Multiple sequence alignment - TraesCS3B01G521600

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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 TraesCS3B01G521600 chr3B 100.000 3383 0 0 1 3383 764789255 764785873 0.000000e+00 6248.0
1 TraesCS3B01G521600 chr3B 89.000 2709 147 69 1 2620 764779884 764777238 0.000000e+00 3212.0
2 TraesCS3B01G521600 chr3B 79.481 848 97 36 766 1561 764741284 764740462 6.430000e-147 531.0
3 TraesCS3B01G521600 chr3B 83.390 584 72 15 989 1561 764699915 764699346 5.000000e-143 518.0
4 TraesCS3B01G521600 chr3B 88.614 202 16 3 2819 3014 764777222 764777022 4.360000e-59 239.0
5 TraesCS3B01G521600 chr3D 87.756 2491 148 62 235 2622 575094363 575096799 0.000000e+00 2765.0
6 TraesCS3B01G521600 chr3D 79.748 1590 185 82 883 2422 575123306 575124808 0.000000e+00 1026.0
7 TraesCS3B01G521600 chr3D 86.500 400 41 7 2995 3381 575110583 575110982 8.670000e-116 427.0
8 TraesCS3B01G521600 chr3D 92.500 200 12 2 2804 3003 575096790 575096986 1.990000e-72 283.0
9 TraesCS3B01G521600 chr3D 81.126 302 31 7 3101 3383 539486088 539485794 5.680000e-53 219.0
10 TraesCS3B01G521600 chr3A 90.485 1093 72 8 1558 2622 710333371 710332283 0.000000e+00 1413.0
11 TraesCS3B01G521600 chr3A 90.494 1094 71 9 1558 2622 710385040 710383951 0.000000e+00 1413.0
12 TraesCS3B01G521600 chr3A 82.523 1625 127 72 2 1560 710334935 710333402 0.000000e+00 1282.0
13 TraesCS3B01G521600 chr3A 91.083 785 37 9 1867 2622 710445476 710444696 0.000000e+00 1031.0
14 TraesCS3B01G521600 chr3A 83.096 1124 90 51 475 1560 710386132 710385071 0.000000e+00 931.0
15 TraesCS3B01G521600 chr3A 88.215 594 46 16 2811 3383 710444698 710444108 0.000000e+00 688.0
16 TraesCS3B01G521600 chr3A 88.047 594 47 16 2811 3383 710383953 710383363 0.000000e+00 682.0
17 TraesCS3B01G521600 chr3A 88.225 586 42 15 2811 3376 710332285 710331707 0.000000e+00 675.0
18 TraesCS3B01G521600 chr3A 84.342 479 48 8 1082 1560 710446535 710446084 8.610000e-121 444.0
19 TraesCS3B01G521600 chr3A 82.713 457 40 10 1066 1510 710324855 710324426 1.480000e-98 370.0
20 TraesCS3B01G521600 chr3A 80.880 523 42 19 2 496 710447023 710446531 3.210000e-95 359.0
21 TraesCS3B01G521600 chr3A 82.368 397 37 16 2 391 710387191 710386821 7.050000e-82 315.0
22 TraesCS3B01G521600 chr3A 88.095 252 30 0 1558 1809 710446053 710445802 1.970000e-77 300.0
23 TraesCS3B01G521600 chr3A 84.034 119 19 0 2 120 633846783 633846665 7.670000e-22 115.0
24 TraesCS3B01G521600 chr5B 81.494 1713 208 69 955 2622 610697983 610696335 0.000000e+00 1306.0
25 TraesCS3B01G521600 chr5B 78.415 366 53 15 3030 3380 331318097 331318451 7.350000e-52 215.0
26 TraesCS3B01G521600 chr5B 82.051 117 14 4 387 497 610698683 610698568 3.590000e-15 93.5
27 TraesCS3B01G521600 chr5B 92.063 63 3 2 811 872 610698113 610698052 1.670000e-13 87.9
28 TraesCS3B01G521600 chr5B 100.000 33 0 0 2952 2984 610696241 610696209 1.010000e-05 62.1
29 TraesCS3B01G521600 chr5D 80.774 1602 201 63 1059 2622 494476805 494475273 0.000000e+00 1153.0
30 TraesCS3B01G521600 chr5D 84.252 127 20 0 3 129 399940512 399940386 1.270000e-24 124.0
31 TraesCS3B01G521600 chr5D 94.595 74 2 1 2952 3025 494475176 494475105 2.760000e-21 113.0
32 TraesCS3B01G521600 chr5D 94.828 58 2 1 811 867 494477010 494476953 4.650000e-14 89.8
33 TraesCS3B01G521600 chr5D 80.833 120 10 5 387 497 494477820 494477705 7.780000e-12 82.4
34 TraesCS3B01G521600 chr5A 84.906 954 115 21 1602 2545 617366822 617365888 0.000000e+00 937.0
35 TraesCS3B01G521600 chr5A 82.095 525 67 11 989 1513 617367420 617366923 1.120000e-114 424.0
36 TraesCS3B01G521600 chr5A 92.473 186 12 2 2623 2806 391961767 391961582 7.200000e-67 265.0
37 TraesCS3B01G521600 chr5A 95.455 66 3 0 2952 3017 617363523 617363458 4.620000e-19 106.0
38 TraesCS3B01G521600 chr5A 84.906 106 12 3 52 153 613573614 613573509 1.660000e-18 104.0
39 TraesCS3B01G521600 chr5A 95.349 43 2 0 387 429 617368129 617368087 6.060000e-08 69.4
40 TraesCS3B01G521600 chr5A 95.349 43 2 0 387 429 617372988 617372946 6.060000e-08 69.4
41 TraesCS3B01G521600 chr7B 80.031 651 82 28 1271 1882 144285637 144284996 4.010000e-119 438.0
42 TraesCS3B01G521600 chr7D 76.263 653 65 39 812 1459 178149817 178149250 7.200000e-67 265.0
43 TraesCS3B01G521600 chr2A 88.462 182 19 2 2624 2803 313438930 313439111 5.680000e-53 219.0
44 TraesCS3B01G521600 chr2A 78.344 157 29 3 1 153 2393257 2393102 2.780000e-16 97.1
45 TraesCS3B01G521600 chr7A 87.234 188 19 4 2622 2806 167902518 167902333 3.420000e-50 209.0
46 TraesCS3B01G521600 chr1B 85.955 178 19 6 2628 2803 41589835 41589662 5.760000e-43 185.0
