Multiple sequence alignment - TraesCS7D01G148000

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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 TraesCS7D01G148000 chr7D 100.000 5622 0 0 1 5622 94935567 94941188 0.000000e+00 10382.0
1 TraesCS7D01G148000 chr7D 89.176 1432 104 23 3404 4816 94796782 94798181 0.000000e+00 1738.0
2 TraesCS7D01G148000 chr7D 82.487 1359 121 49 1254 2531 95064728 95063406 0.000000e+00 1083.0
3 TraesCS7D01G148000 chr7D 80.607 856 91 25 3130 3946 95062444 95061625 4.850000e-165 592.0
4 TraesCS7D01G148000 chr7D 87.018 493 46 8 3944 4418 95061558 95061066 1.780000e-149 540.0
5 TraesCS7D01G148000 chr7D 94.144 222 9 4 996 1214 95065078 95064858 9.030000e-88 335.0
6 TraesCS7D01G148000 chr7D 91.322 242 21 0 2290 2531 94793245 94793486 1.170000e-86 331.0
7 TraesCS7D01G148000 chr7D 83.962 318 39 8 4688 5001 94506125 94506434 1.530000e-75 294.0
8 TraesCS7D01G148000 chr7D 83.221 298 29 17 324 602 95065914 95065619 2.600000e-63 254.0
9 TraesCS7D01G148000 chr7D 82.075 106 19 0 1557 1662 606302100 606302205 2.160000e-14 91.6
10 TraesCS7D01G148000 chr7D 81.132 106 20 0 1557 1662 605947686 605947791 1.000000e-12 86.1
11 TraesCS7D01G148000 chr7D 91.111 45 1 3 3349 3393 94795120 94795161 2.190000e-04 58.4
12 TraesCS7D01G148000 chr7A 89.101 2615 114 41 1430 3946 98545926 98548467 0.000000e+00 3092.0
13 TraesCS7D01G148000 chr7A 88.578 1322 92 30 1340 2633 98098582 98099872 0.000000e+00 1550.0
14 TraesCS7D01G148000 chr7A 88.250 1200 81 24 3947 5114 98548498 98549669 0.000000e+00 1380.0
15 TraesCS7D01G148000 chr7A 80.587 1669 172 78 963 2531 98736121 98734505 0.000000e+00 1147.0
16 TraesCS7D01G148000 chr7A 85.042 829 53 30 90 858 98097220 98098037 0.000000e+00 778.0
17 TraesCS7D01G148000 chr7A 86.313 716 65 15 3947 4629 98102377 98103092 0.000000e+00 749.0
18 TraesCS7D01G148000 chr7A 92.336 535 20 8 5099 5620 98550846 98551372 0.000000e+00 741.0
19 TraesCS7D01G148000 chr7A 85.230 738 47 22 2956 3660 98101391 98102099 0.000000e+00 702.0
20 TraesCS7D01G148000 chr7A 84.604 669 78 17 3944 4592 98732984 98732321 4.750000e-180 641.0
21 TraesCS7D01G148000 chr7A 81.917 824 89 17 3159 3946 98733850 98733051 4.750000e-180 641.0
22 TraesCS7D01G148000 chr7A 84.859 601 36 24 345 902 98544528 98545116 6.360000e-154 555.0
23 TraesCS7D01G148000 chr7A 89.645 338 17 7 925 1252 98545256 98545585 1.130000e-111 414.0
24 TraesCS7D01G148000 chr7A 90.476 252 24 0 3695 3946 98102095 98102346 3.250000e-87 333.0
25 TraesCS7D01G148000 chr7A 90.800 250 9 9 966 1214 98098184 98098420 7.030000e-84 322.0
26 TraesCS7D01G148000 chr7A 88.940 217 12 4 2690 2906 98100449 98100653 2.010000e-64 257.0
