Multiple sequence alignment - TraesCS2A01G450500

Loading Multiple Alignment...

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 TraesCS2A01G450500 chr2A 100.000 2741 0 0 653 3393 699913469 699910729 0.000000e+00 5062
1 TraesCS2A01G450500 chr2A 100.000 200 0 0 1 200 699914121 699913922 1.490000e-98 370
2 TraesCS2A01G450500 chr2D 88.271 1637 118 31 653 2257 559396107 559394513 0.000000e+00 1892
3 TraesCS2A01G450500 chr2D 85.211 1021 109 21 2323 3307 598725653 598726667 0.000000e+00 1011
4 TraesCS2A01G450500 chr2D 94.012 167 7 1 34 200 559396362 559396199 2.020000e-62 250
5 TraesCS2A01G450500 chr2B 84.261 1671 154 54 653 2257 668570797 668569170 0.000000e+00 1528
6 TraesCS2A01G450500 chr2B 90.303 165 13 1 34 198 668571051 668570890 2.650000e-51 213
7 TraesCS2A01G450500 chr2B 86.000 100 12 1 3295 3392 572172354 572172255 4.630000e-19 106
8 TraesCS2A01G450500 chr5D 84.968 1111 96 26 2323 3366 255071657 255070551 0.000000e+00 1061
9 TraesCS2A01G450500 chr5D 84.708 994 124 15 2323 3300 486536734 486535753 0.000000e+00 968
10 TraesCS2A01G450500 chr5D 82.489 1125 115 44 2323 3372 509829034 509830151 0.000000e+00 911
11 TraesCS2A01G450500 chr5D 82.837 1008 126 22 2320 3300 438599738 438600725 0.000000e+00 859
12 TraesCS2A01G450500 chr4D 85.394 1027 96 18 2323 3300 344879131 344880152 0.000000e+00 1016
13 TraesCS2A01G450500 chr4D 83.696 1012 122 27 2317 3299 8003879 8004876 0.000000e+00 915
14 TraesCS2A01G450500 chr4D 87.799 418 42 3 2323 2732 391094434 391094850 6.580000e-132 481
15 TraesCS2A01G450500 chr3A 84.242 1009 121 19 2323 3300 742226041 742225040 0.000000e+00 948
16 TraesCS2A01G450500 chr3D 85.730 932 81 24 2323 3209 365524507 365523583 0.000000e+00 937
17 TraesCS2A01G450500 chr3D 82.588 1074 107 39 2323 3366 84919375 84920398 0.000000e+00 874
18 TraesCS2A01G450500 chr3D 78.646 192 19 8 3221 3393 112347965 112348153 1.290000e-19 108
19 TraesCS2A01G450500 chr7D 83.874 1017 109 21 2321 3295 414486787 414485784 0.000000e+00 918
20 TraesCS2A01G450500 chr7D 83.486 763 87 21 2638 3373 604901441 604900691 0.000000e+00 675
21 TraesCS2A01G450500 chr1D 84.286 980 99 29 2350 3300 48776103 48777056 0.000000e+00 905
22 TraesCS2A01G450500 chr1D 82.395 835 102 25 2570 3370 71609933 71609110 0.000000e+00 686
23 TraesCS2A01G450500 chr1D 83.151 641 58 25 2792 3390 142911154 142910522 1.070000e-149 540
24 TraesCS2A01G450500 chr1D 80.636 723 89 23 2685 3367 83748902 83749613 2.340000e-141 512
25 TraesCS2A01G450500 chr1D 82.700 237 20 7 3158 3373 327725841 327725605 1.240000e-44 191
26 TraesCS2A01G450500 chr1D 93.151 73 5 0 3295 3367 112921299 112921227 1.290000e-19 108
27 TraesCS2A01G450500 chr4A 82.854 1009 133 22 2323 3299 414629831 414630831 0.000000e+00 869
28 TraesCS2A01G450500 chr4A 79.249 1012 151 37 2323 3291 434735290 434736285 0.000000e+00 651
29 TraesCS2A01G450500 chr6D 83.465 254 19 10 3138 3370 8110259 8110008 7.370000e-52 215


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 TraesCS2A01G450500 chr2A 699910729 699914121 3392 True 2716.0 5062 100.0000 1 3393 2 chr2A.!!$R1 3392
1 TraesCS2A01G450500 chr2D 559394513 559396362 1849 True 1071.0 1892 91.1415 34 2257 2 chr2D.!!$R1 2223
2 TraesCS2A01G450500 chr2D 598725653 598726667 1014 False 1011.0 1011 85.2110 2323 3307 1 chr2D.!!$F1 984
3 TraesCS2A01G450500 chr2B 668569170 668571051 1881 True 870.5 1528 87.2820 34 2257 2 chr2B.!!$R2 2223
4 TraesCS2A01G450500 chr5D 255070551 255071657 1106 True 1061.0 1061 84.9680 2323 3366 1 chr5D.!!$R1 1043
5 TraesCS2A01G450500 chr5D 486535753 486536734 981 True 968.0 968 84.7080 2323 3300 1 chr5D.!!$R2 977
6 TraesCS2A01G450500 chr5D 509829034 509830151 1117 False 911.0 911 82.4890 2323 3372 1 chr5D.!!$F2 1049
7 TraesCS2A01G450500 chr5D 438599738 438600725 987 False 859.0 859 82.8370 2320 3300 1 chr5D.!!$F1 980
