Multiple sequence alignment - TraesCS7B01G385900

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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 TraesCS7B01G385900 chr7B 100.000 4597 0 0 1 4597 650668711 650664115 0.000000e+00 8490.0
1 TraesCS7B01G385900 chr7B 85.068 663 80 15 3945 4597 650644823 650644170 0.000000e+00 658.0
2 TraesCS7B01G385900 chr7B 79.554 269 41 9 4141 4400 17851653 17851390 3.650000e-41 180.0
3 TraesCS7B01G385900 chr7D 93.170 2372 101 23 679 3026 583109382 583107048 0.000000e+00 3426.0
4 TraesCS7B01G385900 chr7D 89.387 848 42 15 3036 3848 583106980 583106146 0.000000e+00 1024.0
5 TraesCS7B01G385900 chr7D 85.965 399 47 5 3 399 583110013 583109622 7.110000e-113 418.0
6 TraesCS7B01G385900 chr7A 92.908 1692 71 15 1927 3591 674875538 674873869 0.000000e+00 2414.0
7 TraesCS7B01G385900 chr7A 93.742 815 34 8 554 1366 674877310 674876511 0.000000e+00 1206.0
8 TraesCS7B01G385900 chr7A 87.928 555 38 9 3 539 674878241 674877698 1.090000e-175 627.0
9 TraesCS7B01G385900 chr7A 93.973 365 19 3 1419 1781 674876143 674875780 2.420000e-152 549.0
10 TraesCS7B01G385900 chr7A 90.868 219 18 2 3631 3847 674873780 674873562 4.500000e-75 292.0
11 TraesCS7B01G385900 chr7A 87.500 80 2 3 1792 1871 674875612 674875541 8.190000e-13 86.1
12 TraesCS7B01G385900 chr2D 84.000 525 51 14 2092 2604 644361795 644362298 1.500000e-129 473.0
13 TraesCS7B01G385900 chr2D 80.899 623 61 26 2084 2667 635948174 635948777 5.460000e-119 438.0
14 TraesCS7B01G385900 chr2D 85.473 296 15 15 1071 1353 635946321 635946601 2.710000e-72 283.0
15 TraesCS7B01G385900 chr2D 86.034 179 22 3 4219 4394 134647335 134647513 6.070000e-44 189.0
16 TraesCS7B01G385900 chr2A 79.828 699 77 31 1982 2635 761251263 761250584 7.010000e-123 451.0
17 TraesCS7B01G385900 chr2A 78.634 454 53 25 3087 3509 761249900 761249460 1.270000e-65 261.0
18 TraesCS7B01G385900 chr2A 83.333 300 13 11 1071 1370 761252022 761251760 4.600000e-60 243.0
19 TraesCS7B01G385900 chr1D 80.417 623 67 31 2110 2714 490028046 490027461 1.530000e-114 424.0
20 TraesCS7B01G385900 chr1D 81.250 272 37 9 4103 4367 148677806 148677542 1.680000e-49 207.0
21 TraesCS7B01G385900 chr1A 79.935 613 76 25 2110 2714 588289781 588290354 1.540000e-109 407.0
22 TraesCS7B01G385900 chr1A 81.712 257 35 7 4103 4353 202090928 202090678 2.170000e-48 204.0
23 TraesCS7B01G385900 chr2B 88.966 290 13 4 1071 1353 794045775 794046052 1.580000e-89 340.0
24 TraesCS7B01G385900 chr2B 78.495 279 52 6 4115 4387 483513543 483513267 4.730000e-40 176.0
25 TraesCS7B01G385900 chr2B 78.571 252 42 11 4152 4395 318201785 318201538 6.160000e-34 156.0
26 TraesCS7B01G385900 chr1B 78.613 519 46 30 1982 2461 42582765 42583257 2.710000e-72 283.0
27 TraesCS7B01G385900 chr3D 79.859 283 41 12 4119 4389 62916311 62916589 4.690000e-45 193.0
28 TraesCS7B01G385900 chr5B 79.775 267 45 5 4141 4398 107208506 107208240 7.850000e-43 185.0
29 TraesCS7B01G385900 chr5B 94.286 35 2 0 659 693 203728955 203728989 2.000000e-03 54.7
30 TraesCS7B01G385900 chr6A 94.286 35 2 0 659 693 61890631 61890665 2.000000e-03 54.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G385900 chr7B 650664115 650668711 4596 True 8490.000000 8490 100.000000 1 4597 1 chr7B.!!$R3 4596
1 TraesCS7B01G385900 chr7B 650644170 650644823 653 True 658.000000 658 85.068000 3945 4597 1 chr7B.!!$R2 652
2 TraesCS7B01G385900 chr7D 583106146 583110013 3867 True 1622.666667 3426 89.507333 3 3848 3 chr7D.!!$R1 3845
3 TraesCS7B01G385900 chr7A 674873562 674878241 4679 True 862.350000 2414 91.153167 3 3847 6 chr7A.!!$R1 3844
4 TraesCS7B01G385900 chr2D 644361795 644362298 503 False 473.000000 473 84.000000 2092 2604 1 chr2D.!!$F2 512
5 TraesCS7B01G385900 chr2D 635946321 635948777 2456 False 360.500000 438 83.186000 1071 2667 2 chr2D.!!$F3 1596
6 TraesCS7B01G385900 chr2A 761249460 761252022 2562 True 318.333333 451 80.598333 1071 3509 3 chr2A.!!$R1 2438
7 TraesCS7B01G385900 chr1D 490027461 490028046 585 True 424.000000 424 80.417000 2110 2714 1 chr1D.!!$R2 604
8 TraesCS7B01G385900 chr1A 588289781 588290354 573 False 407.000000 407 79.935000 2110 2714 1 chr1A.!!$F1 604

