Multiple sequence alignment - TraesCS2B01G096700

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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 TraesCS2B01G096700 chr2B 100.000 3404 0 0 1 3404 56898491 56901894 0.000000e+00 6287.0
1 TraesCS2B01G096700 chr2B 88.394 741 54 17 1011 1727 56917708 56916976 0.000000e+00 863.0
2 TraesCS2B01G096700 chr2B 100.000 321 0 0 3824 4144 56902314 56902634 9.920000e-166 593.0
3 TraesCS2B01G096700 chr2B 90.909 286 15 5 2317 2599 56916503 56916226 1.410000e-99 374.0
4 TraesCS2B01G096700 chr2B 92.254 142 7 2 488 629 64328600 64328737 9.090000e-47 198.0
5 TraesCS2B01G096700 chr2D 88.110 2910 150 85 34 2834 34328571 34331393 0.000000e+00 3277.0
6 TraesCS2B01G096700 chr2D 88.482 738 52 14 1011 1722 34343847 34343117 0.000000e+00 861.0
7 TraesCS2B01G096700 chr2D 90.493 284 16 4 2315 2595 34342584 34342309 8.470000e-97 364.0
8 TraesCS2B01G096700 chr2D 87.556 225 18 7 2878 3094 34331658 34331880 6.880000e-63 252.0
9 TraesCS2B01G096700 chr2A 84.957 2114 164 77 4 2046 37268460 37270490 0.000000e+00 2001.0
10 TraesCS2B01G096700 chr2A 94.531 1024 43 8 2121 3134 37270520 37271540 0.000000e+00 1568.0
11 TraesCS2B01G096700 chr2A 87.297 740 64 15 1011 1727 37276745 37276013 0.000000e+00 819.0
12 TraesCS2B01G096700 chr2A 91.195 318 27 1 3824 4140 37271899 37272216 8.230000e-117 431.0
13 TraesCS2B01G096700 chr2A 90.210 286 17 4 2317 2599 37275495 37275218 3.040000e-96 363.0
14 TraesCS2B01G096700 chr2A 86.466 133 15 3 50 181 37267208 37267338 4.320000e-30 143.0
15 TraesCS2B01G096700 chr7A 90.845 142 9 1 488 629 645688569 645688432 1.970000e-43 187.0
16 TraesCS2B01G096700 chr7A 93.269 104 6 1 27 129 46802290 46802393 7.180000e-33 152.0
17 TraesCS2B01G096700 chr7A 93.204 103 4 3 25 126 47501593 47501493 9.280000e-32 148.0
18 TraesCS2B01G096700 chr5A 90.845 142 9 1 488 629 25201371 25201508 1.970000e-43 187.0
19 TraesCS2B01G096700 chr5A 88.356 146 13 1 484 629 55941170 55941029 5.510000e-39 172.0
20 TraesCS2B01G096700 chr5D 90.141 142 10 1 488 629 395205637 395205500 9.150000e-42 182.0
21 TraesCS2B01G096700 chr1A 90.141 142 10 1 488 629 329711415 329711552 9.150000e-42 182.0
22 TraesCS2B01G096700 chr6A 89.437 142 11 1 488 629 615787886 615787749 4.260000e-40 176.0
23 TraesCS2B01G096700 chrUn 92.063 126 6 3 4 129 401612335 401612456 1.530000e-39 174.0
24 TraesCS2B01G096700 chrUn 82.036 167 10 10 268 434 401612542 401612688 1.560000e-24 124.0
25 TraesCS2B01G096700 chr7B 92.063 126 6 3 4 129 680260085 680260206 1.530000e-39 174.0
26 TraesCS2B01G096700 chr7B 82.036 167 10 10 268 434 680260292 680260438 1.560000e-24 124.0
27 TraesCS2B01G096700 chr3A 88.489 139 12 3 491 629 561456124 561455990 9.220000e-37 165.0
28 TraesCS2B01G096700 chr3A 91.919 99 7 1 261 359 561456347 561456250 2.010000e-28 137.0
29 TraesCS2B01G096700 chr5B 91.150 113 6 4 16 126 563122915 563123025 2.580000e-32 150.0
30 TraesCS2B01G096700 chr5B 94.340 53 3 0 385 437 10310090 10310142 9.550000e-12 82.4
31 TraesCS2B01G096700 chr7D 89.744 117 9 2 6 122 601079935 601080048 3.340000e-31 147.0
32 TraesCS2B01G096700 chr4A 90.909 110 6 4 16 125 656492068 656492173 1.200000e-30 145.0
33 TraesCS2B01G096700 chr6B 94.340 53 3 0 385 437 236301500 236301448 9.550000e-12 82.4


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 TraesCS2B01G096700 chr2B 56898491 56902634 4143 False 3440.00 6287 100.00000 1 4144 2 chr2B.!!$F2 4143
1 TraesCS2B01G096700 chr2B 56916226 56917708 1482 True 618.50 863 89.65150 1011 2599 2 chr2B.!!$R1 1588
2 TraesCS2B01G096700 chr2D 34328571 34331880 3309 False 1764.50 3277 87.83300 34 3094 2 chr2D.!!$F1 3060
3 TraesCS2B01G096700 chr2D 34342309 34343847 1538 True 612.50 861 89.48750 1011 2595 2 chr2D.!!$R1 1584
4 TraesCS2B01G096700 chr2A 37267208 37272216 5008 False 1035.75 2001 89.28725 4 4140 4 chr2A.!!$F1 4136
5 TraesCS2B01G096700 chr2A 37275218 37276745 1527 True 591.00 819 88.75350 1011 2599 2 chr2A.!!$R1 1588

