Multiple sequence alignment - TraesCS6B01G177500

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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 TraesCS6B01G177500 chr6B 100.000 4713 0 0 1 4713 195457648 195462360 0.000000e+00 8704.0
1 TraesCS6B01G177500 chr6B 94.030 938 49 6 1 933 57996195 57995260 0.000000e+00 1415.0
2 TraesCS6B01G177500 chr6B 94.521 73 4 0 4211 4283 166127580 166127652 3.850000e-21 113.0
3 TraesCS6B01G177500 chr3D 94.187 3062 129 26 934 3963 137629636 137632680 0.000000e+00 4623.0
4 TraesCS6B01G177500 chr3D 94.322 2501 108 18 1479 3963 157825140 157827622 0.000000e+00 3801.0
5 TraesCS6B01G177500 chr3D 92.405 79 5 1 4205 4283 474998266 474998189 1.390000e-20 111.0
6 TraesCS6B01G177500 chr2B 95.734 2602 95 7 1366 3963 231299137 231296548 0.000000e+00 4176.0
7 TraesCS6B01G177500 chr2B 93.923 938 51 5 1 933 507633141 507632205 0.000000e+00 1411.0
8 TraesCS6B01G177500 chr2B 93.817 938 51 6 1 933 79150567 79151502 0.000000e+00 1404.0
9 TraesCS6B01G177500 chr2B 93.905 443 25 2 924 1366 231301153 231300713 0.000000e+00 667.0
10 TraesCS6B01G177500 chr2B 86.008 486 59 7 924 1402 516196514 516196031 3.250000e-141 512.0
11 TraesCS6B01G177500 chr2B 82.004 489 60 14 2888 3362 269363113 269363587 1.590000e-104 390.0
12 TraesCS6B01G177500 chr6A 91.242 3060 213 40 924 3963 362168898 362165874 0.000000e+00 4115.0
13 TraesCS6B01G177500 chr6A 84.783 368 31 11 1845 2200 127096035 127095681 3.490000e-91 346.0
14 TraesCS6B01G177500 chr6A 80.441 363 34 15 1845 2198 338194576 338194242 4.710000e-60 243.0
15 TraesCS6B01G177500 chr6A 100.000 30 0 0 4277 4306 583828129 583828158 6.590000e-04 56.5
16 TraesCS6B01G177500 chr5A 92.735 2739 144 30 924 3633 294708247 294710959 0.000000e+00 3904.0
17 TraesCS6B01G177500 chr5A 87.459 303 33 4 1900 2200 345359957 345359658 1.260000e-90 344.0
18 TraesCS6B01G177500 chr5A 93.427 213 14 0 3751 3963 294710978 294711190 2.740000e-82 316.0
19 TraesCS6B01G177500 chr5D 94.268 2512 109 21 1478 3963 270486298 270488800 0.000000e+00 3808.0
20 TraesCS6B01G177500 chr2A 94.367 2308 90 23 1665 3963 431666056 431663780 0.000000e+00 3506.0
21 TraesCS6B01G177500 chr2A 91.205 614 38 8 1084 1682 431666707 431666095 0.000000e+00 821.0
22 TraesCS6B01G177500 chr7B 94.551 936 46 4 1 933 143577782 143578715 0.000000e+00 1441.0
23 TraesCS6B01G177500 chr7B 86.010 193 19 5 2676 2868 457233595 457233411 2.880000e-47 200.0
24 TraesCS6B01G177500 chr3B 94.409 930 49 3 1 927 508033834 508032905 0.000000e+00 1426.0
25 TraesCS6B01G177500 chr3B 93.923 938 51 5 1 933 508050506 508049570 0.000000e+00 1411.0
26 TraesCS6B01G177500 chr3B 86.902 481 56 4 923 1402 271284965 271285439 2.500000e-147 532.0
27 TraesCS6B01G177500 chr3B 76.000 275 48 11 919 1187 587002637 587002899 4.950000e-25 126.0
28 TraesCS6B01G177500 chr3B 86.275 102 13 1 924 1025 587010540 587010640 4.990000e-20 110.0
29 TraesCS6B01G177500 chr3B 73.455 275 54 17 924 1188 693738577 693738842 8.400000e-13 86.1
30 TraesCS6B01G177500 chr1B 93.910 936 53 3 1 933 368357517 368358451 0.000000e+00 1410.0
31 TraesCS6B01G177500 chr4B 93.658 946 52 7 1 940 95571721 95572664 0.000000e+00 1408.0
32 TraesCS6B01G177500 chr4B 93.803 936 50 7 1 933 100112653 100111723 0.000000e+00 1400.0
33 TraesCS6B01G177500 chr4B 86.121 281 38 1 2394 2674 534068781 534069060 7.660000e-78 302.0
34 TraesCS6B01G177500 chr7A 91.646 407 30 3 4305 4711 354950121 354950523 1.150000e-155 560.0
35 TraesCS6B01G177500 chr7A 82.402 358 35 15 1845 2200 287639832 287639501 2.150000e-73 287.0
36 TraesCS6B01G177500 chr7A 89.671 213 14 2 4102 4306 354949878 354950090 1.010000e-66 265.0
37 TraesCS6B01G177500 chr7A 84.043 94 12 3 1711 1803 430774184 430774093 2.340000e-13 87.9
38 TraesCS6B01G177500 chr4D 86.570 484 54 8 924 1402 280920443 280920920 1.500000e-144 523.0
39 TraesCS6B01G177500 chr4D 86.275 102 8 6 4214 4312 372358073 372357975 6.450000e-19 106.0
40 TraesCS6B01G177500 chr7D 85.890 489 53 11 924 1402 46357462 46356980 1.510000e-139 507.0
41 TraesCS6B01G177500 chr7D 81.586 353 39 14 1866 2200 436397730 436398074 7.770000e-68 268.0
42 TraesCS6B01G177500 chr7D 82.197 264 24 10 1845 2108 546760569 546760329 6.180000e-49 206.0
43 TraesCS6B01G177500 chr6D 90.789 304 21 6 4007 4306 406649000 406648700 2.640000e-107 399.0
44 TraesCS6B01G177500 chr6D 85.609 271 26 5 1931 2200 104965643 104965385 6.010000e-69 272.0
45 TraesCS6B01G177500 chr2D 86.054 294 28 5 2888 3174 212932141 212931854 2.130000e-78 303.0
46 TraesCS6B01G177500 chr5B 83.193 357 33 11 1845 2200 360595123 360595453 7.660000e-78 302.0
