Multiple sequence alignment - TraesCS2D01G440900

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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 TraesCS2D01G440900 chr2D 100.000 3512 0 0 1 3512 551210322 551213833 0.000000e+00 6486.0
1 TraesCS2D01G440900 chr2D 81.643 572 93 10 190 753 559121681 559121114 6.870000e-127 464.0
2 TraesCS2D01G440900 chr2D 83.636 275 35 6 2826 3094 645666083 645666353 2.090000e-62 250.0
3 TraesCS2D01G440900 chr2D 82.909 275 37 6 2826 3094 543288427 543288157 4.530000e-59 239.0
4 TraesCS2D01G440900 chr2D 90.604 149 14 0 3364 3512 580234459 580234311 7.690000e-47 198.0
5 TraesCS2D01G440900 chr2A 92.821 2535 157 20 829 3344 692229689 692232217 0.000000e+00 3650.0
6 TraesCS2D01G440900 chr2A 90.156 833 61 6 1 813 692210546 692211377 0.000000e+00 1064.0
7 TraesCS2D01G440900 chr2A 82.909 275 37 6 2826 3094 26932898 26933168 4.530000e-59 239.0
8 TraesCS2D01G440900 chr2A 84.772 197 15 10 976 1168 692207298 692207483 2.150000e-42 183.0
9 TraesCS2D01G440900 chr2A 84.659 176 26 1 3337 3511 777533580 777533405 1.300000e-39 174.0
10 TraesCS2D01G440900 chr2B 93.689 1933 99 16 857 2781 656511307 656513224 0.000000e+00 2872.0
11 TraesCS2D01G440900 chr2B 92.810 153 8 2 1 150 656510944 656511096 5.900000e-53 219.0
12 TraesCS2D01G440900 chr2B 83.237 173 29 0 3340 3512 693065871 693066043 3.630000e-35 159.0
13 TraesCS2D01G440900 chr2B 82.857 140 13 10 968 1102 656377815 656377948 7.970000e-22 115.0
14 TraesCS2D01G440900 chr2B 88.571 70 4 3 788 855 183313709 183313776 8.080000e-12 82.4
15 TraesCS2D01G440900 chr2B 100.000 32 0 0 3289 3320 744198126 744198095 3.790000e-05 60.2
16 TraesCS2D01G440900 chr7B 83.160 576 82 13 183 754 665287631 665287067 2.420000e-141 512.0
17 TraesCS2D01G440900 chr7A 80.717 586 101 9 175 751 518646068 518646650 2.490000e-121 446.0
18 TraesCS2D01G440900 chr7A 82.545 275 40 4 2827 3094 510900972 510901245 5.860000e-58 235.0
19 TraesCS2D01G440900 chr3D 81.559 526 90 4 213 735 142634328 142633807 9.010000e-116 427.0
20 TraesCS2D01G440900 chr3D 82.609 276 36 8 2826 3094 56362308 56362578 2.110000e-57 233.0
21 TraesCS2D01G440900 chr3D 94.737 38 2 0 3284 3321 475554026 475553989 3.790000e-05 60.2
22 TraesCS2D01G440900 chr3D 100.000 28 0 0 3294 3321 393648332 393648305 6.000000e-03 52.8
23 TraesCS2D01G440900 chr1B 80.783 562 91 7 193 753 341935431 341934886 1.170000e-114 424.0
24 TraesCS2D01G440900 chr1B 82.386 176 30 1 3337 3511 465362242 465362417 6.070000e-33 152.0
25 TraesCS2D01G440900 chr3B 82.222 495 83 5 187 678 204378169 204377677 4.190000e-114 422.0
26 TraesCS2D01G440900 chr3B 82.909 275 37 6 2826 3094 792853608 792853338 4.530000e-59 239.0
27 TraesCS2D01G440900 chr3B 83.051 177 29 1 3337 3512 732945478 732945654 3.630000e-35 159.0
28 TraesCS2D01G440900 chr3B 100.000 28 0 0 3292 3319 818938442 818938469 6.000000e-03 52.8
29 TraesCS2D01G440900 chr5D 81.928 498 75 12 200 691 472371895 472371407 1.170000e-109 407.0
30 TraesCS2D01G440900 chr5B 82.303 469 75 6 263 729 705828554 705829016 1.960000e-107 399.0
31 TraesCS2D01G440900 chr5B 81.757 148 17 3 751 896 478519924 478519785 7.970000e-22 115.0
32 TraesCS2D01G440900 chr6A 78.853 558 89 16 196 752 552582725 552583254 2.010000e-92 350.0
33 TraesCS2D01G440900 chr6A 83.051 177 27 3 3337 3511 232331237 232331062 1.310000e-34 158.0
34 TraesCS2D01G440900 chr4A 72.218 1285 275 67 1197 2440 572302359 572303602 1.570000e-83 320.0
35 TraesCS2D01G440900 chr4A 77.419 465 94 6 211 666 661590972 661590510 2.080000e-67 267.0
36 TraesCS2D01G440900 chr4A 82.909 275 37 6 2826 3094 69305824 69306094 4.530000e-59 239.0
37 TraesCS2D01G440900 chr4A 82.877 146 15 5 753 896 454761433 454761296 4.760000e-24 122.0
38 TraesCS2D01G440900 chr6B 81.390 403 61 8 350 751 610011313 610011702 2.030000e-82 316.0
39 TraesCS2D01G440900 chr4D 75.513 682 116 38 1163 1820 464234941 464235595 1.600000e-73 287.0
40 TraesCS2D01G440900 chr4D 81.944 144 16 5 753 894 63144414 63144279 2.870000e-21 113.0
41 TraesCS2D01G440900 chr4D 91.667 48 4 0 3284 3331 421524605 421524558 2.260000e-07 67.6
42 TraesCS2D01G440900 chr4B 75.403 683 117 41 1162 1820 580385065 580385720 2.060000e-72 283.0
43 TraesCS2D01G440900 chr4B 82.418 91 10 3 2357 2441 608262012 608261922 1.350000e-09 75.0
44 TraesCS2D01G440900 chr7D 83.273 275 36 6 2826 3094 162984968 162984698 9.740000e-61 244.0
45 TraesCS2D01G440900 chr7D 87.273 55 7 0 3284 3338 204115895 204115949 2.930000e-06 63.9
46 TraesCS2D01G440900 chr7D 89.583 48 5 0 3284 3331 192054791 192054838 1.050000e-05 62.1
47 TraesCS2D01G440900 chr1A 71.221 1237 234 86 1317 2488 10151110 10152289 2.140000e-47 200.0
48 TraesCS2D01G440900 chr3A 85.057 174 25 1 3337 3509 476399249 476399422 3.600000e-40 176.0
49 TraesCS2D01G440900 chr3A 82.584 178 28 3 3337 3512 495591214 495591390 1.690000e-33 154.0
50 TraesCS2D01G440900 chr1D 88.028 142 17 0 3369 3510 431920179 431920320 6.030000e-38 169.0
51 TraesCS2D01G440900 chr1D 78.534 191 29 6 2303 2481 8857595 8857785 7.970000e-22 115.0
52 TraesCS2D01G440900 chr1D 78.534 191 29 6 2303 2481 8883308 8883498 7.970000e-22 115.0
53 TraesCS2D01G440900 chr1D 78.010 191 30 6 2303 2481 8870450 8870640 3.710000e-20 110.0
54 TraesCS2D01G440900 chr5A 81.333 150 18 5 753 900 510549580 510549439 2.870000e-21 113.0