47 TraesCS3B01G521600 chr1B 78.808 151 26 4 1 147 95403922 95403774 2.780000e-16 97.1
48 TraesCS3B01G521600 chr4B 90.909 132 11 1 2673 2803 532763183 532763314 3.470000e-40 176.0
49 TraesCS3B01G521600 chr4B 78.981 157 25 5 2 153 599915021 599914868 2.150000e-17 100.0
50 TraesCS3B01G521600 chr4B 89.130 46 4 1 2674 2719 652908776 652908732 4.720000e-04 56.5
51 TraesCS3B01G521600 chr2D 83.962 106 15 1 74 177 632693852 632693747 2.150000e-17 100.0
52 TraesCS3B01G521600 chr2B 81.667 120 20 2 2 121 148251637 148251520 7.730000e-17 99.0
53 TraesCS3B01G521600 chr2B 80.952 126 17 6 2622 2744 758565100 758564979 3.590000e-15 93.5
54 TraesCS3B01G521600 chr6A 79.310 145 25 3 7 147 596780719 596780862 2.780000e-16 97.1


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 TraesCS3B01G521600 chr3B 764785873 764789255 3382 True 6248.000000 6248 100.000000 1 3383 1 chr3B.!!$R3 3382
1 TraesCS3B01G521600 chr3B 764777022 764779884 2862 True 1725.500000 3212 88.807000 1 3014 2 chr3B.!!$R4 3013
2 TraesCS3B01G521600 chr3B 764740462 764741284 822 True 531.000000 531 79.481000 766 1561 1 chr3B.!!$R2 795
3 TraesCS3B01G521600 chr3B 764699346 764699915 569 True 518.000000 518 83.390000 989 1561 1 chr3B.!!$R1 572
4 TraesCS3B01G521600 chr3D 575094363 575096986 2623 False 1524.000000 2765 90.128000 235 3003 2 chr3D.!!$F3 2768
5 TraesCS3B01G521600 chr3D 575123306 575124808 1502 False 1026.000000 1026 79.748000 883 2422 1 chr3D.!!$F2 1539
6 TraesCS3B01G521600 chr3A 710331707 710334935 3228 True 1123.333333 1413 87.077667 2 3376 3 chr3A.!!$R3 3374
7 TraesCS3B01G521600 chr3A 710383363 710387191 3828 True 835.250000 1413 86.001250 2 3383 4 chr3A.!!$R4 3381
8 TraesCS3B01G521600 chr3A 710444108 710447023 2915 True 564.400000 1031 86.523000 2 3383 5 chr3A.!!$R5 3381
9 TraesCS3B01G521600 chr5B 610696209 610698683 2474 True 387.375000 1306 88.902000 387 2984 4 chr5B.!!$R1 2597
10 TraesCS3B01G521600 chr5D 494475105 494477820 2715 True 359.550000 1153 87.757500 387 3025 4 chr5D.!!$R2 2638
11 TraesCS3B01G521600 chr5A 617363458 617368129 4671 True 384.100000 937 89.451250 387 3017 4 chr5A.!!$R4 2630
12 TraesCS3B01G521600 chr7B 144284996 144285637 641 True 438.000000 438 80.031000 1271 1882 1 chr7B.!!$R1 611
13 TraesCS3B01G521600 chr7D 178149250 178149817 567 True 265.000000 265 76.263000 812 1459 1 chr7D.!!$R1 647

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
952 2088 0.919981 CTTTTAGCGCGCTCTCTCTG 59.08 55.0 40.23 19.53 0.0 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2782 6521 0.109597 GCAATGCTACACACACTGGC 60.11 55.0 0.0 0.0 0.0 4.85 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
64 65 0.997226 CGTCTGTGGTGACTTCGTCG 60.997 60.000 0.00 0.00 34.95 5.12
128 129 3.185880 AGGGATAGGGTGTATATGCGT 57.814 47.619 0.00 0.00 0.00 5.24
198 200 3.167921 GCATATGTTGCCAAGCATGAA 57.832 42.857 4.29 0.00 46.15 2.57
241 243 9.118236 GTTACATTTTTCTTTCTCATGCTACAC 57.882 33.333 0.00 0.00 0.00 2.90
429 462 7.205737 TCACCGGTTTAATTTACTTTCCTTC 57.794 36.000 2.97 0.00 0.00 3.46
430 463 6.207221 TCACCGGTTTAATTTACTTTCCTTCC 59.793 38.462 2.97 0.00 0.00 3.46
431 464 6.208007 CACCGGTTTAATTTACTTTCCTTCCT 59.792 38.462 2.97 0.00 0.00 3.36
529 1194 3.165071 GGATTCATCTCCCTCTCTCTCC 58.835 54.545 0.00 0.00 0.00 3.71
594 1578 4.396478 GGTCTCTCTCTTGCCAAATTAACC 59.604 45.833 0.00 0.00 0.00 2.85
664 1664 1.452108 CTTCCTTCACCCGCCATCC 60.452 63.158 0.00 0.00 0.00 3.51
665 1665 2.196997 CTTCCTTCACCCGCCATCCA 62.197 60.000 0.00 0.00 0.00 3.41
666 1666 1.570857 TTCCTTCACCCGCCATCCAT 61.571 55.000 0.00 0.00 0.00 3.41
668 1668 1.889105 CTTCACCCGCCATCCATCG 60.889 63.158 0.00 0.00 0.00 3.84
844 1919 1.203125 CCCACTCCTCCTCTATCTCCC 60.203 61.905 0.00 0.00 0.00 4.30
859 1940 2.034687 CCCTCCACCCACAAGCAG 59.965 66.667 0.00 0.00 0.00 4.24
901 2022 0.977395 AAGCCCTAACTCTTGAGCGT 59.023 50.000 0.00 0.00 0.00 5.07
938 2074 3.211045 ACGCCAAACAGCTTCTCTTTTA 58.789 40.909 0.00 0.00 0.00 1.52
941 2077 3.814945 CCAAACAGCTTCTCTTTTAGCG 58.185 45.455 0.00 0.00 42.18 4.26
952 2088 0.919981 CTTTTAGCGCGCTCTCTCTG 59.080 55.000 40.23 19.53 0.00 3.35
953 2089 1.078759 TTTTAGCGCGCTCTCTCTGC 61.079 55.000 40.23 0.35 0.00 4.26
966 2108 1.685077 CTCTGCCCCTCTCTGCTGA 60.685 63.158 0.00 0.00 34.78 4.26
968 2110 1.047596 TCTGCCCCTCTCTGCTGATC 61.048 60.000 0.00 0.00 31.61 2.92
972 2114 1.421480 CCCCTCTCTGCTGATCATCA 58.579 55.000 0.00 0.00 0.00 3.07
1011 2157 0.111446 TTTCTTCCATGGCCGGTTCA 59.889 50.000 6.96 2.14 0.00 3.18
1012 2158 0.322456 TTCTTCCATGGCCGGTTCAG 60.322 55.000 6.96 0.00 0.00 3.02
1013 2159 1.198094 TCTTCCATGGCCGGTTCAGA 61.198 55.000 6.96 0.00 0.00 3.27