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
605 1003 0.046552 TTCCACCCCTATGGCCCTAA 59.953 55.0 0.0 0.0 39.85 2.69 F
1395 1819 0.104620 TCCTCCCCCATAACCTAGCC 60.105 60.0 0.0 0.0 0.00 3.93 F
1821 2774 0.099968 CATGGTGCCGATTGAGCAAG 59.900 55.0 0.0 0.0 43.02 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1821 2774 0.463654 TTAGCATCACGCCATCACCC 60.464 55.0 0.00 0.0 44.04 4.61 R
3195 5460 0.729690 GCAACTCAAGATCTTCGCCC 59.270 55.0 4.57 0.0 0.00 6.13 R
3599 5912 0.037160 ATCTGCACCACACAGCATCA 59.963 50.0 0.00 0.0 40.42 3.07 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
62 63 0.895100 ACGCCGACCACCAAGTAGTA 60.895 55.000 0.00 0.00 0.00 1.82
85 86 9.456147 AGTATAGATAGTCTAGGTAGCAATGTG 57.544 37.037 0.00 0.00 31.67 3.21
96 97 1.959042 AGCAATGTGGCTCGAATAGG 58.041 50.000 0.00 0.00 41.05 2.57
120 121 9.218440 AGGGACATTGCTTATTTTAAAAATGTG 57.782 29.630 15.08 6.77 38.12 3.21
162 163 5.383984 TGCTAATTACATGTAAAGCGACG 57.616 39.130 26.00 13.38 33.72 5.12
163 164 4.269123 TGCTAATTACATGTAAAGCGACGG 59.731 41.667 26.00 13.65 33.72 4.79
236 237 3.885724 TTGACATGTCTAATCCGAGCA 57.114 42.857 25.55 0.00 0.00 4.26
239 240 5.126396 TGACATGTCTAATCCGAGCATAG 57.874 43.478 25.55 0.00 0.00 2.23
269 270 7.118245 GCCCCTACATTTTTGAAGAAAATGAAG 59.882 37.037 23.40 14.03 45.59 3.02
331 334 3.378339 CGTACAACTTTCACGACCTTCT 58.622 45.455 0.00 0.00 37.89 2.85
432 435 8.896744 CATAAATTATCCATATTGCCATCGTCT 58.103 33.333 0.00 0.00 0.00 4.18
433 436 6.748333 AATTATCCATATTGCCATCGTCTG 57.252 37.500 0.00 0.00 0.00 3.51
466 469 6.230472 TGCAAGACACAACATTATGTAGACT 58.770 36.000 0.00 0.00 30.84 3.24
590 988 5.626809 CGACTCCCACTGAAAGAATATTCCA 60.627 44.000 11.92 2.60 37.43 3.53
605 1003 0.046552 TTCCACCCCTATGGCCCTAA 59.953 55.000 0.00 0.00 39.85 2.69
643 1041 2.702592 ACAAGTGGTTTGAACTCCGA 57.297 45.000 0.00 0.00 39.21 4.55
656 1054 3.083349 TCCGATGGGCTGGGAGTG 61.083 66.667 0.00 0.00 0.00 3.51
668 1066 1.077429 GGGAGTGTCATTGCCCTCC 60.077 63.158 0.00 0.00 42.28 4.30
826 1224 1.078143 GGGCAGAGCGGTCATTTCT 60.078 57.895 18.15 0.00 0.00 2.52
866 1264 2.289444 GCCCACTACAGTGTGTGTACAT 60.289 50.000 18.37 0.00 44.21 2.29
907 1308 1.153706 CGGTTACTACAGCGGTGGG 60.154 63.158 20.20 13.36 33.97 4.61
908 1309 1.219935 GGTTACTACAGCGGTGGGG 59.780 63.158 20.20 13.00 0.00 4.96
909 1310 1.219935 GTTACTACAGCGGTGGGGG 59.780 63.158 20.20 10.50 0.00 5.40
952 1353 1.564348 TGGAAGGAAGCCATTACTCCC 59.436 52.381 0.00 0.00 0.00 4.30
987 1396 0.401395 AGTCTTCCTCCACACCCCAA 60.401 55.000 0.00 0.00 0.00 4.12
991 1400 3.979497 CCTCCACACCCCAACCCC 61.979 72.222 0.00 0.00 0.00 4.95
1039 1448 1.339610 CTATTGGCGGACAGAGAGAGG 59.660 57.143 0.00 0.00 0.00 3.69
1051 1462 1.002792 AGAGAGGGAGGCCAAGGAG 59.997 63.158 5.01 0.00 0.00 3.69
1395 1819 0.104620 TCCTCCCCCATAACCTAGCC 60.105 60.000 0.00 0.00 0.00 3.93
1448 2187 5.012239 TGGTTCTCTCTTGCATTATGCTTT 58.988 37.500 18.44 0.00 45.31 3.51
1451 2190 3.873361 TCTCTCTTGCATTATGCTTTCCG 59.127 43.478 18.44 3.65 45.31 4.30
1472 2211 1.592669 CTTGGATCTACGCCTGCCG 60.593 63.158 0.00 0.00 44.21 5.69
1482 2221 1.802636 CGCCTGCCGTGATTCATTT 59.197 52.632 0.00 0.00 0.00 2.32
1644 2431 7.807977 TTTAACTTCTCTCAGCTTCACAATT 57.192 32.000 0.00 0.00 0.00 2.32
1663 2450 0.389296 TTGATGCTGCATTGCACTGC 60.389 50.000 21.14 21.14 46.33 4.40
1694 2481 4.530094 TTCTTATTACAGAATTGCGGCG 57.470 40.909 0.51 0.51 0.00 6.46
1786 2577 7.763356 ACACTACTAAATCTGCTGTAGTACTG 58.237 38.462 5.39 2.16 42.23 2.74
1788 2579 5.012328 ACTAAATCTGCTGTAGTACTGCC 57.988 43.478 24.27 10.80 41.58 4.85
1789 2580 3.981071 AAATCTGCTGTAGTACTGCCA 57.019 42.857 24.27 14.18 41.58 4.92
1790 2581 3.533606 AATCTGCTGTAGTACTGCCAG 57.466 47.619 24.27 20.44 41.58 4.85
1821 2774 0.099968 CATGGTGCCGATTGAGCAAG 59.900 55.000 0.00 0.00 43.02 4.01
1824 2777 1.675641 GTGCCGATTGAGCAAGGGT 60.676 57.895 0.00 0.00 43.02 4.34
1831 2784 1.033746 ATTGAGCAAGGGTGATGGCG 61.034 55.000 0.00 0.00 0.00 5.69
1832 2785 2.045926 GAGCAAGGGTGATGGCGT 60.046 61.111 0.00 0.00 0.00 5.68
1958 3267 4.212143 TCAGATGCATGCAAAGTACTCT 57.788 40.909 26.68 18.54 0.00 3.24
2022 3889 3.249986 GCTTCAGCAATGGCCAAATAA 57.750 42.857 10.96 0.00 42.56 1.40