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 TraesCS2D01G440900 chr2D 551210322 551213833 3511 False 6486.0 6486 100.0000 1 3512 1 chr2D.!!$F1 3511
1 TraesCS2D01G440900 chr2D 559121114 559121681 567 True 464.0 464 81.6430 190 753 1 chr2D.!!$R2 563
2 TraesCS2D01G440900 chr2A 692229689 692232217 2528 False 3650.0 3650 92.8210 829 3344 1 chr2A.!!$F2 2515
3 TraesCS2D01G440900 chr2A 692207298 692211377 4079 False 623.5 1064 87.4640 1 1168 2 chr2A.!!$F3 1167
4 TraesCS2D01G440900 chr2B 656510944 656513224 2280 False 1545.5 2872 93.2495 1 2781 2 chr2B.!!$F4 2780
5 TraesCS2D01G440900 chr7B 665287067 665287631 564 True 512.0 512 83.1600 183 754 1 chr7B.!!$R1 571
6 TraesCS2D01G440900 chr7A 518646068 518646650 582 False 446.0 446 80.7170 175 751 1 chr7A.!!$F2 576
7 TraesCS2D01G440900 chr3D 142633807 142634328 521 True 427.0 427 81.5590 213 735 1 chr3D.!!$R1 522
8 TraesCS2D01G440900 chr1B 341934886 341935431 545 True 424.0 424 80.7830 193 753 1 chr1B.!!$R1 560
9 TraesCS2D01G440900 chr6A 552582725 552583254 529 False 350.0 350 78.8530 196 752 1 chr6A.!!$F1 556
10 TraesCS2D01G440900 chr4A 572302359 572303602 1243 False 320.0 320 72.2180 1197 2440 1 chr4A.!!$F2 1243
11 TraesCS2D01G440900 chr4D 464234941 464235595 654 False 287.0 287 75.5130 1163 1820 1 chr4D.!!$F1 657
12 TraesCS2D01G440900 chr4B 580385065 580385720 655 False 283.0 283 75.4030 1162 1820 1 chr4B.!!$F1 658

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
207 3477 0.114168 CGGAGGAGGAGGAGGATGAT 59.886 60.0 0.0 0.0 0.0 2.45 F
820 4105 0.625849 GTGGGTGACATGAGGGGATT 59.374 55.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1118 4409 0.259647 CATTGCTGGGGAGGGATTGA 59.740 55.0 0.0 0.0 0.0 2.57 R
2659 5996 0.906775 AAATCCCCATACGACACGGT 59.093 50.0 0.0 0.0 0.0 4.83 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
29 3278 0.452987 GCCATGAGCGATTGCAAGAA 59.547 50.000 7.90 0.00 46.23 2.52
58 3310 2.824489 TTGGCGTCGTTGTGGCAA 60.824 55.556 0.00 0.00 46.71 4.52
90 3342 7.883311 AGCAAGTGTGTAGGTAAATAATTCAGT 59.117 33.333 0.00 0.00 0.00 3.41
116 3368 4.416620 GACTCTTTCGTTGATCAGTCGAT 58.583 43.478 20.02 9.39 33.72 3.59
155 3419 1.643832 CTAAATTCAGCCTCGCCGC 59.356 57.895 0.00 0.00 0.00 6.53
173 3437 2.128507 CCGGGCTACCTCCTGACTC 61.129 68.421 0.00 0.00 34.34 3.36
207 3477 0.114168 CGGAGGAGGAGGAGGATGAT 59.886 60.000 0.00 0.00 0.00 2.45
292 3562 2.669133 CCGGGGTTCAGCATGGAGA 61.669 63.158 0.00 0.00 36.16 3.71
357 3627 1.377202 GCAACAGAGCATCCCGGAA 60.377 57.895 0.73 0.00 33.66 4.30
500 3774 2.743636 CGAAGGAGCCAGAACTACAA 57.256 50.000 0.00 0.00 0.00 2.41
525 3799 1.758440 GCCCATGTATCAGGAGCCGA 61.758 60.000 0.00 0.00 0.00 5.54
680 3956 3.005539 AGTGCCCGATCACTGCCT 61.006 61.111 8.41 0.00 44.88 4.75
730 4014 4.006989 TGTTTGAGGGGTCATATTTGTCG 58.993 43.478 0.00 0.00 0.00 4.35
740 4024 3.057019 TCATATTTGTCGTATGCGGCTC 58.943 45.455 9.69 0.00 44.07 4.70
742 4026 2.024176 ATTTGTCGTATGCGGCTCTT 57.976 45.000 9.69 0.00 44.07 2.85
814 4099 2.268920 CGGGGTGGGTGACATGAG 59.731 66.667 0.00 0.00 0.00 2.90
815 4100 2.677228 GGGGTGGGTGACATGAGG 59.323 66.667 0.00 0.00 0.00 3.86
816 4101 2.677228 GGGTGGGTGACATGAGGG 59.323 66.667 0.00 0.00 0.00 4.30
817 4102 2.677228 GGTGGGTGACATGAGGGG 59.323 66.667 0.00 0.00 0.00 4.79
818 4103 1.923395 GGTGGGTGACATGAGGGGA 60.923 63.158 0.00 0.00 0.00 4.81
819 4104 1.281925 GGTGGGTGACATGAGGGGAT 61.282 60.000 0.00 0.00 0.00 3.85
820 4105 0.625849 GTGGGTGACATGAGGGGATT 59.374 55.000 0.00 0.00 0.00 3.01
821 4106 0.918983 TGGGTGACATGAGGGGATTC 59.081 55.000 0.00 0.00 0.00 2.52
822 4107 0.918983 GGGTGACATGAGGGGATTCA 59.081 55.000 0.00 0.00 0.00 2.57
823 4108 1.408822 GGGTGACATGAGGGGATTCAC 60.409 57.143 0.00 0.24 36.63 3.18
824 4109 2.044123 GTGACATGAGGGGATTCACC 57.956 55.000 0.00 0.00 32.12 4.02
901 4187 3.008049 ACCGAACAAAGCCTTAGTGAGAT 59.992 43.478 0.00 0.00 0.00 2.75
920 4206 9.547279 AGTGAGATAATTAAGTGGGGAAAATTT 57.453 29.630 0.00 0.00 0.00 1.82
1047 4333 3.064820 TGTTCTTCTCCAGAAACGCAAAC 59.935 43.478 0.00 0.00 43.52 2.93
1112 4403 4.099266 CCATCTTCTTCCAAGAGAGTCGAT 59.901 45.833 0.00 0.00 36.22 3.59
1113 4404 4.974368 TCTTCTTCCAAGAGAGTCGATC 57.026 45.455 0.00 0.00 36.22 3.69
1114 4405 4.594970 TCTTCTTCCAAGAGAGTCGATCT 58.405 43.478 0.00 0.00 42.61 2.75
1115 4406 5.013547 TCTTCTTCCAAGAGAGTCGATCTT 58.986 41.667 0.00 0.00 38.84 2.40
1116 4407 4.974368 TCTTCCAAGAGAGTCGATCTTC 57.026 45.455 0.00 0.00 38.84 2.87
1118 4409 3.374042 TCCAAGAGAGTCGATCTTCCT 57.626 47.619 0.00 0.00 38.84 3.36
1119 4410 3.283751 TCCAAGAGAGTCGATCTTCCTC 58.716 50.000 0.00 0.00 38.84 3.71
1120 4411 3.020274 CCAAGAGAGTCGATCTTCCTCA 58.980 50.000 0.00 0.00 38.84 3.86
1121 4412 3.445450 CCAAGAGAGTCGATCTTCCTCAA 59.555 47.826 0.00 0.00 38.84 3.02
1122 4413 4.099266 CCAAGAGAGTCGATCTTCCTCAAT 59.901 45.833 0.00 0.00 38.84 2.57
1123 4414 5.280945 CAAGAGAGTCGATCTTCCTCAATC 58.719 45.833 0.00 0.00 38.84 2.67
1124 4415 3.888930 AGAGAGTCGATCTTCCTCAATCC 59.111 47.826 3.20 0.00 38.84 3.01
1125 4416 2.962421 AGAGTCGATCTTCCTCAATCCC 59.038 50.000 3.20 0.00 32.99 3.85
1248 4540 1.118965 TCACCTTCCTCGACCTGCAA 61.119 55.000 0.00 0.00 0.00 4.08
1497 4807 1.143838 CCTCGCATCCGACCATCAA 59.856 57.895 0.00 0.00 38.82 2.57
1679 4989 1.059584 TCCACCAGCTTCCTCCACAA 61.060 55.000 0.00 0.00 0.00 3.33
1756 5066 2.885861 GGACGCTCATCACCGAGT 59.114 61.111 0.00 0.00 35.33 4.18