47 TraesCS6B01G177500 chr5B 84.956 226 26 7 1952 2170 415050943 415051167 6.140000e-54 222.0
48 TraesCS6B01G177500 chr5B 91.358 81 4 3 4205 4285 308566550 308566473 1.790000e-19 108.0
49 TraesCS6B01G177500 chr5B 93.243 74 3 1 4211 4284 430469455 430469384 1.790000e-19 108.0
50 TraesCS6B01G177500 chr5B 91.667 60 5 0 1845 1904 415050391 415050450 3.020000e-12 84.2
51 TraesCS6B01G177500 chr1A 82.682 358 31 14 1845 2200 186719046 186718718 5.970000e-74 289.0
52 TraesCS6B01G177500 chr1A 98.485 66 1 0 4214 4279 352871001 352871066 2.980000e-22 117.0
53 TraesCS6B01G177500 chr1A 88.608 79 8 1 1722 1799 186719202 186719124 1.400000e-15 95.3
54 TraesCS6B01G177500 chr3A 85.567 194 20 5 2675 2868 182285268 182285083 3.720000e-46 196.0
55 TraesCS6B01G177500 chrUn 92.593 81 1 5 4214 4291 34213231 34213309 1.390000e-20 111.0
56 TraesCS6B01G177500 chr4A 84.043 94 12 3 1711 1803 46506423 46506332 2.340000e-13 87.9


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 TraesCS6B01G177500 chr6B 195457648 195462360 4712 False 8704.0 8704 100.0000 1 4713 1 chr6B.!!$F2 4712
1 TraesCS6B01G177500 chr6B 57995260 57996195 935 True 1415.0 1415 94.0300 1 933 1 chr6B.!!$R1 932
2 TraesCS6B01G177500 chr3D 137629636 137632680 3044 False 4623.0 4623 94.1870 934 3963 1 chr3D.!!$F1 3029
3 TraesCS6B01G177500 chr3D 157825140 157827622 2482 False 3801.0 3801 94.3220 1479 3963 1 chr3D.!!$F2 2484
4 TraesCS6B01G177500 chr2B 231296548 231301153 4605 True 2421.5 4176 94.8195 924 3963 2 chr2B.!!$R3 3039
5 TraesCS6B01G177500 chr2B 507632205 507633141 936 True 1411.0 1411 93.9230 1 933 1 chr2B.!!$R1 932
6 TraesCS6B01G177500 chr2B 79150567 79151502 935 False 1404.0 1404 93.8170 1 933 1 chr2B.!!$F1 932
7 TraesCS6B01G177500 chr6A 362165874 362168898 3024 True 4115.0 4115 91.2420 924 3963 1 chr6A.!!$R3 3039
8 TraesCS6B01G177500 chr5A 294708247 294711190 2943 False 2110.0 3904 93.0810 924 3963 2 chr5A.!!$F1 3039
9 TraesCS6B01G177500 chr5D 270486298 270488800 2502 False 3808.0 3808 94.2680 1478 3963 1 chr5D.!!$F1 2485
10 TraesCS6B01G177500 chr2A 431663780 431666707 2927 True 2163.5 3506 92.7860 1084 3963 2 chr2A.!!$R1 2879
11 TraesCS6B01G177500 chr7B 143577782 143578715 933 False 1441.0 1441 94.5510 1 933 1 chr7B.!!$F1 932
12 TraesCS6B01G177500 chr3B 508032905 508033834 929 True 1426.0 1426 94.4090 1 927 1 chr3B.!!$R1 926
13 TraesCS6B01G177500 chr3B 508049570 508050506 936 True 1411.0 1411 93.9230 1 933 1 chr3B.!!$R2 932
14 TraesCS6B01G177500 chr1B 368357517 368358451 934 False 1410.0 1410 93.9100 1 933 1 chr1B.!!$F1 932
15 TraesCS6B01G177500 chr4B 95571721 95572664 943 False 1408.0 1408 93.6580 1 940 1 chr4B.!!$F1 939
16 TraesCS6B01G177500 chr4B 100111723 100112653 930 True 1400.0 1400 93.8030 1 933 1 chr4B.!!$R1 932
17 TraesCS6B01G177500 chr7A 354949878 354950523 645 False 412.5 560 90.6585 4102 4711 2 chr7A.!!$F1 609

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
346 352 0.110486 ACAACGGGGCACAAAGATCT 59.890 50.0 0.00 0.0 0.00 2.75 F
1116 1138 0.249398 GGTGGGCTCGTGTTCTATGT 59.751 55.0 0.00 0.0 0.00 2.29 F
1291 1316 0.467106 CGATCTCTCTCCCTCAGCCA 60.467 60.0 0.00 0.0 0.00 4.75 F
1323 1348 0.994050 GCCCCCTTTCCTACCATCCT 60.994 60.0 0.00 0.0 0.00 3.24 F
2505 4210 1.067693 CAACACGAGATTGTGCGCTA 58.932 50.0 9.73 0.0 43.74 4.26 F
3289 5000 0.973632 AACACCATGACTACGCCTCA 59.026 50.0 0.00 0.0 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1419 3020 0.390472 CACCTCGAGCAGAAAGGGAC 60.390 60.000 6.99 0.00 34.31 4.46 R
2505 4210 0.330604 ACATGCACCTGGAGCAAGAT 59.669 50.000 24.31 10.52 46.27 2.40 R
2616 4321 3.306502 GCAGGTGTAGCCAAGTACAGTTA 60.307 47.826 0.00 0.00 40.61 2.24 R
3284 4995 4.243007 ACAGCAACAAAAGTATTGAGGC 57.757 40.909 0.00 0.00 0.00 4.70 R
3452 5163 0.034477 ACAGGGGCCAGTTTATTCCG 60.034 55.000 4.39 0.00 0.00 4.30 R
4209 5937 0.324091 TGGGACGGAGGGAGTACTTC 60.324 60.000 0.00 0.00 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
116 117 0.669318 TAAGCACCTGCCGTTCGAAG 60.669 55.000 0.00 0.00 43.38 3.79
127 128 1.270147 CCGTTCGAAGTCCCAGTTCTT 60.270 52.381 0.00 0.00 0.00 2.52
194 199 2.156917 ACAATATCCATGCTGCATCCG 58.843 47.619 13.10 6.03 0.00 4.18
272 277 3.126001 TCAGGTCGAGCAAGTTTCAAT 57.874 42.857 18.15 0.00 0.00 2.57
287 292 3.788227 TTCAATTGGGCTGTAGACTGT 57.212 42.857 5.42 0.00 0.00 3.55
318 323 3.370633 GGTTTTGTTTTTACCAGGCCCAA 60.371 43.478 0.00 0.00 32.12 4.12
346 352 0.110486 ACAACGGGGCACAAAGATCT 59.890 50.000 0.00 0.00 0.00 2.75
354 360 2.012673 GGCACAAAGATCTAGCAGGTG 58.987 52.381 0.00 1.92 0.00 4.00
