Multiple sequence alignment - TraesCS7A01G045400

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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 TraesCS7A01G045400 chr7A 100.000 2567 0 0 1 2567 20699074 20701640 0.000000e+00 4741.0
1 TraesCS7A01G045400 chr7A 95.980 199 7 1 741 939 20705154 20704957 3.190000e-84 322.0
2 TraesCS7A01G045400 chr7A 85.764 288 34 6 1 283 20477725 20478010 5.370000e-77 298.0
3 TraesCS7A01G045400 chr7A 85.106 282 35 3 31 305 20952195 20952476 5.410000e-72 281.0
4 TraesCS7A01G045400 chr7A 88.186 237 27 1 47 283 20976639 20976874 5.410000e-72 281.0
5 TraesCS7A01G045400 chr7A 82.716 243 37 4 3 242 20587765 20588005 7.200000e-51 211.0
6 TraesCS7A01G045400 chr7A 82.627 236 35 4 1 232 20643381 20643614 1.200000e-48 204.0
7 TraesCS7A01G045400 chr7A 80.769 234 27 11 1 219 20554140 20554370 1.580000e-37 167.0
8 TraesCS7A01G045400 chr7A 96.591 88 3 0 2306 2393 20701307 20701394 2.060000e-31 147.0
9 TraesCS7A01G045400 chr7A 96.591 88 3 0 2234 2321 20701379 20701466 2.060000e-31 147.0
10 TraesCS7A01G045400 chr6D 96.271 1582 55 3 741 2321 183950962 183952540 0.000000e+00 2591.0
11 TraesCS7A01G045400 chr6D 96.183 262 10 0 2306 2567 183952453 183952714 1.820000e-116 429.0
12 TraesCS7A01G045400 chr6D 94.975 199 10 0 741 939 183955778 183955580 1.920000e-81 313.0
13 TraesCS7A01G045400 chr4A 95.825 1581 61 4 743 2322 43695956 43694380 0.000000e+00 2549.0
14 TraesCS7A01G045400 chr4A 96.183 262 10 0 2306 2567 43694468 43694207 1.820000e-116 429.0
15 TraesCS7A01G045400 chr4A 94.924 197 7 2 743 939 43690646 43690839 3.210000e-79 305.0
16 TraesCS7A01G045400 chr7D 96.751 1385 40 3 938 2321 229792824 229794204 0.000000e+00 2303.0
17 TraesCS7A01G045400 chr7D 83.085 739 72 23 6 730 20596974 20597673 7.800000e-175 623.0
18 TraesCS7A01G045400 chr7D 96.565 262 9 0 2306 2567 229794117 229794378 3.920000e-118 435.0
19 TraesCS7A01G045400 chr7D 95.477 199 9 0 741 939 229797933 229797735 4.120000e-83 318.0
20 TraesCS7A01G045400 chr7D 80.282 284 52 4 20 302 20306288 20306568 7.200000e-51 211.0
21 TraesCS7A01G045400 chr7D 80.342 234 28 11 1 219 20309886 20310116 7.350000e-36 161.0
22 TraesCS7A01G045400 chr1D 95.945 1381 42 3 953 2321 16387000 16385622 0.000000e+00 2228.0
23 TraesCS7A01G045400 chr1D 81.386 1010 180 7 945 1951 325554300 325555304 0.000000e+00 817.0
24 TraesCS7A01G045400 chr1D 95.420 262 12 0 2306 2567 16385709 16385448 3.950000e-113 418.0
25 TraesCS7A01G045400 chr1D 94.500 200 11 0 740 939 16381894 16382093 2.480000e-80 309.0
26 TraesCS7A01G045400 chr1B 90.258 698 65 2 1283 1979 398523728 398523033 0.000000e+00 909.0
27 TraesCS7A01G045400 chr1B 81.425 786 135 9 1167 1951 437870900 437871675 1.300000e-177 632.0
28 TraesCS7A01G045400 chr1B 89.688 320 23 6 742 1057 398158206 398158519 1.430000e-107 399.0
29 TraesCS7A01G045400 chr1B 83.133 332 31 7 2013 2320 398522941 398522611 1.940000e-71 279.0
30 TraesCS7A01G045400 chr1B 89.655 203 18 2 733 935 398389860 398390059 3.280000e-64 255.0
31 TraesCS7A01G045400 chr1B 84.328 268 15 7 2316 2567 398393671 398393415 1.190000e-58 237.0
32 TraesCS7A01G045400 chr1B 96.154 78 3 0 2244 2321 398393671 398393594 7.460000e-26 128.0
33 TraesCS7A01G045400 chr1B 93.443 61 4 0 1051 1111 398334270 398334330 9.780000e-15 91.6
34 TraesCS7A01G045400 chr1B 93.220 59 4 0 2334 2392 398522669 398522611 1.270000e-13 87.9
35 TraesCS7A01G045400 chr2A 80.810 1037 180 15 945 1976 771874339 771875361 0.000000e+00 795.0
36 TraesCS7A01G045400 chr5B 78.002 1041 218 10 945 1982 11286761 11285729 0.000000e+00 643.0
37 TraesCS7A01G045400 chr5B 90.476 42 2 2 2448 2489 614516867 614516906 1.000000e-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 TraesCS7A01G045400 chr7A 20699074 20701640 2566 False 1678.333333 4741 97.727333 1 2567 3 chr7A.!!$F7 2566
1 TraesCS7A01G045400 chr6D 183950962 183952714 1752 False 1510.000000 2591 96.227000 741 2567 2 chr6D.!!$F1 1826
2 TraesCS7A01G045400 chr4A 43694207 43695956 1749 True 1489.000000 2549 96.004000 743 2567 2 chr4A.!!$R1 1824
3 TraesCS7A01G045400 chr7D 229792824 229794378 1554 False 1369.000000 2303 96.658000 938 2567 2 chr7D.!!$F3 1629