1850 5163 3.449227 CCAGCTCCTCGCCACGTA 61.449 66.667 0.00 0.00 40.39 3.57
2001 5314 3.435186 GCCAAAGCAGAGACCGGC 61.435 66.667 0.00 0.00 39.53 6.13
2004 5317 1.448540 CAAAGCAGAGACCGGCGAT 60.449 57.895 9.30 0.00 38.54 4.58
2068 5381 0.462047 GGACTACCGGCAGTTGATGG 60.462 60.000 9.19 0.00 0.00 3.51
2533 5864 3.146066 TGGATTGCCAAGTTACTGTCAC 58.854 45.455 0.00 0.00 42.49 3.67
2535 5866 4.041075 TGGATTGCCAAGTTACTGTCACTA 59.959 41.667 0.00 0.00 42.49 2.74
2560 5891 2.105477 CACCATCCATGCCTAGCTACTT 59.895 50.000 0.00 0.00 0.00 2.24
2564 5900 0.536006 CCATGCCTAGCTACTTGCCC 60.536 60.000 0.00 0.00 44.23 5.36
2604 5940 3.181501 CGTGTGTTGTGGTTTGATTGAGT 60.182 43.478 0.00 0.00 0.00 3.41
2698 6035 6.147821 GGATTTTATCCTGTCGTGTCATATGG 59.852 42.308 2.13 0.00 46.19 2.74
2820 6161 6.525629 ACTGACAACTTTGCTAGTAAGTCAT 58.474 36.000 18.55 5.27 44.31 3.06
2849 6190 7.391620 TGGTTTAATCTTTCCAATCTACGACT 58.608 34.615 0.00 0.00 0.00 4.18
2852 6193 9.756461 GTTTAATCTTTCCAATCTACGACTTTC 57.244 33.333 0.00 0.00 0.00 2.62
2854 6195 7.602517 AATCTTTCCAATCTACGACTTTCTG 57.397 36.000 0.00 0.00 0.00 3.02
2855 6196 4.929808 TCTTTCCAATCTACGACTTTCTGC 59.070 41.667 0.00 0.00 0.00 4.26
2856 6197 4.537135 TTCCAATCTACGACTTTCTGCT 57.463 40.909 0.00 0.00 0.00 4.24
2857 6198 3.849911 TCCAATCTACGACTTTCTGCTG 58.150 45.455 0.00 0.00 0.00 4.41
2870 6217 0.675837 TCTGCTGATGGTTGCTGCTC 60.676 55.000 0.00 0.00 0.00 4.26
2876 6223 0.607489 GATGGTTGCTGCTCTGGTGT 60.607 55.000 0.00 0.00 0.00 4.16
2878 6225 2.641559 GTTGCTGCTCTGGTGTGC 59.358 61.111 0.00 0.00 0.00 4.57
2881 6228 2.031616 GCTGCTCTGGTGTGCTGA 59.968 61.111 0.00 0.00 34.87 4.26
2889 6236 3.464907 CTCTGGTGTGCTGATTCTATGG 58.535 50.000 0.00 0.00 0.00 2.74
2906 6254 0.172578 TGGGTCTTAGCATGACGACG 59.827 55.000 0.00 0.00 35.45 5.12
2910 6258 2.344741 GGTCTTAGCATGACGACGTTTC 59.655 50.000 0.13 0.00 35.45 2.78
2922 6270 1.974487 GACGTTTCGACTGTCTACCC 58.026 55.000 6.21 0.00 0.00 3.69
2945 6293 1.808411 TAAAGTTTGCTCGGCTCCAG 58.192 50.000 0.00 0.00 0.00 3.86
2946 6294 1.518903 AAAGTTTGCTCGGCTCCAGC 61.519 55.000 0.00 0.00 41.14 4.85
2947 6295 3.793144 GTTTGCTCGGCTCCAGCG 61.793 66.667 0.00 0.00 43.26 5.18
2949 6297 3.939837 TTTGCTCGGCTCCAGCGAG 62.940 63.158 13.00 13.00 43.26 5.03
2999 6347 1.293924 CTCGCTCCAATGCTTGTAGG 58.706 55.000 0.00 0.00 0.00 3.18
3009 6357 2.988010 TGCTTGTAGGCATCACTAGG 57.012 50.000 0.00 0.00 37.29 3.02
3011 6359 2.093500 TGCTTGTAGGCATCACTAGGTG 60.093 50.000 0.00 0.00 37.29 4.00
3016 6364 1.144057 GGCATCACTAGGTGGTCCG 59.856 63.158 0.00 0.00 39.05 4.79
3017 6365 1.521681 GCATCACTAGGTGGTCCGC 60.522 63.158 0.00 0.00 39.05 5.54
3019 6367 0.465705 CATCACTAGGTGGTCCGCAT 59.534 55.000 4.48 0.00 39.05 4.73
3022 6370 0.104304 CACTAGGTGGTCCGCATACC 59.896 60.000 4.48 0.00 40.19 2.73
3028 6376 1.024579 GTGGTCCGCATACCTGGTTG 61.025 60.000 3.84 4.66 40.44 3.77
3032 6380 2.420967 GGTCCGCATACCTGGTTGTAAT 60.421 50.000 3.84 0.00 36.53 1.89
3063 6411 4.884247 ACCTCTAGTGTTCTTTGTACTGC 58.116 43.478 0.00 0.00 0.00 4.40
3143 6491 5.107133 ACGTGGGTAAGAATGTTATTCTCG 58.893 41.667 4.68 5.77 0.00 4.04
3149 6497 5.522824 GGTAAGAATGTTATTCTCGACCACC 59.477 44.000 20.09 12.60 35.84 4.61
3155 6503 4.761975 TGTTATTCTCGACCACCAATACC 58.238 43.478 0.00 0.00 0.00 2.73
3187 6535 6.641176 TGTTGCTATATCACACAAACTACG 57.359 37.500 0.00 0.00 0.00 3.51
3197 6545 3.425525 CACACAAACTACGTACTCAGCAG 59.574 47.826 0.00 0.00 0.00 4.24
3220 6568 0.992802 GCCTTCAGCTACGTTCTTCG 59.007 55.000 0.00 0.00 41.43 3.79
3221 6569 1.630148 CCTTCAGCTACGTTCTTCGG 58.370 55.000 0.00 0.00 44.69 4.30
3282 6630 5.823045 CCAACAAACAAGAGTCTACTCCTTT 59.177 40.000 6.50 0.47 43.88 3.11
3291 6639 0.809385 TCTACTCCTTTGAGACGGCG 59.191 55.000 4.80 4.80 41.42 6.46
3296 6644 3.479269 CTTTGAGACGGCGGCGAC 61.479 66.667 38.93 31.51 0.00 5.19
3305 6653 1.586564 CGGCGGCGACTCTCTAAAG 60.587 63.158 29.19 0.00 0.00 1.85
3308 6656 1.482278 GCGGCGACTCTCTAAAGATG 58.518 55.000 12.98 0.00 0.00 2.90
3316 6664 5.923684 GCGACTCTCTAAAGATGGAATAAGG 59.076 44.000 0.00 0.00 0.00 2.69
3322 6670 9.898152 CTCTCTAAAGATGGAATAAGGTTCTTT 57.102 33.333 0.00 0.00 39.33 2.52
3323 6671 9.892130 TCTCTAAAGATGGAATAAGGTTCTTTC 57.108 33.333 0.00 0.00 37.67 2.62
3331 6679 6.900194 TGGAATAAGGTTCTTTCCATCTAGG 58.100 40.000 0.00 0.00 42.96 3.02
3334 6682 4.495690 AAGGTTCTTTCCATCTAGGCTC 57.504 45.455 0.00 0.00 37.29 4.70
3368 6716 2.589798 TCGTAAGATTTAGCCGGTGG 57.410 50.000 1.90 0.00 45.01 4.61
3369 6717 1.826720 TCGTAAGATTTAGCCGGTGGT 59.173 47.619 1.90 0.00 45.01 4.16
3370 6718 2.234414 TCGTAAGATTTAGCCGGTGGTT 59.766 45.455 1.90 0.00 45.01 3.67
3371 6719 3.004862 CGTAAGATTTAGCCGGTGGTTT 58.995 45.455 1.90 0.00 43.02 3.27
3372 6720 3.437741 CGTAAGATTTAGCCGGTGGTTTT 59.562 43.478 1.90 0.00 43.02 2.43
3373 6721 4.436451 CGTAAGATTTAGCCGGTGGTTTTC 60.436 45.833 1.90 0.00 43.02 2.29
3374 6722 3.434940 AGATTTAGCCGGTGGTTTTCT 57.565 42.857 1.90 0.00 0.00 2.52
3375 6723 3.763057 AGATTTAGCCGGTGGTTTTCTT 58.237 40.909 1.90 0.00 0.00 2.52
3376 6724 4.149598 AGATTTAGCCGGTGGTTTTCTTT 58.850 39.130 1.90 0.00 0.00 2.52
3377 6725 3.719173 TTTAGCCGGTGGTTTTCTTTG 57.281 42.857 1.90 0.00 0.00 2.77
3378 6726 1.611519 TAGCCGGTGGTTTTCTTTGG 58.388 50.000 1.90 0.00 0.00 3.28
3379 6727 0.396556 AGCCGGTGGTTTTCTTTGGT 60.397 50.000 1.90 0.00 0.00 3.67
