Multiple sequence alignment - TraesCS6B01G418800

Loading Multiple Alignment...

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 TraesCS6B01G418800 chr6B 100.000 5144 0 0 1 5144 690881548 690876405 0.000000e+00 9500.0
1 TraesCS6B01G418800 chr6B 95.440 1535 58 7 1426 2958 679222334 679223858 0.000000e+00 2436.0
2 TraesCS6B01G418800 chr6B 95.446 1515 55 9 1448 2959 679225383 679226886 0.000000e+00 2403.0
3 TraesCS6B01G418800 chr6B 86.989 1199 129 22 3146 4327 673016642 673017830 0.000000e+00 1325.0
4 TraesCS6B01G418800 chr6B 90.625 256 24 0 3151 3406 292820004 292819749 1.770000e-89 340.0
5 TraesCS6B01G418800 chr6B 83.333 102 15 2 5045 5144 664896240 664896139 5.480000e-15 93.5
6 TraesCS6B01G418800 chr3D 95.891 1509 54 6 3146 4652 384009106 384010608 0.000000e+00 2436.0
7 TraesCS6B01G418800 chr3D 96.809 188 6 0 2963 3150 384008201 384008388 1.080000e-81 315.0
8 TraesCS6B01G418800 chr4B 95.704 1513 55 8 3146 4656 2711586 2710082 0.000000e+00 2425.0
9 TraesCS6B01G418800 chr4B 94.086 1505 78 6 3150 4653 97792112 97790618 0.000000e+00 2276.0
10 TraesCS6B01G418800 chr4B 95.125 841 36 3 589 1427 535057689 535058526 0.000000e+00 1321.0
11 TraesCS6B01G418800 chr4B 94.994 839 37 2 589 1427 2733237 2732404 0.000000e+00 1312.0
12 TraesCS6B01G418800 chr4B 97.368 190 5 0 2961 3150 97890515 97890326 1.790000e-84 324.0
13 TraesCS6B01G418800 chr4B 96.842 190 6 0 2961 3150 2732408 2732219 8.310000e-83 318.0
14 TraesCS6B01G418800 chr4B 96.842 190 6 0 2961 3150 535058522 535058711 8.310000e-83 318.0
15 TraesCS6B01G418800 chr4B 81.638 354 52 10 150 497 97794439 97794093 1.090000e-71 281.0
16 TraesCS6B01G418800 chr4B 83.280 311 41 10 162 465 2735415 2735109 5.070000e-70 276.0
17 TraesCS6B01G418800 chr4B 81.375 349 37 12 147 491 535057233 535057557 5.110000e-65 259.0
18 TraesCS6B01G418800 chr4B 84.615 104 9 5 5045 5143 112083918 112083817 4.240000e-16 97.1
19 TraesCS6B01G418800 chr3B 95.312 1536 57 10 1426 2958 526770577 526769054 0.000000e+00 2423.0
20 TraesCS6B01G418800 chr3B 95.185 1537 60 9 1426 2959 526764550 526763025 0.000000e+00 2416.0
21 TraesCS6B01G418800 chr3B 94.812 1542 68 10 1426 2958 71613312 71611774 0.000000e+00 2394.0
22 TraesCS6B01G418800 chr3B 94.658 1535 61 12 1426 2958 691306864 691305349 0.000000e+00 2361.0
23 TraesCS6B01G418800 chr3B 85.714 231 13 6 3146 3376 7191289 7191079 5.180000e-55 226.0
24 TraesCS6B01G418800 chrUn 95.635 1512 57 7 3146 4654 122647253 122648758 0.000000e+00 2418.0
25 TraesCS6B01G418800 chrUn 91.915 1039 40 20 389 1427 122645267 122646261 0.000000e+00 1413.0
26 TraesCS6B01G418800 chrUn 88.496 339 28 6 1 330 122644769 122645105 2.890000e-107 399.0
27 TraesCS6B01G418800 chrUn 96.842 190 6 0 2961 3150 122646257 122646446 8.310000e-83 318.0
28 TraesCS6B01G418800 chr7A 95.566 1511 59 6 3146 4654 606193716 606195220 0.000000e+00 2412.0
29 TraesCS6B01G418800 chr7A 92.212 1040 38 15 389 1427 606191727 606192724 0.000000e+00 1432.0
30 TraesCS6B01G418800 chr7A 89.971 339 23 6 1 330 606191229 606191565 1.320000e-115 427.0
31 TraesCS6B01G418800 chr7A 96.316 190 7 0 2961 3150 606192720 606192909 3.870000e-81 313.0
32 TraesCS6B01G418800 chr1B 94.733 1538 66 10 1424 2958 137021572 137020047 0.000000e+00 2377.0
33 TraesCS6B01G418800 chr1B 94.405 1537 69 10 1426 2958 435223750 435225273 0.000000e+00 2346.0
34 TraesCS6B01G418800 chr1B 94.856 836 38 3 592 1427 66933126 66932296 0.000000e+00 1301.0
35 TraesCS6B01G418800 chr1B 82.720 353 46 11 150 497 66933597 66933255 3.010000e-77 300.0
36 TraesCS6B01G418800 chr7B 94.412 1539 66 14 1426 2958 190175292 190176816 0.000000e+00 2348.0
37 TraesCS6B01G418800 chr7B 94.695 1508 72 7 3146 4651 51266335 51267836 0.000000e+00 2335.0
38 TraesCS6B01G418800 chr7B 82.670 352 48 11 147 491 51265413 51265758 3.010000e-77 300.0
39 TraesCS6B01G418800 chr5B 93.700 1508 62 15 3146 4651 474614555 474613079 0.000000e+00 2228.0
40 TraesCS6B01G418800 chr5B 93.585 1512 65 19 3146 4654 345811469 345812951 0.000000e+00 2226.0
41 TraesCS6B01G418800 chr5B 89.610 1155 79 27 280 1427 345809358 345810478 0.000000e+00 1430.0
42 TraesCS6B01G418800 chr5B 89.086 339 26 5 1 330 345809027 345809363 1.330000e-110 411.0
43 TraesCS6B01G418800 chr5B 88.889 342 27 6 1 333 474615398 474615059 1.330000e-110 411.0
44 TraesCS6B01G418800 chr5B 80.913 482 52 26 283 756 474615064 474614615 1.370000e-90 344.0
45 TraesCS6B01G418800 chr5B 87.500 88 11 0 5057 5144 141499017 141498930 9.110000e-18 102.0
46 TraesCS6B01G418800 chr1A 95.143 1153 50 4 3504 4653 2283622 2282473 0.000000e+00 1814.0
47 TraesCS6B01G418800 chr1A 95.232 839 36 3 589 1427 2284680 2283846 0.000000e+00 1325.0
48 TraesCS6B01G418800 chr1A 96.842 190 6 0 2961 3150 2283850 2283661 8.310000e-83 318.0
49 TraesCS6B01G418800 chr1A 79.944 354 38 18 150 497 2285133 2284807 4.010000e-56 230.0
50 TraesCS6B01G418800 chr2B 92.300 1039 38 14 389 1427 491292239 491293235 0.000000e+00 1437.0
51 TraesCS6B01G418800 chr2B 87.818 903 71 25 290 1184 666105181 666106052 0.000000e+00 1022.0
52 TraesCS6B01G418800 chr2B 83.012 830 66 35 22 806 541633715 541634514 0.000000e+00 682.0
53 TraesCS6B01G418800 chr2B 89.112 349 27 3 1 340 491291741 491292087 1.710000e-114 424.0
54 TraesCS6B01G418800 chr2B 88.539 349 28 6 1 340 666104844 666105189 3.710000e-111 412.0
55 TraesCS6B01G418800 chr2A 92.204 1039 39 19 389 1427 572842961 572843957 0.000000e+00 1432.0