1014 2160 0.107017 CTTCCATGGCCGGTTCAGAT 60.107 55.000 6.96 0.00 0.00 2.90
1028 2177 3.006323 GGTTCAGATGATGATCGCCTAGT 59.994 47.826 0.00 0.00 37.89 2.57
1155 2325 3.117372 CGCTACTACCTCCACCCG 58.883 66.667 0.00 0.00 0.00 5.28
1284 2475 5.188434 GGGTCAATGTCAAGATCAAGATCA 58.812 41.667 12.21 0.00 40.22 2.92
1341 2532 2.021068 CTGACGGGACCATCAGCGAT 62.021 60.000 11.05 0.00 36.22 4.58
1342 2533 1.300233 GACGGGACCATCAGCGATC 60.300 63.158 0.00 0.00 0.00 3.69
1377 2574 2.049063 GACGCTTCTGCCGTCACT 60.049 61.111 8.82 0.00 40.08 3.41
1720 2992 4.373116 AAGTCCACATCGCCGCGT 62.373 61.111 13.39 0.00 0.00 6.01
1750 3028 3.726517 CGCAGCAAGACCCCGTTG 61.727 66.667 0.00 0.00 0.00 4.10
2384 3939 0.710567 GTCGACGACAAGCAGTGATG 59.289 55.000 22.66 0.00 32.09 3.07
2397 3968 1.265095 CAGTGATGGATAATGCGGCAC 59.735 52.381 4.03 0.00 0.00 5.01
2613 6352 2.371841 AGCTGGTACAAGGATGACACAA 59.628 45.455 0.00 0.00 38.70 3.33
2622 6361 0.527565 GGATGACACAATGCACACCC 59.472 55.000 0.00 0.00 0.00 4.61
2623 6362 0.168788 GATGACACAATGCACACCCG 59.831 55.000 0.00 0.00 0.00 5.28
2624 6363 0.250684 ATGACACAATGCACACCCGA 60.251 50.000 0.00 0.00 0.00 5.14
2625 6364 0.464554 TGACACAATGCACACCCGAA 60.465 50.000 0.00 0.00 0.00 4.30
2626 6365 0.881118 GACACAATGCACACCCGAAT 59.119 50.000 0.00 0.00 0.00 3.34
2627 6366 2.080693 GACACAATGCACACCCGAATA 58.919 47.619 0.00 0.00 0.00 1.75
2628 6367 2.682856 GACACAATGCACACCCGAATAT 59.317 45.455 0.00 0.00 0.00 1.28
2629 6368 3.088532 ACACAATGCACACCCGAATATT 58.911 40.909 0.00 0.00 0.00 1.28
2630 6369 3.128589 ACACAATGCACACCCGAATATTC 59.871 43.478 5.30 5.30 0.00 1.75
2631 6370 3.378112 CACAATGCACACCCGAATATTCT 59.622 43.478 13.45 0.00 0.00 2.40
2632 6371 4.574421 CACAATGCACACCCGAATATTCTA 59.426 41.667 13.45 0.00 0.00 2.10
2633 6372 5.239306 CACAATGCACACCCGAATATTCTAT 59.761 40.000 13.45 0.00 0.00 1.98
2634 6373 6.426633 CACAATGCACACCCGAATATTCTATA 59.573 38.462 13.45 0.00 0.00 1.31
2635 6374 7.119699 CACAATGCACACCCGAATATTCTATAT 59.880 37.037 13.45 0.00 0.00 0.86
2636 6375 7.334421 ACAATGCACACCCGAATATTCTATATC 59.666 37.037 13.45 0.00 0.00 1.63
2637 6376 6.353404 TGCACACCCGAATATTCTATATCA 57.647 37.500 13.45 0.91 0.00 2.15
2638 6377 6.764379 TGCACACCCGAATATTCTATATCAA 58.236 36.000 13.45 0.00 0.00 2.57
2639 6378 6.649141 TGCACACCCGAATATTCTATATCAAC 59.351 38.462 13.45 0.00 0.00 3.18
2640 6379 6.183360 GCACACCCGAATATTCTATATCAACG 60.183 42.308 13.45 0.00 0.00 4.10
2641 6380 6.310467 CACACCCGAATATTCTATATCAACGG 59.690 42.308 13.45 6.67 37.98 4.44
2642 6381 6.209986 ACACCCGAATATTCTATATCAACGGA 59.790 38.462 13.45 0.00 40.16 4.69
2643 6382 6.752351 CACCCGAATATTCTATATCAACGGAG 59.248 42.308 13.45 4.32 40.16 4.63
2645 6384 7.613022 ACCCGAATATTCTATATCAACGGAGTA 59.387 37.037 13.45 0.00 45.00 2.59
2646 6385 8.464404 CCCGAATATTCTATATCAACGGAGTAA 58.536 37.037 13.45 0.00 45.00 2.24
2652 6391 6.748333 TCTATATCAACGGAGTAATACGGG 57.252 41.667 0.00 0.00 45.00 5.28
2653 6392 4.796038 ATATCAACGGAGTAATACGGGG 57.204 45.455 0.00 0.00 45.00 5.73
2654 6393 1.113788 TCAACGGAGTAATACGGGGG 58.886 55.000 0.00 0.00 45.00 5.40
2655 6394 0.826062 CAACGGAGTAATACGGGGGT 59.174 55.000 0.00 0.00 45.00 4.95
2656 6395 1.207811 CAACGGAGTAATACGGGGGTT 59.792 52.381 0.00 0.00 45.00 4.11
2657 6396 1.571955 ACGGAGTAATACGGGGGTTT 58.428 50.000 0.00 0.00 41.94 3.27
2658 6397 1.908619 ACGGAGTAATACGGGGGTTTT 59.091 47.619 0.00 0.00 41.94 2.43
2659 6398 3.103742 ACGGAGTAATACGGGGGTTTTA 58.896 45.455 0.00 0.00 41.94 1.52
2660 6399 3.118775 ACGGAGTAATACGGGGGTTTTAC 60.119 47.826 0.00 1.08 41.94 2.01
2661 6400 3.118811 CGGAGTAATACGGGGGTTTTACA 60.119 47.826 9.22 0.00 0.00 2.41
2662 6401 4.191544 GGAGTAATACGGGGGTTTTACAC 58.808 47.826 9.22 4.36 0.00 2.90
2663 6402 3.860641 AGTAATACGGGGGTTTTACACG 58.139 45.455 9.22 0.00 0.00 4.49
2664 6403 3.513515 AGTAATACGGGGGTTTTACACGA 59.486 43.478 9.22 0.00 0.00 4.35
2665 6404 3.632643 AATACGGGGGTTTTACACGAT 57.367 42.857 0.00 0.00 0.00 3.73
2666 6405 4.751767 AATACGGGGGTTTTACACGATA 57.248 40.909 0.00 0.00 0.00 2.92
2667 6406 2.385013 ACGGGGGTTTTACACGATAC 57.615 50.000 0.00 0.00 0.00 2.24
2668 6407 1.901833 ACGGGGGTTTTACACGATACT 59.098 47.619 0.00 0.00 0.00 2.12
2669 6408 3.096092 ACGGGGGTTTTACACGATACTA 58.904 45.455 0.00 0.00 0.00 1.82
2670 6409 3.706086 ACGGGGGTTTTACACGATACTAT 59.294 43.478 0.00 0.00 0.00 2.12
2671 6410 4.202151 ACGGGGGTTTTACACGATACTATC 60.202 45.833 0.00 0.00 0.00 2.08
2686 6425 7.304919 CGATACTATCGCTAACTAATCTCCA 57.695 40.000 5.53 0.00 46.55 3.86
2687 6426 7.181418 CGATACTATCGCTAACTAATCTCCAC 58.819 42.308 5.53 0.00 46.55 4.02
2688 6427 5.708877 ACTATCGCTAACTAATCTCCACC 57.291 43.478 0.00 0.00 0.00 4.61
