Multiple sequence alignment - TraesCS3B01G072100

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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 TraesCS3B01G072100 chr3B 100.000 4411 0 0 1 4411 43528816 43524406 0.000000e+00 8146.0
1 TraesCS3B01G072100 chr3B 78.021 2425 479 37 1030 3439 690446795 690449180 0.000000e+00 1476.0
2 TraesCS3B01G072100 chr3B 78.443 2287 433 50 1104 3368 690430451 690432699 0.000000e+00 1437.0
3 TraesCS3B01G072100 chr3B 77.633 2450 474 54 1029 3442 689352212 689349801 0.000000e+00 1421.0
4 TraesCS3B01G072100 chr3B 77.525 2416 474 52 1050 3440 642215637 642213266 0.000000e+00 1389.0
5 TraesCS3B01G072100 chr3B 79.047 2057 391 32 1400 3440 689007195 689005163 0.000000e+00 1375.0
6 TraesCS3B01G072100 chr3B 78.023 2266 430 53 1141 3380 690459880 690462103 0.000000e+00 1363.0
7 TraesCS3B01G072100 chr3B 93.939 231 12 2 1 230 720831902 720832131 9.080000e-92 348.0
8 TraesCS3B01G072100 chr3B 79.688 128 19 4 4243 4366 788084397 788084273 7.860000e-13 86.1
9 TraesCS3B01G072100 chr3A 94.198 3240 152 16 1030 4249 36071459 36068236 0.000000e+00 4909.0
10 TraesCS3B01G072100 chr3A 77.825 2372 446 62 1105 3440 658303513 658305840 0.000000e+00 1393.0
11 TraesCS3B01G072100 chr3A 77.821 2331 446 59 1139 3440 658289044 658291332 0.000000e+00 1375.0
12 TraesCS3B01G072100 chr3A 92.867 757 43 10 229 979 48640910 48640159 0.000000e+00 1088.0
13 TraesCS3B01G072100 chr3A 98.261 230 4 0 1 230 48641506 48641277 1.910000e-108 403.0
14 TraesCS3B01G072100 chr7B 97.764 984 22 0 1 984 712625449 712624466 0.000000e+00 1696.0
15 TraesCS3B01G072100 chr7B 96.436 505 17 1 229 732 693288740 693289244 0.000000e+00 832.0
16 TraesCS3B01G072100 chr7B 95.556 45 1 1 38 81 711481742 711481786 2.200000e-08 71.3
17 TraesCS3B01G072100 chr1A 97.654 895 19 2 1 895 507225918 507225026 0.000000e+00 1535.0
18 TraesCS3B01G072100 chrUn 78.860 2351 431 50 1086 3411 330561031 330563340 0.000000e+00 1528.0
19 TraesCS3B01G072100 chrUn 78.618 1838 350 33 1624 3440 342677756 342679571 0.000000e+00 1177.0
20 TraesCS3B01G072100 chrUn 96.700 697 16 3 63 759 195642273 195641584 0.000000e+00 1153.0
21 TraesCS3B01G072100 chrUn 96.413 697 17 4 63 759 225685147 225685835 0.000000e+00 1142.0
22 TraesCS3B01G072100 chrUn 95.100 551 16 6 184 732 431106482 431105941 0.000000e+00 857.0
23 TraesCS3B01G072100 chrUn 96.318 516 12 3 244 759 443698502 443699010 0.000000e+00 841.0
24 TraesCS3B01G072100 chrUn 79.363 848 156 14 2599 3440 405666919 405667753 2.960000e-161 579.0
25 TraesCS3B01G072100 chrUn 77.341 534 96 14 1086 1610 454390255 454389738 4.320000e-75 292.0
26 TraesCS3B01G072100 chrUn 89.412 85 6 3 4243 4325 212344296 212344379 2.170000e-18 104.0
27 TraesCS3B01G072100 chr3D 78.072 2417 458 55 1050 3440 523334491 523336861 0.000000e+00 1461.0
28 TraesCS3B01G072100 chr3D 78.092 2369 443 53 1050 3399 523555242 523557553 0.000000e+00 1430.0
29 TraesCS3B01G072100 chr3D 79.077 1668 303 37 1050 2701 523560076 523561713 0.000000e+00 1105.0
30 TraesCS3B01G072100 chr3D 77.470 1478 314 18 1239 2705 523569670 523571139 0.000000e+00 867.0
31 TraesCS3B01G072100 chr3D 83.917 628 91 7 2760 3383 523562709 523563330 3.800000e-165 592.0
32 TraesCS3B01G072100 chr3D 98.261 230 4 0 1 230 577375961 577376190 1.910000e-108 403.0
33 TraesCS3B01G072100 chr1B 96.488 598 19 2 387 984 8849183 8849778 0.000000e+00 987.0
34 TraesCS3B01G072100 chr1B 89.664 387 28 9 606 984 6321698 6321316 2.390000e-132 483.0
35 TraesCS3B01G072100 chr7A 89.404 453 36 10 538 984 714820182 714820628 1.070000e-155 560.0
36 TraesCS3B01G072100 chr7A 99.130 230 2 0 1 230 714819235 714819464 8.830000e-112 414.0
37 TraesCS3B01G072100 chr2A 89.301 458 31 16 538 984 1112837 1113287 3.850000e-155 558.0
38 TraesCS3B01G072100 chr2A 97.807 228 4 1 3 230 1111896 1112122 4.140000e-105 392.0
39 TraesCS3B01G072100 chr2B 88.378 413 39 8 578 984 763451991 763451582 5.130000e-134 488.0
40 TraesCS3B01G072100 chr1D 93.913 230 2 1 1 230 408892969 408893186 1.970000e-88 337.0
41 TraesCS3B01G072100 chr6A 80.473 169 26 4 4243 4407 613667194 613667359 5.990000e-24 122.0
42 TraesCS3B01G072100 chr4A 89.412 85 6 3 4243 4325 620096630 620096547 2.170000e-18 104.0
43 TraesCS3B01G072100 chr4A 89.412 85 6 3 4243 4325 620111613 620111530 2.170000e-18 104.0
44 TraesCS3B01G072100 chr4A 84.524 84 10 2 4243 4324 9063585 9063667 3.660000e-11 80.5
45 TraesCS3B01G072100 chr5B 87.952 83 7 3 4245 4325 692951816 692951735 1.310000e-15 95.3
46 TraesCS3B01G072100 chr6B 84.270 89 10 4 4240 4326 666357102 666357188 2.830000e-12 84.2
47 TraesCS3B01G072100 chr6B 95.652 46 0 2 4242 4286 2253124 2253080 6.120000e-09 73.1
48 TraesCS3B01G072100 chr4B 95.833 48 2 0 4242 4289 89146583 89146630 1.320000e-10 78.7


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 TraesCS3B01G072100 chr3B 43524406 43528816 4410 True 8146.000000 8146 100.000 1 4411 1 chr3B.!!$R1 4410
1 TraesCS3B01G072100 chr3B 690446795 690449180 2385 False 1476.000000 1476 78.021 1030 3439 1 chr3B.!!$F2 2409
2 TraesCS3B01G072100 chr3B 690430451 690432699 2248 False 1437.000000 1437 78.443 1104 3368 1 chr3B.!!$F1 2264
3 TraesCS3B01G072100 chr3B 689349801 689352212 2411 True 1421.000000 1421 77.633 1029 3442 1 chr3B.!!$R4 2413