2023 3890 2.931969 GCTTCAGCAATGGCCAAATAAC 59.068 45.455 10.96 0.00 42.56 1.89
2049 3917 9.662947 CTATCAAGATGCATTATACATTCTCCA 57.337 33.333 0.00 0.00 0.00 3.86
2064 3932 1.351017 TCTCCATAAATCCGGATGCCC 59.649 52.381 19.95 0.00 0.00 5.36
2294 4191 5.069251 CCAAACTCCTATGGGTCACTACTAG 59.931 48.000 0.00 0.00 32.87 2.57
2331 4237 0.745845 CCATTGCAAGAGGAGGACCG 60.746 60.000 13.96 0.00 41.83 4.79
2489 4422 9.342308 TCAATCTGATACTAAAACAATCCATCC 57.658 33.333 0.00 0.00 0.00 3.51
2710 4890 9.823098 CAGTCATATTTTAGATATCTGCTTTGC 57.177 33.333 15.79 3.20 0.00 3.68
2754 4941 4.816385 AGATTTGTGTGGCCATAATAGTCG 59.184 41.667 9.72 0.00 0.00 4.18
2794 4981 9.683069 CAAAGTAAAAGTAGAATGCAGTCAATT 57.317 29.630 17.53 4.87 0.00 2.32
2822 5011 1.000060 GTTTGAGCTGCCAGAATGCAA 60.000 47.619 0.00 0.00 41.51 4.08
2948 5150 8.277197 TCCAGTATGATTGGAGATTCATTTTCT 58.723 33.333 0.00 0.00 39.74 2.52
2955 5157 6.519679 TTGGAGATTCATTTTCTGTGATGG 57.480 37.500 0.00 0.00 0.00 3.51
2977 5181 6.040247 TGGACATACAATCTGTAATGACGAC 58.960 40.000 0.00 0.00 36.31 4.34
3195 5460 3.509442 AGATCCTCTCTCCAATAGCCAG 58.491 50.000 0.00 0.00 0.00 4.85
3251 5528 5.578336 CGATGCCACTCGATATGATGTTATT 59.422 40.000 0.00 0.00 41.12 1.40
3269 5546 0.255890 TTGAGCTATGTTGGGCCTCC 59.744 55.000 4.53 0.00 0.00 4.30
3317 5599 2.814336 CCTTCCTTTCCTGTGTTAGCAC 59.186 50.000 2.25 2.25 45.44 4.40
3353 5643 3.112263 TGTAGTGACTTAATCCTGGGGG 58.888 50.000 0.00 0.00 0.00 5.40
3457 5766 2.945668 CCTGCAAGATGTACCTAAAGGC 59.054 50.000 0.00 0.00 35.06 4.35
3591 5904 5.151297 TCTGTTTATCTGATGCTGTGTGA 57.849 39.130 0.00 0.00 0.00 3.58
3592 5905 5.737860 TCTGTTTATCTGATGCTGTGTGAT 58.262 37.500 0.00 0.00 0.00 3.06
3594 5907 4.095334 TGTTTATCTGATGCTGTGTGATGC 59.905 41.667 0.00 0.00 0.00 3.91
3595 5908 2.711978 ATCTGATGCTGTGTGATGCT 57.288 45.000 0.00 0.00 0.00 3.79
3596 5909 1.734163 TCTGATGCTGTGTGATGCTG 58.266 50.000 0.00 0.00 0.00 4.41
3597 5910 1.002773 TCTGATGCTGTGTGATGCTGT 59.997 47.619 0.00 0.00 0.00 4.40
3599 5912 1.162698 GATGCTGTGTGATGCTGTGT 58.837 50.000 0.00 0.00 0.00 3.72
3600 5913 0.879090 ATGCTGTGTGATGCTGTGTG 59.121 50.000 0.00 0.00 0.00 3.82
3601 5914 0.179051 TGCTGTGTGATGCTGTGTGA 60.179 50.000 0.00 0.00 0.00 3.58
3602 5915 1.162698 GCTGTGTGATGCTGTGTGAT 58.837 50.000 0.00 0.00 0.00 3.06
3603 5916 1.135774 GCTGTGTGATGCTGTGTGATG 60.136 52.381 0.00 0.00 0.00 3.07
3606 5919 1.135774 GTGTGATGCTGTGTGATGCTG 60.136 52.381 0.00 0.00 0.00 4.41
3607 5920 1.162698 GTGATGCTGTGTGATGCTGT 58.837 50.000 0.00 0.00 0.00 4.40
3608 5921 1.135774 GTGATGCTGTGTGATGCTGTG 60.136 52.381 0.00 0.00 0.00 3.66
3609 5922 1.162698 GATGCTGTGTGATGCTGTGT 58.837 50.000 0.00 0.00 0.00 3.72
3611 5924 1.167781 TGCTGTGTGATGCTGTGTGG 61.168 55.000 0.00 0.00 0.00 4.17
3612 5925 1.168407 GCTGTGTGATGCTGTGTGGT 61.168 55.000 0.00 0.00 0.00 4.16
3613 5926 0.589708 CTGTGTGATGCTGTGTGGTG 59.410 55.000 0.00 0.00 0.00 4.17
3616 5929 1.167781 TGTGATGCTGTGTGGTGCAG 61.168 55.000 0.00 0.00 42.74 4.41
3617 5930 0.886043 GTGATGCTGTGTGGTGCAGA 60.886 55.000 0.00 0.00 42.74 4.26
3639 6001 8.988934 GCAGATAATACGATTACATCCTTTGAA 58.011 33.333 0.00 0.00 0.00 2.69
3658 6020 7.040409 CCTTTGAATAAGGCTAGAACTGTGTTT 60.040 37.037 0.00 0.00 0.00 2.83
3721 6084 6.399669 CGTGAACCGTTCAGACATAAAACTAG 60.400 42.308 14.35 0.00 41.01 2.57
3726 6089 6.435277 ACCGTTCAGACATAAAACTAGGACTA 59.565 38.462 0.00 0.00 0.00 2.59
3848 6212 4.401022 TCATCTGTTTGCTTCAAGGACAT 58.599 39.130 0.00 0.00 0.00 3.06
3849 6213 4.216902 TCATCTGTTTGCTTCAAGGACATG 59.783 41.667 0.00 0.00 0.00 3.21
3850 6214 2.886523 TCTGTTTGCTTCAAGGACATGG 59.113 45.455 0.00 0.00 0.00 3.66
3851 6215 2.886523 CTGTTTGCTTCAAGGACATGGA 59.113 45.455 0.00 0.00 0.00 3.41
3852 6216 3.499338 TGTTTGCTTCAAGGACATGGAT 58.501 40.909 0.00 0.00 0.00 3.41
3853 6217 4.661222 TGTTTGCTTCAAGGACATGGATA 58.339 39.130 0.00 0.00 0.00 2.59
3854 6218 5.263599 TGTTTGCTTCAAGGACATGGATAT 58.736 37.500 0.00 0.00 0.00 1.63
3855 6219 5.125900 TGTTTGCTTCAAGGACATGGATATG 59.874 40.000 0.00 0.00 40.24 1.78
3856 6220 4.776435 TGCTTCAAGGACATGGATATGA 57.224 40.909 0.00 0.00 37.73 2.15
3857 6221 4.711399 TGCTTCAAGGACATGGATATGAG 58.289 43.478 0.00 0.00 37.73 2.90