4 TraesCS7A01G045400 chr7D 20596974 20597673 699 False 623.000000 623 83.085000 6 730 1 chr7D.!!$F1 724
5 TraesCS7A01G045400 chr1D 16385448 16387000 1552 True 1323.000000 2228 95.682500 953 2567 2 chr1D.!!$R1 1614
6 TraesCS7A01G045400 chr1D 325554300 325555304 1004 False 817.000000 817 81.386000 945 1951 1 chr1D.!!$F2 1006
7 TraesCS7A01G045400 chr1B 437870900 437871675 775 False 632.000000 632 81.425000 1167 1951 1 chr1B.!!$F4 784
8 TraesCS7A01G045400 chr1B 398522611 398523728 1117 True 425.300000 909 88.870333 1283 2392 3 chr1B.!!$R2 1109
9 TraesCS7A01G045400 chr2A 771874339 771875361 1022 False 795.000000 795 80.810000 945 1976 1 chr2A.!!$F1 1031
10 TraesCS7A01G045400 chr5B 11285729 11286761 1032 True 643.000000 643 78.002000 945 1982 1 chr5B.!!$R1 1037

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
619 625 0.108898 CCTCGACTTCCTCTGCACTG 60.109 60.0 0.0 0.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2324 2435 0.179103 GTGTTTTGTGCTTGCTGGCT 60.179 50.0 3.49 0.0 0.0 4.75 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
38 39 8.157476 ACTCCTCTATCTTTTGAAAGTTAGCAA 58.843 33.333 13.18 0.00 37.84 3.91
64 69 8.566260 AGCCTAGTATACTTTGTGACTAATACG 58.434 37.037 11.40 0.00 0.00 3.06
74 79 8.280497 ACTTTGTGACTAATACGTTGTCATTTC 58.720 33.333 13.50 5.38 41.78 2.17
82 87 2.851195 ACGTTGTCATTTCTTCCAGCT 58.149 42.857 0.00 0.00 0.00 4.24
83 88 3.214328 ACGTTGTCATTTCTTCCAGCTT 58.786 40.909 0.00 0.00 0.00 3.74
84 89 3.632145 ACGTTGTCATTTCTTCCAGCTTT 59.368 39.130 0.00 0.00 0.00 3.51
107 113 7.849804 TTGTAAGCACAATAAAGATCTCTCC 57.150 36.000 0.00 0.00 39.75 3.71
108 114 6.349300 TGTAAGCACAATAAAGATCTCTCCC 58.651 40.000 0.00 0.00 0.00 4.30
127 133 0.464452 CGGAAGGACGGGCTTCTTAT 59.536 55.000 0.00 0.00 0.00 1.73
131 137 3.762288 GGAAGGACGGGCTTCTTATTTTT 59.238 43.478 0.00 0.00 0.00 1.94
150 156 5.612725 TTTTTGAAGATGCCAAGGTCTTT 57.387 34.783 0.00 0.00 34.97 2.52
151 157 4.589216 TTTGAAGATGCCAAGGTCTTTG 57.411 40.909 0.00 0.00 34.97 2.77
152 158 3.507162 TGAAGATGCCAAGGTCTTTGA 57.493 42.857 0.00 0.00 39.21 2.69
156 162 2.641815 AGATGCCAAGGTCTTTGAGAGT 59.358 45.455 0.00 0.00 39.21 3.24
163 169 2.977808 AGGTCTTTGAGAGTGGGAAGA 58.022 47.619 0.00 0.00 0.00 2.87
167 173 5.728741 AGGTCTTTGAGAGTGGGAAGATATT 59.271 40.000 0.00 0.00 31.52 1.28
182 188 9.020731 TGGGAAGATATTTTCAGGTTTTAGTTC 57.979 33.333 8.15 0.00 0.00 3.01
183 189 9.244292 GGGAAGATATTTTCAGGTTTTAGTTCT 57.756 33.333 8.15 0.00 0.00 3.01
205 211 2.620115 CGTCCATCATTTCCCTTGGATG 59.380 50.000 0.00 0.00 40.22 3.51
242 248 8.662781 TGGAATTAATCTGTAGCATAGTTGTC 57.337 34.615 0.00 0.00 0.00 3.18
245 251 8.438676 AATTAATCTGTAGCATAGTTGTCCAC 57.561 34.615 0.00 0.00 0.00 4.02
248 254 3.832490 TCTGTAGCATAGTTGTCCACAGT 59.168 43.478 0.00 0.00 33.50 3.55
268 274 4.568359 CAGTGCTCATTACTGGTGACATAC 59.432 45.833 0.00 0.00 41.36 2.39
275 281 6.573434 TCATTACTGGTGACATACTTAGCAG 58.427 40.000 0.00 0.00 43.49 4.24
276 282 3.252974 ACTGGTGACATACTTAGCAGC 57.747 47.619 0.00 0.00 42.09 5.25
278 284 3.193263 CTGGTGACATACTTAGCAGCTG 58.807 50.000 10.11 10.11 41.51 4.24
323 329 8.266392 TCTTGCAAAATCAACATTCTTGTTTT 57.734 26.923 0.00 0.00 43.57 2.43
345 351 1.679139 TTTCTGAACCTGGTGCTGTG 58.321 50.000 6.34 0.00 0.00 3.66
350 356 0.663153 GAACCTGGTGCTGTGTGTTC 59.337 55.000 0.00 0.00 0.00 3.18
355 361 3.084039 CCTGGTGCTGTGTGTTCATTAT 58.916 45.455 0.00 0.00 0.00 1.28
387 393 9.912634 ATAGTTTGGATTACAATCACACAAAAG 57.087 29.630 4.45 0.00 39.21 2.27
393 399 7.284261 TGGATTACAATCACACAAAAGTTCAGA 59.716 33.333 4.45 0.00 37.15 3.27
403 409 4.853196 CACAAAAGTTCAGACAACACACAG 59.147 41.667 0.00 0.00 0.00 3.66
405 411 1.668419 AGTTCAGACAACACACAGGC 58.332 50.000 0.00 0.00 0.00 4.85
406 412 1.210478 AGTTCAGACAACACACAGGCT 59.790 47.619 0.00 0.00 0.00 4.58
407 413 1.331756 GTTCAGACAACACACAGGCTG 59.668 52.381 14.16 14.16 0.00 4.85
408 414 0.815213 TCAGACAACACACAGGCTGC 60.815 55.000 15.89 0.00 0.00 5.25
409 415 1.096967 CAGACAACACACAGGCTGCA 61.097 55.000 15.89 0.00 0.00 4.41
410 416 0.394216 AGACAACACACAGGCTGCAA 60.394 50.000 15.89 0.00 0.00 4.08
411 417 0.248621 GACAACACACAGGCTGCAAC 60.249 55.000 15.89 0.00 0.00 4.17
