Multiple sequence alignment - TraesCS5B01G367800

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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 TraesCS5B01G367800 chr5B 100.000 3077 0 0 1 3077 546146902 546143826 0.000000e+00 5683
1 TraesCS5B01G367800 chr5B 94.519 2171 114 4 908 3077 546075369 546073203 0.000000e+00 3345
2 TraesCS5B01G367800 chr5B 84.015 1639 249 10 1449 3077 545596663 545595028 0.000000e+00 1563
3 TraesCS5B01G367800 chr5B 79.982 2173 365 38 937 3077 13776188 13774054 0.000000e+00 1539
4 TraesCS5B01G367800 chr5B 95.129 349 10 2 102 450 546076731 546076390 7.500000e-151 544
5 TraesCS5B01G367800 chr5B 98.039 102 1 1 5 105 546084605 546084504 3.150000e-40 176
6 TraesCS5B01G367800 chr5B 93.478 92 6 0 524 615 546075457 546075366 1.490000e-28 137
7 TraesCS5B01G367800 chr5B 92.857 84 2 1 442 525 546075674 546075595 5.390000e-23 119
8 TraesCS5B01G367800 chr5A 82.146 2162 338 23 950 3077 565499181 565497034 0.000000e+00 1810
9 TraesCS5B01G367800 chr5A 79.779 2171 372 42 937 3077 12194271 12192138 0.000000e+00 1515
10 TraesCS5B01G367800 chr5A 76.692 2128 397 69 994 3077 616498342 616500414 0.000000e+00 1090
11 TraesCS5B01G367800 chr5D 81.417 2174 353 26 934 3077 447105678 447107830 0.000000e+00 1729
12 TraesCS5B01G367800 chr5D 76.670 2126 401 68 994 3077 493341747 493343819 0.000000e+00 1090
13 TraesCS5B01G367800 chr5D 82.497 737 114 11 2345 3077 18085127 18085852 1.560000e-177 632
14 TraesCS5B01G367800 chr5D 92.203 295 22 1 613 907 15953880 15954173 1.710000e-112 416
15 TraesCS5B01G367800 chr5D 82.197 264 24 14 65 325 447435292 447435049 4.020000e-49 206
16 TraesCS5B01G367800 chr1D 80.415 2119 353 36 989 3077 407672554 407670468 0.000000e+00 1557
17 TraesCS5B01G367800 chr1D 79.014 2130 367 44 993 3077 6714616 6712522 0.000000e+00 1384
18 TraesCS5B01G367800 chr1D 78.655 2141 366 49 983 3075 6721610 6719513 0.000000e+00 1338
19 TraesCS5B01G367800 chr1D 76.965 2010 386 51 1110 3077 5524032 5522058 0.000000e+00 1075
20 TraesCS5B01G367800 chr1D 76.531 2139 395 59 989 3075 6898445 6900528 0.000000e+00 1070
21 TraesCS5B01G367800 chr1D 93.645 299 19 0 613 911 113862707 113862409 6.050000e-122 448
22 TraesCS5B01G367800 chr1D 77.236 369 70 9 2674 3041 487329655 487329300 1.450000e-48 204
23 TraesCS5B01G367800 chr2B 80.235 2130 362 39 989 3077 548623978 548626089 0.000000e+00 1546
24 TraesCS5B01G367800 chr1B 80.179 2119 358 35 989 3077 548193695 548191609 0.000000e+00 1530
25 TraesCS5B01G367800 chr1B 79.213 2160 386 38 950 3077 10007529 10005401 0.000000e+00 1443
26 TraesCS5B01G367800 chr1B 77.814 2132 383 46 989 3075 9161790 9163876 0.000000e+00 1234
27 TraesCS5B01G367800 chr1B 76.970 2119 427 34 995 3077 8819927 8817834 0.000000e+00 1153
28 TraesCS5B01G367800 chr1B 76.577 1998 395 46 1120 3077 8261437 8259473 0.000000e+00 1029
29 TraesCS5B01G367800 chr1A 78.893 2132 366 47 993 3077 8144508 8142414 0.000000e+00 1367
30 TraesCS5B01G367800 chr1A 78.218 2121 395 44 995 3075 8342041 8344134 0.000000e+00 1295
31 TraesCS5B01G367800 chr1A 77.600 2192 422 46 932 3077 8331875 8334043 0.000000e+00 1264
32 TraesCS5B01G367800 chr1A 77.866 2137 384 51 983 3075 8159872 8157781 0.000000e+00 1243
33 TraesCS5B01G367800 chr1A 78.925 1860 338 35 991 2821 9375657 9373823 0.000000e+00 1214
34 TraesCS5B01G367800 chr1A 77.099 1882 374 36 1222 3077 7191247 7189397 0.000000e+00 1035
35 TraesCS5B01G367800 chr1A 81.746 252 41 2 999 1248 8340204 8340452 4.020000e-49 206
36 TraesCS5B01G367800 chr1A 75.692 325 69 5 2186 2506 7829491 7829809 1.480000e-33 154
37 TraesCS5B01G367800 chr1A 84.559 136 21 0 1499 1634 7829339 7829474 5.350000e-28 135
38 TraesCS5B01G367800 chr4B 77.898 2131 387 42 989 3077 36635860 36633772 0.000000e+00 1249
39 TraesCS5B01G367800 chr2A 76.471 1513 264 45 997 2457 611296156 611297628 0.000000e+00 737
40 TraesCS5B01G367800 chr3D 75.710 1268 267 28 1814 3075 32593741 32594973 5.680000e-167 597
41 TraesCS5B01G367800 chr3D 93.493 292 18 1 616 907 140412454 140412164 1.690000e-117 433
42 TraesCS5B01G367800 chr7B 93.980 299 18 0 613 911 711093451 711093749 1.300000e-123 453
43 TraesCS5B01G367800 chr6D 93.857 293 18 0 615 907 461518703 461518995 2.820000e-120 442
44 TraesCS5B01G367800 chr7D 93.559 295 18 1 613 907 69484859 69485152 3.640000e-119 438
45 TraesCS5B01G367800 chr7D 93.197 294 20 0 614 907 41506891 41507184 1.690000e-117 433
46 TraesCS5B01G367800 chr4D 93.197 294 18 2 614 907 508228366 508228657 6.100000e-117 431
47 TraesCS5B01G367800 chr4D 92.833 293 20 1 615 907 368500587 368500878 1.020000e-114 424


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 TraesCS5B01G367800 chr5B 546143826 546146902 3076 True 5683.00 5683 100.00000 1 3077 1 chr5B.!!$R4 3076
1 TraesCS5B01G367800 chr5B 545595028 545596663 1635 True 1563.00 1563 84.01500 1449 3077 1 chr5B.!!$R2 1628
2 TraesCS5B01G367800 chr5B 13774054 13776188 2134 True 1539.00 1539 79.98200 937 3077 1 chr5B.!!$R1 2140