8 TraesCS2A01G450500 chr4D 344879131 344880152 1021 False 1016.0 1016 85.3940 2323 3300 1 chr4D.!!$F2 977
9 TraesCS2A01G450500 chr4D 8003879 8004876 997 False 915.0 915 83.6960 2317 3299 1 chr4D.!!$F1 982
10 TraesCS2A01G450500 chr3A 742225040 742226041 1001 True 948.0 948 84.2420 2323 3300 1 chr3A.!!$R1 977
11 TraesCS2A01G450500 chr3D 365523583 365524507 924 True 937.0 937 85.7300 2323 3209 1 chr3D.!!$R1 886
12 TraesCS2A01G450500 chr3D 84919375 84920398 1023 False 874.0 874 82.5880 2323 3366 1 chr3D.!!$F1 1043
13 TraesCS2A01G450500 chr7D 414485784 414486787 1003 True 918.0 918 83.8740 2321 3295 1 chr7D.!!$R1 974
14 TraesCS2A01G450500 chr7D 604900691 604901441 750 True 675.0 675 83.4860 2638 3373 1 chr7D.!!$R2 735
15 TraesCS2A01G450500 chr1D 48776103 48777056 953 False 905.0 905 84.2860 2350 3300 1 chr1D.!!$F1 950
16 TraesCS2A01G450500 chr1D 71609110 71609933 823 True 686.0 686 82.3950 2570 3370 1 chr1D.!!$R1 800
17 TraesCS2A01G450500 chr1D 142910522 142911154 632 True 540.0 540 83.1510 2792 3390 1 chr1D.!!$R3 598
18 TraesCS2A01G450500 chr1D 83748902 83749613 711 False 512.0 512 80.6360 2685 3367 1 chr1D.!!$F2 682
19 TraesCS2A01G450500 chr4A 414629831 414630831 1000 False 869.0 869 82.8540 2323 3299 1 chr4A.!!$F1 976
20 TraesCS2A01G450500 chr4A 434735290 434736285 995 False 651.0 651 79.2490 2323 3291 1 chr4A.!!$F2 968

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
22 23 0.737715 GTCGCGACTCCAGCAAAGAT 60.738 55.0 31.12 0.00 34.19 2.40 F
1321 1379 0.537143 TGCTGTCCGGTGAATTTGCT 60.537 50.0 0.00 0.00 0.00 3.91 F
1650 1732 0.109735 CACTTGCTCTCTACGCGTCA 60.110 55.0 18.63 2.71 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1592 1673 0.116940 AGCATTGTTTGGGGGATGGT 59.883 50.0 0.00 0.0 0.00 3.55 R
2293 2391 0.097150 GAACGAAATCGCAAGGAGCC 59.903 55.0 2.15 0.0 44.43 4.70 R
2597 2728 0.391661 GCTTGAGCAACCTCATCGGA 60.392 55.0 0.00 0.0 46.84 4.55 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
17 18 2.983592 TCTGTCGCGACTCCAGCA 60.984 61.111 36.27 16.92 34.19 4.41
18 19 2.049156 CTGTCGCGACTCCAGCAA 60.049 61.111 36.27 16.14 34.19 3.91
19 20 1.664649 CTGTCGCGACTCCAGCAAA 60.665 57.895 36.27 15.40 34.19 3.68
20 21 1.621301 CTGTCGCGACTCCAGCAAAG 61.621 60.000 36.27 20.60 34.19 2.77
21 22 1.372997 GTCGCGACTCCAGCAAAGA 60.373 57.895 31.12 0.00 34.19 2.52
22 23 0.737715 GTCGCGACTCCAGCAAAGAT 60.738 55.000 31.12 0.00 34.19 2.40
23 24 0.815095 TCGCGACTCCAGCAAAGATA 59.185 50.000 3.71 0.00 34.19 1.98
24 25 0.924090 CGCGACTCCAGCAAAGATAC 59.076 55.000 0.00 0.00 34.19 2.24
25 26 0.924090 GCGACTCCAGCAAAGATACG 59.076 55.000 0.00 0.00 34.19 3.06
26 27 0.924090 CGACTCCAGCAAAGATACGC 59.076 55.000 0.00 0.00 0.00 4.42
27 28 0.924090 GACTCCAGCAAAGATACGCG 59.076 55.000 3.53 3.53 0.00 6.01
28 29 1.084370 ACTCCAGCAAAGATACGCGC 61.084 55.000 5.73 0.00 0.00 6.86
29 30 0.807667 CTCCAGCAAAGATACGCGCT 60.808 55.000 5.73 0.00 34.29 5.92
30 31 4.961622 CAGCAAAGATACGCGCTG 57.038 55.556 5.73 1.02 45.17 5.18
31 32 1.349627 CAGCAAAGATACGCGCTGG 59.650 57.895 5.73 0.00 46.37 4.85
32 33 1.815421 AGCAAAGATACGCGCTGGG 60.815 57.895 5.73 0.00 32.33 4.45
64 65 3.710722 CCAGCACCTTCCCTCGCT 61.711 66.667 0.00 0.00 34.29 4.93
69 70 2.203788 ACCTTCCCTCGCTGACCA 60.204 61.111 0.00 0.00 0.00 4.02
128 129 4.368808 CACCGCGTGCGTTTCCTG 62.369 66.667 13.70 0.00 37.81 3.86
719 720 1.074850 CTCCTTCCCTCCCTCCCTC 60.075 68.421 0.00 0.00 0.00 4.30
720 721 2.040359 CCTTCCCTCCCTCCCTCC 60.040 72.222 0.00 0.00 0.00 4.30
721 722 2.040359 CTTCCCTCCCTCCCTCCC 60.040 72.222 0.00 0.00 0.00 4.30
722 723 2.543637 TTCCCTCCCTCCCTCCCT 60.544 66.667 0.00 0.00 0.00 4.20
823 828 0.813610 TAAGCGCCCCGAATCACATG 60.814 55.000 2.29 0.00 0.00 3.21
825 830 2.514592 CGCCCCGAATCACATGCT 60.515 61.111 0.00 0.00 0.00 3.79
845 850 1.222113 CTCCCTCCTTTCTTCGCCC 59.778 63.158 0.00 0.00 0.00 6.13