412 418 1.066257 CAACACACAGGCTGCAACC 59.934 57.895 15.89 0.00 0.00 3.77
413 419 2.480610 AACACACAGGCTGCAACCG 61.481 57.895 15.89 1.29 33.69 4.44
414 420 2.591429 CACACAGGCTGCAACCGA 60.591 61.111 15.89 0.00 33.69 4.69
415 421 2.281070 ACACAGGCTGCAACCGAG 60.281 61.111 15.89 0.13 33.69 4.63
416 422 3.730761 CACAGGCTGCAACCGAGC 61.731 66.667 15.89 0.00 35.57 5.03
429 435 2.359169 CCGAGCCCTGCAACTCCTA 61.359 63.158 5.69 0.00 0.00 2.94
469 475 5.122519 TGCTTTATAATGAAGCCGATCACA 58.877 37.500 9.88 0.00 46.85 3.58
474 480 8.909708 TTTATAATGAAGCCGATCACAAAAAG 57.090 30.769 0.00 0.00 30.82 2.27
478 484 5.046910 TGAAGCCGATCACAAAAAGATTC 57.953 39.130 0.00 0.00 0.00 2.52
486 492 7.239972 CCGATCACAAAAAGATTCTTCTCTTC 58.760 38.462 0.00 0.00 34.40 2.87
487 493 7.239972 CGATCACAAAAAGATTCTTCTCTTCC 58.760 38.462 0.00 0.00 34.40 3.46
488 494 7.118971 CGATCACAAAAAGATTCTTCTCTTCCT 59.881 37.037 0.00 0.00 34.40 3.36
489 495 8.703378 ATCACAAAAAGATTCTTCTCTTCCTT 57.297 30.769 0.00 0.00 34.40 3.36
490 496 8.525290 TCACAAAAAGATTCTTCTCTTCCTTT 57.475 30.769 0.00 0.00 34.40 3.11
491 497 8.971073 TCACAAAAAGATTCTTCTCTTCCTTTT 58.029 29.630 0.00 0.00 34.40 2.27
492 498 9.242477 CACAAAAAGATTCTTCTCTTCCTTTTC 57.758 33.333 0.00 0.00 34.40 2.29
493 499 8.131731 ACAAAAAGATTCTTCTCTTCCTTTTCG 58.868 33.333 0.00 0.00 34.40 3.46
494 500 8.345565 CAAAAAGATTCTTCTCTTCCTTTTCGA 58.654 33.333 0.00 0.00 34.40 3.71
495 501 8.451908 AAAAGATTCTTCTCTTCCTTTTCGAA 57.548 30.769 0.00 0.00 34.40 3.71
496 502 8.451908 AAAGATTCTTCTCTTCCTTTTCGAAA 57.548 30.769 6.47 6.47 34.40 3.46
497 503 8.451908 AAGATTCTTCTCTTCCTTTTCGAAAA 57.548 30.769 21.35 21.35 29.38 2.29
498 504 8.451908 AGATTCTTCTCTTCCTTTTCGAAAAA 57.548 30.769 22.67 7.78 0.00 1.94
619 625 0.108898 CCTCGACTTCCTCTGCACTG 60.109 60.000 0.00 0.00 0.00 3.66
627 633 1.812922 CCTCTGCACTGACGCATCC 60.813 63.158 0.00 0.00 42.06 3.51
651 657 5.853282 CGTTAACTGAATTCCAAGCAGAAAG 59.147 40.000 2.27 0.00 33.94 2.62
652 658 4.861102 AACTGAATTCCAAGCAGAAAGG 57.139 40.909 2.27 0.00 33.94 3.11
653 659 4.104383 ACTGAATTCCAAGCAGAAAGGA 57.896 40.909 2.27 0.00 33.94 3.36
654 660 4.670765 ACTGAATTCCAAGCAGAAAGGAT 58.329 39.130 2.27 0.00 33.94 3.24
656 662 6.248433 ACTGAATTCCAAGCAGAAAGGATTA 58.752 36.000 2.27 0.00 33.94 1.75
658 664 6.248433 TGAATTCCAAGCAGAAAGGATTACT 58.752 36.000 2.27 0.00 0.00 2.24
659 665 6.375455 TGAATTCCAAGCAGAAAGGATTACTC 59.625 38.462 2.27 0.00 0.00 2.59
661 667 5.091261 TCCAAGCAGAAAGGATTACTCTC 57.909 43.478 0.00 0.00 0.00 3.20
662 668 3.868077 CCAAGCAGAAAGGATTACTCTCG 59.132 47.826 0.00 0.00 0.00 4.04
663 669 3.172229 AGCAGAAAGGATTACTCTCGC 57.828 47.619 0.00 0.00 0.00 5.03
664 670 1.855360 GCAGAAAGGATTACTCTCGCG 59.145 52.381 0.00 0.00 0.00 5.87
665 671 2.479730 GCAGAAAGGATTACTCTCGCGA 60.480 50.000 9.26 9.26 0.00 5.87
667 673 2.121009 GAAAGGATTACTCTCGCGAGC 58.879 52.381 30.97 15.48 41.09 5.03
669 675 1.103803 AGGATTACTCTCGCGAGCAA 58.896 50.000 30.97 22.54 41.09 3.91
670 676 1.476891 AGGATTACTCTCGCGAGCAAA 59.523 47.619 30.97 22.49 41.09 3.68
671 677 1.855360 GGATTACTCTCGCGAGCAAAG 59.145 52.381 30.97 24.15 41.09 2.77
672 678 1.256635 GATTACTCTCGCGAGCAAAGC 59.743 52.381 30.97 21.22 41.09 3.51
673 679 0.736325 TTACTCTCGCGAGCAAAGCC 60.736 55.000 30.97 0.00 41.09 4.35
674 680 1.595993 TACTCTCGCGAGCAAAGCCT 61.596 55.000 30.97 10.90 41.09 4.58
675 681 2.433145 TCTCGCGAGCAAAGCCTG 60.433 61.111 30.97 5.49 0.00 4.85
676 682 3.494336 CTCGCGAGCAAAGCCTGG 61.494 66.667 25.07 0.00 0.00 4.45
677 683 4.314440 TCGCGAGCAAAGCCTGGT 62.314 61.111 3.71 0.00 38.89 4.00
678 684 3.357079 CGCGAGCAAAGCCTGGTT 61.357 61.111 0.00 0.00 35.35 3.67
730 743 7.868775 AGTTCCACCTAATTAAAGTCGTTTTC 58.131 34.615 0.00 0.00 0.00 2.29
731 744 7.718314 AGTTCCACCTAATTAAAGTCGTTTTCT 59.282 33.333 0.00 0.00 0.00 2.52
732 745 8.347771 GTTCCACCTAATTAAAGTCGTTTTCTT 58.652 33.333 0.00 0.00 0.00 2.52
733 746 8.454570 TCCACCTAATTAAAGTCGTTTTCTTT 57.545 30.769 0.00 0.00 38.45 2.52
734 747 8.905850 TCCACCTAATTAAAGTCGTTTTCTTTT 58.094 29.630 0.00 0.00 36.65 2.27
838 851 2.553028 CCCCCTGATCAAATCCATACCG 60.553 54.545 0.00 0.00 0.00 4.02