3 TraesCS5B01G367800 chr5B 546073203 546076731 3528 True 1036.25 3345 93.99575 102 3077 4 chr5B.!!$R5 2975
4 TraesCS5B01G367800 chr5A 565497034 565499181 2147 True 1810.00 1810 82.14600 950 3077 1 chr5A.!!$R2 2127
5 TraesCS5B01G367800 chr5A 12192138 12194271 2133 True 1515.00 1515 79.77900 937 3077 1 chr5A.!!$R1 2140
6 TraesCS5B01G367800 chr5A 616498342 616500414 2072 False 1090.00 1090 76.69200 994 3077 1 chr5A.!!$F1 2083
7 TraesCS5B01G367800 chr5D 447105678 447107830 2152 False 1729.00 1729 81.41700 934 3077 1 chr5D.!!$F3 2143
8 TraesCS5B01G367800 chr5D 493341747 493343819 2072 False 1090.00 1090 76.67000 994 3077 1 chr5D.!!$F4 2083
9 TraesCS5B01G367800 chr5D 18085127 18085852 725 False 632.00 632 82.49700 2345 3077 1 chr5D.!!$F2 732
10 TraesCS5B01G367800 chr1D 407670468 407672554 2086 True 1557.00 1557 80.41500 989 3077 1 chr1D.!!$R5 2088
11 TraesCS5B01G367800 chr1D 6712522 6714616 2094 True 1384.00 1384 79.01400 993 3077 1 chr1D.!!$R2 2084
12 TraesCS5B01G367800 chr1D 6719513 6721610 2097 True 1338.00 1338 78.65500 983 3075 1 chr1D.!!$R3 2092
13 TraesCS5B01G367800 chr1D 5522058 5524032 1974 True 1075.00 1075 76.96500 1110 3077 1 chr1D.!!$R1 1967
14 TraesCS5B01G367800 chr1D 6898445 6900528 2083 False 1070.00 1070 76.53100 989 3075 1 chr1D.!!$F1 2086
15 TraesCS5B01G367800 chr2B 548623978 548626089 2111 False 1546.00 1546 80.23500 989 3077 1 chr2B.!!$F1 2088
16 TraesCS5B01G367800 chr1B 548191609 548193695 2086 True 1530.00 1530 80.17900 989 3077 1 chr1B.!!$R4 2088
17 TraesCS5B01G367800 chr1B 10005401 10007529 2128 True 1443.00 1443 79.21300 950 3077 1 chr1B.!!$R3 2127
18 TraesCS5B01G367800 chr1B 9161790 9163876 2086 False 1234.00 1234 77.81400 989 3075 1 chr1B.!!$F1 2086
19 TraesCS5B01G367800 chr1B 8817834 8819927 2093 True 1153.00 1153 76.97000 995 3077 1 chr1B.!!$R2 2082
20 TraesCS5B01G367800 chr1B 8259473 8261437 1964 True 1029.00 1029 76.57700 1120 3077 1 chr1B.!!$R1 1957
21 TraesCS5B01G367800 chr1A 8142414 8144508 2094 True 1367.00 1367 78.89300 993 3077 1 chr1A.!!$R2 2084
22 TraesCS5B01G367800 chr1A 8331875 8334043 2168 False 1264.00 1264 77.60000 932 3077 1 chr1A.!!$F1 2145
23 TraesCS5B01G367800 chr1A 8157781 8159872 2091 True 1243.00 1243 77.86600 983 3075 1 chr1A.!!$R3 2092
24 TraesCS5B01G367800 chr1A 9373823 9375657 1834 True 1214.00 1214 78.92500 991 2821 1 chr1A.!!$R4 1830
25 TraesCS5B01G367800 chr1A 7189397 7191247 1850 True 1035.00 1035 77.09900 1222 3077 1 chr1A.!!$R1 1855
26 TraesCS5B01G367800 chr1A 8340204 8344134 3930 False 750.50 1295 79.98200 995 3075 2 chr1A.!!$F3 2080
27 TraesCS5B01G367800 chr4B 36633772 36635860 2088 True 1249.00 1249 77.89800 989 3077 1 chr4B.!!$R1 2088
28 TraesCS5B01G367800 chr2A 611296156 611297628 1472 False 737.00 737 76.47100 997 2457 1 chr2A.!!$F1 1460
29 TraesCS5B01G367800 chr3D 32593741 32594973 1232 False 597.00 597 75.71000 1814 3075 1 chr3D.!!$F1 1261

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
85 86 0.245539 CCGTGGAGGTCAATACGTGT 59.754 55.0 0.0 0.00 34.96 4.49 F
1512 2509 0.320771 GGTTCTGGCAGAGCTTCGAA 60.321 55.0 27.0 5.03 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1903 2906 0.391793 GACTGGCTAGCTTGTGACCC 60.392 60.0 15.72 0.0 0.0 4.46 R
2572 3601 0.868406 AGCACAAACTAACTCAGCGC 59.132 50.0 0.00 0.0 0.0 5.92 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
28 29 9.525409 AATGAATGAATTAGTAGAATTGCTTGC 57.475 29.630 0.00 0.00 0.00 4.01
29 30 8.284945 TGAATGAATTAGTAGAATTGCTTGCT 57.715 30.769 0.00 0.00 0.00 3.91
30 31 9.394767 TGAATGAATTAGTAGAATTGCTTGCTA 57.605 29.630 0.00 0.00 0.00 3.49
31 32 9.875675 GAATGAATTAGTAGAATTGCTTGCTAG 57.124 33.333 0.00 0.00 0.00 3.42
33 34 8.201554 TGAATTAGTAGAATTGCTTGCTAGTG 57.798 34.615 0.00 0.00 0.00 2.74
34 35 8.040727 TGAATTAGTAGAATTGCTTGCTAGTGA 58.959 33.333 0.00 0.00 0.00 3.41
35 36 8.430801 AATTAGTAGAATTGCTTGCTAGTGAG 57.569 34.615 0.00 0.00 0.00 3.51
36 37 5.667539 AGTAGAATTGCTTGCTAGTGAGA 57.332 39.130 0.00 0.00 0.00 3.27
37 38 6.042638 AGTAGAATTGCTTGCTAGTGAGAA 57.957 37.500 0.00 0.00 0.00 2.87
38 39 6.105333 AGTAGAATTGCTTGCTAGTGAGAAG 58.895 40.000 0.00 0.00 0.00 2.85
39 40 4.260170 AGAATTGCTTGCTAGTGAGAAGG 58.740 43.478 0.00 0.00 0.00 3.46
41 42 1.352083 TGCTTGCTAGTGAGAAGGGT 58.648 50.000 0.00 0.00 0.00 4.34
42 43 1.002430 TGCTTGCTAGTGAGAAGGGTG 59.998 52.381 0.00 0.00 0.00 4.61
43 44 1.276421 GCTTGCTAGTGAGAAGGGTGA 59.724 52.381 0.00 0.00 0.00 4.02
44 45 2.093235 GCTTGCTAGTGAGAAGGGTGAT 60.093 50.000 0.00 0.00 0.00 3.06
45 46 3.620966 GCTTGCTAGTGAGAAGGGTGATT 60.621 47.826 0.00 0.00 0.00 2.57
46 47 4.583871 CTTGCTAGTGAGAAGGGTGATTT 58.416 43.478 0.00 0.00 0.00 2.17
47 48 5.734720 CTTGCTAGTGAGAAGGGTGATTTA 58.265 41.667 0.00 0.00 0.00 1.40
48 49 5.344743 TGCTAGTGAGAAGGGTGATTTAG 57.655 43.478 0.00 0.00 0.00 1.85
49 50 4.777896 TGCTAGTGAGAAGGGTGATTTAGT 59.222 41.667 0.00 0.00 0.00 2.24