399 405 9.609346 ACCAGCGTTAGTTATATTTTGTCTTAT 57.391 29.630 0.00 0.00 0.00 1.73
495 503 8.578151 GTCCTACATCCGTTTTCTAATCTCTAT 58.422 37.037 0.00 0.00 0.00 1.98
647 657 5.894393 TCTTAAACCAACTCAATTGTCCCAA 59.106 36.000 5.13 0.00 36.47 4.12
657 667 7.839680 ACTCAATTGTCCCAAGTCTTATTTT 57.160 32.000 5.13 0.00 0.00 1.82
784 796 0.542333 TTTGACAACTGGGTCCACGA 59.458 50.000 0.00 0.00 36.97 4.35
915 928 4.079844 TGGCCCATCAGTAATGAGAAATGA 60.080 41.667 0.00 0.00 37.59 2.57
922 935 9.334947 CCATCAGTAATGAGAAATGAGTTGTAT 57.665 33.333 0.00 0.00 37.59 2.29
985 998 1.834263 CTCCCTCAATCGGTTCCTTCT 59.166 52.381 0.00 0.00 0.00 2.85
1031 1044 3.436243 TGGTCTTTGACTTTGTTTGGGT 58.564 40.909 0.00 0.00 32.47 4.51
1045 1058 0.892755 TTGGGTCGTTAGATGCTCGT 59.107 50.000 0.00 0.00 0.00 4.18
1113 1135 2.642254 CCGGTGGGCTCGTGTTCTA 61.642 63.158 0.00 0.00 0.00 2.10
1116 1138 0.249398 GGTGGGCTCGTGTTCTATGT 59.751 55.000 0.00 0.00 0.00 2.29
1222 1245 4.299796 GCCCTGCCCTCCAAACCA 62.300 66.667 0.00 0.00 0.00 3.67
1245 1268 2.120909 CGGCCCAATCCAATCGCTT 61.121 57.895 0.00 0.00 0.00 4.68
1291 1316 0.467106 CGATCTCTCTCCCTCAGCCA 60.467 60.000 0.00 0.00 0.00 4.75
1323 1348 0.994050 GCCCCCTTTCCTACCATCCT 60.994 60.000 0.00 0.00 0.00 3.24
1348 1373 2.744243 GCTGCCCTCTGCTCCATCT 61.744 63.158 0.00 0.00 42.00 2.90
1363 1388 2.121948 CCATCTGACCTCCCTCATCAA 58.878 52.381 0.00 0.00 0.00 2.57
1375 2976 3.197790 CATCAACCGCCGCCTCTG 61.198 66.667 0.00 0.00 0.00 3.35
1390 2991 4.135153 CTGTGGCTCCTCCGTCCG 62.135 72.222 0.00 0.00 37.80 4.79
1391 2992 4.988716 TGTGGCTCCTCCGTCCGT 62.989 66.667 0.00 0.00 37.80 4.69
1419 3020 1.131638 TCTCCCCAATTCATCCTCCG 58.868 55.000 0.00 0.00 0.00 4.63
1448 3049 2.755876 TCGAGGTGCTCATCGGCT 60.756 61.111 20.78 0.00 45.89 5.52
1472 3073 3.112709 GTGAGGAAGCCGCGTGAC 61.113 66.667 4.92 0.00 0.00 3.67
1671 3289 2.167487 GTGAGTCCCAACCATCTCTCTC 59.833 54.545 0.00 0.00 0.00 3.20
1672 3290 2.043664 TGAGTCCCAACCATCTCTCTCT 59.956 50.000 0.00 0.00 0.00 3.10
1693 3369 4.078922 TCTCTCTCTCTCTCTCTCTCTCCT 60.079 50.000 0.00 0.00 0.00 3.69
1858 3562 3.067833 GTGGAGAAGAGTAAACTGCACC 58.932 50.000 0.00 0.00 43.53 5.01
1905 3609 6.252995 TCCCTTCAAAGCTAATGTATTTGGT 58.747 36.000 0.00 0.00 35.21 3.67
2204 3909 8.109634 ACATTGAGACCATTAAGTTATCTTGGT 58.890 33.333 10.75 10.75 35.36 3.67
2440 4145 6.636044 GCTTTATCTTATTGTTCATCTGCTGC 59.364 38.462 0.00 0.00 0.00 5.25
2505 4210 1.067693 CAACACGAGATTGTGCGCTA 58.932 50.000 9.73 0.00 43.74 4.26
2585 4290 7.524717 ACCTTGCATGAAGTTGTATACTTTT 57.475 32.000 4.17 0.00 47.00 2.27
2666 4371 7.341256 ACATCATGCATTTCTCTTCCAGTTTAT 59.659 33.333 0.00 0.00 0.00 1.40
2942 4649 3.576550 GAGGAGAGGTGTTCAGAGAAAGT 59.423 47.826 0.00 0.00 0.00 2.66
3284 4995 6.961359 TCTTGATTTAACACCATGACTACG 57.039 37.500 0.00 0.00 0.00 3.51
3289 5000 0.973632 AACACCATGACTACGCCTCA 59.026 50.000 0.00 0.00 0.00 3.86
3379 5090 8.617809 GTCAGAAATGTGTTTTTGTAAGTCCTA 58.382 33.333 0.00 0.00 32.77 2.94
3452 5163 5.098893 CGATGAATCTCGATAATCTCCCAC 58.901 45.833 0.00 0.00 41.12 4.61
3457 5169 3.497332 TCTCGATAATCTCCCACGGAAT 58.503 45.455 0.00 0.00 0.00 3.01
3511 5226 7.759489 TGGTGCAAAATGTACTTTCTAGAAT 57.241 32.000 5.89 0.00 33.35 2.40
3576 5292 4.882671 TCTCTTTTGTTCACAGAAGCAC 57.117 40.909 5.53 0.00 37.81 4.40
3719 5435 5.164620 TCTGCATCAACTTTAGACATGGA 57.835 39.130 0.00 0.00 0.00 3.41
3782 5501 2.573462 TGTTCTGGAGCTCTAATTGGCT 59.427 45.455 14.64 2.79 41.88 4.75
3811 5530 6.710295 GGACTTTTAAATGTTTCCCTGCAATT 59.290 34.615 8.03 0.00 0.00 2.32
3853 5573 2.754552 TGTTTTGTCTGTGAGCTTGCTT 59.245 40.909 0.00 0.00 0.00 3.91
3854 5574 3.111098 GTTTTGTCTGTGAGCTTGCTTG 58.889 45.455 0.00 0.00 0.00 4.01
3897 5617 8.041143 AGGCTCATGTGTATAAAATAAGGGTA 57.959 34.615 0.00 0.00 0.00 3.69
3929 5649 6.209192 TGCAAATAAATCTTGACACAGTGGAT 59.791 34.615 5.31 0.00 0.00 3.41
3963 5683 4.460263 ACATTTCTGAAGTACCTTGTGCA 58.540 39.130 0.00 0.00 0.00 4.57
3964 5684 4.887071 ACATTTCTGAAGTACCTTGTGCAA 59.113 37.500 0.00 0.00 0.00 4.08
3965 5685 5.359576 ACATTTCTGAAGTACCTTGTGCAAA 59.640 36.000 0.00 0.00 0.00 3.68
3966 5686 6.040842 ACATTTCTGAAGTACCTTGTGCAAAT 59.959 34.615 0.00 0.00 0.00 2.32
3967 5687 7.230510 ACATTTCTGAAGTACCTTGTGCAAATA 59.769 33.333 0.00 0.00 0.00 1.40
3968 5688 7.575414 TTTCTGAAGTACCTTGTGCAAATAA 57.425 32.000 0.00 0.00 0.00 1.40
3969 5689 7.759489 TTCTGAAGTACCTTGTGCAAATAAT 57.241 32.000 0.00 0.00 0.00 1.28
3970 5690 7.144722 TCTGAAGTACCTTGTGCAAATAATG 57.855 36.000 0.00 0.00 0.00 1.90
3971 5691 6.939730 TCTGAAGTACCTTGTGCAAATAATGA 59.060 34.615 0.00 0.00 0.00 2.57