2689 6428 3.644884 ATCGCTAACTAATCTCCACCG 57.355 47.619 0.00 0.00 0.00 4.94
2690 6429 1.066605 TCGCTAACTAATCTCCACCGC 59.933 52.381 0.00 0.00 0.00 5.68
2691 6430 1.867166 GCTAACTAATCTCCACCGCC 58.133 55.000 0.00 0.00 0.00 6.13
2692 6431 1.540580 GCTAACTAATCTCCACCGCCC 60.541 57.143 0.00 0.00 0.00 6.13
2693 6432 1.070289 CTAACTAATCTCCACCGCCCC 59.930 57.143 0.00 0.00 0.00 5.80
2694 6433 1.632965 AACTAATCTCCACCGCCCCC 61.633 60.000 0.00 0.00 0.00 5.40
2695 6434 1.766461 CTAATCTCCACCGCCCCCT 60.766 63.158 0.00 0.00 0.00 4.79
2696 6435 2.044806 CTAATCTCCACCGCCCCCTG 62.045 65.000 0.00 0.00 0.00 4.45
2697 6436 2.539277 TAATCTCCACCGCCCCCTGA 62.539 60.000 0.00 0.00 0.00 3.86
2698 6437 3.721172 ATCTCCACCGCCCCCTGAT 62.721 63.158 0.00 0.00 0.00 2.90
2699 6438 3.411517 CTCCACCGCCCCCTGATT 61.412 66.667 0.00 0.00 0.00 2.57
2700 6439 2.938798 TCCACCGCCCCCTGATTT 60.939 61.111 0.00 0.00 0.00 2.17
2701 6440 2.037208 CCACCGCCCCCTGATTTT 59.963 61.111 0.00 0.00 0.00 1.82
2702 6441 2.052104 CCACCGCCCCCTGATTTTC 61.052 63.158 0.00 0.00 0.00 2.29
2703 6442 1.304052 CACCGCCCCCTGATTTTCA 60.304 57.895 0.00 0.00 0.00 2.69
2704 6443 0.897863 CACCGCCCCCTGATTTTCAA 60.898 55.000 0.00 0.00 0.00 2.69
2705 6444 0.611896 ACCGCCCCCTGATTTTCAAG 60.612 55.000 0.00 0.00 0.00 3.02
2706 6445 1.322538 CCGCCCCCTGATTTTCAAGG 61.323 60.000 0.00 0.00 0.00 3.61
2707 6446 1.322538 CGCCCCCTGATTTTCAAGGG 61.323 60.000 4.45 4.45 45.76 3.95
2712 6451 2.391678 CCCTGATTTTCAAGGGGATGG 58.608 52.381 0.00 0.00 34.67 3.51
2713 6452 2.391678 CCTGATTTTCAAGGGGATGGG 58.608 52.381 0.00 0.00 0.00 4.00
2714 6453 1.758862 CTGATTTTCAAGGGGATGGGC 59.241 52.381 0.00 0.00 0.00 5.36
2715 6454 1.123077 GATTTTCAAGGGGATGGGCC 58.877 55.000 0.00 0.00 0.00 5.80
2725 6464 3.584403 GATGGGCCCCTCATCCCC 61.584 72.222 22.27 0.00 41.92 4.81
2726 6465 4.143266 ATGGGCCCCTCATCCCCT 62.143 66.667 22.27 0.00 41.92 4.79
2727 6466 3.700943 ATGGGCCCCTCATCCCCTT 62.701 63.158 22.27 0.00 41.92 3.95
2728 6467 3.029981 GGGCCCCTCATCCCCTTT 61.030 66.667 12.23 0.00 36.50 3.11
2729 6468 2.636617 GGGCCCCTCATCCCCTTTT 61.637 63.158 12.23 0.00 36.50 2.27
2730 6469 1.075970 GGCCCCTCATCCCCTTTTC 60.076 63.158 0.00 0.00 0.00 2.29
2731 6470 1.584717 GGCCCCTCATCCCCTTTTCT 61.585 60.000 0.00 0.00 0.00 2.52
2732 6471 0.336392 GCCCCTCATCCCCTTTTCTT 59.664 55.000 0.00 0.00 0.00 2.52
2733 6472 1.686428 GCCCCTCATCCCCTTTTCTTC 60.686 57.143 0.00 0.00 0.00 2.87
2734 6473 1.063642 CCCCTCATCCCCTTTTCTTCC 60.064 57.143 0.00 0.00 0.00 3.46
2735 6474 1.640670 CCCTCATCCCCTTTTCTTCCA 59.359 52.381 0.00 0.00 0.00 3.53
2736 6475 2.042979 CCCTCATCCCCTTTTCTTCCAA 59.957 50.000 0.00 0.00 0.00 3.53
2737 6476 3.310141 CCCTCATCCCCTTTTCTTCCAAT 60.310 47.826 0.00 0.00 0.00 3.16
2738 6477 3.956848 CCTCATCCCCTTTTCTTCCAATC 59.043 47.826 0.00 0.00 0.00 2.67
2739 6478 4.570505 CCTCATCCCCTTTTCTTCCAATCA 60.571 45.833 0.00 0.00 0.00 2.57
2740 6479 4.603131 TCATCCCCTTTTCTTCCAATCAG 58.397 43.478 0.00 0.00 0.00 2.90
2741 6480 4.044571 TCATCCCCTTTTCTTCCAATCAGT 59.955 41.667 0.00 0.00 0.00 3.41
2742 6481 4.469469 TCCCCTTTTCTTCCAATCAGTT 57.531 40.909 0.00 0.00 0.00 3.16
2743 6482 4.814967 TCCCCTTTTCTTCCAATCAGTTT 58.185 39.130 0.00 0.00 0.00 2.66
2744 6483 5.959512 TCCCCTTTTCTTCCAATCAGTTTA 58.040 37.500 0.00 0.00 0.00 2.01
2745 6484 6.561294 TCCCCTTTTCTTCCAATCAGTTTAT 58.439 36.000 0.00 0.00 0.00 1.40
2746 6485 7.016296 TCCCCTTTTCTTCCAATCAGTTTATT 58.984 34.615 0.00 0.00 0.00 1.40
2747 6486 7.178451 TCCCCTTTTCTTCCAATCAGTTTATTC 59.822 37.037 0.00 0.00 0.00 1.75
2748 6487 7.323420 CCCTTTTCTTCCAATCAGTTTATTCC 58.677 38.462 0.00 0.00 0.00 3.01
2749 6488 7.039082 CCCTTTTCTTCCAATCAGTTTATTCCA 60.039 37.037 0.00 0.00 0.00 3.53
2750 6489 8.031277 CCTTTTCTTCCAATCAGTTTATTCCAG 58.969 37.037 0.00 0.00 0.00 3.86
2751 6490 6.515272 TTCTTCCAATCAGTTTATTCCAGC 57.485 37.500 0.00 0.00 0.00 4.85
2752 6491 5.819991 TCTTCCAATCAGTTTATTCCAGCT 58.180 37.500 0.00 0.00 0.00 4.24
2753 6492 6.957631 TCTTCCAATCAGTTTATTCCAGCTA 58.042 36.000 0.00 0.00 0.00 3.32
2754 6493 7.402054 TCTTCCAATCAGTTTATTCCAGCTAA 58.598 34.615 0.00 0.00 0.00 3.09
2755 6494 7.554118 TCTTCCAATCAGTTTATTCCAGCTAAG 59.446 37.037 0.00 0.00 0.00 2.18
2756 6495 5.590259 TCCAATCAGTTTATTCCAGCTAAGC 59.410 40.000 0.00 0.00 0.00 3.09
2757 6496 5.357878 CCAATCAGTTTATTCCAGCTAAGCA 59.642 40.000 0.00 0.00 0.00 3.91
2758 6497 6.040166 CCAATCAGTTTATTCCAGCTAAGCAT 59.960 38.462 0.00 0.00 0.00 3.79
2759 6498 6.874288 ATCAGTTTATTCCAGCTAAGCATC 57.126 37.500 0.00 0.00 0.00 3.91
2760 6499 5.126067 TCAGTTTATTCCAGCTAAGCATCC 58.874 41.667 0.00 0.00 0.00 3.51