50 51 5.955959 TGCTAGTGAGAAGGGTGATTTAGTA 59.044 40.000 0.00 0.00 0.00 1.82
51 52 6.127423 TGCTAGTGAGAAGGGTGATTTAGTAC 60.127 42.308 0.00 0.00 0.00 2.73
53 54 7.284944 GCTAGTGAGAAGGGTGATTTAGTACTA 59.715 40.741 0.00 0.00 0.00 1.82
54 55 7.407393 AGTGAGAAGGGTGATTTAGTACTAC 57.593 40.000 0.91 0.00 0.00 2.73
55 56 6.952358 AGTGAGAAGGGTGATTTAGTACTACA 59.048 38.462 0.91 0.00 0.00 2.74
56 57 7.453752 AGTGAGAAGGGTGATTTAGTACTACAA 59.546 37.037 0.91 1.38 0.00 2.41
57 58 8.092687 GTGAGAAGGGTGATTTAGTACTACAAA 58.907 37.037 0.91 0.00 0.00 2.83
58 59 8.653191 TGAGAAGGGTGATTTAGTACTACAAAA 58.347 33.333 0.91 0.00 0.00 2.44
59 60 9.498176 GAGAAGGGTGATTTAGTACTACAAAAA 57.502 33.333 0.91 0.00 0.00 1.94
84 85 3.044809 CCGTGGAGGTCAATACGTG 57.955 57.895 0.00 0.00 34.96 4.49
85 86 0.245539 CCGTGGAGGTCAATACGTGT 59.754 55.000 0.00 0.00 34.96 4.49
86 87 1.346365 CGTGGAGGTCAATACGTGTG 58.654 55.000 0.00 0.00 0.00 3.82
88 89 2.095110 CGTGGAGGTCAATACGTGTGTA 60.095 50.000 0.00 0.00 34.45 2.90
89 90 3.248266 GTGGAGGTCAATACGTGTGTAC 58.752 50.000 0.00 0.00 32.26 2.90
90 91 3.057033 GTGGAGGTCAATACGTGTGTACT 60.057 47.826 0.00 0.00 32.26 2.73
91 92 3.192001 TGGAGGTCAATACGTGTGTACTC 59.808 47.826 0.00 8.41 32.26 2.59
93 94 2.494870 AGGTCAATACGTGTGTACTCCC 59.505 50.000 0.00 0.00 32.26 4.30
94 95 2.417787 GGTCAATACGTGTGTACTCCCC 60.418 54.545 0.00 0.00 32.26 4.81
125 126 6.236017 TGATATGAGAACGTTTTTGACACC 57.764 37.500 0.46 0.00 0.00 4.16
142 143 0.896226 ACCGAGACAAAGGGAGTAGC 59.104 55.000 0.00 0.00 0.00 3.58
194 195 5.813672 GGAATTAACTAGCCAATACGTGTGA 59.186 40.000 0.00 0.00 0.00 3.58
216 217 1.143813 CCAGCCCCTCATAATCAGGT 58.856 55.000 0.00 0.00 0.00 4.00
217 218 1.202855 CCAGCCCCTCATAATCAGGTG 60.203 57.143 0.00 0.00 0.00 4.00
218 219 1.492176 CAGCCCCTCATAATCAGGTGT 59.508 52.381 0.00 0.00 0.00 4.16
219 220 1.492176 AGCCCCTCATAATCAGGTGTG 59.508 52.381 0.00 0.00 0.00 3.82
220 221 1.972872 CCCCTCATAATCAGGTGTGC 58.027 55.000 0.00 0.00 0.00 4.57
221 222 1.212688 CCCCTCATAATCAGGTGTGCA 59.787 52.381 0.00 0.00 0.00 4.57
299 300 4.882671 AAGCATTTATACAGCTTGGACG 57.117 40.909 0.00 0.00 45.99 4.79
338 339 1.906824 GGACGGTGGTCAGACAGGA 60.907 63.158 2.17 0.00 45.28 3.86
495 1220 0.782384 CGTACTCTCTTGCGCGTTTT 59.218 50.000 8.43 0.00 0.00 2.43
557 1421 7.795047 TCAGACTATGATTCATTGCTAAGGAA 58.205 34.615 4.14 0.00 35.48 3.36
560 1424 6.662755 ACTATGATTCATTGCTAAGGAACCA 58.337 36.000 4.14 0.00 33.64 3.67
612 1476 5.448225 CGCTCATAGACTTTGAATTGCATGT 60.448 40.000 0.00 0.00 0.00 3.21
614 1478 7.130917 GCTCATAGACTTTGAATTGCATGTAG 58.869 38.462 0.00 0.00 0.00 2.74
615 1479 7.011763 GCTCATAGACTTTGAATTGCATGTAGA 59.988 37.037 0.00 0.00 0.00 2.59
616 1480 8.429493 TCATAGACTTTGAATTGCATGTAGAG 57.571 34.615 0.00 0.00 0.00 2.43
617 1481 7.496920 TCATAGACTTTGAATTGCATGTAGAGG 59.503 37.037 0.00 0.00 0.00 3.69
618 1482 4.946157 AGACTTTGAATTGCATGTAGAGGG 59.054 41.667 0.00 0.00 0.00 4.30
623 1487 4.406456 TGAATTGCATGTAGAGGGTGTTT 58.594 39.130 0.00 0.00 0.00 2.83
624 1488 4.218200 TGAATTGCATGTAGAGGGTGTTTG 59.782 41.667 0.00 0.00 0.00 2.93
625 1489 2.949177 TGCATGTAGAGGGTGTTTGT 57.051 45.000 0.00 0.00 0.00 2.83
628 1492 3.957497 TGCATGTAGAGGGTGTTTGTTTT 59.043 39.130 0.00 0.00 0.00 2.43
630 1494 4.037446 GCATGTAGAGGGTGTTTGTTTTCA 59.963 41.667 0.00 0.00 0.00 2.69
632 1496 4.204012 TGTAGAGGGTGTTTGTTTTCAGG 58.796 43.478 0.00 0.00 0.00 3.86
633 1497 2.666317 AGAGGGTGTTTGTTTTCAGGG 58.334 47.619 0.00 0.00 0.00 4.45
634 1498 2.243736 AGAGGGTGTTTGTTTTCAGGGA 59.756 45.455 0.00 0.00 0.00 4.20
635 1499 2.361119 GAGGGTGTTTGTTTTCAGGGAC 59.639 50.000 0.00 0.00 0.00 4.46
636 1500 2.024369 AGGGTGTTTGTTTTCAGGGACT 60.024 45.455 0.00 0.00 43.88 3.85
638 1502 3.955551 GGGTGTTTGTTTTCAGGGACTTA 59.044 43.478 0.00 0.00 34.60 2.24
639 1503 4.587262 GGGTGTTTGTTTTCAGGGACTTAT 59.413 41.667 0.00 0.00 34.60 1.73
640 1504 5.069914 GGGTGTTTGTTTTCAGGGACTTATT 59.930 40.000 0.00 0.00 34.60 1.40
641 1505 5.983118 GGTGTTTGTTTTCAGGGACTTATTG 59.017 40.000 0.00 0.00 34.60 1.90
642 1506 6.183360 GGTGTTTGTTTTCAGGGACTTATTGA 60.183 38.462 0.00 0.00 34.60 2.57
646 1510 9.974980 GTTTGTTTTCAGGGACTTATTGATTTA 57.025 29.630 0.00 0.00 34.60 1.40
648 1512 8.348285 TGTTTTCAGGGACTTATTGATTTAGG 57.652 34.615 0.00 0.00 34.60 2.69
649 1513 7.396055 TGTTTTCAGGGACTTATTGATTTAGGG 59.604 37.037 0.00 0.00 34.60 3.53
650 1514 6.901615 TTCAGGGACTTATTGATTTAGGGA 57.098 37.500 0.00 0.00 34.60 4.20
651 1515 6.248569 TCAGGGACTTATTGATTTAGGGAC 57.751 41.667 0.00 0.00 34.60 4.46
652 1516 5.970640 TCAGGGACTTATTGATTTAGGGACT 59.029 40.000 0.00 0.00 39.39 3.85
653 1517 6.447084 TCAGGGACTTATTGATTTAGGGACTT 59.553 38.462 0.00 0.00 36.39 3.01
654 1518 7.626084 TCAGGGACTTATTGATTTAGGGACTTA 59.374 37.037 0.00 0.00 36.39 2.24
655 1519 8.272173 CAGGGACTTATTGATTTAGGGACTTAA 58.728 37.037 0.00 0.00 36.39 1.85
656 1520 8.842764 AGGGACTTATTGATTTAGGGACTTAAA 58.157 33.333 0.00 0.00 34.75 1.52
657 1521 9.470399 GGGACTTATTGATTTAGGGACTTAAAA 57.530 33.333 0.00 0.00 41.75 1.52