864 869 1.445410 GATTTTCGTTTGGGCCGCC 60.445 57.895 0.00 0.00 0.00 6.13
915 926 2.966309 GCTCGTTGCTTGTTCCCGG 61.966 63.158 0.00 0.00 38.95 5.73
916 927 2.966309 CTCGTTGCTTGTTCCCGGC 61.966 63.158 0.00 0.00 0.00 6.13
917 928 4.038080 CGTTGCTTGTTCCCGGCC 62.038 66.667 0.00 0.00 0.00 6.13
918 929 3.680786 GTTGCTTGTTCCCGGCCC 61.681 66.667 0.00 0.00 0.00 5.80
945 956 0.766288 TGTGGATCCTGGTGTGGTGA 60.766 55.000 14.23 0.00 0.00 4.02
971 987 4.456911 CCATCATATATGTGTGGTTCCTGC 59.543 45.833 21.63 0.00 33.30 4.85
977 993 3.788227 ATGTGTGGTTCCTGCTTCTTA 57.212 42.857 0.00 0.00 0.00 2.10
1061 1084 5.106118 GGTCTGGAAAGTTAGGAAAAGATGC 60.106 44.000 0.00 0.00 0.00 3.91
1108 1157 3.127030 GTCCAAGCTGTGCATAAGTTACC 59.873 47.826 0.00 0.00 0.00 2.85
1122 1171 7.929245 TGCATAAGTTACCGCTATTTTATCAGA 59.071 33.333 7.45 0.00 0.00 3.27
1173 1230 9.989296 TGGAGATGAGGATTAAGGAAATAAAAA 57.011 29.630 0.00 0.00 0.00 1.94
1200 1257 2.543861 CGTGGTCTTGATGGTCTATCCG 60.544 54.545 0.00 0.00 39.52 4.18
1208 1265 1.745320 ATGGTCTATCCGTCCCACGC 61.745 60.000 0.00 0.00 40.91 5.34
1221 1278 1.016130 CCCACGCAGCTGTTACTGAG 61.016 60.000 16.64 1.26 42.46 3.35
1224 1281 2.341257 CACGCAGCTGTTACTGAGAAT 58.659 47.619 16.64 0.00 39.55 2.40
1227 1284 1.399791 GCAGCTGTTACTGAGAATGGC 59.600 52.381 16.64 0.00 40.25 4.40
1232 1289 3.798202 CTGTTACTGAGAATGGCCCTAC 58.202 50.000 0.00 0.00 0.00 3.18
1256 1313 2.800544 CTGTCCTTTCGTGATGAAACGT 59.199 45.455 0.00 0.00 41.59 3.99
1321 1379 0.537143 TGCTGTCCGGTGAATTTGCT 60.537 50.000 0.00 0.00 0.00 3.91
1339 1397 5.814764 TTGCTTTTGAGTTAACCGTGTAA 57.185 34.783 0.88 0.00 0.00 2.41
1341 1399 4.273969 TGCTTTTGAGTTAACCGTGTAAGG 59.726 41.667 0.88 0.00 37.30 2.69
1357 1415 5.755375 CGTGTAAGGTTCATGAGATTAGCAT 59.245 40.000 0.00 0.00 0.00 3.79
1414 1473 3.862124 CAGTACGGAGCACTGTGC 58.138 61.111 24.59 24.59 45.46 4.57
1436 1495 5.063817 TGCGACATGAGAAATGAATAGTGTG 59.936 40.000 0.00 0.00 0.00 3.82
1446 1505 1.027357 GAATAGTGTGCAGCATGGGG 58.973 55.000 0.00 0.00 35.86 4.96
1447 1506 1.039233 AATAGTGTGCAGCATGGGGC 61.039 55.000 0.00 0.00 45.30 5.80
1448 1507 2.916527 ATAGTGTGCAGCATGGGGCC 62.917 60.000 0.00 0.00 46.50 5.80
1451 1510 4.127744 GTGCAGCATGGGGCCCTA 62.128 66.667 25.93 18.54 46.50 3.53
1452 1511 3.345880 TGCAGCATGGGGCCCTAA 61.346 61.111 25.93 11.44 46.50 2.69
1453 1512 2.043046 GCAGCATGGGGCCCTAAA 60.043 61.111 25.93 8.45 46.50 1.85
1454 1513 2.426406 GCAGCATGGGGCCCTAAAC 61.426 63.158 25.93 12.54 46.50 2.01
1545 1611 2.024273 AGTACCCTGTCCTAGCTAAGCA 60.024 50.000 0.00 0.00 0.00 3.91
1574 1655 3.225104 TCCCTTTCTGCATTATGATGGC 58.775 45.455 0.00 0.00 33.72 4.40
1578 1659 2.174363 TCTGCATTATGATGGCTCCG 57.826 50.000 0.00 0.00 33.72 4.63
1586 1667 3.869272 GATGGCTCCGCAACGCTG 61.869 66.667 0.00 0.00 0.00 5.18
1601 1682 3.873812 CTGCCCGTACCATCCCCC 61.874 72.222 0.00 0.00 0.00 5.40
1650 1732 0.109735 CACTTGCTCTCTACGCGTCA 60.110 55.000 18.63 2.71 0.00 4.35
1695 1777 2.516930 GGTGCCCATGTGATCCGG 60.517 66.667 0.00 0.00 0.00 5.14
1708 1790 2.623416 GTGATCCGGGATCCAAATTTCC 59.377 50.000 29.34 7.04 38.20 3.13
1711 1793 1.111277 CCGGGATCCAAATTTCCACC 58.889 55.000 15.23 0.00 33.43 4.61
1712 1794 1.618345 CCGGGATCCAAATTTCCACCA 60.618 52.381 15.23 0.00 33.43 4.17
2026 2112 2.876955 GCACAGCAATGCCGCTTA 59.123 55.556 0.00 0.00 41.38 3.09
2027 2113 1.226491 GCACAGCAATGCCGCTTAG 60.226 57.895 0.00 0.00 41.38 2.18
2028 2114 1.430632 CACAGCAATGCCGCTTAGG 59.569 57.895 0.00 0.00 41.38 2.69
2096 2182 1.097232 GCAGCTGTCCATATGTTGCA 58.903 50.000 16.64 0.00 37.74 4.08
2098 2184 1.674441 CAGCTGTCCATATGTTGCAGG 59.326 52.381 5.25 0.00 0.00 4.85
2100 2186 2.020694 GCTGTCCATATGTTGCAGGCT 61.021 52.381 15.50 0.00 0.00 4.58
2164 2250 4.751600 TCGGTGATGAAATGATATGCAGTC 59.248 41.667 0.00 0.00 0.00 3.51
2198 2294 8.322906 TGATTACATAGTTATTACCTGCATGC 57.677 34.615 11.82 11.82 0.00 4.06
