Multiple sequence alignment - TraesCS5B01G466900

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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 TraesCS5B01G466900 chr5B 100.000 3224 0 0 1 3224 641041817 641045040 0.000000e+00 5954.0
1 TraesCS5B01G466900 chr5B 88.166 507 44 13 2725 3224 490298479 490298976 9.960000e-165 590.0
2 TraesCS5B01G466900 chr5B 92.537 335 18 6 2725 3058 270326324 270325996 1.050000e-129 473.0
3 TraesCS5B01G466900 chr5B 94.094 254 13 1 2475 2726 97743227 97742974 5.050000e-103 385.0
4 TraesCS5B01G466900 chr5B 88.593 263 21 7 2967 3224 270326127 270325869 8.690000e-81 311.0
5 TraesCS5B01G466900 chr5B 87.121 264 24 8 2967 3224 454909769 454910028 1.130000e-74 291.0
6 TraesCS5B01G466900 chr5D 96.928 1953 50 4 526 2477 510057955 510059898 0.000000e+00 3265.0
7 TraesCS5B01G466900 chr5D 91.608 286 23 1 2474 2759 448923163 448922879 8.380000e-106 394.0
8 TraesCS5B01G466900 chr5D 91.304 69 4 1 466 534 510057032 510057098 3.420000e-15 93.5
9 TraesCS5B01G466900 chr5A 90.975 1795 97 34 650 2407 638070013 638068247 0.000000e+00 2357.0
10 TraesCS5B01G466900 chr5A 95.808 501 20 1 2725 3224 705142078 705142578 0.000000e+00 808.0
11 TraesCS5B01G466900 chr5A 94.393 107 6 0 511 617 638075126 638075020 7.160000e-37 165.0
12 TraesCS5B01G466900 chr1B 98.941 472 4 1 1 472 412259164 412259634 0.000000e+00 843.0
13 TraesCS5B01G466900 chr1B 91.168 351 26 5 2726 3073 61433410 61433062 3.760000e-129 472.0
14 TraesCS5B01G466900 chr1B 82.895 456 75 1 1231 1683 676074526 676074981 1.080000e-109 407.0
15 TraesCS5B01G466900 chr1B 80.315 254 47 2 1745 1995 675790255 675790002 4.250000e-44 189.0
16 TraesCS5B01G466900 chr6A 93.050 518 24 2 2719 3224 605219285 605219802 0.000000e+00 747.0
17 TraesCS5B01G466900 chr3B 91.468 504 31 6 2722 3224 562782124 562781632 0.000000e+00 682.0
18 TraesCS5B01G466900 chr3B 94.510 255 12 1 2474 2726 654254342 654254596 3.020000e-105 392.0
19 TraesCS5B01G466900 chr3B 76.950 282 61 4 1745 2024 417958774 417959053 1.200000e-34 158.0
20 TraesCS5B01G466900 chr1D 92.632 475 30 3 1 472 470590996 470590524 0.000000e+00 678.0
21 TraesCS5B01G466900 chr1D 75.339 1326 263 48 802 2095 485538528 485539821 2.160000e-161 579.0
22 TraesCS5B01G466900 chr1D 76.217 883 177 17 808 1683 485554558 485555414 1.370000e-118 436.0
23 TraesCS5B01G466900 chr1D 75.385 910 184 24 786 1686 485550865 485551743 1.390000e-108 403.0
24 TraesCS5B01G466900 chr1D 83.981 206 33 0 1745 1950 485489017 485488812 7.050000e-47 198.0
25 TraesCS5B01G466900 chr1D 89.855 138 14 0 102 239 78978586 78978723 9.190000e-41 178.0
26 TraesCS5B01G466900 chr4B 89.600 500 35 9 2725 3222 418522130 418522614 1.270000e-173 619.0
27 TraesCS5B01G466900 chr4B 92.179 358 22 6 2722 3075 598264776 598265131 4.800000e-138 501.0
28 TraesCS5B01G466900 chr7B 89.315 365 34 4 2717 3078 483221477 483221115 1.360000e-123 453.0
29 TraesCS5B01G466900 chr7B 93.411 258 15 1 2471 2726 277797800 277797543 6.530000e-102 381.0
30 TraesCS5B01G466900 chr7B 93.411 258 15 1 2471 2726 431510419 431510676 6.530000e-102 381.0
31 TraesCS5B01G466900 chr7B 86.207 319 26 12 2911 3224 219593440 219593135 2.400000e-86 329.0
32 TraesCS5B01G466900 chr7B 93.119 218 14 1 158 375 10565463 10565679 5.190000e-83 318.0
33 TraesCS5B01G466900 chr7B 93.694 111 6 1 363 472 10566543 10566653 7.160000e-37 165.0
34 TraesCS5B01G466900 chr7B 93.478 92 6 0 1 92 10565365 10565456 1.560000e-28 137.0
35 TraesCS5B01G466900 chr4D 94.488 254 12 1 2475 2726 424080394 424080141 1.080000e-104 390.0
36 TraesCS5B01G466900 chr7A 94.094 254 13 1 2475 2726 431291477 431291730 5.050000e-103 385.0
37 TraesCS5B01G466900 chr2B 94.094 254 13 1 2475 2726 715500873 715501126 5.050000e-103 385.0
38 TraesCS5B01G466900 chr2B 93.411 258 15 1 2471 2726 455375242 455374985 6.530000e-102 381.0
39 TraesCS5B01G466900 chr2B 79.412 204 35 7 271 472 773463706 773463508 1.560000e-28 137.0
40 TraesCS5B01G466900 chr1A 76.010 792 159 21 901 1686 582858131 582858897 6.530000e-102 381.0
41 TraesCS5B01G466900 chr1A 80.498 482 87 6 1216 1692 582845041 582845520 2.360000e-96 363.0
42 TraesCS5B01G466900 chr1A 80.728 467 83 6 1231 1692 582854763 582855227 1.100000e-94 357.0
43 TraesCS5B01G466900 chr1A 94.313 211 11 1 3015 3224 551579644 551579854 4.010000e-84 322.0
44 TraesCS5B01G466900 chr1A 83.981 206 33 0 1745 1950 582694191 582693986 7.050000e-47 198.0
45 TraesCS5B01G466900 chr4A 96.067 178 6 1 296 472 546005108 546004931 4.070000e-74 289.0
46 TraesCS5B01G466900 chr4A 90.714 140 13 0 1 140 546013965 546013826 1.530000e-43 187.0
47 TraesCS5B01G466900 chr4A 94.495 109 6 0 175 283 546013823 546013715 5.530000e-38 169.0
48 TraesCS5B01G466900 chr4A 78.610 187 31 8 271 456 41966960 41967138 7.310000e-22 115.0