3858 6222 4.164796 TGCTTCAAGGACATGGATATGAGT 59.835 41.667 0.00 0.00 37.73 3.41
3859 6223 5.128919 GCTTCAAGGACATGGATATGAGTT 58.871 41.667 0.00 0.00 37.73 3.01
3860 6224 5.591877 GCTTCAAGGACATGGATATGAGTTT 59.408 40.000 0.00 0.00 37.73 2.66
3861 6225 6.459298 GCTTCAAGGACATGGATATGAGTTTG 60.459 42.308 0.00 0.00 37.73 2.93
3862 6226 4.883585 TCAAGGACATGGATATGAGTTTGC 59.116 41.667 0.00 0.00 37.73 3.68
3863 6227 3.825328 AGGACATGGATATGAGTTTGCC 58.175 45.455 0.00 0.00 37.73 4.52
3864 6228 2.887152 GGACATGGATATGAGTTTGCCC 59.113 50.000 0.00 0.00 37.73 5.36
3865 6229 3.435601 GGACATGGATATGAGTTTGCCCT 60.436 47.826 0.00 0.00 37.73 5.19
3866 6230 3.559069 ACATGGATATGAGTTTGCCCTG 58.441 45.455 0.00 0.00 37.73 4.45
3867 6231 2.057137 TGGATATGAGTTTGCCCTGC 57.943 50.000 0.00 0.00 0.00 4.85
3868 6232 1.284491 TGGATATGAGTTTGCCCTGCA 59.716 47.619 0.00 0.00 36.47 4.41
3869 6233 1.678101 GGATATGAGTTTGCCCTGCAC 59.322 52.381 0.00 0.00 38.71 4.57
3870 6234 1.678101 GATATGAGTTTGCCCTGCACC 59.322 52.381 0.00 0.00 38.71 5.01
3871 6235 0.698238 TATGAGTTTGCCCTGCACCT 59.302 50.000 0.00 0.00 38.71 4.00
3872 6236 0.896940 ATGAGTTTGCCCTGCACCTG 60.897 55.000 0.00 0.00 38.71 4.00
3873 6237 2.914097 AGTTTGCCCTGCACCTGC 60.914 61.111 0.00 0.00 38.71 4.85
3884 6248 2.256391 GCACCTGCAGCACATAACA 58.744 52.632 8.66 0.00 41.59 2.41
3885 6249 0.109597 GCACCTGCAGCACATAACAC 60.110 55.000 8.66 0.00 41.59 3.32
3886 6250 1.237533 CACCTGCAGCACATAACACA 58.762 50.000 8.66 0.00 0.00 3.72
3887 6251 1.814394 CACCTGCAGCACATAACACAT 59.186 47.619 8.66 0.00 0.00 3.21
3888 6252 3.009026 CACCTGCAGCACATAACACATA 58.991 45.455 8.66 0.00 0.00 2.29
3889 6253 3.439825 CACCTGCAGCACATAACACATAA 59.560 43.478 8.66 0.00 0.00 1.90
3890 6254 3.440173 ACCTGCAGCACATAACACATAAC 59.560 43.478 8.66 0.00 0.00 1.89
3891 6255 3.181497 CCTGCAGCACATAACACATAACC 60.181 47.826 8.66 0.00 0.00 2.85
3892 6256 2.418280 TGCAGCACATAACACATAACCG 59.582 45.455 0.00 0.00 0.00 4.44
3893 6257 2.791158 GCAGCACATAACACATAACCGC 60.791 50.000 0.00 0.00 0.00 5.68
3894 6258 2.418280 CAGCACATAACACATAACCGCA 59.582 45.455 0.00 0.00 0.00 5.69
3895 6259 3.065233 CAGCACATAACACATAACCGCAT 59.935 43.478 0.00 0.00 0.00 4.73
3896 6260 3.065233 AGCACATAACACATAACCGCATG 59.935 43.478 0.00 0.00 0.00 4.06
3897 6261 3.181501 GCACATAACACATAACCGCATGT 60.182 43.478 0.00 0.00 39.76 3.21
3933 6297 3.670377 GCGTGGGGTGCCTGTTTC 61.670 66.667 0.00 0.00 0.00 2.78
3934 6298 2.203280 CGTGGGGTGCCTGTTTCA 60.203 61.111 0.00 0.00 0.00 2.69
3935 6299 1.603455 CGTGGGGTGCCTGTTTCAT 60.603 57.895 0.00 0.00 0.00 2.57
3936 6300 1.178534 CGTGGGGTGCCTGTTTCATT 61.179 55.000 0.00 0.00 0.00 2.57
3937 6301 1.047801 GTGGGGTGCCTGTTTCATTT 58.952 50.000 0.00 0.00 0.00 2.32
3938 6302 1.000843 GTGGGGTGCCTGTTTCATTTC 59.999 52.381 0.00 0.00 0.00 2.17
3939 6303 1.337118 GGGGTGCCTGTTTCATTTCA 58.663 50.000 0.00 0.00 0.00 2.69
3940 6304 1.901833 GGGGTGCCTGTTTCATTTCAT 59.098 47.619 0.00 0.00 0.00 2.57
3941 6305 2.302733 GGGGTGCCTGTTTCATTTCATT 59.697 45.455 0.00 0.00 0.00 2.57
3942 6306 3.244526 GGGGTGCCTGTTTCATTTCATTT 60.245 43.478 0.00 0.00 0.00 2.32
3943 6307 4.388485 GGGTGCCTGTTTCATTTCATTTT 58.612 39.130 0.00 0.00 0.00 1.82
3944 6308 5.512232 GGGGTGCCTGTTTCATTTCATTTTA 60.512 40.000 0.00 0.00 0.00 1.52
3945 6309 5.994668 GGGTGCCTGTTTCATTTCATTTTAA 59.005 36.000 0.00 0.00 0.00 1.52
3946 6310 6.654582 GGGTGCCTGTTTCATTTCATTTTAAT 59.345 34.615 0.00 0.00 0.00 1.40
3947 6311 7.174772 GGGTGCCTGTTTCATTTCATTTTAATT 59.825 33.333 0.00 0.00 0.00 1.40
3948 6312 8.567104 GGTGCCTGTTTCATTTCATTTTAATTT 58.433 29.630 0.00 0.00 0.00 1.82
3949 6313 9.597999 GTGCCTGTTTCATTTCATTTTAATTTC 57.402 29.630 0.00 0.00 0.00 2.17
3950 6314 8.782144 TGCCTGTTTCATTTCATTTTAATTTCC 58.218 29.630 0.00 0.00 0.00 3.13
3951 6315 8.236586 GCCTGTTTCATTTCATTTTAATTTCCC 58.763 33.333 0.00 0.00 0.00 3.97
3954 6318 8.443979 TGTTTCATTTCATTTTAATTTCCCCCT 58.556 29.630 0.00 0.00 0.00 4.79
4117 6484 6.639671 TTTGACAATTTCTTTTGAACACGG 57.360 33.333 0.00 0.00 38.30 4.94
4118 6485 5.317733 TGACAATTTCTTTTGAACACGGT 57.682 34.783 0.00 0.00 38.30 4.83
4119 6486 6.438259 TGACAATTTCTTTTGAACACGGTA 57.562 33.333 0.00 0.00 38.30 4.02