894 907 4.760047 GCTGACGTGGCGGTGGAT 62.760 66.667 0.00 0.00 0.00 3.41
1115 1128 0.460284 CCTACACGTAGCTTGCTGGG 60.460 60.000 5.26 0.00 31.95 4.45
1207 1220 3.770040 CCCGCACTCCGTCCATGA 61.770 66.667 0.00 0.00 34.38 3.07
1215 1228 1.078497 TCCGTCCATGAATGCGCTT 60.078 52.632 9.73 0.00 0.00 4.68
1229 1242 2.579201 GCTTGAGCTCCGCTACCA 59.421 61.111 12.15 0.00 39.88 3.25
1486 1503 2.168313 TGGAGCAGATTCATTCGTGCTA 59.832 45.455 0.00 0.00 46.21 3.49
1490 1507 2.611292 GCAGATTCATTCGTGCTAAGCT 59.389 45.455 0.00 0.00 32.97 3.74
1623 1641 3.254024 ATCCTGCCGCCGACAAACT 62.254 57.895 0.00 0.00 0.00 2.66
1709 1727 4.640771 TGAGATACCTGAGCCAACTTTT 57.359 40.909 0.00 0.00 0.00 2.27
1774 1792 4.458989 GCAGTTTGATTTGGGTGACTATGA 59.541 41.667 0.00 0.00 0.00 2.15
1825 1843 3.561143 TGTTGTATCCTGTTTTGTGCCT 58.439 40.909 0.00 0.00 0.00 4.75
2031 2108 3.058224 GGAGTTAGTGTGTGGCAAATGTC 60.058 47.826 0.00 0.00 0.00 3.06
2188 2284 7.684062 ATTCATTTTCACTTCAAAGAACACG 57.316 32.000 0.00 0.00 0.00 4.49
2199 2308 4.677584 TCAAAGAACACGGAAACAATTGG 58.322 39.130 10.83 0.00 0.00 3.16
2300 2411 6.644347 ACATAAGTACTTCATGTTCTCCAGG 58.356 40.000 12.39 0.00 28.56 4.45
2301 2412 3.618690 AGTACTTCATGTTCTCCAGGC 57.381 47.619 0.00 0.00 0.00 4.85
2302 2413 2.906389 AGTACTTCATGTTCTCCAGGCA 59.094 45.455 0.00 0.00 0.00 4.75
2303 2414 2.957402 ACTTCATGTTCTCCAGGCAA 57.043 45.000 0.00 0.00 0.00 4.52
2304 2415 2.508526 ACTTCATGTTCTCCAGGCAAC 58.491 47.619 0.00 0.00 0.00 4.17
2305 2416 2.158623 ACTTCATGTTCTCCAGGCAACA 60.159 45.455 6.32 6.32 36.94 3.33
2306 2417 1.896220 TCATGTTCTCCAGGCAACAC 58.104 50.000 6.05 0.00 35.37 3.32
2307 2418 1.142667 TCATGTTCTCCAGGCAACACA 59.857 47.619 6.05 0.00 35.37 3.72
2308 2419 1.267806 CATGTTCTCCAGGCAACACAC 59.732 52.381 6.05 0.00 35.37 3.82
2309 2420 0.546122 TGTTCTCCAGGCAACACACT 59.454 50.000 0.58 0.00 41.41 3.55
2310 2421 1.765904 TGTTCTCCAGGCAACACACTA 59.234 47.619 0.58 0.00 41.41 2.74
2311 2422 2.143925 GTTCTCCAGGCAACACACTAC 58.856 52.381 0.00 0.00 41.41 2.73
2312 2423 1.717032 TCTCCAGGCAACACACTACT 58.283 50.000 0.00 0.00 41.41 2.57
2313 2424 2.047061 TCTCCAGGCAACACACTACTT 58.953 47.619 0.00 0.00 41.41 2.24
2314 2425 2.037251 TCTCCAGGCAACACACTACTTC 59.963 50.000 0.00 0.00 41.41 3.01
2315 2426 1.765904 TCCAGGCAACACACTACTTCA 59.234 47.619 0.00 0.00 41.41 3.02
2316 2427 2.371841 TCCAGGCAACACACTACTTCAT 59.628 45.455 0.00 0.00 41.41 2.57
2317 2428 3.580895 TCCAGGCAACACACTACTTCATA 59.419 43.478 0.00 0.00 41.41 2.15
2318 2429 4.041075 TCCAGGCAACACACTACTTCATAA 59.959 41.667 0.00 0.00 41.41 1.90
2319 2430 4.943705 CCAGGCAACACACTACTTCATAAT 59.056 41.667 0.00 0.00 41.41 1.28
2320 2431 5.065218 CCAGGCAACACACTACTTCATAATC 59.935 44.000 0.00 0.00 41.41 1.75
2321 2432 5.877012 CAGGCAACACACTACTTCATAATCT 59.123 40.000 0.00 0.00 41.41 2.40
2322 2433 6.372659 CAGGCAACACACTACTTCATAATCTT 59.627 38.462 0.00 0.00 41.41 2.40
2323 2434 6.942576 AGGCAACACACTACTTCATAATCTTT 59.057 34.615 0.00 0.00 41.41 2.52
2324 2435 8.100791 AGGCAACACACTACTTCATAATCTTTA 58.899 33.333 0.00 0.00 41.41 1.85
2325 2436 8.391106 GGCAACACACTACTTCATAATCTTTAG 58.609 37.037 0.00 0.00 0.00 1.85
2326 2437 7.905493 GCAACACACTACTTCATAATCTTTAGC 59.095 37.037 0.00 0.00 0.00 3.09
2327 2438 8.391106 CAACACACTACTTCATAATCTTTAGCC 58.609 37.037 0.00 0.00 0.00 3.93
2328 2439 7.620880 ACACACTACTTCATAATCTTTAGCCA 58.379 34.615 0.00 0.00 0.00 4.75
2329 2440 7.766278 ACACACTACTTCATAATCTTTAGCCAG 59.234 37.037 0.00 0.00 0.00 4.85
2330 2441 6.763610 ACACTACTTCATAATCTTTAGCCAGC 59.236 38.462 0.00 0.00 0.00 4.85
2331 2442 6.763135 CACTACTTCATAATCTTTAGCCAGCA 59.237 38.462 0.00 0.00 0.00 4.41
2332 2443 7.280876 CACTACTTCATAATCTTTAGCCAGCAA 59.719 37.037 0.00 0.00 0.00 3.91
2333 2444 6.690194 ACTTCATAATCTTTAGCCAGCAAG 57.310 37.500 0.00 0.00 0.00 4.01
2334 2445 5.067023 ACTTCATAATCTTTAGCCAGCAAGC 59.933 40.000 0.00 0.00 0.00 4.01
2335 2446 4.525996 TCATAATCTTTAGCCAGCAAGCA 58.474 39.130 0.55 0.00 34.23 3.91
2336 2447 4.336433 TCATAATCTTTAGCCAGCAAGCAC 59.664 41.667 0.55 0.00 34.23 4.40
2337 2448 2.205022 ATCTTTAGCCAGCAAGCACA 57.795 45.000 0.55 0.00 34.23 4.57
2338 2449 1.979855 TCTTTAGCCAGCAAGCACAA 58.020 45.000 0.55 0.00 34.23 3.33