49 TraesCS5B01G466900 chr6B 92.045 176 14 0 170 345 209373754 209373929 6.910000e-62 248.0
50 TraesCS5B01G466900 chr6B 92.857 140 10 0 1 140 209373617 209373756 1.520000e-48 204.0
51 TraesCS5B01G466900 chr6B 92.308 65 5 0 408 472 209383042 209383106 3.420000e-15 93.5
52 TraesCS5B01G466900 chr3D 77.305 282 60 4 1745 2024 303463692 303463413 2.570000e-36 163.0
53 TraesCS5B01G466900 chr3A 76.596 282 62 4 1745 2024 431074006 431074285 5.570000e-33 152.0
54 TraesCS5B01G466900 chr3A 79.433 141 19 9 291 425 121477785 121477649 1.230000e-14 91.6
55 TraesCS5B01G466900 chr6D 81.250 192 30 5 283 472 85164914 85164727 2.000000e-32 150.0


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 TraesCS5B01G466900 chr5B 641041817 641045040 3223 False 5954.000000 5954 100.000000 1 3224 1 chr5B.!!$F3 3223
1 TraesCS5B01G466900 chr5D 510057032 510059898 2866 False 1679.250000 3265 94.116000 466 2477 2 chr5D.!!$F1 2011
2 TraesCS5B01G466900 chr5A 638068247 638070013 1766 True 2357.000000 2357 90.975000 650 2407 1 chr5A.!!$R1 1757
3 TraesCS5B01G466900 chr5A 705142078 705142578 500 False 808.000000 808 95.808000 2725 3224 1 chr5A.!!$F1 499
4 TraesCS5B01G466900 chr6A 605219285 605219802 517 False 747.000000 747 93.050000 2719 3224 1 chr6A.!!$F1 505
5 TraesCS5B01G466900 chr1D 485538528 485539821 1293 False 579.000000 579 75.339000 802 2095 1 chr1D.!!$F2 1293
6 TraesCS5B01G466900 chr1D 485550865 485555414 4549 False 419.500000 436 75.801000 786 1686 2 chr1D.!!$F3 900
7 TraesCS5B01G466900 chr7B 10565365 10566653 1288 False 206.666667 318 93.430333 1 472 3 chr7B.!!$F2 471
8 TraesCS5B01G466900 chr1A 582854763 582858897 4134 False 369.000000 381 78.369000 901 1692 2 chr1A.!!$F3 791

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
142 143 0.105555 AGAGAGGCAGGAGGATGAGG 60.106 60.0 0.0 0.0 0.0 3.86 F
143 144 0.105760 GAGAGGCAGGAGGATGAGGA 60.106 60.0 0.0 0.0 0.0 3.71 F
1965 3869 0.452987 TCGACTACCATGCCACGTAC 59.547 55.0 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1965 3869 0.907486 TCAGCTCCTCAATCTGTGGG 59.093 55.000 0.0 0.0 32.20 4.61 R
2114 4021 1.501582 ATCCTCCTCCTTGTAGGCAC 58.498 55.000 0.0 0.0 36.51 5.01 R
2900 6588 3.706373 AGCGGTGCCTCCAATCGT 61.706 61.111 0.0 0.0 35.57 3.73 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
40 41 2.164663 GCATCGGCATTCGTCGTCA 61.165 57.895 0.00 0.00 42.21 4.35
57 58 2.680352 ATGCGAGGGTCACTCCGT 60.680 61.111 0.00 0.00 43.57 4.69
60 61 4.436998 CGAGGGTCACTCCGTGGC 62.437 72.222 0.00 0.00 43.57 5.01
61 62 3.311110 GAGGGTCACTCCGTGGCA 61.311 66.667 0.80 0.00 40.26 4.92
92 93 1.202371 CGCATAGTCTACGGCAAGGAA 60.202 52.381 6.26 0.00 0.00 3.36
93 94 2.202566 GCATAGTCTACGGCAAGGAAC 58.797 52.381 1.45 0.00 0.00 3.62
94 95 2.460918 CATAGTCTACGGCAAGGAACG 58.539 52.381 0.00 0.00 0.00 3.95
95 96 1.538047 TAGTCTACGGCAAGGAACGT 58.462 50.000 0.00 0.00 46.17 3.99
98 99 4.895854 TACGGCAAGGAACGTAGC 57.104 55.556 0.00 0.00 43.79 3.58
99 100 1.216178 TACGGCAAGGAACGTAGCC 59.784 57.895 0.00 0.00 43.79 3.93
101 102 3.890674 GGCAAGGAACGTAGCCAG 58.109 61.111 9.72 3.52 46.26 4.85
102 103 1.745489 GGCAAGGAACGTAGCCAGG 60.745 63.158 9.72 2.88 46.26 4.45
103 104 1.295423 GCAAGGAACGTAGCCAGGA 59.705 57.895 9.72 0.00 0.00 3.86
104 105 0.741221 GCAAGGAACGTAGCCAGGAG 60.741 60.000 9.72 0.00 0.00 3.69
105 106 0.108138 CAAGGAACGTAGCCAGGAGG 60.108 60.000 9.72 0.00 38.23 4.30
106 107 0.544595 AAGGAACGTAGCCAGGAGGT 60.545 55.000 9.72 0.00 37.19 3.85
107 108 0.333993 AGGAACGTAGCCAGGAGGTA 59.666 55.000 9.72 0.00 37.19 3.08
108 109 1.188863 GGAACGTAGCCAGGAGGTAA 58.811 55.000 0.00 0.00 37.19 2.85
109 110 1.134877 GGAACGTAGCCAGGAGGTAAC 60.135 57.143 0.00 0.00 37.19 2.50
110 111 0.900421 AACGTAGCCAGGAGGTAACC 59.100 55.000 0.00 0.00 37.19 2.85
111 112 1.318158 ACGTAGCCAGGAGGTAACCG 61.318 60.000 0.00 0.00 37.19 4.44
112 113 1.821258 GTAGCCAGGAGGTAACCGG 59.179 63.158 0.00 0.00 37.19 5.28
113 114 2.062177 TAGCCAGGAGGTAACCGGC 61.062 63.158 0.00 0.00 43.97 6.13
114 115 4.832608 GCCAGGAGGTAACCGGCG 62.833 72.222 0.00 0.00 38.77 6.46
115 116 3.072468 CCAGGAGGTAACCGGCGA 61.072 66.667 9.30 0.00 34.73 5.54
116 117 2.183555 CAGGAGGTAACCGGCGAC 59.816 66.667 9.30 0.00 34.73 5.19
117 118 3.073101 AGGAGGTAACCGGCGACC 61.073 66.667 16.05 16.05 35.83 4.79
119 120 2.183555 GAGGTAACCGGCGACCTG 59.816 66.667 28.05 1.17 46.36 4.00
120 121 2.602568 AGGTAACCGGCGACCTGT 60.603 61.111 23.69 4.42 44.64 4.00
121 122 2.433664 GGTAACCGGCGACCTGTG 60.434 66.667 16.44 0.00 32.58 3.66
122 123 3.116531 GTAACCGGCGACCTGTGC 61.117 66.667 9.30 0.00 0.00 4.57
123 124 3.617735 TAACCGGCGACCTGTGCA 61.618 61.111 9.30 0.00 0.00 4.57
124 125 3.583276 TAACCGGCGACCTGTGCAG 62.583 63.158 9.30 0.00 0.00 4.41
127 128 4.056125 CGGCGACCTGTGCAGAGA 62.056 66.667 13.38 0.00 0.00 3.10