681 1545 9.831682 AAAAAGTCCCTATAAGTCCCATTTAAA 57.168 29.630 0.00 0.00 0.00 1.52
693 1557 7.718334 AGTCCCATTTAAATTAAACAGGAGG 57.282 36.000 14.87 6.64 34.62 4.30
694 1558 6.667848 AGTCCCATTTAAATTAAACAGGAGGG 59.332 38.462 14.87 13.31 34.62 4.30
695 1559 6.666113 GTCCCATTTAAATTAAACAGGAGGGA 59.334 38.462 14.87 14.79 38.05 4.20
696 1560 6.666113 TCCCATTTAAATTAAACAGGAGGGAC 59.334 38.462 15.96 0.00 35.62 4.46
698 1562 7.180229 CCCATTTAAATTAAACAGGAGGGACTT 59.820 37.037 15.96 0.00 41.55 3.01
699 1563 9.250246 CCATTTAAATTAAACAGGAGGGACTTA 57.750 33.333 11.26 0.00 41.55 2.24
704 1568 6.765355 ATTAAACAGGAGGGACTTATAGGG 57.235 41.667 0.00 0.00 41.55 3.53
705 1569 4.363546 AAACAGGAGGGACTTATAGGGA 57.636 45.455 0.00 0.00 41.55 4.20
707 1571 2.866454 ACAGGAGGGACTTATAGGGACT 59.134 50.000 0.00 0.00 41.55 3.85
708 1572 3.275228 ACAGGAGGGACTTATAGGGACTT 59.725 47.826 0.00 0.00 41.55 3.01
709 1573 4.485021 ACAGGAGGGACTTATAGGGACTTA 59.515 45.833 0.00 0.00 41.55 2.24
710 1574 5.042827 ACAGGAGGGACTTATAGGGACTTAA 60.043 44.000 0.00 0.00 41.55 1.85
713 1577 5.904169 GGAGGGACTTATAGGGACTTAAAGT 59.096 44.000 0.00 0.00 42.31 2.66
714 1578 6.183360 GGAGGGACTTATAGGGACTTAAAGTG 60.183 46.154 0.00 0.00 40.60 3.16
715 1579 5.666265 AGGGACTTATAGGGACTTAAAGTGG 59.334 44.000 0.00 0.00 40.60 4.00
716 1580 5.366460 GGACTTATAGGGACTTAAAGTGGC 58.634 45.833 0.00 0.00 40.60 5.01
717 1581 5.019785 ACTTATAGGGACTTAAAGTGGCG 57.980 43.478 0.00 0.00 39.58 5.69
723 1587 2.163613 GGGACTTAAAGTGGCGATTTGG 59.836 50.000 0.00 0.00 0.00 3.28
726 1590 2.817844 ACTTAAAGTGGCGATTTGGGAC 59.182 45.455 0.00 0.00 0.00 4.46
729 1593 2.871096 AAGTGGCGATTTGGGACTTA 57.129 45.000 0.00 0.00 0.00 2.24
730 1594 3.366052 AAGTGGCGATTTGGGACTTAT 57.634 42.857 0.00 0.00 0.00 1.73
731 1595 2.919228 AGTGGCGATTTGGGACTTATC 58.081 47.619 0.00 0.00 0.00 1.75
732 1596 2.238646 AGTGGCGATTTGGGACTTATCA 59.761 45.455 0.00 0.00 0.00 2.15
733 1597 3.013921 GTGGCGATTTGGGACTTATCAA 58.986 45.455 0.00 0.00 0.00 2.57
734 1598 3.442273 GTGGCGATTTGGGACTTATCAAA 59.558 43.478 0.00 0.00 37.29 2.69
755 1619 5.638530 AAAAAGACTCTCAGGGAAGAACT 57.361 39.130 0.00 0.00 0.00 3.01
756 1620 5.638530 AAAAGACTCTCAGGGAAGAACTT 57.361 39.130 0.00 0.00 0.00 2.66
757 1621 6.749036 AAAAGACTCTCAGGGAAGAACTTA 57.251 37.500 0.00 0.00 0.00 2.24
759 1623 8.437274 AAAAGACTCTCAGGGAAGAACTTATA 57.563 34.615 0.00 0.00 0.00 0.98
761 1625 6.133356 AGACTCTCAGGGAAGAACTTATAGG 58.867 44.000 0.00 0.00 0.00 2.57
762 1626 5.212745 ACTCTCAGGGAAGAACTTATAGGG 58.787 45.833 0.00 0.00 0.00 3.53
764 1628 5.209659 TCTCAGGGAAGAACTTATAGGGAC 58.790 45.833 0.00 0.00 0.00 4.46
765 1629 5.043281 TCTCAGGGAAGAACTTATAGGGACT 60.043 44.000 0.00 0.00 46.37 3.85
769 1633 8.517047 TCAGGGAAGAACTTATAGGGACTTATA 58.483 37.037 0.00 0.00 41.75 0.98
770 1634 8.808092 CAGGGAAGAACTTATAGGGACTTATAG 58.192 40.741 0.00 0.00 41.75 1.31
771 1635 8.521301 AGGGAAGAACTTATAGGGACTTATAGT 58.479 37.037 0.00 0.00 41.75 2.12
772 1636 8.586744 GGGAAGAACTTATAGGGACTTATAGTG 58.413 40.741 0.00 0.00 41.75 2.74
784 1648 5.998363 GGGACTTATAGTGATGATTTGGGTC 59.002 44.000 0.00 0.00 0.00 4.46
785 1649 6.183361 GGGACTTATAGTGATGATTTGGGTCT 60.183 42.308 0.00 0.00 0.00 3.85
786 1650 7.283329 GGACTTATAGTGATGATTTGGGTCTT 58.717 38.462 0.00 0.00 0.00 3.01
788 1652 9.178758 GACTTATAGTGATGATTTGGGTCTTTT 57.821 33.333 0.00 0.00 0.00 2.27
791 1655 5.904362 AGTGATGATTTGGGTCTTTTAGC 57.096 39.130 0.00 0.00 0.00 3.09
792 1656 5.324409 AGTGATGATTTGGGTCTTTTAGCA 58.676 37.500 0.00 0.00 0.00 3.49
794 1658 6.038356 GTGATGATTTGGGTCTTTTAGCATG 58.962 40.000 0.00 0.00 0.00 4.06
795 1659 5.716228 TGATGATTTGGGTCTTTTAGCATGT 59.284 36.000 0.00 0.00 0.00 3.21
797 1661 5.076182 TGATTTGGGTCTTTTAGCATGTCA 58.924 37.500 0.00 0.00 0.00 3.58
798 1662 5.716228 TGATTTGGGTCTTTTAGCATGTCAT 59.284 36.000 0.00 0.00 0.00 3.06
799 1663 6.211184 TGATTTGGGTCTTTTAGCATGTCATT 59.789 34.615 0.00 0.00 0.00 2.57
800 1664 6.418057 TTTGGGTCTTTTAGCATGTCATTT 57.582 33.333 0.00 0.00 0.00 2.32
801 1665 7.531857 TTTGGGTCTTTTAGCATGTCATTTA 57.468 32.000 0.00 0.00 0.00 1.40
802 1666 7.531857 TTGGGTCTTTTAGCATGTCATTTAA 57.468 32.000 0.00 0.00 0.00 1.52
803 1667 7.716799 TGGGTCTTTTAGCATGTCATTTAAT 57.283 32.000 0.00 0.00 0.00 1.40
804 1668 8.815565 TGGGTCTTTTAGCATGTCATTTAATA 57.184 30.769 0.00 0.00 0.00 0.98
805 1669 9.249053 TGGGTCTTTTAGCATGTCATTTAATAA 57.751 29.630 0.00 0.00 0.00 1.40
806 1670 9.516314 GGGTCTTTTAGCATGTCATTTAATAAC 57.484 33.333 0.00 0.00 0.00 1.89
807 1671 9.516314 GGTCTTTTAGCATGTCATTTAATAACC 57.484 33.333 0.00 0.00 0.00 2.85
814 1678 6.712547 AGCATGTCATTTAATAACCTCTAGCC 59.287 38.462 0.00 0.00 0.00 3.93
815 1679 6.072452 GCATGTCATTTAATAACCTCTAGCCC 60.072 42.308 0.00 0.00 0.00 5.19
817 1681 7.149202 TGTCATTTAATAACCTCTAGCCCAT 57.851 36.000 0.00 0.00 0.00 4.00
818 1682 8.270137 TGTCATTTAATAACCTCTAGCCCATA 57.730 34.615 0.00 0.00 0.00 2.74