2339 2450 2.305928 TCTTTAGCCAGCAAGCACAAA 58.694 42.857 0.55 0.39 34.23 2.83
2340 2451 2.692557 TCTTTAGCCAGCAAGCACAAAA 59.307 40.909 0.55 0.00 34.23 2.44
2341 2452 2.507339 TTAGCCAGCAAGCACAAAAC 57.493 45.000 0.55 0.00 34.23 2.43
2342 2453 1.397672 TAGCCAGCAAGCACAAAACA 58.602 45.000 0.55 0.00 34.23 2.83
2343 2454 0.179103 AGCCAGCAAGCACAAAACAC 60.179 50.000 0.55 0.00 34.23 3.32
2344 2455 0.459934 GCCAGCAAGCACAAAACACA 60.460 50.000 0.00 0.00 0.00 3.72
2345 2456 1.280066 CCAGCAAGCACAAAACACAC 58.720 50.000 0.00 0.00 0.00 3.82
2346 2457 1.403914 CCAGCAAGCACAAAACACACA 60.404 47.619 0.00 0.00 0.00 3.72
2347 2458 2.335752 CAGCAAGCACAAAACACACAA 58.664 42.857 0.00 0.00 0.00 3.33
2348 2459 2.735663 CAGCAAGCACAAAACACACAAA 59.264 40.909 0.00 0.00 0.00 2.83
2349 2460 2.736192 AGCAAGCACAAAACACACAAAC 59.264 40.909 0.00 0.00 0.00 2.93
2350 2461 2.478134 GCAAGCACAAAACACACAAACA 59.522 40.909 0.00 0.00 0.00 2.83
2351 2462 3.124976 GCAAGCACAAAACACACAAACAT 59.875 39.130 0.00 0.00 0.00 2.71
2352 2463 4.328440 GCAAGCACAAAACACACAAACATA 59.672 37.500 0.00 0.00 0.00 2.29
2353 2464 5.163913 GCAAGCACAAAACACACAAACATAA 60.164 36.000 0.00 0.00 0.00 1.90
2354 2465 6.468484 CAAGCACAAAACACACAAACATAAG 58.532 36.000 0.00 0.00 0.00 1.73
2355 2466 5.719173 AGCACAAAACACACAAACATAAGT 58.281 33.333 0.00 0.00 0.00 2.24
2356 2467 6.857956 AGCACAAAACACACAAACATAAGTA 58.142 32.000 0.00 0.00 0.00 2.24
2357 2468 6.750039 AGCACAAAACACACAAACATAAGTAC 59.250 34.615 0.00 0.00 0.00 2.73
2358 2469 6.750039 GCACAAAACACACAAACATAAGTACT 59.250 34.615 0.00 0.00 0.00 2.73
2359 2470 7.274686 GCACAAAACACACAAACATAAGTACTT 59.725 33.333 13.68 13.68 0.00 2.24
2360 2471 8.794406 CACAAAACACACAAACATAAGTACTTC 58.206 33.333 12.39 0.00 0.00 3.01
2361 2472 8.516234 ACAAAACACACAAACATAAGTACTTCA 58.484 29.630 12.39 0.00 0.00 3.02
2362 2473 9.515020 CAAAACACACAAACATAAGTACTTCAT 57.485 29.630 12.39 1.78 0.00 2.57
2363 2474 9.515020 AAAACACACAAACATAAGTACTTCATG 57.485 29.630 12.39 15.33 0.00 3.07
2364 2475 7.801716 ACACACAAACATAAGTACTTCATGT 57.198 32.000 12.39 15.91 34.42 3.21
2365 2476 8.220755 ACACACAAACATAAGTACTTCATGTT 57.779 30.769 23.41 23.41 43.01 2.71
2366 2477 8.342634 ACACACAAACATAAGTACTTCATGTTC 58.657 33.333 26.19 0.00 40.94 3.18
2367 2478 8.559536 CACACAAACATAAGTACTTCATGTTCT 58.440 33.333 26.19 19.07 40.94 3.01
2368 2479 8.774586 ACACAAACATAAGTACTTCATGTTCTC 58.225 33.333 26.19 0.00 40.94 2.87
2369 2480 8.230486 CACAAACATAAGTACTTCATGTTCTCC 58.770 37.037 26.19 0.00 40.94 3.71
2370 2481 7.936847 ACAAACATAAGTACTTCATGTTCTCCA 59.063 33.333 26.19 6.81 40.94 3.86
2371 2482 8.783093 CAAACATAAGTACTTCATGTTCTCCAA 58.217 33.333 26.19 6.41 40.94 3.53
2406 2517 5.774690 ACTTCATAATCCAGCAAAGAACCAA 59.225 36.000 0.00 0.00 0.00 3.67
2412 2523 3.096092 TCCAGCAAAGAACCAACAAACT 58.904 40.909 0.00 0.00 0.00 2.66
2486 2597 6.711277 ACTCCTAAGTTCATCAAACATGCTA 58.289 36.000 0.00 0.00 40.56 3.49
2538 2649 4.558538 AGTCTTTTGCACACTTTAGCTG 57.441 40.909 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 7.247019 GCTTGCTAACTTTCAAAAGATAGAGG 58.753 38.462 18.54 10.75 41.32 3.69
16 17 7.120432 AGGCTTGCTAACTTTCAAAAGATAGAG 59.880 37.037 18.54 11.43 41.32 2.43
17 18 6.942576 AGGCTTGCTAACTTTCAAAAGATAGA 59.057 34.615 18.54 6.14 41.32 1.98
18 19 7.150783 AGGCTTGCTAACTTTCAAAAGATAG 57.849 36.000 9.39 11.36 41.57 2.08
19 20 7.883311 ACTAGGCTTGCTAACTTTCAAAAGATA 59.117 33.333 9.39 1.44 39.31 1.98
20 21 6.717084 ACTAGGCTTGCTAACTTTCAAAAGAT 59.283 34.615 9.39 0.26 39.31 2.40
21 22 6.062095 ACTAGGCTTGCTAACTTTCAAAAGA 58.938 36.000 9.39 0.00 39.31 2.52
22 23 6.319141 ACTAGGCTTGCTAACTTTCAAAAG 57.681 37.500 0.00 0.97 41.73 2.27
23 24 7.996098 ATACTAGGCTTGCTAACTTTCAAAA 57.004 32.000 0.00 0.00 0.00 2.44
27 28 8.604890 CAAAGTATACTAGGCTTGCTAACTTTC 58.395 37.037 5.65 0.00 33.63 2.62
28 29 8.101419 ACAAAGTATACTAGGCTTGCTAACTTT 58.899 33.333 5.65 13.32 35.62 2.66
38 39 8.566260 CGTATTAGTCACAAAGTATACTAGGCT 58.434 37.037 5.65 6.39 0.00 4.58
62 67 2.851195 AGCTGGAAGAAATGACAACGT 58.149 42.857 0.00 0.00 34.07 3.99
64 69 4.936891 ACAAAGCTGGAAGAAATGACAAC 58.063 39.130 0.00 0.00 34.07 3.32