2761 6500 5.104360 TCAGTTTATTCCAGCTAAGCATCCT 60.104 40.000 0.00 0.00 0.00 3.24
2762 6501 5.238214 CAGTTTATTCCAGCTAAGCATCCTC 59.762 44.000 0.00 0.00 0.00 3.71
2763 6502 2.540265 ATTCCAGCTAAGCATCCTCG 57.460 50.000 0.00 0.00 0.00 4.63
2764 6503 1.195115 TTCCAGCTAAGCATCCTCGT 58.805 50.000 0.00 0.00 0.00 4.18
2765 6504 2.067365 TCCAGCTAAGCATCCTCGTA 57.933 50.000 0.00 0.00 0.00 3.43
2766 6505 2.384828 TCCAGCTAAGCATCCTCGTAA 58.615 47.619 0.00 0.00 0.00 3.18
2767 6506 2.965831 TCCAGCTAAGCATCCTCGTAAT 59.034 45.455 0.00 0.00 0.00 1.89
2768 6507 3.388024 TCCAGCTAAGCATCCTCGTAATT 59.612 43.478 0.00 0.00 0.00 1.40
2769 6508 3.743396 CCAGCTAAGCATCCTCGTAATTC 59.257 47.826 0.00 0.00 0.00 2.17
2770 6509 4.502259 CCAGCTAAGCATCCTCGTAATTCT 60.502 45.833 0.00 0.00 0.00 2.40
2771 6510 4.683781 CAGCTAAGCATCCTCGTAATTCTC 59.316 45.833 0.00 0.00 0.00 2.87
2772 6511 4.586841 AGCTAAGCATCCTCGTAATTCTCT 59.413 41.667 0.00 0.00 0.00 3.10
2773 6512 4.683781 GCTAAGCATCCTCGTAATTCTCTG 59.316 45.833 0.00 0.00 0.00 3.35
2774 6513 4.744795 AAGCATCCTCGTAATTCTCTGT 57.255 40.909 0.00 0.00 0.00 3.41
2775 6514 5.854010 AAGCATCCTCGTAATTCTCTGTA 57.146 39.130 0.00 0.00 0.00 2.74
2776 6515 5.854010 AGCATCCTCGTAATTCTCTGTAA 57.146 39.130 0.00 0.00 0.00 2.41
2777 6516 6.222038 AGCATCCTCGTAATTCTCTGTAAA 57.778 37.500 0.00 0.00 0.00 2.01
2778 6517 6.640518 AGCATCCTCGTAATTCTCTGTAAAA 58.359 36.000 0.00 0.00 0.00 1.52
2779 6518 7.103641 AGCATCCTCGTAATTCTCTGTAAAAA 58.896 34.615 0.00 0.00 0.00 1.94
2796 6535 0.661020 AAAACGCCAGTGTGTGTAGC 59.339 50.000 0.00 0.00 34.84 3.58
2797 6536 0.462937 AAACGCCAGTGTGTGTAGCA 60.463 50.000 0.00 0.00 34.84 3.49
2798 6537 0.250295 AACGCCAGTGTGTGTAGCAT 60.250 50.000 0.00 0.00 34.84 3.79
2799 6538 0.250295 ACGCCAGTGTGTGTAGCATT 60.250 50.000 0.00 0.00 32.92 3.56
2800 6539 0.166597 CGCCAGTGTGTGTAGCATTG 59.833 55.000 0.00 0.00 0.00 2.82
2801 6540 0.109597 GCCAGTGTGTGTAGCATTGC 60.110 55.000 0.00 0.00 0.00 3.56
2802 6541 1.527034 CCAGTGTGTGTAGCATTGCT 58.473 50.000 16.63 16.63 43.41 3.91
2803 6542 2.698803 CCAGTGTGTGTAGCATTGCTA 58.301 47.619 14.33 14.33 40.44 3.49
2824 6571 0.323302 TGGATACCACACACACGCAT 59.677 50.000 0.00 0.00 0.00 4.73
2825 6572 0.726827 GGATACCACACACACGCATG 59.273 55.000 0.00 0.00 0.00 4.06
2841 6588 2.419673 CGCATGTTAACCTTGATCAGCA 59.580 45.455 2.48 0.00 0.00 4.41
2922 6744 5.107182 CGTAAGAGAAGTACAGAACTCACGA 60.107 44.000 0.00 0.00 37.05 4.35
2929 6751 7.827701 AGAAGTACAGAACTCACGATTGATTA 58.172 34.615 0.00 0.00 37.50 1.75
2931 6753 9.731819 GAAGTACAGAACTCACGATTGATTATA 57.268 33.333 0.00 0.00 37.50 0.98
3084 6914 6.183309 AGAGAATCCAGTACAAAATTTCGC 57.817 37.500 0.00 0.00 33.66 4.70
3088 6918 4.742438 TCCAGTACAAAATTTCGCAGTC 57.258 40.909 0.00 0.00 0.00 3.51
3108 6938 5.581874 CAGTCCAAACATTTTCTGCACTTTT 59.418 36.000 0.00 0.00 0.00 2.27
3121 6951 2.696187 TGCACTTTTCAAAAGTACCCCC 59.304 45.455 15.27 3.22 0.00 5.40
3125 6960 2.752075 TTTCAAAAGTACCCCCGGTT 57.248 45.000 0.00 0.00 37.09 4.44
3146 6981 1.381056 AGAGGGCTCTCTCGTGCAT 60.381 57.895 11.38 0.00 46.79 3.96
3156 6991 3.089284 TCTCTCGTGCATGTTTCCTCTA 58.911 45.455 5.68 0.00 0.00 2.43
3174 7010 2.023015 TCTATTCCCCCTCTCTCTTGCA 60.023 50.000 0.00 0.00 0.00 4.08
3193 7029 1.045911 ATCGCCTTCCACCTCCTCTC 61.046 60.000 0.00 0.00 0.00 3.20
3200 7036 2.750657 CCACCTCCTCTCCCCATGC 61.751 68.421 0.00 0.00 0.00 4.06
3238 7074 3.111939 CGCCGTCGATCTCCTCTT 58.888 61.111 0.00 0.00 38.10 2.85
3239 7075 1.298713 CGCCGTCGATCTCCTCTTG 60.299 63.158 0.00 0.00 38.10 3.02
3240 7076 1.715862 CGCCGTCGATCTCCTCTTGA 61.716 60.000 0.00 0.00 38.10 3.02
3280 7132 3.797353 CCTCCATCACCACCCCCG 61.797 72.222 0.00 0.00 0.00 5.73
3318 7171 4.390556 AGACGGAGGAGCCCTGCT 62.391 66.667 10.23 0.00 39.93 4.24
3376 7229 3.449227 CGCCACAGGGTCTCGCTA 61.449 66.667 0.00 0.00 36.17 4.26
3380 7233 2.760385 ACAGGGTCTCGCTAGGGC 60.760 66.667 1.02 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 4.060900 AGCCGACACATCATGTTCATATC 58.939 43.478 0.00 0.00 43.56 1.63
198 200 2.951229 AACAAAGTCCCCGAGAACAT 57.049 45.000 0.00 0.00 0.00 2.71
241 243 3.559655 TCGATGCATTCCTAACAAATCGG 59.440 43.478 0.00 0.00 36.86 4.18
308 313 4.284829 TGGATGTCACTTGAGCATTACA 57.715 40.909 0.00 0.00 0.00 2.41
429 462 8.567285 ACAAGATATTTAAGTGGAGTCAAAGG 57.433 34.615 0.00 0.00 0.00 3.11
430 463 9.831737 CAACAAGATATTTAAGTGGAGTCAAAG 57.168 33.333 0.00 0.00 0.00 2.77
431 464 8.792633 CCAACAAGATATTTAAGTGGAGTCAAA 58.207 33.333 0.00 0.00 0.00 2.69
529 1194 0.515127 TAATTTCACAGCGTGCCACG 59.485 50.000 13.95 13.95 45.88 4.94
594 1578 1.745653 GGAAAAAGGGATTCTCCTGCG 59.254 52.381 0.00 0.00 37.20 5.18