27 TraesCS7D01G148000 chr7A 81.728 301 23 24 289 567 98737004 98736714 7.330000e-54 222.0
28 TraesCS7D01G148000 chr7A 98.000 50 0 1 2654 2703 98100372 98100420 1.000000e-12 86.1
29 TraesCS7D01G148000 chr7B 92.320 1224 59 20 1335 2531 49026896 49028111 0.000000e+00 1707.0
30 TraesCS7D01G148000 chr7B 82.685 1646 143 77 963 2531 49189292 49187712 0.000000e+00 1330.0
31 TraesCS7D01G148000 chr7B 85.587 1124 88 30 3947 5014 49034380 49035485 0.000000e+00 1110.0
32 TraesCS7D01G148000 chr7B 86.697 654 48 3 3326 3946 49033702 49034349 0.000000e+00 689.0
33 TraesCS7D01G148000 chr7B 87.710 594 30 31 2 566 49025311 49025890 0.000000e+00 652.0
34 TraesCS7D01G148000 chr7B 81.542 856 92 26 3130 3946 49186998 49186170 0.000000e+00 645.0
35 TraesCS7D01G148000 chr7B 87.600 500 41 9 3944 4422 49186103 49185604 1.370000e-155 560.0
36 TraesCS7D01G148000 chr7B 88.095 294 24 7 926 1211 49026358 49026648 6.980000e-89 339.0
37 TraesCS7D01G148000 chr7B 76.117 649 50 58 324 891 49190113 49189489 5.630000e-60 243.0
38 TraesCS7D01G148000 chr7B 89.831 118 7 5 791 904 49026113 49026229 4.540000e-31 147.0
39 TraesCS7D01G148000 chr7B 89.888 89 6 3 2734 2821 49028443 49028529 1.660000e-20 111.0
40 TraesCS7D01G148000 chr7B 89.855 69 1 1 2815 2877 49033595 49033663 3.610000e-12 84.2
41 TraesCS7D01G148000 chr4B 86.722 241 32 0 974 1214 15457867 15457627 9.280000e-68 268.0
42 TraesCS7D01G148000 chr2B 86.026 229 32 0 974 1202 428974181 428973953 4.350000e-61 246.0
43 TraesCS7D01G148000 chr6A 95.918 147 6 0 5357 5503 503238441 503238587 7.280000e-59 239.0
44 TraesCS7D01G148000 chr6A 93.750 144 8 1 5357 5499 560564333 560564190 1.230000e-51 215.0
45 TraesCS7D01G148000 chr6A 89.091 55 6 0 2979 3033 53101462 53101408 1.010000e-07 69.4
46 TraesCS7D01G148000 chr6A 89.091 55 6 0 2979 3033 539619584 539619530 1.010000e-07 69.4
47 TraesCS7D01G148000 chr6A 89.091 55 6 0 2979 3033 611432284 611432230 1.010000e-07 69.4
48 TraesCS7D01G148000 chr5B 96.403 139 5 0 5358 5496 691008347 691008485 4.380000e-56 230.0
49 TraesCS7D01G148000 chr5B 95.683 139 6 0 5358 5496 431770844 431770706 2.040000e-54 224.0
50 TraesCS7D01G148000 chr5B 89.091 55 6 0 2979 3033 419556295 419556349 1.010000e-07 69.4
51 TraesCS7D01G148000 chr3A 96.403 139 5 0 5358 5496 740933139 740933001 4.380000e-56 230.0
52 TraesCS7D01G148000 chr3B 94.964 139 7 0 5358 5496 247567490 247567352 9.480000e-53 219.0
53 TraesCS7D01G148000 chr3D 93.750 144 7 2 5357 5499 206976236 206976378 1.230000e-51 215.0
54 TraesCS7D01G148000 chr1B 78.754 353 51 16 2196 2531 661036665 661037010 1.230000e-51 215.0
55 TraesCS7D01G148000 chr6B 93.103 145 10 0 5357 5501 668520315 668520171 4.410000e-51 213.0
56 TraesCS7D01G148000 chr6B 88.496 113 12 1 1056 1168 667074941 667074830 9.820000e-28 135.0