3972 5692 7.446931 TCTGAAGTACCTTGTGCAAATAATGAA 59.553 33.333 0.00 0.00 0.00 2.57
3973 5693 8.121305 TGAAGTACCTTGTGCAAATAATGAAT 57.879 30.769 0.00 0.00 0.00 2.57
3974 5694 8.243426 TGAAGTACCTTGTGCAAATAATGAATC 58.757 33.333 0.00 0.00 0.00 2.52
3975 5695 7.701539 AGTACCTTGTGCAAATAATGAATCA 57.298 32.000 0.00 0.00 0.00 2.57
3976 5696 8.297470 AGTACCTTGTGCAAATAATGAATCAT 57.703 30.769 0.00 0.00 0.00 2.45
3977 5697 8.408601 AGTACCTTGTGCAAATAATGAATCATC 58.591 33.333 0.00 0.00 0.00 2.92
3978 5698 7.172868 ACCTTGTGCAAATAATGAATCATCA 57.827 32.000 0.00 0.00 40.57 3.07
3980 5700 7.924412 ACCTTGTGCAAATAATGAATCATCATC 59.076 33.333 0.00 0.00 45.60 2.92
3981 5701 8.141909 CCTTGTGCAAATAATGAATCATCATCT 58.858 33.333 0.00 0.00 45.60 2.90
3982 5702 9.181805 CTTGTGCAAATAATGAATCATCATCTC 57.818 33.333 0.00 0.00 45.60 2.75
3983 5703 7.654568 TGTGCAAATAATGAATCATCATCTCC 58.345 34.615 0.00 0.00 45.60 3.71
3984 5704 7.088905 GTGCAAATAATGAATCATCATCTCCC 58.911 38.462 0.00 0.00 45.60 4.30
3985 5705 6.072342 TGCAAATAATGAATCATCATCTCCCG 60.072 38.462 0.00 0.00 45.60 5.14
3986 5706 6.072286 GCAAATAATGAATCATCATCTCCCGT 60.072 38.462 0.00 0.00 45.60 5.28
3987 5707 7.303261 CAAATAATGAATCATCATCTCCCGTG 58.697 38.462 0.00 0.00 45.60 4.94
3988 5708 4.428294 AATGAATCATCATCTCCCGTGT 57.572 40.909 0.00 0.00 45.60 4.49
3989 5709 3.912496 TGAATCATCATCTCCCGTGTT 57.088 42.857 0.00 0.00 0.00 3.32
3990 5710 4.220693 TGAATCATCATCTCCCGTGTTT 57.779 40.909 0.00 0.00 0.00 2.83
3991 5711 4.588899 TGAATCATCATCTCCCGTGTTTT 58.411 39.130 0.00 0.00 0.00 2.43
3992 5712 5.009631 TGAATCATCATCTCCCGTGTTTTT 58.990 37.500 0.00 0.00 0.00 1.94
3993 5713 5.123820 TGAATCATCATCTCCCGTGTTTTTC 59.876 40.000 0.00 0.00 0.00 2.29
3994 5714 4.286297 TCATCATCTCCCGTGTTTTTCT 57.714 40.909 0.00 0.00 0.00 2.52
3995 5715 4.253685 TCATCATCTCCCGTGTTTTTCTC 58.746 43.478 0.00 0.00 0.00 2.87
3996 5716 4.020218 TCATCATCTCCCGTGTTTTTCTCT 60.020 41.667 0.00 0.00 0.00 3.10
3997 5717 4.351874 TCATCTCCCGTGTTTTTCTCTT 57.648 40.909 0.00 0.00 0.00 2.85
3998 5718 4.065088 TCATCTCCCGTGTTTTTCTCTTG 58.935 43.478 0.00 0.00 0.00 3.02
3999 5719 3.830744 TCTCCCGTGTTTTTCTCTTGA 57.169 42.857 0.00 0.00 0.00 3.02
4000 5720 4.145365 TCTCCCGTGTTTTTCTCTTGAA 57.855 40.909 0.00 0.00 0.00 2.69
4001 5721 4.519213 TCTCCCGTGTTTTTCTCTTGAAA 58.481 39.130 0.00 0.00 40.08 2.69
4002 5722 4.944930 TCTCCCGTGTTTTTCTCTTGAAAA 59.055 37.500 0.49 0.49 46.63 2.29
4012 5732 6.391227 TTTTCTCTTGAAAATGGAGGTGTC 57.609 37.500 0.49 0.00 44.39 3.67
4013 5733 4.705110 TCTCTTGAAAATGGAGGTGTCA 57.295 40.909 0.00 0.00 0.00 3.58
4014 5734 5.246981 TCTCTTGAAAATGGAGGTGTCAT 57.753 39.130 0.00 0.00 0.00 3.06
4015 5735 5.005740 TCTCTTGAAAATGGAGGTGTCATG 58.994 41.667 0.00 0.00 0.00 3.07
4016 5736 4.081406 TCTTGAAAATGGAGGTGTCATGG 58.919 43.478 0.00 0.00 0.00 3.66
4017 5737 3.524095 TGAAAATGGAGGTGTCATGGT 57.476 42.857 0.00 0.00 0.00 3.55
4018 5738 3.843422 TGAAAATGGAGGTGTCATGGTT 58.157 40.909 0.00 0.00 0.00 3.67
4019 5739 4.222336 TGAAAATGGAGGTGTCATGGTTT 58.778 39.130 0.00 0.00 0.00 3.27
4020 5740 4.653341 TGAAAATGGAGGTGTCATGGTTTT 59.347 37.500 0.00 0.00 0.00 2.43
4021 5741 4.871933 AAATGGAGGTGTCATGGTTTTC 57.128 40.909 0.00 0.00 0.00 2.29
4022 5742 3.814504 ATGGAGGTGTCATGGTTTTCT 57.185 42.857 0.00 0.00 0.00 2.52
4023 5743 3.593442 TGGAGGTGTCATGGTTTTCTT 57.407 42.857 0.00 0.00 0.00 2.52
4024 5744 3.909732 TGGAGGTGTCATGGTTTTCTTT 58.090 40.909 0.00 0.00 0.00 2.52
4025 5745 4.285863 TGGAGGTGTCATGGTTTTCTTTT 58.714 39.130 0.00 0.00 0.00 2.27
4026 5746 4.714308 TGGAGGTGTCATGGTTTTCTTTTT 59.286 37.500 0.00 0.00 0.00 1.94
4027 5747 5.049828 GGAGGTGTCATGGTTTTCTTTTTG 58.950 41.667 0.00 0.00 0.00 2.44
4028 5748 5.395214 GGAGGTGTCATGGTTTTCTTTTTGT 60.395 40.000 0.00 0.00 0.00 2.83
4029 5749 6.183360 GGAGGTGTCATGGTTTTCTTTTTGTA 60.183 38.462 0.00 0.00 0.00 2.41
4030 5750 6.569780 AGGTGTCATGGTTTTCTTTTTGTAC 58.430 36.000 0.00 0.00 0.00 2.90
4031 5751 5.751509 GGTGTCATGGTTTTCTTTTTGTACC 59.248 40.000 0.00 0.00 0.00 3.34
4032 5752 6.406512 GGTGTCATGGTTTTCTTTTTGTACCT 60.407 38.462 0.00 0.00 0.00 3.08
4033 5753 6.695713 GTGTCATGGTTTTCTTTTTGTACCTC 59.304 38.462 0.00 0.00 0.00 3.85
4034 5754 6.605594 TGTCATGGTTTTCTTTTTGTACCTCT 59.394 34.615 0.00 0.00 0.00 3.69
4035 5755 7.123547 TGTCATGGTTTTCTTTTTGTACCTCTT 59.876 33.333 0.00 0.00 0.00 2.85
4036 5756 7.435192 GTCATGGTTTTCTTTTTGTACCTCTTG 59.565 37.037 0.00 0.00 0.00 3.02
4037 5757 5.656480 TGGTTTTCTTTTTGTACCTCTTGC 58.344 37.500 0.00 0.00 0.00 4.01
4038 5758 5.186021 TGGTTTTCTTTTTGTACCTCTTGCA 59.814 36.000 0.00 0.00 0.00 4.08