128 129 2.125753 GGCGACCTGTGCAGAGAG 60.126 66.667 13.38 5.12 0.00 3.20
129 130 2.125753 GCGACCTGTGCAGAGAGG 60.126 66.667 13.38 8.62 38.67 3.69
130 131 2.125753 CGACCTGTGCAGAGAGGC 60.126 66.667 13.38 3.71 35.96 4.70
131 132 2.935740 CGACCTGTGCAGAGAGGCA 61.936 63.158 13.38 0.00 42.53 4.75
132 133 1.079266 GACCTGTGCAGAGAGGCAG 60.079 63.158 13.38 2.33 45.96 4.85
133 134 2.268280 CCTGTGCAGAGAGGCAGG 59.732 66.667 13.38 8.47 45.96 4.85
134 135 3.385469 CTGTGCAGAGAGGCAGGA 58.615 61.111 4.50 0.00 45.96 3.86
135 136 1.218585 CTGTGCAGAGAGGCAGGAG 59.781 63.158 4.50 0.00 45.96 3.69
136 137 2.241479 CTGTGCAGAGAGGCAGGAGG 62.241 65.000 4.50 0.00 45.96 4.30
137 138 1.986757 GTGCAGAGAGGCAGGAGGA 60.987 63.158 0.00 0.00 45.96 3.71
138 139 1.002662 TGCAGAGAGGCAGGAGGAT 59.997 57.895 0.00 0.00 39.25 3.24
139 140 1.335882 TGCAGAGAGGCAGGAGGATG 61.336 60.000 0.00 0.00 39.25 3.51
140 141 1.047596 GCAGAGAGGCAGGAGGATGA 61.048 60.000 0.00 0.00 0.00 2.92
141 142 1.042229 CAGAGAGGCAGGAGGATGAG 58.958 60.000 0.00 0.00 0.00 2.90
142 143 0.105555 AGAGAGGCAGGAGGATGAGG 60.106 60.000 0.00 0.00 0.00 3.86
143 144 0.105760 GAGAGGCAGGAGGATGAGGA 60.106 60.000 0.00 0.00 0.00 3.71
144 145 0.567182 AGAGGCAGGAGGATGAGGAT 59.433 55.000 0.00 0.00 0.00 3.24
145 146 0.975887 GAGGCAGGAGGATGAGGATC 59.024 60.000 0.00 0.00 0.00 3.36
200 201 3.758931 GGTTTGTCCATGGCCGCC 61.759 66.667 6.96 1.04 35.97 6.13
222 223 5.732247 GCCGAAGTAGAAGATCTTCAGAGAC 60.732 48.000 31.79 23.08 41.84 3.36
226 227 2.451490 AGAAGATCTTCAGAGACGGCA 58.549 47.619 31.79 0.00 41.84 5.69
230 231 2.897641 ATCTTCAGAGACGGCAGCGC 62.898 60.000 0.00 0.00 33.99 5.92
256 257 0.742635 GGCTTGGAGCGAGGAAGAAG 60.743 60.000 0.00 0.00 43.62 2.85
280 281 3.181501 TGAAGACACCTGTTTCTTTTGCG 60.182 43.478 0.66 0.00 32.04 4.85
283 284 1.199624 CACCTGTTTCTTTTGCGTGC 58.800 50.000 0.00 0.00 0.00 5.34
292 293 3.502191 TCTTTTGCGTGCTCTGTTTTT 57.498 38.095 0.00 0.00 0.00 1.94
294 295 4.597079 TCTTTTGCGTGCTCTGTTTTTAG 58.403 39.130 0.00 0.00 0.00 1.85
304 305 6.202188 CGTGCTCTGTTTTTAGAAAAGAGGTA 59.798 38.462 5.08 0.49 34.35 3.08
312 313 7.231925 TGTTTTTAGAAAAGAGGTATGGGGTTC 59.768 37.037 0.00 0.00 0.00 3.62
321 322 8.736097 AAAGAGGTATGGGGTTCTTTTTATTT 57.264 30.769 0.00 0.00 36.72 1.40
398 1276 1.523758 GGTAGCCAAACACCTCACAG 58.476 55.000 0.00 0.00 0.00 3.66
488 1366 7.786178 TCAAACGGAGATGTCAATATTAAGG 57.214 36.000 0.00 0.00 0.00 2.69
489 1367 7.561251 TCAAACGGAGATGTCAATATTAAGGA 58.439 34.615 0.00 0.00 0.00 3.36
542 2285 4.141846 TGAGCAGCAGTTTATTAGGAGAGG 60.142 45.833 0.00 0.00 0.00 3.69
545 2288 5.425539 AGCAGCAGTTTATTAGGAGAGGTTA 59.574 40.000 0.00 0.00 0.00 2.85
648 2391 1.692411 GTCCCCAAAACAGCAGAAGT 58.308 50.000 0.00 0.00 0.00 3.01
980 2732 3.067180 ACAACGTCTTCTACTCCGTCAAA 59.933 43.478 0.00 0.00 32.30 2.69
1479 3240 3.452627 AGGCATACTTCAAGAAGATCGGT 59.547 43.478 16.16 0.00 40.79 4.69
1713 3474 9.737427 CTCAAACAACGAGATGATACTAGTAAT 57.263 33.333 6.70 0.00 31.84 1.89
1723 3490 7.757526 AGATGATACTAGTAATGCTTCTAGCG 58.242 38.462 6.70 0.00 46.26 4.26
1863 3767 3.818787 GACCCCGCGCTTCTACGA 61.819 66.667 5.56 0.00 34.06 3.43
1869 3773 4.867599 GCGCTTCTACGACCCGGG 62.868 72.222 22.25 22.25 34.06 5.73
1896 3800 2.751436 ATGCACGTCCACATGGGC 60.751 61.111 0.00 0.00 36.21 5.36
1965 3869 0.452987 TCGACTACCATGCCACGTAC 59.547 55.000 0.00 0.00 0.00 3.67
1986 3890 2.702478 CCCACAGATTGAGGAGCTGATA 59.298 50.000 0.00 0.00 44.56 2.15
1989 3893 2.368221 ACAGATTGAGGAGCTGATAGCC 59.632 50.000 0.00 0.00 44.56 3.93
2073 3980 2.608998 CGTGCTCCATGCTCTTATCGAT 60.609 50.000 2.16 2.16 43.37 3.59
2082 3989 5.866633 CCATGCTCTTATCGATCTCCTAAAC 59.133 44.000 0.00 0.00 0.00 2.01
2224 5194 8.950403 TGATAATGATAACGACGAGACATAAG 57.050 34.615 0.00 0.00 0.00 1.73
2229 5199 7.023197 TGATAACGACGAGACATAAGATGAA 57.977 36.000 0.00 0.00 0.00 2.57
2230 5200 6.910972 TGATAACGACGAGACATAAGATGAAC 59.089 38.462 0.00 0.00 0.00 3.18
2231 5201 4.696899 ACGACGAGACATAAGATGAACA 57.303 40.909 0.00 0.00 0.00 3.18
2232 5202 4.413087 ACGACGAGACATAAGATGAACAC 58.587 43.478 0.00 0.00 0.00 3.32
2233 5203 4.156190 ACGACGAGACATAAGATGAACACT 59.844 41.667 0.00 0.00 0.00 3.55
2269 5913 6.495181 AGGATCGAGTGGTCTAACAATGATAT 59.505 38.462 0.00 0.00 0.00 1.63
2294 5944 0.171455 GTGTGCCTACGAGAGAGTGG 59.829 60.000 0.00 0.00 0.00 4.00
2460 6148 6.730960 TGGTGTTAAAAGAACGGATGTATC 57.269 37.500 0.00 0.00 0.00 2.24
2461 6149 6.231951 TGGTGTTAAAAGAACGGATGTATCA 58.768 36.000 0.00 0.00 0.00 2.15
2471 6159 6.110707 AGAACGGATGTATCACGGTATTTTT 58.889 36.000 0.00 0.00 0.00 1.94
2479 6167 9.821662 GATGTATCACGGTATTTTTAATAAGGC 57.178 33.333 0.00 0.00 0.00 4.35
2480 6168 8.967664 TGTATCACGGTATTTTTAATAAGGCT 57.032 30.769 0.00 0.00 0.00 4.58
2483 6171 7.486802 TCACGGTATTTTTAATAAGGCTAGC 57.513 36.000 6.04 6.04 0.00 3.42