57 TraesCS7D01G148000 chr6B 89.091 55 6 0 2979 3033 78525392 78525446 1.010000e-07 69.4
58 TraesCS7D01G148000 chr6B 89.091 55 6 0 2979 3033 699110138 699110084 1.010000e-07 69.4
59 TraesCS7D01G148000 chr1D 81.749 263 32 7 965 1211 427771818 427772080 7.380000e-49 206.0
60 TraesCS7D01G148000 chr1D 89.256 121 12 1 1501 1620 429718835 429718955 3.510000e-32 150.0
61 TraesCS7D01G148000 chr5A 78.947 323 37 18 2159 2469 508867166 508866863 2.070000e-44 191.0
62 TraesCS7D01G148000 chr5A 89.091 55 6 0 2979 3033 690026115 690026061 1.010000e-07 69.4
63 TraesCS7D01G148000 chr5A 84.507 71 8 3 2963 3033 475859019 475859086 3.640000e-07 67.6
64 TraesCS7D01G148000 chr1A 81.702 235 24 9 996 1214 585036728 585036497 1.610000e-40 178.0
65 TraesCS7D01G148000 chr1A 90.385 104 10 0 1501 1604 527184862 527184965 2.730000e-28 137.0


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 TraesCS7D01G148000 chr7D 94935567 94941188 5621 False 10382.000000 10382 100.000000 1 5622 1 chr7D.!!$F2 5621
1 TraesCS7D01G148000 chr7D 94793245 94798181 4936 False 709.133333 1738 90.536333 2290 4816 3 chr7D.!!$F5 2526
2 TraesCS7D01G148000 chr7D 95061066 95065914 4848 True 560.800000 1083 85.495400 324 4418 5 chr7D.!!$R1 4094
3 TraesCS7D01G148000 chr7A 98544528 98551372 6844 False 1236.400000 3092 88.838200 345 5620 5 chr7A.!!$F2 5275
4 TraesCS7D01G148000 chr7A 98732321 98737004 4683 True 662.750000 1147 82.209000 289 4592 4 chr7A.!!$R1 4303
5 TraesCS7D01G148000 chr7A 98097220 98103092 5872 False 597.137500 1550 89.172375 90 4629 8 chr7A.!!$F1 4539
6 TraesCS7D01G148000 chr7B 49185604 49190113 4509 True 694.500000 1330 81.986000 324 4422 4 chr7B.!!$R1 4098
7 TraesCS7D01G148000 chr7B 49033595 49035485 1890 False 627.733333 1110 87.379667 2815 5014 3 chr7B.!!$F2 2199
8 TraesCS7D01G148000 chr7B 49025311 49028529 3218 False 591.200000 1707 89.568800 2 2821 5 chr7B.!!$F1 2819

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
712 853 0.035725 TTCCTCTGTCTCGCTCGGTA 60.036 55.0 0.00 0.00 0.00 4.02 F
746 900 0.178861 TCTCCCAGCCTTCTTCCCTT 60.179 55.0 0.00 0.00 0.00 3.95 F
1062 1426 0.253868 TGGAGAGGGAGAGGGAGAGA 60.254 60.0 0.00 0.00 0.00 3.10 F
2331 3153 0.733223 GAACGTCGAGAAGCTCACCC 60.733 60.0 0.00 0.00 0.00 4.61 F
3742 8788 0.394938 TCTAACGCAAGGCTTGACCA 59.605 50.0 30.45 10.71 43.14 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2431 3267 1.004595 CTCTGTGCATCACATGGTCG 58.995 55.000 0.00 0.00 43.71 4.79 R
2533 3372 1.068610 TGCTCCGCAATTAACACTTGC 60.069 47.619 2.75 2.75 44.32 4.01 R
2767 5167 0.113776 AGTCTACACGGTTGGAGGGA 59.886 55.000 0.00 0.00 33.88 4.20 R
3830 8876 0.035056 GCCAGACATAGTGTTGGCCT 60.035 55.000 17.68 0.00 42.87 5.19 R