4039 5759 5.748630 GGTTTTCTTTTTGTACCTCTTGCAG 59.251 40.000 0.00 0.00 0.00 4.41
4040 5760 6.330278 GTTTTCTTTTTGTACCTCTTGCAGT 58.670 36.000 0.00 0.00 0.00 4.40
4041 5761 6.524101 TTTCTTTTTGTACCTCTTGCAGTT 57.476 33.333 0.00 0.00 0.00 3.16
4042 5762 5.499139 TCTTTTTGTACCTCTTGCAGTTG 57.501 39.130 0.00 0.00 0.00 3.16
4043 5763 4.338118 TCTTTTTGTACCTCTTGCAGTTGG 59.662 41.667 0.00 0.00 0.00 3.77
4044 5764 3.569194 TTTGTACCTCTTGCAGTTGGA 57.431 42.857 7.75 0.00 0.00 3.53
4045 5765 3.788227 TTGTACCTCTTGCAGTTGGAT 57.212 42.857 7.75 0.00 0.00 3.41
4046 5766 3.057969 TGTACCTCTTGCAGTTGGATG 57.942 47.619 7.75 0.00 0.00 3.51
4047 5767 2.290260 TGTACCTCTTGCAGTTGGATGG 60.290 50.000 7.75 0.00 0.00 3.51
4048 5768 0.773644 ACCTCTTGCAGTTGGATGGT 59.226 50.000 7.75 0.00 0.00 3.55
4049 5769 1.145738 ACCTCTTGCAGTTGGATGGTT 59.854 47.619 7.75 0.00 0.00 3.67
4050 5770 2.242043 CCTCTTGCAGTTGGATGGTTT 58.758 47.619 0.00 0.00 0.00 3.27
4051 5771 2.029649 CCTCTTGCAGTTGGATGGTTTG 60.030 50.000 0.00 0.00 0.00 2.93
4052 5772 2.886523 CTCTTGCAGTTGGATGGTTTGA 59.113 45.455 0.00 0.00 0.00 2.69
4053 5773 3.499338 TCTTGCAGTTGGATGGTTTGAT 58.501 40.909 0.00 0.00 0.00 2.57
4054 5774 3.256383 TCTTGCAGTTGGATGGTTTGATG 59.744 43.478 0.00 0.00 0.00 3.07
4055 5775 2.874014 TGCAGTTGGATGGTTTGATGA 58.126 42.857 0.00 0.00 0.00 2.92
4056 5776 3.433343 TGCAGTTGGATGGTTTGATGAT 58.567 40.909 0.00 0.00 0.00 2.45
4057 5777 3.833650 TGCAGTTGGATGGTTTGATGATT 59.166 39.130 0.00 0.00 0.00 2.57
4058 5778 5.015515 TGCAGTTGGATGGTTTGATGATTA 58.984 37.500 0.00 0.00 0.00 1.75
4059 5779 5.125900 TGCAGTTGGATGGTTTGATGATTAG 59.874 40.000 0.00 0.00 0.00 1.73
4060 5780 5.357878 GCAGTTGGATGGTTTGATGATTAGA 59.642 40.000 0.00 0.00 0.00 2.10
4061 5781 6.127647 GCAGTTGGATGGTTTGATGATTAGAA 60.128 38.462 0.00 0.00 0.00 2.10
4062 5782 7.253422 CAGTTGGATGGTTTGATGATTAGAAC 58.747 38.462 0.00 0.00 0.00 3.01
4063 5783 6.947733 AGTTGGATGGTTTGATGATTAGAACA 59.052 34.615 0.00 0.00 0.00 3.18
4064 5784 7.616935 AGTTGGATGGTTTGATGATTAGAACAT 59.383 33.333 0.00 0.00 0.00 2.71
4065 5785 8.902806 GTTGGATGGTTTGATGATTAGAACATA 58.097 33.333 0.00 0.00 0.00 2.29
4066 5786 9.473007 TTGGATGGTTTGATGATTAGAACATAA 57.527 29.630 0.00 0.00 0.00 1.90
4067 5787 9.645128 TGGATGGTTTGATGATTAGAACATAAT 57.355 29.630 0.00 0.00 0.00 1.28
4068 5788 9.903682 GGATGGTTTGATGATTAGAACATAATG 57.096 33.333 0.00 0.00 0.00 1.90
4119 5839 8.383175 TCTTTAATGTGACCTCTATGGAACTTT 58.617 33.333 0.00 0.00 39.71 2.66
4124 5844 4.878397 GTGACCTCTATGGAACTTTGGATG 59.122 45.833 0.00 0.00 39.71 3.51
4130 5858 6.654161 CCTCTATGGAACTTTGGATGATCATC 59.346 42.308 24.90 24.90 38.35 2.92
4178 5906 6.069440 AGGAGAAATAATCAGTGTGGGATTGA 60.069 38.462 0.00 0.00 36.45 2.57
4180 5908 5.591877 AGAAATAATCAGTGTGGGATTGAGC 59.408 40.000 0.00 0.00 36.45 4.26
4204 5932 1.147817 AGCTTTTGGAGGGTTGATGGT 59.852 47.619 0.00 0.00 0.00 3.55
4209 5937 5.723295 CTTTTGGAGGGTTGATGGTTTATG 58.277 41.667 0.00 0.00 0.00 1.90
4222 5950 5.130477 TGATGGTTTATGAAGTACTCCCTCC 59.870 44.000 0.00 0.00 0.00 4.30
4228 5956 0.324091 GAAGTACTCCCTCCGTCCCA 60.324 60.000 0.00 0.00 0.00 4.37
4267 5995 9.673454 CAACTTTAGTACAACTTATTTTGGGAC 57.327 33.333 0.00 0.00 0.00 4.46
4269 5997 7.173735 ACTTTAGTACAACTTATTTTGGGACGG 59.826 37.037 0.00 0.00 0.00 4.79
4288 6016 6.490721 GGGACGGAGGGAGTATTATATGATAG 59.509 46.154 0.00 0.00 0.00 2.08
4359 6119 8.173130 GGAAAGCAATTGAATTCATGACAATTC 58.827 33.333 15.98 13.88 40.63 2.17
4406 6166 7.114754 TCTTGATTGTCTGATTTCATAGCCTT 58.885 34.615 0.00 0.00 0.00 4.35
4442 6202 8.897752 GGATATCATTTTTGTTAACTCTCTGCT 58.102 33.333 7.22 0.00 0.00 4.24
4447 6207 5.947228 TTTTGTTAACTCTCTGCTGATGG 57.053 39.130 7.22 0.00 0.00 3.51
4463 6223 1.471684 GATGGCACCTTGAAGCTTGAG 59.528 52.381 2.10 1.03 0.00 3.02
4473 6233 7.362056 GCACCTTGAAGCTTGAGTATTTTCATA 60.362 37.037 2.10 0.00 0.00 2.15
4508 6268 8.978874 ATACATTGCTCTACATAATTGGTTGA 57.021 30.769 0.00 0.00 0.00 3.18
4557 6317 5.867716 AGCAGTTTTTCAATTGATCTGATGC 59.132 36.000 22.54 21.16 0.00 3.91
4564 6324 3.811497 TCAATTGATCTGATGCGATGACC 59.189 43.478 3.38 0.00 0.00 4.02
4569 6329 3.374988 TGATCTGATGCGATGACCAAAAC 59.625 43.478 0.00 0.00 0.00 2.43
4574 6334 3.255395 TGATGCGATGACCAAAACATGTT 59.745 39.130 4.92 4.92 0.00 2.71
4576 6336 4.837896 TGCGATGACCAAAACATGTTTA 57.162 36.364 23.53 8.65 31.63 2.01
4584 6344 9.744468 GATGACCAAAACATGTTTACTTAAACT 57.256 29.630 23.53 3.20 44.36 2.66
4616 6376 3.008375 AGCTCAAGCACCTGATCAGTAAA 59.992 43.478 21.11 0.00 45.16 2.01
4633 6393 9.178758 GATCAGTAAAATGGAGTTCTATTGGTT 57.821 33.333 0.00 0.00 0.00 3.67