3380 6728 0.249280 GCCGGTGGTTTTCTTTGGTG 60.249 55.000 1.90 0.00 0.00 4.17
3381 6729 0.387565 CCGGTGGTTTTCTTTGGTGG 59.612 55.000 0.00 0.00 0.00 4.61
3382 6730 1.394618 CGGTGGTTTTCTTTGGTGGA 58.605 50.000 0.00 0.00 0.00 4.02
3383 6731 1.960689 CGGTGGTTTTCTTTGGTGGAT 59.039 47.619 0.00 0.00 0.00 3.41
3384 6732 2.364002 CGGTGGTTTTCTTTGGTGGATT 59.636 45.455 0.00 0.00 0.00 3.01
3385 6733 3.181470 CGGTGGTTTTCTTTGGTGGATTT 60.181 43.478 0.00 0.00 0.00 2.17
3386 6734 4.126437 GGTGGTTTTCTTTGGTGGATTTG 58.874 43.478 0.00 0.00 0.00 2.32
3387 6735 3.559655 GTGGTTTTCTTTGGTGGATTTGC 59.440 43.478 0.00 0.00 0.00 3.68
3388 6736 3.454082 TGGTTTTCTTTGGTGGATTTGCT 59.546 39.130 0.00 0.00 0.00 3.91
3389 6737 4.058124 GGTTTTCTTTGGTGGATTTGCTC 58.942 43.478 0.00 0.00 0.00 4.26
3390 6738 4.442753 GGTTTTCTTTGGTGGATTTGCTCA 60.443 41.667 0.00 0.00 0.00 4.26
3391 6739 4.589216 TTTCTTTGGTGGATTTGCTCAG 57.411 40.909 0.00 0.00 0.00 3.35
3392 6740 3.507162 TCTTTGGTGGATTTGCTCAGA 57.493 42.857 0.00 0.00 0.00 3.27
3393 6741 4.038271 TCTTTGGTGGATTTGCTCAGAT 57.962 40.909 0.00 0.00 0.00 2.90
3394 6742 4.012374 TCTTTGGTGGATTTGCTCAGATC 58.988 43.478 0.00 0.00 0.00 2.75
3395 6743 2.425143 TGGTGGATTTGCTCAGATCC 57.575 50.000 11.32 11.32 41.18 3.36
3396 6744 1.303309 GGTGGATTTGCTCAGATCCG 58.697 55.000 12.85 0.00 43.06 4.18
3397 6745 1.303309 GTGGATTTGCTCAGATCCGG 58.697 55.000 12.85 0.00 43.06 5.14
3398 6746 0.911769 TGGATTTGCTCAGATCCGGT 59.088 50.000 12.85 0.00 43.06 5.28
3399 6747 1.134401 TGGATTTGCTCAGATCCGGTC 60.134 52.381 12.85 0.00 43.06 4.79
3400 6748 1.139853 GGATTTGCTCAGATCCGGTCT 59.860 52.381 0.00 0.30 33.22 3.85
3401 6749 2.420687 GGATTTGCTCAGATCCGGTCTT 60.421 50.000 0.00 0.00 33.22 3.01
3402 6750 2.859165 TTTGCTCAGATCCGGTCTTT 57.141 45.000 0.00 0.00 34.00 2.52
3403 6751 2.099141 TTGCTCAGATCCGGTCTTTG 57.901 50.000 0.00 0.00 34.00 2.77
3404 6752 0.976641 TGCTCAGATCCGGTCTTTGT 59.023 50.000 0.00 0.00 34.00 2.83
3405 6753 1.347707 TGCTCAGATCCGGTCTTTGTT 59.652 47.619 0.00 0.00 34.00 2.83
3406 6754 2.003301 GCTCAGATCCGGTCTTTGTTC 58.997 52.381 0.00 0.00 34.00 3.18
3407 6755 2.263077 CTCAGATCCGGTCTTTGTTCG 58.737 52.381 0.00 0.00 34.00 3.95
3408 6756 1.616865 TCAGATCCGGTCTTTGTTCGT 59.383 47.619 0.00 0.00 34.00 3.85
3409 6757 1.993370 CAGATCCGGTCTTTGTTCGTC 59.007 52.381 0.00 0.00 34.00 4.20
3410 6758 1.893801 AGATCCGGTCTTTGTTCGTCT 59.106 47.619 0.00 0.00 31.47 4.18
3411 6759 3.087031 AGATCCGGTCTTTGTTCGTCTA 58.913 45.455 0.00 0.00 31.47 2.59
3412 6760 2.712057 TCCGGTCTTTGTTCGTCTAC 57.288 50.000 0.00 0.00 0.00 2.59
3413 6761 1.069022 TCCGGTCTTTGTTCGTCTACG 60.069 52.381 0.00 0.00 41.45 3.51
3414 6762 1.335324 CCGGTCTTTGTTCGTCTACGT 60.335 52.381 2.02 0.00 40.80 3.57
3415 6763 2.388121 CGGTCTTTGTTCGTCTACGTT 58.612 47.619 0.00 0.00 40.80 3.99
3416 6764 2.403037 CGGTCTTTGTTCGTCTACGTTC 59.597 50.000 0.00 0.00 40.80 3.95
3417 6765 3.374745 GGTCTTTGTTCGTCTACGTTCA 58.625 45.455 0.00 1.00 40.80 3.18
3418 6766 3.985925 GGTCTTTGTTCGTCTACGTTCAT 59.014 43.478 0.00 0.00 40.80 2.57
3419 6767 4.143389 GGTCTTTGTTCGTCTACGTTCATG 60.143 45.833 0.00 0.00 40.80 3.07
3420 6768 4.443394 GTCTTTGTTCGTCTACGTTCATGT 59.557 41.667 0.00 0.00 40.80 3.21
3421 6769 4.443063 TCTTTGTTCGTCTACGTTCATGTG 59.557 41.667 0.00 0.00 40.80 3.21
3422 6770 3.358707 TGTTCGTCTACGTTCATGTGT 57.641 42.857 0.00 0.00 40.80 3.72
3423 6771 3.302555 TGTTCGTCTACGTTCATGTGTC 58.697 45.455 0.00 0.00 40.80 3.67
3424 6772 3.004002 TGTTCGTCTACGTTCATGTGTCT 59.996 43.478 0.00 0.00 40.80 3.41
3425 6773 3.909776 TCGTCTACGTTCATGTGTCTT 57.090 42.857 0.00 0.00 40.80 3.01
3426 6774 3.818387 TCGTCTACGTTCATGTGTCTTC 58.182 45.455 0.00 0.00 40.80 2.87
3427 6775 3.251487 TCGTCTACGTTCATGTGTCTTCA 59.749 43.478 0.00 0.00 40.80 3.02
3428 6776 3.978855 CGTCTACGTTCATGTGTCTTCAA 59.021 43.478 0.00 0.00 34.11 2.69
3429 6777 4.088638 CGTCTACGTTCATGTGTCTTCAAG 59.911 45.833 0.00 0.00 34.11 3.02
3430 6778 4.982916 GTCTACGTTCATGTGTCTTCAAGT 59.017 41.667 0.00 0.00 0.00 3.16
3431 6779 5.462398 GTCTACGTTCATGTGTCTTCAAGTT 59.538 40.000 0.00 0.00 0.00 2.66
3432 6780 4.536364 ACGTTCATGTGTCTTCAAGTTG 57.464 40.909 0.00 0.00 0.00 3.16
3433 6781 3.312421 ACGTTCATGTGTCTTCAAGTTGG 59.688 43.478 2.34 0.00 0.00 3.77
3434 6782 3.559655 CGTTCATGTGTCTTCAAGTTGGA 59.440 43.478 2.34 0.00 0.00 3.53
3435 6783 4.214119 CGTTCATGTGTCTTCAAGTTGGAT 59.786 41.667 2.34 0.00 0.00 3.41
3436 6784 5.615544 CGTTCATGTGTCTTCAAGTTGGATC 60.616 44.000 2.34 0.00 0.00 3.36
3437 6785 4.326826 TCATGTGTCTTCAAGTTGGATCC 58.673 43.478 4.20 4.20 0.00 3.36
3438 6786 4.042062 TCATGTGTCTTCAAGTTGGATCCT 59.958 41.667 14.23 0.00 0.00 3.24
3439 6787 4.437682 TGTGTCTTCAAGTTGGATCCTT 57.562 40.909 14.23 0.00 0.00 3.36
3440 6788 4.389374 TGTGTCTTCAAGTTGGATCCTTC 58.611 43.478 14.23 5.98 0.00 3.46
3441 6789 3.753797 GTGTCTTCAAGTTGGATCCTTCC 59.246 47.826 14.23 0.32 42.94 3.46
3442 6790 3.003480 GTCTTCAAGTTGGATCCTTCCG 58.997 50.000 14.23 0.00 45.89 4.30
3443 6791 2.903784 TCTTCAAGTTGGATCCTTCCGA 59.096 45.455 14.23 0.30 45.89 4.55
3444 6792 3.519510 TCTTCAAGTTGGATCCTTCCGAT 59.480 43.478 14.23 0.00 45.89 4.18
3445 6793 3.543680 TCAAGTTGGATCCTTCCGATC 57.456 47.619 14.23 0.00 45.89 3.69
3446 6794 3.107601 TCAAGTTGGATCCTTCCGATCT 58.892 45.455 14.23 0.00 45.90 2.75
3447 6795 4.286707 TCAAGTTGGATCCTTCCGATCTA 58.713 43.478 14.23 0.00 45.90 1.98