819 1683 8.719596 TGTCATTTAATAACCTCTAGCCCATAA 58.280 33.333 0.00 0.00 0.00 1.90
820 1684 9.740710 GTCATTTAATAACCTCTAGCCCATAAT 57.259 33.333 0.00 0.00 0.00 1.28
828 1692 4.140423 ACCTCTAGCCCATAATAAGTCCCT 60.140 45.833 0.00 0.00 0.00 4.20
829 1693 4.223923 CCTCTAGCCCATAATAAGTCCCTG 59.776 50.000 0.00 0.00 0.00 4.45
830 1694 4.827789 TCTAGCCCATAATAAGTCCCTGT 58.172 43.478 0.00 0.00 0.00 4.00
831 1695 5.972698 TCTAGCCCATAATAAGTCCCTGTA 58.027 41.667 0.00 0.00 0.00 2.74
832 1696 6.387127 TCTAGCCCATAATAAGTCCCTGTAA 58.613 40.000 0.00 0.00 0.00 2.41
833 1697 5.987019 AGCCCATAATAAGTCCCTGTAAA 57.013 39.130 0.00 0.00 0.00 2.01
834 1698 5.691896 AGCCCATAATAAGTCCCTGTAAAC 58.308 41.667 0.00 0.00 0.00 2.01
837 1701 6.378848 GCCCATAATAAGTCCCTGTAAACAAA 59.621 38.462 0.00 0.00 0.00 2.83
838 1702 7.629866 GCCCATAATAAGTCCCTGTAAACAAAC 60.630 40.741 0.00 0.00 0.00 2.93
839 1703 7.394923 CCCATAATAAGTCCCTGTAAACAAACA 59.605 37.037 0.00 0.00 0.00 2.83
840 1704 8.458843 CCATAATAAGTCCCTGTAAACAAACAG 58.541 37.037 0.00 0.00 45.33 3.16
849 1713 4.969484 CTGTAAACAAACAGGTAGGGACT 58.031 43.478 0.00 0.00 42.63 3.85
850 1714 5.374071 CTGTAAACAAACAGGTAGGGACTT 58.626 41.667 0.00 0.00 42.63 3.01
851 1715 5.127491 TGTAAACAAACAGGTAGGGACTTG 58.873 41.667 0.00 0.00 41.75 3.16
853 1717 3.771577 ACAAACAGGTAGGGACTTGAG 57.228 47.619 0.00 0.00 41.75 3.02
854 1718 3.314693 ACAAACAGGTAGGGACTTGAGA 58.685 45.455 0.00 0.00 41.75 3.27
855 1719 3.071167 ACAAACAGGTAGGGACTTGAGAC 59.929 47.826 0.00 0.00 41.75 3.36
856 1720 3.261818 AACAGGTAGGGACTTGAGACT 57.738 47.619 0.00 0.00 41.75 3.24
858 1722 4.399483 ACAGGTAGGGACTTGAGACTTA 57.601 45.455 0.00 0.00 41.75 2.24
859 1723 4.949121 ACAGGTAGGGACTTGAGACTTAT 58.051 43.478 0.00 0.00 41.75 1.73
860 1724 6.088541 ACAGGTAGGGACTTGAGACTTATA 57.911 41.667 0.00 0.00 41.75 0.98
863 1727 6.608002 CAGGTAGGGACTTGAGACTTATAAGT 59.392 42.308 18.05 18.05 40.66 2.24
864 1728 7.124448 CAGGTAGGGACTTGAGACTTATAAGTT 59.876 40.741 18.96 9.34 38.78 2.66
865 1729 7.124448 AGGTAGGGACTTGAGACTTATAAGTTG 59.876 40.741 18.96 9.81 38.78 3.16
866 1730 6.301169 AGGGACTTGAGACTTATAAGTTGG 57.699 41.667 18.96 10.07 34.84 3.77
867 1731 5.189934 AGGGACTTGAGACTTATAAGTTGGG 59.810 44.000 18.96 10.37 34.84 4.12
868 1732 5.189145 GGGACTTGAGACTTATAAGTTGGGA 59.811 44.000 18.96 6.15 39.88 4.37
869 1733 6.107343 GGACTTGAGACTTATAAGTTGGGAC 58.893 44.000 18.96 6.39 39.88 4.46
905 1769 8.103305 TCATAGGACTTATGAATCAAATAGGGC 58.897 37.037 4.87 0.00 43.96 5.19
907 1771 4.455877 GGACTTATGAATCAAATAGGGCCG 59.544 45.833 0.00 0.00 26.28 6.13
1144 2033 0.703466 CGTCTCGAGAAACGACAAGC 59.297 55.000 18.55 0.00 46.45 4.01
1236 2188 1.033746 CCAGCTGGTACCTTGGCATG 61.034 60.000 25.53 13.07 0.00 4.06
1256 2208 2.841266 TGTGGTTCAATAAGATCCCGGA 59.159 45.455 0.73 0.00 35.58 5.14
1264 2216 5.611374 TCAATAAGATCCCGGATTTCACTC 58.389 41.667 0.73 0.00 0.00 3.51
1512 2509 0.320771 GGTTCTGGCAGAGCTTCGAA 60.321 55.000 27.00 5.03 0.00 3.71
1620 2617 3.581101 CCTCATTGATCTGGGTCTAGGA 58.419 50.000 0.00 0.00 0.00 2.94
1903 2906 6.333416 TCTGGTCAGATAAAGTTGAATCTCG 58.667 40.000 0.00 0.00 29.93 4.04
2031 3034 1.674441 CCATCATGTGACTGCATGGAC 59.326 52.381 1.94 0.00 44.54 4.02
2074 3077 4.318333 CGCACGATCGAGATTTTGATGATT 60.318 41.667 24.34 0.00 0.00 2.57
2131 3149 5.437289 TTGTGCTAGTGAGAAAAACATGG 57.563 39.130 0.00 0.00 0.00 3.66
2141 3159 5.754890 GTGAGAAAAACATGGCAAGTTCAAT 59.245 36.000 8.72 0.00 0.00 2.57
2228 3249 6.073548 GCTACAAATAAGATCCGATGTGAAGG 60.074 42.308 2.35 0.00 0.00 3.46
2255 3276 6.514048 GCTTGTCTTAGTTCTTGTTCTTGCAT 60.514 38.462 0.00 0.00 0.00 3.96
2258 3279 6.318648 TGTCTTAGTTCTTGTTCTTGCATTGT 59.681 34.615 0.00 0.00 0.00 2.71
2306 3327 5.356751 GCACTGTATGGAATGGTGAATTACA 59.643 40.000 0.00 0.00 43.47 2.41
2349 3370 7.724305 TGAAGTTTACAGTATTGGAGAACAC 57.276 36.000 0.00 0.00 0.00 3.32
2398 3419 4.070716 AGATTCACTGCCAAGTTCAAGAG 58.929 43.478 0.00 0.00 32.98 2.85
2491 3518 4.400884 TGATGTTGTTGTTACTGCTTTGGT 59.599 37.500 0.00 0.00 0.00 3.67
2536 3565 1.792949 GCTTCCAATATGCTACGACCG 59.207 52.381 0.00 0.00 0.00 4.79
2572 3601 3.152341 GTGGGATTATGGCCTTCAGATG 58.848 50.000 3.32 0.00 0.00 2.90
2627 3656 2.121963 AAGCTGGGTGGAGGTGGA 60.122 61.111 0.00 0.00 0.00 4.02
2765 3803 3.567164 GGCTGATCCAACATATCAACCTG 59.433 47.826 0.00 0.00 36.88 4.00
2865 3903 4.607955 TCGTCATCTATTTAAGGTCAGCG 58.392 43.478 0.00 0.00 0.00 5.18
2893 3946 2.825532 ACGATGTTGCTGCCCTAAATTT 59.174 40.909 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.910944 AGCAAGCAATTCTACTAATTCATTCAT 58.089 29.630 0.00 0.00 0.00 2.57
4 5 8.284945 AGCAAGCAATTCTACTAATTCATTCA 57.715 30.769 0.00 0.00 0.00 2.57
5 6 9.875675 CTAGCAAGCAATTCTACTAATTCATTC 57.124 33.333 0.00 0.00 0.00 2.67
6 7 9.401058 ACTAGCAAGCAATTCTACTAATTCATT 57.599 29.630 0.00 0.00 0.00 2.57
7 8 8.834465 CACTAGCAAGCAATTCTACTAATTCAT 58.166 33.333 0.00 0.00 0.00 2.57
8 9 8.040727 TCACTAGCAAGCAATTCTACTAATTCA 58.959 33.333 0.00 0.00 0.00 2.57
