Multiple sequence alignment - TraesCS5D01G397000

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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 TraesCS5D01G397000 chr5D 100.000 5181 0 0 1 5181 464086072 464091252 0.000000e+00 9568.0
1 TraesCS5D01G397000 chr5B 93.032 4320 208 53 150 4431 571181997 571186261 0.000000e+00 6224.0
2 TraesCS5D01G397000 chr5B 89.216 714 42 9 4477 5181 571186262 571186949 0.000000e+00 859.0
3 TraesCS5D01G397000 chr5B 88.940 434 47 1 2877 3310 447877717 447877285 7.640000e-148 534.0
4 TraesCS5D01G397000 chr5A 93.398 4196 167 44 395 4554 584513161 584517282 0.000000e+00 6113.0
5 TraesCS5D01G397000 chr5A 87.986 591 35 15 4573 5157 584517425 584517985 0.000000e+00 665.0
6 TraesCS5D01G397000 chr1B 92.382 932 46 11 861 1784 665427125 665426211 0.000000e+00 1304.0
7 TraesCS5D01G397000 chr1B 88.939 443 45 3 2877 3316 328504086 328504527 1.270000e-150 544.0
8 TraesCS5D01G397000 chr4A 91.970 934 48 13 861 1784 672618395 672617479 0.000000e+00 1284.0
9 TraesCS5D01G397000 chr4A 91.542 934 51 14 861 1784 672580154 672579239 0.000000e+00 1262.0
10 TraesCS5D01G397000 chr4A 88.056 360 30 9 2488 2843 711818610 711818260 1.040000e-111 414.0
11 TraesCS5D01G397000 chr4A 88.056 360 30 9 2488 2843 711866695 711866345 1.040000e-111 414.0
12 TraesCS5D01G397000 chr4B 90.553 434 41 0 2877 3310 524141747 524142180 4.500000e-160 575.0
13 TraesCS5D01G397000 chr4B 89.862 434 43 1 2877 3310 524140784 524141216 1.630000e-154 556.0
14 TraesCS5D01G397000 chr4B 90.508 295 24 4 2551 2843 524140492 524140784 2.260000e-103 387.0
15 TraesCS5D01G397000 chr4B 86.630 359 32 10 2489 2843 524141401 524141747 2.930000e-102 383.0
16 TraesCS5D01G397000 chr2B 90.023 431 39 3 2877 3307 651652057 651652483 5.860000e-154 555.0
17 TraesCS5D01G397000 chr2B 89.171 434 47 0 2877 3310 651651091 651651524 4.560000e-150 542.0
18 TraesCS5D01G397000 chr2B 87.778 360 30 10 2488 2843 651651708 651652057 4.830000e-110 409.0
19 TraesCS5D01G397000 chr2B 90.268 298 29 0 3013 3310 359279590 359279293 1.750000e-104 390.0
20 TraesCS5D01G397000 chr2B 90.169 295 25 4 2551 2843 651650799 651651091 1.050000e-101 381.0
21 TraesCS5D01G397000 chr3B 90.594 404 25 7 861 1256 787282941 787283339 1.650000e-144 523.0
22 TraesCS5D01G397000 chr1A 87.133 443 55 1 2876 3316 590530161 590530603 7.750000e-138 501.0
23 TraesCS5D01G397000 chr1A 90.909 44 4 0 436 479 368745517 368745560 5.600000e-05 60.2
24 TraesCS5D01G397000 chr6B 87.744 359 31 9 2488 2843 187094147 187094495 1.740000e-109 407.0
25 TraesCS5D01G397000 chr2A 85.256 156 17 3 288 437 355459071 355459226 6.950000e-34 156.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G397000 chr5D 464086072 464091252 5180 False 9568.00 9568 100.00000 1 5181 1 chr5D.!!$F1 5180
1 TraesCS5D01G397000 chr5B 571181997 571186949 4952 False 3541.50 6224 91.12400 150 5181 2 chr5B.!!$F1 5031
2 TraesCS5D01G397000 chr5A 584513161 584517985 4824 False 3389.00 6113 90.69200 395 5157 2 chr5A.!!$F1 4762
3 TraesCS5D01G397000 chr1B 665426211 665427125 914 True 1304.00 1304 92.38200 861 1784 1 chr1B.!!$R1 923
4 TraesCS5D01G397000 chr4A 672617479 672618395 916 True 1284.00 1284 91.97000 861 1784 1 chr4A.!!$R2 923
5 TraesCS5D01G397000 chr4A 672579239 672580154 915 True 1262.00 1262 91.54200 861 1784 1 chr4A.!!$R1 923
6 TraesCS5D01G397000 chr4B 524140492 524142180 1688 False 475.25 575 89.38825 2489 3310 4 chr4B.!!$F1 821
7 TraesCS5D01G397000 chr2B 651650799 651652483 1684 False 471.75 555 89.28525 2488 3310 4 chr2B.!!$F1 822

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
47 48 0.535797 GGTTAGGTTCTGTCCCTCCG 59.464 60.000 0.00 0.0 33.35 4.63 F
54 55 0.832135 TTCTGTCCCTCCGAGTGCTT 60.832 55.000 0.00 0.0 0.00 3.91 F
56 57 0.895530 CTGTCCCTCCGAGTGCTTTA 59.104 55.000 0.00 0.0 0.00 1.85 F