4120 6487 6.259638 TGACAATTTCTTTTGAACACGGTAC 58.740 36.000 0.00 0.00 38.30 3.34
4123 6490 3.176552 TTCTTTTGAACACGGTACGGA 57.823 42.857 7.52 0.00 45.74 4.69
4139 6506 1.481240 CGGATGCAGACAGTCATACG 58.519 55.000 2.66 0.00 40.14 3.06
4143 6510 3.181490 GGATGCAGACAGTCATACGTACA 60.181 47.826 2.66 0.00 0.00 2.90
4159 6526 2.470821 GTACACACGCATACTCATCCC 58.529 52.381 0.00 0.00 0.00 3.85
4160 6527 1.195115 ACACACGCATACTCATCCCT 58.805 50.000 0.00 0.00 0.00 4.20
4166 6533 3.990469 CACGCATACTCATCCCTATGAAC 59.010 47.826 0.00 0.00 41.57 3.18
4174 6541 0.106708 ATCCCTATGAACGCACGCAT 59.893 50.000 0.00 0.00 0.00 4.73
4189 6556 1.342275 ACGCATGTACACCCTACCCTA 60.342 52.381 0.00 0.00 0.00 3.53
4194 6561 2.674420 TGTACACCCTACCCTATGAGC 58.326 52.381 0.00 0.00 0.00 4.26
4202 6569 0.978667 TACCCTATGAGCACCGCCAA 60.979 55.000 0.00 0.00 0.00 4.52
4203 6570 1.524621 CCCTATGAGCACCGCCAAG 60.525 63.158 0.00 0.00 0.00 3.61
4234 6601 2.715046 GGCATCACCTTGAGATTGACA 58.285 47.619 0.00 0.00 34.51 3.58
4246 6613 4.237724 TGAGATTGACAAAGTCGCTACAG 58.762 43.478 0.00 0.00 34.95 2.74
4249 6616 2.046283 TGACAAAGTCGCTACAGACG 57.954 50.000 0.00 0.00 45.26 4.18
4266 6633 3.528594 CGTCTTCATAGTCGACGGG 57.471 57.895 10.46 3.82 44.75 5.28
4288 6655 1.084370 CGTCTCCTCCCAATGAACGC 61.084 60.000 0.00 0.00 0.00 4.84
4294 6661 1.452110 CTCCCAATGAACGCACATCA 58.548 50.000 0.00 0.00 0.00 3.07
4295 6662 2.019249 CTCCCAATGAACGCACATCAT 58.981 47.619 0.00 0.00 39.15 2.45
4297 6664 1.744522 CCCAATGAACGCACATCATCA 59.255 47.619 0.00 0.00 36.53 3.07
4298 6665 2.359848 CCCAATGAACGCACATCATCAT 59.640 45.455 0.00 0.00 36.53 2.45
4344 6714 3.243336 CGAGCACCAGTGTTAAGTCTAC 58.757 50.000 0.00 0.00 0.00 2.59
4363 6734 0.535102 CGACTTGAACCTTGTGGGCT 60.535 55.000 0.00 0.00 39.10 5.19
4367 6738 0.754957 TTGAACCTTGTGGGCTGGTG 60.755 55.000 0.00 0.00 39.10 4.17
4378 6749 0.471617 GGGCTGGTGATATCACTGCT 59.528 55.000 32.12 0.00 45.73 4.24
4381 6752 2.547642 GGCTGGTGATATCACTGCTCTC 60.548 54.545 32.12 21.69 45.73 3.20
4387 6758 4.262249 GGTGATATCACTGCTCTCCTAACC 60.262 50.000 29.87 9.60 45.73 2.85
4394 6765 2.237392 ACTGCTCTCCTAACCATCCAAC 59.763 50.000 0.00 0.00 0.00 3.77
4397 6768 2.173569 GCTCTCCTAACCATCCAACCAT 59.826 50.000 0.00 0.00 0.00 3.55
4407 6778 5.982890 ACCATCCAACCATAGTTTCAAAG 57.017 39.130 0.00 0.00 32.45 2.77
4408 6779 5.393866 ACCATCCAACCATAGTTTCAAAGT 58.606 37.500 0.00 0.00 32.45 2.66
4411 6782 6.646240 CCATCCAACCATAGTTTCAAAGTTTG 59.354 38.462 9.44 9.44 32.45 2.93
4455 6827 9.424319 TGTTTGCTAACTAAAAATGTTCACAAA 57.576 25.926 12.20 0.00 35.24 2.83
4589 6963 4.932200 TCGCAAAACTGGAAAACAATTTGT 59.068 33.333 0.00 0.00 37.84 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 2.707849 TTGTCTAGTCGCGCCCTCC 61.708 63.158 0.00 0.00 0.00 4.30
62 63 6.153680 GCCACATTGCTACCTAGACTATCTAT 59.846 42.308 0.00 0.00 0.00 1.98
85 86 1.202698 AGCAATGTCCCTATTCGAGCC 60.203 52.381 0.00 0.00 0.00 4.70
96 97 8.998377 ACCACATTTTTAAAATAAGCAATGTCC 58.002 29.630 9.62 0.00 33.57 4.02
236 237 7.125391 TCTTCAAAAATGTAGGGGCAATCTAT 58.875 34.615 0.00 0.00 0.00 1.98
239 240 5.659440 TCTTCAAAAATGTAGGGGCAATC 57.341 39.130 0.00 0.00 0.00 2.67
269 270 4.983671 AAACGGCCTCCATATCTTTTTC 57.016 40.909 0.00 0.00 0.00 2.29
281 284 4.215613 ACAAAGTCTTCATAAAACGGCCTC 59.784 41.667 0.00 0.00 0.00 4.70
331 334 5.163550 GGATCGTCATCCGTCATATGGATAA 60.164 44.000 2.13 0.00 41.94 1.75
432 435 3.279116 GTCTTGCACACTGCCGCA 61.279 61.111 0.00 0.00 44.23 5.69
433 436 3.279116 TGTCTTGCACACTGCCGC 61.279 61.111 0.00 0.00 44.23 6.53
493 514 3.730362 CGCATTTGTGAGTGTTTGTGTCA 60.730 43.478 0.00 0.00 0.00 3.58
590 988 0.345502 TCTGTTAGGGCCATAGGGGT 59.654 55.000 6.18 0.00 39.65 4.95
605 1003 3.006940 TGTTTGAAGCTTTGACGTCTGT 58.993 40.909 17.92 0.00 0.00 3.41
642 1040 0.257039 AATGACACTCCCAGCCCATC 59.743 55.000 0.00 0.00 0.00 3.51
643 1041 0.033796 CAATGACACTCCCAGCCCAT 60.034 55.000 0.00 0.00 0.00 4.00
656 1054 2.019156 GCTGGTTAGGAGGGCAATGAC 61.019 57.143 0.00 0.00 0.00 3.06
668 1066 1.909700 ACATGTGGTTGGCTGGTTAG 58.090 50.000 0.00 0.00 0.00 2.34
817 1215 2.158943 CGGGTTAGGGAGAGAAATGACC 60.159 54.545 0.00 0.00 0.00 4.02