3448 6796 4.099573 TCAAGTTGGATCCTTCCGATCTAC 59.900 45.833 14.23 0.00 45.90 2.59
3449 6797 2.623889 AGTTGGATCCTTCCGATCTACG 59.376 50.000 14.23 0.00 45.90 3.51
3450 6798 0.959553 TGGATCCTTCCGATCTACGC 59.040 55.000 14.23 0.00 45.90 4.42
3451 6799 0.109689 GGATCCTTCCGATCTACGCG 60.110 60.000 3.53 3.53 45.90 6.01
3452 6800 0.592148 GATCCTTCCGATCTACGCGT 59.408 55.000 19.17 19.17 43.65 6.01
3453 6801 0.592148 ATCCTTCCGATCTACGCGTC 59.408 55.000 18.63 0.00 41.07 5.19
3454 6802 0.463295 TCCTTCCGATCTACGCGTCT 60.463 55.000 18.63 0.60 41.07 4.18
3455 6803 0.041135 CCTTCCGATCTACGCGTCTC 60.041 60.000 18.63 10.81 41.07 3.36
3456 6804 0.938713 CTTCCGATCTACGCGTCTCT 59.061 55.000 18.63 0.00 41.07 3.10
3457 6805 1.331138 CTTCCGATCTACGCGTCTCTT 59.669 52.381 18.63 0.00 41.07 2.85
3458 6806 0.935898 TCCGATCTACGCGTCTCTTC 59.064 55.000 18.63 8.21 41.07 2.87
3459 6807 0.656259 CCGATCTACGCGTCTCTTCA 59.344 55.000 18.63 0.00 41.07 3.02
3460 6808 1.264557 CCGATCTACGCGTCTCTTCAT 59.735 52.381 18.63 0.00 41.07 2.57
3461 6809 2.566036 CGATCTACGCGTCTCTTCATC 58.434 52.381 18.63 8.37 34.51 2.92
3462 6810 2.566036 GATCTACGCGTCTCTTCATCG 58.434 52.381 18.63 0.00 0.00 3.84
3463 6811 0.656259 TCTACGCGTCTCTTCATCGG 59.344 55.000 18.63 0.00 0.00 4.18
3464 6812 0.930742 CTACGCGTCTCTTCATCGGC 60.931 60.000 18.63 0.00 0.00 5.54
3465 6813 2.642249 TACGCGTCTCTTCATCGGCG 62.642 60.000 18.63 0.00 0.00 6.46
3466 6814 2.102357 GCGTCTCTTCATCGGCGA 59.898 61.111 13.87 13.87 0.00 5.54
3467 6815 2.224885 GCGTCTCTTCATCGGCGAC 61.225 63.158 13.76 0.00 0.00 5.19
3479 6827 4.515404 GGCGACGGTTGCTATTCT 57.485 55.556 19.22 0.00 0.00 2.40
3480 6828 2.006772 GGCGACGGTTGCTATTCTG 58.993 57.895 19.22 0.00 0.00 3.02
3481 6829 1.429148 GGCGACGGTTGCTATTCTGG 61.429 60.000 19.22 0.00 0.00 3.86
3482 6830 0.739813 GCGACGGTTGCTATTCTGGT 60.740 55.000 13.15 0.00 0.00 4.00
3483 6831 0.999406 CGACGGTTGCTATTCTGGTG 59.001 55.000 0.00 0.00 0.00 4.17
3484 6832 1.671850 CGACGGTTGCTATTCTGGTGT 60.672 52.381 0.00 0.00 0.00 4.16
3485 6833 1.732259 GACGGTTGCTATTCTGGTGTG 59.268 52.381 0.00 0.00 0.00 3.82
3486 6834 1.071699 ACGGTTGCTATTCTGGTGTGT 59.928 47.619 0.00 0.00 0.00 3.72
3487 6835 2.300723 ACGGTTGCTATTCTGGTGTGTA 59.699 45.455 0.00 0.00 0.00 2.90
3488 6836 2.930040 CGGTTGCTATTCTGGTGTGTAG 59.070 50.000 0.00 0.00 0.00 2.74
3489 6837 3.270877 GGTTGCTATTCTGGTGTGTAGG 58.729 50.000 0.00 0.00 0.00 3.18
3490 6838 3.307480 GGTTGCTATTCTGGTGTGTAGGT 60.307 47.826 0.00 0.00 0.00 3.08
3491 6839 3.887621 TGCTATTCTGGTGTGTAGGTC 57.112 47.619 0.00 0.00 0.00 3.85
3492 6840 2.500098 TGCTATTCTGGTGTGTAGGTCC 59.500 50.000 0.00 0.00 0.00 4.46
3493 6841 2.766828 GCTATTCTGGTGTGTAGGTCCT 59.233 50.000 0.00 0.00 0.00 3.85
3494 6842 3.958798 GCTATTCTGGTGTGTAGGTCCTA 59.041 47.826 0.00 0.00 0.00 2.94
3495 6843 4.589374 GCTATTCTGGTGTGTAGGTCCTAT 59.411 45.833 0.82 0.00 0.00 2.57
3496 6844 5.509840 GCTATTCTGGTGTGTAGGTCCTATG 60.510 48.000 0.82 0.00 0.00 2.23
3497 6845 2.747177 TCTGGTGTGTAGGTCCTATGG 58.253 52.381 0.82 0.00 0.00 2.74
3498 6846 1.762957 CTGGTGTGTAGGTCCTATGGG 59.237 57.143 0.82 0.00 0.00 4.00
3499 6847 1.363280 TGGTGTGTAGGTCCTATGGGA 59.637 52.381 0.82 0.00 39.70 4.37
3500 6848 2.022428 TGGTGTGTAGGTCCTATGGGAT 60.022 50.000 0.00 0.00 44.33 3.85
3501 6849 2.633481 GGTGTGTAGGTCCTATGGGATC 59.367 54.545 0.00 0.00 44.33 3.36
3508 6856 3.686916 GGTCCTATGGGATCTTAGCAC 57.313 52.381 0.00 0.00 44.33 4.40
3509 6857 2.028930 GGTCCTATGGGATCTTAGCACG 60.029 54.545 0.00 0.00 44.33 5.34
3510 6858 2.891580 GTCCTATGGGATCTTAGCACGA 59.108 50.000 0.00 0.00 44.33 4.35
3511 6859 2.891580 TCCTATGGGATCTTAGCACGAC 59.108 50.000 0.00 0.00 36.57 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 3310 1.971357 ACCTACACACTTGCTAGCAGT 59.029 47.619 18.45 14.16 0.00 4.40
116 3368 3.588842 AGGGTTCATCAATCAGACCAGAA 59.411 43.478 0.00 0.00 0.00 3.02
155 3419 2.042843 AGTCAGGAGGTAGCCCGG 60.043 66.667 0.00 0.00 35.12 5.73
162 3426 4.361971 TCCGGCGAGTCAGGAGGT 62.362 66.667 9.30 0.00 33.99 3.85
187 3451 1.532794 CATCCTCCTCCTCCTCCGG 60.533 68.421 0.00 0.00 0.00 5.14
204 3474 1.078918 CGGCAACTGCTCTCCATCA 60.079 57.895 1.06 0.00 41.70 3.07
207 3477 2.922503 TCCGGCAACTGCTCTCCA 60.923 61.111 0.00 0.00 41.70 3.86
292 3562 2.125106 GAACTCCGCATCCGCCTT 60.125 61.111 0.00 0.00 33.11 4.35
342 3612 0.982852 TGGATTCCGGGATGCTCTGT 60.983 55.000 16.14 0.00 0.00 3.41
347 3617 4.404691 GGATGGATTCCGGGATGC 57.595 61.111 7.42 7.42 33.93 3.91
357 3627 6.185511 CACATAAGCCTCATTATGGATGGAT 58.814 40.000 10.31 0.00 44.13 3.41
500 3774 1.146930 CTGATACATGGGCGGCAGT 59.853 57.895 12.47 8.78 0.00 4.40
525 3799 5.000012 GAGATGTTGACTATCTCCGTGTT 58.000 43.478 0.00 0.00 42.94 3.32
593 3868 8.613060 TTAAATCCATACAAAAGCATGCAAAA 57.387 26.923 21.98 0.00 0.00 2.44
680 3956 4.680237 CGTCAGGGCGCCTTCACA 62.680 66.667 28.56 1.10 0.00 3.58
730 4014 0.864455 GAGCATCAAGAGCCGCATAC 59.136 55.000 0.00 0.00 33.17 2.39
740 4024 3.849911 TCTGTTCGGTTAGAGCATCAAG 58.150 45.455 0.00 0.00 39.36 3.02
742 4026 3.953712 TTCTGTTCGGTTAGAGCATCA 57.046 42.857 0.00 0.00 39.36 3.07
816 4101 2.092914 CCTACAGGAGTTGGGTGAATCC 60.093 54.545 0.00 0.00 37.05 3.01
817 4102 3.268023 CCTACAGGAGTTGGGTGAATC 57.732 52.381 0.00 0.00 37.05 2.52
827 4112 1.697982 GAACCAACACCCTACAGGAGT 59.302 52.381 0.00 0.00 41.89 3.85
839 4124 2.112297 GCCACGGAGGAACCAACA 59.888 61.111 0.00 0.00 41.22 3.33