58 59 1.207089 TGTCCCTCCGAGTGCTTTATG 59.793 52.381 0.00 0.0 0.00 1.90 F
614 623 1.446907 CAAGATGCCTGTGGTGTCTC 58.553 55.000 0.00 0.0 0.00 3.36 F
1497 1532 1.471676 CCTATCACCCTGCACGAGTTC 60.472 57.143 0.00 0.0 0.00 3.01 F
2711 2753 0.622665 AGCCAAGCCTCTTGTAGCAT 59.377 50.000 5.92 0.0 0.00 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1365 1397 0.602106 CCGCTGCATCCAGATCGATT 60.602 55.000 0.00 0.00 41.77 3.34 R
1497 1532 0.689623 AGCCTGAACCAAGAGGAGTG 59.310 55.000 0.00 0.00 38.69 3.51 R
1915 1957 2.326428 GGATCCTTCGAGGGGTCAATA 58.674 52.381 26.35 0.78 38.20 1.90 R
2131 2173 6.013379 TGTACTCAGATCTCCCTTATCATCC 58.987 44.000 0.00 0.00 0.00 3.51 R
2542 2584 1.200519 TACCAGGTGATACACAGGGC 58.799 55.000 0.76 0.00 36.07 5.19 R
2821 2866 0.475906 ATCCCAAGCCCAGCTATCAC 59.524 55.000 0.00 0.00 38.25 3.06 R
4187 4254 0.179134 CCGAGCCTTGTAGACCGAAG 60.179 60.000 0.00 0.00 0.00 3.79 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
21 22 4.993705 AAGAATTGAGGGTAGAACCACA 57.006 40.909 0.00 0.00 41.02 4.17
22 23 4.287766 AGAATTGAGGGTAGAACCACAC 57.712 45.455 0.00 0.00 41.02 3.82
23 24 3.650942 AGAATTGAGGGTAGAACCACACA 59.349 43.478 0.00 0.00 41.02 3.72
24 25 4.104102 AGAATTGAGGGTAGAACCACACAA 59.896 41.667 0.00 2.14 41.02 3.33
25 26 2.922740 TGAGGGTAGAACCACACAAC 57.077 50.000 0.00 0.00 41.02 3.32
26 27 1.418637 TGAGGGTAGAACCACACAACC 59.581 52.381 0.00 0.00 41.02 3.77
28 29 1.420138 AGGGTAGAACCACACAACCTG 59.580 52.381 0.00 0.00 41.02 4.00
29 30 1.544759 GGGTAGAACCACACAACCTGG 60.545 57.143 0.00 0.00 41.02 4.45
30 31 1.142262 GGTAGAACCACACAACCTGGT 59.858 52.381 0.00 0.00 44.39 4.00
44 45 1.657804 CCTGGTTAGGTTCTGTCCCT 58.342 55.000 0.00 0.00 39.39 4.20
45 46 1.555533 CCTGGTTAGGTTCTGTCCCTC 59.444 57.143 0.00 0.00 39.39 4.30
46 47 1.555533 CTGGTTAGGTTCTGTCCCTCC 59.444 57.143 0.00 0.00 33.35 4.30
47 48 0.535797 GGTTAGGTTCTGTCCCTCCG 59.464 60.000 0.00 0.00 33.35 4.63
49 50 1.477295 GTTAGGTTCTGTCCCTCCGAG 59.523 57.143 0.00 0.00 33.35 4.63
53 54 1.228894 TTCTGTCCCTCCGAGTGCT 60.229 57.895 0.00 0.00 0.00 4.40
54 55 0.832135 TTCTGTCCCTCCGAGTGCTT 60.832 55.000 0.00 0.00 0.00 3.91
56 57 0.895530 CTGTCCCTCCGAGTGCTTTA 59.104 55.000 0.00 0.00 0.00 1.85
57 58 1.482593 CTGTCCCTCCGAGTGCTTTAT 59.517 52.381 0.00 0.00 0.00 1.40
58 59 1.207089 TGTCCCTCCGAGTGCTTTATG 59.793 52.381 0.00 0.00 0.00 1.90
59 60 1.480954 GTCCCTCCGAGTGCTTTATGA 59.519 52.381 0.00 0.00 0.00 2.15
62 63 2.939103 CCCTCCGAGTGCTTTATGAAAG 59.061 50.000 0.00 0.00 41.46 2.62
64 65 4.003648 CCTCCGAGTGCTTTATGAAAGTT 58.996 43.478 1.25 0.00 40.64 2.66
65 66 4.455877 CCTCCGAGTGCTTTATGAAAGTTT 59.544 41.667 1.25 0.00 40.64 2.66
68 69 6.460781 TCCGAGTGCTTTATGAAAGTTTCTA 58.539 36.000 16.33 4.00 40.64 2.10
69 70 6.932400 TCCGAGTGCTTTATGAAAGTTTCTAA 59.068 34.615 16.33 9.51 40.64 2.10
71 72 6.732392 CGAGTGCTTTATGAAAGTTTCTAACG 59.268 38.462 16.33 10.54 40.64 3.18
72 73 7.492352 AGTGCTTTATGAAAGTTTCTAACGT 57.508 32.000 16.33 0.00 40.64 3.99
73 74 7.927048 AGTGCTTTATGAAAGTTTCTAACGTT 58.073 30.769 16.33 5.88 40.64 3.99
75 76 8.469125 GTGCTTTATGAAAGTTTCTAACGTTTG 58.531 33.333 16.33 4.35 40.64 2.93
76 77 8.185505 TGCTTTATGAAAGTTTCTAACGTTTGT 58.814 29.630 16.33 0.00 40.64 2.83
77 78 8.469125 GCTTTATGAAAGTTTCTAACGTTTGTG 58.531 33.333 16.33 0.00 40.64 3.33
78 79 9.710979 CTTTATGAAAGTTTCTAACGTTTGTGA 57.289 29.630 16.33 0.00 33.26 3.58
79 80 9.710979 TTTATGAAAGTTTCTAACGTTTGTGAG 57.289 29.630 16.33 0.00 33.26 3.51
80 81 6.114221 TGAAAGTTTCTAACGTTTGTGAGG 57.886 37.500 16.33 0.00 33.26 3.86
82 83 5.729974 AAGTTTCTAACGTTTGTGAGGAC 57.270 39.130 5.91 6.21 36.23 3.85
83 84 4.761975 AGTTTCTAACGTTTGTGAGGACA 58.238 39.130 5.91 0.00 36.23 4.02
84 85 5.365619 AGTTTCTAACGTTTGTGAGGACAT 58.634 37.500 5.91 0.00 36.23 3.06
85 86 5.820947 AGTTTCTAACGTTTGTGAGGACATT 59.179 36.000 5.91 0.00 36.23 2.71
87 88 7.660208 AGTTTCTAACGTTTGTGAGGACATTAT 59.340 33.333 5.91 0.00 36.23 1.28