4 TraesCS3B01G072100 chr3B 642213266 642215637 2371 True 1389.000000 1389 77.525 1050 3440 1 chr3B.!!$R2 2390
5 TraesCS3B01G072100 chr3B 689005163 689007195 2032 True 1375.000000 1375 79.047 1400 3440 1 chr3B.!!$R3 2040
6 TraesCS3B01G072100 chr3B 690459880 690462103 2223 False 1363.000000 1363 78.023 1141 3380 1 chr3B.!!$F3 2239
7 TraesCS3B01G072100 chr3A 36068236 36071459 3223 True 4909.000000 4909 94.198 1030 4249 1 chr3A.!!$R1 3219
8 TraesCS3B01G072100 chr3A 658303513 658305840 2327 False 1393.000000 1393 77.825 1105 3440 1 chr3A.!!$F2 2335
9 TraesCS3B01G072100 chr3A 658289044 658291332 2288 False 1375.000000 1375 77.821 1139 3440 1 chr3A.!!$F1 2301
10 TraesCS3B01G072100 chr3A 48640159 48641506 1347 True 745.500000 1088 95.564 1 979 2 chr3A.!!$R2 978
11 TraesCS3B01G072100 chr7B 712624466 712625449 983 True 1696.000000 1696 97.764 1 984 1 chr7B.!!$R1 983
12 TraesCS3B01G072100 chr7B 693288740 693289244 504 False 832.000000 832 96.436 229 732 1 chr7B.!!$F1 503
13 TraesCS3B01G072100 chr1A 507225026 507225918 892 True 1535.000000 1535 97.654 1 895 1 chr1A.!!$R1 894
14 TraesCS3B01G072100 chrUn 330561031 330563340 2309 False 1528.000000 1528 78.860 1086 3411 1 chrUn.!!$F3 2325
15 TraesCS3B01G072100 chrUn 342677756 342679571 1815 False 1177.000000 1177 78.618 1624 3440 1 chrUn.!!$F4 1816
16 TraesCS3B01G072100 chrUn 195641584 195642273 689 True 1153.000000 1153 96.700 63 759 1 chrUn.!!$R1 696
17 TraesCS3B01G072100 chrUn 225685147 225685835 688 False 1142.000000 1142 96.413 63 759 1 chrUn.!!$F2 696
18 TraesCS3B01G072100 chrUn 431105941 431106482 541 True 857.000000 857 95.100 184 732 1 chrUn.!!$R2 548
19 TraesCS3B01G072100 chrUn 443698502 443699010 508 False 841.000000 841 96.318 244 759 1 chrUn.!!$F6 515
20 TraesCS3B01G072100 chrUn 405666919 405667753 834 False 579.000000 579 79.363 2599 3440 1 chrUn.!!$F5 841
21 TraesCS3B01G072100 chrUn 454389738 454390255 517 True 292.000000 292 77.341 1086 1610 1 chrUn.!!$R3 524
22 TraesCS3B01G072100 chr3D 523334491 523336861 2370 False 1461.000000 1461 78.072 1050 3440 1 chr3D.!!$F1 2390
23 TraesCS3B01G072100 chr3D 523555242 523563330 8088 False 1042.333333 1430 80.362 1050 3399 3 chr3D.!!$F4 2349
24 TraesCS3B01G072100 chr3D 523569670 523571139 1469 False 867.000000 867 77.470 1239 2705 1 chr3D.!!$F2 1466
25 TraesCS3B01G072100 chr1B 8849183 8849778 595 False 987.000000 987 96.488 387 984 1 chr1B.!!$F1 597
26 TraesCS3B01G072100 chr7A 714819235 714820628 1393 False 487.000000 560 94.267 1 984 2 chr7A.!!$F1 983
27 TraesCS3B01G072100 chr2A 1111896 1113287 1391 False 475.000000 558 93.554 3 984 2 chr2A.!!$F1 981

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
993 1489 2.185004 TTTCCTGTAGAGCAAGTGGC 57.815 50.0 0.0 0.0 45.30 5.01 F
1193 1733 0.035881 TCCTGCTCTCTTGCACTTGG 59.964 55.0 0.0 0.0 38.12 3.61 F
1589 2141 0.311790 CGCACAGCATTGGACAACTT 59.688 50.0 0.0 0.0 0.00 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1978 2540 0.955919 CAGCCCGGAGAAGTTGTTCC 60.956 60.000 0.73 0.0 32.48 3.62 R
2078 2640 1.197721 GATGTGCAGTTTCGGAAGGTG 59.802 52.381 0.00 0.0 0.00 4.00 R
3574 9920 0.803117 GGTCTAGCGCCCAAAAACTC 59.197 55.000 2.29 0.0 0.00 3.01 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
242 612 7.944729 AATCCCACCAGATATATATTGTTGC 57.055 36.000 0.00 0.00 0.00 4.17
503 879 6.938030 CCCGGCTTATAGGATATGTTTAACAA 59.062 38.462 0.66 0.00 0.00 2.83
559 940 4.034742 CGGCTTATATTTAAACCGTGCAGT 59.965 41.667 8.95 0.00 40.54 4.40
906 1402 4.163458 TCATATAAGCCGGGAGTTTGACTT 59.837 41.667 2.18 0.00 0.00 3.01
993 1489 2.185004 TTTCCTGTAGAGCAAGTGGC 57.815 50.000 0.00 0.00 45.30 5.01
1002 1498 2.882876 GCAAGTGGCAGCCTGATG 59.117 61.111 14.15 9.62 43.97 3.07
1003 1499 2.707849 GCAAGTGGCAGCCTGATGG 61.708 63.158 14.15 0.00 43.97 3.51
1004 1500 1.303888 CAAGTGGCAGCCTGATGGT 60.304 57.895 14.15 0.00 35.27 3.55
1005 1501 1.303888 AAGTGGCAGCCTGATGGTG 60.304 57.895 14.15 0.00 45.40 4.17
1006 1502 1.782201 AAGTGGCAGCCTGATGGTGA 61.782 55.000 14.15 0.00 45.48 4.02
1007 1503 1.077212 GTGGCAGCCTGATGGTGAT 60.077 57.895 14.15 0.00 45.48 3.06
1008 1504 0.181114 GTGGCAGCCTGATGGTGATA 59.819 55.000 14.15 0.00 45.48 2.15
1009 1505 1.142936 TGGCAGCCTGATGGTGATAT 58.857 50.000 14.15 0.00 45.48 1.63
1010 1506 1.202842 TGGCAGCCTGATGGTGATATG 60.203 52.381 14.15 0.00 45.48 1.78
1011 1507 1.531423 GCAGCCTGATGGTGATATGG 58.469 55.000 0.00 0.00 45.48 2.74
1012 1508 1.072806 GCAGCCTGATGGTGATATGGA 59.927 52.381 0.00 0.00 45.48 3.41
1013 1509 2.487805 GCAGCCTGATGGTGATATGGAA 60.488 50.000 0.00 0.00 45.48 3.53
1014 1510 3.813240 GCAGCCTGATGGTGATATGGAAT 60.813 47.826 0.00 0.00 45.48 3.01
1015 1511 4.404640 CAGCCTGATGGTGATATGGAATT 58.595 43.478 0.00 0.00 45.48 2.17
1016 1512 4.831155 CAGCCTGATGGTGATATGGAATTT 59.169 41.667 0.00 0.00 45.48 1.82
1017 1513 5.048224 CAGCCTGATGGTGATATGGAATTTC 60.048 44.000 0.00 0.00 45.48 2.17
1018 1514 4.219288 GCCTGATGGTGATATGGAATTTCC 59.781 45.833 8.59 8.59 34.46 3.13
1019 1515 5.638133 CCTGATGGTGATATGGAATTTCCT 58.362 41.667 16.25 5.06 37.46 3.36
1020 1516 6.748045 GCCTGATGGTGATATGGAATTTCCTA 60.748 42.308 16.25 6.96 34.78 2.94
1021 1517 7.408543 CCTGATGGTGATATGGAATTTCCTAT 58.591 38.462 16.25 10.92 37.46 2.57