56 TraesCS6B01G418800 chr2A 90.265 339 22 6 1 330 572842466 572842802 2.840000e-117 433.0
57 TraesCS6B01G418800 chr2A 79.688 512 70 23 9 491 173515645 173515139 6.380000e-89 339.0
58 TraesCS6B01G418800 chr2A 96.842 190 6 0 2961 3150 572843953 572844142 8.310000e-83 318.0
59 TraesCS6B01G418800 chr2A 95.833 192 7 1 2960 3150 779783272 779783463 5.000000e-80 309.0
60 TraesCS6B01G418800 chr2A 78.750 320 39 16 150 465 779738506 779738800 2.450000e-43 187.0
61 TraesCS6B01G418800 chr2A 78.750 320 39 16 150 465 779782014 779782308 2.450000e-43 187.0
62 TraesCS6B01G418800 chr3A 83.690 981 76 46 2 932 108909184 108910130 0.000000e+00 848.0
63 TraesCS6B01G418800 chr6A 88.866 494 26 5 4651 5144 600536589 600536125 9.600000e-162 580.0
64 TraesCS6B01G418800 chr6A 87.912 91 8 2 5049 5139 50934299 50934212 2.530000e-18 104.0
65 TraesCS6B01G418800 chr6A 85.294 102 11 4 5045 5144 603087826 603087727 9.110000e-18 102.0
66 TraesCS6B01G418800 chr4D 86.957 92 8 4 5054 5144 393141849 393141761 3.280000e-17 100.0
67 TraesCS6B01G418800 chr5D 85.417 96 12 2 5049 5144 548866392 548866485 1.180000e-16 99.0
68 TraesCS6B01G418800 chr5A 85.000 100 12 3 5047 5144 670139600 670139502 1.180000e-16 99.0


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 TraesCS6B01G418800 chr6B 690876405 690881548 5143 True 9500.000000 9500 100.000000 1 5144 1 chr6B.!!$R3 5143
1 TraesCS6B01G418800 chr6B 679222334 679226886 4552 False 2419.500000 2436 95.443000 1426 2959 2 chr6B.!!$F2 1533
2 TraesCS6B01G418800 chr6B 673016642 673017830 1188 False 1325.000000 1325 86.989000 3146 4327 1 chr6B.!!$F1 1181
3 TraesCS6B01G418800 chr3D 384008201 384010608 2407 False 1375.500000 2436 96.350000 2963 4652 2 chr3D.!!$F1 1689
4 TraesCS6B01G418800 chr4B 2710082 2711586 1504 True 2425.000000 2425 95.704000 3146 4656 1 chr4B.!!$R1 1510
5 TraesCS6B01G418800 chr4B 97790618 97794439 3821 True 1278.500000 2276 87.862000 150 4653 2 chr4B.!!$R5 4503
6 TraesCS6B01G418800 chr4B 2732219 2735415 3196 True 635.333333 1312 91.705333 162 3150 3 chr4B.!!$R4 2988
7 TraesCS6B01G418800 chr4B 535057233 535058711 1478 False 632.666667 1321 91.114000 147 3150 3 chr4B.!!$F1 3003
8 TraesCS6B01G418800 chr3B 526769054 526770577 1523 True 2423.000000 2423 95.312000 1426 2958 1 chr3B.!!$R4 1532
9 TraesCS6B01G418800 chr3B 526763025 526764550 1525 True 2416.000000 2416 95.185000 1426 2959 1 chr3B.!!$R3 1533
10 TraesCS6B01G418800 chr3B 71611774 71613312 1538 True 2394.000000 2394 94.812000 1426 2958 1 chr3B.!!$R2 1532
11 TraesCS6B01G418800 chr3B 691305349 691306864 1515 True 2361.000000 2361 94.658000 1426 2958 1 chr3B.!!$R5 1532
12 TraesCS6B01G418800 chrUn 122644769 122648758 3989 False 1137.000000 2418 93.222000 1 4654 4 chrUn.!!$F1 4653
13 TraesCS6B01G418800 chr7A 606191229 606195220 3991 False 1146.000000 2412 93.516250 1 4654 4 chr7A.!!$F1 4653
14 TraesCS6B01G418800 chr1B 137020047 137021572 1525 True 2377.000000 2377 94.733000 1424 2958 1 chr1B.!!$R1 1534
15 TraesCS6B01G418800 chr1B 435223750 435225273 1523 False 2346.000000 2346 94.405000 1426 2958 1 chr1B.!!$F1 1532
16 TraesCS6B01G418800 chr1B 66932296 66933597 1301 True 800.500000 1301 88.788000 150 1427 2 chr1B.!!$R2 1277
17 TraesCS6B01G418800 chr7B 190175292 190176816 1524 False 2348.000000 2348 94.412000 1426 2958 1 chr7B.!!$F1 1532
18 TraesCS6B01G418800 chr7B 51265413 51267836 2423 False 1317.500000 2335 88.682500 147 4651 2 chr7B.!!$F2 4504
19 TraesCS6B01G418800 chr5B 345809027 345812951 3924 False 1355.666667 2226 90.760333 1 4654 3 chr5B.!!$F1 4653
20 TraesCS6B01G418800 chr5B 474613079 474615398 2319 True 994.333333 2228 87.834000 1 4651 3 chr5B.!!$R2 4650
21 TraesCS6B01G418800 chr1A 2282473 2285133 2660 True 921.750000 1814 91.790250 150 4653 4 chr1A.!!$R1 4503
22 TraesCS6B01G418800 chr2B 491291741 491293235 1494 False 930.500000 1437 90.706000 1 1427 2 chr2B.!!$F2 1426
23 TraesCS6B01G418800 chr2B 666104844 666106052 1208 False 717.000000 1022 88.178500 1 1184 2 chr2B.!!$F3 1183
24 TraesCS6B01G418800 chr2B 541633715 541634514 799 False 682.000000 682 83.012000 22 806 1 chr2B.!!$F1 784
25 TraesCS6B01G418800 chr2A 572842466 572844142 1676 False 727.666667 1432 93.103667 1 3150 3 chr2A.!!$F2 3149
26 TraesCS6B01G418800 chr2A 173515139 173515645 506 True 339.000000 339 79.688000 9 491 1 chr2A.!!$R1 482
27 TraesCS6B01G418800 chr2A 779782014 779783463 1449 False 248.000000 309 87.291500 150 3150 2 chr2A.!!$F3 3000
28 TraesCS6B01G418800 chr3A 108909184 108910130 946 False 848.000000 848 83.690000 2 932 1 chr3A.!!$F1 930

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
815 2775 0.108329 CTGCGAGGATAAACGTGGGT 60.108 55.000 0.0 0.0 0.0 4.51 F
828 2788 1.152963 GTGGGTAGCATGGCCGATT 60.153 57.895 0.0 0.0 0.0 3.34 F
1783 3755 1.407989 GGTTGATGCTCTCCTTCTGGG 60.408 57.143 0.0 0.0 0.0 4.45 F
2969 4950 1.913419 GGGTTATCACTGGTTGGGAGA 59.087 52.381 0.0 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1917 3889 0.191064 AGCCCCTCCGAGATTGGATA 59.809 55.0 0.00 0.0 37.41 2.59 R
2447 4424 0.912487 TCCCCTACGCAACAATCCCT 60.912 55.0 0.00 0.0 0.00 4.20 R
3165 7530 0.957888 GTCAGCCTTGGCACCTCTTC 60.958 60.0 14.54 0.0 0.00 2.87 R
4748 9497 0.107606 TAAGCGAGACGAGAGCTCCT 60.108 55.0 10.93 0.0 40.78 3.69 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
18 19 3.119225 GGTGTTTGGCAGGGTGTAA 57.881 52.632 0.00 0.00 0.00 2.41
19 20 1.627864 GGTGTTTGGCAGGGTGTAAT 58.372 50.000 0.00 0.00 0.00 1.89