9 10 8.425577 TCACTAGCAAGCAATTCTACTAATTC 57.574 34.615 0.00 0.00 0.00 2.17
10 11 8.260818 TCTCACTAGCAAGCAATTCTACTAATT 58.739 33.333 0.00 0.00 0.00 1.40
11 12 7.786030 TCTCACTAGCAAGCAATTCTACTAAT 58.214 34.615 0.00 0.00 0.00 1.73
13 14 6.775594 TCTCACTAGCAAGCAATTCTACTA 57.224 37.500 0.00 0.00 0.00 1.82
14 15 5.667539 TCTCACTAGCAAGCAATTCTACT 57.332 39.130 0.00 0.00 0.00 2.57
15 16 5.293079 CCTTCTCACTAGCAAGCAATTCTAC 59.707 44.000 0.00 0.00 0.00 2.59
16 17 5.423015 CCTTCTCACTAGCAAGCAATTCTA 58.577 41.667 0.00 0.00 0.00 2.10
18 19 3.376546 CCCTTCTCACTAGCAAGCAATTC 59.623 47.826 0.00 0.00 0.00 2.17
20 21 2.307098 ACCCTTCTCACTAGCAAGCAAT 59.693 45.455 0.00 0.00 0.00 3.56
22 23 1.002430 CACCCTTCTCACTAGCAAGCA 59.998 52.381 0.00 0.00 0.00 3.91
23 24 1.276421 TCACCCTTCTCACTAGCAAGC 59.724 52.381 0.00 0.00 0.00 4.01
24 25 3.902881 ATCACCCTTCTCACTAGCAAG 57.097 47.619 0.00 0.00 0.00 4.01
25 26 4.640771 AAATCACCCTTCTCACTAGCAA 57.359 40.909 0.00 0.00 0.00 3.91
26 27 4.777896 ACTAAATCACCCTTCTCACTAGCA 59.222 41.667 0.00 0.00 0.00 3.49
28 29 7.648039 AGTACTAAATCACCCTTCTCACTAG 57.352 40.000 0.00 0.00 0.00 2.57
29 30 8.111545 TGTAGTACTAAATCACCCTTCTCACTA 58.888 37.037 3.61 0.00 0.00 2.74
30 31 6.952358 TGTAGTACTAAATCACCCTTCTCACT 59.048 38.462 3.61 0.00 0.00 3.41
31 32 7.166691 TGTAGTACTAAATCACCCTTCTCAC 57.833 40.000 3.61 0.00 0.00 3.51
33 34 9.498176 TTTTTGTAGTACTAAATCACCCTTCTC 57.502 33.333 3.61 0.00 0.00 2.87
56 57 2.430248 ACCTCCACGGTTGAGTTTTT 57.570 45.000 8.25 0.00 46.37 1.94
66 67 0.245539 ACACGTATTGACCTCCACGG 59.754 55.000 0.00 0.00 38.67 4.94
67 68 1.336517 ACACACGTATTGACCTCCACG 60.337 52.381 3.45 0.00 40.15 4.94
68 69 2.450609 ACACACGTATTGACCTCCAC 57.549 50.000 3.45 0.00 0.00 4.02
69 70 3.159472 AGTACACACGTATTGACCTCCA 58.841 45.455 3.45 0.00 0.00 3.86
71 72 3.428589 GGGAGTACACACGTATTGACCTC 60.429 52.174 3.45 7.20 0.00 3.85
72 73 2.494870 GGGAGTACACACGTATTGACCT 59.505 50.000 3.45 0.00 0.00 3.85
74 75 2.417787 GGGGGAGTACACACGTATTGAC 60.418 54.545 3.45 0.00 0.00 3.18
75 76 1.826720 GGGGGAGTACACACGTATTGA 59.173 52.381 3.45 0.00 0.00 2.57
76 77 2.304751 GGGGGAGTACACACGTATTG 57.695 55.000 0.00 0.00 0.00 1.90
93 94 2.027745 CGTTCTCATATCATGGGAGGGG 60.028 54.545 0.00 0.00 41.58 4.79
94 95 2.634940 ACGTTCTCATATCATGGGAGGG 59.365 50.000 0.00 0.00 41.58 4.30
96 97 6.316140 TCAAAAACGTTCTCATATCATGGGAG 59.684 38.462 0.00 0.00 41.58 4.30
97 98 6.093495 GTCAAAAACGTTCTCATATCATGGGA 59.907 38.462 0.00 0.00 38.18 4.37
98 99 6.128035 TGTCAAAAACGTTCTCATATCATGGG 60.128 38.462 0.00 0.00 0.00 4.00
100 101 6.742718 GGTGTCAAAAACGTTCTCATATCATG 59.257 38.462 0.00 0.00 0.00 3.07
125 126 1.546476 ACAGCTACTCCCTTTGTCTCG 59.454 52.381 0.00 0.00 0.00 4.04
142 143 5.466819 TGAAACGAGTCTACCATTACACAG 58.533 41.667 0.00 0.00 0.00 3.66
194 195 2.377869 CCTGATTATGAGGGGCTGGATT 59.622 50.000 0.00 0.00 0.00 3.01
219 220 1.807573 GACCGAGCTAGCACACTGC 60.808 63.158 18.83 0.00 45.46 4.40
220 221 1.515088 CGACCGAGCTAGCACACTG 60.515 63.158 18.83 6.94 0.00 3.66
221 222 2.701780 CCGACCGAGCTAGCACACT 61.702 63.158 18.83 0.00 0.00 3.55
338 339 2.567615 ACCGCACCTTGAAACTATCTCT 59.432 45.455 0.00 0.00 0.00 3.10
477 1202 2.059541 AGAAAACGCGCAAGAGAGTAC 58.940 47.619 5.73 0.00 40.82 2.73
479 1204 2.329379 CTAGAAAACGCGCAAGAGAGT 58.671 47.619 5.73 0.00 40.82 3.24
480 1205 1.059835 GCTAGAAAACGCGCAAGAGAG 59.940 52.381 5.73 0.00 40.82 3.20
557 1421 0.779997 ATGAAGCTTCCCCAAGTGGT 59.220 50.000 23.42 0.00 31.45 4.16
560 1424 2.978156 TGAATGAAGCTTCCCCAAGT 57.022 45.000 23.42 3.99 31.45 3.16
612 1476 3.460340 TCCCTGAAAACAAACACCCTCTA 59.540 43.478 0.00 0.00 0.00 2.43
614 1478 2.361119 GTCCCTGAAAACAAACACCCTC 59.639 50.000 0.00 0.00 0.00 4.30
615 1479 2.024369 AGTCCCTGAAAACAAACACCCT 60.024 45.455 0.00 0.00 0.00 4.34
616 1480 2.384828 AGTCCCTGAAAACAAACACCC 58.615 47.619 0.00 0.00 0.00 4.61
617 1481 5.784578 ATAAGTCCCTGAAAACAAACACC 57.215 39.130 0.00 0.00 0.00 4.16
618 1482 6.801575 TCAATAAGTCCCTGAAAACAAACAC 58.198 36.000 0.00 0.00 0.00 3.32
623 1487 7.396055 CCCTAAATCAATAAGTCCCTGAAAACA 59.604 37.037 0.00 0.00 0.00 2.83
624 1488 7.614192 TCCCTAAATCAATAAGTCCCTGAAAAC 59.386 37.037 0.00 0.00 0.00 2.43
625 1489 7.614192 GTCCCTAAATCAATAAGTCCCTGAAAA 59.386 37.037 0.00 0.00 0.00 2.29
628 1492 5.970640 AGTCCCTAAATCAATAAGTCCCTGA 59.029 40.000 0.00 0.00 0.00 3.86
630 1494 6.910259 AAGTCCCTAAATCAATAAGTCCCT 57.090 37.500 0.00 0.00 0.00 4.20
655 1519 9.831682 TTTAAATGGGACTTATAGGGACTTTTT 57.168 29.630 0.00 0.00 41.75 1.94
668 1532 7.180229 CCCTCCTGTTTAATTTAAATGGGACTT 59.820 37.037 15.54 0.00 32.21 3.01
669 1533 6.667848 CCCTCCTGTTTAATTTAAATGGGACT 59.332 38.462 15.54 0.00 32.21 3.85
670 1534 6.666113 TCCCTCCTGTTTAATTTAAATGGGAC 59.334 38.462 11.28 6.95 32.21 4.46
671 1535 6.666113 GTCCCTCCTGTTTAATTTAAATGGGA 59.334 38.462 11.28 11.28 33.48 4.37
672 1536 6.667848 AGTCCCTCCTGTTTAATTTAAATGGG 59.332 38.462 16.73 4.92 0.00 4.00
673 1537 7.718334 AGTCCCTCCTGTTTAATTTAAATGG 57.282 36.000 0.39 10.03 0.00 3.16