826 1224 1.035932 CGCTCTTCGGGTTAGGGAGA 61.036 60.000 0.00 0.00 33.78 3.71
886 1284 0.524862 CACCGCTGTAGTAACCGAGT 59.475 55.000 0.00 0.00 0.00 4.18
907 1308 2.936032 ACTCCACCTTGGCCTCCC 60.936 66.667 3.32 0.00 37.47 4.30
908 1309 1.492993 AAGACTCCACCTTGGCCTCC 61.493 60.000 3.32 0.00 37.47 4.30
909 1310 0.322008 CAAGACTCCACCTTGGCCTC 60.322 60.000 3.32 0.00 37.47 4.70
1039 1448 2.923852 ATCTCCCCTCCTTGGCCTCC 62.924 65.000 3.32 0.00 0.00 4.30
1379 1803 2.144738 GCGGCTAGGTTATGGGGGA 61.145 63.158 0.00 0.00 0.00 4.81
1382 1806 1.623811 ACATAGCGGCTAGGTTATGGG 59.376 52.381 20.48 3.10 35.97 4.00
1385 1809 5.813383 TCTACTACATAGCGGCTAGGTTAT 58.187 41.667 29.14 20.08 33.05 1.89
1395 1819 6.751514 ATGGAAGAGATCTACTACATAGCG 57.248 41.667 0.00 0.00 0.00 4.26
1448 2187 2.792947 GCGTAGATCCAAGGCCGGA 61.793 63.158 5.05 1.40 40.07 5.14
1451 2190 1.227674 CAGGCGTAGATCCAAGGCC 60.228 63.158 17.45 17.45 45.98 5.19
1482 2221 5.046950 GCATTCCCCATTTGGTTAACTAACA 60.047 40.000 3.59 0.00 37.92 2.41
1596 2362 1.172175 GAAGGGGAAAAGCAGAGCTG 58.828 55.000 0.00 0.00 39.62 4.24
1786 2577 5.464168 GCACCATGAATAAATGATACTGGC 58.536 41.667 0.00 0.00 0.00 4.85
1788 2579 5.469760 TCGGCACCATGAATAAATGATACTG 59.530 40.000 0.00 0.00 0.00 2.74
1789 2580 5.620206 TCGGCACCATGAATAAATGATACT 58.380 37.500 0.00 0.00 0.00 2.12
1790 2581 5.940192 TCGGCACCATGAATAAATGATAC 57.060 39.130 0.00 0.00 0.00 2.24
1821 2774 0.463654 TTAGCATCACGCCATCACCC 60.464 55.000 0.00 0.00 44.04 4.61
1824 2777 2.330440 ATGTTAGCATCACGCCATCA 57.670 45.000 0.00 0.00 44.04 3.07
1831 2784 2.165030 AGCAAGGCAATGTTAGCATCAC 59.835 45.455 0.00 0.00 33.50 3.06
1832 2785 2.449464 AGCAAGGCAATGTTAGCATCA 58.551 42.857 0.00 0.00 33.50 3.07
1958 3267 5.598005 AGGGTGAACAAAATGAAGAATGACA 59.402 36.000 0.00 0.00 0.00 3.58
2022 3889 9.664332 GGAGAATGTATAATGCATCTTGATAGT 57.336 33.333 0.00 0.00 0.00 2.12
2023 3890 9.662947 TGGAGAATGTATAATGCATCTTGATAG 57.337 33.333 0.00 0.00 0.00 2.08
2049 3917 0.889186 GCGTGGGCATCCGGATTTAT 60.889 55.000 16.19 0.00 39.62 1.40
2077 3955 4.822036 TGTCGGACCTGTAAAAATGTTG 57.178 40.909 5.55 0.00 0.00 3.33
2078 3956 4.277423 CCTTGTCGGACCTGTAAAAATGTT 59.723 41.667 5.55 0.00 33.16 2.71
2294 4191 6.478344 TGCAATGGTAAAGTCATTTGTTTGTC 59.522 34.615 0.00 0.00 33.08 3.18
2710 4890 2.306341 CAGTCATGCTGGACCTAGTG 57.694 55.000 8.70 0.00 41.42 2.74
2738 4918 5.029807 TCAAATCGACTATTATGGCCACA 57.970 39.130 8.16 0.00 0.00 4.17
2739 4919 5.934625 AGATCAAATCGACTATTATGGCCAC 59.065 40.000 8.16 0.00 0.00 5.01
2771 4958 8.507249 GTGAATTGACTGCATTCTACTTTTACT 58.493 33.333 5.59 0.00 0.00 2.24
2794 4981 0.953727 GGCAGCTCAAACACATGTGA 59.046 50.000 31.94 8.84 0.00 3.58
2822 5011 6.656693 ACTGCAACTGAGCAAATACTTAAGAT 59.343 34.615 10.09 0.00 45.13 2.40
2948 5150 7.495606 GTCATTACAGATTGTATGTCCATCACA 59.504 37.037 0.00 0.00 40.18 3.58
2955 5157 8.343366 TCTAGTCGTCATTACAGATTGTATGTC 58.657 37.037 0.00 0.00 32.20 3.06
3018 5222 8.825745 CCAAAATAAAAGCAAGCTCTAAACAAA 58.174 29.630 0.00 0.00 0.00 2.83
3195 5460 0.729690 GCAACTCAAGATCTTCGCCC 59.270 55.000 4.57 0.00 0.00 6.13
3251 5528 0.913934 TGGAGGCCCAACATAGCTCA 60.914 55.000 0.00 0.00 40.09 4.26
3269 5546 5.070446 TCACAGATTTACATACTAGGGGCTG 59.930 44.000 0.00 0.00 0.00 4.85
3317 5599 3.119884 TCACTACACATACAACGGTACCG 60.120 47.826 32.22 32.22 46.03 4.02
3318 5600 4.082571 AGTCACTACACATACAACGGTACC 60.083 45.833 0.16 0.16 30.94 3.34
3319 5601 5.051891 AGTCACTACACATACAACGGTAC 57.948 43.478 0.00 0.00 30.94 3.34
3320 5602 5.710513 AAGTCACTACACATACAACGGTA 57.289 39.130 0.00 0.00 0.00 4.02
3321 5603 4.595762 AAGTCACTACACATACAACGGT 57.404 40.909 0.00 0.00 0.00 4.83
3322 5604 6.255020 GGATTAAGTCACTACACATACAACGG 59.745 42.308 0.00 0.00 0.00 4.44
3353 5643 1.812571 ACAATGTCGCCATTCAGTTCC 59.187 47.619 0.00 0.00 39.28 3.62
3363 5653 1.128692 GACAACAGCTACAATGTCGCC 59.871 52.381 6.26 0.00 33.62 5.54
3365 5655 3.059884 AGTGACAACAGCTACAATGTCG 58.940 45.455 12.71 0.00 43.91 4.35
3369 5659 3.403038 GGTGAGTGACAACAGCTACAAT 58.597 45.455 0.00 0.00 36.04 2.71
3457 5766 4.160626 AGCTAAGGTTACTAGAAGGTGCAG 59.839 45.833 0.00 0.00 0.00 4.41
3591 5904 0.879090 CACACAGCATCACACAGCAT 59.121 50.000 0.00 0.00 0.00 3.79