4912 10133 0.665972 GAGATCTTCTCGATGGCGCC 60.666 60.000 22.73 22.73 33.35 6.53 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
46 47 7.214467 ACTTGTGAGAAAGTTTGAAGAAACA 57.786 32.000 0.00 0.00 43.51 2.83
47 48 7.084486 ACTTGTGAGAAAGTTTGAAGAAACAC 58.916 34.615 0.00 0.00 43.51 3.32
48 49 6.567687 TGTGAGAAAGTTTGAAGAAACACA 57.432 33.333 0.00 0.00 43.51 3.72
50 51 7.601856 TGTGAGAAAGTTTGAAGAAACACATT 58.398 30.769 0.00 0.00 43.51 2.71
51 52 7.541783 TGTGAGAAAGTTTGAAGAAACACATTG 59.458 33.333 0.00 0.00 43.51 2.82
53 54 8.087750 TGAGAAAGTTTGAAGAAACACATTGTT 58.912 29.630 0.00 0.00 43.51 2.83
54 55 8.466086 AGAAAGTTTGAAGAAACACATTGTTC 57.534 30.769 0.00 0.00 43.51 3.18
55 56 8.087750 AGAAAGTTTGAAGAAACACATTGTTCA 58.912 29.630 0.00 0.00 46.22 3.18
59 60 3.068024 TGAAGAAACACATTGTTCAGCCC 59.932 43.478 0.00 0.00 43.93 5.19
76 77 2.076100 GCCCTATTTTGCTTTGTTGCC 58.924 47.619 0.00 0.00 0.00 4.52
85 86 0.670162 GCTTTGTTGCCAAGAGCTCA 59.330 50.000 17.77 0.00 44.23 4.26
114 115 6.405538 ATGTCTGAACACCACAAAATTTTGT 58.594 32.000 27.01 27.01 44.40 2.83
126 127 4.870363 CAAAATTTTGTCCGGACATCACT 58.130 39.130 36.52 19.27 41.52 3.41
148 149 5.869350 CTCATTTGAGTATTTTGGTCGACC 58.131 41.667 28.17 28.17 37.40 4.79
162 163 4.456535 TGGTCGACCAAAGAAATTCAGAA 58.543 39.130 34.60 6.08 44.35 3.02
245 251 5.272402 TCTCTCTCTCTCTCTCTCTCTCAA 58.728 45.833 0.00 0.00 0.00 3.02
265 274 7.188157 TCTCAACATTTTGCATTTTTGCTTTC 58.812 30.769 0.00 0.00 35.49 2.62
313 329 6.757897 AAATAGATCACCATGAGCGAAAAA 57.242 33.333 0.00 0.00 37.94 1.94
314 330 5.741388 ATAGATCACCATGAGCGAAAAAC 57.259 39.130 0.00 0.00 37.94 2.43
442 475 0.250338 GTTGTCACCACTCCCACTCC 60.250 60.000 0.00 0.00 0.00 3.85
499 535 1.895131 ACTTTGCTTTCCATCGCCATT 59.105 42.857 0.00 0.00 0.00 3.16
586 667 1.681264 CGGTGGTTTGGCTTCTTCTTT 59.319 47.619 0.00 0.00 0.00 2.52
597 678 2.093181 GCTTCTTCTTTCTCCTCCCCTC 60.093 54.545 0.00 0.00 0.00 4.30
648 756 1.605971 CTGAGCTGAGCTGAGCAGGA 61.606 60.000 27.28 9.12 39.88 3.86
663 800 3.155167 GGAGAGCACGGGTAGGGG 61.155 72.222 0.00 0.00 0.00 4.79
712 853 0.035725 TTCCTCTGTCTCGCTCGGTA 60.036 55.000 0.00 0.00 0.00 4.02
728 879 1.401905 CGGTATTCTGGCCTTTTGCTC 59.598 52.381 3.32 0.00 40.92 4.26
745 899 0.620121 CTCTCCCAGCCTTCTTCCCT 60.620 60.000 0.00 0.00 0.00 4.20
746 900 0.178861 TCTCCCAGCCTTCTTCCCTT 60.179 55.000 0.00 0.00 0.00 3.95
773 927 1.340399 AATGATGGAGGAGCTGCGGA 61.340 55.000 0.00 0.00 0.00 5.54
775 929 2.364842 ATGGAGGAGCTGCGGAGT 60.365 61.111 5.62 0.00 0.00 3.85
798 958 1.544825 CGTTCCTGAAGGCCTCTCCA 61.545 60.000 5.23 3.76 37.29 3.86
856 1027 1.882623 CACCTGCAGTTTTTCCCTCTC 59.117 52.381 13.81 0.00 0.00 3.20
857 1028 1.777272 ACCTGCAGTTTTTCCCTCTCT 59.223 47.619 13.81 0.00 0.00 3.10