20 21 2.797786 GGTGTTTGGCAGGGTGTAATA 58.202 47.619 0.00 0.00 0.00 0.98
32 33 2.772515 GGGTGTAATAGCTCTTCTGGGT 59.227 50.000 0.00 0.00 0.00 4.51
122 123 3.072476 AGCGAGGCTGTGTTGGAT 58.928 55.556 0.00 0.00 37.57 3.41
128 129 0.904865 AGGCTGTGTTGGATCCTCGA 60.905 55.000 14.23 0.00 0.00 4.04
158 183 4.477975 CCGACCCACTCGCTCGTC 62.478 72.222 0.00 0.00 41.46 4.20
164 189 4.436998 CACTCGCTCGTCCCACCC 62.437 72.222 0.00 0.00 0.00 4.61
210 242 2.283809 CCCCCATCTCTCTCCCGT 59.716 66.667 0.00 0.00 0.00 5.28
215 247 1.186200 CCATCTCTCTCCCGTGAACA 58.814 55.000 0.00 0.00 0.00 3.18
227 267 2.033448 TGAACACCCATGGCGACC 59.967 61.111 6.09 0.00 0.00 4.79
330 370 4.189188 CCGGTCTACCTCGCCACG 62.189 72.222 0.00 0.00 0.00 4.94
339 424 4.208686 CTCGCCACGGCCCTAGTC 62.209 72.222 1.63 0.00 37.98 2.59
345 430 1.392710 CCACGGCCCTAGTCGATCTT 61.393 60.000 0.00 0.00 46.55 2.40
376 461 3.437795 CTAGCCCACCGTCGTCGT 61.438 66.667 0.71 0.00 35.01 4.34
377 462 2.985282 TAGCCCACCGTCGTCGTT 60.985 61.111 0.71 0.00 35.01 3.85
441 583 1.381851 CTTCCTTCCTGCCTTGGCT 59.618 57.895 13.18 0.00 0.00 4.75
498 2446 1.135915 TGCTGCGTGACCAAAAATTGT 59.864 42.857 0.00 0.00 0.00 2.71
505 2453 4.023536 GCGTGACCAAAAATTGTTCCTCTA 60.024 41.667 0.00 0.00 0.00 2.43
556 2505 8.391106 GTGGTCAAAATGATTACAGTAGATGTC 58.609 37.037 0.00 0.00 42.70 3.06
557 2506 8.100164 TGGTCAAAATGATTACAGTAGATGTCA 58.900 33.333 0.00 0.00 42.70 3.58
558 2507 9.113838 GGTCAAAATGATTACAGTAGATGTCAT 57.886 33.333 0.00 0.00 42.70 3.06
562 2511 7.725818 AATGATTACAGTAGATGTCATGCTG 57.274 36.000 0.00 0.00 42.70 4.41
563 2512 5.604565 TGATTACAGTAGATGTCATGCTGG 58.395 41.667 11.18 0.00 42.70 4.85
564 2513 5.363580 TGATTACAGTAGATGTCATGCTGGA 59.636 40.000 11.18 2.89 42.70 3.86
565 2514 5.675684 TTACAGTAGATGTCATGCTGGAA 57.324 39.130 11.18 7.49 42.70 3.53
567 2516 4.910195 ACAGTAGATGTCATGCTGGAAAA 58.090 39.130 11.18 0.00 37.75 2.29
568 2517 5.316167 ACAGTAGATGTCATGCTGGAAAAA 58.684 37.500 11.18 0.00 37.75 1.94
638 2587 4.325028 TTGTTCATTGCTTGTCATGCTT 57.675 36.364 11.58 0.00 0.00 3.91
763 2723 4.883585 AGTGGTTGGATTGTATGCATACAG 59.116 41.667 32.09 0.00 43.44 2.74
797 2757 3.778954 AGAAGAGCTAGGCAACAAACT 57.221 42.857 0.00 0.00 41.41 2.66
808 2768 2.227865 GGCAACAAACTGCGAGGATAAA 59.772 45.455 0.00 0.00 43.60 1.40
815 2775 0.108329 CTGCGAGGATAAACGTGGGT 60.108 55.000 0.00 0.00 0.00 4.51
828 2788 1.152963 GTGGGTAGCATGGCCGATT 60.153 57.895 0.00 0.00 0.00 3.34
919 2880 9.082313 TCAATTAAGAATGAGAAAAGCTCCTTT 57.918 29.630 0.00 0.00 43.26 3.11
971 2932 7.389053 AGAGAGAAATCTGTTGTTGGATAACAC 59.611 37.037 0.00 0.00 45.91 3.32
972 2933 6.998074 AGAGAAATCTGTTGTTGGATAACACA 59.002 34.615 0.00 0.00 45.91 3.72
984 2945 8.716646 TGTTGGATAACACACATACTTCTATG 57.283 34.615 0.00 0.00 41.66 2.23
985 2946 8.536175 TGTTGGATAACACACATACTTCTATGA 58.464 33.333 0.00 0.00 41.66 2.15
1056 3017 3.045601 AGGACACTTCAACCGATCTTG 57.954 47.619 0.00 0.00 0.00 3.02
1099 3060 8.545472 TCATTAGTAGGTATTTTAAGGCAGTGT 58.455 33.333 0.00 0.00 0.00 3.55
1113 3074 4.599041 AGGCAGTGTTTTATGCTATTGGA 58.401 39.130 0.00 0.00 42.19 3.53
1115 3076 4.399303 GGCAGTGTTTTATGCTATTGGAGT 59.601 41.667 0.00 0.00 42.19 3.85
1263 3226 8.196771 GGACTTATGAATAACAATCATTTGCCA 58.803 33.333 0.00 0.00 38.44 4.92
1338 3303 5.721960 AGAGTCCCAAAAAGTATCTCAGCTA 59.278 40.000 0.00 0.00 0.00 3.32
1421 3386 9.819267 GATCTAAAGTTTACCTATGTACTTGCT 57.181 33.333 0.00 0.00 0.00 3.91
1422 3387 8.997621 TCTAAAGTTTACCTATGTACTTGCTG 57.002 34.615 0.00 0.00 0.00 4.41
1440 3405 1.471287 CTGGTTGATACGTCTCCGTCA 59.529 52.381 0.00 0.00 46.28 4.35
1611 3579 4.457603 CCAATATCAAACGGAGTCCAAACA 59.542 41.667 10.49 0.00 45.00 2.83
1761 3733 1.530013 CTCGTGGTCCACCCGTAAGT 61.530 60.000 16.60 0.00 35.15 2.24
1775 3747 2.186076 CGTAAGTCGGTTGATGCTCTC 58.814 52.381 0.00 0.00 35.71 3.20
1783 3755 1.407989 GGTTGATGCTCTCCTTCTGGG 60.408 57.143 0.00 0.00 0.00 4.45
1806 3778 7.041721 GGGGCAAGAAAGATAATTTTACAAGG 58.958 38.462 0.00 0.00 0.00 3.61
1876 3848 6.821665 CAGATATTTAAGAAACGGTGAAGGGA 59.178 38.462 0.00 0.00 0.00 4.20
1917 3889 5.359576 AGAGAACGCAGAAACAGAGAGATAT 59.640 40.000 0.00 0.00 0.00 1.63
2015 3987 2.200955 GGGAGGAGGTCAAGGAAGAAT 58.799 52.381 0.00 0.00 0.00 2.40
2447 4424 4.124238 CTGAAACACAAACCCGAGTAAGA 58.876 43.478 0.00 0.00 0.00 2.10
2782 4760 6.953101 TGCAAACCTATTCTATCACACCTAA 58.047 36.000 0.00 0.00 0.00 2.69
2959 4940 4.658901 CCCCTATACTTGTGGGTTATCACT 59.341 45.833 0.00 0.00 39.31 3.41
2969 4950 1.913419 GGGTTATCACTGGTTGGGAGA 59.087 52.381 0.00 0.00 0.00 3.71
3165 7530 2.045926 CCTTTCAGAGGTGGCGGG 60.046 66.667 0.00 0.00 40.95 6.13
3179 7544 2.045926 CGGGAAGAGGTGCCAAGG 60.046 66.667 0.00 0.00 37.68 3.61
3352 7717 1.412074 GGGGCACTTTGGGATGATGAT 60.412 52.381 0.00 0.00 0.00 2.45
3432 7798 5.594725 TGTACATGTACCAGCCTTTTTGAAA 59.405 36.000 28.67 6.23 35.26 2.69
3475 7841 6.403866 AGTGCTCAAATGGTGTTAAAATGA 57.596 33.333 0.00 0.00 0.00 2.57
3476 7842 6.996509 AGTGCTCAAATGGTGTTAAAATGAT 58.003 32.000 0.00 0.00 0.00 2.45
3589 7968 6.327154 CAACAGATGCTGAATTGCTCAATTA 58.673 36.000 7.73 0.00 40.77 1.40
3612 7991 3.945921 TCCACTGGAGAACTACGACTATG 59.054 47.826 0.00 0.00 0.00 2.23
3688 8067 1.306312 TGCCCCTAGGAACGCCTAA 60.306 57.895 11.48 0.00 45.93 2.69
3758 8137 2.356135 ACGGATGAGGTATTGCAACAC 58.644 47.619 0.00 0.00 0.00 3.32
3938 8317 0.670162 ACAACACTTGCCATGCTGAC 59.330 50.000 0.00 0.00 0.00 3.51
3961 8340 3.118038 ACACACCCTGACTTGTACAATGT 60.118 43.478 9.13 9.37 0.00 2.71