2484 6172 6.484308 TCACGGTATTTTTAATAAGGCTAGCC 59.516 38.462 27.19 27.19 0.00 3.93
2485 6173 6.261381 CACGGTATTTTTAATAAGGCTAGCCA 59.739 38.462 34.70 16.70 38.92 4.75
2486 6174 7.002276 ACGGTATTTTTAATAAGGCTAGCCAT 58.998 34.615 34.70 26.20 38.92 4.40
2487 6175 8.158789 ACGGTATTTTTAATAAGGCTAGCCATA 58.841 33.333 34.70 27.54 38.92 2.74
2488 6176 8.665685 CGGTATTTTTAATAAGGCTAGCCATAG 58.334 37.037 34.70 7.71 38.92 2.23
2489 6177 9.516546 GGTATTTTTAATAAGGCTAGCCATAGT 57.483 33.333 34.70 27.50 38.92 2.12
2491 6179 7.817418 TTTTTAATAAGGCTAGCCATAGTGG 57.183 36.000 34.70 0.00 41.55 4.00
2492 6180 5.499004 TTAATAAGGCTAGCCATAGTGGG 57.501 43.478 34.70 0.00 38.19 4.61
2493 6181 1.729586 TAAGGCTAGCCATAGTGGGG 58.270 55.000 34.70 0.00 38.19 4.96
2494 6182 1.062488 AAGGCTAGCCATAGTGGGGG 61.062 60.000 34.70 0.00 38.19 5.40
2495 6183 1.770518 GGCTAGCCATAGTGGGGGT 60.771 63.158 29.33 0.00 38.19 4.95
2496 6184 0.473117 GGCTAGCCATAGTGGGGGTA 60.473 60.000 29.33 0.00 38.19 3.69
2497 6185 1.430992 GCTAGCCATAGTGGGGGTAA 58.569 55.000 2.29 0.00 37.88 2.85
2498 6186 1.071857 GCTAGCCATAGTGGGGGTAAC 59.928 57.143 2.29 0.00 37.88 2.50
2499 6187 2.404559 CTAGCCATAGTGGGGGTAACA 58.595 52.381 0.00 0.00 37.88 2.41
2500 6188 1.907240 AGCCATAGTGGGGGTAACAT 58.093 50.000 0.00 0.00 38.19 2.71
2501 6189 3.069084 AGCCATAGTGGGGGTAACATA 57.931 47.619 0.00 0.00 38.19 2.29
2502 6190 3.399454 AGCCATAGTGGGGGTAACATAA 58.601 45.455 0.00 0.00 38.19 1.90
2503 6191 3.394606 AGCCATAGTGGGGGTAACATAAG 59.605 47.826 0.00 0.00 38.19 1.73
2504 6192 3.137728 GCCATAGTGGGGGTAACATAAGT 59.862 47.826 0.00 0.00 38.19 2.24
2505 6193 4.714632 CCATAGTGGGGGTAACATAAGTG 58.285 47.826 0.00 0.00 39.74 3.16
2506 6194 4.445735 CCATAGTGGGGGTAACATAAGTGG 60.446 50.000 0.00 0.00 39.74 4.00
2507 6195 2.639487 AGTGGGGGTAACATAAGTGGT 58.361 47.619 0.00 0.00 39.74 4.16
2508 6196 3.805762 AGTGGGGGTAACATAAGTGGTA 58.194 45.455 0.00 0.00 39.74 3.25
2509 6197 4.377134 AGTGGGGGTAACATAAGTGGTAT 58.623 43.478 0.00 0.00 39.74 2.73
2510 6198 4.411212 AGTGGGGGTAACATAAGTGGTATC 59.589 45.833 0.00 0.00 39.74 2.24
2511 6199 4.164604 GTGGGGGTAACATAAGTGGTATCA 59.835 45.833 0.00 0.00 29.79 2.15
2512 6200 4.979039 TGGGGGTAACATAAGTGGTATCAT 59.021 41.667 0.00 0.00 29.79 2.45
2513 6201 5.163141 TGGGGGTAACATAAGTGGTATCATG 60.163 44.000 0.00 0.00 29.79 3.07
2514 6202 4.760204 GGGGTAACATAAGTGGTATCATGC 59.240 45.833 0.00 0.00 29.79 4.06
2515 6203 4.451096 GGGTAACATAAGTGGTATCATGCG 59.549 45.833 0.00 0.00 29.79 4.73
2516 6204 4.084013 GGTAACATAAGTGGTATCATGCGC 60.084 45.833 0.00 0.00 28.67 6.09
2517 6205 3.475566 ACATAAGTGGTATCATGCGCT 57.524 42.857 9.73 0.00 0.00 5.92
2518 6206 3.808728 ACATAAGTGGTATCATGCGCTT 58.191 40.909 9.73 0.00 0.00 4.68
2519 6207 3.561310 ACATAAGTGGTATCATGCGCTTG 59.439 43.478 16.66 16.66 0.00 4.01
2520 6208 1.382522 AAGTGGTATCATGCGCTTGG 58.617 50.000 21.59 5.36 0.00 3.61
2521 6209 0.464373 AGTGGTATCATGCGCTTGGG 60.464 55.000 21.59 2.81 0.00 4.12
2522 6210 0.463654 GTGGTATCATGCGCTTGGGA 60.464 55.000 21.59 8.23 0.00 4.37
2523 6211 0.254462 TGGTATCATGCGCTTGGGAA 59.746 50.000 21.59 4.63 0.00 3.97
2524 6212 1.133823 TGGTATCATGCGCTTGGGAAT 60.134 47.619 21.59 11.40 0.00 3.01
2525 6213 1.537202 GGTATCATGCGCTTGGGAATC 59.463 52.381 21.59 5.83 0.00 2.52
2526 6214 1.195448 GTATCATGCGCTTGGGAATCG 59.805 52.381 21.59 0.00 0.00 3.34
2527 6215 0.464373 ATCATGCGCTTGGGAATCGT 60.464 50.000 21.59 0.00 0.00 3.73
2528 6216 0.176910 TCATGCGCTTGGGAATCGTA 59.823 50.000 21.59 0.00 0.00 3.43
2529 6217 1.013596 CATGCGCTTGGGAATCGTAA 58.986 50.000 15.12 0.00 0.00 3.18
2530 6218 1.400142 CATGCGCTTGGGAATCGTAAA 59.600 47.619 15.12 0.00 0.00 2.01
2531 6219 0.800012 TGCGCTTGGGAATCGTAAAC 59.200 50.000 9.73 0.00 0.00 2.01
2532 6220 0.800012 GCGCTTGGGAATCGTAAACA 59.200 50.000 0.00 0.00 0.00 2.83
2533 6221 1.400494 GCGCTTGGGAATCGTAAACAT 59.600 47.619 0.00 0.00 0.00 2.71
2534 6222 2.791158 GCGCTTGGGAATCGTAAACATG 60.791 50.000 0.00 0.00 0.00 3.21
2535 6223 2.791158 CGCTTGGGAATCGTAAACATGC 60.791 50.000 0.00 0.00 0.00 4.06
2536 6224 2.423538 GCTTGGGAATCGTAAACATGCT 59.576 45.455 0.00 0.00 31.82 3.79
2537 6225 3.119495 GCTTGGGAATCGTAAACATGCTT 60.119 43.478 0.00 0.00 31.82 3.91
2538 6226 4.095782 GCTTGGGAATCGTAAACATGCTTA 59.904 41.667 0.00 0.00 31.82 3.09
2539 6227 5.221048 GCTTGGGAATCGTAAACATGCTTAT 60.221 40.000 0.00 0.00 31.82 1.73
2540 6228 5.749596 TGGGAATCGTAAACATGCTTATG 57.250 39.130 2.23 2.23 0.00 1.90
2541 6229 5.189928 TGGGAATCGTAAACATGCTTATGT 58.810 37.500 7.73 0.00 36.10 2.29
2542 6230 5.065859 TGGGAATCGTAAACATGCTTATGTG 59.934 40.000 7.73 0.00 34.56 3.21
2543 6231 5.505654 GGGAATCGTAAACATGCTTATGTGG 60.506 44.000 7.73 0.00 34.56 4.17
2544 6232 4.552166 ATCGTAAACATGCTTATGTGGC 57.448 40.909 7.73 0.00 34.56 5.01