2219 2315 0.250467 ATGCGAGTCTGGTGTTGCTT 60.250 50.000 0.00 0.00 0.00 3.91
2224 2320 1.996191 GAGTCTGGTGTTGCTTCGATC 59.004 52.381 0.00 0.00 0.00 3.69
2226 2322 2.037772 AGTCTGGTGTTGCTTCGATCTT 59.962 45.455 0.00 0.00 0.00 2.40
2236 2334 1.667724 GCTTCGATCTTGGTGTGGATG 59.332 52.381 0.00 0.00 0.00 3.51
2245 2343 3.007506 TCTTGGTGTGGATGTCGTGTATT 59.992 43.478 0.00 0.00 0.00 1.89
2246 2344 2.967362 TGGTGTGGATGTCGTGTATTC 58.033 47.619 0.00 0.00 0.00 1.75
2248 2346 1.323534 GTGTGGATGTCGTGTATTCGC 59.676 52.381 0.00 0.00 0.00 4.70
2249 2347 0.928229 GTGGATGTCGTGTATTCGCC 59.072 55.000 0.00 0.00 0.00 5.54
2257 2355 2.125310 TGTATTCGCCGTGGCCTG 60.125 61.111 3.32 0.00 37.98 4.85
2258 2356 2.185867 GTATTCGCCGTGGCCTGA 59.814 61.111 3.32 0.00 37.98 3.86
2259 2357 1.883084 GTATTCGCCGTGGCCTGAG 60.883 63.158 3.32 0.00 37.98 3.35
2260 2358 2.355986 TATTCGCCGTGGCCTGAGT 61.356 57.895 3.32 0.00 37.98 3.41
2261 2359 2.572095 TATTCGCCGTGGCCTGAGTG 62.572 60.000 3.32 0.00 37.98 3.51
2265 2363 3.941188 CCGTGGCCTGAGTGTGGT 61.941 66.667 3.32 0.00 0.00 4.16
2266 2364 2.666190 CGTGGCCTGAGTGTGGTG 60.666 66.667 3.32 0.00 0.00 4.17
2267 2365 2.980233 GTGGCCTGAGTGTGGTGC 60.980 66.667 3.32 0.00 0.00 5.01
2268 2366 4.269523 TGGCCTGAGTGTGGTGCC 62.270 66.667 3.32 0.00 42.49 5.01
2269 2367 4.269523 GGCCTGAGTGTGGTGCCA 62.270 66.667 0.00 0.00 41.76 4.92
2270 2368 2.034687 GCCTGAGTGTGGTGCCAT 59.965 61.111 0.00 0.00 0.00 4.40
2271 2369 2.042831 GCCTGAGTGTGGTGCCATC 61.043 63.158 0.00 0.00 0.00 3.51
2272 2370 1.742880 CCTGAGTGTGGTGCCATCG 60.743 63.158 0.00 0.00 0.00 3.84
2273 2371 1.004560 CTGAGTGTGGTGCCATCGT 60.005 57.895 0.00 0.00 0.00 3.73
2274 2372 1.005037 TGAGTGTGGTGCCATCGTC 60.005 57.895 0.00 0.00 0.00 4.20
2275 2373 2.048222 AGTGTGGTGCCATCGTCG 60.048 61.111 0.00 0.00 0.00 5.12
2276 2374 3.788766 GTGTGGTGCCATCGTCGC 61.789 66.667 0.00 0.00 0.00 5.19
2277 2375 4.002506 TGTGGTGCCATCGTCGCT 62.003 61.111 0.00 0.00 0.00 4.93
2278 2376 3.188786 GTGGTGCCATCGTCGCTC 61.189 66.667 0.00 0.00 0.00 5.03
2279 2377 3.690280 TGGTGCCATCGTCGCTCA 61.690 61.111 0.00 0.00 0.00 4.26
2280 2378 3.188786 GGTGCCATCGTCGCTCAC 61.189 66.667 0.00 0.00 0.00 3.51
2281 2379 3.188786 GTGCCATCGTCGCTCACC 61.189 66.667 0.00 0.00 0.00 4.02
2282 2380 4.794439 TGCCATCGTCGCTCACCG 62.794 66.667 0.00 0.00 38.61 4.94
2284 2382 4.129737 CCATCGTCGCTCACCGGT 62.130 66.667 0.00 0.00 37.59 5.28
2285 2383 2.880879 CATCGTCGCTCACCGGTG 60.881 66.667 29.26 29.26 37.59 4.94
2286 2384 4.129737 ATCGTCGCTCACCGGTGG 62.130 66.667 33.40 23.98 37.59 4.61
2288 2386 4.129737 CGTCGCTCACCGGTGGAT 62.130 66.667 33.40 0.00 37.59 3.41
2289 2387 2.509336 GTCGCTCACCGGTGGATG 60.509 66.667 33.40 23.20 37.59 3.51
2290 2388 2.994995 TCGCTCACCGGTGGATGT 60.995 61.111 33.40 0.00 37.59 3.06
2291 2389 1.679641 TCGCTCACCGGTGGATGTA 60.680 57.895 33.40 13.74 37.59 2.29
2292 2390 1.040893 TCGCTCACCGGTGGATGTAT 61.041 55.000 33.40 0.00 37.59 2.29
2293 2391 0.875908 CGCTCACCGGTGGATGTATG 60.876 60.000 33.40 15.41 0.00 2.39
2294 2392 0.532862 GCTCACCGGTGGATGTATGG 60.533 60.000 33.40 14.10 0.00 2.74
2295 2393 0.532862 CTCACCGGTGGATGTATGGC 60.533 60.000 33.40 0.00 0.00 4.40
2296 2394 0.980754 TCACCGGTGGATGTATGGCT 60.981 55.000 33.40 0.00 0.00 4.75
2297 2395 0.532862 CACCGGTGGATGTATGGCTC 60.533 60.000 27.57 0.00 0.00 4.70
2298 2396 1.071471 CCGGTGGATGTATGGCTCC 59.929 63.158 0.00 0.00 0.00 4.70
2299 2397 1.410850 CCGGTGGATGTATGGCTCCT 61.411 60.000 0.00 0.00 32.47 3.69
2300 2398 0.469917 CGGTGGATGTATGGCTCCTT 59.530 55.000 0.00 0.00 32.47 3.36
2301 2399 1.811558 CGGTGGATGTATGGCTCCTTG 60.812 57.143 0.00 0.00 32.47 3.61
2302 2400 1.312815 GTGGATGTATGGCTCCTTGC 58.687 55.000 0.00 0.00 41.94 4.01
2303 2401 0.179048 TGGATGTATGGCTCCTTGCG 60.179 55.000 0.00 0.00 44.05 4.85