3995 8374 6.547141 ACCTTCTTGTGTTTGATCAAGATGAA 59.453 34.615 8.41 7.86 45.77 2.57
4055 8434 5.056480 GCAAAAGGCCTTAACTTTGTGAAT 58.944 37.500 20.84 0.00 38.13 2.57
4071 8450 9.458727 ACTTTGTGAATATGAATGATGAAGTCT 57.541 29.630 0.00 0.00 0.00 3.24
4379 9123 8.545229 TGGTAACATTTTATTGCTTGAATTGG 57.455 30.769 0.00 0.00 46.17 3.16
4381 9125 9.646427 GGTAACATTTTATTGCTTGAATTGGTA 57.354 29.630 0.00 0.00 0.00 3.25
4569 9318 8.172352 ACATTGCTACCAAACAACTACAATTA 57.828 30.769 0.00 0.00 34.05 1.40
4601 9350 5.105187 TGAGCATGTCTAGACTAAGCATGTT 60.105 40.000 23.01 15.16 39.11 2.71
4672 9421 4.600207 GGAACCAAGCGAGTCCTC 57.400 61.111 0.00 0.00 0.00 3.71
4686 9435 3.068691 CCTCGCTCCTCGTTGGGA 61.069 66.667 0.00 0.00 39.67 4.37
4687 9436 2.182030 CTCGCTCCTCGTTGGGAC 59.818 66.667 0.00 0.00 39.67 4.46
4707 9456 4.559502 CCCATAAAGGAGGGCGTG 57.440 61.111 0.00 0.00 41.22 5.34
4708 9457 1.607612 CCCATAAAGGAGGGCGTGT 59.392 57.895 0.00 0.00 41.22 4.49
4709 9458 0.748005 CCCATAAAGGAGGGCGTGTG 60.748 60.000 0.00 0.00 41.22 3.82
4710 9459 0.251916 CCATAAAGGAGGGCGTGTGA 59.748 55.000 0.00 0.00 41.22 3.58
4712 9461 1.942657 CATAAAGGAGGGCGTGTGATG 59.057 52.381 0.00 0.00 0.00 3.07
4713 9462 0.251916 TAAAGGAGGGCGTGTGATGG 59.748 55.000 0.00 0.00 0.00 3.51
4714 9463 3.628646 AAGGAGGGCGTGTGATGGC 62.629 63.158 0.00 0.00 0.00 4.40
4720 9469 2.125147 GCGTGTGATGGCCAGCTA 60.125 61.111 23.69 8.59 0.00 3.32
4722 9471 1.079197 CGTGTGATGGCCAGCTACA 60.079 57.895 23.69 20.52 0.00 2.74
4725 9474 0.692476 TGTGATGGCCAGCTACACTT 59.308 50.000 23.69 0.00 33.41 3.16
4726 9475 1.339055 TGTGATGGCCAGCTACACTTC 60.339 52.381 23.69 7.19 33.41 3.01
4728 9477 1.561076 TGATGGCCAGCTACACTTCAT 59.439 47.619 23.69 0.00 0.00 2.57
4729 9478 2.771372 TGATGGCCAGCTACACTTCATA 59.229 45.455 23.69 0.00 0.00 2.15
4730 9479 2.988010 TGGCCAGCTACACTTCATAG 57.012 50.000 0.00 0.00 0.00 2.23
4731 9480 1.134401 TGGCCAGCTACACTTCATAGC 60.134 52.381 0.00 0.00 44.56 2.97
4738 9487 4.700596 GCTACACTTCATAGCGCTTAAG 57.299 45.455 18.68 19.16 36.02 1.85
4739 9488 3.491267 GCTACACTTCATAGCGCTTAAGG 59.509 47.826 18.68 13.03 36.02 2.69
4742 9491 2.874701 CACTTCATAGCGCTTAAGGCAT 59.125 45.455 18.68 0.00 41.91 4.40
4743 9492 3.313526 CACTTCATAGCGCTTAAGGCATT 59.686 43.478 18.68 0.00 41.91 3.56
4744 9493 3.313526 ACTTCATAGCGCTTAAGGCATTG 59.686 43.478 18.68 12.28 41.91 2.82
4745 9494 2.221169 TCATAGCGCTTAAGGCATTGG 58.779 47.619 18.68 0.00 41.91 3.16
4746 9495 1.267806 CATAGCGCTTAAGGCATTGGG 59.732 52.381 18.68 0.00 41.91 4.12
4747 9496 1.101049 TAGCGCTTAAGGCATTGGGC 61.101 55.000 18.68 2.81 41.91 5.36
4756 9505 2.274760 GCATTGGGCAGGAGCTCT 59.725 61.111 14.64 0.00 43.51 4.09
4757 9506 1.823041 GCATTGGGCAGGAGCTCTC 60.823 63.158 14.64 3.76 43.51 3.20
4758 9507 1.523258 CATTGGGCAGGAGCTCTCG 60.523 63.158 14.64 6.11 43.51 4.04
4759 9508 1.992277 ATTGGGCAGGAGCTCTCGT 60.992 57.895 14.64 0.00 43.51 4.18
4760 9509 1.965754 ATTGGGCAGGAGCTCTCGTC 61.966 60.000 14.64 6.32 43.51 4.20
4761 9510 2.757917 GGGCAGGAGCTCTCGTCT 60.758 66.667 14.64 0.00 38.57 4.18
4762 9511 2.781158 GGGCAGGAGCTCTCGTCTC 61.781 68.421 14.64 0.00 38.57 3.36
4763 9512 2.407210 GCAGGAGCTCTCGTCTCG 59.593 66.667 14.64 0.00 37.91 4.04
4764 9513 2.407210 CAGGAGCTCTCGTCTCGC 59.593 66.667 14.64 0.00 0.00 5.03
4765 9514 2.112198 CAGGAGCTCTCGTCTCGCT 61.112 63.158 14.64 0.00 36.57 4.93
4766 9515 1.377987 AGGAGCTCTCGTCTCGCTT 60.378 57.895 14.64 0.00 33.47 4.68
4767 9516 0.107606 AGGAGCTCTCGTCTCGCTTA 60.108 55.000 14.64 0.00 33.47 3.09
4768 9517 0.948678 GGAGCTCTCGTCTCGCTTAT 59.051 55.000 14.64 0.00 33.47 1.73
4769 9518 2.144730 GGAGCTCTCGTCTCGCTTATA 58.855 52.381 14.64 0.00 33.47 0.98
4770 9519 2.096119 GGAGCTCTCGTCTCGCTTATAC 60.096 54.545 14.64 0.00 33.47 1.47
4771 9520 1.874872 AGCTCTCGTCTCGCTTATACC 59.125 52.381 0.00 0.00 0.00 2.73
4772 9521 1.602851 GCTCTCGTCTCGCTTATACCA 59.397 52.381 0.00 0.00 0.00 3.25
4773 9522 2.033049 GCTCTCGTCTCGCTTATACCAA 59.967 50.000 0.00 0.00 0.00 3.67
4774 9523 3.850374 GCTCTCGTCTCGCTTATACCAAG 60.850 52.174 0.00 0.00 0.00 3.61
4775 9524 3.538591 TCTCGTCTCGCTTATACCAAGA 58.461 45.455 0.00 0.00 0.00 3.02
4776 9525 4.135306 TCTCGTCTCGCTTATACCAAGAT 58.865 43.478 0.00 0.00 0.00 2.40
4777 9526 4.213694 TCTCGTCTCGCTTATACCAAGATC 59.786 45.833 0.00 0.00 0.00 2.75
4778 9527 4.135306 TCGTCTCGCTTATACCAAGATCT 58.865 43.478 0.00 0.00 0.00 2.75
4779 9528 5.303165 TCGTCTCGCTTATACCAAGATCTA 58.697 41.667 0.00 0.00 0.00 1.98
4780 9529 5.408909 TCGTCTCGCTTATACCAAGATCTAG 59.591 44.000 0.00 0.00 0.00 2.43
4781 9530 5.395642 GTCTCGCTTATACCAAGATCTAGC 58.604 45.833 0.00 0.00 0.00 3.42
4782 9531 5.182380 GTCTCGCTTATACCAAGATCTAGCT 59.818 44.000 9.17 0.00 0.00 3.32
4783 9532 5.770663 TCTCGCTTATACCAAGATCTAGCTT 59.229 40.000 9.17 0.00 0.00 3.74
4784 9533 5.773575 TCGCTTATACCAAGATCTAGCTTG 58.226 41.667 9.17 0.98 43.74 4.01
4785 9534 4.387256 CGCTTATACCAAGATCTAGCTTGC 59.613 45.833 9.17 1.34 42.99 4.01
4786 9535 5.546526 GCTTATACCAAGATCTAGCTTGCT 58.453 41.667 0.00 0.00 42.99 3.91
4787 9536 5.637387 GCTTATACCAAGATCTAGCTTGCTC 59.363 44.000 0.00 0.00 42.99 4.26
4788 9537 6.518200 GCTTATACCAAGATCTAGCTTGCTCT 60.518 42.308 0.00 0.00 42.99 4.09
4789 9538 3.817709 ACCAAGATCTAGCTTGCTCTC 57.182 47.619 2.04 0.00 42.99 3.20
4790 9539 3.102972 ACCAAGATCTAGCTTGCTCTCA 58.897 45.455 2.04 0.00 42.99 3.27
4791 9540 3.710677 ACCAAGATCTAGCTTGCTCTCAT 59.289 43.478 2.04 0.00 42.99 2.90
4792 9541 4.059511 CCAAGATCTAGCTTGCTCTCATG 58.940 47.826 2.04 0.00 42.99 3.07