66 71 5.278463 GCTTACAAAGCTGGAAGAAATGACA 60.278 40.000 2.15 0.00 45.30 3.58
67 72 5.157067 GCTTACAAAGCTGGAAGAAATGAC 58.843 41.667 2.15 0.00 45.30 3.06
82 87 7.336931 GGGAGAGATCTTTATTGTGCTTACAAA 59.663 37.037 0.00 0.00 32.94 2.83
83 88 6.823689 GGGAGAGATCTTTATTGTGCTTACAA 59.176 38.462 0.00 0.00 0.00 2.41
84 89 6.349300 GGGAGAGATCTTTATTGTGCTTACA 58.651 40.000 0.00 0.00 0.00 2.41
92 98 4.345257 TCCTTCCGGGAGAGATCTTTATTG 59.655 45.833 12.85 0.00 39.58 1.90
93 99 4.345547 GTCCTTCCGGGAGAGATCTTTATT 59.654 45.833 12.85 0.00 46.10 1.40
108 114 0.464452 ATAAGAAGCCCGTCCTTCCG 59.536 55.000 8.24 0.00 41.65 4.30
131 137 3.822735 CTCAAAGACCTTGGCATCTTCAA 59.177 43.478 2.53 0.00 34.01 2.69
135 141 2.641815 ACTCTCAAAGACCTTGGCATCT 59.358 45.455 0.00 0.00 35.56 2.90
138 144 1.202806 CCACTCTCAAAGACCTTGGCA 60.203 52.381 0.00 0.00 35.56 4.92
139 145 1.528129 CCACTCTCAAAGACCTTGGC 58.472 55.000 0.00 0.00 35.56 4.52
140 146 1.699634 TCCCACTCTCAAAGACCTTGG 59.300 52.381 0.00 0.00 35.56 3.61
149 155 6.012508 ACCTGAAAATATCTTCCCACTCTCAA 60.013 38.462 0.00 0.00 0.00 3.02
150 156 5.488919 ACCTGAAAATATCTTCCCACTCTCA 59.511 40.000 0.00 0.00 0.00 3.27
151 157 5.995446 ACCTGAAAATATCTTCCCACTCTC 58.005 41.667 0.00 0.00 0.00 3.20
152 158 6.394345 AACCTGAAAATATCTTCCCACTCT 57.606 37.500 0.00 0.00 0.00 3.24
156 162 8.950007 AACTAAAACCTGAAAATATCTTCCCA 57.050 30.769 0.00 0.00 0.00 4.37
163 169 7.881232 TGGACGAGAACTAAAACCTGAAAATAT 59.119 33.333 0.00 0.00 0.00 1.28
167 173 5.026038 TGGACGAGAACTAAAACCTGAAA 57.974 39.130 0.00 0.00 0.00 2.69
182 188 2.092968 TCCAAGGGAAATGATGGACGAG 60.093 50.000 0.00 0.00 37.05 4.18
183 189 1.912731 TCCAAGGGAAATGATGGACGA 59.087 47.619 0.00 0.00 37.05 4.20
242 248 2.079158 CACCAGTAATGAGCACTGTGG 58.921 52.381 10.21 0.00 41.52 4.17
245 251 3.044235 TGTCACCAGTAATGAGCACTG 57.956 47.619 0.00 0.00 42.52 3.66
248 254 5.420725 AAGTATGTCACCAGTAATGAGCA 57.579 39.130 0.00 0.00 0.00 4.26
268 274 0.742281 ATCACGTGCCAGCTGCTAAG 60.742 55.000 11.67 4.01 42.00 2.18
276 282 0.535780 ATATGCCCATCACGTGCCAG 60.536 55.000 11.67 2.56 0.00 4.85
278 284 1.951510 CATATGCCCATCACGTGCC 59.048 57.895 11.67 0.00 0.00 5.01
283 289 1.268899 GCAAGAGCATATGCCCATCAC 59.731 52.381 23.96 6.29 43.38 3.06
328 334 0.179048 CACACAGCACCAGGTTCAGA 60.179 55.000 0.00 0.00 0.00 3.27
329 335 0.464373 ACACACAGCACCAGGTTCAG 60.464 55.000 0.00 0.00 0.00 3.02
330 336 0.034574 AACACACAGCACCAGGTTCA 60.035 50.000 0.00 0.00 0.00 3.18
331 337 0.663153 GAACACACAGCACCAGGTTC 59.337 55.000 0.00 0.00 0.00 3.62
355 361 9.952030 TGTGATTGTAATCCAAACTATAGTTCA 57.048 29.630 18.28 7.59 36.44 3.18
387 393 1.331756 CAGCCTGTGTGTTGTCTGAAC 59.668 52.381 0.00 0.00 0.00 3.18
393 399 1.666209 GGTTGCAGCCTGTGTGTTGT 61.666 55.000 13.08 0.00 0.00 3.32
406 412 4.577677 TTGCAGGGCTCGGTTGCA 62.578 61.111 0.00 0.00 45.28 4.08
407 413 4.043200 GTTGCAGGGCTCGGTTGC 62.043 66.667 0.00 0.00 38.30 4.17
408 414 2.281761 AGTTGCAGGGCTCGGTTG 60.282 61.111 0.00 0.00 0.00 3.77
409 415 2.032681 GAGTTGCAGGGCTCGGTT 59.967 61.111 0.00 0.00 0.00 4.44
410 416 4.021925 GGAGTTGCAGGGCTCGGT 62.022 66.667 8.30 0.00 32.83 4.69
411 417 2.359169 TAGGAGTTGCAGGGCTCGG 61.359 63.158 8.30 0.00 32.83 4.63
412 418 1.153549 GTAGGAGTTGCAGGGCTCG 60.154 63.158 8.30 0.00 32.83 5.03
413 419 1.222113 GGTAGGAGTTGCAGGGCTC 59.778 63.158 6.50 6.50 0.00 4.70
414 420 0.916358 ATGGTAGGAGTTGCAGGGCT 60.916 55.000 0.00 0.00 0.00 5.19
415 421 0.837272 TATGGTAGGAGTTGCAGGGC 59.163 55.000 0.00 0.00 0.00 5.19
416 422 2.238646 TGTTATGGTAGGAGTTGCAGGG 59.761 50.000 0.00 0.00 0.00 4.45
417 423 3.535561 CTGTTATGGTAGGAGTTGCAGG 58.464 50.000 0.00 0.00 0.00 4.85
418 424 2.939103 GCTGTTATGGTAGGAGTTGCAG 59.061 50.000 0.00 0.00 0.00 4.41
429 435 2.597455 AGCAAACAAGGCTGTTATGGT 58.403 42.857 0.00 0.40 45.25 3.55
469 475 8.451908 TCGAAAAGGAAGAGAAGAATCTTTTT 57.548 30.769 0.00 0.00 39.63 1.94
504 510 3.964031 TGGTAGTCAATGCCTTGGTTTTT 59.036 39.130 1.68 0.00 34.11 1.94
505 511 3.571590 TGGTAGTCAATGCCTTGGTTTT 58.428 40.909 1.68 0.00 34.11 2.43
506 512 3.237268 TGGTAGTCAATGCCTTGGTTT 57.763 42.857 1.68 0.00 34.11 3.27
507 513 2.969821 TGGTAGTCAATGCCTTGGTT 57.030 45.000 1.68 0.00 34.11 3.67