2304 2402 0.106708 GGATGTATGGCTCCTTGCGA 59.893 55.000 0.00 0.00 44.05 5.10
2305 2403 1.271054 GGATGTATGGCTCCTTGCGAT 60.271 52.381 0.00 0.00 44.05 4.58
2306 2404 2.498167 GATGTATGGCTCCTTGCGATT 58.502 47.619 0.00 0.00 44.05 3.34
2307 2405 2.418368 TGTATGGCTCCTTGCGATTT 57.582 45.000 0.00 0.00 44.05 2.17
2308 2406 2.288666 TGTATGGCTCCTTGCGATTTC 58.711 47.619 0.00 0.00 44.05 2.17
2309 2407 1.261619 GTATGGCTCCTTGCGATTTCG 59.738 52.381 0.00 0.00 44.05 3.46
2310 2408 0.392998 ATGGCTCCTTGCGATTTCGT 60.393 50.000 1.55 0.00 44.05 3.85
2311 2409 0.605319 TGGCTCCTTGCGATTTCGTT 60.605 50.000 1.55 0.00 44.05 3.85
2312 2410 0.097150 GGCTCCTTGCGATTTCGTTC 59.903 55.000 1.55 0.00 44.05 3.95
2313 2411 0.247301 GCTCCTTGCGATTTCGTTCG 60.247 55.000 1.55 1.77 42.22 3.95
2314 2412 1.068474 CTCCTTGCGATTTCGTTCGT 58.932 50.000 1.55 0.00 41.16 3.85
2315 2413 1.459592 CTCCTTGCGATTTCGTTCGTT 59.540 47.619 1.55 0.00 41.16 3.85
2316 2414 1.868498 TCCTTGCGATTTCGTTCGTTT 59.132 42.857 1.55 0.00 41.16 3.60
2317 2415 1.969256 CCTTGCGATTTCGTTCGTTTG 59.031 47.619 1.55 0.00 41.16 2.93
2318 2416 2.349060 CCTTGCGATTTCGTTCGTTTGA 60.349 45.455 1.55 0.00 41.16 2.69
2348 2448 3.197549 AGAAGGGAGAGAGAGATTGTTGC 59.802 47.826 0.00 0.00 0.00 4.17
2401 2519 5.337571 CGTGGGCATGTAGGAGTATATGATT 60.338 44.000 0.00 0.00 31.06 2.57
2422 2540 7.394016 TGATTATCTTGGAGTACAAAGCAAGA 58.606 34.615 0.00 0.00 38.91 3.02
2480 2599 6.672266 ATAATCACGATACTCAACATCCCT 57.328 37.500 0.00 0.00 0.00 4.20
2483 2602 3.767131 TCACGATACTCAACATCCCTTCA 59.233 43.478 0.00 0.00 0.00 3.02
2485 2604 3.116300 CGATACTCAACATCCCTTCACG 58.884 50.000 0.00 0.00 0.00 4.35
2506 2625 0.590682 TCACAACGGTAGCGACGTAA 59.409 50.000 22.88 0.08 44.83 3.18
2511 2630 0.179129 ACGGTAGCGACGTAAATGGG 60.179 55.000 22.88 0.00 43.60 4.00
2554 2684 2.981977 GAAGCCGACGGACACCACAA 62.982 60.000 20.50 0.00 0.00 3.33
2584 2715 1.008881 GATGCATCGCGGAGTCGTA 60.009 57.895 11.68 0.00 38.89 3.43
2597 2728 1.751924 GAGTCGTAGCTGGAGTGGAAT 59.248 52.381 0.00 0.00 0.00 3.01
2602 2733 1.689273 GTAGCTGGAGTGGAATCCGAT 59.311 52.381 0.00 0.00 42.77 4.18
2751 2918 2.711922 GGAGCCGCGGAAGAAGAGA 61.712 63.158 33.48 0.00 0.00 3.10
3015 3219 4.475135 GCGGGGAAGACCTCAGGC 62.475 72.222 0.00 0.00 40.03 4.85
3035 3239 2.434185 GTTGCAGGGATCGCGTGA 60.434 61.111 5.77 0.00 0.00 4.35
3095 3299 2.685017 AGGATCGGTGCAGCCTCA 60.685 61.111 10.90 0.00 34.25 3.86
3194 3441 3.515611 GTGCAACCACGGGAACAA 58.484 55.556 0.00 0.00 31.34 2.83
3272 3528 1.946156 CGACGTGGATCGATGCAGG 60.946 63.158 30.16 30.16 45.13 4.85
3367 3641 2.814835 GGGACAAGGTGGTGACGGT 61.815 63.158 0.00 0.00 0.00 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.621301 CTTTGCTGGAGTCGCGACAG 61.621 60.000 37.85 27.48 35.40 3.51
2 3 1.664649 CTTTGCTGGAGTCGCGACA 60.665 57.895 37.85 19.07 0.00 4.35
3 4 0.737715 ATCTTTGCTGGAGTCGCGAC 60.738 55.000 31.30 31.30 0.00 5.19
5 6 0.924090 GTATCTTTGCTGGAGTCGCG 59.076 55.000 0.00 0.00 0.00 5.87
6 7 0.924090 CGTATCTTTGCTGGAGTCGC 59.076 55.000 0.00 0.00 0.00 5.19
7 8 0.924090 GCGTATCTTTGCTGGAGTCG 59.076 55.000 0.00 0.00 0.00 4.18
8 9 0.924090 CGCGTATCTTTGCTGGAGTC 59.076 55.000 0.00 0.00 0.00 3.36
9 10 1.084370 GCGCGTATCTTTGCTGGAGT 61.084 55.000 8.43 0.00 0.00 3.85
10 11 0.807667 AGCGCGTATCTTTGCTGGAG 60.808 55.000 8.43 0.00 36.09 3.86
11 12 1.218047 AGCGCGTATCTTTGCTGGA 59.782 52.632 8.43 0.00 36.09 3.86
12 13 3.799753 AGCGCGTATCTTTGCTGG 58.200 55.556 8.43 0.00 36.09 4.85
14 15 1.815421 CCCAGCGCGTATCTTTGCT 60.815 57.895 8.43 0.00 38.43 3.91
15 16 2.709475 CCCAGCGCGTATCTTTGC 59.291 61.111 8.43 0.00 0.00 3.68
16 17 2.709475 GCCCAGCGCGTATCTTTG 59.291 61.111 8.43 0.00 0.00 2.77
28 29 1.937546 GAATTCTTGGTGCCGCCCAG 61.938 60.000 0.00 0.00 35.49 4.45
29 30 1.976474 GAATTCTTGGTGCCGCCCA 60.976 57.895 0.00 0.00 36.04 5.36
30 31 2.710902 GGAATTCTTGGTGCCGCCC 61.711 63.158 5.23 0.00 36.04 6.13