2545 6233 3.339141 TCGTAAACATGCTTATGTGGCA 58.661 40.909 7.73 0.00 44.05 4.92
2546 6234 3.373748 TCGTAAACATGCTTATGTGGCAG 59.626 43.478 7.73 0.00 43.15 4.85
2547 6235 3.487376 CGTAAACATGCTTATGTGGCAGG 60.487 47.826 0.00 0.00 45.30 4.85
2548 6236 0.819582 AACATGCTTATGTGGCAGGC 59.180 50.000 0.00 0.00 43.93 4.85
2549 6237 0.323633 ACATGCTTATGTGGCAGGCA 60.324 50.000 0.00 0.00 43.93 4.75
2550 6238 0.818938 CATGCTTATGTGGCAGGCAA 59.181 50.000 0.00 0.00 43.15 4.52
2551 6239 1.411246 CATGCTTATGTGGCAGGCAAT 59.589 47.619 0.00 0.00 43.15 3.56
2552 6240 1.559368 TGCTTATGTGGCAGGCAATT 58.441 45.000 0.00 0.00 34.56 2.32
2553 6241 2.732763 TGCTTATGTGGCAGGCAATTA 58.267 42.857 0.00 0.00 34.56 1.40
2554 6242 3.095332 TGCTTATGTGGCAGGCAATTAA 58.905 40.909 0.00 0.00 34.56 1.40
2555 6243 3.513119 TGCTTATGTGGCAGGCAATTAAA 59.487 39.130 0.00 0.00 34.56 1.52
2556 6244 4.114794 GCTTATGTGGCAGGCAATTAAAG 58.885 43.478 0.00 1.93 0.00 1.85
2557 6245 4.142182 GCTTATGTGGCAGGCAATTAAAGA 60.142 41.667 0.00 0.00 0.00 2.52
2558 6246 5.624281 GCTTATGTGGCAGGCAATTAAAGAA 60.624 40.000 0.00 0.00 0.00 2.52
2559 6247 3.940209 TGTGGCAGGCAATTAAAGAAG 57.060 42.857 0.00 0.00 0.00 2.85
2560 6248 3.495331 TGTGGCAGGCAATTAAAGAAGA 58.505 40.909 0.00 0.00 0.00 2.87
2561 6249 3.507233 TGTGGCAGGCAATTAAAGAAGAG 59.493 43.478 0.00 0.00 0.00 2.85
2562 6250 3.758554 GTGGCAGGCAATTAAAGAAGAGA 59.241 43.478 0.00 0.00 0.00 3.10
2563 6251 4.012374 TGGCAGGCAATTAAAGAAGAGAG 58.988 43.478 0.00 0.00 0.00 3.20
2564 6252 4.263462 TGGCAGGCAATTAAAGAAGAGAGA 60.263 41.667 0.00 0.00 0.00 3.10
2565 6253 4.886489 GGCAGGCAATTAAAGAAGAGAGAT 59.114 41.667 0.00 0.00 0.00 2.75
2566 6254 5.221009 GGCAGGCAATTAAAGAAGAGAGATG 60.221 44.000 0.00 0.00 0.00 2.90
2567 6255 5.221009 GCAGGCAATTAAAGAAGAGAGATGG 60.221 44.000 0.00 0.00 0.00 3.51
2568 6256 5.884792 CAGGCAATTAAAGAAGAGAGATGGT 59.115 40.000 0.00 0.00 0.00 3.55
2569 6257 6.376581 CAGGCAATTAAAGAAGAGAGATGGTT 59.623 38.462 0.00 0.00 0.00 3.67
2570 6258 7.554118 CAGGCAATTAAAGAAGAGAGATGGTTA 59.446 37.037 0.00 0.00 0.00 2.85
2583 6271 9.884814 AAGAGAGATGGTTATAGTAACATAGGT 57.115 33.333 2.68 0.00 0.00 3.08
2623 6311 8.962884 AATAAATGTGATGCTACTATGTGTCA 57.037 30.769 0.00 0.00 0.00 3.58
2624 6312 9.565090 AATAAATGTGATGCTACTATGTGTCAT 57.435 29.630 0.00 0.00 0.00 3.06
2625 6313 6.856135 AATGTGATGCTACTATGTGTCATG 57.144 37.500 0.00 0.00 0.00 3.07
2628 6316 4.753610 GTGATGCTACTATGTGTCATGCAT 59.246 41.667 0.00 0.00 40.30 3.96
2630 6318 3.469739 TGCTACTATGTGTCATGCATGG 58.530 45.455 25.97 10.76 0.00 3.66
2631 6319 2.225019 GCTACTATGTGTCATGCATGGC 59.775 50.000 24.40 24.40 0.00 4.40
2632 6320 2.423446 ACTATGTGTCATGCATGGCA 57.577 45.000 29.45 29.45 44.86 4.92
2633 6321 2.725637 ACTATGTGTCATGCATGGCAA 58.274 42.857 34.01 23.37 44.94 4.52
2636 6324 4.888823 ACTATGTGTCATGCATGGCAATAA 59.111 37.500 34.01 22.53 44.94 1.40
2637 6325 4.739587 ATGTGTCATGCATGGCAATAAA 57.260 36.364 34.01 20.14 44.94 1.40
2638 6326 4.739587 TGTGTCATGCATGGCAATAAAT 57.260 36.364 34.01 0.00 44.94 1.40
2639 6327 4.434520 TGTGTCATGCATGGCAATAAATG 58.565 39.130 34.01 2.58 44.94 2.32
2640 6328 4.159879 TGTGTCATGCATGGCAATAAATGA 59.840 37.500 34.01 7.61 44.94 2.57
2641 6329 4.743151 GTGTCATGCATGGCAATAAATGAG 59.257 41.667 34.01 0.13 44.94 2.90
2642 6330 4.645588 TGTCATGCATGGCAATAAATGAGA 59.354 37.500 30.82 3.91 43.62 3.27
2643 6331 4.980434 GTCATGCATGGCAATAAATGAGAC 59.020 41.667 26.04 8.36 43.62 3.36
2644 6332 4.038282 TCATGCATGGCAATAAATGAGACC 59.962 41.667 25.97 0.00 43.62 3.85
2645 6333 3.634504 TGCATGGCAATAAATGAGACCT 58.365 40.909 0.00 0.00 34.76 3.85
2646 6334 4.025360 TGCATGGCAATAAATGAGACCTT 58.975 39.130 0.00 0.00 34.76 3.50
2647 6335 4.098349 TGCATGGCAATAAATGAGACCTTC 59.902 41.667 0.00 0.00 34.76 3.46
2648 6336 4.340381 GCATGGCAATAAATGAGACCTTCT 59.660 41.667 0.00 0.00 0.00 2.85
2649 6337 5.532406 GCATGGCAATAAATGAGACCTTCTA 59.468 40.000 0.00 0.00 0.00 2.10
2651 6339 7.591165 CATGGCAATAAATGAGACCTTCTATG 58.409 38.462 0.00 0.00 0.00 2.23
2652 6340 6.899089 TGGCAATAAATGAGACCTTCTATGA 58.101 36.000 0.00 0.00 0.00 2.15
2653 6341 7.520798 TGGCAATAAATGAGACCTTCTATGAT 58.479 34.615 0.00 0.00 0.00 2.45
2654 6342 8.659527 TGGCAATAAATGAGACCTTCTATGATA 58.340 33.333 0.00 0.00 0.00 2.15
2655 6343 8.940952 GGCAATAAATGAGACCTTCTATGATAC 58.059 37.037 0.00 0.00 0.00 2.24
2656 6344 9.717942 GCAATAAATGAGACCTTCTATGATACT 57.282 33.333 0.00 0.00 0.00 2.12
2741 6429 3.004419 GTCTAAGGCCCTGTTTGTTTCAC 59.996 47.826 0.00 0.00 0.00 3.18
2900 6588 3.673597 AGGAGAGGGCCTGTCCGA 61.674 66.667 36.15 0.00 46.83 4.55
2981 7124 3.119096 GGCGAACCGAGGCAGAAC 61.119 66.667 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 2.680352 ACGGAGTGACCCTCGCAT 60.680 61.111 0.00 0.00 42.51 4.73
60 61 1.598962 CTATGCGGTGGAGGCCATG 60.599 63.158 5.01 0.00 35.28 3.66