680 1544 6.912561 TCCCTATAAGTCCCTCCTGTTTAATT 59.087 38.462 0.00 0.00 0.00 1.40
681 1545 6.329460 GTCCCTATAAGTCCCTCCTGTTTAAT 59.671 42.308 0.00 0.00 0.00 1.40
682 1546 5.664457 GTCCCTATAAGTCCCTCCTGTTTAA 59.336 44.000 0.00 0.00 0.00 1.52
683 1547 5.042827 AGTCCCTATAAGTCCCTCCTGTTTA 60.043 44.000 0.00 0.00 0.00 2.01
684 1548 4.038633 GTCCCTATAAGTCCCTCCTGTTT 58.961 47.826 0.00 0.00 0.00 2.83
685 1549 3.275228 AGTCCCTATAAGTCCCTCCTGTT 59.725 47.826 0.00 0.00 0.00 3.16
686 1550 2.866454 AGTCCCTATAAGTCCCTCCTGT 59.134 50.000 0.00 0.00 0.00 4.00
687 1551 3.621682 AGTCCCTATAAGTCCCTCCTG 57.378 52.381 0.00 0.00 0.00 3.86
689 1553 5.904169 ACTTTAAGTCCCTATAAGTCCCTCC 59.096 44.000 0.00 0.00 0.00 4.30
690 1554 6.183360 CCACTTTAAGTCCCTATAAGTCCCTC 60.183 46.154 0.00 0.00 0.00 4.30
691 1555 5.666265 CCACTTTAAGTCCCTATAAGTCCCT 59.334 44.000 0.00 0.00 0.00 4.20
693 1557 5.366460 GCCACTTTAAGTCCCTATAAGTCC 58.634 45.833 0.00 0.00 0.00 3.85
694 1558 5.048507 CGCCACTTTAAGTCCCTATAAGTC 58.951 45.833 0.00 0.00 0.00 3.01
695 1559 4.713321 TCGCCACTTTAAGTCCCTATAAGT 59.287 41.667 0.00 0.00 0.00 2.24
696 1560 5.272283 TCGCCACTTTAAGTCCCTATAAG 57.728 43.478 0.00 0.00 0.00 1.73
698 1562 5.881923 AATCGCCACTTTAAGTCCCTATA 57.118 39.130 0.00 0.00 0.00 1.31
699 1563 4.772886 AATCGCCACTTTAAGTCCCTAT 57.227 40.909 0.00 0.00 0.00 2.57
700 1564 4.258543 CAAATCGCCACTTTAAGTCCCTA 58.741 43.478 0.00 0.00 0.00 3.53
702 1566 2.163613 CCAAATCGCCACTTTAAGTCCC 59.836 50.000 0.00 0.00 0.00 4.46
703 1567 2.163613 CCCAAATCGCCACTTTAAGTCC 59.836 50.000 0.00 0.00 0.00 3.85
704 1568 3.078837 TCCCAAATCGCCACTTTAAGTC 58.921 45.455 0.00 0.00 0.00 3.01
705 1569 2.817844 GTCCCAAATCGCCACTTTAAGT 59.182 45.455 0.00 0.00 0.00 2.24
707 1571 3.149005 AGTCCCAAATCGCCACTTTAA 57.851 42.857 0.00 0.00 0.00 1.52
708 1572 2.871096 AGTCCCAAATCGCCACTTTA 57.129 45.000 0.00 0.00 0.00 1.85
709 1573 1.995376 AAGTCCCAAATCGCCACTTT 58.005 45.000 0.00 0.00 0.00 2.66
710 1574 2.871096 TAAGTCCCAAATCGCCACTT 57.129 45.000 0.00 0.00 0.00 3.16
713 1577 3.358111 TTGATAAGTCCCAAATCGCCA 57.642 42.857 0.00 0.00 0.00 5.69
714 1578 4.712122 TTTTGATAAGTCCCAAATCGCC 57.288 40.909 0.00 0.00 33.00 5.54
733 1597 5.638530 AGTTCTTCCCTGAGAGTCTTTTT 57.361 39.130 0.00 0.00 0.00 1.94
734 1598 5.638530 AAGTTCTTCCCTGAGAGTCTTTT 57.361 39.130 0.00 0.00 0.00 2.27
738 1602 5.303333 CCCTATAAGTTCTTCCCTGAGAGTC 59.697 48.000 0.00 0.00 0.00 3.36
739 1603 5.043281 TCCCTATAAGTTCTTCCCTGAGAGT 60.043 44.000 0.00 0.00 0.00 3.24
740 1604 5.303333 GTCCCTATAAGTTCTTCCCTGAGAG 59.697 48.000 0.00 0.00 0.00 3.20
741 1605 5.043281 AGTCCCTATAAGTTCTTCCCTGAGA 60.043 44.000 0.00 0.00 0.00 3.27
742 1606 5.212745 AGTCCCTATAAGTTCTTCCCTGAG 58.787 45.833 0.00 0.00 0.00 3.35
744 1608 5.959583 AAGTCCCTATAAGTTCTTCCCTG 57.040 43.478 0.00 0.00 0.00 4.45
745 1609 8.521301 ACTATAAGTCCCTATAAGTTCTTCCCT 58.479 37.037 0.00 0.00 0.00 4.20
746 1610 8.586744 CACTATAAGTCCCTATAAGTTCTTCCC 58.413 40.741 0.00 0.00 0.00 3.97
747 1611 9.364653 TCACTATAAGTCCCTATAAGTTCTTCC 57.635 37.037 0.00 0.00 0.00 3.46
756 1620 9.046846 CCCAAATCATCACTATAAGTCCCTATA 57.953 37.037 0.00 0.00 0.00 1.31
757 1621 7.517604 ACCCAAATCATCACTATAAGTCCCTAT 59.482 37.037 0.00 0.00 0.00 2.57
759 1623 5.672194 ACCCAAATCATCACTATAAGTCCCT 59.328 40.000 0.00 0.00 0.00 4.20
761 1625 6.831976 AGACCCAAATCATCACTATAAGTCC 58.168 40.000 0.00 0.00 0.00 3.85
762 1626 8.738645 AAAGACCCAAATCATCACTATAAGTC 57.261 34.615 0.00 0.00 0.00 3.01
765 1629 9.120538 GCTAAAAGACCCAAATCATCACTATAA 57.879 33.333 0.00 0.00 0.00 0.98
769 1633 5.324409 TGCTAAAAGACCCAAATCATCACT 58.676 37.500 0.00 0.00 0.00 3.41
770 1634 5.643379 TGCTAAAAGACCCAAATCATCAC 57.357 39.130 0.00 0.00 0.00 3.06
771 1635 5.716228 ACATGCTAAAAGACCCAAATCATCA 59.284 36.000 0.00 0.00 0.00 3.07
772 1636 6.127647 TGACATGCTAAAAGACCCAAATCATC 60.128 38.462 0.00 0.00 0.00 2.92
774 1638 5.076182 TGACATGCTAAAAGACCCAAATCA 58.924 37.500 0.00 0.00 0.00 2.57
775 1639 5.643379 TGACATGCTAAAAGACCCAAATC 57.357 39.130 0.00 0.00 0.00 2.17
776 1640 6.610075 AATGACATGCTAAAAGACCCAAAT 57.390 33.333 0.00 0.00 0.00 2.32
777 1641 6.418057 AAATGACATGCTAAAAGACCCAAA 57.582 33.333 0.00 0.00 0.00 3.28
778 1642 7.531857 TTAAATGACATGCTAAAAGACCCAA 57.468 32.000 0.00 0.00 0.00 4.12
788 1652 7.878127 GGCTAGAGGTTATTAAATGACATGCTA 59.122 37.037 0.00 0.00 0.00 3.49
789 1653 6.712547 GGCTAGAGGTTATTAAATGACATGCT 59.287 38.462 0.00 0.00 0.00 3.79
790 1654 6.072452 GGGCTAGAGGTTATTAAATGACATGC 60.072 42.308 0.00 0.00 0.00 4.06
791 1655 6.998074 TGGGCTAGAGGTTATTAAATGACATG 59.002 38.462 0.00 0.00 0.00 3.21
792 1656 7.149202 TGGGCTAGAGGTTATTAAATGACAT 57.851 36.000 0.00 0.00 0.00 3.06
794 1658 9.740710 ATTATGGGCTAGAGGTTATTAAATGAC 57.259 33.333 0.00 0.00 0.00 3.06
800 1664 9.043548 GGACTTATTATGGGCTAGAGGTTATTA 57.956 37.037 0.00 0.00 0.00 0.98
801 1665 7.037514 GGGACTTATTATGGGCTAGAGGTTATT 60.038 40.741 0.00 0.00 0.00 1.40