1022 1518 7.892241 CCTGATGGTGATATGGAATTTCCTATT 59.108 37.037 16.25 4.53 37.46 1.73
1023 1519 8.868522 TGATGGTGATATGGAATTTCCTATTC 57.131 34.615 16.25 10.11 37.46 1.75
1024 1520 8.672329 TGATGGTGATATGGAATTTCCTATTCT 58.328 33.333 16.25 0.00 37.46 2.40
1025 1521 9.171877 GATGGTGATATGGAATTTCCTATTCTC 57.828 37.037 16.25 10.04 37.46 2.87
1026 1522 8.044574 TGGTGATATGGAATTTCCTATTCTCA 57.955 34.615 16.25 9.09 37.46 3.27
1027 1523 8.672329 TGGTGATATGGAATTTCCTATTCTCAT 58.328 33.333 16.25 2.69 37.46 2.90
1075 1576 2.045438 CCACTGTAATGGCCGGCA 60.045 61.111 30.85 15.30 31.52 5.69
1100 1601 0.110104 GCTAGCTGGCTCATCCCAAT 59.890 55.000 15.78 0.00 33.73 3.16
1169 1703 2.661176 TGAAACTCCATCCCCTAGGT 57.339 50.000 8.29 0.00 0.00 3.08
1178 1715 2.324541 CATCCCCTAGGTCTCTTCCTG 58.675 57.143 8.29 0.00 38.41 3.86
1193 1733 0.035881 TCCTGCTCTCTTGCACTTGG 59.964 55.000 0.00 0.00 38.12 3.61
1589 2141 0.311790 CGCACAGCATTGGACAACTT 59.688 50.000 0.00 0.00 0.00 2.66
1617 2169 6.256757 GCACCTTTCTGAACTGTATCTATCAC 59.743 42.308 0.00 0.00 0.00 3.06
1667 2220 4.866508 AGAGATTGGTAACTTGACGACA 57.133 40.909 0.00 0.00 37.61 4.35
1733 2289 1.068333 CCACGAACAATTGGGAAGCTG 60.068 52.381 10.83 0.00 0.00 4.24
1929 2485 2.685017 AGCTCGGAGGCCACATCA 60.685 61.111 5.01 0.00 0.00 3.07
1932 2488 2.037620 GCTCGGAGGCCACATCATCT 62.038 60.000 5.01 0.00 0.00 2.90
2039 2601 1.421410 GAGGACGGCTGCGTATTGTG 61.421 60.000 0.00 0.00 0.00 3.33
2078 2640 2.282180 ACGGGCATTCACCACCAC 60.282 61.111 0.00 0.00 0.00 4.16
2100 2662 0.443869 CTTCCGAAACTGCACATCCG 59.556 55.000 0.00 0.00 0.00 4.18
2188 2756 1.963172 TGGCAGCTTAGCATGATGAG 58.037 50.000 7.07 0.00 35.83 2.90
2219 2787 3.931907 AATCACTTGTATGGCAGGCTA 57.068 42.857 0.00 0.00 0.00 3.93
2291 2859 7.611855 ACCTTCCTAGACCTATCAAACAATTTG 59.388 37.037 0.00 0.00 41.96 2.32
2438 7838 2.687935 ACGCCTAGCCAATAACCATTTG 59.312 45.455 0.00 0.00 0.00 2.32
2485 7885 8.522830 TCTTAGGAAATGCAAAAACCTTATCAG 58.477 33.333 9.63 3.82 32.90 2.90
2764 9108 6.995091 AGATTTGAGATAATTAGTGGGCAGAC 59.005 38.462 0.00 0.00 0.00 3.51
2867 9211 5.545588 TCTCTGTCACAAGAGATTCCAAAG 58.454 41.667 0.00 0.00 46.13 2.77
3214 9559 0.694771 ATGAGCCAGGCTGAAGACAA 59.305 50.000 22.26 0.00 39.88 3.18
3406 9751 2.043652 CCAGGCCAAGGTCCATGG 60.044 66.667 8.90 8.90 41.08 3.66
3444 9790 3.805422 CACGTGGTGTTGAAGTAAAGCTA 59.195 43.478 7.95 0.00 0.00 3.32
3476 9822 2.268762 TGCGCCCATTATTGAGCATA 57.731 45.000 4.18 0.00 0.00 3.14
3480 9826 3.181503 GCGCCCATTATTGAGCATATCTG 60.182 47.826 0.00 0.00 0.00 2.90
3481 9827 4.256110 CGCCCATTATTGAGCATATCTGA 58.744 43.478 0.00 0.00 0.00 3.27
3482 9828 4.093998 CGCCCATTATTGAGCATATCTGAC 59.906 45.833 0.00 0.00 0.00 3.51
3483 9829 5.251764 GCCCATTATTGAGCATATCTGACT 58.748 41.667 0.00 0.00 0.00 3.41
3484 9830 6.409704 GCCCATTATTGAGCATATCTGACTA 58.590 40.000 0.00 0.00 0.00 2.59
3485 9831 7.052873 GCCCATTATTGAGCATATCTGACTAT 58.947 38.462 0.00 0.00 0.00 2.12
3486 9832 7.226325 GCCCATTATTGAGCATATCTGACTATC 59.774 40.741 0.00 0.00 0.00 2.08
3487 9833 8.484575 CCCATTATTGAGCATATCTGACTATCT 58.515 37.037 0.00 0.00 0.00 1.98
3516 9862 8.621286 AGTACTTGTCTTCCATTGTTGTAAAAG 58.379 33.333 0.00 0.00 0.00 2.27
3565 9911 6.573664 TTTGCTAGTACTTTGATGTGCATT 57.426 33.333 0.00 0.00 0.00 3.56
3566 9912 6.573664 TTGCTAGTACTTTGATGTGCATTT 57.426 33.333 0.00 0.00 0.00 2.32
3567 9913 6.573664 TGCTAGTACTTTGATGTGCATTTT 57.426 33.333 0.00 0.00 0.00 1.82
3574 9920 9.195411 AGTACTTTGATGTGCATTTTGTTATTG 57.805 29.630 0.00 0.00 0.00 1.90
3613 9959 6.421485 AGACCTGCAAATTACAGATGAATCT 58.579 36.000 9.42 0.00 37.32 2.40
3711 10059 4.678509 TTAGCTGTAAATTGTTGGCGAG 57.321 40.909 0.00 0.00 0.00 5.03
3732 10080 3.958147 AGTTTGGAACGGAAAGGATGTTT 59.042 39.130 0.00 0.00 36.23 2.83
3739 10087 6.147581 GGAACGGAAAGGATGTTTTAAGAAC 58.852 40.000 0.00 0.00 0.00 3.01
3774 10122 3.109619 TGTTTGGTTTCGTGCGAAATTC 58.890 40.909 20.25 15.92 44.52 2.17
3801 10149 3.507622 GGAACTCCCTTGATCCAAACAAG 59.492 47.826 0.00 0.00 42.72 3.16
3802 10150 2.519013 ACTCCCTTGATCCAAACAAGC 58.481 47.619 0.00 0.00 42.03 4.01
3815 10163 7.939039 TGATCCAAACAAGCCCTAGATTTATAG 59.061 37.037 0.00 0.00 0.00 1.31
3817 10165 7.867921 TCCAAACAAGCCCTAGATTTATAGAA 58.132 34.615 0.00 0.00 0.00 2.10
3940 10290 1.886542 GCCTGGATTCTGAAACCGTTT 59.113 47.619 11.46 0.00 0.00 3.60
3941 10291 2.095212 GCCTGGATTCTGAAACCGTTTC 60.095 50.000 15.81 15.81 40.08 2.78
3942 10292 3.146066 CCTGGATTCTGAAACCGTTTCA 58.854 45.455 22.32 22.32 46.68 2.69
3943 10293 3.058224 CCTGGATTCTGAAACCGTTTCAC 60.058 47.826 20.42 11.88 44.21 3.18
3944 10294 3.815401 CTGGATTCTGAAACCGTTTCACT 59.185 43.478 20.42 9.83 44.21 3.41
3945 10295 4.204012 TGGATTCTGAAACCGTTTCACTT 58.796 39.130 20.42 9.66 44.21 3.16
4037 10387 7.393234 TCATTGTTCCCAAGTAAAGATTAGTGG 59.607 37.037 0.00 0.00 33.17 4.00
4049 10399 5.453567 AAGATTAGTGGCTTTGTGGTTTC 57.546 39.130 0.00 0.00 0.00 2.78
4075 10425 9.897744 CTTCAGAAATCAAAACAAGTATGCTAA 57.102 29.630 0.00 0.00 0.00 3.09
4094 10444 5.928839 TGCTAATTCTTCACTTCTCAGACAC 59.071 40.000 0.00 0.00 0.00 3.67
4127 10477 6.327386 AGCTTAAGAGGAATCCACCATTAA 57.673 37.500 6.67 0.66 0.00 1.40
4131 10481 7.040823 GCTTAAGAGGAATCCACCATTAATGAG 60.041 40.741 17.23 9.36 0.00 2.90