858 1029 2.157738 CCTGCAGTTTTTCCCTCTCTG 58.842 52.381 13.81 0.00 0.00 3.35
859 1030 2.224621 CCTGCAGTTTTTCCCTCTCTGA 60.225 50.000 13.81 0.00 0.00 3.27
861 1032 3.679389 TGCAGTTTTTCCCTCTCTGATC 58.321 45.455 0.00 0.00 0.00 2.92
862 1033 3.328931 TGCAGTTTTTCCCTCTCTGATCT 59.671 43.478 0.00 0.00 0.00 2.75
864 1035 4.394610 GCAGTTTTTCCCTCTCTGATCTTC 59.605 45.833 0.00 0.00 0.00 2.87
904 1092 2.048601 TCGGTTCTAGGTTGTTTGGGA 58.951 47.619 0.00 0.00 0.00 4.37
927 1270 1.172812 GCCTCGTTCTTGCTGGGTTT 61.173 55.000 0.00 0.00 0.00 3.27
954 1297 7.092979 GGAGTTTCTGTCTTTAGGGTTAGGTAT 60.093 40.741 0.00 0.00 0.00 2.73
955 1298 8.906238 AGTTTCTGTCTTTAGGGTTAGGTATA 57.094 34.615 0.00 0.00 0.00 1.47
956 1299 8.979534 AGTTTCTGTCTTTAGGGTTAGGTATAG 58.020 37.037 0.00 0.00 0.00 1.31
958 1301 7.229951 TCTGTCTTTAGGGTTAGGTATAGGA 57.770 40.000 0.00 0.00 0.00 2.94
959 1302 7.296098 TCTGTCTTTAGGGTTAGGTATAGGAG 58.704 42.308 0.00 0.00 0.00 3.69
960 1303 6.989894 TGTCTTTAGGGTTAGGTATAGGAGT 58.010 40.000 0.00 0.00 0.00 3.85
961 1304 7.425003 TGTCTTTAGGGTTAGGTATAGGAGTT 58.575 38.462 0.00 0.00 0.00 3.01
962 1305 7.343833 TGTCTTTAGGGTTAGGTATAGGAGTTG 59.656 40.741 0.00 0.00 0.00 3.16
963 1306 6.325804 TCTTTAGGGTTAGGTATAGGAGTTGC 59.674 42.308 0.00 0.00 0.00 4.17
964 1307 4.282292 AGGGTTAGGTATAGGAGTTGCT 57.718 45.455 0.00 0.00 0.00 3.91
965 1308 5.414133 AGGGTTAGGTATAGGAGTTGCTA 57.586 43.478 0.00 0.00 0.00 3.49
978 1330 5.063880 AGGAGTTGCTAGTTGTTAAGTTGG 58.936 41.667 0.00 0.00 0.00 3.77
985 1337 5.526111 TGCTAGTTGTTAAGTTGGTCTGAAC 59.474 40.000 0.00 0.00 37.87 3.18
1062 1426 0.253868 TGGAGAGGGAGAGGGAGAGA 60.254 60.000 0.00 0.00 0.00 3.10
1222 1598 4.694509 AGAAACTTCATTCTGCAGCTAGTG 59.305 41.667 9.47 5.04 38.22 2.74
1301 1870 9.517609 GCATTGTAGTACTATATATAGTGCACC 57.482 37.037 30.65 23.10 44.95 5.01
1367 1973 4.713824 ACAATCTGCCATGTTCTGAATG 57.286 40.909 0.00 0.00 0.00 2.67
1368 1974 3.119245 ACAATCTGCCATGTTCTGAATGC 60.119 43.478 0.00 0.00 0.00 3.56
1369 1975 2.203470 TCTGCCATGTTCTGAATGCA 57.797 45.000 0.00 0.00 0.00 3.96
1370 1976 2.730382 TCTGCCATGTTCTGAATGCAT 58.270 42.857 0.00 0.00 0.00 3.96
1371 1977 3.888583 TCTGCCATGTTCTGAATGCATA 58.111 40.909 0.00 0.00 0.00 3.14
1372 1978 4.466827 TCTGCCATGTTCTGAATGCATAT 58.533 39.130 0.00 0.00 0.00 1.78
1381 1987 8.618677 CATGTTCTGAATGCATATTTACAGACT 58.381 33.333 0.00 0.00 30.98 3.24
1431 2174 3.718815 TGCGGTGCGACATATATGTTAA 58.281 40.909 19.19 5.98 41.95 2.01
1461 2204 2.169832 TCCTCTGCTTCCAAGTTTCG 57.830 50.000 0.00 0.00 0.00 3.46
1467 2213 3.498397 TCTGCTTCCAAGTTTCGACAATC 59.502 43.478 0.00 0.00 0.00 2.67
1588 2341 3.238108 GATCTGGTGATCAGTGACGTT 57.762 47.619 0.00 0.00 46.20 3.99