901 4187 7.511028 ACACCTCAAATTTTCCCCACTTAATTA 59.489 33.333 0.00 0.00 0.00 1.40
919 4205 1.388547 GTTGCAACCTCACACCTCAA 58.611 50.000 19.15 0.00 0.00 3.02
920 4206 0.813610 CGTTGCAACCTCACACCTCA 60.814 55.000 23.42 0.00 0.00 3.86
1112 4403 0.421495 TGGGGAGGGATTGAGGAAGA 59.579 55.000 0.00 0.00 0.00 2.87
1113 4404 0.842635 CTGGGGAGGGATTGAGGAAG 59.157 60.000 0.00 0.00 0.00 3.46
1114 4405 1.281925 GCTGGGGAGGGATTGAGGAA 61.282 60.000 0.00 0.00 0.00 3.36
1115 4406 1.694169 GCTGGGGAGGGATTGAGGA 60.694 63.158 0.00 0.00 0.00 3.71
1116 4407 1.574526 TTGCTGGGGAGGGATTGAGG 61.575 60.000 0.00 0.00 0.00 3.86
1118 4409 0.259647 CATTGCTGGGGAGGGATTGA 59.740 55.000 0.00 0.00 0.00 2.57
1119 4410 0.757935 CCATTGCTGGGGAGGGATTG 60.758 60.000 0.00 0.00 39.04 2.67
1120 4411 1.622499 CCATTGCTGGGGAGGGATT 59.378 57.895 0.00 0.00 39.04 3.01
1121 4412 3.078843 GCCATTGCTGGGGAGGGAT 62.079 63.158 0.00 0.00 43.36 3.85
1122 4413 3.743017 GCCATTGCTGGGGAGGGA 61.743 66.667 0.00 0.00 43.36 4.20
1123 4414 4.064768 TGCCATTGCTGGGGAGGG 62.065 66.667 0.00 0.00 43.36 4.30
1124 4415 2.757099 GTGCCATTGCTGGGGAGG 60.757 66.667 0.00 0.00 43.36 4.30
1125 4416 3.136123 CGTGCCATTGCTGGGGAG 61.136 66.667 0.00 0.00 43.36 4.30
1227 4519 1.251527 GCAGGTCGAGGAAGGTGAGA 61.252 60.000 0.00 0.00 0.00 3.27
1756 5066 2.361992 TTCGTAGAGGCCTGCCGA 60.362 61.111 12.00 12.38 41.95 5.54
1850 5163 4.008933 GCTCGCTGGACAGGGTGT 62.009 66.667 14.80 0.00 41.52 4.16
1915 5228 4.729918 CCTTGGCGGCTTCTGGCT 62.730 66.667 11.43 0.00 41.46 4.75
2220 5533 2.675772 ACCGTCGTCTCCCACTCC 60.676 66.667 0.00 0.00 0.00 3.85
2304 5629 1.227999 ACCCGAAGTCGACGTCGTAA 61.228 55.000 38.28 16.49 44.26 3.18
2397 5722 3.813724 CCCACCTCCATGCCTCCC 61.814 72.222 0.00 0.00 0.00 4.30
2533 5864 3.805108 GCTAGGCATGGATGGTGACTTAG 60.805 52.174 0.00 0.00 36.14 2.18
2535 5866 1.133976 GCTAGGCATGGATGGTGACTT 60.134 52.381 0.00 0.00 36.14 3.01
2560 5891 2.338620 CTTCGACACACTCGGGCA 59.661 61.111 0.00 0.00 43.16 5.36
2604 5940 4.299586 TGGCCATTTTCAGTAGTCATCA 57.700 40.909 0.00 0.00 0.00 3.07
2659 5996 0.906775 AAATCCCCATACGACACGGT 59.093 50.000 0.00 0.00 0.00 4.83
2763 6104 4.901250 TCTCCTTTTCTTTTCTTTGCCCAT 59.099 37.500 0.00 0.00 0.00 4.00
2777 6118 4.223923 TCAGTCCTCTGGATTCTCCTTTTC 59.776 45.833 0.00 0.00 41.59 2.29
2838 6179 4.269603 CCATCAGCAGAAAGTCGTAGATTG 59.730 45.833 0.00 0.00 40.67 2.67
2839 6180 4.081420 ACCATCAGCAGAAAGTCGTAGATT 60.081 41.667 0.00 0.00 40.67 2.40
2849 6190 0.599558 GCAGCAACCATCAGCAGAAA 59.400 50.000 0.00 0.00 0.00 2.52
2852 6193 0.677098 AGAGCAGCAACCATCAGCAG 60.677 55.000 0.00 0.00 0.00 4.24
2854 6195 1.654954 CCAGAGCAGCAACCATCAGC 61.655 60.000 0.00 0.00 0.00 4.26
2855 6196 0.322277 ACCAGAGCAGCAACCATCAG 60.322 55.000 0.00 0.00 0.00 2.90
2856 6197 0.607217 CACCAGAGCAGCAACCATCA 60.607 55.000 0.00 0.00 0.00 3.07
2857 6198 0.607489 ACACCAGAGCAGCAACCATC 60.607 55.000 0.00 0.00 0.00 3.51
2870 6217 2.092753 ACCCATAGAATCAGCACACCAG 60.093 50.000 0.00 0.00 0.00 4.00
2876 6223 3.711190 TGCTAAGACCCATAGAATCAGCA 59.289 43.478 0.00 0.00 34.36 4.41
2878 6225 5.931146 GTCATGCTAAGACCCATAGAATCAG 59.069 44.000 0.00 0.00 0.00 2.90
2881 6228 4.588951 TCGTCATGCTAAGACCCATAGAAT 59.411 41.667 0.00 0.00 32.41 2.40
2889 6236 1.992170 AACGTCGTCATGCTAAGACC 58.008 50.000 0.00 0.00 32.41 3.85
2906 6254 7.318893 ACTTTATTAGGGTAGACAGTCGAAAC 58.681 38.462 0.00 0.00 0.00 2.78
2910 6258 6.035758 GCAAACTTTATTAGGGTAGACAGTCG 59.964 42.308 0.00 0.00 0.00 4.18
2921 6269 3.312697 GGAGCCGAGCAAACTTTATTAGG 59.687 47.826 0.00 0.00 0.00 2.69
2922 6270 3.938963 TGGAGCCGAGCAAACTTTATTAG 59.061 43.478 0.00 0.00 0.00 1.73
2946 6294 3.917760 GTCATCGCCCCTCCCTCG 61.918 72.222 0.00 0.00 0.00 4.63
2947 6295 3.917760 CGTCATCGCCCCTCCCTC 61.918 72.222 0.00 0.00 0.00 4.30
2999 6347 1.521681 GCGGACCACCTAGTGATGC 60.522 63.158 0.00 0.00 35.23 3.91
3009 6357 1.024579 CAACCAGGTATGCGGACCAC 61.025 60.000 9.34 0.00 42.47 4.16
3011 6359 0.538118 TACAACCAGGTATGCGGACC 59.462 55.000 0.00 0.00 40.08 4.46
3053 6401 7.038048 TCATCTTCAGTCATAGCAGTACAAAG 58.962 38.462 0.00 0.00 0.00 2.77
3057 6405 8.572185 TCTATTCATCTTCAGTCATAGCAGTAC 58.428 37.037 0.00 0.00 0.00 2.73
3098 6446 8.637704 CACGTACGTGTATGTATGACTTTTAAA 58.362 33.333 34.48 0.00 40.91 1.52
3099 6447 7.273164 CCACGTACGTGTATGTATGACTTTTAA 59.727 37.037 37.86 0.00 44.02 1.52
3100 6448 6.746822 CCACGTACGTGTATGTATGACTTTTA 59.253 38.462 37.86 0.00 44.02 1.52
3111 6459 3.763097 TCTTACCCACGTACGTGTATG 57.237 47.619 37.86 28.94 44.02 2.39
3112 6460 4.158394 ACATTCTTACCCACGTACGTGTAT 59.842 41.667 37.86 29.14 44.02 2.29
3119 6467 6.095300 TCGAGAATAACATTCTTACCCACGTA 59.905 38.462 3.09 0.00 0.00 3.57
3122 6470 5.522824 GGTCGAGAATAACATTCTTACCCAC 59.477 44.000 16.26 5.99 32.87 4.61
3126 6474 6.103997 TGGTGGTCGAGAATAACATTCTTAC 58.896 40.000 3.09 5.25 0.00 2.34
3132 6480 5.365619 GGTATTGGTGGTCGAGAATAACAT 58.634 41.667 0.00 0.00 0.00 2.71
3133 6481 4.678574 CGGTATTGGTGGTCGAGAATAACA 60.679 45.833 0.00 0.00 0.00 2.41
3143 6491 2.981859 ATCAGTCGGTATTGGTGGTC 57.018 50.000 0.00 0.00 0.00 4.02
3149 6497 8.932945 ATATAGCAACATATCAGTCGGTATTG 57.067 34.615 0.00 0.00 0.00 1.90
3155 6503 6.863126 TGTGTGATATAGCAACATATCAGTCG 59.137 38.462 13.08 0.00 44.58 4.18
3187 6535 2.999355 CTGAAGGCTTTCTGCTGAGTAC 59.001 50.000 10.19 0.00 42.39 2.73