90 91 7.327975 TCTAACGTTTGTGAGGACATTATCAT 58.672 34.615 5.91 0.00 30.13 2.45
92 93 6.182039 ACGTTTGTGAGGACATTATCATTG 57.818 37.500 0.00 0.00 30.13 2.82
93 94 5.937540 ACGTTTGTGAGGACATTATCATTGA 59.062 36.000 0.00 0.00 30.13 2.57
94 95 6.092670 ACGTTTGTGAGGACATTATCATTGAG 59.907 38.462 0.00 0.00 30.13 3.02
95 96 6.092670 CGTTTGTGAGGACATTATCATTGAGT 59.907 38.462 0.00 0.00 30.13 3.41
96 97 7.277760 CGTTTGTGAGGACATTATCATTGAGTA 59.722 37.037 0.00 0.00 30.13 2.59
100 101 9.764363 TGTGAGGACATTATCATTGAGTATTAC 57.236 33.333 0.00 0.00 0.00 1.89
101 102 9.988815 GTGAGGACATTATCATTGAGTATTACT 57.011 33.333 0.00 0.00 0.00 2.24
122 123 9.747898 ATTACTCATACAATTCTTTACCCACAA 57.252 29.630 0.00 0.00 0.00 3.33
123 124 9.575868 TTACTCATACAATTCTTTACCCACAAA 57.424 29.630 0.00 0.00 0.00 2.83
125 126 9.088987 ACTCATACAATTCTTTACCCACAAAAT 57.911 29.630 0.00 0.00 0.00 1.82
126 127 9.357652 CTCATACAATTCTTTACCCACAAAATG 57.642 33.333 0.00 0.00 0.00 2.32
131 132 9.454859 ACAATTCTTTACCCACAAAATGAAAAA 57.545 25.926 0.00 0.00 0.00 1.94
183 184 5.278169 GGACTTTAGCCTCATGCATACAATG 60.278 44.000 0.00 0.00 44.83 2.82
266 268 2.222976 GCATGAGAGTGAACTTGCGATG 60.223 50.000 0.00 0.00 0.00 3.84
282 284 7.041721 ACTTGCGATGTGTATCTATCTTTTCA 58.958 34.615 0.00 0.00 0.00 2.69
284 286 5.463392 TGCGATGTGTATCTATCTTTTCAGC 59.537 40.000 0.00 0.00 0.00 4.26
285 287 5.107298 GCGATGTGTATCTATCTTTTCAGCC 60.107 44.000 0.00 0.00 0.00 4.85
293 295 5.682234 TCTATCTTTTCAGCCAGATCACA 57.318 39.130 0.00 0.00 31.89 3.58
301 303 3.805207 TCAGCCAGATCACATCATCTTG 58.195 45.455 0.00 0.00 30.07 3.02
319 321 9.650539 ATCATCTTGATCACGGAATCTTATTAG 57.349 33.333 0.00 0.00 29.59 1.73
341 343 8.948631 TTAGTGAATGAGAAACTATGATGACC 57.051 34.615 0.00 0.00 0.00 4.02
342 344 7.192852 AGTGAATGAGAAACTATGATGACCT 57.807 36.000 0.00 0.00 0.00 3.85
343 345 7.046652 AGTGAATGAGAAACTATGATGACCTG 58.953 38.462 0.00 0.00 0.00 4.00
351 353 8.177119 AGAAACTATGATGACCTGTAGATCTC 57.823 38.462 0.00 0.00 0.00 2.75
379 386 4.802051 TGAGCGGGGCCAGAATGC 62.802 66.667 8.22 1.54 31.97 3.56
424 431 6.850234 AGTATCGTATCCTCTTTTCCTAGGA 58.150 40.000 7.62 7.62 45.76 2.94
440 447 7.595819 TTCCTAGGAAGAAAGCAAAAATCAA 57.404 32.000 20.72 0.00 0.00 2.57
468 475 2.494073 GTGAAGGTTCGATCTCTCACCT 59.506 50.000 13.23 7.55 41.71 4.00
483 490 3.758554 TCTCACCTAAAGCAATTGAAGGC 59.241 43.478 10.34 0.00 0.00 4.35
493 500 2.027385 CAATTGAAGGCTTAGGAGGGC 58.973 52.381 0.00 0.00 0.00 5.19
550 559 6.588756 AGATCACATTCAAATTTGACACATGC 59.411 34.615 20.35 8.84 36.83 4.06
575 584 8.443937 GCGTATCTCATAAAGGTGAAATATTCC 58.556 37.037 0.00 0.00 0.00 3.01
614 623 1.446907 CAAGATGCCTGTGGTGTCTC 58.553 55.000 0.00 0.00 0.00 3.36
621 630 1.763968 CCTGTGGTGTCTCTATCGGA 58.236 55.000 0.00 0.00 0.00 4.55
622 631 1.678627 CCTGTGGTGTCTCTATCGGAG 59.321 57.143 0.00 0.00 43.12 4.63
623 632 1.678627 CTGTGGTGTCTCTATCGGAGG 59.321 57.143 0.00 0.00 42.10 4.30
648 657 7.764443 GGTACTATTTATCAGCTCAGTTTCACA 59.236 37.037 0.00 0.00 0.00 3.58
651 660 9.236006 ACTATTTATCAGCTCAGTTTCACAAAT 57.764 29.630 0.00 0.00 0.00 2.32
658 667 4.757149 AGCTCAGTTTCACAAATGTACTCC 59.243 41.667 0.00 0.00 0.00 3.85
675 684 6.398095 TGTACTCCATGTATGTGTTTCTCAG 58.602 40.000 0.00 0.00 33.23 3.35
1330 1361 2.037902 TGTTGAATCACTCCGTTGCCTA 59.962 45.455 0.00 0.00 0.00 3.93
1343 1374 2.329379 GTTGCCTATAGGATTCGCGAG 58.671 52.381 23.61 0.00 37.39 5.03
1352 1383 3.584406 AGGATTCGCGAGGAAGATATG 57.416 47.619 9.59 0.00 38.24 1.78
1446 1478 4.612259 GCATATGCAGAAATGCTAAGTCCG 60.612 45.833 22.84 0.00 44.08 4.79
1497 1532 1.471676 CCTATCACCCTGCACGAGTTC 60.472 57.143 0.00 0.00 0.00 3.01
1867 1909 2.262915 CTCCACCGCGAGCTTTCT 59.737 61.111 8.23 0.00 0.00 2.52
1915 1957 5.069119 TGAGAATATATTGCTCGTGTCCACT 59.931 40.000 1.78 0.00 0.00 4.00
2022 2064 2.932614 CTGCTGCACCATCAGTAAGTAC 59.067 50.000 0.00 0.00 36.49 2.73