31 32 1.937546 CTGGAATTCTTGGTGCCGCC 61.938 60.000 5.23 0.00 37.90 6.13
32 33 1.508088 CTGGAATTCTTGGTGCCGC 59.492 57.895 5.23 0.00 0.00 6.53
128 129 1.020437 GGAGTCAAATAGCAGCAGGC 58.980 55.000 0.00 0.00 45.30 4.85
129 130 2.286872 CTGGAGTCAAATAGCAGCAGG 58.713 52.381 0.00 0.00 0.00 4.85
130 131 1.669779 GCTGGAGTCAAATAGCAGCAG 59.330 52.381 10.74 0.00 36.24 4.24
719 720 2.810650 CGAAGGAAACAGACGATAGGG 58.189 52.381 0.00 0.00 43.77 3.53
823 828 2.009542 GCGAAGAAAGGAGGGAGAAGC 61.010 57.143 0.00 0.00 0.00 3.86
825 830 0.613777 GGCGAAGAAAGGAGGGAGAA 59.386 55.000 0.00 0.00 0.00 2.87
845 850 1.799916 GCGGCCCAAACGAAAATCG 60.800 57.895 0.00 0.00 46.93 3.34
869 874 3.054503 ACGAGACCCGGAGACACG 61.055 66.667 0.73 6.85 43.93 4.49
915 926 4.241555 ATCCACAGATCCGCGGGC 62.242 66.667 27.83 18.12 0.00 6.13
916 927 2.029666 GATCCACAGATCCGCGGG 59.970 66.667 27.83 11.94 42.78 6.13
1061 1084 3.684788 CCCAGATTCAACCAAGAACTACG 59.315 47.826 0.00 0.00 0.00 3.51
1122 1171 7.169308 CAGACGCTAACCGAAATTCTACAATAT 59.831 37.037 0.00 0.00 41.02 1.28
1129 1178 2.232941 TCCAGACGCTAACCGAAATTCT 59.767 45.455 0.00 0.00 41.02 2.40
1130 1179 2.603560 CTCCAGACGCTAACCGAAATTC 59.396 50.000 0.00 0.00 41.02 2.17
1131 1180 2.232941 TCTCCAGACGCTAACCGAAATT 59.767 45.455 0.00 0.00 41.02 1.82
1133 1182 1.250328 TCTCCAGACGCTAACCGAAA 58.750 50.000 0.00 0.00 41.02 3.46
1136 1185 0.738975 TCATCTCCAGACGCTAACCG 59.261 55.000 0.00 0.00 44.21 4.44
1173 1230 3.081804 GACCATCAAGACCACGGAATTT 58.918 45.455 0.00 0.00 0.00 1.82
1175 1232 1.909302 AGACCATCAAGACCACGGAAT 59.091 47.619 0.00 0.00 0.00 3.01
1200 1257 1.004918 AGTAACAGCTGCGTGGGAC 60.005 57.895 15.27 2.93 0.00 4.46
1202 1259 1.005037 TCAGTAACAGCTGCGTGGG 60.005 57.895 15.27 0.85 36.49 4.61
1208 1265 2.012673 GGCCATTCTCAGTAACAGCTG 58.987 52.381 13.48 13.48 37.81 4.24
1221 1278 0.464554 GGACAGCAGTAGGGCCATTC 60.465 60.000 6.18 0.00 0.00 2.67
1224 1281 1.133809 AAAGGACAGCAGTAGGGCCA 61.134 55.000 6.18 0.00 0.00 5.36
1227 1284 0.608640 ACGAAAGGACAGCAGTAGGG 59.391 55.000 0.00 0.00 0.00 3.53
1232 1289 2.084610 TCATCACGAAAGGACAGCAG 57.915 50.000 0.00 0.00 0.00 4.24
1256 1313 7.270047 CCCGATTGACTCCTACAAGTAATAAA 58.730 38.462 0.00 0.00 0.00 1.40
1297 1355 2.793278 ATTCACCGGACAGCAAAAAC 57.207 45.000 9.46 0.00 0.00 2.43
1321 1379 5.879223 TGAACCTTACACGGTTAACTCAAAA 59.121 36.000 5.42 0.00 46.85 2.44
1339 1397 4.820716 GCAAGATGCTAATCTCATGAACCT 59.179 41.667 0.00 0.00 42.60 3.50
1341 1399 4.509230 TCGCAAGATGCTAATCTCATGAAC 59.491 41.667 0.00 0.00 42.60 3.18
1363 1421 8.401709 GGTTTTCATCCAGAACTGATAAGAATC 58.598 37.037 3.19 0.00 35.56 2.52
1414 1473 5.063817 TGCACACTATTCATTTCTCATGTCG 59.936 40.000 0.00 0.00 0.00 4.35
1436 1495 2.043046 TTTAGGGCCCCATGCTGC 60.043 61.111 21.43 0.00 40.92 5.25
1446 1505 6.047231 ACACTTTATCGTCATAGTTTAGGGC 58.953 40.000 0.00 0.00 0.00 5.19
1447 1506 7.262772 TGACACTTTATCGTCATAGTTTAGGG 58.737 38.462 0.00 0.00 37.23 3.53
1448 1507 7.043325 GCTGACACTTTATCGTCATAGTTTAGG 60.043 40.741 0.00 0.00 41.13 2.69
1449 1508 7.488150 TGCTGACACTTTATCGTCATAGTTTAG 59.512 37.037 0.00 0.00 41.13 1.85
1451 1510 6.163476 TGCTGACACTTTATCGTCATAGTTT 58.837 36.000 0.00 0.00 41.13 2.66
1452 1511 5.720202 TGCTGACACTTTATCGTCATAGTT 58.280 37.500 0.00 0.00 41.13 2.24
1453 1512 5.324784 TGCTGACACTTTATCGTCATAGT 57.675 39.130 0.00 0.00 41.13 2.12
1454 1513 6.834959 ATTGCTGACACTTTATCGTCATAG 57.165 37.500 0.00 0.00 41.13 2.23
1545 1611 4.871933 AATGCAGAAAGGGAAATTTCGT 57.128 36.364 11.95 0.00 42.73 3.85
1586 1667 2.986355 TTTGGGGGATGGTACGGGC 61.986 63.158 0.00 0.00 0.00 6.13
1592 1673 0.116940 AGCATTGTTTGGGGGATGGT 59.883 50.000 0.00 0.00 0.00 3.55
1595 1676 2.112998 CATGAGCATTGTTTGGGGGAT 58.887 47.619 0.00 0.00 0.00 3.85
1641 1723 0.458669 ATTAGGTGGGTGACGCGTAG 59.541 55.000 13.97 0.00 32.26 3.51