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
909 2233 0.038890 TTTGGCCGGAATCACATCCA 59.961 50.0 5.05 0.0 39.61 3.41 F
910 2234 0.679640 TTGGCCGGAATCACATCCAC 60.680 55.0 5.05 0.0 39.61 4.02 F
2137 3610 0.330941 TGCATGGCATGTAAGGACCA 59.669 50.0 26.94 12.7 31.71 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2137 3610 0.032403 GAGCATCGAGAGCAGAGCAT 59.968 55.0 14.14 0.00 0.00 3.79 R
2139 3612 0.595567 CAGAGCATCGAGAGCAGAGC 60.596 60.0 14.14 2.21 42.67 4.09 R
3239 4991 0.036010 ATGACTCGGCTTGGTTCTGG 60.036 55.0 0.00 0.00 0.00 3.86 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
37 1287 4.836125 TCAGCCTAGCAAAACAGAAAAG 57.164 40.909 0.00 0.00 0.00 2.27
38 1288 4.460263 TCAGCCTAGCAAAACAGAAAAGA 58.540 39.130 0.00 0.00 0.00 2.52
40 1290 5.359576 TCAGCCTAGCAAAACAGAAAAGAAA 59.640 36.000 0.00 0.00 0.00 2.52
41 1291 6.042143 CAGCCTAGCAAAACAGAAAAGAAAA 58.958 36.000 0.00 0.00 0.00 2.29
43 1293 7.225341 CAGCCTAGCAAAACAGAAAAGAAAAAT 59.775 33.333 0.00 0.00 0.00 1.82
44 1294 8.421002 AGCCTAGCAAAACAGAAAAGAAAAATA 58.579 29.630 0.00 0.00 0.00 1.40
45 1295 8.703336 GCCTAGCAAAACAGAAAAGAAAAATAG 58.297 33.333 0.00 0.00 0.00 1.73
122 1372 1.061812 ACCATCTGAGCTACATCCCCT 60.062 52.381 0.00 0.00 0.00 4.79
123 1373 2.053244 CCATCTGAGCTACATCCCCTT 58.947 52.381 0.00 0.00 0.00 3.95
127 1377 1.556911 CTGAGCTACATCCCCTTGTGT 59.443 52.381 0.00 0.00 0.00 3.72
132 1382 2.359900 CTACATCCCCTTGTGTTGCTC 58.640 52.381 0.00 0.00 0.00 4.26
133 1383 0.773644 ACATCCCCTTGTGTTGCTCT 59.226 50.000 0.00 0.00 0.00 4.09
136 1386 0.687354 TCCCCTTGTGTTGCTCTCTC 59.313 55.000 0.00 0.00 0.00 3.20
138 1388 1.072965 CCCCTTGTGTTGCTCTCTCTT 59.927 52.381 0.00 0.00 0.00 2.85
139 1389 2.487986 CCCCTTGTGTTGCTCTCTCTTT 60.488 50.000 0.00 0.00 0.00 2.52
141 1391 4.389374 CCCTTGTGTTGCTCTCTCTTTAA 58.611 43.478 0.00 0.00 0.00 1.52
146 1396 7.360438 CCTTGTGTTGCTCTCTCTTTAACATAC 60.360 40.741 0.00 0.00 34.27 2.39
149 1399 8.311109 TGTGTTGCTCTCTCTTTAACATACATA 58.689 33.333 0.00 0.00 34.27 2.29
205 1455 3.452627 ACCTCACGGCAGATCTATTTCTT 59.547 43.478 0.00 0.00 0.00 2.52
251 1510 1.144936 CTGCTTCCCGTCATCCCTC 59.855 63.158 0.00 0.00 0.00 4.30
279 1538 3.190874 GCTGTACTGTTCCTGCTGATAC 58.809 50.000 1.46 0.00 0.00 2.24
315 1574 3.569701 TCTGAAACTGAATCCTGTTTGGC 59.430 43.478 6.28 0.00 42.14 4.52
320 1579 3.350833 ACTGAATCCTGTTTGGCTCATC 58.649 45.455 0.00 0.00 35.26 2.92
326 1585 2.503765 TCCTGTTTGGCTCATCCGATAA 59.496 45.455 0.00 0.00 37.80 1.75
348 1607 4.079253 AGGAACGAAAGCAAACCATGTAT 58.921 39.130 0.00 0.00 0.00 2.29
349 1608 4.082787 AGGAACGAAAGCAAACCATGTATG 60.083 41.667 0.00 0.00 0.00 2.39
351 1610 5.393027 GGAACGAAAGCAAACCATGTATGAT 60.393 40.000 0.00 0.00 0.00 2.45
352 1611 5.235305 ACGAAAGCAAACCATGTATGATC 57.765 39.130 0.00 0.00 0.00 2.92
363 1628 4.202398 ACCATGTATGATCGCCAATCTCTT 60.202 41.667 0.00 0.00 35.24 2.85
378 1643 3.340814 TCTCTTCTCTTGGCATCAACC 57.659 47.619 0.00 0.00 0.00 3.77
395 1660 1.742761 ACCGAAGATGCCAATGTCTG 58.257 50.000 0.00 0.00 0.00 3.51
398 1663 1.667724 CGAAGATGCCAATGTCTGTCC 59.332 52.381 0.00 0.00 0.00 4.02
426 1691 5.997746 AGCATGAACAAGTTAGCTTTCTGTA 59.002 36.000 0.00 0.00 31.49 2.74
457 1726 4.789012 TTCCTTTCCGTAACACGAGTAT 57.211 40.909 0.00 0.00 46.05 2.12
458 1727 5.895636 TTCCTTTCCGTAACACGAGTATA 57.104 39.130 0.00 0.00 46.05 1.47
459 1728 5.235305 TCCTTTCCGTAACACGAGTATAC 57.765 43.478 0.00 0.00 46.05 1.47
486 1758 5.116882 ACAGAAGAAGTAAAACAAGTCGCT 58.883 37.500 0.00 0.00 0.00 4.93
499 1789 0.108329 AGTCGCTACCAAACGGGATG 60.108 55.000 0.00 0.00 41.15 3.51
561 1851 2.052414 CGTCCGTACTCGATCGGC 60.052 66.667 16.41 11.19 45.44 5.54
570 1860 1.313091 ACTCGATCGGCACTGCTGTA 61.313 55.000 16.41 0.00 36.18 2.74
598 1888 1.069513 CAAGTACCCCAACGACTGACA 59.930 52.381 0.00 0.00 0.00 3.58
599 1889 1.416243 AGTACCCCAACGACTGACAA 58.584 50.000 0.00 0.00 0.00 3.18
600 1890 1.343465 AGTACCCCAACGACTGACAAG 59.657 52.381 0.00 0.00 0.00 3.16