2131 2173 2.606108 TCTGTTGACACGGATGAATCG 58.394 47.619 0.00 0.00 32.93 3.34
2387 2429 4.400884 CCAAGTACTCTACATCTGCTGACT 59.599 45.833 0.00 0.00 0.00 3.41
2542 2584 9.859427 ACATACTTTCAACATTATGGATTTGTG 57.141 29.630 0.00 0.00 0.00 3.33
2549 2591 3.448301 ACATTATGGATTTGTGCCCTGTG 59.552 43.478 0.00 0.00 0.00 3.66
2711 2753 0.622665 AGCCAAGCCTCTTGTAGCAT 59.377 50.000 5.92 0.00 0.00 3.79
2721 2763 4.919754 GCCTCTTGTAGCATGTTCTTTTTG 59.080 41.667 0.00 0.00 0.00 2.44
2722 2764 4.919754 CCTCTTGTAGCATGTTCTTTTTGC 59.080 41.667 0.00 0.00 36.63 3.68
2815 2859 9.442033 GTTTTAGTTAAGTGTAACATCACCAAC 57.558 33.333 0.00 0.00 41.88 3.77
2821 2866 6.877611 AAGTGTAACATCACCAACCTTTAG 57.122 37.500 0.00 0.00 41.43 1.85
2839 2884 0.621571 AGTGATAGCTGGGCTTGGGA 60.622 55.000 0.00 0.00 40.44 4.37
2848 2893 2.743553 CTGGGCTTGGGATTGAAAGAT 58.256 47.619 0.00 0.00 0.00 2.40
2876 2921 2.154462 CAGTTTGGTTGCTACTGGGAG 58.846 52.381 0.00 0.00 36.50 4.30
2880 2930 1.741770 GGTTGCTACTGGGAGTGCG 60.742 63.158 0.00 0.00 0.00 5.34
2968 3020 1.747355 CCCAGCTGCACTTTATGGAAG 59.253 52.381 8.66 0.00 41.32 3.46
3030 3095 3.019564 GCCATCTGGTTATGAAGCTGTT 58.980 45.455 0.00 0.00 37.57 3.16
3062 3127 1.925185 GAAATAGTCACCGTTCGCTCC 59.075 52.381 0.00 0.00 0.00 4.70
3221 3286 4.307443 AGTTACTTTGGCTTCTTTGTGC 57.693 40.909 0.00 0.00 0.00 4.57
3226 3291 0.746063 TTGGCTTCTTTGTGCTGTGG 59.254 50.000 0.00 0.00 0.00 4.17
3314 3379 9.830975 AAACTAAATCCTTTATGCTGTTTGTTT 57.169 25.926 0.00 0.00 0.00 2.83
3319 3384 9.830975 AAATCCTTTATGCTGTTTGTTTTAGTT 57.169 25.926 0.00 0.00 0.00 2.24
3334 3399 4.488126 TTTAGTTGATTGACTGCTGCAC 57.512 40.909 0.00 0.00 0.00 4.57
3446 3512 7.488187 TGCTGAGTAATCTCTTTATGATTGC 57.512 36.000 0.00 0.00 40.98 3.56
3459 3525 5.735285 TTATGATTGCCAACCATGAAACA 57.265 34.783 0.00 0.00 0.00 2.83
3489 3555 9.509855 TTGGAAACACGATATGCAAATTATAAC 57.490 29.630 0.00 0.00 42.67 1.89
3490 3556 8.898761 TGGAAACACGATATGCAAATTATAACT 58.101 29.630 0.00 0.00 33.40 2.24
3522 3588 5.986004 GGCGTAGACTAAACATGCTAATT 57.014 39.130 0.00 0.00 0.00 1.40
3670 3736 7.059788 AGGGTGTTTGCATTTTCCTTTTTAAT 58.940 30.769 0.00 0.00 0.00 1.40
3760 3827 1.540363 GGTGGCCGATATTCACGTGAT 60.540 52.381 20.80 11.97 32.65 3.06
3775 3842 7.821595 TTCACGTGATTACTTCAATCGTTAT 57.178 32.000 20.80 0.00 45.25 1.89
3853 3920 2.747989 TGAGAAGTACGAGTTCAGCGAT 59.252 45.455 0.00 0.00 30.04 4.58
3928 3995 1.079819 GAAGCGTCCTACAGCTGCA 60.080 57.895 15.27 0.00 43.78 4.41
4187 4254 2.355209 CCTTCTAAGAAGTGAGGTGCCC 60.355 54.545 0.00 0.00 0.00 5.36
4207 4274 0.896940 TTCGGTCTACAAGGCTCGGT 60.897 55.000 0.00 0.00 0.00 4.69
4208 4275 0.035152 TCGGTCTACAAGGCTCGGTA 60.035 55.000 0.00 0.00 0.00 4.02
4211 4279 2.543238 CGGTCTACAAGGCTCGGTATTC 60.543 54.545 0.00 0.00 0.00 1.75
4220 4288 2.100418 AGGCTCGGTATTCGGTTAAGAC 59.900 50.000 0.00 0.00 39.77 3.01
4249 4317 2.705658 TGAGTGGGAAATGAGTGAGTGT 59.294 45.455 0.00 0.00 0.00 3.55
4271 4339 5.124138 TGTTCGTTAGGTTTGTGATGTGTTT 59.876 36.000 0.00 0.00 0.00 2.83
4338 4407 0.324943 ATGAGGTTGGTCGAACAGGG 59.675 55.000 2.09 0.00 36.12 4.45
4412 4481 9.624373 ATTCTTTTGTACTATCAGAATCTGCAT 57.376 29.630 5.18 3.23 0.00 3.96
4487 4558 3.183574 GCTTTGTTTTTATGCGTGAACCC 59.816 43.478 0.00 0.00 0.00 4.11
4497 4568 1.227734 CGTGAACCCCGTGAAAGGT 60.228 57.895 0.00 0.00 38.27 3.50
4535 4613 4.479993 CTTCCGGCAGGCCTGAGG 62.480 72.222 37.21 33.46 37.47 3.86
4547 4625 4.323257 GCAGGCCTGAGGTACTTTTTACTA 60.323 45.833 37.21 0.00 41.55 1.82
4555 4633 7.704047 CCTGAGGTACTTTTTACTATCGGTTAC 59.296 40.741 0.00 0.00 41.55 2.50
4560 4645 9.423061 GGTACTTTTTACTATCGGTTACTTCAA 57.577 33.333 0.00 0.00 0.00 2.69
4567 4652 4.638865 ACTATCGGTTACTTCAATTTGGCC 59.361 41.667 0.00 0.00 0.00 5.36
4578 4781 4.264460 TCAATTTGGCCGTATTTTGCTT 57.736 36.364 0.00 0.00 0.00 3.91