4644 6404 7.125811 TGGAGTTCTATTGGTTCTAGCTATTGT 59.874 37.037 0.00 0.00 0.00 2.71
4647 6407 7.988028 AGTTCTATTGGTTCTAGCTATTGTTCC 59.012 37.037 0.00 0.00 0.00 3.62
4652 6412 7.391148 TTGGTTCTAGCTATTGTTCCAAATC 57.609 36.000 0.00 0.00 32.01 2.17
4694 6454 8.737168 TGATATGCTAAATAAACTGTCTGCTT 57.263 30.769 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
194 199 5.955488 TCTGCAAGTACAGACTGATAACTC 58.045 41.667 10.08 0.39 41.72 3.01
272 277 0.976641 CTGGACAGTCTACAGCCCAA 59.023 55.000 0.00 0.00 0.00 4.12
287 292 4.081031 GGTAAAAACAAAACCAACCCTGGA 60.081 41.667 0.00 0.00 46.92 3.86
318 323 2.345991 CCCCGTTGTCGTCATGGT 59.654 61.111 0.00 0.00 35.01 3.55
346 352 0.041238 AGGCCAGTAGACACCTGCTA 59.959 55.000 5.01 0.00 33.44 3.49
399 405 1.904287 AAAACTGCCTGCGGATGTTA 58.096 45.000 4.70 0.00 0.00 2.41
617 627 9.750125 GACAATTGAGTTGGTTTAAGAGAAAAT 57.250 29.630 13.59 0.00 42.28 1.82
623 633 5.450453 TGGGACAATTGAGTTGGTTTAAGA 58.550 37.500 13.59 0.00 42.28 2.10
805 818 2.256117 AGCGACTTACTTGCCAAGTT 57.744 45.000 16.40 0.00 42.81 2.66
811 824 2.096218 CCTGACAAAGCGACTTACTTGC 60.096 50.000 0.00 0.00 0.00 4.01
890 903 3.777106 TCTCATTACTGATGGGCCATC 57.223 47.619 34.65 34.65 40.88 3.51
922 935 8.050325 TGGCTAGCCTCTGTATTGTTTTAAATA 58.950 33.333 33.07 4.08 36.94 1.40
972 985 0.253327 GGCCAGAGAAGGAACCGATT 59.747 55.000 0.00 0.00 0.00 3.34
985 998 1.412710 GACCATGATCTAACGGCCAGA 59.587 52.381 2.24 0.00 0.00 3.86
1113 1135 0.538057 CTCACCCAGCCAACACACAT 60.538 55.000 0.00 0.00 0.00 3.21
1116 1138 2.203337 GCTCACCCAGCCAACACA 60.203 61.111 0.00 0.00 43.17 3.72
1216 1239 4.904590 TGGGCCGTGGGTGGTTTG 62.905 66.667 0.00 0.00 0.00 2.93
1222 1245 2.854300 GATTGGATTGGGCCGTGGGT 62.854 60.000 0.00 0.00 0.00 4.51
1291 1316 3.007323 GGGGCTAGGGTTCGTGGT 61.007 66.667 0.00 0.00 0.00 4.16
1323 1348 4.007644 CAGAGGGCAGCGACCACA 62.008 66.667 3.26 0.00 29.21 4.17
1337 1362 0.689080 GGGAGGTCAGATGGAGCAGA 60.689 60.000 0.00 0.00 46.51 4.26
1348 1373 1.899437 GCGGTTGATGAGGGAGGTCA 61.899 60.000 0.00 0.00 0.00 4.02
1375 2976 4.131088 GACGGACGGAGGAGCCAC 62.131 72.222 0.00 0.00 35.94 5.01
1390 2991 1.187087 ATTGGGGAGACAGAGTCGAC 58.813 55.000 7.70 7.70 37.67 4.20
1391 2992 1.825474 GAATTGGGGAGACAGAGTCGA 59.175 52.381 0.00 0.00 37.67 4.20
1419 3020 0.390472 CACCTCGAGCAGAAAGGGAC 60.390 60.000 6.99 0.00 34.31 4.46
1448 3049 2.636412 CGGCTTCCTCACGACCTGA 61.636 63.158 0.00 0.00 0.00 3.86
1472 3073 4.135153 CACGACCTGGGCTCCTCG 62.135 72.222 0.00 0.00 0.00 4.63
1671 3289 4.039004 CAGGAGAGAGAGAGAGAGAGAGAG 59.961 54.167 0.00 0.00 0.00 3.20
1672 3290 3.963374 CAGGAGAGAGAGAGAGAGAGAGA 59.037 52.174 0.00 0.00 0.00 3.10
1693 3369 2.227626 CGAGAGAGAGAGAAAGTGTGCA 59.772 50.000 0.00 0.00 0.00 4.57
1858 3562 3.722147 CTGGAGAAAGTATGTGGATCCG 58.278 50.000 7.39 0.00 0.00 4.18
1905 3609 2.980379 TGGTGTACATAAAGTGGTGGGA 59.020 45.455 0.00 0.00 0.00 4.37
1919 3623 7.907214 ATTGACAGTTTATCTCTTGGTGTAC 57.093 36.000 0.00 0.00 0.00 2.90
2204 3909 3.263170 TGCTACAGACATTAAAGGGCAGA 59.737 43.478 0.00 0.00 0.00 4.26
2440 4145 9.849166 ACAATTTATTATCAACTAAAACCGGTG 57.151 29.630 8.52 0.00 0.00 4.94
2505 4210 0.330604 ACATGCACCTGGAGCAAGAT 59.669 50.000 24.31 10.52 46.27 2.40
2616 4321 3.306502 GCAGGTGTAGCCAAGTACAGTTA 60.307 47.826 0.00 0.00 40.61 2.24
2666 4371 9.624697 GAAAGCATACAACTTCACATATTCAAA 57.375 29.630 0.00 0.00 0.00 2.69
2714 4420 5.186198 AGCCAAGTATAGTTGAAAGCGAAT 58.814 37.500 19.87 0.00 0.00 3.34
2942 4649 5.565509 TCAGAACCTGGCACATGTATAAAA 58.434 37.500 0.00 0.00 35.82 1.52
3047 4754 6.653020 TCCTCATGCTACATACAAAATGAGT 58.347 36.000 9.03 0.00 39.45 3.41
3284 4995 4.243007 ACAGCAACAAAAGTATTGAGGC 57.757 40.909 0.00 0.00 0.00 4.70
3289 5000 6.922957 CACACCATTACAGCAACAAAAGTATT 59.077 34.615 0.00 0.00 0.00 1.89
3379 5090 6.015180 ACTGAATTATGGACAACAAACATGCT 60.015 34.615 0.00 0.00 0.00 3.79
3452 5163 0.034477 ACAGGGGCCAGTTTATTCCG 60.034 55.000 4.39 0.00 0.00 4.30
3719 5435 7.283329 ACACAAAGAAATTGGAGTAGAACTCT 58.717 34.615 6.99 0.00 44.46 3.24
3782 5501 6.518200 GCAGGGAAACATTTAAAAGTCCATCA 60.518 38.462 0.00 0.00 0.00 3.07
3811 5530 2.616634 TTGCAGGCAAAGCAATGAAA 57.383 40.000 3.86 0.00 46.13 2.69
3897 5617 8.839343 TGTGTCAAGATTTATTTGCATATCGAT 58.161 29.630 2.16 2.16 0.00 3.59
3963 5683 7.000472 ACACGGGAGATGATGATTCATTATTT 59.000 34.615 5.49 0.37 42.73 1.40
3964 5684 6.537355 ACACGGGAGATGATGATTCATTATT 58.463 36.000 5.49 0.00 42.73 1.40
3965 5685 6.119240 ACACGGGAGATGATGATTCATTAT 57.881 37.500 3.74 3.74 42.73 1.28
3966 5686 5.551305 ACACGGGAGATGATGATTCATTA 57.449 39.130 0.00 0.00 42.73 1.90