1657 2410 0.999712 AAATGGACCTCCCCGTCATT 59.000 50.000 0.00 0.00 34.24 2.57
1674 2427 5.699458 CCGTCATTAGTAAGTCCACAAGTTT 59.301 40.000 0.00 0.00 0.00 2.66
1680 2433 9.141400 CATTAGTAAGTCCACAAGTTTCTCTAC 57.859 37.037 0.00 0.00 0.00 2.59
1702 2462 6.072112 ACAATCATGGTACTTGTTGTTGTC 57.928 37.500 0.00 0.00 29.06 3.18
1759 2537 3.521531 TGGATGGGTGCTAATGAAGTACA 59.478 43.478 0.00 0.00 42.20 2.90
1764 2542 4.528987 TGGGTGCTAATGAAGTACAGTACA 59.471 41.667 13.37 0.00 42.20 2.90
1787 2566 6.207221 ACAATTCAACTCATGCAGTGTTATCA 59.793 34.615 0.00 0.00 34.56 2.15
2085 2885 1.215647 GAGGACAACGACGATGCCT 59.784 57.895 16.70 16.70 0.00 4.75
2086 2886 0.802607 GAGGACAACGACGATGCCTC 60.803 60.000 22.55 22.55 35.50 4.70
2122 2925 2.032681 GAGGGTGGTGTGGTCAGC 59.967 66.667 0.00 0.00 41.77 4.26
2248 3069 4.406456 TGTTCTTGCAGACCCATTTATGT 58.594 39.130 0.00 0.00 0.00 2.29
2331 3153 0.733223 GAACGTCGAGAAGCTCACCC 60.733 60.000 0.00 0.00 0.00 4.61
2431 3267 8.341173 GTGTTATCTCTTCCATTCATGATTCAC 58.659 37.037 0.00 0.00 0.00 3.18
2472 3310 9.709600 CAGAGAGAAAAACTTTTACAGAACTTC 57.290 33.333 0.00 0.00 0.00 3.01
2492 3331 7.516198 ACTTCTGATAAAACTGTCTGCAAAT 57.484 32.000 0.00 0.00 0.00 2.32
2533 3372 8.573035 TGTGTTAAAATTAAGAGGGCTAACAAG 58.427 33.333 0.00 0.00 31.62 3.16
2538 3377 2.959465 AAGAGGGCTAACAAGCAAGT 57.041 45.000 0.00 0.00 36.33 3.16
2771 5171 5.558818 CTGCTTGCTCATATTATTCTCCCT 58.441 41.667 0.00 0.00 0.00 4.20
2942 6293 7.713764 ATTTTGGCTACATTGTTTCAGTTTC 57.286 32.000 0.00 0.00 0.00 2.78
2963 6314 6.681729 TTCATATAAACCGGCTAGAAGGAT 57.318 37.500 0.00 0.00 0.00 3.24
2983 6358 0.679505 GACACTGACACAGCCCAGTA 59.320 55.000 0.00 0.00 41.26 2.74
2986 6361 1.446792 CTGACACAGCCCAGTAGCG 60.447 63.158 0.00 0.00 38.01 4.26
3035 6410 5.229423 GCCAGCTGTAAAATTGTTCATTGA 58.771 37.500 13.81 0.00 0.00 2.57
3087 6462 8.192774 CCGTGTCCAGATTACTAAACTATGTAA 58.807 37.037 0.00 0.00 33.87 2.41
3141 6535 3.196939 ACCACGCTGTACACCTTTTTA 57.803 42.857 0.00 0.00 0.00 1.52
3302 6704 2.985809 CGCAAGAATTTCGATGCCAAAA 59.014 40.909 18.38 0.00 43.02 2.44
3328 6731 7.819900 ACAGAAAGTGGTTATCTCTGATTGTAC 59.180 37.037 4.49 0.00 37.53 2.90
3554 8585 1.062505 TCAACCCTTTGCCCCTTCTTT 60.063 47.619 0.00 0.00 32.17 2.52
3555 8586 1.070601 CAACCCTTTGCCCCTTCTTTG 59.929 52.381 0.00 0.00 0.00 2.77
3621 8667 3.137360 AGCTTCAGGACTTTGTTCCTTCT 59.863 43.478 0.00 0.00 44.22 2.85
3742 8788 0.394938 TCTAACGCAAGGCTTGACCA 59.605 50.000 30.45 10.71 43.14 4.02
3830 8876 0.110486 GTCTTTTCTGGGGGTGCTCA 59.890 55.000 0.00 0.00 0.00 4.26
3880 8926 4.999950 AGAGAATTACAAGCAGTTCACTGG 59.000 41.667 9.01 0.00 43.94 4.00
4036 9196 0.395586 TGGTGCTGACACTGGCTTTT 60.396 50.000 0.00 0.00 46.57 2.27
4042 9202 1.000938 CTGACACTGGCTTTTTGGCTC 60.001 52.381 0.00 0.00 42.34 4.70