4579 4782 4.241681 TCAATTTGGCCGTATTTTGCTTC 58.758 39.130 0.00 0.00 0.00 3.86
4582 4785 4.695217 TTTGGCCGTATTTTGCTTCTAG 57.305 40.909 0.00 0.00 0.00 2.43
4602 4805 7.807977 TCTAGATTGAATAATTTCAGGTGCC 57.192 36.000 0.00 0.00 42.60 5.01
4646 4849 4.202346 TGAGCTGTGCATATAATGGCTACA 60.202 41.667 0.00 0.00 0.00 2.74
4659 4862 1.594833 GCTACACCCGGTGATGTCA 59.405 57.895 24.80 2.93 36.96 3.58
4764 4970 6.710692 GCTAAATAGCAATGCTGTTTGTTT 57.289 33.333 30.98 18.96 46.32 2.83
4765 4971 7.810766 GCTAAATAGCAATGCTGTTTGTTTA 57.189 32.000 30.98 19.04 46.32 2.01
4820 5026 1.165270 CGGCAAAGGGTTCTTGGTAG 58.835 55.000 0.00 0.00 32.75 3.18
4821 5027 1.271163 CGGCAAAGGGTTCTTGGTAGA 60.271 52.381 0.00 0.00 32.75 2.59
4823 5029 3.431415 GGCAAAGGGTTCTTGGTAGAAT 58.569 45.455 0.00 0.00 42.14 2.40
4824 5030 3.444034 GGCAAAGGGTTCTTGGTAGAATC 59.556 47.826 0.00 0.00 42.14 2.52
4825 5031 4.336280 GCAAAGGGTTCTTGGTAGAATCT 58.664 43.478 0.00 0.00 42.14 2.40
4826 5032 4.156739 GCAAAGGGTTCTTGGTAGAATCTG 59.843 45.833 0.00 0.00 42.14 2.90
4830 5036 4.407296 AGGGTTCTTGGTAGAATCTGCTAG 59.593 45.833 0.00 0.00 42.14 3.42
5082 5291 4.457496 ATCGCCGTCCACCTGCAG 62.457 66.667 6.78 6.78 0.00 4.41
5103 5312 2.490115 GACAGACAGAGGAGACACGAAT 59.510 50.000 0.00 0.00 0.00 3.34
5104 5313 2.490115 ACAGACAGAGGAGACACGAATC 59.510 50.000 0.00 0.00 0.00 2.52
5105 5314 2.096248 AGACAGAGGAGACACGAATCC 58.904 52.381 0.00 0.00 35.71 3.01
5113 5322 1.986378 GAGACACGAATCCACGAACAG 59.014 52.381 0.00 0.00 37.03 3.16
5124 5333 0.601841 CACGAACAGGGTTACGGCTT 60.602 55.000 0.00 0.00 0.00 4.35
5177 5386 2.543067 GATGGGCGGCCTGAAAGAGT 62.543 60.000 29.87 4.61 34.07 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.104102 TGTGTGGTTCTACCCTCAATTCTT 59.896 41.667 0.00 0.00 37.50 2.52
2 3 4.015872 TGTGTGGTTCTACCCTCAATTC 57.984 45.455 0.00 0.00 37.50 2.17
3 4 4.142038 GTTGTGTGGTTCTACCCTCAATT 58.858 43.478 0.00 0.00 37.50 2.32
5 6 2.158726 GGTTGTGTGGTTCTACCCTCAA 60.159 50.000 0.00 0.00 37.50 3.02
6 7 1.418637 GGTTGTGTGGTTCTACCCTCA 59.581 52.381 0.00 0.00 37.50 3.86
7 8 1.697982 AGGTTGTGTGGTTCTACCCTC 59.302 52.381 0.00 0.00 37.50 4.30
8 9 1.420138 CAGGTTGTGTGGTTCTACCCT 59.580 52.381 0.00 0.00 37.50 4.34
10 11 1.142262 ACCAGGTTGTGTGGTTCTACC 59.858 52.381 0.00 0.00 46.73 3.18
11 12 2.632987 ACCAGGTTGTGTGGTTCTAC 57.367 50.000 0.00 0.00 46.73 2.59
26 27 1.555533 GGAGGGACAGAACCTAACCAG 59.444 57.143 0.00 0.00 38.79 4.00
28 29 0.535797 CGGAGGGACAGAACCTAACC 59.464 60.000 0.00 0.00 38.79 2.85
29 30 1.477295 CTCGGAGGGACAGAACCTAAC 59.523 57.143 0.00 0.00 38.79 2.34
30 31 1.076677 ACTCGGAGGGACAGAACCTAA 59.923 52.381 10.23 0.00 38.79 2.69
31 32 0.702902 ACTCGGAGGGACAGAACCTA 59.297 55.000 10.23 0.00 38.79 3.08
32 33 0.900647 CACTCGGAGGGACAGAACCT 60.901 60.000 10.23 0.00 42.18 3.50
33 34 1.592223 CACTCGGAGGGACAGAACC 59.408 63.158 10.23 0.00 0.00 3.62
34 35 1.079750 GCACTCGGAGGGACAGAAC 60.080 63.158 12.39 0.00 0.00 3.01
35 36 0.832135 AAGCACTCGGAGGGACAGAA 60.832 55.000 12.39 0.00 0.00 3.02
36 37 0.832135 AAAGCACTCGGAGGGACAGA 60.832 55.000 12.39 0.00 0.00 3.41
37 38 0.895530 TAAAGCACTCGGAGGGACAG 59.104 55.000 12.39 0.00 0.00 3.51
38 39 1.207089 CATAAAGCACTCGGAGGGACA 59.793 52.381 12.39 0.00 0.00 4.02
39 40 1.480954 TCATAAAGCACTCGGAGGGAC 59.519 52.381 12.39 2.36 0.00 4.46
40 41 1.860641 TCATAAAGCACTCGGAGGGA 58.139 50.000 12.39 0.00 0.00 4.20
41 42 2.691409 TTCATAAAGCACTCGGAGGG 57.309 50.000 10.23 6.40 0.00 4.30
42 43 3.600388 ACTTTCATAAAGCACTCGGAGG 58.400 45.455 10.23 0.00 42.27 4.30
43 44 5.409826 AGAAACTTTCATAAAGCACTCGGAG 59.590 40.000 2.83 2.83 42.27 4.63
44 45 5.305585 AGAAACTTTCATAAAGCACTCGGA 58.694 37.500 4.34 0.00 42.27 4.55
45 46 5.613358 AGAAACTTTCATAAAGCACTCGG 57.387 39.130 4.34 0.00 42.27 4.63
46 47 6.732392 CGTTAGAAACTTTCATAAAGCACTCG 59.268 38.462 4.34 0.00 42.27 4.18
47 48 7.573627 ACGTTAGAAACTTTCATAAAGCACTC 58.426 34.615 4.34 0.00 42.27 3.51