619 625 3.242316 GGAATTCAGTTAACGGATGCGTC 60.242 47.826 14.18 0.00 0.00 5.19
627 633 5.356882 TTCTGCTTGGAATTCAGTTAACG 57.643 39.130 7.93 0.00 0.00 3.18
639 645 4.382040 CGAGAGTAATCCTTTCTGCTTGGA 60.382 45.833 0.00 0.00 0.00 3.53
658 664 2.433145 CAGGCTTTGCTCGCGAGA 60.433 61.111 38.74 20.88 39.12 4.04
659 665 3.494336 CCAGGCTTTGCTCGCGAG 61.494 66.667 31.37 31.37 0.00 5.03
661 667 1.573829 TTAACCAGGCTTTGCTCGCG 61.574 55.000 0.00 0.00 0.00 5.87
662 668 0.596082 TTTAACCAGGCTTTGCTCGC 59.404 50.000 0.00 0.00 0.00 5.03
663 669 3.363341 TTTTTAACCAGGCTTTGCTCG 57.637 42.857 0.00 0.00 0.00 5.03
706 719 7.868775 AGAAAACGACTTTAATTAGGTGGAAC 58.131 34.615 0.00 0.00 0.00 3.62
754 767 4.755123 CACCAACTTTGTTCAGGGTAGTAG 59.245 45.833 0.00 0.00 0.00 2.57
851 864 2.298163 GGTCGAGACAAACCACTAAGGA 59.702 50.000 5.55 0.00 41.22 3.36
853 866 3.318017 CAGGTCGAGACAAACCACTAAG 58.682 50.000 5.55 0.00 38.06 2.18
855 868 1.616865 CCAGGTCGAGACAAACCACTA 59.383 52.381 5.55 0.00 38.06 2.74
856 869 0.393077 CCAGGTCGAGACAAACCACT 59.607 55.000 5.55 0.00 38.06 4.00
894 907 1.424684 AGCCGGTAAAAACCACCCTTA 59.575 47.619 1.90 0.00 31.96 2.69
1229 1242 4.373116 CCAGCAGCACGTACCGGT 62.373 66.667 13.98 13.98 0.00 5.28
1290 1303 3.984193 CTCCAAGGCCGCCAGAAGG 62.984 68.421 13.15 7.61 38.23 3.46
1369 1382 1.609061 CGTTGAGAAGGTGAGCCACAT 60.609 52.381 7.49 0.00 35.86 3.21
1490 1507 0.320374 CCTGTACTCGAAAGCACCCA 59.680 55.000 0.00 0.00 0.00 4.51
1500 1518 0.528017 TGAGCTTGCTCCTGTACTCG 59.472 55.000 18.48 0.00 0.00 4.18
1552 1570 0.871722 TGCTTTCACCGATTCCGTTG 59.128 50.000 0.00 0.00 0.00 4.10
1553 1571 1.156736 CTGCTTTCACCGATTCCGTT 58.843 50.000 0.00 0.00 0.00 4.44
1709 1727 4.193090 TCGACTCAGGTTGCTTGTTAAAA 58.807 39.130 0.00 0.00 0.00 1.52
1825 1843 5.817296 CCACGATCAATCACCTCTTTCATAA 59.183 40.000 0.00 0.00 0.00 1.90
2031 2108 3.753272 CACACCAAGTCCACTGGATTAAG 59.247 47.826 0.00 0.00 32.73 1.85
2172 2268 4.004314 TGTTTCCGTGTTCTTTGAAGTGA 58.996 39.130 0.00 0.00 0.00 3.41
2188 2284 6.146021 CACAACAGCTAAATCCAATTGTTTCC 59.854 38.462 4.43 0.00 0.00 3.13
2199 2308 5.691305 TGTTTGCATTCACAACAGCTAAATC 59.309 36.000 0.00 0.00 0.00 2.17
2300 2411 7.905493 GCTAAAGATTATGAAGTAGTGTGTTGC 59.095 37.037 0.00 0.00 0.00 4.17
2301 2412 8.391106 GGCTAAAGATTATGAAGTAGTGTGTTG 58.609 37.037 0.00 0.00 0.00 3.33
2302 2413 8.100791 TGGCTAAAGATTATGAAGTAGTGTGTT 58.899 33.333 0.00 0.00 0.00 3.32
2303 2414 7.620880 TGGCTAAAGATTATGAAGTAGTGTGT 58.379 34.615 0.00 0.00 0.00 3.72
2304 2415 7.254590 GCTGGCTAAAGATTATGAAGTAGTGTG 60.255 40.741 0.00 0.00 0.00 3.82
2305 2416 6.763610 GCTGGCTAAAGATTATGAAGTAGTGT 59.236 38.462 0.00 0.00 0.00 3.55
2306 2417 6.763135 TGCTGGCTAAAGATTATGAAGTAGTG 59.237 38.462 0.00 0.00 0.00 2.74
2307 2418 6.889198 TGCTGGCTAAAGATTATGAAGTAGT 58.111 36.000 0.00 0.00 0.00 2.73
2308 2419 7.519649 GCTTGCTGGCTAAAGATTATGAAGTAG 60.520 40.741 0.00 0.00 0.00 2.57
2309 2420 6.260936 GCTTGCTGGCTAAAGATTATGAAGTA 59.739 38.462 0.00 0.00 0.00 2.24
2310 2421 5.067023 GCTTGCTGGCTAAAGATTATGAAGT 59.933 40.000 0.00 0.00 0.00 3.01
2311 2422 5.066893 TGCTTGCTGGCTAAAGATTATGAAG 59.933 40.000 3.49 0.00 0.00 3.02
2312 2423 4.949238 TGCTTGCTGGCTAAAGATTATGAA 59.051 37.500 3.49 0.00 0.00 2.57
2313 2424 4.336433 GTGCTTGCTGGCTAAAGATTATGA 59.664 41.667 3.49 0.00 0.00 2.15
2314 2425 4.096833 TGTGCTTGCTGGCTAAAGATTATG 59.903 41.667 3.49 0.00 0.00 1.90
2315 2426 4.272489 TGTGCTTGCTGGCTAAAGATTAT 58.728 39.130 3.49 0.00 0.00 1.28
2316 2427 3.684908 TGTGCTTGCTGGCTAAAGATTA 58.315 40.909 3.49 0.00 0.00 1.75
2317 2428 2.517959 TGTGCTTGCTGGCTAAAGATT 58.482 42.857 3.49 0.00 0.00 2.40
2318 2429 2.205022 TGTGCTTGCTGGCTAAAGAT 57.795 45.000 3.49 0.00 0.00 2.40
2319 2430 1.979855 TTGTGCTTGCTGGCTAAAGA 58.020 45.000 3.49 0.00 0.00 2.52
2320 2431 2.796593 GTTTTGTGCTTGCTGGCTAAAG 59.203 45.455 3.49 0.00 0.00 1.85
2321 2432 2.167281 TGTTTTGTGCTTGCTGGCTAAA 59.833 40.909 3.49 2.99 0.00 1.85
2322 2433 1.753649 TGTTTTGTGCTTGCTGGCTAA 59.246 42.857 3.49 0.00 0.00 3.09
2323 2434 1.066908 GTGTTTTGTGCTTGCTGGCTA 59.933 47.619 3.49 0.00 0.00 3.93
2324 2435 0.179103 GTGTTTTGTGCTTGCTGGCT 60.179 50.000 3.49 0.00 0.00 4.75