802 1666 6.444171 GGGACTTATTATGGGCTAGAGGTTAT 59.556 42.308 0.00 0.00 0.00 1.89
803 1667 5.783875 GGGACTTATTATGGGCTAGAGGTTA 59.216 44.000 0.00 0.00 0.00 2.85
804 1668 4.597940 GGGACTTATTATGGGCTAGAGGTT 59.402 45.833 0.00 0.00 0.00 3.50
805 1669 4.140423 AGGGACTTATTATGGGCTAGAGGT 60.140 45.833 0.00 0.00 27.25 3.85
806 1670 4.223923 CAGGGACTTATTATGGGCTAGAGG 59.776 50.000 0.00 0.00 34.60 3.69
807 1671 4.841246 ACAGGGACTTATTATGGGCTAGAG 59.159 45.833 0.00 0.00 34.60 2.43
808 1672 4.827789 ACAGGGACTTATTATGGGCTAGA 58.172 43.478 0.00 0.00 34.60 2.43
809 1673 6.681729 TTACAGGGACTTATTATGGGCTAG 57.318 41.667 0.00 0.00 34.60 3.42
810 1674 6.387513 TGTTTACAGGGACTTATTATGGGCTA 59.612 38.462 0.00 0.00 34.60 3.93
811 1675 5.192923 TGTTTACAGGGACTTATTATGGGCT 59.807 40.000 0.00 0.00 34.60 5.19
812 1676 5.442391 TGTTTACAGGGACTTATTATGGGC 58.558 41.667 0.00 0.00 34.60 5.36
814 1678 8.343168 TGTTTGTTTACAGGGACTTATTATGG 57.657 34.615 0.00 0.00 34.60 2.74
828 1692 5.104444 TCAAGTCCCTACCTGTTTGTTTACA 60.104 40.000 0.00 0.00 0.00 2.41
829 1693 5.370679 TCAAGTCCCTACCTGTTTGTTTAC 58.629 41.667 0.00 0.00 0.00 2.01
830 1694 5.367352 TCTCAAGTCCCTACCTGTTTGTTTA 59.633 40.000 0.00 0.00 0.00 2.01
831 1695 4.165372 TCTCAAGTCCCTACCTGTTTGTTT 59.835 41.667 0.00 0.00 0.00 2.83
832 1696 3.714798 TCTCAAGTCCCTACCTGTTTGTT 59.285 43.478 0.00 0.00 0.00 2.83
833 1697 3.071167 GTCTCAAGTCCCTACCTGTTTGT 59.929 47.826 0.00 0.00 0.00 2.83
834 1698 3.325135 AGTCTCAAGTCCCTACCTGTTTG 59.675 47.826 0.00 0.00 0.00 2.93
837 1701 3.261818 AAGTCTCAAGTCCCTACCTGT 57.738 47.619 0.00 0.00 0.00 4.00
838 1702 6.608002 ACTTATAAGTCTCAAGTCCCTACCTG 59.392 42.308 12.50 0.00 32.86 4.00
839 1703 6.743788 ACTTATAAGTCTCAAGTCCCTACCT 58.256 40.000 12.50 0.00 32.86 3.08
840 1704 7.266400 CAACTTATAAGTCTCAAGTCCCTACC 58.734 42.308 18.28 0.00 38.57 3.18
841 1705 7.266400 CCAACTTATAAGTCTCAAGTCCCTAC 58.734 42.308 18.28 0.00 38.57 3.18
843 1707 5.189934 CCCAACTTATAAGTCTCAAGTCCCT 59.810 44.000 18.28 0.00 38.57 4.20
844 1708 5.189145 TCCCAACTTATAAGTCTCAAGTCCC 59.811 44.000 18.28 0.00 38.57 4.46
846 1710 6.937392 AGTCCCAACTTATAAGTCTCAAGTC 58.063 40.000 18.28 6.78 38.57 3.01
847 1711 6.936968 AGTCCCAACTTATAAGTCTCAAGT 57.063 37.500 18.28 5.74 38.57 3.16
882 1746 6.520061 CGGCCCTATTTGATTCATAAGTCCTA 60.520 42.308 0.00 0.00 0.00 2.94
883 1747 5.635120 GGCCCTATTTGATTCATAAGTCCT 58.365 41.667 0.00 0.00 0.00 3.85
884 1748 4.455877 CGGCCCTATTTGATTCATAAGTCC 59.544 45.833 0.00 0.00 0.00 3.85
887 1751 6.231211 ACTACGGCCCTATTTGATTCATAAG 58.769 40.000 0.00 0.00 0.00 1.73
888 1752 6.182507 ACTACGGCCCTATTTGATTCATAA 57.817 37.500 0.00 0.00 0.00 1.90
889 1753 5.566032 CGACTACGGCCCTATTTGATTCATA 60.566 44.000 0.00 0.00 35.72 2.15
890 1754 4.642429 GACTACGGCCCTATTTGATTCAT 58.358 43.478 0.00 0.00 0.00 2.57
891 1755 3.491964 CGACTACGGCCCTATTTGATTCA 60.492 47.826 0.00 0.00 35.72 2.57
892 1756 3.057734 CGACTACGGCCCTATTTGATTC 58.942 50.000 0.00 0.00 35.72 2.52
893 1757 3.107642 CGACTACGGCCCTATTTGATT 57.892 47.619 0.00 0.00 35.72 2.57
894 1758 2.814280 CGACTACGGCCCTATTTGAT 57.186 50.000 0.00 0.00 35.72 2.57
907 1771 0.458025 CTTCCGAGGCAACCGACTAC 60.458 60.000 0.00 0.00 32.87 2.73
1144 2033 2.881352 GAAGAAGCCGACCGCGAG 60.881 66.667 8.23 0.00 44.76 5.03
1236 2188 3.553828 TCCGGGATCTTATTGAACCAC 57.446 47.619 0.00 0.00 39.15 4.16
1264 2216 1.545582 CCTATTGGCAACCCACACAAG 59.454 52.381 0.00 0.00 41.97 3.16
1423 2381 2.429250 GGGCACTAGTGTTTGTGGTTTT 59.571 45.455 23.44 0.00 34.99 2.43
1431 2389 3.136626 AGAGAACAAGGGCACTAGTGTTT 59.863 43.478 23.44 12.93 34.44 2.83
1512 2509 5.045578 AGGAAGCACAACATCTGTTAGGTAT 60.046 40.000 0.00 0.00 35.47 2.73
1620 2617 5.940470 GTCTTCTTGGTCAAGGTTGTATGAT 59.060 40.000 10.39 0.00 38.88 2.45
1745 2742 4.822026 AGGTTTTGAATCTAGGAGTGACG 58.178 43.478 0.00 0.00 0.00 4.35
1903 2906 0.391793 GACTGGCTAGCTTGTGACCC 60.392 60.000 15.72 0.00 0.00 4.46
1927 2930 4.877773 TCAGGTTGGGCATATATGGTTTT 58.122 39.130 14.51 0.00 0.00 2.43
2031 3034 3.614616 GCGGTGACTTATGAGAGAAGTTG 59.385 47.826 0.00 0.00 37.27 3.16
2074 3077 4.842531 TTCTAATGCATCCTCCTGTTCA 57.157 40.909 0.00 0.00 0.00 3.18
2228 3249 6.654122 CAAGAACAAGAACTAAGACAAGCTC 58.346 40.000 0.00 0.00 0.00 4.09
2349 3370 1.136057 GCAAGGCGAAGGTAAAGAACG 60.136 52.381 0.00 0.00 0.00 3.95
2398 3419 6.257423 CAACATTTGGTTTTCTTTTGCCTTC 58.743 36.000 0.00 0.00 37.72 3.46
2491 3518 7.064016 GCAAACTACACAACTTCAATTTTTCCA 59.936 33.333 0.00 0.00 0.00 3.53
2536 3565 2.593026 TCCCACCAACATTTCCTTGAC 58.407 47.619 0.00 0.00 0.00 3.18
2572 3601 0.868406 AGCACAAACTAACTCAGCGC 59.132 50.000 0.00 0.00 0.00 5.92
2627 3656 7.182060 ACATTCCCTTGTATACAGAACCAAAT 58.818 34.615 5.56 1.04 0.00 2.32
2696 3731 1.280133 TGCTTCTCTCCTTGATGGGTG 59.720 52.381 0.00 0.00 36.20 4.61
2697 3732 1.661463 TGCTTCTCTCCTTGATGGGT 58.339 50.000 0.00 0.00 36.20 4.51
2865 3903 1.594862 GGCAGCAACATCGTCAGTATC 59.405 52.381 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.