3967 5687 4.428294 ACACGGGAGATGATGATTCATT 57.572 40.909 0.00 0.00 42.73 2.57
3968 5688 4.428294 AACACGGGAGATGATGATTCAT 57.572 40.909 0.00 0.00 45.39 2.57
3969 5689 3.912496 AACACGGGAGATGATGATTCA 57.088 42.857 0.00 0.00 36.00 2.57
3970 5690 5.355350 AGAAAAACACGGGAGATGATGATTC 59.645 40.000 0.00 0.00 0.00 2.52
3971 5691 5.256474 AGAAAAACACGGGAGATGATGATT 58.744 37.500 0.00 0.00 0.00 2.57
3972 5692 4.848357 AGAAAAACACGGGAGATGATGAT 58.152 39.130 0.00 0.00 0.00 2.45
3973 5693 4.020218 AGAGAAAAACACGGGAGATGATGA 60.020 41.667 0.00 0.00 0.00 2.92
3974 5694 4.256920 AGAGAAAAACACGGGAGATGATG 58.743 43.478 0.00 0.00 0.00 3.07
3975 5695 4.559862 AGAGAAAAACACGGGAGATGAT 57.440 40.909 0.00 0.00 0.00 2.45
3976 5696 4.065088 CAAGAGAAAAACACGGGAGATGA 58.935 43.478 0.00 0.00 0.00 2.92
3977 5697 4.065088 TCAAGAGAAAAACACGGGAGATG 58.935 43.478 0.00 0.00 0.00 2.90
3978 5698 4.351874 TCAAGAGAAAAACACGGGAGAT 57.648 40.909 0.00 0.00 0.00 2.75
3979 5699 3.830744 TCAAGAGAAAAACACGGGAGA 57.169 42.857 0.00 0.00 0.00 3.71
3980 5700 4.893424 TTTCAAGAGAAAAACACGGGAG 57.107 40.909 0.00 0.00 40.61 4.30
3990 5710 5.445069 TGACACCTCCATTTTCAAGAGAAA 58.555 37.500 0.00 0.00 41.78 2.52
3991 5711 5.047566 TGACACCTCCATTTTCAAGAGAA 57.952 39.130 0.00 0.00 0.00 2.87
3992 5712 4.705110 TGACACCTCCATTTTCAAGAGA 57.295 40.909 0.00 0.00 0.00 3.10
3993 5713 4.157289 CCATGACACCTCCATTTTCAAGAG 59.843 45.833 0.00 0.00 0.00 2.85
3994 5714 4.081406 CCATGACACCTCCATTTTCAAGA 58.919 43.478 0.00 0.00 0.00 3.02
3995 5715 3.828451 ACCATGACACCTCCATTTTCAAG 59.172 43.478 0.00 0.00 0.00 3.02
3996 5716 3.843422 ACCATGACACCTCCATTTTCAA 58.157 40.909 0.00 0.00 0.00 2.69
3997 5717 3.524095 ACCATGACACCTCCATTTTCA 57.476 42.857 0.00 0.00 0.00 2.69
3998 5718 4.871933 AAACCATGACACCTCCATTTTC 57.128 40.909 0.00 0.00 0.00 2.29
3999 5719 4.901250 AGAAAACCATGACACCTCCATTTT 59.099 37.500 0.00 0.00 0.00 1.82
4000 5720 4.482990 AGAAAACCATGACACCTCCATTT 58.517 39.130 0.00 0.00 0.00 2.32
4001 5721 4.118168 AGAAAACCATGACACCTCCATT 57.882 40.909 0.00 0.00 0.00 3.16
4002 5722 3.814504 AGAAAACCATGACACCTCCAT 57.185 42.857 0.00 0.00 0.00 3.41
4003 5723 3.593442 AAGAAAACCATGACACCTCCA 57.407 42.857 0.00 0.00 0.00 3.86
4004 5724 4.937201 AAAAGAAAACCATGACACCTCC 57.063 40.909 0.00 0.00 0.00 4.30
4005 5725 5.660460 ACAAAAAGAAAACCATGACACCTC 58.340 37.500 0.00 0.00 0.00 3.85
4006 5726 5.675684 ACAAAAAGAAAACCATGACACCT 57.324 34.783 0.00 0.00 0.00 4.00
4007 5727 5.751509 GGTACAAAAAGAAAACCATGACACC 59.248 40.000 0.00 0.00 0.00 4.16
4008 5728 6.569780 AGGTACAAAAAGAAAACCATGACAC 58.430 36.000 0.00 0.00 32.43 3.67
4009 5729 6.605594 AGAGGTACAAAAAGAAAACCATGACA 59.394 34.615 0.00 0.00 32.43 3.58
4010 5730 7.039313 AGAGGTACAAAAAGAAAACCATGAC 57.961 36.000 0.00 0.00 32.43 3.06
4011 5731 7.488322 CAAGAGGTACAAAAAGAAAACCATGA 58.512 34.615 0.00 0.00 32.43 3.07
4012 5732 6.200854 GCAAGAGGTACAAAAAGAAAACCATG 59.799 38.462 0.00 0.00 32.43 3.66
4013 5733 6.127196 TGCAAGAGGTACAAAAAGAAAACCAT 60.127 34.615 0.00 0.00 32.43 3.55
4014 5734 5.186021 TGCAAGAGGTACAAAAAGAAAACCA 59.814 36.000 0.00 0.00 32.43 3.67
4015 5735 5.656480 TGCAAGAGGTACAAAAAGAAAACC 58.344 37.500 0.00 0.00 0.00 3.27
4016 5736 6.330278 ACTGCAAGAGGTACAAAAAGAAAAC 58.670 36.000 0.00 0.00 37.43 2.43
4017 5737 6.524101 ACTGCAAGAGGTACAAAAAGAAAA 57.476 33.333 0.00 0.00 37.43 2.29
4018 5738 6.329496 CAACTGCAAGAGGTACAAAAAGAAA 58.671 36.000 0.00 0.00 37.43 2.52
4019 5739 5.163561 CCAACTGCAAGAGGTACAAAAAGAA 60.164 40.000 0.00 0.00 37.43 2.52
4020 5740 4.338118 CCAACTGCAAGAGGTACAAAAAGA 59.662 41.667 0.00 0.00 37.43 2.52
4021 5741 4.338118 TCCAACTGCAAGAGGTACAAAAAG 59.662 41.667 0.00 0.00 37.43 2.27
4022 5742 4.274147 TCCAACTGCAAGAGGTACAAAAA 58.726 39.130 0.00 0.00 37.43 1.94
4023 5743 3.892284 TCCAACTGCAAGAGGTACAAAA 58.108 40.909 0.00 0.00 37.43 2.44
4024 5744 3.569194 TCCAACTGCAAGAGGTACAAA 57.431 42.857 0.00 0.00 37.43 2.83
4025 5745 3.411446 CATCCAACTGCAAGAGGTACAA 58.589 45.455 0.00 0.00 37.43 2.41
4026 5746 2.290260 CCATCCAACTGCAAGAGGTACA 60.290 50.000 0.00 0.00 37.43 2.90
4027 5747 2.290323 ACCATCCAACTGCAAGAGGTAC 60.290 50.000 0.00 0.00 37.43 3.34
4028 5748 1.985159 ACCATCCAACTGCAAGAGGTA 59.015 47.619 0.00 0.00 37.43 3.08
4029 5749 0.773644 ACCATCCAACTGCAAGAGGT 59.226 50.000 0.00 0.00 37.43 3.85
4030 5750 1.915141 AACCATCCAACTGCAAGAGG 58.085 50.000 0.00 0.00 37.43 3.69
4031 5751 2.886523 TCAAACCATCCAACTGCAAGAG 59.113 45.455 0.00 0.00 37.43 2.85
4032 5752 2.942804 TCAAACCATCCAACTGCAAGA 58.057 42.857 0.00 0.00 37.43 3.02