3592 5905 1.167781 CCACACAGCATCACACAGCA 61.168 55.000 0.00 0.00 0.00 4.41
3594 5907 0.589708 CACCACACAGCATCACACAG 59.410 55.000 0.00 0.00 0.00 3.66
3595 5908 1.446516 GCACCACACAGCATCACACA 61.447 55.000 0.00 0.00 0.00 3.72
3596 5909 1.283793 GCACCACACAGCATCACAC 59.716 57.895 0.00 0.00 0.00 3.82
3597 5910 1.153005 TGCACCACACAGCATCACA 60.153 52.632 0.00 0.00 35.51 3.58
3599 5912 0.037160 ATCTGCACCACACAGCATCA 59.963 50.000 0.00 0.00 40.42 3.07
3600 5913 2.028420 TATCTGCACCACACAGCATC 57.972 50.000 0.00 0.00 40.42 3.91
3601 5914 2.495155 TTATCTGCACCACACAGCAT 57.505 45.000 0.00 0.00 40.42 3.79
3602 5915 2.495155 ATTATCTGCACCACACAGCA 57.505 45.000 0.00 0.00 39.25 4.41
3603 5916 2.285220 CGTATTATCTGCACCACACAGC 59.715 50.000 0.00 0.00 35.04 4.40
3606 5919 5.751509 TGTAATCGTATTATCTGCACCACAC 59.248 40.000 0.00 0.00 0.00 3.82
3607 5920 5.908341 TGTAATCGTATTATCTGCACCACA 58.092 37.500 0.00 0.00 0.00 4.17
3608 5921 6.090898 GGATGTAATCGTATTATCTGCACCAC 59.909 42.308 0.00 0.00 46.86 4.16
3609 5922 6.014584 AGGATGTAATCGTATTATCTGCACCA 60.015 38.462 0.00 0.00 46.86 4.17
3611 5924 7.891183 AAGGATGTAATCGTATTATCTGCAC 57.109 36.000 0.00 0.00 46.86 4.57
3612 5925 8.147704 TCAAAGGATGTAATCGTATTATCTGCA 58.852 33.333 0.00 0.00 46.86 4.41
3613 5926 8.534333 TCAAAGGATGTAATCGTATTATCTGC 57.466 34.615 0.00 0.00 46.86 4.26
3639 6001 8.957466 GGAAAATAAACACAGTTCTAGCCTTAT 58.043 33.333 0.00 0.00 0.00 1.73
3658 6020 6.869695 TGCTACGACTGTATCTTGGAAAATA 58.130 36.000 0.00 0.00 0.00 1.40
3721 6084 1.726853 GCCATGTGACAGTGTAGTCC 58.273 55.000 0.00 0.00 37.73 3.85
3726 6089 1.896220 AATTCGCCATGTGACAGTGT 58.104 45.000 0.00 0.00 0.00 3.55
3754 6117 1.463444 GTGGTAGCAGCTTAAACACGG 59.537 52.381 0.00 0.00 0.00 4.94
3848 6212 1.284491 TGCAGGGCAAACTCATATCCA 59.716 47.619 0.00 0.00 34.76 3.41
3849 6213 1.678101 GTGCAGGGCAAACTCATATCC 59.322 52.381 0.00 0.00 41.47 2.59
3850 6214 1.678101 GGTGCAGGGCAAACTCATATC 59.322 52.381 0.00 0.00 41.47 1.63
3851 6215 1.285962 AGGTGCAGGGCAAACTCATAT 59.714 47.619 0.00 0.00 41.47 1.78
3852 6216 0.698238 AGGTGCAGGGCAAACTCATA 59.302 50.000 0.00 0.00 41.47 2.15
3853 6217 0.896940 CAGGTGCAGGGCAAACTCAT 60.897 55.000 0.00 0.00 41.47 2.90
3854 6218 1.529010 CAGGTGCAGGGCAAACTCA 60.529 57.895 0.00 0.00 41.47 3.41
3855 6219 2.924105 GCAGGTGCAGGGCAAACTC 61.924 63.158 0.00 0.00 41.47 3.01
3856 6220 2.914097 GCAGGTGCAGGGCAAACT 60.914 61.111 0.00 0.00 41.47 2.66
3866 6230 0.109597 GTGTTATGTGCTGCAGGTGC 60.110 55.000 17.12 2.02 42.50 5.01
3867 6231 1.237533 TGTGTTATGTGCTGCAGGTG 58.762 50.000 17.12 0.00 0.00 4.00
3868 6232 2.205022 ATGTGTTATGTGCTGCAGGT 57.795 45.000 17.12 0.00 0.00 4.00
3869 6233 3.181497 GGTTATGTGTTATGTGCTGCAGG 60.181 47.826 17.12 0.00 0.00 4.85
3870 6234 3.485711 CGGTTATGTGTTATGTGCTGCAG 60.486 47.826 10.11 10.11 0.00 4.41
3871 6235 2.418280 CGGTTATGTGTTATGTGCTGCA 59.582 45.455 0.00 0.00 0.00 4.41
3872 6236 2.791158 GCGGTTATGTGTTATGTGCTGC 60.791 50.000 0.00 0.00 0.00 5.25
3873 6237 2.418280 TGCGGTTATGTGTTATGTGCTG 59.582 45.455 0.00 0.00 0.00 4.41
3874 6238 2.705730 TGCGGTTATGTGTTATGTGCT 58.294 42.857 0.00 0.00 0.00 4.40
3875 6239 3.181501 ACATGCGGTTATGTGTTATGTGC 60.182 43.478 0.00 0.00 39.68 4.57
3876 6240 4.614555 ACATGCGGTTATGTGTTATGTG 57.385 40.909 0.00 0.00 39.68 3.21
3884 6248 1.752694 GCCCCACATGCGGTTATGT 60.753 57.895 0.00 0.00 41.77 2.29
3885 6249 3.119193 GCCCCACATGCGGTTATG 58.881 61.111 0.00 0.00 0.00 1.90
3916 6280 3.670377 GAAACAGGCACCCCACGC 61.670 66.667 0.00 0.00 0.00 5.34
3917 6281 1.178534 AATGAAACAGGCACCCCACG 61.179 55.000 0.00 0.00 0.00 4.94
3918 6282 1.000843 GAAATGAAACAGGCACCCCAC 59.999 52.381 0.00 0.00 0.00 4.61
3919 6283 1.337118 GAAATGAAACAGGCACCCCA 58.663 50.000 0.00 0.00 0.00 4.96
3920 6284 1.337118 TGAAATGAAACAGGCACCCC 58.663 50.000 0.00 0.00 0.00 4.95
3921 6285 3.683365 AATGAAATGAAACAGGCACCC 57.317 42.857 0.00 0.00 0.00 4.61
3922 6286 7.671495 ATTAAAATGAAATGAAACAGGCACC 57.329 32.000 0.00 0.00 0.00 5.01
3923 6287 9.597999 GAAATTAAAATGAAATGAAACAGGCAC 57.402 29.630 0.00 0.00 0.00 5.01
3924 6288 8.782144 GGAAATTAAAATGAAATGAAACAGGCA 58.218 29.630 0.00 0.00 0.00 4.75