49 50 8.469125 CAAACGTTAGAAACTTTCATAAAGCAC 58.531 33.333 0.00 0.00 42.27 4.40
53 54 9.710979 CTCACAAACGTTAGAAACTTTCATAAA 57.289 29.630 0.00 0.00 0.00 1.40
54 55 8.339714 CCTCACAAACGTTAGAAACTTTCATAA 58.660 33.333 0.00 0.00 0.00 1.90
56 57 6.540914 TCCTCACAAACGTTAGAAACTTTCAT 59.459 34.615 0.00 0.00 0.00 2.57
57 58 5.875910 TCCTCACAAACGTTAGAAACTTTCA 59.124 36.000 0.00 0.00 0.00 2.69
58 59 6.183360 TGTCCTCACAAACGTTAGAAACTTTC 60.183 38.462 0.00 0.00 0.00 2.62
59 60 5.644636 TGTCCTCACAAACGTTAGAAACTTT 59.355 36.000 0.00 0.00 0.00 2.66
62 63 5.668558 ATGTCCTCACAAACGTTAGAAAC 57.331 39.130 0.00 2.99 35.64 2.78
64 65 7.156000 TGATAATGTCCTCACAAACGTTAGAA 58.844 34.615 0.00 0.00 35.64 2.10
65 66 6.693466 TGATAATGTCCTCACAAACGTTAGA 58.307 36.000 0.00 0.00 35.64 2.10
68 69 6.429692 TCAATGATAATGTCCTCACAAACGTT 59.570 34.615 0.00 0.00 35.64 3.99
69 70 5.937540 TCAATGATAATGTCCTCACAAACGT 59.062 36.000 0.00 0.00 35.64 3.99
71 72 7.383102 ACTCAATGATAATGTCCTCACAAAC 57.617 36.000 0.00 0.00 35.64 2.93
72 73 9.685276 AATACTCAATGATAATGTCCTCACAAA 57.315 29.630 0.00 0.00 35.64 2.83
75 76 9.988815 AGTAATACTCAATGATAATGTCCTCAC 57.011 33.333 0.00 0.00 0.00 3.51
96 97 9.747898 TTGTGGGTAAAGAATTGTATGAGTAAT 57.252 29.630 0.00 0.00 0.00 1.89
99 100 8.472007 TTTTGTGGGTAAAGAATTGTATGAGT 57.528 30.769 0.00 0.00 0.00 3.41
100 101 9.357652 CATTTTGTGGGTAAAGAATTGTATGAG 57.642 33.333 0.00 0.00 0.00 2.90
101 102 9.083422 TCATTTTGTGGGTAAAGAATTGTATGA 57.917 29.630 0.00 0.00 0.00 2.15
102 103 9.703892 TTCATTTTGTGGGTAAAGAATTGTATG 57.296 29.630 0.00 0.00 0.00 2.39
105 106 9.454859 TTTTTCATTTTGTGGGTAAAGAATTGT 57.545 25.926 0.00 0.00 0.00 2.71
129 130 7.333921 TCATGAGTTTTTGCACTTGTCATTTTT 59.666 29.630 0.00 0.00 0.00 1.94
130 131 6.817641 TCATGAGTTTTTGCACTTGTCATTTT 59.182 30.769 0.00 0.00 0.00 1.82
131 132 6.339730 TCATGAGTTTTTGCACTTGTCATTT 58.660 32.000 0.00 0.00 0.00 2.32
133 134 5.518848 TCATGAGTTTTTGCACTTGTCAT 57.481 34.783 0.00 0.00 0.00 3.06
134 135 4.979943 TCATGAGTTTTTGCACTTGTCA 57.020 36.364 0.00 0.00 0.00 3.58
135 136 5.230726 CACTTCATGAGTTTTTGCACTTGTC 59.769 40.000 0.00 0.00 36.10 3.18
136 137 5.104374 CACTTCATGAGTTTTTGCACTTGT 58.896 37.500 0.00 0.00 36.10 3.16
137 138 4.505191 CCACTTCATGAGTTTTTGCACTTG 59.495 41.667 0.00 0.00 36.10 3.16
138 139 4.402155 TCCACTTCATGAGTTTTTGCACTT 59.598 37.500 0.00 0.00 36.10 3.16
140 141 4.044426 GTCCACTTCATGAGTTTTTGCAC 58.956 43.478 0.00 0.00 36.10 4.57
141 142 3.953612 AGTCCACTTCATGAGTTTTTGCA 59.046 39.130 0.00 0.00 36.10 4.08
142 143 4.574599 AGTCCACTTCATGAGTTTTTGC 57.425 40.909 0.00 0.00 36.10 3.68
143 144 6.638468 GCTAAAGTCCACTTCATGAGTTTTTG 59.362 38.462 0.00 0.00 36.10 2.44
144 145 6.239036 GGCTAAAGTCCACTTCATGAGTTTTT 60.239 38.462 0.00 0.00 36.10 1.94
145 146 5.241728 GGCTAAAGTCCACTTCATGAGTTTT 59.758 40.000 0.00 0.00 36.10 2.43
148 149 3.584848 AGGCTAAAGTCCACTTCATGAGT 59.415 43.478 0.00 0.00 39.89 3.41
209 210 6.779049 AGTTATATTGTACCTCGTGGATACCA 59.221 38.462 11.17 2.11 37.04 3.25
210 211 7.224522 AGTTATATTGTACCTCGTGGATACC 57.775 40.000 11.17 0.00 37.04 2.73
215 216 6.092944 TGCAAAAGTTATATTGTACCTCGTGG 59.907 38.462 0.99 0.99 39.83 4.94
266 268 7.170658 GTGATCTGGCTGAAAAGATAGATACAC 59.829 40.741 0.00 0.00 33.26 2.90
282 284 4.102681 TGATCAAGATGATGTGATCTGGCT 59.897 41.667 13.21 0.00 46.82 4.75
284 286 4.448060 CGTGATCAAGATGATGTGATCTGG 59.552 45.833 2.01 3.67 46.82 3.86
285 287 4.448060 CCGTGATCAAGATGATGTGATCTG 59.552 45.833 10.47 7.14 46.82 2.90
293 295 9.650539 CTAATAAGATTCCGTGATCAAGATGAT 57.349 33.333 10.47 1.15 40.34 2.45
301 303 8.818141 TCATTCACTAATAAGATTCCGTGATC 57.182 34.615 0.00 0.00 32.24 2.92
305 307 9.099454 GTTTCTCATTCACTAATAAGATTCCGT 57.901 33.333 0.00 0.00 0.00 4.69
319 321 6.820656 ACAGGTCATCATAGTTTCTCATTCAC 59.179 38.462 0.00 0.00 0.00 3.18