4159 10509 4.631813 CCAAGTGTTAGCGAGCTTTTAGAT 59.368 41.667 1.86 0.00 0.00 1.98
4194 10544 4.389576 CGTGCTTCCGGCTGTTGC 62.390 66.667 0.00 0.00 42.39 4.17
4198 10548 2.972505 CTTCCGGCTGTTGCACGT 60.973 61.111 0.00 0.00 41.91 4.49
4236 10586 7.540745 GCACAACACAAAAGAAAGAGTAAAAGA 59.459 33.333 0.00 0.00 0.00 2.52
4242 10592 8.534778 CACAAAAGAAAGAGTAAAAGAACATGC 58.465 33.333 0.00 0.00 0.00 4.06
4243 10593 8.250332 ACAAAAGAAAGAGTAAAAGAACATGCA 58.750 29.630 0.00 0.00 0.00 3.96
4244 10594 8.534778 CAAAAGAAAGAGTAAAAGAACATGCAC 58.465 33.333 0.00 0.00 0.00 4.57
4245 10595 7.573968 AAGAAAGAGTAAAAGAACATGCACT 57.426 32.000 0.00 0.00 0.00 4.40
4247 10597 8.089115 AGAAAGAGTAAAAGAACATGCACTAC 57.911 34.615 0.00 0.00 0.00 2.73
4248 10598 7.934120 AGAAAGAGTAAAAGAACATGCACTACT 59.066 33.333 0.00 0.00 0.00 2.57
4249 10599 9.204570 GAAAGAGTAAAAGAACATGCACTACTA 57.795 33.333 0.00 0.00 0.00 1.82
4250 10600 8.764524 AAGAGTAAAAGAACATGCACTACTAG 57.235 34.615 0.00 0.00 0.00 2.57
4251 10601 7.324178 AGAGTAAAAGAACATGCACTACTAGG 58.676 38.462 0.00 0.00 0.00 3.02
4252 10602 7.178628 AGAGTAAAAGAACATGCACTACTAGGA 59.821 37.037 0.00 0.00 0.00 2.94
4253 10603 7.324178 AGTAAAAGAACATGCACTACTAGGAG 58.676 38.462 0.00 0.00 0.00 3.69
4254 10604 6.360370 AAAAGAACATGCACTACTAGGAGA 57.640 37.500 9.61 0.00 0.00 3.71
4255 10605 6.360370 AAAGAACATGCACTACTAGGAGAA 57.640 37.500 9.61 0.00 0.00 2.87
4256 10606 6.360370 AAGAACATGCACTACTAGGAGAAA 57.640 37.500 9.61 0.00 0.00 2.52
4257 10607 6.360370 AGAACATGCACTACTAGGAGAAAA 57.640 37.500 9.61 0.00 0.00 2.29
4258 10608 6.166982 AGAACATGCACTACTAGGAGAAAAC 58.833 40.000 9.61 0.00 0.00 2.43
4259 10609 5.746990 ACATGCACTACTAGGAGAAAACT 57.253 39.130 9.61 0.00 0.00 2.66
4260 10610 6.115448 ACATGCACTACTAGGAGAAAACTT 57.885 37.500 9.61 0.00 0.00 2.66
4261 10611 7.241042 ACATGCACTACTAGGAGAAAACTTA 57.759 36.000 9.61 0.00 0.00 2.24
4262 10612 7.852263 ACATGCACTACTAGGAGAAAACTTAT 58.148 34.615 9.61 0.00 0.00 1.73
4263 10613 8.978472 ACATGCACTACTAGGAGAAAACTTATA 58.022 33.333 9.61 0.00 0.00 0.98
4264 10614 9.469807 CATGCACTACTAGGAGAAAACTTATAG 57.530 37.037 9.61 0.00 0.00 1.31
4265 10615 8.818622 TGCACTACTAGGAGAAAACTTATAGA 57.181 34.615 9.61 0.00 0.00 1.98
4266 10616 9.422681 TGCACTACTAGGAGAAAACTTATAGAT 57.577 33.333 9.61 0.00 0.00 1.98
4283 10633 9.016438 ACTTATAGATAGAACCTTAGCAGTAGC 57.984 37.037 0.00 0.00 42.56 3.58
4293 10643 3.188786 GCAGTAGCGCGGGAACTG 61.189 66.667 22.80 22.80 42.80 3.16
4294 10644 2.509336 CAGTAGCGCGGGAACTGG 60.509 66.667 20.68 8.20 37.55 4.00
4295 10645 4.452733 AGTAGCGCGGGAACTGGC 62.453 66.667 8.83 0.00 33.56 4.85
4316 10666 2.924432 CGGCGCTACTGCTAATTAAC 57.076 50.000 7.64 0.00 36.97 2.01
4317 10667 2.198406 CGGCGCTACTGCTAATTAACA 58.802 47.619 7.64 0.00 36.97 2.41
4318 10668 2.218759 CGGCGCTACTGCTAATTAACAG 59.781 50.000 13.20 13.20 39.86 3.16
4320 10670 4.365723 GGCGCTACTGCTAATTAACAGTA 58.634 43.478 21.64 21.64 45.09 2.74
4326 10676 2.280764 GCTAATTAACAGTAGCGCGC 57.719 50.000 26.66 26.66 36.88 6.86
4327 10677 1.591158 GCTAATTAACAGTAGCGCGCA 59.409 47.619 35.10 16.82 36.88 6.09
4328 10678 2.221055 GCTAATTAACAGTAGCGCGCAT 59.779 45.455 35.10 20.44 36.88 4.73
4329 10679 2.737467 AATTAACAGTAGCGCGCATG 57.263 45.000 35.10 28.45 0.00 4.06
4330 10680 1.934589 ATTAACAGTAGCGCGCATGA 58.065 45.000 35.10 15.60 0.00 3.07
4331 10681 1.934589 TTAACAGTAGCGCGCATGAT 58.065 45.000 35.10 23.59 0.00 2.45
4332 10682 2.785713 TAACAGTAGCGCGCATGATA 57.214 45.000 35.10 22.57 0.00 2.15
4333 10683 1.491670 AACAGTAGCGCGCATGATAG 58.508 50.000 35.10 19.22 0.00 2.08
4334 10684 0.668535 ACAGTAGCGCGCATGATAGA 59.331 50.000 35.10 5.87 0.00 1.98
4335 10685 1.270826 ACAGTAGCGCGCATGATAGAT 59.729 47.619 35.10 12.60 0.00 1.98
4336 10686 1.652619 CAGTAGCGCGCATGATAGATG 59.347 52.381 35.10 15.34 0.00 2.90
4337 10687 1.541588 AGTAGCGCGCATGATAGATGA 59.458 47.619 35.10 1.46 0.00 2.92
4338 10688 1.916651 GTAGCGCGCATGATAGATGAG 59.083 52.381 35.10 0.00 0.00 2.90
4339 10689 1.013005 AGCGCGCATGATAGATGAGC 61.013 55.000 35.10 0.00 40.61 4.26
4340 10690 1.287041 GCGCGCATGATAGATGAGCA 61.287 55.000 29.10 0.00 43.45 4.26
4341 10691 0.437678 CGCGCATGATAGATGAGCAC 59.562 55.000 8.75 0.00 43.45 4.40
4342 10692 1.793258 GCGCATGATAGATGAGCACT 58.207 50.000 0.30 0.00 42.92 4.40
4343 10693 2.669391 CGCGCATGATAGATGAGCACTA 60.669 50.000 8.75 0.00 43.45 2.74
4344 10694 2.665537 GCGCATGATAGATGAGCACTAC 59.334 50.000 0.30 0.00 42.92 2.73
4345 10695 3.858503 GCGCATGATAGATGAGCACTACA 60.859 47.826 0.30 0.00 42.92 2.74
4346 10696 4.301628 CGCATGATAGATGAGCACTACAA 58.698 43.478 0.00 0.00 0.00 2.41
4347 10697 4.385146 CGCATGATAGATGAGCACTACAAG 59.615 45.833 0.00 0.00 0.00 3.16
4348 10698 5.295950 GCATGATAGATGAGCACTACAAGT 58.704 41.667 0.00 0.00 0.00 3.16
4349 10699 6.450545 GCATGATAGATGAGCACTACAAGTA 58.549 40.000 0.00 0.00 0.00 2.24
4350 10700 7.095910 GCATGATAGATGAGCACTACAAGTAT 58.904 38.462 0.00 0.00 0.00 2.12
4351 10701 7.063191 GCATGATAGATGAGCACTACAAGTATG 59.937 40.741 0.00 0.00 0.00 2.39
4352 10702 6.986250 TGATAGATGAGCACTACAAGTATGG 58.014 40.000 0.00 0.00 0.00 2.74
4353 10703 6.777580 TGATAGATGAGCACTACAAGTATGGA 59.222 38.462 0.00 0.00 0.00 3.41
4354 10704 5.939764 AGATGAGCACTACAAGTATGGAA 57.060 39.130 0.00 0.00 0.00 3.53