844 1919 1.673665 GCTCTGCTTGTGGGTGGAG 60.674 63.158 0.00 0.00 0.00 3.86
859 1940 3.088500 CTTTGGCTACGCTGCGCTC 62.089 63.158 23.51 10.96 0.00 5.03
941 2077 4.219999 GAGGGGCAGAGAGAGCGC 62.220 72.222 0.00 0.00 43.37 5.92
952 2088 0.035176 GATGATCAGCAGAGAGGGGC 59.965 60.000 5.98 0.00 0.00 5.80
953 2089 1.421480 TGATGATCAGCAGAGAGGGG 58.579 55.000 10.16 0.00 0.00 4.79
955 2091 2.802415 CGGTTGATGATCAGCAGAGAGG 60.802 54.545 14.16 0.00 28.47 3.69
994 2140 1.198094 TCTGAACCGGCCATGGAAGA 61.198 55.000 18.40 3.00 0.00 2.87
1011 2157 2.824936 CTGGACTAGGCGATCATCATCT 59.175 50.000 0.00 0.00 0.00 2.90
1012 2158 2.560542 ACTGGACTAGGCGATCATCATC 59.439 50.000 0.00 0.00 0.00 2.92
1013 2159 2.560542 GACTGGACTAGGCGATCATCAT 59.439 50.000 0.00 0.00 0.00 2.45
1014 2160 1.957177 GACTGGACTAGGCGATCATCA 59.043 52.381 0.00 0.00 0.00 3.07
1176 2346 2.040464 ATCATCCCCTGGCGGTCT 60.040 61.111 0.00 0.00 0.00 3.85
1217 2393 2.283966 CCTCCAGGACAGGGTCGT 60.284 66.667 0.00 0.00 37.39 4.34
1268 2450 5.624509 CGGGTAGTTGATCTTGATCTTGACA 60.625 44.000 11.31 0.00 0.00 3.58
1284 2475 3.752339 GACGACGCCCGGGTAGTT 61.752 66.667 24.63 8.74 43.93 2.24
1356 2553 3.612371 GACGGCAGAAGCGTCGACT 62.612 63.158 14.70 0.00 43.41 4.18
1358 2555 3.666253 TGACGGCAGAAGCGTCGA 61.666 61.111 0.00 0.00 42.83 4.20
1366 2563 0.037697 AATAACGCAGTGACGGCAGA 60.038 50.000 8.65 0.00 45.00 4.26
1377 2574 2.124901 CAGGCCGGGAATAACGCA 60.125 61.111 2.18 0.00 0.00 5.24
1591 2863 4.410743 GTTGCTGCTTCTGCCGCC 62.411 66.667 0.00 0.00 46.60 6.13
2148 3694 2.757077 GGCTTGCCCTGGTAGTGT 59.243 61.111 0.00 0.00 0.00 3.55
2384 3939 2.080286 ATACTCGTGCCGCATTATCC 57.920 50.000 0.00 0.00 0.00 2.59
2490 4091 7.812309 TTATCACACAACTTTAGACATCTCG 57.188 36.000 0.00 0.00 0.00 4.04
2613 6352 6.946340 TGATATAGAATATTCGGGTGTGCAT 58.054 36.000 9.78 0.00 0.00 3.96
2626 6365 8.896744 CCCGTATTACTCCGTTGATATAGAATA 58.103 37.037 0.00 0.00 0.00 1.75
2627 6366 7.147949 CCCCGTATTACTCCGTTGATATAGAAT 60.148 40.741 0.00 0.00 0.00 2.40
2628 6367 6.151648 CCCCGTATTACTCCGTTGATATAGAA 59.848 42.308 0.00 0.00 0.00 2.10
2629 6368 5.649395 CCCCGTATTACTCCGTTGATATAGA 59.351 44.000 0.00 0.00 0.00 1.98
2630 6369 5.163581 CCCCCGTATTACTCCGTTGATATAG 60.164 48.000 0.00 0.00 0.00 1.31
2631 6370 4.706476 CCCCCGTATTACTCCGTTGATATA 59.294 45.833 0.00 0.00 0.00 0.86
2632 6371 3.512724 CCCCCGTATTACTCCGTTGATAT 59.487 47.826 0.00 0.00 0.00 1.63
2633 6372 2.892852 CCCCCGTATTACTCCGTTGATA 59.107 50.000 0.00 0.00 0.00 2.15
2634 6373 1.690352 CCCCCGTATTACTCCGTTGAT 59.310 52.381 0.00 0.00 0.00 2.57
2635 6374 1.113788 CCCCCGTATTACTCCGTTGA 58.886 55.000 0.00 0.00 0.00 3.18
2636 6375 0.826062 ACCCCCGTATTACTCCGTTG 59.174 55.000 0.00 0.00 0.00 4.10
2637 6376 1.571955 AACCCCCGTATTACTCCGTT 58.428 50.000 0.00 0.00 0.00 4.44
2638 6377 1.571955 AAACCCCCGTATTACTCCGT 58.428 50.000 0.00 0.00 0.00 4.69
2639 6378 2.696989 AAAACCCCCGTATTACTCCG 57.303 50.000 0.00 0.00 0.00 4.63
2640 6379 4.191544 GTGTAAAACCCCCGTATTACTCC 58.808 47.826 0.00 0.00 31.24 3.85
2641 6380 3.865164 CGTGTAAAACCCCCGTATTACTC 59.135 47.826 0.00 0.00 31.24 2.59
2642 6381 3.513515 TCGTGTAAAACCCCCGTATTACT 59.486 43.478 0.00 0.00 31.24 2.24
2643 6382 3.855858 TCGTGTAAAACCCCCGTATTAC 58.144 45.455 0.00 0.00 0.00 1.89
2644 6383 4.751767 ATCGTGTAAAACCCCCGTATTA 57.248 40.909 0.00 0.00 0.00 0.98
2645 6384 3.632643 ATCGTGTAAAACCCCCGTATT 57.367 42.857 0.00 0.00 0.00 1.89
2646 6385 3.706086 AGTATCGTGTAAAACCCCCGTAT 59.294 43.478 0.00 0.00 0.00 3.06
2647 6386 3.096092 AGTATCGTGTAAAACCCCCGTA 58.904 45.455 0.00 0.00 0.00 4.02
2648 6387 1.901833 AGTATCGTGTAAAACCCCCGT 59.098 47.619 0.00 0.00 0.00 5.28
2649 6388 2.678471 AGTATCGTGTAAAACCCCCG 57.322 50.000 0.00 0.00 0.00 5.73
2663 6402 7.474190 GGTGGAGATTAGTTAGCGATAGTATC 58.526 42.308 0.00 0.00 39.35 2.24
2664 6403 6.093771 CGGTGGAGATTAGTTAGCGATAGTAT 59.906 42.308 0.00 0.00 34.56 2.12
2665 6404 5.410746 CGGTGGAGATTAGTTAGCGATAGTA 59.589 44.000 0.00 0.00 34.56 1.82
2666 6405 4.215827 CGGTGGAGATTAGTTAGCGATAGT 59.784 45.833 0.00 0.00 34.56 2.12
2667 6406 4.724303 CGGTGGAGATTAGTTAGCGATAG 58.276 47.826 0.00 0.00 34.56 2.08
2668 6407 3.057736 GCGGTGGAGATTAGTTAGCGATA 60.058 47.826 0.00 0.00 34.56 2.92
2669 6408 2.288273 GCGGTGGAGATTAGTTAGCGAT 60.288 50.000 0.00 0.00 34.56 4.58
2670 6409 1.066605 GCGGTGGAGATTAGTTAGCGA 59.933 52.381 0.00 0.00 34.56 4.93
2671 6410 1.488527 GCGGTGGAGATTAGTTAGCG 58.511 55.000 0.00 0.00 35.60 4.26
2672 6411 1.540580 GGGCGGTGGAGATTAGTTAGC 60.541 57.143 0.00 0.00 0.00 3.09
2673 6412 1.070289 GGGGCGGTGGAGATTAGTTAG 59.930 57.143 0.00 0.00 0.00 2.34
