529 2.505819 GCTTTCACCCAGGATAGGAAGA 59.494 50.000 0.00 0.00 0.00 2.87
3278 3530 2.422093 GGCTTTCACCCAGGATAGGAAG 60.422 54.545 0.00 0.00 0.00 3.46
3279 3531 1.564348 GGCTTTCACCCAGGATAGGAA 59.436 52.381 0.00 0.00 0.00 3.36
3280 3532 1.213296 GGCTTTCACCCAGGATAGGA 58.787 55.000 0.00 0.00 0.00 2.94
3281 3533 3.808984 GGCTTTCACCCAGGATAGG 57.191 57.895 0.00 0.00 0.00 2.57
3290 3542 0.811281 CGGAGATTTGGGCTTTCACC 59.189 55.000 0.00 0.00 0.00 4.02
3291 3543 0.811281 CCGGAGATTTGGGCTTTCAC 59.189 55.000 0.00 0.00 0.00 3.18
3292 3544 0.695924 TCCGGAGATTTGGGCTTTCA 59.304 50.000 0.00 0.00 0.00 2.69
3293 3545 2.058593 ATCCGGAGATTTGGGCTTTC 57.941 50.000 11.34 0.00 0.00 2.62
3294 3546 2.102578 CAATCCGGAGATTTGGGCTTT 58.897 47.619 11.34 0.00 40.89 3.51
3295 3547 1.686115 CCAATCCGGAGATTTGGGCTT 60.686 52.381 22.64 1.61 40.89 4.35
3296 3548 0.106519 CCAATCCGGAGATTTGGGCT 60.107 55.000 22.64 0.00 40.89 5.19
3297 3549 1.109323 CCCAATCCGGAGATTTGGGC 61.109 60.000 31.87 0.00 40.89 5.36
3298 3550 0.258774 ACCCAATCCGGAGATTTGGG 59.741 55.000 36.96 36.96 45.50 4.12
3299 3551 1.392589 CACCCAATCCGGAGATTTGG 58.607 55.000 23.20 23.20 46.26 3.28
3300 3552 1.340991 ACCACCCAATCCGGAGATTTG 60.341 52.381 11.34 9.94 40.89 2.32
3301 3553 0.999712 ACCACCCAATCCGGAGATTT 59.000 50.000 11.34 0.00 40.89 2.17
3302 3554 0.255890 CACCACCCAATCCGGAGATT 59.744 55.000 11.34 0.00 43.74 2.40
3303 3555 0.620410 TCACCACCCAATCCGGAGAT 60.620 55.000 11.34 0.00 36.56 2.75
3304 3556 1.229368 TCACCACCCAATCCGGAGA 60.229 57.895 11.34 0.00 36.56 3.71
3305 3557 1.078426 GTCACCACCCAATCCGGAG 60.078 63.158 11.34 0.00 36.56 4.63
3306 3558 2.949909 CGTCACCACCCAATCCGGA 61.950 63.158 6.61 6.61 36.56 5.14
3307 3559 2.435938 CGTCACCACCCAATCCGG 60.436 66.667 0.00 0.00 0.00 5.14
3308 3560 2.435938 CCGTCACCACCCAATCCG 60.436 66.667 0.00 0.00 0.00 4.18
3309 3561 2.750237 GCCGTCACCACCCAATCC 60.750 66.667 0.00 0.00 0.00 3.01
3310 3562 3.124921 CGCCGTCACCACCCAATC 61.125 66.667 0.00 0.00 0.00 2.67
3325 3577 4.759096 AAAACGATGCTGGCGCGC 62.759 61.111 25.94 25.94 39.65 6.86
3326 3578 2.513065 AAGAAAACGATGCTGGCGCG 62.513 55.000 0.00 0.00 39.65 6.86
3327 3579 0.794605 GAAGAAAACGATGCTGGCGC 60.795 55.000 0.00 0.00 0.00 6.53
3328 3580 0.798776 AGAAGAAAACGATGCTGGCG 59.201 50.000 0.00 0.00 0.00 5.69