601 1891 0.682852 TACCCCAACGACTGACAAGG 59.317 55.000 0.00 0.00 0.00 3.61
625 1915 2.409975 GAGGTCGACGGACAAAATTGA 58.590 47.619 9.92 0.00 45.28 2.57
694 2010 1.337260 GGCCTATACCTCGCATCACTG 60.337 57.143 0.00 0.00 0.00 3.66
698 2014 3.057876 CCTATACCTCGCATCACTGTCTC 60.058 52.174 0.00 0.00 0.00 3.36
699 2015 1.834188 TACCTCGCATCACTGTCTCA 58.166 50.000 0.00 0.00 0.00 3.27
701 2017 2.379005 ACCTCGCATCACTGTCTCATA 58.621 47.619 0.00 0.00 0.00 2.15
728 2044 7.221452 CAGCACTATTTGAATTGGATTAGTTGC 59.779 37.037 0.00 0.00 0.00 4.17
729 2045 6.197096 GCACTATTTGAATTGGATTAGTTGCG 59.803 38.462 0.00 0.00 0.00 4.85
731 2047 7.754924 CACTATTTGAATTGGATTAGTTGCGTT 59.245 33.333 0.00 0.00 0.00 4.84
732 2048 6.949578 ATTTGAATTGGATTAGTTGCGTTG 57.050 33.333 0.00 0.00 0.00 4.10
733 2049 3.832276 TGAATTGGATTAGTTGCGTTGC 58.168 40.909 0.00 0.00 0.00 4.17
753 2069 6.904543 CGTTGCGATTAAACATACATTCATCA 59.095 34.615 0.00 0.00 0.00 3.07
784 2101 4.873817 TCCGACAGATTAACTCGTTTTCA 58.126 39.130 0.00 0.00 0.00 2.69
787 2104 4.434330 CGACAGATTAACTCGTTTTCAGCC 60.434 45.833 0.00 0.00 0.00 4.85
791 2108 3.552604 TTAACTCGTTTTCAGCCATGC 57.447 42.857 0.00 0.00 0.00 4.06
796 2114 0.388778 CGTTTTCAGCCATGCATGCA 60.389 50.000 25.04 25.04 0.00 3.96
797 2115 1.355971 GTTTTCAGCCATGCATGCAG 58.644 50.000 26.69 14.50 0.00 4.41
898 2222 1.084370 GTCAGTCGAGATTTGGCCGG 61.084 60.000 0.00 0.00 0.00 6.13
899 2223 1.218047 CAGTCGAGATTTGGCCGGA 59.782 57.895 5.05 0.00 0.00 5.14
900 2224 0.391130 CAGTCGAGATTTGGCCGGAA 60.391 55.000 5.05 0.00 0.00 4.30
901 2225 0.541863 AGTCGAGATTTGGCCGGAAT 59.458 50.000 5.05 0.12 0.00 3.01
902 2226 0.938008 GTCGAGATTTGGCCGGAATC 59.062 55.000 18.98 18.98 34.48 2.52
903 2227 0.539518 TCGAGATTTGGCCGGAATCA 59.460 50.000 25.05 9.24 36.26 2.57
905 2229 1.750193 GAGATTTGGCCGGAATCACA 58.250 50.000 25.05 0.00 36.26 3.58
906 2230 2.301346 GAGATTTGGCCGGAATCACAT 58.699 47.619 25.05 11.22 36.26 3.21
907 2231 2.291741 GAGATTTGGCCGGAATCACATC 59.708 50.000 25.05 14.84 36.26 3.06
909 2233 0.038890 TTTGGCCGGAATCACATCCA 59.961 50.000 5.05 0.00 39.61 3.41
910 2234 0.679640 TTGGCCGGAATCACATCCAC 60.680 55.000 5.05 0.00 39.61 4.02
911 2235 1.823899 GGCCGGAATCACATCCACC 60.824 63.158 5.05 0.00 39.61 4.61
964 2293 1.227249 TTTCCAGTTTCCCACCCAGA 58.773 50.000 0.00 0.00 0.00 3.86
1006 2335 1.266989 CACTCGCTCACACTGACACTA 59.733 52.381 0.00 0.00 0.00 2.74
1040 2375 2.364970 CTCATCACTAGCTAAGCTGCCT 59.635 50.000 0.00 0.00 40.10 4.75
1567 2929 1.171308 CTACCCGGAGAACTTCACGA 58.829 55.000 0.73 0.00 0.00 4.35
1758 3124 3.007614 TCGTGCCTCCTAAACTTTTAGCT 59.992 43.478 3.55 0.00 38.99 3.32
1760 3126 4.329256 CGTGCCTCCTAAACTTTTAGCTAC 59.671 45.833 0.00 0.00 38.99 3.58
1761 3127 5.489249 GTGCCTCCTAAACTTTTAGCTACT 58.511 41.667 0.00 0.00 38.99 2.57
1804 3203 2.663808 CATCGTGCATGCACTTTTTCA 58.336 42.857 39.46 20.94 44.16 2.69
1809 3208 1.284297 GCATGCACTTTTTCACCGCC 61.284 55.000 14.21 0.00 0.00 6.13
1811 3210 0.968405 ATGCACTTTTTCACCGCCAT 59.032 45.000 0.00 0.00 0.00 4.40
1814 3213 1.930371 GCACTTTTTCACCGCCATCAC 60.930 52.381 0.00 0.00 0.00 3.06
1840 3267 5.293569 ACCGCATTTTAGCATAGTGAGTTAC 59.706 40.000 0.00 0.00 0.00 2.50
2002 3440 2.726821 GTGACCATGGTGACCAATGAT 58.273 47.619 25.52 0.00 36.95 2.45
2090 3563 2.593725 CAGCACCAGCAGCAGTGT 60.594 61.111 14.99 0.00 45.49 3.55
2098 3571 0.800631 CAGCAGCAGTGTACCATGTG 59.199 55.000 0.00 0.00 0.00 3.21
2104 3577 0.790207 CAGTGTACCATGTGTGTCGC 59.210 55.000 0.00 0.00 0.00 5.19
2136 3609 3.189568 TGCATGGCATGTAAGGACC 57.810 52.632 26.94 10.28 31.71 4.46
2137 3610 0.330941 TGCATGGCATGTAAGGACCA 59.669 50.000 26.94 12.70 31.71 4.02
2138 3611 1.063792 TGCATGGCATGTAAGGACCAT 60.064 47.619 26.94 0.00 43.70 3.55
2146 3619 1.279496 TGTAAGGACCATGCTCTGCT 58.721 50.000 0.00 0.00 0.00 4.24
2148 3621 1.484240 GTAAGGACCATGCTCTGCTCT 59.516 52.381 0.00 0.00 0.00 4.09
2150 3623 1.227205 GGACCATGCTCTGCTCTCG 60.227 63.158 0.00 0.00 0.00 4.04
2608 4130 4.566004 TCACAGGTACAGTGCTCAATTAC 58.434 43.478 11.59 0.00 45.75 1.89