4355 10705 5.665459 AGATGAGCACTACAAGTATGGAAC 58.335 41.667 0.00 0.00 0.00 3.62
4356 10706 5.423610 AGATGAGCACTACAAGTATGGAACT 59.576 40.000 0.00 0.00 41.49 3.01
4357 10707 6.607600 AGATGAGCACTACAAGTATGGAACTA 59.392 38.462 0.00 0.00 37.50 2.24
4358 10708 6.208988 TGAGCACTACAAGTATGGAACTAG 57.791 41.667 0.00 0.00 37.50 2.57
4359 10709 5.012328 AGCACTACAAGTATGGAACTAGC 57.988 43.478 0.00 0.00 37.50 3.42
4360 10710 4.466370 AGCACTACAAGTATGGAACTAGCA 59.534 41.667 0.00 0.00 37.50 3.49
4361 10711 4.806247 GCACTACAAGTATGGAACTAGCAG 59.194 45.833 0.00 0.00 37.50 4.24
4362 10712 5.624738 GCACTACAAGTATGGAACTAGCAGT 60.625 44.000 0.00 0.00 37.50 4.40
4363 10713 6.405508 GCACTACAAGTATGGAACTAGCAGTA 60.406 42.308 0.00 0.00 37.50 2.74
4364 10714 7.197017 CACTACAAGTATGGAACTAGCAGTAG 58.803 42.308 0.00 0.00 37.50 2.57
4365 10715 5.012328 ACAAGTATGGAACTAGCAGTAGC 57.988 43.478 0.00 0.00 37.50 3.58
4366 10716 4.466370 ACAAGTATGGAACTAGCAGTAGCA 59.534 41.667 0.00 0.00 39.79 3.49
4367 10717 5.129485 ACAAGTATGGAACTAGCAGTAGCAT 59.871 40.000 0.00 0.00 39.79 3.79
4368 10718 5.878406 AGTATGGAACTAGCAGTAGCATT 57.122 39.130 0.00 0.00 45.49 3.56
4369 10719 5.605534 AGTATGGAACTAGCAGTAGCATTG 58.394 41.667 0.00 0.00 45.49 2.82
4370 10720 3.266510 TGGAACTAGCAGTAGCATTGG 57.733 47.619 0.00 0.00 45.49 3.16
4371 10721 2.837591 TGGAACTAGCAGTAGCATTGGA 59.162 45.455 0.00 0.00 45.49 3.53
4372 10722 3.455910 TGGAACTAGCAGTAGCATTGGAT 59.544 43.478 0.00 0.00 45.49 3.41
4373 10723 4.653801 TGGAACTAGCAGTAGCATTGGATA 59.346 41.667 0.00 0.00 45.49 2.59
4374 10724 5.221521 TGGAACTAGCAGTAGCATTGGATAG 60.222 44.000 0.00 0.00 45.49 2.08
4375 10725 4.264460 ACTAGCAGTAGCATTGGATAGC 57.736 45.455 0.00 0.00 45.49 2.97
4376 10726 2.557920 AGCAGTAGCATTGGATAGCC 57.442 50.000 0.00 0.00 45.49 3.93
4377 10727 2.053244 AGCAGTAGCATTGGATAGCCT 58.947 47.619 0.00 0.00 45.49 4.58
4378 10728 3.242867 AGCAGTAGCATTGGATAGCCTA 58.757 45.455 0.00 0.00 45.49 3.93
4379 10729 3.007398 AGCAGTAGCATTGGATAGCCTAC 59.993 47.826 0.00 0.00 45.49 3.18
4380 10730 3.866449 GCAGTAGCATTGGATAGCCTACC 60.866 52.174 0.00 0.00 41.58 3.18
4381 10731 3.324846 CAGTAGCATTGGATAGCCTACCA 59.675 47.826 0.00 0.00 34.31 3.25
4383 10733 3.214696 AGCATTGGATAGCCTACCAAC 57.785 47.619 0.00 0.00 46.67 3.77
4384 10734 1.873591 GCATTGGATAGCCTACCAACG 59.126 52.381 0.00 2.45 46.67 4.10
4385 10735 1.873591 CATTGGATAGCCTACCAACGC 59.126 52.381 0.00 0.00 46.67 4.84
4386 10736 1.200519 TTGGATAGCCTACCAACGCT 58.799 50.000 0.00 0.00 40.59 5.07
4387 10737 2.076207 TGGATAGCCTACCAACGCTA 57.924 50.000 0.00 0.00 41.59 4.26
4388 10738 1.684983 TGGATAGCCTACCAACGCTAC 59.315 52.381 0.00 0.00 40.25 3.58
4389 10739 1.962100 GGATAGCCTACCAACGCTACT 59.038 52.381 0.00 0.00 40.25 2.57
4390 10740 2.288273 GGATAGCCTACCAACGCTACTG 60.288 54.545 0.00 0.00 40.25 2.74
4391 10741 0.458669 TAGCCTACCAACGCTACTGC 59.541 55.000 0.00 0.00 36.53 4.40
4392 10742 1.218316 GCCTACCAACGCTACTGCT 59.782 57.895 0.00 0.00 36.97 4.24
4393 10743 0.806492 GCCTACCAACGCTACTGCTC 60.806 60.000 0.00 0.00 36.97 4.26
4394 10744 0.818296 CCTACCAACGCTACTGCTCT 59.182 55.000 0.00 0.00 36.97 4.09
4395 10745 1.469940 CCTACCAACGCTACTGCTCTG 60.470 57.143 0.00 0.00 36.97 3.35
4396 10746 1.202582 CTACCAACGCTACTGCTCTGT 59.797 52.381 0.00 0.00 36.97 3.41
4397 10747 0.319900 ACCAACGCTACTGCTCTGTG 60.320 55.000 0.00 0.00 36.97 3.66
4398 10748 1.016130 CCAACGCTACTGCTCTGTGG 61.016 60.000 0.00 0.00 36.97 4.17
4399 10749 0.038251 CAACGCTACTGCTCTGTGGA 60.038 55.000 0.00 0.00 36.97 4.02
4400 10750 0.038159 AACGCTACTGCTCTGTGGAC 60.038 55.000 0.00 0.00 36.97 4.02
4401 10751 1.153745 CGCTACTGCTCTGTGGACC 60.154 63.158 0.00 0.00 36.97 4.46
4402 10752 1.219393 GCTACTGCTCTGTGGACCC 59.781 63.158 0.00 0.00 36.03 4.46
4403 10753 1.261238 GCTACTGCTCTGTGGACCCT 61.261 60.000 0.00 0.00 36.03 4.34
4404 10754 1.270907 CTACTGCTCTGTGGACCCTT 58.729 55.000 0.00 0.00 0.00 3.95
4405 10755 1.205893 CTACTGCTCTGTGGACCCTTC 59.794 57.143 0.00 0.00 0.00 3.46
4406 10756 1.298014 CTGCTCTGTGGACCCTTCC 59.702 63.158 0.00 0.00 43.19 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
242 612 2.156917 TGATCCAGCAAGCAAAGTGAG 58.843 47.619 0.00 0.00 0.00 3.51
503 879 2.972713 ACACGGCTTATAGGACATCCAT 59.027 45.455 0.00 0.00 38.89 3.41
596 977 0.249398 AAACCGAGTGCCTAAGCGAT 59.751 50.000 0.00 0.00 44.31 4.58
807 1303 4.897140 ACACTTGGTTTACGTATAAGCCA 58.103 39.130 2.80 2.80 46.58 4.75
984 1480 1.677966 CATCAGGCTGCCACTTGCT 60.678 57.895 22.65 0.00 42.00 3.91
985 1481 2.707849 CCATCAGGCTGCCACTTGC 61.708 63.158 22.65 0.00 41.77 4.01
986 1482 1.303888 ACCATCAGGCTGCCACTTG 60.304 57.895 22.65 10.87 39.06 3.16
987 1483 1.303888 CACCATCAGGCTGCCACTT 60.304 57.895 22.65 1.00 39.06 3.16
988 1484 1.569030 ATCACCATCAGGCTGCCACT 61.569 55.000 22.65 0.00 39.06 4.00
989 1485 0.181114 TATCACCATCAGGCTGCCAC 59.819 55.000 22.65 0.00 39.06 5.01
990 1486 1.142936 ATATCACCATCAGGCTGCCA 58.857 50.000 22.65 0.22 39.06 4.92
991 1487 1.531423 CATATCACCATCAGGCTGCC 58.469 55.000 11.65 11.65 39.06 4.85
992 1488 1.072806 TCCATATCACCATCAGGCTGC 59.927 52.381 10.34 0.00 39.06 5.25
993 1489 3.497103 TTCCATATCACCATCAGGCTG 57.503 47.619 8.58 8.58 39.06 4.85