379 386 5.464168 ACTTTTTGAAGAATGCAATCCTCG 58.536 37.500 0.00 0.00 30.38 4.63
440 447 7.332182 GTGAGAGATCGAACCTTCACTTATTTT 59.668 37.037 15.44 0.00 0.00 1.82
468 475 4.949856 CCTCCTAAGCCTTCAATTGCTTTA 59.050 41.667 6.11 0.00 45.09 1.85
483 490 1.622312 GGGTATAACCGCCCTCCTAAG 59.378 57.143 0.00 0.00 39.83 2.18
493 500 2.109657 AGGAGGACTAGGGGTATAACCG 59.890 54.545 0.00 0.00 39.83 4.44
550 559 8.648097 CGGAATATTTCACCTTTATGAGATACG 58.352 37.037 0.00 0.00 30.78 3.06
605 614 1.765230 ACCTCCGATAGAGACACCAC 58.235 55.000 0.00 0.00 46.50 4.16
614 623 7.337184 TGAGCTGATAAATAGTACCTCCGATAG 59.663 40.741 0.00 0.00 0.00 2.08
621 630 7.982354 GTGAAACTGAGCTGATAAATAGTACCT 59.018 37.037 0.00 0.00 0.00 3.08
622 631 7.764443 TGTGAAACTGAGCTGATAAATAGTACC 59.236 37.037 0.00 0.00 38.04 3.34
623 632 8.703604 TGTGAAACTGAGCTGATAAATAGTAC 57.296 34.615 0.00 0.00 38.04 2.73
648 657 7.882791 TGAGAAACACATACATGGAGTACATTT 59.117 33.333 0.00 0.00 37.84 2.32
651 660 6.210584 TCTGAGAAACACATACATGGAGTACA 59.789 38.462 0.00 0.00 35.05 2.90
687 696 0.834612 TAACTAATCTGTGGCCCCGG 59.165 55.000 0.00 0.00 0.00 5.73
870 884 2.704616 CTCGTCCGTCTCGCTCTC 59.295 66.667 0.00 0.00 0.00 3.20
871 885 3.501548 GCTCGTCCGTCTCGCTCT 61.502 66.667 0.00 0.00 0.00 4.09
1330 1361 4.707448 ACATATCTTCCTCGCGAATCCTAT 59.293 41.667 11.33 4.21 0.00 2.57
1365 1397 0.602106 CCGCTGCATCCAGATCGATT 60.602 55.000 0.00 0.00 41.77 3.34
1497 1532 0.689623 AGCCTGAACCAAGAGGAGTG 59.310 55.000 0.00 0.00 38.69 3.51
1867 1909 5.604231 AGGCTTCAGATCAGTGTGGATAATA 59.396 40.000 0.00 0.00 0.00 0.98
1915 1957 2.326428 GGATCCTTCGAGGGGTCAATA 58.674 52.381 26.35 0.78 38.20 1.90
2131 2173 6.013379 TGTACTCAGATCTCCCTTATCATCC 58.987 44.000 0.00 0.00 0.00 3.51
2387 2429 1.340088 ATGCATGCAAAGGACCACAA 58.660 45.000 26.68 0.00 0.00 3.33
2542 2584 1.200519 TACCAGGTGATACACAGGGC 58.799 55.000 0.76 0.00 36.07 5.19
2549 2591 6.415573 GGGGATATCATTTACCAGGTGATAC 58.584 44.000 0.76 0.00 37.58 2.24
2801 2845 5.931294 TCACTAAAGGTTGGTGATGTTACA 58.069 37.500 3.37 0.00 44.69 2.41
2815 2859 3.209410 CAAGCCCAGCTATCACTAAAGG 58.791 50.000 0.00 0.00 38.25 3.11
2821 2866 0.475906 ATCCCAAGCCCAGCTATCAC 59.524 55.000 0.00 0.00 38.25 3.06
2839 2884 8.297470 ACCAAACTGCATATACATCTTTCAAT 57.703 30.769 0.00 0.00 0.00 2.57
2848 2893 5.353956 CAGTAGCAACCAAACTGCATATACA 59.646 40.000 0.00 0.00 42.48 2.29
2876 2921 4.120331 GGGCCATGACTTGCGCAC 62.120 66.667 11.12 0.00 39.90 5.34
2880 2930 0.681175 AAAACTGGGCCATGACTTGC 59.319 50.000 6.72 0.00 0.00 4.01
2948 3000 1.747355 CTTCCATAAAGTGCAGCTGGG 59.253 52.381 17.12 5.40 0.00 4.45
3062 3127 7.486802 AATTGTTTCCAGAAATTGCAAGAAG 57.513 32.000 4.94 0.00 32.36 2.85
3101 3166 4.144297 AGTTAGCACAAATTCAAGAGGCA 58.856 39.130 0.00 0.00 0.00 4.75
3203 3268 3.066621 CACAGCACAAAGAAGCCAAAGTA 59.933 43.478 0.00 0.00 0.00 2.24
3314 3379 3.475575 TGTGCAGCAGTCAATCAACTAA 58.524 40.909 0.00 0.00 0.00 2.24
3319 3384 3.057806 CAGAAATGTGCAGCAGTCAATCA 60.058 43.478 0.00 0.00 0.00 2.57
3334 3399 2.551032 TCAGCAGTTGAGTGCAGAAATG 59.449 45.455 12.87 2.76 46.60 2.32
3406 3471 8.902540 TTACTCAGCATACTTTTCAAAGAGAA 57.097 30.769 6.29 0.00 39.31 2.87
3459 3525 6.751514 TTTGCATATCGTGTTTCCAACTAT 57.248 33.333 0.00 0.00 0.00 2.12
3477 3543 9.562583 CGCCTACTTTTAAAGTTATAATTTGCA 57.437 29.630 15.83 0.00 42.81 4.08
3478 3544 9.563898 ACGCCTACTTTTAAAGTTATAATTTGC 57.436 29.630 15.83 6.59 42.81 3.68
3487 3553 8.982685 GTTTAGTCTACGCCTACTTTTAAAGTT 58.017 33.333 15.83 0.04 42.81 2.66
3488 3554 8.143835 TGTTTAGTCTACGCCTACTTTTAAAGT 58.856 33.333 14.99 14.99 45.40 2.66
3489 3555 8.524870 TGTTTAGTCTACGCCTACTTTTAAAG 57.475 34.615 2.81 2.81 0.00 1.85
3490 3556 8.928733 CATGTTTAGTCTACGCCTACTTTTAAA 58.071 33.333 0.00 0.00 0.00 1.52
3528 3594 9.860898 GAGAGTAAAAATAGGCAATTTCACAAT 57.139 29.630 0.00 0.00 36.76 2.71
3529 3595 8.855110 TGAGAGTAAAAATAGGCAATTTCACAA 58.145 29.630 0.00 0.00 36.76 3.33