61 62 2.044806 GACTATGCGGTGGAGGCCAT 62.045 60.000 5.01 0.00 35.28 4.40
92 93 1.318158 CGGTTACCTCCTGGCTACGT 61.318 60.000 0.00 0.00 36.63 3.57
93 94 1.436336 CGGTTACCTCCTGGCTACG 59.564 63.158 0.00 0.00 36.63 3.51
94 95 1.821258 CCGGTTACCTCCTGGCTAC 59.179 63.158 0.00 0.00 36.63 3.58
95 96 2.062177 GCCGGTTACCTCCTGGCTA 61.062 63.158 10.18 0.00 40.87 3.93
97 98 4.832608 CGCCGGTTACCTCCTGGC 62.833 72.222 1.90 7.79 40.75 4.85
98 99 3.072468 TCGCCGGTTACCTCCTGG 61.072 66.667 1.90 0.00 39.83 4.45
99 100 2.183555 GTCGCCGGTTACCTCCTG 59.816 66.667 1.90 0.00 0.00 3.86
100 101 3.073101 GGTCGCCGGTTACCTCCT 61.073 66.667 17.32 0.00 32.72 3.69
101 102 3.073101 AGGTCGCCGGTTACCTCC 61.073 66.667 20.47 7.81 42.60 4.30
102 103 2.183555 CAGGTCGCCGGTTACCTC 59.816 66.667 22.59 2.50 44.43 3.85
104 105 2.433664 CACAGGTCGCCGGTTACC 60.434 66.667 16.98 16.98 35.91 2.85
105 106 3.116531 GCACAGGTCGCCGGTTAC 61.117 66.667 1.90 0.82 27.46 2.50
106 107 3.583276 CTGCACAGGTCGCCGGTTA 62.583 63.158 1.90 0.00 27.46 2.85
107 108 4.988598 CTGCACAGGTCGCCGGTT 62.989 66.667 1.90 0.00 27.46 4.44
110 111 3.978723 CTCTCTGCACAGGTCGCCG 62.979 68.421 0.00 0.00 0.00 6.46
111 112 2.125753 CTCTCTGCACAGGTCGCC 60.126 66.667 0.00 0.00 0.00 5.54
112 113 2.125753 CCTCTCTGCACAGGTCGC 60.126 66.667 0.00 0.00 0.00 5.19
113 114 2.125753 GCCTCTCTGCACAGGTCG 60.126 66.667 0.00 0.00 31.65 4.79
114 115 1.079266 CTGCCTCTCTGCACAGGTC 60.079 63.158 0.00 0.00 36.04 3.85
115 116 2.591072 CCTGCCTCTCTGCACAGGT 61.591 63.158 9.98 0.00 43.86 4.00
116 117 2.268280 CCTGCCTCTCTGCACAGG 59.732 66.667 4.56 4.56 43.45 4.00
117 118 1.218585 CTCCTGCCTCTCTGCACAG 59.781 63.158 0.00 0.00 36.04 3.66
118 119 2.288778 CCTCCTGCCTCTCTGCACA 61.289 63.158 0.00 0.00 36.04 4.57
119 120 1.336632 ATCCTCCTGCCTCTCTGCAC 61.337 60.000 0.00 0.00 36.04 4.57
120 121 1.002662 ATCCTCCTGCCTCTCTGCA 59.997 57.895 0.00 0.00 39.37 4.41
121 122 1.047596 TCATCCTCCTGCCTCTCTGC 61.048 60.000 0.00 0.00 0.00 4.26
122 123 1.042229 CTCATCCTCCTGCCTCTCTG 58.958 60.000 0.00 0.00 0.00 3.35
123 124 0.105555 CCTCATCCTCCTGCCTCTCT 60.106 60.000 0.00 0.00 0.00 3.10
124 125 0.105760 TCCTCATCCTCCTGCCTCTC 60.106 60.000 0.00 0.00 0.00 3.20
125 126 0.567182 ATCCTCATCCTCCTGCCTCT 59.433 55.000 0.00 0.00 0.00 3.69
126 127 0.975887 GATCCTCATCCTCCTGCCTC 59.024 60.000 0.00 0.00 0.00 4.70
127 128 0.267054 TGATCCTCATCCTCCTGCCT 59.733 55.000 0.00 0.00 0.00 4.75
128 129 0.686224 CTGATCCTCATCCTCCTGCC 59.314 60.000 0.00 0.00 0.00 4.85
129 130 1.070445 CACTGATCCTCATCCTCCTGC 59.930 57.143 0.00 0.00 0.00 4.85
130 131 2.396608 ACACTGATCCTCATCCTCCTG 58.603 52.381 0.00 0.00 0.00 3.86
131 132 2.864885 ACACTGATCCTCATCCTCCT 57.135 50.000 0.00 0.00 0.00 3.69
132 133 5.559148 AAATACACTGATCCTCATCCTCC 57.441 43.478 0.00 0.00 0.00 4.30
200 201 5.498159 CGTCTCTGAAGATCTTCTACTTCG 58.502 45.833 30.45 24.02 43.46 3.79
256 257 4.562789 GCAAAAGAAACAGGTGTCTTCAAC 59.437 41.667 5.37 0.00 32.90 3.18
280 281 6.378710 ACCTCTTTTCTAAAAACAGAGCAC 57.621 37.500 0.00 0.00 33.25 4.40
283 284 7.121315 CCCCATACCTCTTTTCTAAAAACAGAG 59.879 40.741 0.00 0.00 33.77 3.35
292 293 6.713731 AAAGAACCCCATACCTCTTTTCTA 57.286 37.500 0.00 0.00 35.15 2.10
294 295 6.665992 AAAAAGAACCCCATACCTCTTTTC 57.334 37.500 8.60 0.00 43.73 2.29
304 305 7.010160 TCTCTGTCAAATAAAAAGAACCCCAT 58.990 34.615 0.00 0.00 0.00 4.00
321 322 8.647796 TCCAAAACTAGAGTATTTTCTCTGTCA 58.352 33.333 0.00 0.00 43.54 3.58
361 362 6.059484 GGCTACCCAATAAACTGCAGTATTA 58.941 40.000 22.01 19.30 0.00 0.98
456 1334 3.448686 ACATCTCCGTTTGATAGCGAAG 58.551 45.455 0.00 0.00 0.00 3.79
460 1338 7.426929 AATATTGACATCTCCGTTTGATAGC 57.573 36.000 0.00 0.00 0.00 2.97
502 1380 2.479560 GCTCACGGAACAAAAGTTTGCT 60.480 45.455 3.68 0.00 41.79 3.91
503 1381 1.852280 GCTCACGGAACAAAAGTTTGC 59.148 47.619 3.68 0.00 41.79 3.68
542 2285 4.514066 ACTGGAATCCGACACAAACTTAAC 59.486 41.667 0.00 0.00 0.00 2.01
545 2288 3.139077 GACTGGAATCCGACACAAACTT 58.861 45.455 0.00 0.00 0.00 2.66
648 2391 2.961062 TCTCGATCTGATTCTGATGGCA 59.039 45.455 10.41 0.00 0.00 4.92
980 2732 3.450115 GCCACGCGAGGTAGGTCT 61.450 66.667 23.63 0.00 0.00 3.85
1090 2848 3.797353 GCCCTCCTCCATGCCGAA 61.797 66.667 0.00 0.00 0.00 4.30
1211 2969 3.025322 AGGTGAGCTCATAGTACTGCT 57.975 47.619 21.47 5.28 38.59 4.24
1221 2979 1.423584 TCTTGTGGAAGGTGAGCTCA 58.576 50.000 13.74 13.74 0.00 4.26
1479 3240 2.001269 GCCCCTCTTCCAGGCCTTA 61.001 63.158 0.00 0.00 41.80 2.69
1713 3474 1.079127 GTCCTTGGCGCTAGAAGCA 60.079 57.895 7.64 0.00 42.58 3.91
1723 3490 1.264288 CTTGTTGTTCTCGTCCTTGGC 59.736 52.381 0.00 0.00 0.00 4.52
1863 3767 2.072487 CATGTCCATCCTCCCGGGT 61.072 63.158 22.86 0.00 36.25 5.28
1869 3773 2.682893 GACGTGCATGTCCATCCTC 58.317 57.895 25.72 1.87 32.61 3.71