1691 1773 1.341581 GGTGGAAATTTGGATCCCGGA 60.342 52.381 9.90 0.00 34.68 5.14
1695 1777 2.820178 AGGTGGTGGAAATTTGGATCC 58.180 47.619 4.20 4.20 36.21 3.36
1708 1790 1.691976 TGGTGAGACAAGTAGGTGGTG 59.308 52.381 0.00 0.00 0.00 4.17
1711 1793 2.368875 AGGTTGGTGAGACAAGTAGGTG 59.631 50.000 0.00 0.00 0.00 4.00
1712 1794 2.633481 GAGGTTGGTGAGACAAGTAGGT 59.367 50.000 0.00 0.00 0.00 3.08
2026 2112 4.719273 AGGACTAAGATCAAGCTTAAGCCT 59.281 41.667 23.71 8.50 43.38 4.58
2027 2113 4.813697 CAGGACTAAGATCAAGCTTAAGCC 59.186 45.833 23.71 8.16 43.38 4.35
2028 2114 5.423886 ACAGGACTAAGATCAAGCTTAAGC 58.576 41.667 20.09 20.09 42.49 3.09
2031 2117 9.422681 ACTATTACAGGACTAAGATCAAGCTTA 57.577 33.333 0.00 0.00 0.00 3.09
2046 2132 6.493802 CAGGGCTAATCAGTACTATTACAGGA 59.506 42.308 0.00 0.00 0.00 3.86
2086 2172 2.751259 ACACAAGAGCCTGCAACATATG 59.249 45.455 0.00 0.00 0.00 1.78
2100 2186 1.847798 ATTAGGGGCGCCACACAAGA 61.848 55.000 34.08 11.91 0.00 3.02
2115 2201 3.753272 CCCAGGAACATGGCGATTATTAG 59.247 47.826 0.00 0.00 39.17 1.73
2198 2294 1.959899 GCAACACCAGACTCGCATCG 61.960 60.000 0.00 0.00 0.00 3.84
2219 2315 1.135112 CGACATCCACACCAAGATCGA 60.135 52.381 0.00 0.00 0.00 3.59
2224 2320 2.448926 TACACGACATCCACACCAAG 57.551 50.000 0.00 0.00 0.00 3.61
2226 2322 2.672760 CGAATACACGACATCCACACCA 60.673 50.000 0.00 0.00 35.09 4.17
2236 2334 2.795389 GCCACGGCGAATACACGAC 61.795 63.158 16.62 0.00 38.00 4.34
2248 2346 3.941188 ACCACACTCAGGCCACGG 61.941 66.667 5.01 0.00 0.00 4.94
2249 2347 2.666190 CACCACACTCAGGCCACG 60.666 66.667 5.01 0.00 0.00 4.94
2257 2355 2.094659 CGACGATGGCACCACACTC 61.095 63.158 0.00 0.00 0.00 3.51
2258 2356 2.048222 CGACGATGGCACCACACT 60.048 61.111 0.00 0.00 0.00 3.55
2259 2357 3.788766 GCGACGATGGCACCACAC 61.789 66.667 0.00 0.00 0.00 3.82
2260 2358 3.932580 GAGCGACGATGGCACCACA 62.933 63.158 0.00 0.00 0.00 4.17
2261 2359 3.188786 GAGCGACGATGGCACCAC 61.189 66.667 0.00 0.00 0.00 4.16
2262 2360 3.690280 TGAGCGACGATGGCACCA 61.690 61.111 0.00 0.00 0.00 4.17
2263 2361 3.188786 GTGAGCGACGATGGCACC 61.189 66.667 0.00 0.00 0.00 5.01
2264 2362 3.188786 GGTGAGCGACGATGGCAC 61.189 66.667 0.00 0.00 0.00 5.01
2265 2363 4.794439 CGGTGAGCGACGATGGCA 62.794 66.667 0.00 0.00 0.00 4.92
2267 2365 4.129737 ACCGGTGAGCGACGATGG 62.130 66.667 6.12 0.00 0.00 3.51
2268 2366 2.880879 CACCGGTGAGCGACGATG 60.881 66.667 31.31 0.00 0.00 3.84
2269 2367 4.129737 CCACCGGTGAGCGACGAT 62.130 66.667 36.07 0.00 0.00 3.73
2271 2369 4.129737 ATCCACCGGTGAGCGACG 62.130 66.667 36.07 17.72 0.00 5.12
2272 2370 1.940883 TACATCCACCGGTGAGCGAC 61.941 60.000 36.07 0.00 0.00 5.19
2273 2371 1.040893 ATACATCCACCGGTGAGCGA 61.041 55.000 36.07 23.97 0.00 4.93
2274 2372 0.875908 CATACATCCACCGGTGAGCG 60.876 60.000 36.07 23.32 0.00 5.03
2275 2373 0.532862 CCATACATCCACCGGTGAGC 60.533 60.000 36.07 0.00 0.00 4.26
2276 2374 0.532862 GCCATACATCCACCGGTGAG 60.533 60.000 36.07 25.01 0.00 3.51
2277 2375 0.980754 AGCCATACATCCACCGGTGA 60.981 55.000 36.07 21.38 0.00 4.02
2278 2376 0.532862 GAGCCATACATCCACCGGTG 60.533 60.000 28.26 28.26 0.00 4.94
2279 2377 1.696097 GGAGCCATACATCCACCGGT 61.696 60.000 0.00 0.00 35.54 5.28
2280 2378 1.071471 GGAGCCATACATCCACCGG 59.929 63.158 0.00 0.00 35.54 5.28
2281 2379 0.469917 AAGGAGCCATACATCCACCG 59.530 55.000 0.00 0.00 38.12 4.94
2282 2380 1.972872 CAAGGAGCCATACATCCACC 58.027 55.000 0.00 0.00 38.12 4.61
2283 2381 1.312815 GCAAGGAGCCATACATCCAC 58.687 55.000 0.00 0.00 38.12 4.02
2284 2382 0.179048 CGCAAGGAGCCATACATCCA 60.179 55.000 0.00 0.00 41.38 3.41
2285 2383 0.106708 TCGCAAGGAGCCATACATCC 59.893 55.000 0.00 0.00 41.38 3.51
2286 2384 2.175878 ATCGCAAGGAGCCATACATC 57.824 50.000 0.00 0.00 41.38 3.06
2287 2385 2.645838 AATCGCAAGGAGCCATACAT 57.354 45.000 0.00 0.00 41.38 2.29
2288 2386 2.288666 GAAATCGCAAGGAGCCATACA 58.711 47.619 0.00 0.00 41.38 2.29