2674 6413 1.125633 GGGGCGGTGGAGATTAGTTA 58.874 55.000 0.00 0.00 0.00 2.24
2675 6414 1.632965 GGGGGCGGTGGAGATTAGTT 61.633 60.000 0.00 0.00 0.00 2.24
2676 6415 2.070650 GGGGGCGGTGGAGATTAGT 61.071 63.158 0.00 0.00 0.00 2.24
2677 6416 1.766461 AGGGGGCGGTGGAGATTAG 60.766 63.158 0.00 0.00 0.00 1.73
2678 6417 2.070039 CAGGGGGCGGTGGAGATTA 61.070 63.158 0.00 0.00 0.00 1.75
2679 6418 3.411517 CAGGGGGCGGTGGAGATT 61.412 66.667 0.00 0.00 0.00 2.40
2680 6419 3.721172 ATCAGGGGGCGGTGGAGAT 62.721 63.158 0.00 0.00 0.00 2.75
2681 6420 3.943137 AATCAGGGGGCGGTGGAGA 62.943 63.158 0.00 0.00 0.00 3.71
2682 6421 2.499303 AAAATCAGGGGGCGGTGGAG 62.499 60.000 0.00 0.00 0.00 3.86
2683 6422 2.493273 GAAAATCAGGGGGCGGTGGA 62.493 60.000 0.00 0.00 0.00 4.02
2684 6423 2.037208 AAAATCAGGGGGCGGTGG 59.963 61.111 0.00 0.00 0.00 4.61
2685 6424 0.897863 TTGAAAATCAGGGGGCGGTG 60.898 55.000 0.00 0.00 0.00 4.94
2686 6425 0.611896 CTTGAAAATCAGGGGGCGGT 60.612 55.000 0.00 0.00 0.00 5.68
2687 6426 1.322538 CCTTGAAAATCAGGGGGCGG 61.323 60.000 0.81 0.00 39.69 6.13
2688 6427 2.192605 CCTTGAAAATCAGGGGGCG 58.807 57.895 0.81 0.00 39.69 6.13
2692 6431 2.391678 CCATCCCCTTGAAAATCAGGG 58.608 52.381 1.75 1.75 42.66 4.45
2693 6432 2.391678 CCCATCCCCTTGAAAATCAGG 58.608 52.381 0.00 0.00 0.00 3.86
2694 6433 1.758862 GCCCATCCCCTTGAAAATCAG 59.241 52.381 0.00 0.00 0.00 2.90
2695 6434 1.622173 GGCCCATCCCCTTGAAAATCA 60.622 52.381 0.00 0.00 0.00 2.57
2696 6435 1.123077 GGCCCATCCCCTTGAAAATC 58.877 55.000 0.00 0.00 0.00 2.17
2697 6436 3.322501 GGCCCATCCCCTTGAAAAT 57.677 52.632 0.00 0.00 0.00 1.82
2698 6437 4.885709 GGCCCATCCCCTTGAAAA 57.114 55.556 0.00 0.00 0.00 2.29
2708 6447 3.584403 GGGGATGAGGGGCCCATC 61.584 72.222 29.79 29.79 46.57 3.51
2709 6448 3.700943 AAGGGGATGAGGGGCCCAT 62.701 63.158 27.72 19.67 46.57 4.00
2710 6449 3.928172 AAAGGGGATGAGGGGCCCA 62.928 63.158 27.72 4.83 46.57 5.36
2711 6450 2.589610 GAAAAGGGGATGAGGGGCCC 62.590 65.000 17.12 17.12 43.91 5.80
2712 6451 1.075970 GAAAAGGGGATGAGGGGCC 60.076 63.158 0.00 0.00 0.00 5.80
2713 6452 0.336392 AAGAAAAGGGGATGAGGGGC 59.664 55.000 0.00 0.00 0.00 5.80
2714 6453 1.063642 GGAAGAAAAGGGGATGAGGGG 60.064 57.143 0.00 0.00 0.00 4.79
2715 6454 1.640670 TGGAAGAAAAGGGGATGAGGG 59.359 52.381 0.00 0.00 0.00 4.30
2716 6455 3.456380 TTGGAAGAAAAGGGGATGAGG 57.544 47.619 0.00 0.00 0.00 3.86
2717 6456 4.603131 TGATTGGAAGAAAAGGGGATGAG 58.397 43.478 0.00 0.00 0.00 2.90
2718 6457 4.044571 ACTGATTGGAAGAAAAGGGGATGA 59.955 41.667 0.00 0.00 0.00 2.92
2719 6458 4.347607 ACTGATTGGAAGAAAAGGGGATG 58.652 43.478 0.00 0.00 0.00 3.51
2720 6459 4.682021 ACTGATTGGAAGAAAAGGGGAT 57.318 40.909 0.00 0.00 0.00 3.85
2721 6460 4.469469 AACTGATTGGAAGAAAAGGGGA 57.531 40.909 0.00 0.00 0.00 4.81
2722 6461 6.857437 ATAAACTGATTGGAAGAAAAGGGG 57.143 37.500 0.00 0.00 0.00 4.79
2723 6462 7.039082 TGGAATAAACTGATTGGAAGAAAAGGG 60.039 37.037 0.00 0.00 0.00 3.95
2724 6463 7.895759 TGGAATAAACTGATTGGAAGAAAAGG 58.104 34.615 0.00 0.00 0.00 3.11
2725 6464 7.543520 GCTGGAATAAACTGATTGGAAGAAAAG 59.456 37.037 0.00 0.00 0.00 2.27
2726 6465 7.233348 AGCTGGAATAAACTGATTGGAAGAAAA 59.767 33.333 0.00 0.00 0.00 2.29
2727 6466 6.721208 AGCTGGAATAAACTGATTGGAAGAAA 59.279 34.615 0.00 0.00 0.00 2.52
2728 6467 6.248433 AGCTGGAATAAACTGATTGGAAGAA 58.752 36.000 0.00 0.00 0.00 2.52
2729 6468 5.819991 AGCTGGAATAAACTGATTGGAAGA 58.180 37.500 0.00 0.00 0.00 2.87
2730 6469 7.630242 TTAGCTGGAATAAACTGATTGGAAG 57.370 36.000 0.00 0.00 0.00 3.46
2731 6470 6.095440 GCTTAGCTGGAATAAACTGATTGGAA 59.905 38.462 0.00 0.00 0.00 3.53
2732 6471 5.590259 GCTTAGCTGGAATAAACTGATTGGA 59.410 40.000 0.00 0.00 0.00 3.53
2733 6472 5.357878 TGCTTAGCTGGAATAAACTGATTGG 59.642 40.000 5.60 0.00 0.00 3.16
2734 6473 6.441093 TGCTTAGCTGGAATAAACTGATTG 57.559 37.500 5.60 0.00 0.00 2.67
2735 6474 6.264067 GGATGCTTAGCTGGAATAAACTGATT 59.736 38.462 5.60 0.00 0.00 2.57
2736 6475 5.767168 GGATGCTTAGCTGGAATAAACTGAT 59.233 40.000 5.60 0.00 0.00 2.90
2737 6476 5.104360 AGGATGCTTAGCTGGAATAAACTGA 60.104 40.000 5.60 0.00 0.00 3.41
2738 6477 5.128919 AGGATGCTTAGCTGGAATAAACTG 58.871 41.667 5.60 0.00 0.00 3.16
2739 6478 5.372373 GAGGATGCTTAGCTGGAATAAACT 58.628 41.667 5.60 0.00 0.00 2.66
2740 6479 4.212214 CGAGGATGCTTAGCTGGAATAAAC 59.788 45.833 5.60 0.00 0.00 2.01
2741 6480 4.141711 ACGAGGATGCTTAGCTGGAATAAA 60.142 41.667 5.60 0.00 0.00 1.40
2742 6481 3.388024 ACGAGGATGCTTAGCTGGAATAA 59.612 43.478 5.60 0.00 0.00 1.40
2743 6482 2.965831 ACGAGGATGCTTAGCTGGAATA 59.034 45.455 5.60 0.00 0.00 1.75
2744 6483 1.765314 ACGAGGATGCTTAGCTGGAAT 59.235 47.619 5.60 0.00 0.00 3.01
2745 6484 1.195115 ACGAGGATGCTTAGCTGGAA 58.805 50.000 5.60 0.00 0.00 3.53