4033 5753 3.256383 TCATCAAACCATCCAACTGCAAG 59.744 43.478 0.00 0.00 42.29 4.01
4034 5754 3.229293 TCATCAAACCATCCAACTGCAA 58.771 40.909 0.00 0.00 0.00 4.08
4035 5755 2.874014 TCATCAAACCATCCAACTGCA 58.126 42.857 0.00 0.00 0.00 4.41
4036 5756 4.460948 AATCATCAAACCATCCAACTGC 57.539 40.909 0.00 0.00 0.00 4.40
4037 5757 7.094248 TGTTCTAATCATCAAACCATCCAACTG 60.094 37.037 0.00 0.00 0.00 3.16
4038 5758 6.947733 TGTTCTAATCATCAAACCATCCAACT 59.052 34.615 0.00 0.00 0.00 3.16
4039 5759 7.156876 TGTTCTAATCATCAAACCATCCAAC 57.843 36.000 0.00 0.00 0.00 3.77
4040 5760 7.959658 ATGTTCTAATCATCAAACCATCCAA 57.040 32.000 0.00 0.00 0.00 3.53
4041 5761 9.645128 ATTATGTTCTAATCATCAAACCATCCA 57.355 29.630 0.00 0.00 0.00 3.41
4042 5762 9.903682 CATTATGTTCTAATCATCAAACCATCC 57.096 33.333 0.00 0.00 0.00 3.51
4087 5807 8.043710 CCATAGAGGTCACATTAAAGAGAGTTT 58.956 37.037 0.00 0.00 0.00 2.66
4088 5808 7.400339 TCCATAGAGGTCACATTAAAGAGAGTT 59.600 37.037 0.00 0.00 39.02 3.01
4089 5809 6.897966 TCCATAGAGGTCACATTAAAGAGAGT 59.102 38.462 0.00 0.00 39.02 3.24
4090 5810 7.353414 TCCATAGAGGTCACATTAAAGAGAG 57.647 40.000 0.00 0.00 39.02 3.20
4091 5811 7.400339 AGTTCCATAGAGGTCACATTAAAGAGA 59.600 37.037 0.00 0.00 39.02 3.10
4092 5812 7.560368 AGTTCCATAGAGGTCACATTAAAGAG 58.440 38.462 0.00 0.00 39.02 2.85
4093 5813 7.496346 AGTTCCATAGAGGTCACATTAAAGA 57.504 36.000 0.00 0.00 39.02 2.52
4094 5814 8.454106 CAAAGTTCCATAGAGGTCACATTAAAG 58.546 37.037 0.00 0.00 39.02 1.85
4095 5815 7.393234 CCAAAGTTCCATAGAGGTCACATTAAA 59.607 37.037 0.00 0.00 39.02 1.52
4096 5816 6.884295 CCAAAGTTCCATAGAGGTCACATTAA 59.116 38.462 0.00 0.00 39.02 1.40
4097 5817 6.214615 TCCAAAGTTCCATAGAGGTCACATTA 59.785 38.462 0.00 0.00 39.02 1.90
4098 5818 5.014123 TCCAAAGTTCCATAGAGGTCACATT 59.986 40.000 0.00 0.00 39.02 2.71
4099 5819 4.536090 TCCAAAGTTCCATAGAGGTCACAT 59.464 41.667 0.00 0.00 39.02 3.21
4100 5820 3.907474 TCCAAAGTTCCATAGAGGTCACA 59.093 43.478 0.00 0.00 39.02 3.58
4119 5839 1.130777 TTGCCCTCGATGATCATCCA 58.869 50.000 26.30 15.56 34.40 3.41
4124 5844 2.149578 CCAAGATTGCCCTCGATGATC 58.850 52.381 0.00 0.00 0.00 2.92
4130 5858 2.918712 ACTATCCAAGATTGCCCTCG 57.081 50.000 0.00 0.00 0.00 4.63
4180 5908 3.085952 TCAACCCTCCAAAAGCTATGG 57.914 47.619 11.40 11.40 39.41 2.74
4192 5920 6.415573 AGTACTTCATAAACCATCAACCCTC 58.584 40.000 0.00 0.00 0.00 4.30
4196 5924 6.415573 AGGGAGTACTTCATAAACCATCAAC 58.584 40.000 2.92 0.00 0.00 3.18
4204 5932 3.703052 GGACGGAGGGAGTACTTCATAAA 59.297 47.826 2.92 0.00 0.00 1.40
4209 5937 0.324091 TGGGACGGAGGGAGTACTTC 60.324 60.000 0.00 0.00 0.00 3.01
4222 5950 4.755123 AGTTGAGACACTTATTTTGGGACG 59.245 41.667 0.00 0.00 0.00 4.79
4330 6090 7.162761 TGTCATGAATTCAATTGCTTTCCAAT 58.837 30.769 13.09 1.23 45.90 3.16
4393 6153 5.009410 CCAGGAACATGAAGGCTATGAAATC 59.991 44.000 0.00 0.66 0.00 2.17
4398 6158 3.565764 TCCAGGAACATGAAGGCTATG 57.434 47.619 0.00 0.00 0.00 2.23
4406 6166 7.959658 ACAAAAATGATATCCAGGAACATGA 57.040 32.000 0.00 0.00 0.00 3.07
4442 6202 1.202915 TCAAGCTTCAAGGTGCCATCA 60.203 47.619 0.00 0.00 0.00 3.07
4447 6207 4.773323 AAATACTCAAGCTTCAAGGTGC 57.227 40.909 0.00 0.00 0.00 5.01
4456 6216 8.049117 TCATCAAGGTATGAAAATACTCAAGCT 58.951 33.333 0.00 0.00 42.54 3.74
4473 6233 6.653020 TGTAGAGCAATGTATTCATCAAGGT 58.347 36.000 0.00 0.00 32.56 3.50
4485 6245 7.886629 ATCAACCAATTATGTAGAGCAATGT 57.113 32.000 0.00 0.00 0.00 2.71
4526 6286 9.598517 AGATCAATTGAAAAACTGCTACAAAAA 57.401 25.926 13.09 0.00 0.00 1.94
4535 6295 6.088173 TCGCATCAGATCAATTGAAAAACTG 58.912 36.000 13.09 17.42 0.00 3.16
4545 6305 3.480505 TGGTCATCGCATCAGATCAAT 57.519 42.857 0.00 0.00 0.00 2.57
4546 6306 2.985957 TGGTCATCGCATCAGATCAA 57.014 45.000 0.00 0.00 0.00 2.57
4547 6307 2.985957 TTGGTCATCGCATCAGATCA 57.014 45.000 0.00 0.00 0.00 2.92
4548 6308 3.374988 TGTTTTGGTCATCGCATCAGATC 59.625 43.478 0.00 0.00 0.00 2.75
4549 6309 3.346315 TGTTTTGGTCATCGCATCAGAT 58.654 40.909 0.00 0.00 0.00 2.90
4550 6310 2.777094 TGTTTTGGTCATCGCATCAGA 58.223 42.857 0.00 0.00 0.00 3.27
4557 6317 8.687301 GTTTAAGTAAACATGTTTTGGTCATCG 58.313 33.333 27.66 0.00 43.70 3.84
4576 6336 9.110502 GCTTGAGCTAATATACCAAGTTTAAGT 57.889 33.333 9.88 0.00 37.23 2.24
4584 6344 5.130311 TCAGGTGCTTGAGCTAATATACCAA 59.870 40.000 4.44 0.00 42.66 3.67
4593 6353 2.182827 ACTGATCAGGTGCTTGAGCTA 58.817 47.619 26.08 0.00 42.66 3.32
4616 6376 6.567602 AGCTAGAACCAATAGAACTCCATT 57.432 37.500 0.00 0.00 0.00 3.16
4644 6404 9.316730 CAGTTTTTCTTTCTGAATGATTTGGAA 57.683 29.630 6.79 0.00 34.24 3.53


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

AutoCloner maintained by Alex Coulton.