3329 3581 2.226437 TCAAGAAGAAAACGATGCTGGC 59.774 45.455 0.00 0.00 0.00 4.85
3330 3582 4.214119 TCTTCAAGAAGAAAACGATGCTGG 59.786 41.667 9.93 0.00 43.79 4.85
3331 3583 5.348418 TCTTCAAGAAGAAAACGATGCTG 57.652 39.130 9.93 0.00 43.79 4.41
3339 3591 9.190210 CCAAAGGTGGTGTCTTCAAGAAGAAAA 62.190 40.741 13.64 3.64 43.17 2.29
3340 3592 7.801483 CCAAAGGTGGTGTCTTCAAGAAGAAA 61.801 42.308 13.64 6.35 43.17 2.52
3341 3593 6.381815 CCAAAGGTGGTGTCTTCAAGAAGAA 61.382 44.000 13.64 3.05 43.17 2.52
3342 3594 4.199310 CAAAGGTGGTGTCTTCAAGAAGA 58.801 43.478 8.37 8.37 44.47 2.87
3343 3595 3.316308 CCAAAGGTGGTGTCTTCAAGAAG 59.684 47.826 3.43 3.43 40.42 2.85
3344 3596 3.287222 CCAAAGGTGGTGTCTTCAAGAA 58.713 45.455 0.00 0.00 40.42 2.52
3345 3597 2.422803 CCCAAAGGTGGTGTCTTCAAGA 60.423 50.000 0.00 0.00 44.30 3.02
3346 3598 1.956477 CCCAAAGGTGGTGTCTTCAAG 59.044 52.381 0.00 0.00 44.30 3.02
3347 3599 1.566703 TCCCAAAGGTGGTGTCTTCAA 59.433 47.619 0.00 0.00 44.30 2.69
3348 3600 1.133915 GTCCCAAAGGTGGTGTCTTCA 60.134 52.381 0.00 0.00 44.30 3.02
3349 3601 1.605753 GTCCCAAAGGTGGTGTCTTC 58.394 55.000 0.00 0.00 44.30 2.87
3350 3602 0.179029 CGTCCCAAAGGTGGTGTCTT 60.179 55.000 0.00 0.00 44.30 3.01
3351 3603 1.450211 CGTCCCAAAGGTGGTGTCT 59.550 57.895 0.00 0.00 44.30 3.41
3352 3604 1.599797 CCGTCCCAAAGGTGGTGTC 60.600 63.158 0.00 0.00 44.30 3.67
3353 3605 2.513895 CCGTCCCAAAGGTGGTGT 59.486 61.111 0.00 0.00 44.30 4.16
3354 3606 2.983592 GCCGTCCCAAAGGTGGTG 60.984 66.667 0.00 0.00 44.30 4.17
3355 3607 4.636435 CGCCGTCCCAAAGGTGGT 62.636 66.667 0.00 0.00 44.30 4.16
3357 3609 4.323477 TCCGCCGTCCCAAAGGTG 62.323 66.667 0.00 0.00 37.74 4.00
3358 3610 4.016706 CTCCGCCGTCCCAAAGGT 62.017 66.667 0.00 0.00 0.00 3.50
3359 3611 4.016706 ACTCCGCCGTCCCAAAGG 62.017 66.667 0.00 0.00 0.00 3.11
3360 3612 2.742372 CACTCCGCCGTCCCAAAG 60.742 66.667 0.00 0.00 0.00 2.77
3361 3613 4.323477 CCACTCCGCCGTCCCAAA 62.323 66.667 0.00 0.00 0.00 3.28
3366 3618 4.736896 GACCACCACTCCGCCGTC 62.737 72.222 0.00 0.00 0.00 4.79
3368 3620 3.818121 TTTGACCACCACTCCGCCG 62.818 63.158 0.00 0.00 0.00 6.46
3369 3621 1.966451 CTTTGACCACCACTCCGCC 60.966 63.158 0.00 0.00 0.00 6.13
3370 3622 2.617274 GCTTTGACCACCACTCCGC 61.617 63.158 0.00 0.00 0.00 5.54
3371 3623 3.655481 GCTTTGACCACCACTCCG 58.345 61.111 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.