4793 9542 3.389925 AGATCTAGCTTGCTCTCATGC 57.610 47.619 0.00 0.00 41.94 4.06
4794 9543 2.037511 AGATCTAGCTTGCTCTCATGCC 59.962 50.000 0.00 0.00 42.41 4.40
4795 9544 1.197812 TCTAGCTTGCTCTCATGCCA 58.802 50.000 0.00 0.00 42.41 4.92
4796 9545 1.138464 TCTAGCTTGCTCTCATGCCAG 59.862 52.381 0.00 0.00 42.41 4.85
4797 9546 1.138464 CTAGCTTGCTCTCATGCCAGA 59.862 52.381 0.00 0.00 42.41 3.86
4798 9547 0.392729 AGCTTGCTCTCATGCCAGAC 60.393 55.000 0.00 0.00 42.41 3.51
4799 9548 1.703438 GCTTGCTCTCATGCCAGACG 61.703 60.000 0.00 0.00 37.39 4.18
4800 9549 1.703438 CTTGCTCTCATGCCAGACGC 61.703 60.000 0.00 0.00 38.31 5.19
4801 9550 2.894387 GCTCTCATGCCAGACGCC 60.894 66.667 0.00 0.00 36.24 5.68
4802 9551 2.898738 CTCTCATGCCAGACGCCT 59.101 61.111 0.00 0.00 36.24 5.52
4803 9552 2.021068 GCTCTCATGCCAGACGCCTA 62.021 60.000 0.00 0.00 36.24 3.93
4804 9553 0.249238 CTCTCATGCCAGACGCCTAC 60.249 60.000 0.00 0.00 36.24 3.18
4805 9554 1.227380 CTCATGCCAGACGCCTACC 60.227 63.158 0.00 0.00 36.24 3.18
4806 9555 1.680522 CTCATGCCAGACGCCTACCT 61.681 60.000 0.00 0.00 36.24 3.08
4807 9556 0.396556 TCATGCCAGACGCCTACCTA 60.397 55.000 0.00 0.00 36.24 3.08
4808 9557 0.464036 CATGCCAGACGCCTACCTAA 59.536 55.000 0.00 0.00 36.24 2.69
4809 9558 1.134521 CATGCCAGACGCCTACCTAAA 60.135 52.381 0.00 0.00 36.24 1.85
4810 9559 1.200519 TGCCAGACGCCTACCTAAAT 58.799 50.000 0.00 0.00 36.24 1.40
4811 9560 1.134521 TGCCAGACGCCTACCTAAATG 60.135 52.381 0.00 0.00 36.24 2.32
4812 9561 1.810412 GCCAGACGCCTACCTAAATGG 60.810 57.143 0.00 0.00 42.93 3.16
4813 9562 1.202651 CCAGACGCCTACCTAAATGGG 60.203 57.143 0.00 0.00 41.11 4.00
4814 9563 0.468648 AGACGCCTACCTAAATGGGC 59.531 55.000 0.00 0.00 42.62 5.36
4815 9564 0.534427 GACGCCTACCTAAATGGGCC 60.534 60.000 0.00 0.00 43.10 5.80
4816 9565 1.597027 CGCCTACCTAAATGGGCCG 60.597 63.158 0.00 0.00 43.10 6.13
4817 9566 1.228154 GCCTACCTAAATGGGCCGG 60.228 63.158 0.00 0.00 40.26 6.13
4818 9567 1.228154 CCTACCTAAATGGGCCGGC 60.228 63.158 21.18 21.18 41.11 6.13
4819 9568 1.228154 CTACCTAAATGGGCCGGCC 60.228 63.158 38.57 38.57 41.11 6.13
4842 9591 3.936203 GTGTGGGAGGCCACGACA 61.936 66.667 5.01 8.48 42.98 4.35
4843 9592 2.927856 TGTGGGAGGCCACGACAT 60.928 61.111 5.01 0.00 42.98 3.06
4844 9593 2.125106 GTGGGAGGCCACGACATC 60.125 66.667 5.01 0.00 0.00 3.06
4845 9594 3.770040 TGGGAGGCCACGACATCG 61.770 66.667 5.01 0.00 46.33 3.84
5014 9763 7.915293 AGAAAATGTTTGTCATGTATACGGA 57.085 32.000 0.00 0.00 36.81 4.69
5015 9764 8.330466 AGAAAATGTTTGTCATGTATACGGAA 57.670 30.769 0.00 0.00 36.81 4.30
5016 9765 8.788806 AGAAAATGTTTGTCATGTATACGGAAA 58.211 29.630 0.00 0.00 36.81 3.13
5017 9766 9.400638 GAAAATGTTTGTCATGTATACGGAAAA 57.599 29.630 0.00 0.00 36.81 2.29
5018 9767 9.751542 AAAATGTTTGTCATGTATACGGAAAAA 57.248 25.926 8.04 8.04 36.81 1.94
5019 9768 8.964420 AATGTTTGTCATGTATACGGAAAAAG 57.036 30.769 11.10 0.00 36.81 2.27
5020 9769 7.499321 TGTTTGTCATGTATACGGAAAAAGT 57.501 32.000 11.10 0.00 0.00 2.66
5021 9770 8.604640 TGTTTGTCATGTATACGGAAAAAGTA 57.395 30.769 11.10 4.12 0.00 2.24
5022 9771 8.497554 TGTTTGTCATGTATACGGAAAAAGTAC 58.502 33.333 11.10 4.36 0.00 2.73
5023 9772 8.497554 GTTTGTCATGTATACGGAAAAAGTACA 58.502 33.333 11.10 0.00 0.00 2.90
5024 9773 7.585286 TGTCATGTATACGGAAAAAGTACAC 57.415 36.000 0.00 0.00 0.00 2.90
5025 9774 7.153315 TGTCATGTATACGGAAAAAGTACACA 58.847 34.615 0.00 0.00 36.17 3.72
5026 9775 7.656542 TGTCATGTATACGGAAAAAGTACACAA 59.343 33.333 0.00 0.00 35.49 3.33
5027 9776 7.953710 GTCATGTATACGGAAAAAGTACACAAC 59.046 37.037 0.00 0.00 35.49 3.32
5028 9777 7.656542 TCATGTATACGGAAAAAGTACACAACA 59.343 33.333 0.00 0.00 35.49 3.33
5029 9778 7.783090 TGTATACGGAAAAAGTACACAACAA 57.217 32.000 0.00 0.00 29.76 2.83
5030 9779 8.206325 TGTATACGGAAAAAGTACACAACAAA 57.794 30.769 0.00 0.00 29.76 2.83
5031 9780 8.121708 TGTATACGGAAAAAGTACACAACAAAC 58.878 33.333 0.00 0.00 29.76 2.93
5032 9781 5.373981 ACGGAAAAAGTACACAACAAACA 57.626 34.783 0.00 0.00 0.00 2.83
5033 9782 5.155643 ACGGAAAAAGTACACAACAAACAC 58.844 37.500 0.00 0.00 0.00 3.32
5034 9783 5.154932 CGGAAAAAGTACACAACAAACACA 58.845 37.500 0.00 0.00 0.00 3.72
5035 9784 5.285134 CGGAAAAAGTACACAACAAACACAG 59.715 40.000 0.00 0.00 0.00 3.66
5036 9785 6.383415 GGAAAAAGTACACAACAAACACAGA 58.617 36.000 0.00 0.00 0.00 3.41
5037 9786 6.864165 GGAAAAAGTACACAACAAACACAGAA 59.136 34.615 0.00 0.00 0.00 3.02
5038 9787 7.544217 GGAAAAAGTACACAACAAACACAGAAT 59.456 33.333 0.00 0.00 0.00 2.40
5039 9788 9.562583 GAAAAAGTACACAACAAACACAGAATA 57.437 29.630 0.00 0.00 0.00 1.75
5040 9789 9.915629 AAAAAGTACACAACAAACACAGAATAA 57.084 25.926 0.00 0.00 0.00 1.40
5041 9790 9.567848 AAAAGTACACAACAAACACAGAATAAG 57.432 29.630 0.00 0.00 0.00 1.73
5042 9791 7.859325 AGTACACAACAAACACAGAATAAGT 57.141 32.000 0.00 0.00 0.00 2.24
5043 9792 7.693952 AGTACACAACAAACACAGAATAAGTG 58.306 34.615 0.00 0.00 42.56 3.16
5056 9805 8.854979 CACAGAATAAGTGTGAAAAATGTTGA 57.145 30.769 0.00 0.00 46.99 3.18
5057 9806 9.467258 CACAGAATAAGTGTGAAAAATGTTGAT 57.533 29.630 0.00 0.00 46.99 2.57
5058 9807 9.683069 ACAGAATAAGTGTGAAAAATGTTGATC 57.317 29.630 0.00 0.00 0.00 2.92
5059 9808 9.681692 CAGAATAAGTGTGAAAAATGTTGATCA 57.318 29.630 0.00 0.00 0.00 2.92
5062 9811 9.985730 AATAAGTGTGAAAAATGTTGATCATGT 57.014 25.926 0.00 0.00 36.81 3.21
5127 9876 9.651913 AACAACTGTTTGAAAAATGTTAGATGT 57.348 25.926 0.00 0.00 36.48 3.06
5128 9877 9.086336 ACAACTGTTTGAAAAATGTTAGATGTG 57.914 29.630 0.00 0.00 36.48 3.21