1896 3800 2.125512 GCCTCGGTGGTGCAGTAG 60.126 66.667 0.00 0.00 38.35 2.57
1965 3869 0.907486 TCAGCTCCTCAATCTGTGGG 59.093 55.000 0.00 0.00 32.20 4.61
1986 3890 2.932234 CGTCACTTCCACCTCGGCT 61.932 63.158 0.00 0.00 33.14 5.52
1989 3893 2.432628 GGCGTCACTTCCACCTCG 60.433 66.667 0.00 0.00 0.00 4.63
2030 3934 1.733402 ATCAGGCTCTTCGCTCCTCG 61.733 60.000 0.00 0.00 39.13 4.63
2073 3980 8.980481 ACAATTCTTTCTTTGAGTTTAGGAGA 57.020 30.769 0.00 0.00 0.00 3.71
2082 3989 5.835257 TCTGCCAACAATTCTTTCTTTGAG 58.165 37.500 0.00 0.00 0.00 3.02
2112 4019 1.644337 TCCTCCTCCTTGTAGGCACTA 59.356 52.381 0.00 0.00 41.75 2.74
2114 4021 1.501582 ATCCTCCTCCTTGTAGGCAC 58.498 55.000 0.00 0.00 36.51 5.01
2224 5194 4.580995 TCCTACTGCTAGCTAGTGTTCATC 59.419 45.833 21.62 4.13 0.00 2.92
2229 5199 3.142951 CGATCCTACTGCTAGCTAGTGT 58.857 50.000 21.62 20.57 0.00 3.55
2230 5200 3.403968 TCGATCCTACTGCTAGCTAGTG 58.596 50.000 21.62 16.39 0.00 2.74
2231 5201 3.071892 ACTCGATCCTACTGCTAGCTAGT 59.928 47.826 21.62 18.45 0.00 2.57
2232 5202 3.435327 CACTCGATCCTACTGCTAGCTAG 59.565 52.174 16.84 16.84 0.00 3.42
2233 5203 3.403968 CACTCGATCCTACTGCTAGCTA 58.596 50.000 17.23 0.00 0.00 3.32
2269 5913 4.219944 ACTCTCTCGTAGGCACACAATTTA 59.780 41.667 0.00 0.00 0.00 1.40
2307 5957 1.782569 GCTATAAACATGTACGCGCGA 59.217 47.619 39.36 15.84 0.00 5.87
2453 6141 9.821662 GCCTTATTAAAAATACCGTGATACATC 57.178 33.333 0.00 0.00 0.00 3.06
2460 6148 6.261381 TGGCTAGCCTTATTAAAAATACCGTG 59.739 38.462 33.07 0.00 36.94 4.94
2461 6149 6.358991 TGGCTAGCCTTATTAAAAATACCGT 58.641 36.000 33.07 0.00 36.94 4.83
2471 6159 3.844211 CCCCACTATGGCTAGCCTTATTA 59.156 47.826 33.07 14.38 35.79 0.98
2477 6165 0.473117 TACCCCCACTATGGCTAGCC 60.473 60.000 27.71 27.71 35.79 3.93
2478 6166 1.071857 GTTACCCCCACTATGGCTAGC 59.928 57.143 6.04 6.04 35.79 3.42
2479 6167 2.404559 TGTTACCCCCACTATGGCTAG 58.595 52.381 0.00 0.00 35.79 3.42
2480 6168 2.572229 TGTTACCCCCACTATGGCTA 57.428 50.000 0.00 0.00 35.79 3.93
2481 6169 1.907240 ATGTTACCCCCACTATGGCT 58.093 50.000 0.00 0.00 35.79 4.75
2482 6170 3.137728 ACTTATGTTACCCCCACTATGGC 59.862 47.826 0.00 0.00 35.79 4.40
2483 6171 4.445735 CCACTTATGTTACCCCCACTATGG 60.446 50.000 0.00 0.00 37.25 2.74
2484 6172 4.165372 ACCACTTATGTTACCCCCACTATG 59.835 45.833 0.00 0.00 0.00 2.23
2485 6173 4.377134 ACCACTTATGTTACCCCCACTAT 58.623 43.478 0.00 0.00 0.00 2.12
2486 6174 3.805762 ACCACTTATGTTACCCCCACTA 58.194 45.455 0.00 0.00 0.00 2.74
2487 6175 2.639487 ACCACTTATGTTACCCCCACT 58.361 47.619 0.00 0.00 0.00 4.00
2488 6176 4.164604 TGATACCACTTATGTTACCCCCAC 59.835 45.833 0.00 0.00 0.00 4.61
2489 6177 4.372588 TGATACCACTTATGTTACCCCCA 58.627 43.478 0.00 0.00 0.00 4.96
2490 6178 5.313712 CATGATACCACTTATGTTACCCCC 58.686 45.833 0.00 0.00 0.00 5.40
2491 6179 4.760204 GCATGATACCACTTATGTTACCCC 59.240 45.833 0.00 0.00 0.00 4.95
2492 6180 4.451096 CGCATGATACCACTTATGTTACCC 59.549 45.833 0.00 0.00 0.00 3.69
2493 6181 4.084013 GCGCATGATACCACTTATGTTACC 60.084 45.833 0.30 0.00 0.00 2.85
2494 6182 4.750098 AGCGCATGATACCACTTATGTTAC 59.250 41.667 11.47 0.00 0.00 2.50
2495 6183 4.956085 AGCGCATGATACCACTTATGTTA 58.044 39.130 11.47 0.00 0.00 2.41
2496 6184 3.808728 AGCGCATGATACCACTTATGTT 58.191 40.909 11.47 0.00 0.00 2.71
2497 6185 3.475566 AGCGCATGATACCACTTATGT 57.524 42.857 11.47 0.00 0.00 2.29
2498 6186 3.058708 CCAAGCGCATGATACCACTTATG 60.059 47.826 15.31 0.00 0.00 1.90
2499 6187 3.141398 CCAAGCGCATGATACCACTTAT 58.859 45.455 15.31 0.00 0.00 1.73
2500 6188 2.560504 CCAAGCGCATGATACCACTTA 58.439 47.619 15.31 0.00 0.00 2.24
2501 6189 1.382522 CCAAGCGCATGATACCACTT 58.617 50.000 15.31 0.00 0.00 3.16
2502 6190 0.464373 CCCAAGCGCATGATACCACT 60.464 55.000 15.31 0.00 0.00 4.00
2503 6191 0.463654 TCCCAAGCGCATGATACCAC 60.464 55.000 15.31 0.00 0.00 4.16
2504 6192 0.254462 TTCCCAAGCGCATGATACCA 59.746 50.000 15.31 0.00 0.00 3.25
2505 6193 1.537202 GATTCCCAAGCGCATGATACC 59.463 52.381 15.31 0.00 0.00 2.73
2506 6194 1.195448 CGATTCCCAAGCGCATGATAC 59.805 52.381 15.31 0.23 31.82 2.24
2507 6195 1.202639 ACGATTCCCAAGCGCATGATA 60.203 47.619 15.31 0.00 45.54 2.15
2508 6196 0.464373 ACGATTCCCAAGCGCATGAT 60.464 50.000 15.31 0.00 45.54 2.45
2509 6197 0.176910 TACGATTCCCAAGCGCATGA 59.823 50.000 15.31 0.00 45.54 3.07
2510 6198 1.013596 TTACGATTCCCAAGCGCATG 58.986 50.000 11.47 8.27 45.54 4.06
2511 6199 1.400494 GTTTACGATTCCCAAGCGCAT 59.600 47.619 11.47 0.00 45.54 4.73
2512 6200 0.800012 GTTTACGATTCCCAAGCGCA 59.200 50.000 11.47 0.00 45.54 6.09
2513 6201 0.800012 TGTTTACGATTCCCAAGCGC 59.200 50.000 0.00 0.00 45.54 5.92
2515 6203 2.423538 AGCATGTTTACGATTCCCAAGC 59.576 45.455 0.00 0.00 0.00 4.01
2516 6204 4.701956 AAGCATGTTTACGATTCCCAAG 57.298 40.909 0.00 0.00 0.00 3.61
2517 6205 5.650266 ACATAAGCATGTTTACGATTCCCAA 59.350 36.000 3.95 0.00 42.98 4.12