3531 3597 9.860898 AATGAGAGTAAAAATAGGCAATTTCAC 57.139 29.630 0.00 0.55 36.76 3.18
3760 3827 5.687166 AGTCCCCATAACGATTGAAGTAA 57.313 39.130 0.00 0.00 0.00 2.24
3775 3842 1.685224 GATGTGCCTCAAGTCCCCA 59.315 57.895 0.00 0.00 0.00 4.96
4018 4085 0.473755 TGCCTTTGTTCTCTGGAGCA 59.526 50.000 0.00 0.00 0.00 4.26
4069 4136 3.011517 ATGTTCCCCAGCTCCGCT 61.012 61.111 0.00 0.00 40.77 5.52
4187 4254 0.179134 CCGAGCCTTGTAGACCGAAG 60.179 60.000 0.00 0.00 0.00 3.79
4207 4274 4.404394 TCATGGAGCAGTCTTAACCGAATA 59.596 41.667 0.00 0.00 0.00 1.75
4208 4275 3.197766 TCATGGAGCAGTCTTAACCGAAT 59.802 43.478 0.00 0.00 0.00 3.34
4211 4279 2.093973 ACTCATGGAGCAGTCTTAACCG 60.094 50.000 0.00 0.00 32.04 4.44
4249 4317 5.821516 AAACACATCACAAACCTAACGAA 57.178 34.783 0.00 0.00 0.00 3.85
4271 4339 5.778241 TCTTTTCGCATGGGTAGATATCCTA 59.222 40.000 9.86 0.00 0.00 2.94
4338 4407 4.494484 GCATCAACCCCAACAAATCTAAC 58.506 43.478 0.00 0.00 0.00 2.34
4420 4489 3.007635 GCCGTACAATCCTAAGCAACTT 58.992 45.455 0.00 0.00 0.00 2.66
4421 4490 2.629051 GCCGTACAATCCTAAGCAACT 58.371 47.619 0.00 0.00 0.00 3.16
4422 4491 1.326548 CGCCGTACAATCCTAAGCAAC 59.673 52.381 0.00 0.00 0.00 4.17
4423 4492 1.647346 CGCCGTACAATCCTAAGCAA 58.353 50.000 0.00 0.00 0.00 3.91
4425 4494 1.496403 GCCGCCGTACAATCCTAAGC 61.496 60.000 0.00 0.00 0.00 3.09
4426 4495 1.213094 CGCCGCCGTACAATCCTAAG 61.213 60.000 0.00 0.00 0.00 2.18
4433 4504 2.581208 AATGATCCGCCGCCGTACAA 62.581 55.000 0.00 0.00 0.00 2.41
4436 4507 1.885388 CAAATGATCCGCCGCCGTA 60.885 57.895 0.00 0.00 0.00 4.02
4487 4558 2.260869 CCCACAGCACCTTTCACGG 61.261 63.158 0.00 0.00 0.00 4.94
4497 4568 2.203337 GCCTCACAACCCACAGCA 60.203 61.111 0.00 0.00 0.00 4.41
4547 4625 2.422127 CGGCCAAATTGAAGTAACCGAT 59.578 45.455 2.24 0.00 41.86 4.18
4555 4633 4.244862 AGCAAAATACGGCCAAATTGAAG 58.755 39.130 2.24 0.00 0.00 3.02
4560 4645 4.947388 TCTAGAAGCAAAATACGGCCAAAT 59.053 37.500 2.24 0.00 0.00 2.32
4562 4647 3.945346 TCTAGAAGCAAAATACGGCCAA 58.055 40.909 2.24 0.00 0.00 4.52
4578 4781 7.577303 AGGCACCTGAAATTATTCAATCTAGA 58.423 34.615 0.00 0.00 44.64 2.43
4579 4782 7.814264 AGGCACCTGAAATTATTCAATCTAG 57.186 36.000 0.00 0.00 44.64 2.43
4582 4785 9.252962 CAATAAGGCACCTGAAATTATTCAATC 57.747 33.333 0.00 0.00 44.64 2.67
4593 4796 4.202202 CCAAAACACAATAAGGCACCTGAA 60.202 41.667 0.00 0.00 0.00 3.02
4595 4798 3.554752 CCCAAAACACAATAAGGCACCTG 60.555 47.826 0.00 0.00 0.00 4.00
4602 4805 7.872483 AGCTCAAATTACCCAAAACACAATAAG 59.128 33.333 0.00 0.00 0.00 1.73
4646 4849 2.577606 TTTGATTGACATCACCGGGT 57.422 45.000 6.32 0.00 39.28 5.28
4718 4923 2.728007 AGCCCCAGAATTCAGTTAAGC 58.272 47.619 8.44 2.89 0.00 3.09
4763 4969 2.158058 GGCAGCGTCGTTTTGTACATAA 59.842 45.455 0.00 0.00 0.00 1.90
4764 4970 1.727880 GGCAGCGTCGTTTTGTACATA 59.272 47.619 0.00 0.00 0.00 2.29
4765 4971 0.515564 GGCAGCGTCGTTTTGTACAT 59.484 50.000 0.00 0.00 0.00 2.29
4801 5007 1.165270 CTACCAAGAACCCTTTGCCG 58.835 55.000 0.00 0.00 0.00 5.69
4820 5026 5.868801 GCCTGATTCATCTACTAGCAGATTC 59.131 44.000 2.45 0.10 32.83 2.52
4821 5027 5.306419 TGCCTGATTCATCTACTAGCAGATT 59.694 40.000 2.45 0.00 32.83 2.40
4823 5029 4.218312 TGCCTGATTCATCTACTAGCAGA 58.782 43.478 0.00 0.00 0.00 4.26
4824 5030 4.597404 TGCCTGATTCATCTACTAGCAG 57.403 45.455 0.00 0.00 0.00 4.24
4825 5031 4.321527 CGATGCCTGATTCATCTACTAGCA 60.322 45.833 0.00 0.00 38.47 3.49
4826 5032 4.172505 CGATGCCTGATTCATCTACTAGC 58.827 47.826 0.00 0.00 38.47 3.42
4830 5036 2.072298 GCCGATGCCTGATTCATCTAC 58.928 52.381 0.00 0.00 38.47 2.59
5082 5291 1.524848 TCGTGTCTCCTCTGTCTGTC 58.475 55.000 0.00 0.00 0.00 3.51
5103 5312 1.667151 CCGTAACCCTGTTCGTGGA 59.333 57.895 0.00 0.00 0.00 4.02
5104 5313 2.030958 GCCGTAACCCTGTTCGTGG 61.031 63.158 0.00 0.00 0.00 4.94
5105 5314 0.601841 AAGCCGTAACCCTGTTCGTG 60.602 55.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.