5129 9878 9.086336 CAACTGTTTGAAAAATGTTAGATGTGT 57.914 29.630 0.00 0.00 34.24 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 3.552132 TTTTGCATCAGACGGGCTATA 57.448 42.857 0.00 0.00 0.00 1.31
158 183 2.689034 GTCAGGGAGAGGGGTGGG 60.689 72.222 0.00 0.00 0.00 4.61
164 189 1.830408 CGGCTAGGTCAGGGAGAGG 60.830 68.421 0.00 0.00 0.00 3.69
165 190 2.494530 GCGGCTAGGTCAGGGAGAG 61.495 68.421 0.00 0.00 0.00 3.20
210 242 2.033448 GGTCGCCATGGGTGTTCA 59.967 61.111 15.13 0.00 34.40 3.18
227 267 1.958205 GGATGAAGATCAGGCGCCG 60.958 63.158 23.20 16.49 0.00 6.46
293 333 3.066190 CGGCGGTGAGGTAGACCA 61.066 66.667 0.00 0.00 38.89 4.02
330 370 1.069935 GGCAAGATCGACTAGGGCC 59.930 63.158 0.00 0.00 34.85 5.80
339 424 3.257561 CTGGCGACGGCAAGATCG 61.258 66.667 24.98 9.33 43.38 3.69
376 461 1.827969 GCAGAGAAGCTACCTCTCCAA 59.172 52.381 13.78 0.00 38.84 3.53
377 462 1.479709 GCAGAGAAGCTACCTCTCCA 58.520 55.000 13.78 0.00 38.84 3.86
570 2519 9.976511 GGTACAACATATACTTAGCACAATAGA 57.023 33.333 0.00 0.00 0.00 1.98
571 2520 9.982651 AGGTACAACATATACTTAGCACAATAG 57.017 33.333 0.00 0.00 0.00 1.73
797 2757 1.135527 CTACCCACGTTTATCCTCGCA 59.864 52.381 0.00 0.00 0.00 5.10
808 2768 4.467084 CGGCCATGCTACCCACGT 62.467 66.667 2.24 0.00 0.00 4.49
815 2775 3.826221 GCACAATCGGCCATGCTA 58.174 55.556 2.24 0.00 35.16 3.49
919 2880 8.784994 TCTAAATATAGCACACAAACGGAAAAA 58.215 29.630 0.00 0.00 0.00 1.94
971 2932 9.307121 CTACTTGTTCCTTCATAGAAGTATGTG 57.693 37.037 6.08 0.00 37.81 3.21
972 2933 7.982354 GCTACTTGTTCCTTCATAGAAGTATGT 59.018 37.037 6.08 2.10 37.81 2.29
984 2945 4.762251 AGAAACATGGCTACTTGTTCCTTC 59.238 41.667 0.00 0.00 42.18 3.46
985 2946 4.729868 AGAAACATGGCTACTTGTTCCTT 58.270 39.130 0.00 0.00 42.18 3.36
1056 3017 7.266922 ACTAATGACTTCGGTAGATCTTCTC 57.733 40.000 0.00 0.00 0.00 2.87
1099 3060 7.394016 TCTCTCAACACTCCAATAGCATAAAA 58.606 34.615 0.00 0.00 0.00 1.52
1113 3074 5.451659 CCGAATCATCTCATCTCTCAACACT 60.452 44.000 0.00 0.00 0.00 3.55
1115 3076 4.738839 GCCGAATCATCTCATCTCTCAACA 60.739 45.833 0.00 0.00 0.00 3.33
1263 3226 8.592809 TGCTCCAACACAATCCTAATTAAAAAT 58.407 29.630 0.00 0.00 0.00 1.82
1611 3579 4.482952 AATCTCCGTCCGTTTTTATCCT 57.517 40.909 0.00 0.00 0.00 3.24
1761 3733 1.205655 CAGAAGGAGAGCATCAACCGA 59.794 52.381 0.00 0.00 38.50 4.69
1775 3747 2.521547 ATCTTTCTTGCCCCAGAAGG 57.478 50.000 0.00 0.00 34.22 3.46
1783 3755 9.358872 CTTCCTTGTAAAATTATCTTTCTTGCC 57.641 33.333 0.00 0.00 0.00 4.52
1806 3778 4.269844 GGTGAATCTTTCGCTCAGATCTTC 59.730 45.833 0.00 0.00 40.00 2.87
1815 3787 2.369394 GATTGGGGTGAATCTTTCGCT 58.631 47.619 1.34 0.00 40.00 4.93
1876 3848 3.300388 TCTCTGCGTTCCCTGATTCTAT 58.700 45.455 0.00 0.00 0.00 1.98
1917 3889 0.191064 AGCCCCTCCGAGATTGGATA 59.809 55.000 0.00 0.00 37.41 2.59
2447 4424 0.912487 TCCCCTACGCAACAATCCCT 60.912 55.000 0.00 0.00 0.00 4.20
2959 4940 1.198713 GAGCTGATCTCTCCCAACCA 58.801 55.000 0.00 0.00 38.78 3.67
2969 4950 1.436326 AGGGCATCATGAGCTGATCT 58.564 50.000 14.20 2.82 42.91 2.75
3165 7530 0.957888 GTCAGCCTTGGCACCTCTTC 60.958 60.000 14.54 0.00 0.00 2.87
3179 7544 3.823304 ACCTCTTTGAATCCTTTGTCAGC 59.177 43.478 0.00 0.00 0.00 4.26
3352 7717 7.396339 TGTTCTTCTAGCACTACCATCTTCTTA 59.604 37.037 0.00 0.00 0.00 2.10
3432 7798 7.108847 AGCACTAAAGATAACTCATTTCAGCT 58.891 34.615 0.00 0.00 0.00 4.24
3451 7817 7.517614 TCATTTTAACACCATTTGAGCACTA 57.482 32.000 0.00 0.00 0.00 2.74
3589 7968 3.088789 AGTCGTAGTTCTCCAGTGGAT 57.911 47.619 13.56 0.00 0.00 3.41
3612 7991 5.346011 GCTTATTAGCAAAGCAAAGTTCCAC 59.654 40.000 0.00 0.00 46.85 4.02
3688 8067 5.476945 GGTTTATCCTTGTCTTCCACAACAT 59.523 40.000 0.00 0.00 40.29 2.71
3758 8137 3.790089 ACAAAGTTAGACCCAGGAAGG 57.210 47.619 0.00 0.00 37.03 3.46
3938 8317 2.613026 TGTACAAGTCAGGGTGTGTG 57.387 50.000 0.00 0.00 0.00 3.82
3961 8340 3.576078 ACACAAGAAGGTCCATGACAA 57.424 42.857 0.00 0.00 33.68 3.18
3995 8374 5.186198 AGATAATCTAAAACAGCCAAGCGT 58.814 37.500 0.00 0.00 0.00 5.07
4055 8434 7.926674 TGCTTTTCAGACTTCATCATTCATA 57.073 32.000 0.00 0.00 0.00 2.15
4071 8450 4.502171 TTCGCTTGAATGATGCTTTTCA 57.498 36.364 0.00 0.00 0.00 2.69
4334 9078 4.957954 ACCATGCCAACATAATCTGAACAT 59.042 37.500 0.00 0.00 33.67 2.71
4372 9116 8.303156 ACATTTCGACAATTCATTACCAATTCA 58.697 29.630 0.00 0.00 0.00 2.57
4379 9123 8.963130 TGAAACAACATTTCGACAATTCATTAC 58.037 29.630 0.00 0.00 0.00 1.89
4381 9125 8.417780 TTGAAACAACATTTCGACAATTCATT 57.582 26.923 0.00 0.00 0.00 2.57
4443 9192 5.651303 TGGTAGCCTGTATATGAGGTATGT 58.349 41.667 4.90 0.00 32.60 2.29
4601 9350 4.220382 CCAGCATAGTTGTTCCCATTTGAA 59.780 41.667 0.00 0.00 0.00 2.69
4623 9372 1.785353 TTGGTAGCTGTTCCCACCCC 61.785 60.000 0.00 0.00 0.00 4.95
4656 9405 4.170723 CGAGGACTCGCTTGGTTC 57.829 61.111 8.93 0.00 46.50 3.62
4665 9414 1.137825 CAACGAGGAGCGAGGACTC 59.862 63.158 0.00 0.00 44.57 3.36
4666 9415 2.344203 CCAACGAGGAGCGAGGACT 61.344 63.158 0.00 0.00 44.57 3.85
4667 9416 2.182030 CCAACGAGGAGCGAGGAC 59.818 66.667 0.00 0.00 44.57 3.85
4668 9417 3.068691 CCCAACGAGGAGCGAGGA 61.069 66.667 0.00 0.00 44.57 3.71
4669 9418 3.068691 TCCCAACGAGGAGCGAGG 61.069 66.667 0.00 0.00 44.57 4.63
4670 9419 2.182030 GTCCCAACGAGGAGCGAG 59.818 66.667 0.00 0.00 44.57 5.03
4686 9435 1.912971 GCCCTCCTTTATGGGTCGT 59.087 57.895 0.00 0.00 45.06 4.34
4687 9436 1.227556 CGCCCTCCTTTATGGGTCG 60.228 63.158 0.00 0.00 45.06 4.79
4688 9437 0.463833 CACGCCCTCCTTTATGGGTC 60.464 60.000 0.00 0.00 45.06 4.46