2289 2387 1.261619 CGAAATCGCAAGGAGCCATAC 59.738 52.381 0.00 0.00 41.38 2.39
2290 2388 1.134521 ACGAAATCGCAAGGAGCCATA 60.135 47.619 2.15 0.00 44.43 2.74
2291 2389 0.392998 ACGAAATCGCAAGGAGCCAT 60.393 50.000 2.15 0.00 44.43 4.40
2292 2390 0.605319 AACGAAATCGCAAGGAGCCA 60.605 50.000 2.15 0.00 44.43 4.75
2293 2391 0.097150 GAACGAAATCGCAAGGAGCC 59.903 55.000 2.15 0.00 44.43 4.70
2294 2392 0.247301 CGAACGAAATCGCAAGGAGC 60.247 55.000 2.15 0.00 44.43 4.70
2295 2393 1.068474 ACGAACGAAATCGCAAGGAG 58.932 50.000 2.15 0.00 46.51 3.69
2296 2394 1.504359 AACGAACGAAATCGCAAGGA 58.496 45.000 2.15 0.00 46.51 3.36
2297 2395 1.969256 CAAACGAACGAAATCGCAAGG 59.031 47.619 2.15 0.00 46.51 3.61
2298 2396 2.898746 TCAAACGAACGAAATCGCAAG 58.101 42.857 2.15 0.00 46.51 4.01
2299 2397 3.529634 ATCAAACGAACGAAATCGCAA 57.470 38.095 2.15 0.00 46.51 4.85
2300 2398 4.648917 TTATCAAACGAACGAAATCGCA 57.351 36.364 2.15 0.00 46.51 5.10
2301 2399 5.019498 ACATTATCAAACGAACGAAATCGC 58.981 37.500 2.15 0.00 46.51 4.58
2303 2401 9.749490 TTCTAACATTATCAAACGAACGAAATC 57.251 29.630 0.14 0.00 0.00 2.17
2304 2402 9.755064 CTTCTAACATTATCAAACGAACGAAAT 57.245 29.630 0.14 0.00 0.00 2.17
2305 2403 8.225107 CCTTCTAACATTATCAAACGAACGAAA 58.775 33.333 0.14 0.00 0.00 3.46
2306 2404 7.148540 CCCTTCTAACATTATCAAACGAACGAA 60.149 37.037 0.14 0.00 0.00 3.85
2307 2405 6.311935 CCCTTCTAACATTATCAAACGAACGA 59.688 38.462 0.14 0.00 0.00 3.85
2308 2406 6.311935 TCCCTTCTAACATTATCAAACGAACG 59.688 38.462 0.00 0.00 0.00 3.95
2309 2407 7.548075 TCTCCCTTCTAACATTATCAAACGAAC 59.452 37.037 0.00 0.00 0.00 3.95
2310 2408 7.617225 TCTCCCTTCTAACATTATCAAACGAA 58.383 34.615 0.00 0.00 0.00 3.85
2311 2409 7.123697 TCTCTCCCTTCTAACATTATCAAACGA 59.876 37.037 0.00 0.00 0.00 3.85
2312 2410 7.265673 TCTCTCCCTTCTAACATTATCAAACG 58.734 38.462 0.00 0.00 0.00 3.60
2313 2411 8.478877 TCTCTCTCCCTTCTAACATTATCAAAC 58.521 37.037 0.00 0.00 0.00 2.93
2314 2412 8.609617 TCTCTCTCCCTTCTAACATTATCAAA 57.390 34.615 0.00 0.00 0.00 2.69
2315 2413 8.061920 TCTCTCTCTCCCTTCTAACATTATCAA 58.938 37.037 0.00 0.00 0.00 2.57
2316 2414 7.587258 TCTCTCTCTCCCTTCTAACATTATCA 58.413 38.462 0.00 0.00 0.00 2.15
2317 2415 8.650143 ATCTCTCTCTCCCTTCTAACATTATC 57.350 38.462 0.00 0.00 0.00 1.75
2318 2416 8.869109 CAATCTCTCTCTCCCTTCTAACATTAT 58.131 37.037 0.00 0.00 0.00 1.28
2348 2448 6.092092 TCAAGCAATACAATGAACAATTCCG 58.908 36.000 0.00 0.00 0.00 4.30
2480 2599 0.598158 GCTACCGTTGTGACCGTGAA 60.598 55.000 0.00 0.00 0.00 3.18
2483 2602 2.049802 CGCTACCGTTGTGACCGT 60.050 61.111 0.00 0.00 0.00 4.83
2485 2604 2.084681 CGTCGCTACCGTTGTGACC 61.085 63.158 17.33 4.39 40.60 4.02
2504 2623 6.353082 GGATTCTTCTTCAGTCTCCCCATTTA 60.353 42.308 0.00 0.00 0.00 1.40
2506 2625 4.080072 GGATTCTTCTTCAGTCTCCCCATT 60.080 45.833 0.00 0.00 0.00 3.16
2511 2630 4.429108 CTTCGGATTCTTCTTCAGTCTCC 58.571 47.826 0.00 0.00 0.00 3.71
2584 2715 0.467384 CATCGGATTCCACTCCAGCT 59.533 55.000 3.09 0.00 34.78 4.24
2597 2728 0.391661 GCTTGAGCAACCTCATCGGA 60.392 55.000 0.00 0.00 46.84 4.55
2779 2949 2.420129 GCTCCTTCTTTATCCGCTTCCA 60.420 50.000 0.00 0.00 0.00 3.53
2782 2952 1.941325 CGCTCCTTCTTTATCCGCTT 58.059 50.000 0.00 0.00 0.00 4.68
2788 2961 1.927895 CTGTCGCGCTCCTTCTTTAT 58.072 50.000 5.56 0.00 0.00 1.40
2791 2989 2.433318 GCTGTCGCGCTCCTTCTT 60.433 61.111 5.56 0.00 0.00 2.52
2877 3078 2.985847 GTTGCGCTGCCTCCCTTT 60.986 61.111 9.73 0.00 0.00 3.11
3104 3336 2.970324 GTCAACCGCTGCACCGAA 60.970 61.111 2.22 0.00 0.00 4.30
3272 3528 3.047877 CCGTGGTTCTTCCCGTGC 61.048 66.667 0.00 0.00 34.77 5.34
3345 3619 0.472471 GTCACCACCTTGTCCCTGAA 59.528 55.000 0.00 0.00 0.00 3.02
3355 3629 3.667282 CGTCGACCGTCACCACCT 61.667 66.667 10.58 0.00 0.00 4.00
3367 3641 4.753877 CGTCGGCTTGCTCGTCGA 62.754 66.667 13.63 0.00 40.36 4.20


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

AutoCloner maintained by Alex Coulton.