2518 6206 5.065859 CACATAAGCATGTTTACGATTCCCA 59.934 40.000 3.95 0.00 42.98 4.37
2519 6207 5.505654 CCACATAAGCATGTTTACGATTCCC 60.506 44.000 3.95 0.00 42.98 3.97
2520 6208 5.510671 CCACATAAGCATGTTTACGATTCC 58.489 41.667 3.95 0.00 42.98 3.01
2521 6209 4.970003 GCCACATAAGCATGTTTACGATTC 59.030 41.667 3.95 0.00 42.98 2.52
2522 6210 4.397730 TGCCACATAAGCATGTTTACGATT 59.602 37.500 3.95 0.00 42.98 3.34
2523 6211 3.944650 TGCCACATAAGCATGTTTACGAT 59.055 39.130 3.95 0.00 42.98 3.73
2524 6212 3.339141 TGCCACATAAGCATGTTTACGA 58.661 40.909 3.95 0.00 42.98 3.43
2525 6213 3.487376 CCTGCCACATAAGCATGTTTACG 60.487 47.826 3.95 0.00 42.98 3.18
2526 6214 3.734902 GCCTGCCACATAAGCATGTTTAC 60.735 47.826 3.95 0.00 42.98 2.01
2527 6215 2.426738 GCCTGCCACATAAGCATGTTTA 59.573 45.455 4.36 4.36 42.98 2.01
2528 6216 1.205417 GCCTGCCACATAAGCATGTTT 59.795 47.619 0.00 0.00 42.98 2.83
2529 6217 0.819582 GCCTGCCACATAAGCATGTT 59.180 50.000 0.00 0.00 42.98 2.71
2530 6218 0.323633 TGCCTGCCACATAAGCATGT 60.324 50.000 0.00 0.00 46.58 3.21
2531 6219 0.818938 TTGCCTGCCACATAAGCATG 59.181 50.000 0.00 0.00 40.04 4.06
2532 6220 1.784358 ATTGCCTGCCACATAAGCAT 58.216 45.000 0.00 0.00 40.04 3.79
2533 6221 1.559368 AATTGCCTGCCACATAAGCA 58.441 45.000 0.00 0.00 38.82 3.91
2534 6222 3.799281 TTAATTGCCTGCCACATAAGC 57.201 42.857 0.00 0.00 0.00 3.09
2535 6223 5.581126 TCTTTAATTGCCTGCCACATAAG 57.419 39.130 0.00 0.00 0.00 1.73
2536 6224 5.714333 TCTTCTTTAATTGCCTGCCACATAA 59.286 36.000 0.00 0.00 0.00 1.90
2537 6225 5.260424 TCTTCTTTAATTGCCTGCCACATA 58.740 37.500 0.00 0.00 0.00 2.29
2538 6226 4.088634 TCTTCTTTAATTGCCTGCCACAT 58.911 39.130 0.00 0.00 0.00 3.21
2539 6227 3.495331 TCTTCTTTAATTGCCTGCCACA 58.505 40.909 0.00 0.00 0.00 4.17
2540 6228 3.758554 TCTCTTCTTTAATTGCCTGCCAC 59.241 43.478 0.00 0.00 0.00 5.01
2541 6229 4.012374 CTCTCTTCTTTAATTGCCTGCCA 58.988 43.478 0.00 0.00 0.00 4.92
2542 6230 4.265073 TCTCTCTTCTTTAATTGCCTGCC 58.735 43.478 0.00 0.00 0.00 4.85
2543 6231 5.221009 CCATCTCTCTTCTTTAATTGCCTGC 60.221 44.000 0.00 0.00 0.00 4.85
2544 6232 5.884792 ACCATCTCTCTTCTTTAATTGCCTG 59.115 40.000 0.00 0.00 0.00 4.85
2545 6233 6.072199 ACCATCTCTCTTCTTTAATTGCCT 57.928 37.500 0.00 0.00 0.00 4.75
2546 6234 6.765915 AACCATCTCTCTTCTTTAATTGCC 57.234 37.500 0.00 0.00 0.00 4.52
2557 6245 9.884814 ACCTATGTTACTATAACCATCTCTCTT 57.115 33.333 0.00 0.00 0.00 2.85
2598 6286 8.962884 TGACACATAGTAGCATCACATTTATT 57.037 30.769 0.00 0.00 0.00 1.40
2600 6288 7.041848 GCATGACACATAGTAGCATCACATTTA 60.042 37.037 0.00 0.00 0.00 1.40
2601 6289 6.238566 GCATGACACATAGTAGCATCACATTT 60.239 38.462 0.00 0.00 0.00 2.32
2602 6290 5.237996 GCATGACACATAGTAGCATCACATT 59.762 40.000 0.00 0.00 0.00 2.71
2609 6297 3.469739 CCATGCATGACACATAGTAGCA 58.530 45.455 28.31 0.00 37.13 3.49
2618 6306 4.684877 TCATTTATTGCCATGCATGACAC 58.315 39.130 28.31 16.49 38.76 3.67
2620 6308 4.980434 GTCTCATTTATTGCCATGCATGAC 59.020 41.667 28.31 17.77 38.76 3.06
2623 6311 4.220724 AGGTCTCATTTATTGCCATGCAT 58.779 39.130 0.00 0.00 38.76 3.96
2624 6312 3.634504 AGGTCTCATTTATTGCCATGCA 58.365 40.909 0.00 0.00 36.47 3.96
2625 6313 4.340381 AGAAGGTCTCATTTATTGCCATGC 59.660 41.667 0.00 0.00 0.00 4.06
2628 6316 6.899089 TCATAGAAGGTCTCATTTATTGCCA 58.101 36.000 0.00 0.00 0.00 4.92
2630 6318 9.717942 AGTATCATAGAAGGTCTCATTTATTGC 57.282 33.333 0.00 0.00 0.00 3.56
2703 6391 6.591834 GGCCTTAGACTAGTAACATGCATATG 59.408 42.308 0.00 0.00 40.24 1.78
2704 6392 6.295916 GGGCCTTAGACTAGTAACATGCATAT 60.296 42.308 0.84 0.00 0.00 1.78
2705 6393 5.011738 GGGCCTTAGACTAGTAACATGCATA 59.988 44.000 0.84 0.00 0.00 3.14
2706 6394 4.202367 GGGCCTTAGACTAGTAACATGCAT 60.202 45.833 0.84 0.00 0.00 3.96
2707 6395 3.134081 GGGCCTTAGACTAGTAACATGCA 59.866 47.826 0.84 0.00 0.00 3.96
2708 6396 3.388350 AGGGCCTTAGACTAGTAACATGC 59.612 47.826 0.00 0.00 0.00 4.06
2709 6397 4.406003 ACAGGGCCTTAGACTAGTAACATG 59.594 45.833 1.32 0.00 0.00 3.21
2710 6398 4.621769 ACAGGGCCTTAGACTAGTAACAT 58.378 43.478 1.32 0.00 0.00 2.71
2711 6399 4.057063 ACAGGGCCTTAGACTAGTAACA 57.943 45.455 1.32 0.00 0.00 2.41
2712 6400 5.176592 CAAACAGGGCCTTAGACTAGTAAC 58.823 45.833 1.32 0.00 0.00 2.50
2713 6401 4.842380 ACAAACAGGGCCTTAGACTAGTAA 59.158 41.667 1.32 0.00 0.00 2.24
2714 6402 4.422984 ACAAACAGGGCCTTAGACTAGTA 58.577 43.478 1.32 0.00 0.00 1.82
2715 6403 3.248888 ACAAACAGGGCCTTAGACTAGT 58.751 45.455 1.32 0.00 0.00 2.57
2716 6404 3.983044 ACAAACAGGGCCTTAGACTAG 57.017 47.619 1.32 0.00 0.00 2.57
2717 6405 4.103469 TGAAACAAACAGGGCCTTAGACTA 59.897 41.667 1.32 0.00 0.00 2.59
2720 6408 3.219281 GTGAAACAAACAGGGCCTTAGA 58.781 45.455 1.32 0.00 36.32 2.10
2900 6588 3.706373 AGCGGTGCCTCCAATCGT 61.706 61.111 0.00 0.00 35.57 3.73


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

AutoCloner maintained by Alex Coulton.