4689 9438 1.205460 ACACGCCCTCCTTTATGGGT 61.205 55.000 0.00 0.00 45.06 4.51
4690 9439 0.748005 CACACGCCCTCCTTTATGGG 60.748 60.000 0.00 0.00 46.00 4.00
4692 9441 1.942657 CATCACACGCCCTCCTTTATG 59.057 52.381 0.00 0.00 0.00 1.90
4693 9442 1.134098 CCATCACACGCCCTCCTTTAT 60.134 52.381 0.00 0.00 0.00 1.40
4695 9444 1.002134 CCATCACACGCCCTCCTTT 60.002 57.895 0.00 0.00 0.00 3.11
4696 9445 2.671070 CCATCACACGCCCTCCTT 59.329 61.111 0.00 0.00 0.00 3.36
4697 9446 4.101448 GCCATCACACGCCCTCCT 62.101 66.667 0.00 0.00 0.00 3.69
4699 9448 4.408821 TGGCCATCACACGCCCTC 62.409 66.667 0.00 0.00 45.07 4.30
4700 9449 4.415150 CTGGCCATCACACGCCCT 62.415 66.667 5.51 0.00 45.07 5.19
4702 9451 3.680620 TAGCTGGCCATCACACGCC 62.681 63.158 5.51 0.00 45.92 5.68
4703 9452 2.125147 TAGCTGGCCATCACACGC 60.125 61.111 5.51 4.77 0.00 5.34
4704 9453 1.079197 TGTAGCTGGCCATCACACG 60.079 57.895 5.51 0.00 0.00 4.49
4706 9455 0.692476 AAGTGTAGCTGGCCATCACA 59.308 50.000 22.81 17.14 0.00 3.58
4707 9456 1.339055 TGAAGTGTAGCTGGCCATCAC 60.339 52.381 5.51 13.60 0.00 3.06
4708 9457 0.983467 TGAAGTGTAGCTGGCCATCA 59.017 50.000 5.51 0.49 0.00 3.07
4709 9458 2.338577 ATGAAGTGTAGCTGGCCATC 57.661 50.000 5.51 0.31 0.00 3.51
4710 9459 2.486191 GCTATGAAGTGTAGCTGGCCAT 60.486 50.000 5.51 0.00 41.00 4.40
4712 9461 1.587547 GCTATGAAGTGTAGCTGGCC 58.412 55.000 0.00 0.00 41.00 5.36
4713 9462 1.212616 CGCTATGAAGTGTAGCTGGC 58.787 55.000 0.00 0.00 41.80 4.85
4714 9463 1.202463 AGCGCTATGAAGTGTAGCTGG 60.202 52.381 8.99 0.00 41.80 4.85
4715 9464 2.215907 AGCGCTATGAAGTGTAGCTG 57.784 50.000 8.99 0.00 41.80 4.24
4716 9465 2.969628 AAGCGCTATGAAGTGTAGCT 57.030 45.000 12.05 0.00 41.80 3.32
4718 9467 3.491267 GCCTTAAGCGCTATGAAGTGTAG 59.509 47.826 12.05 3.57 35.56 2.74
4720 9469 2.280628 GCCTTAAGCGCTATGAAGTGT 58.719 47.619 12.05 0.00 35.56 3.55
4732 9481 0.684153 TCCTGCCCAATGCCTTAAGC 60.684 55.000 0.00 0.00 40.16 3.09
4733 9482 1.396653 CTCCTGCCCAATGCCTTAAG 58.603 55.000 0.00 0.00 40.16 1.85
4734 9483 0.684153 GCTCCTGCCCAATGCCTTAA 60.684 55.000 0.00 0.00 40.16 1.85
4735 9484 1.076777 GCTCCTGCCCAATGCCTTA 60.077 57.895 0.00 0.00 40.16 2.69
4736 9485 2.363406 GCTCCTGCCCAATGCCTT 60.363 61.111 0.00 0.00 40.16 4.35
4737 9486 3.345028 AGCTCCTGCCCAATGCCT 61.345 61.111 0.00 0.00 40.80 4.75
4738 9487 2.832201 GAGCTCCTGCCCAATGCC 60.832 66.667 0.87 0.00 40.80 4.40
4739 9488 1.823041 GAGAGCTCCTGCCCAATGC 60.823 63.158 10.93 0.00 40.80 3.56
4742 9491 2.604686 ACGAGAGCTCCTGCCCAA 60.605 61.111 10.93 0.00 40.80 4.12
4743 9492 3.071206 GACGAGAGCTCCTGCCCA 61.071 66.667 10.93 0.00 40.80 5.36
4744 9493 2.757917 AGACGAGAGCTCCTGCCC 60.758 66.667 10.93 0.00 40.80 5.36
4745 9494 2.804856 GAGACGAGAGCTCCTGCC 59.195 66.667 10.93 0.00 40.80 4.85
4746 9495 2.407210 CGAGACGAGAGCTCCTGC 59.593 66.667 10.93 0.00 40.05 4.85
4747 9496 1.653094 AAGCGAGACGAGAGCTCCTG 61.653 60.000 10.93 5.60 40.78 3.86
4748 9497 0.107606 TAAGCGAGACGAGAGCTCCT 60.108 55.000 10.93 0.00 40.78 3.69
4749 9498 0.948678 ATAAGCGAGACGAGAGCTCC 59.051 55.000 10.93 0.68 40.78 4.70
4750 9499 2.096119 GGTATAAGCGAGACGAGAGCTC 60.096 54.545 5.27 5.27 40.78 4.09
4751 9500 1.874872 GGTATAAGCGAGACGAGAGCT 59.125 52.381 0.00 0.00 43.90 4.09
4752 9501 1.602851 TGGTATAAGCGAGACGAGAGC 59.397 52.381 0.00 0.00 0.00 4.09
4753 9502 3.560481 TCTTGGTATAAGCGAGACGAGAG 59.440 47.826 0.00 0.00 31.60 3.20
4754 9503 3.538591 TCTTGGTATAAGCGAGACGAGA 58.461 45.455 0.00 0.00 31.60 4.04
4755 9504 3.965292 TCTTGGTATAAGCGAGACGAG 57.035 47.619 0.00 0.00 31.60 4.18
4756 9505 4.135306 AGATCTTGGTATAAGCGAGACGA 58.865 43.478 0.00 0.00 38.78 4.20
4757 9506 4.491234 AGATCTTGGTATAAGCGAGACG 57.509 45.455 0.00 0.00 38.78 4.18
4758 9507 5.182380 AGCTAGATCTTGGTATAAGCGAGAC 59.818 44.000 7.10 0.00 38.78 3.36
4759 9508 5.317808 AGCTAGATCTTGGTATAAGCGAGA 58.682 41.667 7.10 0.00 40.10 4.04
4760 9509 5.637006 AGCTAGATCTTGGTATAAGCGAG 57.363 43.478 7.10 0.00 33.80 5.03
4761 9510 5.773575 CAAGCTAGATCTTGGTATAAGCGA 58.226 41.667 9.27 0.00 39.68 4.93
4762 9511 4.387256 GCAAGCTAGATCTTGGTATAAGCG 59.613 45.833 9.27 0.00 42.68 4.68
4763 9512 5.854431 GCAAGCTAGATCTTGGTATAAGC 57.146 43.478 9.27 6.31 42.68 3.09
4770 9519 3.815856 TGAGAGCAAGCTAGATCTTGG 57.184 47.619 0.00 0.00 42.68 3.61
4771 9520 3.495377 GCATGAGAGCAAGCTAGATCTTG 59.505 47.826 0.00 0.00 44.63 3.02
4772 9521 3.494749 GGCATGAGAGCAAGCTAGATCTT 60.495 47.826 0.00 0.00 38.69 2.40
4773 9522 2.037511 GGCATGAGAGCAAGCTAGATCT 59.962 50.000 0.00 0.00 38.69 2.75
4774 9523 2.224233 TGGCATGAGAGCAAGCTAGATC 60.224 50.000 0.00 0.00 38.69 2.75
4775 9524 1.767088 TGGCATGAGAGCAAGCTAGAT 59.233 47.619 0.00 0.00 38.69 1.98
4776 9525 1.138464 CTGGCATGAGAGCAAGCTAGA 59.862 52.381 0.00 0.00 46.21 2.43
4777 9526 1.138464 TCTGGCATGAGAGCAAGCTAG 59.862 52.381 0.00 0.00 45.15 3.42
4778 9527 1.134580 GTCTGGCATGAGAGCAAGCTA 60.135 52.381 0.00 0.00 38.69 3.32
4779 9528 0.392729 GTCTGGCATGAGAGCAAGCT 60.393 55.000 0.00 0.00 38.69 3.74
4780 9529 1.703438 CGTCTGGCATGAGAGCAAGC 61.703 60.000 0.00 0.00 35.46 4.01
4781 9530 1.703438 GCGTCTGGCATGAGAGCAAG 61.703 60.000 0.00 0.00 42.87 4.01
4782 9531 1.742880 GCGTCTGGCATGAGAGCAA 60.743 57.895 0.00 0.00 42.87 3.91
4783 9532 2.125391 GCGTCTGGCATGAGAGCA 60.125 61.111 0.00 0.00 42.87 4.26
4784 9533 2.021068 TAGGCGTCTGGCATGAGAGC 62.021 60.000 0.00 0.00 46.16 4.09
4785 9534 0.249238 GTAGGCGTCTGGCATGAGAG 60.249 60.000 0.00 0.00 46.16 3.20
4786 9535 1.676678 GGTAGGCGTCTGGCATGAGA 61.677 60.000 0.00 0.00 46.16 3.27