2615 4140 5.581085 GGTACAGTGCTCAATTACCTAACTG 59.419 44.000 0.00 0.00 39.49 3.16
2621 4146 4.261801 GCTCAATTACCTAACTGGCTTCA 58.738 43.478 0.00 0.00 40.22 3.02
2623 4148 5.358160 GCTCAATTACCTAACTGGCTTCAAT 59.642 40.000 0.00 0.00 40.22 2.57
2770 4295 1.453197 CCGGGGCAGGACATAAACC 60.453 63.158 0.00 0.00 0.00 3.27
2773 4298 1.888826 CGGGGCAGGACATAAACCAAA 60.889 52.381 0.00 0.00 0.00 3.28
2794 4319 4.596180 GTGATTCATGCGCGGCGG 62.596 66.667 25.03 7.70 0.00 6.13
2846 4371 1.886542 TCTTCACTTCACTAGAGCGCA 59.113 47.619 11.47 0.00 0.00 6.09
2876 4401 6.030548 TGATTAGTCAGCAGTATCATAGGC 57.969 41.667 0.00 0.00 0.00 3.93
2906 4652 4.351111 CCCTGTCTTGGCTAACCCTATATT 59.649 45.833 0.00 0.00 33.59 1.28
3048 4794 4.803098 TCCTAGCAACCTAGTTTCAGTC 57.197 45.455 0.00 0.00 39.56 3.51
3050 4796 4.220821 TCCTAGCAACCTAGTTTCAGTCAG 59.779 45.833 0.00 0.00 39.56 3.51
3125 4877 6.585695 ACAGACTTAAACGGTCTCAGATAA 57.414 37.500 0.00 0.00 41.45 1.75
3128 4880 7.039923 ACAGACTTAAACGGTCTCAGATAAGAA 60.040 37.037 0.00 0.00 41.45 2.52
3129 4881 7.813148 CAGACTTAAACGGTCTCAGATAAGAAA 59.187 37.037 0.00 0.00 41.45 2.52
3130 4882 8.030106 AGACTTAAACGGTCTCAGATAAGAAAG 58.970 37.037 0.00 0.00 39.52 2.62
3131 4883 7.668492 ACTTAAACGGTCTCAGATAAGAAAGT 58.332 34.615 0.00 0.00 0.00 2.66
3132 4884 8.800332 ACTTAAACGGTCTCAGATAAGAAAGTA 58.200 33.333 0.00 0.00 0.00 2.24
3133 4885 8.976986 TTAAACGGTCTCAGATAAGAAAGTAC 57.023 34.615 0.00 0.00 0.00 2.73
3134 4886 6.585695 AACGGTCTCAGATAAGAAAGTACA 57.414 37.500 0.00 0.00 0.00 2.90
3135 4887 5.952033 ACGGTCTCAGATAAGAAAGTACAC 58.048 41.667 0.00 0.00 0.00 2.90
3136 4888 5.105837 ACGGTCTCAGATAAGAAAGTACACC 60.106 44.000 0.00 0.00 0.00 4.16
3137 4889 5.125739 CGGTCTCAGATAAGAAAGTACACCT 59.874 44.000 0.00 0.00 0.00 4.00
3138 4890 6.318144 CGGTCTCAGATAAGAAAGTACACCTA 59.682 42.308 0.00 0.00 0.00 3.08
3139 4891 7.482474 GGTCTCAGATAAGAAAGTACACCTAC 58.518 42.308 0.00 0.00 0.00 3.18
3140 4892 7.339976 GGTCTCAGATAAGAAAGTACACCTACT 59.660 40.741 0.00 0.00 34.38 2.57
3141 4893 8.741841 GTCTCAGATAAGAAAGTACACCTACTT 58.258 37.037 0.00 0.00 43.87 2.24
3149 4901 5.823209 AAAGTACACCTACTTTGCGTTTT 57.177 34.783 5.29 0.00 46.93 2.43
3150 4902 5.823209 AAGTACACCTACTTTGCGTTTTT 57.177 34.783 0.00 0.00 39.79 1.94
3187 4939 9.162764 GCAGGAGAAATACTTGTATTACTCAAA 57.837 33.333 6.46 0.00 0.00 2.69
3212 4964 7.770801 TTACCAATTCATTACAGTCATCTCG 57.229 36.000 0.00 0.00 0.00 4.04
3231 4983 5.784177 TCTCGCACTATCTTCAAAACTTCT 58.216 37.500 0.00 0.00 0.00 2.85
3232 4984 6.920817 TCTCGCACTATCTTCAAAACTTCTA 58.079 36.000 0.00 0.00 0.00 2.10
3233 4985 7.375834 TCTCGCACTATCTTCAAAACTTCTAA 58.624 34.615 0.00 0.00 0.00 2.10
3235 4987 7.375834 TCGCACTATCTTCAAAACTTCTAAGA 58.624 34.615 0.00 0.00 32.85 2.10
3236 4988 7.542477 TCGCACTATCTTCAAAACTTCTAAGAG 59.458 37.037 0.00 0.00 31.90 2.85
3237 4989 7.201478 CGCACTATCTTCAAAACTTCTAAGAGG 60.201 40.741 0.00 0.00 31.90 3.69
3238 4990 7.819900 GCACTATCTTCAAAACTTCTAAGAGGA 59.180 37.037 0.00 0.00 31.90 3.71
3239 4991 9.145865 CACTATCTTCAAAACTTCTAAGAGGAC 57.854 37.037 0.00 0.00 31.90 3.85
3240 4992 8.315482 ACTATCTTCAAAACTTCTAAGAGGACC 58.685 37.037 0.00 0.00 31.90 4.46
3241 4993 6.494666 TCTTCAAAACTTCTAAGAGGACCA 57.505 37.500 0.00 0.00 0.00 4.02
3251 5003 0.402121 AAGAGGACCAGAACCAAGCC 59.598 55.000 0.00 0.00 0.00 4.35
3252 5004 1.376037 GAGGACCAGAACCAAGCCG 60.376 63.158 0.00 0.00 0.00 5.52
3267 5019 2.109126 GCCGAGTCATTGTCCTGCC 61.109 63.158 0.00 0.00 0.00 4.85
3270 5022 1.679944 CCGAGTCATTGTCCTGCCATT 60.680 52.381 0.00 0.00 0.00 3.16
3280 5032 3.450904 TGTCCTGCCATTAACTCTACCT 58.549 45.455 0.00 0.00 0.00 3.08
3281 5033 4.616553 TGTCCTGCCATTAACTCTACCTA 58.383 43.478 0.00 0.00 0.00 3.08
3304 5056 9.863845 CCTAAACTAGCTAAATTATCTCTAGCC 57.136 37.037 0.00 0.00 39.09 3.93
3310 5062 9.528018 CTAGCTAAATTATCTCTAGCCTTATGC 57.472 37.037 0.00 0.00 39.09 3.14
3349 5101 6.647481 ACGTGAGTAATGCAAGTATGTGTAAA 59.353 34.615 0.00 0.00 46.88 2.01