994 1490 4.736611 AATTCCATATCACCATCAGGCT 57.263 40.909 0.00 0.00 39.06 4.58
995 1491 4.219288 GGAAATTCCATATCACCATCAGGC 59.781 45.833 7.23 0.00 35.69 4.85
996 1492 5.638133 AGGAAATTCCATATCACCATCAGG 58.362 41.667 15.21 0.00 39.61 3.86
997 1493 8.874744 AATAGGAAATTCCATATCACCATCAG 57.125 34.615 15.21 0.00 39.61 2.90
998 1494 8.672329 AGAATAGGAAATTCCATATCACCATCA 58.328 33.333 15.21 0.00 39.61 3.07
999 1495 9.171877 GAGAATAGGAAATTCCATATCACCATC 57.828 37.037 15.21 4.14 39.61 3.51
1000 1496 8.672329 TGAGAATAGGAAATTCCATATCACCAT 58.328 33.333 15.21 0.00 39.61 3.55
1001 1497 8.044574 TGAGAATAGGAAATTCCATATCACCA 57.955 34.615 15.21 7.97 39.61 4.17
1002 1498 8.954350 CATGAGAATAGGAAATTCCATATCACC 58.046 37.037 15.21 5.83 39.61 4.02
1003 1499 9.512588 ACATGAGAATAGGAAATTCCATATCAC 57.487 33.333 15.21 7.87 39.61 3.06
1004 1500 9.511272 CACATGAGAATAGGAAATTCCATATCA 57.489 33.333 15.21 12.44 39.61 2.15
1005 1501 9.512588 ACACATGAGAATAGGAAATTCCATATC 57.487 33.333 15.21 8.58 39.61 1.63
1006 1502 9.293404 CACACATGAGAATAGGAAATTCCATAT 57.707 33.333 15.21 6.50 39.61 1.78
1007 1503 7.229306 GCACACATGAGAATAGGAAATTCCATA 59.771 37.037 15.21 4.41 39.61 2.74
1008 1504 6.040166 GCACACATGAGAATAGGAAATTCCAT 59.960 38.462 15.21 3.15 39.61 3.41
1009 1505 5.357878 GCACACATGAGAATAGGAAATTCCA 59.642 40.000 15.21 0.69 39.61 3.53
1010 1506 5.221126 GGCACACATGAGAATAGGAAATTCC 60.221 44.000 3.29 3.29 36.58 3.01
1011 1507 5.357878 TGGCACACATGAGAATAGGAAATTC 59.642 40.000 0.00 0.00 0.00 2.17
1012 1508 5.263599 TGGCACACATGAGAATAGGAAATT 58.736 37.500 0.00 0.00 0.00 1.82
1013 1509 4.858850 TGGCACACATGAGAATAGGAAAT 58.141 39.130 0.00 0.00 0.00 2.17
1014 1510 4.299586 TGGCACACATGAGAATAGGAAA 57.700 40.909 0.00 0.00 0.00 3.13
1015 1511 3.998913 TGGCACACATGAGAATAGGAA 57.001 42.857 0.00 0.00 0.00 3.36
1084 1585 0.333993 AACATTGGGATGAGCCAGCT 59.666 50.000 0.00 0.00 38.95 4.24
1100 1601 4.385199 CCCTGGTGCAGAGGATATAAAACA 60.385 45.833 12.56 0.00 32.44 2.83
1169 1703 1.274728 GTGCAAGAGAGCAGGAAGAGA 59.725 52.381 0.00 0.00 46.69 3.10
1178 1715 1.874562 CAGCCAAGTGCAAGAGAGC 59.125 57.895 0.00 0.00 44.83 4.09
1193 1733 1.493950 CGGCAGCACATAGTAGCAGC 61.494 60.000 0.00 0.00 41.77 5.25
1250 1796 2.024176 TCCAATTCACTAGCGCTTCC 57.976 50.000 18.68 0.00 0.00 3.46
1589 2141 6.360370 AGATACAGTTCAGAAAGGTGCTTA 57.640 37.500 0.00 0.00 0.00 3.09
1617 2169 3.055580 GCTATCGAGCCCCAGGAG 58.944 66.667 0.00 0.00 43.49 3.69
1902 2458 1.674057 CTCCGAGCTGGTTTCCTGT 59.326 57.895 0.00 0.00 39.52 4.00
1929 2485 4.685575 GCTGCTATTCCCAAACTCAGAGAT 60.686 45.833 3.79 0.00 0.00 2.75
1932 2488 2.356125 GGCTGCTATTCCCAAACTCAGA 60.356 50.000 0.00 0.00 0.00 3.27
1978 2540 0.955919 CAGCCCGGAGAAGTTGTTCC 60.956 60.000 0.73 0.00 32.48 3.62
2039 2601 3.118261 TGAATCCATTGGACCTAGCACTC 60.118 47.826 7.76 0.00 32.98 3.51
2078 2640 1.197721 GATGTGCAGTTTCGGAAGGTG 59.802 52.381 0.00 0.00 0.00 4.00
2100 2662 2.993899 CCGTGAAGTCAACATACCTCAC 59.006 50.000 0.00 0.00 37.43 3.51
2188 2756 5.925969 CCATACAAGTGATTTTGACCCAAAC 59.074 40.000 0.00 0.00 32.79 2.93
2219 2787 1.687612 CTTGCCCCCATCTGTCAGT 59.312 57.895 0.00 0.00 0.00 3.41
2266 2834 7.611855 ACAAATTGTTTGATAGGTCTAGGAAGG 59.388 37.037 9.21 0.00 43.26 3.46
2389 7789 7.721402 ACAGATAAGATTATCTTCGCAAGTCT 58.279 34.615 11.06 4.44 45.65 3.24
2485 7885 7.936301 AGAAATTATTGCCTCCAAGATCTAGAC 59.064 37.037 0.00 0.00 33.80 2.59
2744 8148 4.962362 TGAGTCTGCCCACTAATTATCTCA 59.038 41.667 0.00 0.00 0.00 3.27
2764 9108 4.475944 CGCACCTTTCCAAACTATTTGAG 58.524 43.478 2.86 0.00 43.26 3.02
2924 9268 2.115291 GTCTTCGGGAATGCAGCCC 61.115 63.158 15.75 15.75 42.41 5.19
3214 9559 2.036256 GCCACAATGCCTCCCTGT 59.964 61.111 0.00 0.00 0.00 4.00
3406 9751 1.466167 ACGTGATGCACTTTGCTCATC 59.534 47.619 0.00 0.00 45.31 2.92
3444 9790 3.036577 GCGCATATGCCTGCACAT 58.963 55.556 21.77 0.00 42.40 3.21
3476 9822 9.116067 GAAGACAAGTACTACAGATAGTCAGAT 57.884 37.037 0.00 0.00 40.98 2.90
3480 9826 7.627298 TGGAAGACAAGTACTACAGATAGTC 57.373 40.000 0.00 0.00 40.98 2.59
3481 9827 8.470805 CAATGGAAGACAAGTACTACAGATAGT 58.529 37.037 0.00 0.00 44.22 2.12
3482 9828 8.470805 ACAATGGAAGACAAGTACTACAGATAG 58.529 37.037 0.00 0.00 34.25 2.08
3483 9829 8.362464 ACAATGGAAGACAAGTACTACAGATA 57.638 34.615 0.00 0.00 0.00 1.98
3484 9830 7.246171 ACAATGGAAGACAAGTACTACAGAT 57.754 36.000 0.00 0.00 0.00 2.90
3485 9831 6.665992 ACAATGGAAGACAAGTACTACAGA 57.334 37.500 0.00 0.00 0.00 3.41
3486 9832 6.706270 ACAACAATGGAAGACAAGTACTACAG 59.294 38.462 0.00 0.00 0.00 2.74
3487 9833 6.588204 ACAACAATGGAAGACAAGTACTACA 58.412 36.000 0.00 0.00 0.00 2.74
3516 9862 9.947669 ATACACATAACTTCGTAGTCAGTATTC 57.052 33.333 0.00 0.00 31.99 1.75
3528 9874 8.630278 AGTACTAGCAAATACACATAACTTCG 57.370 34.615 0.00 0.00 0.00 3.79
3535 9881 8.668353 CACATCAAAGTACTAGCAAATACACAT 58.332 33.333 0.00 0.00 0.00 3.21
3565 9911 3.804873 GCGCCCAAAAACTCAATAACAAA 59.195 39.130 0.00 0.00 0.00 2.83
3566 9912 3.068873 AGCGCCCAAAAACTCAATAACAA 59.931 39.130 2.29 0.00 0.00 2.83
3567 9913 2.625790 AGCGCCCAAAAACTCAATAACA 59.374 40.909 2.29 0.00 0.00 2.41
3574 9920 0.803117 GGTCTAGCGCCCAAAAACTC 59.197 55.000 2.29 0.00 0.00 3.01
3613 9959 9.539825 ACACAATCAAAAAGTAAATATTGCACA 57.460 25.926 0.00 0.00 0.00 4.57
3630 9976 9.693739 ATCCAAATATACTTACCACACAATCAA 57.306 29.630 0.00 0.00 0.00 2.57