4049 9209 0.241213 GGCTTTTTGGCTCGAGAACC 59.759 55.000 18.75 9.56 38.32 3.62
4051 9211 1.336755 GCTTTTTGGCTCGAGAACCAA 59.663 47.619 18.75 18.01 44.11 3.67
4088 9248 8.899887 AAGGGGATATTTTCAGAAAGAATGAA 57.100 30.769 0.00 0.00 35.83 2.57
4107 9267 6.727824 ATGAATGTTAGAGTTTGTCCTTCG 57.272 37.500 0.00 0.00 0.00 3.79
4198 9364 3.885901 TCCTGATACCGAGAGACATTCAG 59.114 47.826 0.00 0.00 0.00 3.02
4255 9424 5.539574 AGACATAGAATGGATGGAGTGAGAG 59.460 44.000 0.00 0.00 33.60 3.20
4264 9433 3.454082 GGATGGAGTGAGAGAAGACCAAT 59.546 47.826 0.00 0.00 0.00 3.16
4277 9446 1.547372 AGACCAATGCCTGAACAATGC 59.453 47.619 0.00 0.00 0.00 3.56
4321 9496 0.883833 CATTGTGCCTGAACAGACCC 59.116 55.000 3.19 0.00 0.00 4.46
4408 9595 6.716628 TGATGGCCTTCTCAATTCCATAATAC 59.283 38.462 18.67 0.00 37.63 1.89
4424 9611 7.924541 TCCATAATACAAGTGGTAAGAACCTT 58.075 34.615 0.00 0.00 46.91 3.50
4464 9654 1.199097 TCGCCTTTTCCGCTCAAAATC 59.801 47.619 0.00 0.00 0.00 2.17
4481 9671 7.907563 GCTCAAAATCTCACTATTTCTGTTAGC 59.092 37.037 0.00 0.00 0.00 3.09
4513 9703 6.218019 TCCTTTCAAATCATTTGCACTGAAG 58.782 36.000 5.12 4.68 40.43 3.02
4568 9771 8.055279 TCAATAGTGATTTTTCTGAACCCATC 57.945 34.615 0.00 0.00 0.00 3.51
4578 9781 6.579666 TTTCTGAACCCATCTTCTGATTTG 57.420 37.500 0.00 0.00 30.75 2.32
4615 9818 2.034685 ACATGTCATGACGATACTCCCG 59.965 50.000 19.77 5.69 0.00 5.14
4667 9874 0.107456 ATATGGCAACCTCCGCAGAG 59.893 55.000 0.00 0.00 40.09 3.35
4720 9928 2.915659 TAGCCTACGGGGGATGCG 60.916 66.667 0.00 0.00 35.12 4.73
4730 9938 2.801631 GGGGATGCGTCAGGAGGAG 61.802 68.421 8.47 0.00 0.00 3.69
4735 9947 1.410517 GATGCGTCAGGAGGAGAATCA 59.589 52.381 0.00 0.00 36.25 2.57
4754 9970 2.342279 CTTCGGAGCCAACGACCA 59.658 61.111 0.00 0.00 40.45 4.02
4755 9971 1.738099 CTTCGGAGCCAACGACCAG 60.738 63.158 0.00 0.00 40.45 4.00
4756 9972 2.154798 CTTCGGAGCCAACGACCAGA 62.155 60.000 0.00 0.00 40.45 3.86
4765 9981 2.893637 CCAACGACCAGAAGACCATAG 58.106 52.381 0.00 0.00 0.00 2.23
4899 10116 2.590575 CGGGCGTTCACCACTGTT 60.591 61.111 0.00 0.00 0.00 3.16
4912 10133 1.867233 CCACTGTTGACCTCTTTGACG 59.133 52.381 0.00 0.00 0.00 4.35
4918 10139 3.876589 GACCTCTTTGACGGCGCCA 62.877 63.158 28.98 3.37 0.00 5.69
5056 10287 4.580580 AGGCTTTTTGAGACAAGTACAAGG 59.419 41.667 0.00 0.00 35.01 3.61
5073 10304 2.034879 GGGTCCACGTGAGCATGTG 61.035 63.158 19.30 14.33 45.43 3.21
5109 10340 4.275936 GCTGGTTTGAGAAGTGTTGTACAT 59.724 41.667 0.00 0.00 0.00 2.29
5114 11540 7.033185 GGTTTGAGAAGTGTTGTACATTTGTT 58.967 34.615 0.00 0.00 27.73 2.83
5141 11567 3.051479 TGTGCTGTGGCGATGCTG 61.051 61.111 0.00 0.00 42.25 4.41
5210 11636 2.029844 GCCAGCACGTCTTCCTGAC 61.030 63.158 0.00 0.00 42.06 3.51
5215 11641 1.000283 AGCACGTCTTCCTGACTTCAG 60.000 52.381 0.00 0.00 43.25 3.02