3352 5104 8.504005 GTGAGTAATGCAAGTATGTGTAAAACT 58.496 33.333 0.00 0.00 0.00 2.66
3355 5107 8.721478 AGTAATGCAAGTATGTGTAAAACTCAG 58.279 33.333 0.00 0.00 0.00 3.35
3363 5115 9.823647 AAGTATGTGTAAAACTCAGGAGATATG 57.176 33.333 2.79 0.00 0.00 1.78
3378 5130 7.510343 TCAGGAGATATGTAATCTCATTCACCA 59.490 37.037 14.98 0.00 44.70 4.17
3400 5152 2.460918 CGAAGCATAGACCGAACGATT 58.539 47.619 0.00 0.00 0.00 3.34
3402 5154 1.571919 AGCATAGACCGAACGATTGC 58.428 50.000 0.00 0.00 0.00 3.56
3848 5600 7.247019 GCATCTCTACAAGAAAACAAATCTCC 58.753 38.462 0.00 0.00 37.61 3.71
3855 5607 4.525912 AGAAAACAAATCTCCACATGCC 57.474 40.909 0.00 0.00 0.00 4.40
3856 5608 3.259123 AGAAAACAAATCTCCACATGCCC 59.741 43.478 0.00 0.00 0.00 5.36
3898 5651 5.220381 ACATAGTTACGAAGTATCATGCCG 58.780 41.667 0.00 0.00 45.21 5.69
3899 5652 2.470821 AGTTACGAAGTATCATGCCGC 58.529 47.619 0.00 0.00 45.21 6.53
3903 5656 0.809636 CGAAGTATCATGCCGCCACA 60.810 55.000 0.00 0.00 0.00 4.17
3961 5714 1.486726 AGTTTGACCCATCCCTCGATC 59.513 52.381 0.00 0.00 0.00 3.69
3966 5719 0.470080 ACCCATCCCTCGATCGATGT 60.470 55.000 19.78 2.05 35.17 3.06
3983 5736 1.348064 TGTATTCCATCCTAGGGCCG 58.652 55.000 9.46 0.00 0.00 6.13
3984 5737 0.613777 GTATTCCATCCTAGGGCCGG 59.386 60.000 9.46 7.31 0.00 6.13
4018 5771 1.663379 CGGGCACACTAGGACGATCA 61.663 60.000 0.00 0.00 0.00 2.92
4020 5773 1.539065 GGGCACACTAGGACGATCATG 60.539 57.143 0.00 0.00 0.00 3.07
4058 5811 5.886609 TCCCTTTTACCAGATCAACATGAA 58.113 37.500 0.00 0.00 0.00 2.57
4061 5814 6.038356 CCTTTTACCAGATCAACATGAATGC 58.962 40.000 0.00 0.00 0.00 3.56
4066 5819 5.687780 ACCAGATCAACATGAATGCTCATA 58.312 37.500 0.00 0.00 40.49 2.15
4068 5821 6.776116 ACCAGATCAACATGAATGCTCATATT 59.224 34.615 0.00 0.00 40.49 1.28
4113 5866 9.844790 CAAGTAATTATGCAAAAATCTGACAGA 57.155 29.630 7.80 7.80 0.00 3.41
4128 5881 0.327924 ACAGAAACATCCATGGGCGA 59.672 50.000 13.02 0.00 0.00 5.54
4131 5884 1.728490 GAAACATCCATGGGCGAGGC 61.728 60.000 13.02 0.00 0.00 4.70
4140 5893 0.258774 ATGGGCGAGGCAGGTTTATT 59.741 50.000 0.00 0.00 0.00 1.40
4141 5894 0.039035 TGGGCGAGGCAGGTTTATTT 59.961 50.000 0.00 0.00 0.00 1.40
4142 5895 0.455815 GGGCGAGGCAGGTTTATTTG 59.544 55.000 0.00 0.00 0.00 2.32
4143 5896 1.173913 GGCGAGGCAGGTTTATTTGT 58.826 50.000 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 1263 2.504367 TCTGTTTTGCTAGGCTGAACC 58.496 47.619 0.00 0.00 39.61 3.62
37 1287 6.041637 ACCCCACTTCTCCAAAACTATTTTTC 59.958 38.462 0.00 0.00 32.27 2.29
38 1288 5.903010 ACCCCACTTCTCCAAAACTATTTTT 59.097 36.000 0.00 0.00 35.15 1.94
40 1290 5.074746 ACCCCACTTCTCCAAAACTATTT 57.925 39.130 0.00 0.00 0.00 1.40
41 1291 4.741928 ACCCCACTTCTCCAAAACTATT 57.258 40.909 0.00 0.00 0.00 1.73
43 1293 4.081309 CGATACCCCACTTCTCCAAAACTA 60.081 45.833 0.00 0.00 0.00 2.24
44 1294 3.307480 CGATACCCCACTTCTCCAAAACT 60.307 47.826 0.00 0.00 0.00 2.66
45 1295 3.007635 CGATACCCCACTTCTCCAAAAC 58.992 50.000 0.00 0.00 0.00 2.43
122 1372 6.989759 TGTATGTTAAAGAGAGAGCAACACAA 59.010 34.615 0.00 0.00 32.39 3.33
123 1373 6.521162 TGTATGTTAAAGAGAGAGCAACACA 58.479 36.000 0.00 0.00 32.39 3.72
169 1419 2.797156 CGTGAGGTCTCTGAACTTTGTG 59.203 50.000 0.00 0.00 25.20 3.33
187 1437 3.806521 CCTGAAGAAATAGATCTGCCGTG 59.193 47.826 5.18 0.00 0.00 4.94
205 1455 3.502123 ATTTTCCTTTCCGTGTCCTGA 57.498 42.857 0.00 0.00 0.00 3.86
251 1510 1.404391 AGGAACAGTACAGCGTATCCG 59.596 52.381 0.00 0.00 37.07 4.18
279 1538 4.103697 GTTTCAGAAACTCGACTCAACG 57.896 45.455 17.48 0.00 38.35 4.10
315 1574 3.491267 GCTTTCGTTCCTTATCGGATGAG 59.509 47.826 0.00 1.41 42.70 2.90
320 1579 3.425758 GGTTTGCTTTCGTTCCTTATCGG 60.426 47.826 0.00 0.00 0.00 4.18
326 1585 2.306847 ACATGGTTTGCTTTCGTTCCT 58.693 42.857 0.00 0.00 0.00 3.36
340 1599 3.326006 AGAGATTGGCGATCATACATGGT 59.674 43.478 16.88 0.00 37.22 3.55
348 1607 3.431346 CCAAGAGAAGAGATTGGCGATCA 60.431 47.826 16.88 0.00 37.28 2.92
349 1608 3.129871 CCAAGAGAAGAGATTGGCGATC 58.870 50.000 6.62 6.62 37.28 3.69
351 1610 2.680312 CCAAGAGAAGAGATTGGCGA 57.320 50.000 0.00 0.00 37.28 5.54