3690 10036 4.069304 ACTCGCCAACAATTTACAGCTAA 58.931 39.130 0.00 0.00 0.00 3.09
3691 10037 3.670625 ACTCGCCAACAATTTACAGCTA 58.329 40.909 0.00 0.00 0.00 3.32
3692 10038 2.504367 ACTCGCCAACAATTTACAGCT 58.496 42.857 0.00 0.00 0.00 4.24
3693 10039 2.989422 ACTCGCCAACAATTTACAGC 57.011 45.000 0.00 0.00 0.00 4.40
3694 10040 3.980775 CCAAACTCGCCAACAATTTACAG 59.019 43.478 0.00 0.00 0.00 2.74
3695 10041 3.632604 TCCAAACTCGCCAACAATTTACA 59.367 39.130 0.00 0.00 0.00 2.41
3696 10042 4.231718 TCCAAACTCGCCAACAATTTAC 57.768 40.909 0.00 0.00 0.00 2.01
3697 10043 4.612943 GTTCCAAACTCGCCAACAATTTA 58.387 39.130 0.00 0.00 0.00 1.40
3702 10050 1.440938 CCGTTCCAAACTCGCCAACA 61.441 55.000 0.00 0.00 0.00 3.33
3706 10054 0.237498 CTTTCCGTTCCAAACTCGCC 59.763 55.000 0.00 0.00 0.00 5.54
3711 10059 4.316205 AAACATCCTTTCCGTTCCAAAC 57.684 40.909 0.00 0.00 0.00 2.93
3739 10087 7.223777 ACGAAACCAAACAATAATCCACAAAAG 59.776 33.333 0.00 0.00 0.00 2.27
3774 10122 2.040278 TGGATCAAGGGAGTTCCACAAG 59.960 50.000 0.00 0.00 38.24 3.16
3801 10149 8.910351 ATTGTGAAGTTCTATAAATCTAGGGC 57.090 34.615 4.17 0.00 0.00 5.19
3896 10244 7.147742 GGCATTTTCACCAATTAGGAATTCCTA 60.148 37.037 27.24 27.24 46.48 2.94
3907 10257 4.533311 AGAATCCAGGCATTTTCACCAATT 59.467 37.500 0.00 0.00 0.00 2.32
3959 10309 2.146342 AGCATCGTCCAGAACACAAAG 58.854 47.619 0.00 0.00 0.00 2.77
4037 10387 5.591099 TGATTTCTGAAGAAACCACAAAGC 58.409 37.500 7.62 0.00 45.55 3.51
4049 10399 9.897744 TTAGCATACTTGTTTTGATTTCTGAAG 57.102 29.630 0.00 0.00 0.00 3.02
4067 10417 7.761704 TGTCTGAGAAGTGAAGAATTAGCATAC 59.238 37.037 0.00 0.00 0.00 2.39
4075 10425 5.543507 AGTGTGTCTGAGAAGTGAAGAAT 57.456 39.130 0.00 0.00 0.00 2.40
4094 10444 6.093357 GGATTCCTCTTAAGCTTCTTCAAGTG 59.907 42.308 0.00 1.96 31.45 3.16
4127 10477 2.679837 CGCTAACACTTGGCATTCTCAT 59.320 45.455 0.00 0.00 36.91 2.90
4131 10481 1.202076 GCTCGCTAACACTTGGCATTC 60.202 52.381 0.00 0.00 36.91 2.67
4159 10509 2.098607 CACGCCGACTAAAGGATGAGTA 59.901 50.000 0.00 0.00 0.00 2.59
4186 10536 4.030452 GGAGCACGTGCAACAGCC 62.030 66.667 39.21 26.55 45.16 4.85
4194 10544 1.726865 TGCAACAAAGGAGCACGTG 59.273 52.632 12.28 12.28 32.55 4.49
4227 10577 7.321153 TCCTAGTAGTGCATGTTCTTTTACTC 58.679 38.462 0.00 0.00 0.00 2.59
4236 10586 6.115448 AGTTTTCTCCTAGTAGTGCATGTT 57.885 37.500 0.00 0.00 0.00 2.71
4257 10607 9.016438 GCTACTGCTAAGGTTCTATCTATAAGT 57.984 37.037 0.00 0.00 36.03 2.24
4258 10608 8.178964 CGCTACTGCTAAGGTTCTATCTATAAG 58.821 40.741 0.00 0.00 36.97 1.73
4259 10609 7.361885 GCGCTACTGCTAAGGTTCTATCTATAA 60.362 40.741 0.00 0.00 36.97 0.98
4260 10610 6.093771 GCGCTACTGCTAAGGTTCTATCTATA 59.906 42.308 0.00 0.00 36.97 1.31
4261 10611 5.106078 GCGCTACTGCTAAGGTTCTATCTAT 60.106 44.000 0.00 0.00 36.97 1.98
4262 10612 4.215827 GCGCTACTGCTAAGGTTCTATCTA 59.784 45.833 0.00 0.00 36.97 1.98
4263 10613 3.004944 GCGCTACTGCTAAGGTTCTATCT 59.995 47.826 0.00 0.00 36.97 1.98
4264 10614 3.310246 GCGCTACTGCTAAGGTTCTATC 58.690 50.000 0.00 0.00 36.97 2.08
4265 10615 2.287668 CGCGCTACTGCTAAGGTTCTAT 60.288 50.000 5.56 0.00 36.97 1.98
4266 10616 1.065102 CGCGCTACTGCTAAGGTTCTA 59.935 52.381 5.56 0.00 36.97 2.10
4267 10617 0.179134 CGCGCTACTGCTAAGGTTCT 60.179 55.000 5.56 0.00 36.97 3.01
4268 10618 1.146358 CCGCGCTACTGCTAAGGTTC 61.146 60.000 5.56 0.00 36.97 3.62
4269 10619 1.153628 CCGCGCTACTGCTAAGGTT 60.154 57.895 5.56 0.00 36.97 3.50
4270 10620 2.494918 CCGCGCTACTGCTAAGGT 59.505 61.111 5.56 0.00 36.97 3.50
4271 10621 2.279517 CCCGCGCTACTGCTAAGG 60.280 66.667 5.56 0.00 36.97 2.69
4272 10622 1.141019 TTCCCGCGCTACTGCTAAG 59.859 57.895 5.56 0.00 36.97 2.18
4273 10623 1.153706 GTTCCCGCGCTACTGCTAA 60.154 57.895 5.56 0.00 36.97 3.09
4274 10624 2.050350 AGTTCCCGCGCTACTGCTA 61.050 57.895 5.56 0.00 36.97 3.49
4275 10625 3.382832 AGTTCCCGCGCTACTGCT 61.383 61.111 5.56 0.00 36.97 4.24
4276 10626 3.188786 CAGTTCCCGCGCTACTGC 61.189 66.667 16.67 0.00 33.63 4.40
4277 10627 2.509336 CCAGTTCCCGCGCTACTG 60.509 66.667 19.95 19.95 39.13 2.74
4278 10628 4.452733 GCCAGTTCCCGCGCTACT 62.453 66.667 5.56 0.00 0.00 2.57
4297 10647 4.283432 ACTGTTAATTAGCAGTAGCGCCG 61.283 47.826 27.47 6.34 44.30 6.46
4298 10648 3.195661 ACTGTTAATTAGCAGTAGCGCC 58.804 45.455 27.47 0.00 44.30 6.53
4303 10653 4.039703 CGCGCTACTGTTAATTAGCAGTA 58.960 43.478 29.25 29.25 44.30 2.74
4304 10654 2.858344 CGCGCTACTGTTAATTAGCAGT 59.142 45.455 29.99 29.99 46.98 4.40
4305 10655 2.347661 GCGCGCTACTGTTAATTAGCAG 60.348 50.000 26.67 23.21 40.75 4.24
4306 10656 1.591158 GCGCGCTACTGTTAATTAGCA 59.409 47.619 26.67 1.83 40.75 3.49
4307 10657 1.591158 TGCGCGCTACTGTTAATTAGC 59.409 47.619 33.29 0.00 37.87 3.09
4308 10658 3.489416 TCATGCGCGCTACTGTTAATTAG 59.511 43.478 33.29 3.80 0.00 1.73
4309 10659 3.449632 TCATGCGCGCTACTGTTAATTA 58.550 40.909 33.29 7.30 0.00 1.40
4310 10660 2.276201 TCATGCGCGCTACTGTTAATT 58.724 42.857 33.29 0.93 0.00 1.40
4311 10661 1.934589 TCATGCGCGCTACTGTTAAT 58.065 45.000 33.29 11.87 0.00 1.40
4312 10662 1.934589 ATCATGCGCGCTACTGTTAA 58.065 45.000 33.29 9.65 0.00 2.01
4313 10663 2.292292 TCTATCATGCGCGCTACTGTTA 59.708 45.455 33.29 21.42 0.00 2.41
4314 10664 1.067060 TCTATCATGCGCGCTACTGTT 59.933 47.619 33.29 21.44 0.00 3.16