2325 2436 0.459934 TGTGTTTTGTGCTTGCTGGC 60.460 50.000 0.00 0.00 0.00 4.85
2326 2437 1.280066 GTGTGTTTTGTGCTTGCTGG 58.720 50.000 0.00 0.00 0.00 4.85
2327 2438 1.993542 TGTGTGTTTTGTGCTTGCTG 58.006 45.000 0.00 0.00 0.00 4.41
2328 2439 2.736192 GTTTGTGTGTTTTGTGCTTGCT 59.264 40.909 0.00 0.00 0.00 3.91
2329 2440 2.478134 TGTTTGTGTGTTTTGTGCTTGC 59.522 40.909 0.00 0.00 0.00 4.01
2330 2441 4.925061 ATGTTTGTGTGTTTTGTGCTTG 57.075 36.364 0.00 0.00 0.00 4.01
2331 2442 6.162777 ACTTATGTTTGTGTGTTTTGTGCTT 58.837 32.000 0.00 0.00 0.00 3.91
2332 2443 5.719173 ACTTATGTTTGTGTGTTTTGTGCT 58.281 33.333 0.00 0.00 0.00 4.40
2333 2444 6.750039 AGTACTTATGTTTGTGTGTTTTGTGC 59.250 34.615 0.00 0.00 0.00 4.57
2334 2445 8.682128 AAGTACTTATGTTTGTGTGTTTTGTG 57.318 30.769 6.26 0.00 0.00 3.33
2335 2446 8.516234 TGAAGTACTTATGTTTGTGTGTTTTGT 58.484 29.630 8.42 0.00 0.00 2.83
2336 2447 8.903570 TGAAGTACTTATGTTTGTGTGTTTTG 57.096 30.769 8.42 0.00 0.00 2.44
2337 2448 9.515020 CATGAAGTACTTATGTTTGTGTGTTTT 57.485 29.630 8.42 0.00 0.00 2.43
2338 2449 8.682710 ACATGAAGTACTTATGTTTGTGTGTTT 58.317 29.630 8.42 0.00 31.38 2.83
2339 2450 8.220755 ACATGAAGTACTTATGTTTGTGTGTT 57.779 30.769 8.42 0.00 31.38 3.32
2340 2451 7.801716 ACATGAAGTACTTATGTTTGTGTGT 57.198 32.000 8.42 1.15 31.38 3.72
2341 2452 8.559536 AGAACATGAAGTACTTATGTTTGTGTG 58.440 33.333 26.46 13.23 43.03 3.82
2342 2453 8.677148 AGAACATGAAGTACTTATGTTTGTGT 57.323 30.769 26.46 15.36 43.03 3.72
2343 2454 8.230486 GGAGAACATGAAGTACTTATGTTTGTG 58.770 37.037 26.46 14.94 43.03 3.33
2344 2455 7.936847 TGGAGAACATGAAGTACTTATGTTTGT 59.063 33.333 26.46 21.18 43.03 2.83
2345 2456 8.322906 TGGAGAACATGAAGTACTTATGTTTG 57.677 34.615 26.46 16.37 43.03 2.93
2346 2457 8.784043 GTTGGAGAACATGAAGTACTTATGTTT 58.216 33.333 26.46 20.54 43.03 2.83
2347 2458 7.390718 GGTTGGAGAACATGAAGTACTTATGTT 59.609 37.037 26.26 26.26 44.96 2.71
2348 2459 6.879458 GGTTGGAGAACATGAAGTACTTATGT 59.121 38.462 8.42 14.59 36.66 2.29
2349 2460 6.878923 TGGTTGGAGAACATGAAGTACTTATG 59.121 38.462 8.42 14.02 33.27 1.90
2350 2461 7.016153 TGGTTGGAGAACATGAAGTACTTAT 57.984 36.000 8.42 0.20 33.27 1.73
2351 2462 6.428083 TGGTTGGAGAACATGAAGTACTTA 57.572 37.500 8.42 0.00 33.27 2.24
2352 2463 5.304686 TGGTTGGAGAACATGAAGTACTT 57.695 39.130 8.13 8.13 33.27 2.24
2353 2464 4.974645 TGGTTGGAGAACATGAAGTACT 57.025 40.909 0.00 0.00 33.27 2.73
2354 2465 4.819630 TGTTGGTTGGAGAACATGAAGTAC 59.180 41.667 0.00 0.00 33.27 2.73
2355 2466 4.819630 GTGTTGGTTGGAGAACATGAAGTA 59.180 41.667 0.00 0.00 34.69 2.24
2356 2467 3.632145 GTGTTGGTTGGAGAACATGAAGT 59.368 43.478 0.00 0.00 34.69 3.01
2357 2468 3.631686 TGTGTTGGTTGGAGAACATGAAG 59.368 43.478 0.00 0.00 34.69 3.02
2358 2469 3.380004 GTGTGTTGGTTGGAGAACATGAA 59.620 43.478 0.00 0.00 34.69 2.57
2359 2470 2.948979 GTGTGTTGGTTGGAGAACATGA 59.051 45.455 0.00 0.00 34.69 3.07
2360 2471 2.951642 AGTGTGTTGGTTGGAGAACATG 59.048 45.455 0.00 0.00 34.69 3.21
2361 2472 3.297134 AGTGTGTTGGTTGGAGAACAT 57.703 42.857 0.00 0.00 34.69 2.71
2362 2473 2.799126 AGTGTGTTGGTTGGAGAACA 57.201 45.000 0.00 0.00 33.27 3.18
2363 2474 3.805207 AGTAGTGTGTTGGTTGGAGAAC 58.195 45.455 0.00 0.00 0.00 3.01
2364 2475 4.080807 TGAAGTAGTGTGTTGGTTGGAGAA 60.081 41.667 0.00 0.00 0.00 2.87
2365 2476 3.452990 TGAAGTAGTGTGTTGGTTGGAGA 59.547 43.478 0.00 0.00 0.00 3.71
2366 2477 3.804036 TGAAGTAGTGTGTTGGTTGGAG 58.196 45.455 0.00 0.00 0.00 3.86
2367 2478 3.916359 TGAAGTAGTGTGTTGGTTGGA 57.084 42.857 0.00 0.00 0.00 3.53
2368 2479 6.128007 GGATTATGAAGTAGTGTGTTGGTTGG 60.128 42.308 0.00 0.00 0.00 3.77
2369 2480 6.429692 TGGATTATGAAGTAGTGTGTTGGTTG 59.570 38.462 0.00 0.00 0.00 3.77
2370 2481 6.539173 TGGATTATGAAGTAGTGTGTTGGTT 58.461 36.000 0.00 0.00 0.00 3.67
2371 2482 6.121776 TGGATTATGAAGTAGTGTGTTGGT 57.878 37.500 0.00 0.00 0.00 3.67
2406 2517 2.224523 TGGCTGTAGCTGCTTAGTTTGT 60.225 45.455 7.79 0.00 41.70 2.83
2412 2523 0.250234 CTGGTGGCTGTAGCTGCTTA 59.750 55.000 7.79 0.00 41.70 3.09
2486 2597 0.684805 CTAGGCAGAGGAGGACCGTT 60.685 60.000 0.00 0.00 41.83 4.44
2538 2649 4.142469 ACAAGTCAACAAAACTGCACCTAC 60.142 41.667 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.