363 1628 1.623311 TCTTCGGTTGATGCCAAGAGA 59.377 47.619 0.00 0.00 32.06 3.10
378 1643 1.667724 GGACAGACATTGGCATCTTCG 59.332 52.381 0.00 0.00 36.08 3.79
395 1660 4.437930 GCTAACTTGTTCATGCTGATGGAC 60.438 45.833 0.00 0.00 38.46 4.02
398 1663 4.959596 AGCTAACTTGTTCATGCTGATG 57.040 40.909 0.00 0.00 0.00 3.07
426 1691 8.970293 CGTGTTACGGAAAGGAAATTTATTTTT 58.030 29.630 0.00 0.00 38.08 1.94
431 1700 5.990996 ACTCGTGTTACGGAAAGGAAATTTA 59.009 36.000 1.24 0.00 42.81 1.40
432 1701 4.818005 ACTCGTGTTACGGAAAGGAAATTT 59.182 37.500 1.24 0.00 42.81 1.82
435 1704 3.457610 ACTCGTGTTACGGAAAGGAAA 57.542 42.857 1.24 0.00 42.81 3.13
444 1713 6.336514 TCTGTACAGTATACTCGTGTTACG 57.663 41.667 21.99 0.00 44.19 3.18
457 1726 9.525409 GACTTGTTTTACTTCTTCTGTACAGTA 57.475 33.333 21.99 12.28 0.00 2.74
458 1727 7.222224 CGACTTGTTTTACTTCTTCTGTACAGT 59.778 37.037 21.99 5.62 0.00 3.55
459 1728 7.556433 CGACTTGTTTTACTTCTTCTGTACAG 58.444 38.462 17.17 17.17 0.00 2.74
477 1749 0.601841 CCCGTTTGGTAGCGACTTGT 60.602 55.000 0.00 0.00 0.00 3.16
486 1758 1.828979 GCTTTCCATCCCGTTTGGTA 58.171 50.000 0.00 0.00 35.64 3.25
561 1851 1.674441 CTTGGCCATCATACAGCAGTG 59.326 52.381 6.09 0.00 0.00 3.66
570 1860 1.006813 TTGGGGTACTTGGCCATCAT 58.993 50.000 6.09 0.00 0.00 2.45
598 1888 1.076192 TCCGTCGACCTCCTTCCTT 59.924 57.895 10.58 0.00 0.00 3.36
599 1889 1.678300 GTCCGTCGACCTCCTTCCT 60.678 63.158 10.58 0.00 32.40 3.36
600 1890 1.530013 TTGTCCGTCGACCTCCTTCC 61.530 60.000 10.58 0.00 38.32 3.46
601 1891 0.316204 TTTGTCCGTCGACCTCCTTC 59.684 55.000 10.58 0.00 38.32 3.46
625 1915 1.964373 AAGGGCAAACGACGCGATT 60.964 52.632 15.93 0.18 0.00 3.34
664 1980 3.075884 GAGGTATAGGCCAGTCTAGTCG 58.924 54.545 5.01 0.00 0.00 4.18
694 2010 7.280876 TCCAATTCAAATAGTGCTGTATGAGAC 59.719 37.037 0.00 0.00 0.00 3.36
698 2014 9.888878 CTAATCCAATTCAAATAGTGCTGTATG 57.111 33.333 0.00 0.00 0.00 2.39
699 2015 9.632638 ACTAATCCAATTCAAATAGTGCTGTAT 57.367 29.630 0.00 0.00 0.00 2.29
701 2017 7.944729 ACTAATCCAATTCAAATAGTGCTGT 57.055 32.000 0.00 0.00 0.00 4.40
704 2020 6.197096 CGCAACTAATCCAATTCAAATAGTGC 59.803 38.462 0.00 0.00 0.00 4.40
705 2021 7.250569 ACGCAACTAATCCAATTCAAATAGTG 58.749 34.615 0.00 0.00 0.00 2.74
706 2022 7.391148 ACGCAACTAATCCAATTCAAATAGT 57.609 32.000 0.00 0.00 0.00 2.12
707 2023 7.253750 GCAACGCAACTAATCCAATTCAAATAG 60.254 37.037 0.00 0.00 0.00 1.73
728 2044 6.904543 TGATGAATGTATGTTTAATCGCAACG 59.095 34.615 0.00 0.00 0.00 4.10
729 2045 7.696035 TGTGATGAATGTATGTTTAATCGCAAC 59.304 33.333 0.00 0.00 0.00 4.17
731 2047 7.313951 TGTGATGAATGTATGTTTAATCGCA 57.686 32.000 0.00 0.00 0.00 5.10
732 2048 6.358030 GCTGTGATGAATGTATGTTTAATCGC 59.642 38.462 0.00 0.00 0.00 4.58
733 2049 7.633621 AGCTGTGATGAATGTATGTTTAATCG 58.366 34.615 0.00 0.00 0.00 3.34
753 2069 5.978814 AGTTAATCTGTCGGATTTAGCTGT 58.021 37.500 12.14 0.00 41.42 4.40
784 2101 2.044352 TGCTCTGCATGCATGGCT 60.044 55.556 30.87 0.00 35.31 4.75
796 2114 0.322277 CTGTCCACTGGCAATGCTCT 60.322 55.000 4.82 0.00 0.00 4.09
797 2115 1.930908 GCTGTCCACTGGCAATGCTC 61.931 60.000 4.82 0.00 0.00 4.26
872 2196 2.522372 AATCTCGACTGACACGTACG 57.478 50.000 15.01 15.01 0.00 3.67
898 2222 2.173356 TCTGGGATGGTGGATGTGATTC 59.827 50.000 0.00 0.00 0.00 2.52
899 2223 2.092212 GTCTGGGATGGTGGATGTGATT 60.092 50.000 0.00 0.00 0.00 2.57
900 2224 1.492176 GTCTGGGATGGTGGATGTGAT 59.508 52.381 0.00 0.00 0.00 3.06
901 2225 0.911769 GTCTGGGATGGTGGATGTGA 59.088 55.000 0.00 0.00 0.00 3.58
902 2226 0.107017 GGTCTGGGATGGTGGATGTG 60.107 60.000 0.00 0.00 0.00 3.21
903 2227 0.549902 TGGTCTGGGATGGTGGATGT 60.550 55.000 0.00 0.00 0.00 3.06
905 2229 1.285962 CTTTGGTCTGGGATGGTGGAT 59.714 52.381 0.00 0.00 0.00 3.41
906 2230 0.698238 CTTTGGTCTGGGATGGTGGA 59.302 55.000 0.00 0.00 0.00 4.02
907 2231 0.405585 ACTTTGGTCTGGGATGGTGG 59.594 55.000 0.00 0.00 0.00 4.61
909 2233 0.698818 GGACTTTGGTCTGGGATGGT 59.301 55.000 0.00 0.00 41.82 3.55
910 2234 0.698238 TGGACTTTGGTCTGGGATGG 59.302 55.000 0.00 0.00 41.82 3.51