2746 6485 2.067365 TACGAGGATGCTTAGCTGGA 57.933 50.000 5.60 0.00 0.00 3.86
2747 6486 2.890808 TTACGAGGATGCTTAGCTGG 57.109 50.000 5.60 0.00 0.00 4.85
2748 6487 4.626042 AGAATTACGAGGATGCTTAGCTG 58.374 43.478 5.60 0.00 0.00 4.24
2749 6488 4.586841 AGAGAATTACGAGGATGCTTAGCT 59.413 41.667 5.60 0.00 0.00 3.32
2750 6489 4.683781 CAGAGAATTACGAGGATGCTTAGC 59.316 45.833 0.00 0.00 0.00 3.09
2751 6490 5.837437 ACAGAGAATTACGAGGATGCTTAG 58.163 41.667 0.00 0.00 0.00 2.18
2752 6491 5.854010 ACAGAGAATTACGAGGATGCTTA 57.146 39.130 0.00 0.00 0.00 3.09
2753 6492 4.744795 ACAGAGAATTACGAGGATGCTT 57.255 40.909 0.00 0.00 0.00 3.91
2754 6493 5.854010 TTACAGAGAATTACGAGGATGCT 57.146 39.130 0.00 0.00 0.00 3.79
2755 6494 6.903883 TTTTACAGAGAATTACGAGGATGC 57.096 37.500 0.00 0.00 0.00 3.91
2776 6515 1.064952 GCTACACACACTGGCGTTTTT 59.935 47.619 0.00 0.00 0.00 1.94
2777 6516 0.661020 GCTACACACACTGGCGTTTT 59.339 50.000 0.00 0.00 0.00 2.43
2778 6517 0.462937 TGCTACACACACTGGCGTTT 60.463 50.000 0.00 0.00 0.00 3.60
2779 6518 0.250295 ATGCTACACACACTGGCGTT 60.250 50.000 0.00 0.00 0.00 4.84
2780 6519 0.250295 AATGCTACACACACTGGCGT 60.250 50.000 0.00 0.00 0.00 5.68
2781 6520 0.166597 CAATGCTACACACACTGGCG 59.833 55.000 0.00 0.00 0.00 5.69
2782 6521 0.109597 GCAATGCTACACACACTGGC 60.110 55.000 0.00 0.00 0.00 4.85
2783 6522 1.527034 AGCAATGCTACACACACTGG 58.473 50.000 5.69 0.00 36.99 4.00
2793 6532 3.709141 TGTGGTATCCAGTAGCAATGCTA 59.291 43.478 11.40 11.40 42.03 3.49
2794 6533 2.505407 TGTGGTATCCAGTAGCAATGCT 59.495 45.455 13.92 13.92 42.03 3.79
2795 6534 2.614057 GTGTGGTATCCAGTAGCAATGC 59.386 50.000 0.00 0.00 42.03 3.56
2796 6535 3.623060 GTGTGTGGTATCCAGTAGCAATG 59.377 47.826 0.00 0.00 42.03 2.82
2797 6536 3.263170 TGTGTGTGGTATCCAGTAGCAAT 59.737 43.478 0.00 0.00 42.03 3.56
2798 6537 2.635427 TGTGTGTGGTATCCAGTAGCAA 59.365 45.455 0.00 0.00 42.03 3.91
2799 6538 2.028476 GTGTGTGTGGTATCCAGTAGCA 60.028 50.000 0.00 0.00 38.41 3.49
2800 6539 2.618053 GTGTGTGTGGTATCCAGTAGC 58.382 52.381 0.00 0.00 32.34 3.58
2801 6540 2.876091 CGTGTGTGTGGTATCCAGTAG 58.124 52.381 0.00 0.00 32.34 2.57
2802 6541 1.067425 GCGTGTGTGTGGTATCCAGTA 60.067 52.381 0.00 0.00 32.34 2.74
2803 6542 0.320421 GCGTGTGTGTGGTATCCAGT 60.320 55.000 0.00 0.00 32.34 4.00
2804 6543 0.320334 TGCGTGTGTGTGGTATCCAG 60.320 55.000 0.00 0.00 32.34 3.86
2805 6544 0.323302 ATGCGTGTGTGTGGTATCCA 59.677 50.000 0.00 0.00 0.00 3.41
2806 6545 0.726827 CATGCGTGTGTGTGGTATCC 59.273 55.000 0.00 0.00 0.00 2.59
2807 6546 1.438651 ACATGCGTGTGTGTGGTATC 58.561 50.000 11.65 0.00 37.14 2.24
2808 6547 1.890876 AACATGCGTGTGTGTGGTAT 58.109 45.000 13.39 0.00 38.92 2.73
2809 6548 2.528041 TAACATGCGTGTGTGTGGTA 57.472 45.000 13.39 0.00 38.92 3.25
2810 6549 1.332375 GTTAACATGCGTGTGTGTGGT 59.668 47.619 13.39 0.00 38.92 4.16
2811 6550 1.334599 GGTTAACATGCGTGTGTGTGG 60.335 52.381 13.39 0.00 38.92 4.17
2812 6551 1.601903 AGGTTAACATGCGTGTGTGTG 59.398 47.619 13.39 0.00 38.92 3.82
2824 6571 6.041409 TCCAAAAATGCTGATCAAGGTTAACA 59.959 34.615 8.10 0.00 0.00 2.41
2825 6572 6.454795 TCCAAAAATGCTGATCAAGGTTAAC 58.545 36.000 0.00 0.00 0.00 2.01
2905 6727 6.952935 AATCAATCGTGAGTTCTGTACTTC 57.047 37.500 0.00 0.00 37.17 3.01
2939 6764 5.989777 AGTTTGAGCGTGAGTTATGTACTTT 59.010 36.000 0.00 0.00 37.17 2.66
3028 6858 7.781693 ACTTATAATACCGAACAGAGGGAGTAA 59.218 37.037 0.00 0.00 0.00 2.24
3039 6869 9.722056 TCTCTAAAACGACTTATAATACCGAAC 57.278 33.333 0.00 0.00 0.00 3.95
3084 6914 4.311816 AGTGCAGAAAATGTTTGGACTG 57.688 40.909 0.00 0.00 41.14 3.51
3088 6918 6.419980 TTGAAAAGTGCAGAAAATGTTTGG 57.580 33.333 0.00 0.00 0.00 3.28
3108 6938 0.110869 CCAACCGGGGGTACTTTTGA 59.889 55.000 6.32 0.00 33.12 2.69
3146 6981 3.014110 AGAGAGGGGGAATAGAGGAAACA 59.986 47.826 0.00 0.00 0.00 2.83
3156 6991 1.773653 GATGCAAGAGAGAGGGGGAAT 59.226 52.381 0.00 0.00 0.00 3.01
3174 7010 1.002274 AGAGGAGGTGGAAGGCGAT 59.998 57.895 0.00 0.00 0.00 4.58
3234 7070 1.666054 GCAGCAAGGAGGATCAAGAG 58.334 55.000 0.00 0.00 36.25 2.85
3238 7074 1.617536 AGGGCAGCAAGGAGGATCA 60.618 57.895 0.00 0.00 36.25 2.92
3239 7075 1.148048 GAGGGCAGCAAGGAGGATC 59.852 63.158 0.00 0.00 0.00 3.36
3240 7076 2.739996 CGAGGGCAGCAAGGAGGAT 61.740 63.158 0.00 0.00 0.00 3.24
3262 7098 4.129148 GGGGGTGGTGATGGAGGC 62.129 72.222 0.00 0.00 0.00 4.70
3294 7146 3.522731 CTCCTCCGTCTCCGCCTG 61.523 72.222 0.00 0.00 0.00 4.85
3355 7208 2.990479 GAGACCCTGTGGCGGAAT 59.010 61.111 0.00 0.00 33.59 3.01
3364 7217 3.541713 GGCCCTAGCGAGACCCTG 61.542 72.222 0.00 0.00 41.24 4.45


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

AutoCloner maintained by Alex Coulton.