4787 9536 1.227380 GGTAGGCGTCTGGCATGAG 60.227 63.158 0.00 0.00 46.16 2.90
4788 9537 0.396556 TAGGTAGGCGTCTGGCATGA 60.397 55.000 0.00 0.00 46.16 3.07
4789 9538 0.464036 TTAGGTAGGCGTCTGGCATG 59.536 55.000 0.00 0.00 46.16 4.06
4790 9539 1.200519 TTTAGGTAGGCGTCTGGCAT 58.799 50.000 0.00 0.00 46.16 4.40
4791 9540 1.134521 CATTTAGGTAGGCGTCTGGCA 60.135 52.381 0.00 0.00 46.16 4.92
4792 9541 1.583054 CATTTAGGTAGGCGTCTGGC 58.417 55.000 0.00 0.00 42.51 4.85
4793 9542 1.202651 CCCATTTAGGTAGGCGTCTGG 60.203 57.143 0.00 0.00 34.66 3.86
4794 9543 1.810412 GCCCATTTAGGTAGGCGTCTG 60.810 57.143 0.00 0.00 35.30 3.51
4795 9544 0.468648 GCCCATTTAGGTAGGCGTCT 59.531 55.000 0.00 0.00 35.30 4.18
4796 9545 0.534427 GGCCCATTTAGGTAGGCGTC 60.534 60.000 0.00 0.00 46.75 5.19
4797 9546 1.530283 GGCCCATTTAGGTAGGCGT 59.470 57.895 0.00 0.00 46.75 5.68
4798 9547 1.597027 CGGCCCATTTAGGTAGGCG 60.597 63.158 0.00 0.00 46.75 5.52
4799 9548 1.228154 CCGGCCCATTTAGGTAGGC 60.228 63.158 0.00 0.00 44.99 3.93
4800 9549 1.228154 GCCGGCCCATTTAGGTAGG 60.228 63.158 18.11 0.00 34.66 3.18
4801 9550 1.228154 GGCCGGCCCATTTAGGTAG 60.228 63.158 36.64 0.00 34.66 3.18
4802 9551 2.920636 GGCCGGCCCATTTAGGTA 59.079 61.111 36.64 0.00 34.66 3.08
4828 9577 3.770040 CGATGTCGTGGCCTCCCA 61.770 66.667 3.32 0.00 39.32 4.37
4988 9737 9.438228 TCCGTATACATGACAAACATTTTCTTA 57.562 29.630 0.00 0.00 37.07 2.10
4989 9738 8.330466 TCCGTATACATGACAAACATTTTCTT 57.670 30.769 0.00 0.00 37.07 2.52
4990 9739 7.915293 TCCGTATACATGACAAACATTTTCT 57.085 32.000 0.00 0.00 37.07 2.52
4991 9740 8.958175 TTTCCGTATACATGACAAACATTTTC 57.042 30.769 0.00 0.00 37.07 2.29
4992 9741 9.751542 TTTTTCCGTATACATGACAAACATTTT 57.248 25.926 0.00 0.00 37.07 1.82
4993 9742 9.405587 CTTTTTCCGTATACATGACAAACATTT 57.594 29.630 0.00 0.00 37.07 2.32
4994 9743 8.573035 ACTTTTTCCGTATACATGACAAACATT 58.427 29.630 0.00 0.00 37.07 2.71
4995 9744 8.106247 ACTTTTTCCGTATACATGACAAACAT 57.894 30.769 0.00 0.00 40.17 2.71
4996 9745 7.499321 ACTTTTTCCGTATACATGACAAACA 57.501 32.000 0.00 0.00 0.00 2.83
4997 9746 8.497554 TGTACTTTTTCCGTATACATGACAAAC 58.502 33.333 0.00 0.00 0.00 2.93
4998 9747 8.497554 GTGTACTTTTTCCGTATACATGACAAA 58.502 33.333 0.00 4.10 31.70 2.83
4999 9748 7.656542 TGTGTACTTTTTCCGTATACATGACAA 59.343 33.333 0.00 0.00 35.14 3.18
5000 9749 7.153315 TGTGTACTTTTTCCGTATACATGACA 58.847 34.615 0.00 0.00 35.14 3.58
5001 9750 7.585286 TGTGTACTTTTTCCGTATACATGAC 57.415 36.000 0.00 0.00 35.14 3.06
5002 9751 7.656542 TGTTGTGTACTTTTTCCGTATACATGA 59.343 33.333 0.00 0.00 38.29 3.07
5003 9752 7.798801 TGTTGTGTACTTTTTCCGTATACATG 58.201 34.615 3.32 0.00 38.29 3.21
5004 9753 7.966246 TGTTGTGTACTTTTTCCGTATACAT 57.034 32.000 3.32 0.00 38.29 2.29
5005 9754 7.783090 TTGTTGTGTACTTTTTCCGTATACA 57.217 32.000 3.32 0.00 37.25 2.29
5006 9755 8.121708 TGTTTGTTGTGTACTTTTTCCGTATAC 58.878 33.333 0.00 0.00 31.93 1.47
5007 9756 8.121708 GTGTTTGTTGTGTACTTTTTCCGTATA 58.878 33.333 0.00 0.00 0.00 1.47
5008 9757 6.968335 GTGTTTGTTGTGTACTTTTTCCGTAT 59.032 34.615 0.00 0.00 0.00 3.06
5009 9758 6.072838 TGTGTTTGTTGTGTACTTTTTCCGTA 60.073 34.615 0.00 0.00 0.00 4.02
5010 9759 5.155643 GTGTTTGTTGTGTACTTTTTCCGT 58.844 37.500 0.00 0.00 0.00 4.69
5011 9760 5.154932 TGTGTTTGTTGTGTACTTTTTCCG 58.845 37.500 0.00 0.00 0.00 4.30
5012 9761 6.383415 TCTGTGTTTGTTGTGTACTTTTTCC 58.617 36.000 0.00 0.00 0.00 3.13
5013 9762 7.861176 TTCTGTGTTTGTTGTGTACTTTTTC 57.139 32.000 0.00 0.00 0.00 2.29
5014 9763 9.915629 TTATTCTGTGTTTGTTGTGTACTTTTT 57.084 25.926 0.00 0.00 0.00 1.94
5015 9764 9.567848 CTTATTCTGTGTTTGTTGTGTACTTTT 57.432 29.630 0.00 0.00 0.00 2.27
5016 9765 8.736244 ACTTATTCTGTGTTTGTTGTGTACTTT 58.264 29.630 0.00 0.00 0.00 2.66
5017 9766 8.181573 CACTTATTCTGTGTTTGTTGTGTACTT 58.818 33.333 0.00 0.00 0.00 2.24
5018 9767 7.335924 ACACTTATTCTGTGTTTGTTGTGTACT 59.664 33.333 0.00 0.00 45.11 2.73
5019 9768 7.428183 CACACTTATTCTGTGTTTGTTGTGTAC 59.572 37.037 0.00 0.00 45.11 2.90
5020 9769 7.334671 TCACACTTATTCTGTGTTTGTTGTGTA 59.665 33.333 0.00 0.00 45.11 2.90
5021 9770 6.150307 TCACACTTATTCTGTGTTTGTTGTGT 59.850 34.615 0.00 0.00 45.11 3.72
5022 9771 6.550843 TCACACTTATTCTGTGTTTGTTGTG 58.449 36.000 0.00 0.00 45.11 3.33
5023 9772 6.751514 TCACACTTATTCTGTGTTTGTTGT 57.248 33.333 0.00 0.00 45.11 3.32
5024 9773 8.459521 TTTTCACACTTATTCTGTGTTTGTTG 57.540 30.769 0.00 0.00 45.11 3.33
5025 9774 9.651913 ATTTTTCACACTTATTCTGTGTTTGTT 57.348 25.926 0.00 0.00 45.11 2.83
5026 9775 9.086336 CATTTTTCACACTTATTCTGTGTTTGT 57.914 29.630 0.00 0.00 45.11 2.83
5027 9776 9.086336 ACATTTTTCACACTTATTCTGTGTTTG 57.914 29.630 0.00 0.00 45.11 2.93
5028 9777 9.651913 AACATTTTTCACACTTATTCTGTGTTT 57.348 25.926 0.00 0.00 45.11 2.83
5029 9778 9.086336 CAACATTTTTCACACTTATTCTGTGTT 57.914 29.630 0.00 0.00 45.11 3.32
5031 9780 8.854979 TCAACATTTTTCACACTTATTCTGTG 57.145 30.769 0.00 0.00 40.44 3.66
5032 9781 9.683069 GATCAACATTTTTCACACTTATTCTGT 57.317 29.630 0.00 0.00 0.00 3.41
5033 9782 9.681692 TGATCAACATTTTTCACACTTATTCTG 57.318 29.630 0.00 0.00 0.00 3.02
5036 9785 9.985730 ACATGATCAACATTTTTCACACTTATT 57.014 25.926 0.00 0.00 37.07 1.40
5101 9850 9.651913 ACATCTAACATTTTTCAAACAGTTGTT 57.348 25.926 0.00 0.00 40.50 2.83
5102 9851 9.086336 CACATCTAACATTTTTCAAACAGTTGT 57.914 29.630 0.00 0.00 36.07 3.32
5103 9852 9.086336 ACACATCTAACATTTTTCAAACAGTTG 57.914 29.630 0.00 0.00 35.95 3.16


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

AutoCloner maintained by Alex Coulton.