911 2235 2.162681 GTTGGACTTTGGTCTGGGATG 58.837 52.381 0.00 0.00 41.82 3.51
951 2280 0.105913 TGGGTTTCTGGGTGGGAAAC 60.106 55.000 9.86 9.86 46.67 2.78
1006 2335 2.105477 AGTGATGAGTGTTTGGTGAGCT 59.895 45.455 0.00 0.00 0.00 4.09
1646 3008 3.470567 CGAAGAGCACGACACCGC 61.471 66.667 0.00 0.00 39.95 5.68
1758 3124 2.646930 TCCGATGGCTAGAACGAAGTA 58.353 47.619 0.00 0.00 45.00 2.24
1760 3126 2.034685 TGATCCGATGGCTAGAACGAAG 59.965 50.000 0.00 0.00 0.00 3.79
1761 3127 2.028876 TGATCCGATGGCTAGAACGAA 58.971 47.619 0.00 0.00 0.00 3.85
1803 3202 4.101790 GCGGTTGTGATGGCGGTG 62.102 66.667 0.00 0.00 0.00 4.94
1804 3203 3.918253 ATGCGGTTGTGATGGCGGT 62.918 57.895 0.00 0.00 0.00 5.68
1809 3208 3.214697 TGCTAAAATGCGGTTGTGATG 57.785 42.857 0.00 0.00 35.36 3.07
1811 3210 4.006989 ACTATGCTAAAATGCGGTTGTGA 58.993 39.130 0.00 0.00 35.36 3.58
1814 3213 4.094887 ACTCACTATGCTAAAATGCGGTTG 59.905 41.667 0.00 0.00 35.36 3.77
1840 3267 1.609072 CAAGATCATGCATCCAGCTGG 59.391 52.381 27.87 27.87 45.94 4.85
2002 3440 2.710220 TTCAAAGCTGCGTCGTACTA 57.290 45.000 0.00 0.00 0.00 1.82
2089 3562 2.776072 GCGCGACACACATGGTAC 59.224 61.111 12.10 0.00 0.00 3.34
2090 3563 2.750715 TTCGCGCGACACACATGGTA 62.751 55.000 35.02 11.21 0.00 3.25
2125 3598 1.945394 GCAGAGCATGGTCCTTACATG 59.055 52.381 20.92 12.48 46.45 3.21
2126 3599 1.842562 AGCAGAGCATGGTCCTTACAT 59.157 47.619 20.92 0.00 33.17 2.29
2127 3600 1.279496 AGCAGAGCATGGTCCTTACA 58.721 50.000 20.92 0.00 33.17 2.41
2134 3607 0.104487 CATCGAGAGCAGAGCATGGT 59.896 55.000 0.00 0.00 44.02 3.55
2135 3608 1.222766 GCATCGAGAGCAGAGCATGG 61.223 60.000 7.67 0.00 0.00 3.66
2136 3609 0.249531 AGCATCGAGAGCAGAGCATG 60.250 55.000 14.14 0.00 0.00 4.06
2137 3610 0.032403 GAGCATCGAGAGCAGAGCAT 59.968 55.000 14.14 0.00 0.00 3.79
2138 3611 1.036481 AGAGCATCGAGAGCAGAGCA 61.036 55.000 14.14 0.00 42.67 4.26
2139 3612 0.595567 CAGAGCATCGAGAGCAGAGC 60.596 60.000 14.14 2.21 42.67 4.09
2140 3613 0.595567 GCAGAGCATCGAGAGCAGAG 60.596 60.000 14.14 5.05 42.67 3.35
2141 3614 1.436748 GCAGAGCATCGAGAGCAGA 59.563 57.895 14.14 0.00 42.67 4.26
2142 3615 1.592131 GGCAGAGCATCGAGAGCAG 60.592 63.158 14.14 5.65 42.67 4.24
2146 3619 1.076412 AGGAGGCAGAGCATCGAGA 60.076 57.895 0.00 0.00 40.46 4.04
2148 3621 1.076412 AGAGGAGGCAGAGCATCGA 60.076 57.895 0.00 0.00 40.46 3.59
2150 3623 1.227615 GCAGAGGAGGCAGAGCATC 60.228 63.158 0.00 0.00 38.72 3.91
2608 4130 7.254795 CGGACTAAAATATTGAAGCCAGTTAGG 60.255 40.741 0.00 0.00 41.84 2.69
2615 4140 3.303791 CCGCGGACTAAAATATTGAAGCC 60.304 47.826 24.07 0.00 0.00 4.35
2621 4146 2.867975 CGGAACCGCGGACTAAAATATT 59.132 45.455 35.90 12.52 0.00 1.28
2623 4148 1.925229 CGGAACCGCGGACTAAAATA 58.075 50.000 35.90 0.00 0.00 1.40
2770 4295 1.135699 GCGCATGAATCACGGCTTTG 61.136 55.000 0.30 0.00 0.00 2.77
2773 4298 3.566853 CGCGCATGAATCACGGCT 61.567 61.111 8.75 0.00 0.00 5.52
2876 4401 1.751927 GCCAAGACAGGGCCATGAG 60.752 63.158 26.87 10.46 45.87 2.90
2906 4652 5.105716 TCACGGAATCCTGAAAACAAAACAA 60.106 36.000 0.00 0.00 0.00 2.83
2992 4738 1.153489 CACCATGACCTCCGAGCAG 60.153 63.158 0.00 0.00 0.00 4.24
3048 4794 2.800544 CAAGTCACTCAACCGGTTACTG 59.199 50.000 21.79 14.89 0.00 2.74
3050 4796 2.542595 CACAAGTCACTCAACCGGTTAC 59.457 50.000 21.79 14.42 0.00 2.50
3105 4857 7.813627 ACTTTCTTATCTGAGACCGTTTAAGTC 59.186 37.037 0.00 0.00 34.31 3.01
3107 4859 9.074443 GTACTTTCTTATCTGAGACCGTTTAAG 57.926 37.037 0.00 0.00 0.00 1.85
3150 4902 9.097257 CAAGTATTTCTCCTGCAAAAAGAAAAA 57.903 29.630 16.96 0.90 41.06 1.94
3151 4903 8.257306 ACAAGTATTTCTCCTGCAAAAAGAAAA 58.743 29.630 16.96 8.05 41.06 2.29
3152 4904 7.781056 ACAAGTATTTCTCCTGCAAAAAGAAA 58.219 30.769 15.92 15.92 41.71 2.52
3153 4905 7.346751 ACAAGTATTTCTCCTGCAAAAAGAA 57.653 32.000 0.00 0.00 0.00 2.52
3154 4906 6.959639 ACAAGTATTTCTCCTGCAAAAAGA 57.040 33.333 0.00 0.00 0.00 2.52
3157 4909 9.515226 AGTAATACAAGTATTTCTCCTGCAAAA 57.485 29.630 10.41 0.00 37.07 2.44