4315 10665 0.668535 TCTATCATGCGCGCTACTGT 59.331 50.000 33.29 16.31 0.00 3.55
4316 10666 1.652619 CATCTATCATGCGCGCTACTG 59.347 52.381 33.29 24.74 0.00 2.74
4317 10667 1.541588 TCATCTATCATGCGCGCTACT 59.458 47.619 33.29 14.24 0.00 2.57
4318 10668 1.916651 CTCATCTATCATGCGCGCTAC 59.083 52.381 33.29 3.49 0.00 3.58
4319 10669 1.733718 GCTCATCTATCATGCGCGCTA 60.734 52.381 33.29 19.04 0.00 4.26
4320 10670 1.013005 GCTCATCTATCATGCGCGCT 61.013 55.000 33.29 14.83 0.00 5.92
4321 10671 1.287041 TGCTCATCTATCATGCGCGC 61.287 55.000 27.26 27.26 32.89 6.86
4322 10672 0.437678 GTGCTCATCTATCATGCGCG 59.562 55.000 0.00 0.00 32.89 6.86
4323 10673 1.793258 AGTGCTCATCTATCATGCGC 58.207 50.000 0.00 0.00 34.78 6.09
4324 10674 3.905784 TGTAGTGCTCATCTATCATGCG 58.094 45.455 0.00 0.00 0.00 4.73
4325 10675 5.295950 ACTTGTAGTGCTCATCTATCATGC 58.704 41.667 0.00 0.00 0.00 4.06
4326 10676 7.544915 CCATACTTGTAGTGCTCATCTATCATG 59.455 40.741 0.00 0.00 0.00 3.07
4327 10677 7.452813 TCCATACTTGTAGTGCTCATCTATCAT 59.547 37.037 0.00 0.00 0.00 2.45
4328 10678 6.777580 TCCATACTTGTAGTGCTCATCTATCA 59.222 38.462 0.00 0.00 0.00 2.15
4329 10679 7.220741 TCCATACTTGTAGTGCTCATCTATC 57.779 40.000 0.00 0.00 0.00 2.08
4330 10680 7.288852 AGTTCCATACTTGTAGTGCTCATCTAT 59.711 37.037 0.00 0.00 31.29 1.98
4331 10681 6.607600 AGTTCCATACTTGTAGTGCTCATCTA 59.392 38.462 0.00 0.00 31.29 1.98
4332 10682 5.423610 AGTTCCATACTTGTAGTGCTCATCT 59.576 40.000 0.00 0.00 31.29 2.90
4333 10683 5.665459 AGTTCCATACTTGTAGTGCTCATC 58.335 41.667 0.00 0.00 31.29 2.92
4334 10684 5.683876 AGTTCCATACTTGTAGTGCTCAT 57.316 39.130 0.00 0.00 31.29 2.90
4335 10685 5.394224 GCTAGTTCCATACTTGTAGTGCTCA 60.394 44.000 0.00 0.00 38.33 4.26
4336 10686 5.044558 GCTAGTTCCATACTTGTAGTGCTC 58.955 45.833 0.00 0.00 38.33 4.26
4337 10687 4.466370 TGCTAGTTCCATACTTGTAGTGCT 59.534 41.667 0.00 0.00 38.33 4.40
4338 10688 4.755411 TGCTAGTTCCATACTTGTAGTGC 58.245 43.478 0.00 0.00 38.33 4.40
4341 10691 6.183360 TGCTACTGCTAGTTCCATACTTGTAG 60.183 42.308 0.00 0.00 43.88 2.74
4342 10692 5.655090 TGCTACTGCTAGTTCCATACTTGTA 59.345 40.000 0.00 0.00 40.48 2.41
4343 10693 4.466370 TGCTACTGCTAGTTCCATACTTGT 59.534 41.667 0.00 0.00 40.48 3.16
4344 10694 5.011090 TGCTACTGCTAGTTCCATACTTG 57.989 43.478 0.00 0.00 40.48 3.16
4345 10695 5.878406 ATGCTACTGCTAGTTCCATACTT 57.122 39.130 0.00 0.00 40.48 2.24
4346 10696 5.453903 CCAATGCTACTGCTAGTTCCATACT 60.454 44.000 0.00 0.00 40.48 2.12
4347 10697 4.752101 CCAATGCTACTGCTAGTTCCATAC 59.248 45.833 0.00 0.00 40.48 2.39
4348 10698 4.653801 TCCAATGCTACTGCTAGTTCCATA 59.346 41.667 0.00 0.00 40.48 2.74
4349 10699 3.455910 TCCAATGCTACTGCTAGTTCCAT 59.544 43.478 0.00 0.00 40.48 3.41
4350 10700 2.837591 TCCAATGCTACTGCTAGTTCCA 59.162 45.455 0.00 0.00 40.48 3.53
4351 10701 3.543680 TCCAATGCTACTGCTAGTTCC 57.456 47.619 0.00 0.00 40.48 3.62
4352 10702 4.688413 GCTATCCAATGCTACTGCTAGTTC 59.312 45.833 0.00 0.00 40.48 3.01
4353 10703 4.503991 GGCTATCCAATGCTACTGCTAGTT 60.504 45.833 0.00 0.00 40.48 2.24
4354 10704 3.007398 GGCTATCCAATGCTACTGCTAGT 59.993 47.826 0.00 0.00 40.48 2.57
4355 10705 3.260380 AGGCTATCCAATGCTACTGCTAG 59.740 47.826 0.00 0.00 35.86 3.42
4356 10706 3.242867 AGGCTATCCAATGCTACTGCTA 58.757 45.455 0.00 0.00 35.86 3.49
4357 10707 2.053244 AGGCTATCCAATGCTACTGCT 58.947 47.619 0.00 0.00 35.86 4.24
4358 10708 2.557920 AGGCTATCCAATGCTACTGC 57.442 50.000 0.00 0.00 35.56 4.40
4359 10709 3.324846 TGGTAGGCTATCCAATGCTACTG 59.675 47.826 11.77 0.00 33.74 2.74
4360 10710 3.587498 TGGTAGGCTATCCAATGCTACT 58.413 45.455 11.77 0.00 33.74 2.57
4361 10711 4.065789 GTTGGTAGGCTATCCAATGCTAC 58.934 47.826 22.63 12.33 44.03 3.58
4362 10712 3.244078 CGTTGGTAGGCTATCCAATGCTA 60.244 47.826 23.11 7.38 44.03 3.49
4363 10713 2.485479 CGTTGGTAGGCTATCCAATGCT 60.485 50.000 23.11 0.00 44.03 3.79
4364 10714 1.873591 CGTTGGTAGGCTATCCAATGC 59.126 52.381 23.11 14.92 44.03 3.56
4365 10715 5.328113 GTAGCGTTGGTAGGCTATCCAATG 61.328 50.000 26.69 26.69 46.08 2.82
4366 10716 1.768870 AGCGTTGGTAGGCTATCCAAT 59.231 47.619 22.63 10.97 43.27 3.16
4367 10717 1.200519 AGCGTTGGTAGGCTATCCAA 58.799 50.000 18.56 18.56 43.27 3.53
4368 10718 1.684983 GTAGCGTTGGTAGGCTATCCA 59.315 52.381 1.58 7.01 46.08 3.41
4369 10719 1.962100 AGTAGCGTTGGTAGGCTATCC 59.038 52.381 1.58 4.41 46.08 2.59
4370 10720 2.862921 GCAGTAGCGTTGGTAGGCTATC 60.863 54.545 0.00 0.00 46.08 2.08
4371 10721 1.068741 GCAGTAGCGTTGGTAGGCTAT 59.931 52.381 0.00 0.00 46.08 2.97
4372 10722 0.458669 GCAGTAGCGTTGGTAGGCTA 59.541 55.000 0.00 0.00 43.27 3.93
4373 10723 1.218316 GCAGTAGCGTTGGTAGGCT 59.782 57.895 0.00 0.00 46.47 4.58
4374 10724 3.795638 GCAGTAGCGTTGGTAGGC 58.204 61.111 0.00 0.00 35.42 3.93
4384 10734 1.219393 GGGTCCACAGAGCAGTAGC 59.781 63.158 0.00 0.00 42.52 3.58
4385 10735 1.205893 GAAGGGTCCACAGAGCAGTAG 59.794 57.143 0.00 0.00 42.52 2.57
4386 10736 1.267121 GAAGGGTCCACAGAGCAGTA 58.733 55.000 0.00 0.00 42.52 2.74
4387 10737 1.484444 GGAAGGGTCCACAGAGCAGT 61.484 60.000 0.00 0.00 44.26 4.40
4388 10738 1.298014 GGAAGGGTCCACAGAGCAG 59.702 63.158 0.00 0.00 44.26 4.24
4389 10739 3.483587 GGAAGGGTCCACAGAGCA 58.516 61.111 0.00 0.00 44.26 4.26


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

AutoCloner maintained by Alex Coulton.