3215 6563 3.469863 AAGCCCGTGCAACCGAAGA 62.470 57.895 0.00 0.00 41.13 2.87
3216 6564 2.978010 AAGCCCGTGCAACCGAAG 60.978 61.111 0.00 0.00 41.13 3.79
3221 6569 4.043200 GAGCCAAGCCCGTGCAAC 62.043 66.667 0.00 0.00 41.13 4.17
3291 6639 3.802948 TTCCATCTTTAGAGAGTCGCC 57.197 47.619 0.00 0.00 34.85 5.54
3296 6644 9.898152 AAAGAACCTTATTCCATCTTTAGAGAG 57.102 33.333 0.00 0.00 38.26 3.20
3308 6656 5.765677 GCCTAGATGGAAAGAACCTTATTCC 59.234 44.000 0.00 0.00 42.39 3.01
3316 6664 2.168728 ACGGAGCCTAGATGGAAAGAAC 59.831 50.000 0.00 0.00 38.35 3.01
3322 6670 0.535328 CGAGACGGAGCCTAGATGGA 60.535 60.000 0.00 0.00 38.35 3.41
3323 6671 0.535328 TCGAGACGGAGCCTAGATGG 60.535 60.000 0.00 0.00 39.35 3.51
3346 6694 3.243771 CCACCGGCTAAATCTTACGAGAT 60.244 47.826 0.00 0.00 44.51 2.75
3347 6695 2.100252 CCACCGGCTAAATCTTACGAGA 59.900 50.000 0.00 0.00 36.09 4.04
3348 6696 2.159142 ACCACCGGCTAAATCTTACGAG 60.159 50.000 0.00 0.00 0.00 4.18
3349 6697 1.826720 ACCACCGGCTAAATCTTACGA 59.173 47.619 0.00 0.00 0.00 3.43
3350 6698 2.304751 ACCACCGGCTAAATCTTACG 57.695 50.000 0.00 0.00 0.00 3.18
3351 6699 4.698780 AGAAAACCACCGGCTAAATCTTAC 59.301 41.667 0.00 0.00 0.00 2.34
3352 6700 4.913784 AGAAAACCACCGGCTAAATCTTA 58.086 39.130 0.00 0.00 0.00 2.10
3353 6701 3.763057 AGAAAACCACCGGCTAAATCTT 58.237 40.909 0.00 0.00 0.00 2.40
3354 6702 3.434940 AGAAAACCACCGGCTAAATCT 57.565 42.857 0.00 0.00 0.00 2.40
3355 6703 4.234574 CAAAGAAAACCACCGGCTAAATC 58.765 43.478 0.00 0.00 0.00 2.17
3356 6704 3.006430 CCAAAGAAAACCACCGGCTAAAT 59.994 43.478 0.00 0.00 0.00 1.40
3357 6705 2.362717 CCAAAGAAAACCACCGGCTAAA 59.637 45.455 0.00 0.00 0.00 1.85
3358 6706 1.957877 CCAAAGAAAACCACCGGCTAA 59.042 47.619 0.00 0.00 0.00 3.09
3359 6707 1.133730 ACCAAAGAAAACCACCGGCTA 60.134 47.619 0.00 0.00 0.00 3.93
3360 6708 0.396556 ACCAAAGAAAACCACCGGCT 60.397 50.000 0.00 0.00 0.00 5.52
3361 6709 0.249280 CACCAAAGAAAACCACCGGC 60.249 55.000 0.00 0.00 0.00 6.13
3362 6710 0.387565 CCACCAAAGAAAACCACCGG 59.612 55.000 0.00 0.00 0.00 5.28
3363 6711 1.394618 TCCACCAAAGAAAACCACCG 58.605 50.000 0.00 0.00 0.00 4.94
3364 6712 4.126437 CAAATCCACCAAAGAAAACCACC 58.874 43.478 0.00 0.00 0.00 4.61
3365 6713 3.559655 GCAAATCCACCAAAGAAAACCAC 59.440 43.478 0.00 0.00 0.00 4.16
3366 6714 3.454082 AGCAAATCCACCAAAGAAAACCA 59.546 39.130 0.00 0.00 0.00 3.67
3367 6715 4.058124 GAGCAAATCCACCAAAGAAAACC 58.942 43.478 0.00 0.00 0.00 3.27
3368 6716 4.692228 TGAGCAAATCCACCAAAGAAAAC 58.308 39.130 0.00 0.00 0.00 2.43
3369 6717 4.648762 TCTGAGCAAATCCACCAAAGAAAA 59.351 37.500 0.00 0.00 0.00 2.29
3370 6718 4.214310 TCTGAGCAAATCCACCAAAGAAA 58.786 39.130 0.00 0.00 0.00 2.52
3371 6719 3.831323 TCTGAGCAAATCCACCAAAGAA 58.169 40.909 0.00 0.00 0.00 2.52
3372 6720 3.507162 TCTGAGCAAATCCACCAAAGA 57.493 42.857 0.00 0.00 0.00 2.52
3373 6721 3.129988 GGATCTGAGCAAATCCACCAAAG 59.870 47.826 0.00 0.00 41.02 2.77
3374 6722 3.091545 GGATCTGAGCAAATCCACCAAA 58.908 45.455 0.00 0.00 41.02 3.28
3375 6723 2.726821 GGATCTGAGCAAATCCACCAA 58.273 47.619 0.00 0.00 41.02 3.67
3376 6724 1.407299 CGGATCTGAGCAAATCCACCA 60.407 52.381 0.00 0.00 41.35 4.17
3377 6725 1.303309 CGGATCTGAGCAAATCCACC 58.697 55.000 0.00 0.00 41.35 4.61
3378 6726 1.303309 CCGGATCTGAGCAAATCCAC 58.697 55.000 2.08 0.00 41.35 4.02
3379 6727 0.911769 ACCGGATCTGAGCAAATCCA 59.088 50.000 9.46 0.00 41.35 3.41
3380 6728 1.139853 AGACCGGATCTGAGCAAATCC 59.860 52.381 9.46 0.00 35.81 3.01
3381 6729 2.611225 AGACCGGATCTGAGCAAATC 57.389 50.000 9.46 0.00 35.81 2.17
3382 6730 3.012518 CAAAGACCGGATCTGAGCAAAT 58.987 45.455 9.46 0.00 37.88 2.32
3383 6731 2.224523 ACAAAGACCGGATCTGAGCAAA 60.225 45.455 9.46 0.00 37.88 3.68
3384 6732 1.347707 ACAAAGACCGGATCTGAGCAA 59.652 47.619 9.46 0.00 37.88 3.91
3385 6733 0.976641 ACAAAGACCGGATCTGAGCA 59.023 50.000 9.46 0.00 37.88 4.26
3386 6734 2.003301 GAACAAAGACCGGATCTGAGC 58.997 52.381 9.46 0.00 37.88 4.26
3387 6735 2.263077 CGAACAAAGACCGGATCTGAG 58.737 52.381 9.46 6.47 37.88 3.35
3388 6736 1.616865 ACGAACAAAGACCGGATCTGA 59.383 47.619 9.46 0.00 37.88 3.27
3389 6737 1.993370 GACGAACAAAGACCGGATCTG 59.007 52.381 9.46 1.83 37.88 2.90
3390 6738 1.893801 AGACGAACAAAGACCGGATCT 59.106 47.619 9.46 4.30 40.46 2.75
3391 6739 2.365408 AGACGAACAAAGACCGGATC 57.635 50.000 9.46 1.42 0.00 3.36
3392 6740 2.415090 CGTAGACGAACAAAGACCGGAT 60.415 50.000 9.46 0.00 43.02 4.18
3393 6741 1.069022 CGTAGACGAACAAAGACCGGA 60.069 52.381 9.46 0.00 43.02 5.14
3394 6742 1.334054 CGTAGACGAACAAAGACCGG 58.666 55.000 0.00 0.00 43.02 5.28
3395 6743 2.042104 ACGTAGACGAACAAAGACCG 57.958 50.000 9.41 0.00 43.02 4.79
3396 6744 3.374745 TGAACGTAGACGAACAAAGACC 58.625 45.455 9.41 0.00 43.02 3.85
3397 6745 4.443394 ACATGAACGTAGACGAACAAAGAC 59.557 41.667 9.41 0.00 43.02 3.01
3398 6746 4.443063 CACATGAACGTAGACGAACAAAGA 59.557 41.667 9.41 0.00 43.02 2.52
3399 6747 4.208460 ACACATGAACGTAGACGAACAAAG 59.792 41.667 9.41 7.87 43.02 2.77
3400 6748 4.114073 ACACATGAACGTAGACGAACAAA 58.886 39.130 9.41 0.00 43.02 2.83
3401 6749 3.708890 ACACATGAACGTAGACGAACAA 58.291 40.909 9.41 0.00 43.02 2.83
3402 6750 3.004002 AGACACATGAACGTAGACGAACA 59.996 43.478 9.41 8.49 43.02 3.18
3403 6751 3.562505 AGACACATGAACGTAGACGAAC 58.437 45.455 9.41 3.01 43.02 3.95
3404 6752 3.909776 AGACACATGAACGTAGACGAA 57.090 42.857 9.41 0.00 43.02 3.85
3405 6753 3.251487 TGAAGACACATGAACGTAGACGA 59.749 43.478 9.41 0.00 43.02 4.20