3158 4910 9.162764 GAGTAATACAAGTATTTCTCCTGCAAA 57.837 33.333 20.15 0.00 40.77 3.68
3159 4911 8.318412 TGAGTAATACAAGTATTTCTCCTGCAA 58.682 33.333 24.35 11.67 43.40 4.08
3160 4912 7.847096 TGAGTAATACAAGTATTTCTCCTGCA 58.153 34.615 24.35 12.32 43.40 4.41
3161 4913 8.718102 TTGAGTAATACAAGTATTTCTCCTGC 57.282 34.615 24.35 10.64 43.40 4.85
3187 4939 7.041780 GCGAGATGACTGTAATGAATTGGTAAT 60.042 37.037 0.00 0.00 0.00 1.89
3188 4940 6.257849 GCGAGATGACTGTAATGAATTGGTAA 59.742 38.462 0.00 0.00 0.00 2.85
3189 4941 5.753438 GCGAGATGACTGTAATGAATTGGTA 59.247 40.000 0.00 0.00 0.00 3.25
3195 4947 4.456280 AGTGCGAGATGACTGTAATGAA 57.544 40.909 0.00 0.00 0.00 2.57
3210 4962 7.375834 TCTTAGAAGTTTTGAAGATAGTGCGA 58.624 34.615 0.00 0.00 0.00 5.10
3212 4964 7.819900 TCCTCTTAGAAGTTTTGAAGATAGTGC 59.180 37.037 0.00 0.00 0.00 4.40
3231 4983 1.628846 GGCTTGGTTCTGGTCCTCTTA 59.371 52.381 0.00 0.00 0.00 2.10
3232 4984 0.402121 GGCTTGGTTCTGGTCCTCTT 59.598 55.000 0.00 0.00 0.00 2.85
3233 4985 1.831652 CGGCTTGGTTCTGGTCCTCT 61.832 60.000 0.00 0.00 0.00 3.69
3235 4987 1.831652 CTCGGCTTGGTTCTGGTCCT 61.832 60.000 0.00 0.00 0.00 3.85
3236 4988 1.376037 CTCGGCTTGGTTCTGGTCC 60.376 63.158 0.00 0.00 0.00 4.46
3237 4989 0.670854 GACTCGGCTTGGTTCTGGTC 60.671 60.000 0.00 0.00 0.00 4.02
3238 4990 1.371558 GACTCGGCTTGGTTCTGGT 59.628 57.895 0.00 0.00 0.00 4.00
3239 4991 0.036010 ATGACTCGGCTTGGTTCTGG 60.036 55.000 0.00 0.00 0.00 3.86
3240 4992 1.466167 CAATGACTCGGCTTGGTTCTG 59.534 52.381 0.00 0.00 0.00 3.02
3241 4993 1.072331 ACAATGACTCGGCTTGGTTCT 59.928 47.619 0.00 0.00 0.00 3.01
3251 5003 1.742761 AATGGCAGGACAATGACTCG 58.257 50.000 0.00 0.00 0.00 4.18
3252 5004 4.265073 AGTTAATGGCAGGACAATGACTC 58.735 43.478 0.00 0.00 0.00 3.36
3322 5074 5.468746 ACACATACTTGCATTACTCACGTTT 59.531 36.000 0.00 0.00 0.00 3.60
3325 5077 6.641176 TTACACATACTTGCATTACTCACG 57.359 37.500 0.00 0.00 0.00 4.35
3336 5088 9.823647 ATATCTCCTGAGTTTTACACATACTTG 57.176 33.333 0.00 0.00 0.00 3.16
3349 5101 9.152327 TGAATGAGATTACATATCTCCTGAGTT 57.848 33.333 11.17 1.30 42.83 3.01
3352 5104 7.510343 TGGTGAATGAGATTACATATCTCCTGA 59.490 37.037 11.17 0.00 42.83 3.86
3355 5107 6.593382 GCTGGTGAATGAGATTACATATCTCC 59.407 42.308 11.17 0.00 42.83 3.71
3363 5115 3.001736 GCTTCGCTGGTGAATGAGATTAC 59.998 47.826 0.00 0.00 0.00 1.89
3365 5117 2.012673 GCTTCGCTGGTGAATGAGATT 58.987 47.619 0.00 0.00 0.00 2.40
3378 5130 0.525668 CGTTCGGTCTATGCTTCGCT 60.526 55.000 0.00 0.00 0.00 4.93
3869 5622 9.692749 CATGATACTTCGTAACTATGTTGGTAT 57.307 33.333 0.00 0.00 0.00 2.73
3871 5624 6.479001 GCATGATACTTCGTAACTATGTTGGT 59.521 38.462 0.00 0.00 0.00 3.67
3874 5627 5.690409 CGGCATGATACTTCGTAACTATGTT 59.310 40.000 0.00 0.00 0.00 2.71
3879 5632 2.470821 GCGGCATGATACTTCGTAACT 58.529 47.619 0.00 0.00 0.00 2.24
3884 5637 0.809636 TGTGGCGGCATGATACTTCG 60.810 55.000 17.19 0.00 0.00 3.79
3898 5651 1.790387 GAGTGAAGATGCGTGTGGC 59.210 57.895 0.00 0.00 43.96 5.01
3899 5652 0.388520 TCGAGTGAAGATGCGTGTGG 60.389 55.000 0.00 0.00 0.00 4.17
3903 5656 6.504398 TCTTATATTTCGAGTGAAGATGCGT 58.496 36.000 0.00 0.00 35.06 5.24
3966 5719 0.490017 TCCGGCCCTAGGATGGAATA 59.510 55.000 11.48 0.00 31.86 1.75
3983 5736 2.103042 CCGCAAGTGCACTAGCTCC 61.103 63.158 22.01 5.96 42.74 4.70
3984 5737 2.103042 CCCGCAAGTGCACTAGCTC 61.103 63.158 22.01 8.52 42.74 4.09
4018 5771 4.630644 AGGGAAAGATGTCATATCGCAT 57.369 40.909 10.48 0.00 0.00 4.73
4020 5773 5.757850 AAAAGGGAAAGATGTCATATCGC 57.242 39.130 0.00 0.00 0.00 4.58
4058 5811 5.047306 CCTTGATTGGCATCAATATGAGCAT 60.047 40.000 11.10 0.00 46.32 3.79
4061 5814 6.644248 TTCCTTGATTGGCATCAATATGAG 57.356 37.500 11.10 2.45 46.32 2.90
4066 5819 5.943349 TGAATTCCTTGATTGGCATCAAT 57.057 34.783 2.27 0.00 46.32 2.57
4068 5821 4.773674 ACTTGAATTCCTTGATTGGCATCA 59.226 37.500 2.27 0.00 37.67 3.07
4113 5866 1.754234 GCCTCGCCCATGGATGTTT 60.754 57.895 15.22 0.00 0.00 2.83
4115 5868 3.410628 TGCCTCGCCCATGGATGT 61.411 61.111 15.22 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.