3925 6289 8.236586 GGGAAATTAAAATGAAATGAAACAGGC 58.763 33.333 0.00 0.00 0.00 4.85
3926 6290 8.729756 GGGGAAATTAAAATGAAATGAAACAGG 58.270 33.333 0.00 0.00 0.00 4.00
3927 6291 8.729756 GGGGGAAATTAAAATGAAATGAAACAG 58.270 33.333 0.00 0.00 0.00 3.16
3928 6292 8.443979 AGGGGGAAATTAAAATGAAATGAAACA 58.556 29.630 0.00 0.00 0.00 2.83
3929 6293 8.862325 AGGGGGAAATTAAAATGAAATGAAAC 57.138 30.769 0.00 0.00 0.00 2.78
3930 6294 9.874195 AAAGGGGGAAATTAAAATGAAATGAAA 57.126 25.926 0.00 0.00 0.00 2.69
3931 6295 9.874195 AAAAGGGGGAAATTAAAATGAAATGAA 57.126 25.926 0.00 0.00 0.00 2.57
3932 6296 9.874195 AAAAAGGGGGAAATTAAAATGAAATGA 57.126 25.926 0.00 0.00 0.00 2.57
4004 6371 8.610896 TCACAAACAATTTTTGAATTCATGGAC 58.389 29.630 9.40 0.00 33.83 4.02
4099 6466 4.673311 CCGTACCGTGTTCAAAAGAAATTG 59.327 41.667 0.00 0.00 0.00 2.32
4102 6469 3.529533 TCCGTACCGTGTTCAAAAGAAA 58.470 40.909 0.00 0.00 0.00 2.52
4103 6470 3.176552 TCCGTACCGTGTTCAAAAGAA 57.823 42.857 0.00 0.00 0.00 2.52
4104 6471 2.886862 TCCGTACCGTGTTCAAAAGA 57.113 45.000 0.00 0.00 0.00 2.52
4105 6472 2.412325 GCATCCGTACCGTGTTCAAAAG 60.412 50.000 0.00 0.00 0.00 2.27
4108 6475 0.033642 TGCATCCGTACCGTGTTCAA 59.966 50.000 0.00 0.00 0.00 2.69
4110 6477 0.108992 TCTGCATCCGTACCGTGTTC 60.109 55.000 0.00 0.00 0.00 3.18
4111 6478 0.389426 GTCTGCATCCGTACCGTGTT 60.389 55.000 0.00 0.00 0.00 3.32
4115 6482 0.525668 GACTGTCTGCATCCGTACCG 60.526 60.000 0.00 0.00 0.00 4.02
4117 6484 2.586258 ATGACTGTCTGCATCCGTAC 57.414 50.000 9.51 0.00 0.00 3.67
4118 6485 2.032924 CGTATGACTGTCTGCATCCGTA 59.967 50.000 9.51 0.00 0.00 4.02
4119 6486 1.202302 CGTATGACTGTCTGCATCCGT 60.202 52.381 9.51 0.00 0.00 4.69
4120 6487 1.202302 ACGTATGACTGTCTGCATCCG 60.202 52.381 9.51 0.76 31.37 4.18
4123 6490 3.192633 TGTGTACGTATGACTGTCTGCAT 59.807 43.478 9.51 0.00 0.00 3.96
4127 6494 3.466712 CGTGTGTACGTATGACTGTCT 57.533 47.619 9.51 0.00 44.99 3.41
4139 6506 2.100916 AGGGATGAGTATGCGTGTGTAC 59.899 50.000 0.00 0.00 0.00 2.90
4143 6510 3.230976 TCATAGGGATGAGTATGCGTGT 58.769 45.455 0.00 0.00 37.15 4.49
4148 6515 3.990469 GTGCGTTCATAGGGATGAGTATG 59.010 47.826 0.00 0.00 43.03 2.39
4150 6517 2.034179 CGTGCGTTCATAGGGATGAGTA 59.966 50.000 0.00 0.00 43.03 2.59
4156 6523 0.809636 CATGCGTGCGTTCATAGGGA 60.810 55.000 0.00 0.00 0.00 4.20
4159 6526 1.923864 TGTACATGCGTGCGTTCATAG 59.076 47.619 5.64 0.00 0.00 2.23
4160 6527 1.656594 GTGTACATGCGTGCGTTCATA 59.343 47.619 5.64 0.00 0.00 2.15
4166 6533 1.153726 TAGGGTGTACATGCGTGCG 60.154 57.895 5.64 0.00 0.00 5.34
4174 6541 2.023791 TGCTCATAGGGTAGGGTGTACA 60.024 50.000 0.00 0.00 0.00 2.90
4189 6556 1.078848 GTCTCTTGGCGGTGCTCAT 60.079 57.895 0.00 0.00 0.00 2.90
4194 6561 1.739562 GCTCAGTCTCTTGGCGGTG 60.740 63.158 0.00 0.00 0.00 4.94
4202 6569 1.683707 TGATGCCGGCTCAGTCTCT 60.684 57.895 29.70 1.41 0.00 3.10
4203 6570 1.520342 GTGATGCCGGCTCAGTCTC 60.520 63.158 29.70 16.20 0.00 3.36
4234 6601 2.292569 TGAAGACGTCTGTAGCGACTTT 59.707 45.455 20.85 0.00 42.23 2.66
4249 6616 2.790468 CGTTCCCGTCGACTATGAAGAC 60.790 54.545 14.70 2.91 0.00 3.01
4266 6633 2.347731 GTTCATTGGGAGGAGACGTTC 58.652 52.381 0.00 0.00 0.00 3.95
4281 6648 3.251729 GCCTTATGATGATGTGCGTTCAT 59.748 43.478 0.00 0.00 36.54 2.57
4288 6655 7.514784 TTATTTCAGGCCTTATGATGATGTG 57.485 36.000 0.00 0.00 0.00 3.21
4323 6693 2.440539 AGACTTAACACTGGTGCTCG 57.559 50.000 0.17 0.00 0.00 5.03
4344 6714 0.535102 AGCCCACAAGGTTCAAGTCG 60.535 55.000 0.00 0.00 38.26 4.18
4350 6720 0.251341 ATCACCAGCCCACAAGGTTC 60.251 55.000 0.00 0.00 38.26 3.62
4367 6738 5.337169 GGATGGTTAGGAGAGCAGTGATATC 60.337 48.000 0.00 0.00 0.00 1.63
4378 6749 4.631234 ACTATGGTTGGATGGTTAGGAGA 58.369 43.478 0.00 0.00 0.00 3.71
4381 6752 5.505780 TGAAACTATGGTTGGATGGTTAGG 58.494 41.667 0.00 0.00 35.63 2.69
4387 6758 7.209475 ACAAACTTTGAAACTATGGTTGGATG 58.791 34.615 8.55 0.00 35.63 3.51
4394 6765 8.870160 TCATGAAACAAACTTTGAAACTATGG 57.130 30.769 8.55 0.00 0.00 2.74
4567 6941 5.020758 CACAAATTGTTTTCCAGTTTTGCG 58.979 37.500 0.00 0.00 34.13 4.85
4569 6943 9.623350 AAATTCACAAATTGTTTTCCAGTTTTG 57.377 25.926 0.00 0.00 35.27 2.44


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

AutoCloner maintained by Alex Coulton.