3406 6754 3.561503 TGAAGACACATGAACGTAGACG 58.438 45.455 0.00 0.00 46.33 4.18
3407 6755 4.982916 ACTTGAAGACACATGAACGTAGAC 59.017 41.667 0.00 0.00 0.00 2.59
3408 6756 5.196341 ACTTGAAGACACATGAACGTAGA 57.804 39.130 0.00 0.00 0.00 2.59
3409 6757 5.333339 CCAACTTGAAGACACATGAACGTAG 60.333 44.000 0.00 0.00 0.00 3.51
3410 6758 4.509970 CCAACTTGAAGACACATGAACGTA 59.490 41.667 0.00 0.00 0.00 3.57
3411 6759 3.312421 CCAACTTGAAGACACATGAACGT 59.688 43.478 0.00 0.00 0.00 3.99
3412 6760 3.559655 TCCAACTTGAAGACACATGAACG 59.440 43.478 0.00 0.00 0.00 3.95
3413 6761 5.335191 GGATCCAACTTGAAGACACATGAAC 60.335 44.000 6.95 0.00 0.00 3.18
3414 6762 4.761739 GGATCCAACTTGAAGACACATGAA 59.238 41.667 6.95 0.00 0.00 2.57
3415 6763 4.042062 AGGATCCAACTTGAAGACACATGA 59.958 41.667 15.82 0.00 0.00 3.07
3416 6764 4.330250 AGGATCCAACTTGAAGACACATG 58.670 43.478 15.82 0.00 0.00 3.21
3417 6765 4.647564 AGGATCCAACTTGAAGACACAT 57.352 40.909 15.82 0.00 0.00 3.21
3418 6766 4.389374 GAAGGATCCAACTTGAAGACACA 58.611 43.478 15.82 0.00 0.00 3.72
3419 6767 3.753797 GGAAGGATCCAACTTGAAGACAC 59.246 47.826 15.82 0.00 45.79 3.67
3420 6768 3.557054 CGGAAGGATCCAACTTGAAGACA 60.557 47.826 15.82 0.00 46.97 3.41
3421 6769 3.003480 CGGAAGGATCCAACTTGAAGAC 58.997 50.000 15.82 0.00 46.97 3.01
3422 6770 2.903784 TCGGAAGGATCCAACTTGAAGA 59.096 45.455 15.82 0.00 46.97 2.87
3423 6771 3.334583 TCGGAAGGATCCAACTTGAAG 57.665 47.619 15.82 0.00 46.97 3.02
3424 6772 3.873910 GATCGGAAGGATCCAACTTGAA 58.126 45.455 15.82 0.00 46.97 2.69
3425 6773 3.543680 GATCGGAAGGATCCAACTTGA 57.456 47.619 15.82 5.36 46.97 3.02
3434 6782 0.592148 GACGCGTAGATCGGAAGGAT 59.408 55.000 13.97 0.00 40.26 3.24
3435 6783 0.463295 AGACGCGTAGATCGGAAGGA 60.463 55.000 13.97 0.00 40.26 3.36
3436 6784 0.041135 GAGACGCGTAGATCGGAAGG 60.041 60.000 13.97 0.00 40.26 3.46
3437 6785 0.938713 AGAGACGCGTAGATCGGAAG 59.061 55.000 13.97 0.00 40.26 3.46
3438 6786 1.329906 GAAGAGACGCGTAGATCGGAA 59.670 52.381 13.97 0.00 40.26 4.30
3439 6787 0.935898 GAAGAGACGCGTAGATCGGA 59.064 55.000 13.97 0.00 40.26 4.55
3440 6788 0.656259 TGAAGAGACGCGTAGATCGG 59.344 55.000 13.97 0.00 40.26 4.18
3441 6789 2.566036 GATGAAGAGACGCGTAGATCG 58.434 52.381 13.97 0.00 43.12 3.69
3442 6790 2.566036 CGATGAAGAGACGCGTAGATC 58.434 52.381 13.97 11.35 0.00 2.75
3443 6791 1.264557 CCGATGAAGAGACGCGTAGAT 59.735 52.381 13.97 0.00 0.00 1.98
3444 6792 0.656259 CCGATGAAGAGACGCGTAGA 59.344 55.000 13.97 0.00 0.00 2.59
3445 6793 0.930742 GCCGATGAAGAGACGCGTAG 60.931 60.000 13.97 0.00 0.00 3.51
3446 6794 1.063649 GCCGATGAAGAGACGCGTA 59.936 57.895 13.97 0.00 0.00 4.42
3447 6795 2.202623 GCCGATGAAGAGACGCGT 60.203 61.111 13.85 13.85 0.00 6.01
3448 6796 3.315521 CGCCGATGAAGAGACGCG 61.316 66.667 3.53 3.53 0.00 6.01
3449 6797 2.102357 TCGCCGATGAAGAGACGC 59.898 61.111 0.00 0.00 0.00 5.19
3450 6798 1.934956 CGTCGCCGATGAAGAGACG 60.935 63.158 0.00 2.86 46.32 4.18
3451 6799 1.586564 CCGTCGCCGATGAAGAGAC 60.587 63.158 8.12 0.00 35.63 3.36
3452 6800 1.592400 AACCGTCGCCGATGAAGAGA 61.592 55.000 8.12 0.00 35.63 3.10
3453 6801 1.153823 AACCGTCGCCGATGAAGAG 60.154 57.895 8.12 0.00 35.63 2.85
3454 6802 1.445410 CAACCGTCGCCGATGAAGA 60.445 57.895 8.12 0.00 35.63 2.87
3455 6803 3.081133 CAACCGTCGCCGATGAAG 58.919 61.111 8.12 0.00 35.63 3.02
3456 6804 2.215465 TAGCAACCGTCGCCGATGAA 62.215 55.000 8.12 0.00 35.63 2.57
3457 6805 2.011741 ATAGCAACCGTCGCCGATGA 62.012 55.000 8.12 0.00 35.63 2.92
3458 6806 1.151777 AATAGCAACCGTCGCCGATG 61.152 55.000 0.00 0.00 35.63 3.84
3459 6807 0.874607 GAATAGCAACCGTCGCCGAT 60.875 55.000 0.00 0.00 35.63 4.18
3460 6808 1.517694 GAATAGCAACCGTCGCCGA 60.518 57.895 0.00 0.00 35.63 5.54
3461 6809 1.518572 AGAATAGCAACCGTCGCCG 60.519 57.895 0.00 0.00 0.00 6.46
3462 6810 1.429148 CCAGAATAGCAACCGTCGCC 61.429 60.000 0.00 0.00 0.00 5.54
3463 6811 0.739813 ACCAGAATAGCAACCGTCGC 60.740 55.000 0.00 0.00 0.00 5.19
3464 6812 0.999406 CACCAGAATAGCAACCGTCG 59.001 55.000 0.00 0.00 0.00 5.12
3465 6813 1.732259 CACACCAGAATAGCAACCGTC 59.268 52.381 0.00 0.00 0.00 4.79
3466 6814 1.071699 ACACACCAGAATAGCAACCGT 59.928 47.619 0.00 0.00 0.00 4.83
3467 6815 1.808411 ACACACCAGAATAGCAACCG 58.192 50.000 0.00 0.00 0.00 4.44
3468 6816 3.270877 CCTACACACCAGAATAGCAACC 58.729 50.000 0.00 0.00 0.00 3.77
3469 6817 3.933332 GACCTACACACCAGAATAGCAAC 59.067 47.826 0.00 0.00 0.00 4.17
3470 6818 3.055385 GGACCTACACACCAGAATAGCAA 60.055 47.826 0.00 0.00 0.00 3.91
3471 6819 2.500098 GGACCTACACACCAGAATAGCA 59.500 50.000 0.00 0.00 0.00 3.49
3472 6820 2.766828 AGGACCTACACACCAGAATAGC 59.233 50.000 0.00 0.00 0.00 2.97
3473 6821 5.011125 CCATAGGACCTACACACCAGAATAG 59.989 48.000 2.46 0.00 0.00 1.73
3474 6822 4.899457 CCATAGGACCTACACACCAGAATA 59.101 45.833 2.46 0.00 0.00 1.75
3475 6823 3.711704 CCATAGGACCTACACACCAGAAT 59.288 47.826 2.46 0.00 0.00 2.40
3476 6824 3.104512 CCATAGGACCTACACACCAGAA 58.895 50.000 2.46 0.00 0.00 3.02
3477 6825 2.625883 CCCATAGGACCTACACACCAGA 60.626 54.545 2.46 0.00 33.47 3.86
3478 6826 1.762957 CCCATAGGACCTACACACCAG 59.237 57.143 2.46 0.00 33.47 4.00
3479 6827 1.363280 TCCCATAGGACCTACACACCA 59.637 52.381 2.46 0.00 37.19 4.17
3480 6828 2.170012 TCCCATAGGACCTACACACC 57.830 55.000 2.46 0.00 37.19 4.16
3491 6839 3.305398 GTCGTGCTAAGATCCCATAGG 57.695 52.381 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.