5295 11731 3.738590 GCCTCTTCTGACCCGATTACTTC 60.739 52.174 0.00 0.00 0.00 3.01
5299 11735 5.860611 TCTTCTGACCCGATTACTTCAAAA 58.139 37.500 0.00 0.00 0.00 2.44
5395 11831 1.417890 CACCACTCCAGAACTCCACTT 59.582 52.381 0.00 0.00 0.00 3.16
5398 11834 0.969894 ACTCCAGAACTCCACTTCCG 59.030 55.000 0.00 0.00 0.00 4.30
5433 11869 4.656041 CTTCAGCTGAAAATAAAGGAGCG 58.344 43.478 28.16 9.71 34.75 5.03
5460 11896 4.637489 CCGCTCCGCAGATCCTCG 62.637 72.222 0.00 0.00 0.00 4.63
5474 11910 2.981859 TCCTCGTATTTCTTGGAGCC 57.018 50.000 0.00 0.00 0.00 4.70
5476 11912 1.134788 CCTCGTATTTCTTGGAGCCGT 60.135 52.381 0.00 0.00 0.00 5.68
5581 12017 4.214310 TGGAAGGAAAATGAGCACAAAGA 58.786 39.130 0.00 0.00 0.00 2.52
5602 12038 6.391227 AGACACACTCCAAATTACAAAAGG 57.609 37.500 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 7.595130 GTGTTTCTTCAAACTTTCTCACAAGTT 59.405 33.333 0.00 0.00 46.85 2.66
22 23 7.084486 GTGTTTCTTCAAACTTTCTCACAAGT 58.916 34.615 0.00 0.00 42.29 3.16
24 25 6.976088 TGTGTTTCTTCAAACTTTCTCACAA 58.024 32.000 0.00 0.00 42.29 3.33
38 39 3.319122 AGGGCTGAACAATGTGTTTCTTC 59.681 43.478 0.00 0.00 41.28 2.87
41 42 5.391312 AATAGGGCTGAACAATGTGTTTC 57.609 39.130 0.00 0.00 41.28 2.78
44 45 4.561326 GCAAAATAGGGCTGAACAATGTGT 60.561 41.667 0.00 0.00 0.00 3.72
45 46 3.928375 GCAAAATAGGGCTGAACAATGTG 59.072 43.478 0.00 0.00 0.00 3.21
46 47 3.834231 AGCAAAATAGGGCTGAACAATGT 59.166 39.130 0.00 0.00 39.30 2.71
47 48 4.460948 AGCAAAATAGGGCTGAACAATG 57.539 40.909 0.00 0.00 39.30 2.82
48 49 5.221702 ACAAAGCAAAATAGGGCTGAACAAT 60.222 36.000 0.00 0.00 40.93 2.71
50 51 3.640967 ACAAAGCAAAATAGGGCTGAACA 59.359 39.130 0.00 0.00 40.93 3.18
51 52 4.257267 ACAAAGCAAAATAGGGCTGAAC 57.743 40.909 0.00 0.00 40.93 3.18
53 54 3.554752 GCAACAAAGCAAAATAGGGCTGA 60.555 43.478 0.00 0.00 40.93 4.26
54 55 2.738314 GCAACAAAGCAAAATAGGGCTG 59.262 45.455 0.00 0.00 40.93 4.85
55 56 2.289631 GGCAACAAAGCAAAATAGGGCT 60.290 45.455 0.00 0.00 43.46 5.19
56 57 2.076100 GGCAACAAAGCAAAATAGGGC 58.924 47.619 0.00 0.00 35.83 5.19
114 115 3.251479 CTCAAATGAGTGATGTCCGGA 57.749 47.619 0.00 0.00 37.40 5.14
126 127 5.309638 TGGTCGACCAAAATACTCAAATGA 58.690 37.500 34.60 5.35 44.35 2.57
217 220 7.760607 AGAGAGAGAGAGAGAGAGAGAGTATA 58.239 42.308 0.00 0.00 0.00 1.47
221 224 4.892345 TGAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
245 251 7.974501 TGAATTGAAAGCAAAAATGCAAAATGT 59.025 25.926 3.41 0.00 37.59 2.71
293 306 4.391830 GTGTTTTTCGCTCATGGTGATCTA 59.608 41.667 0.00 0.00 34.15 1.98
307 323 3.425193 GCTTGCTATGGTTGTGTTTTTCG 59.575 43.478 0.00 0.00 0.00 3.46
313 329 1.270550 GCTTGCTTGCTATGGTTGTGT 59.729 47.619 0.00 0.00 0.00 3.72
314 330 1.542915 AGCTTGCTTGCTATGGTTGTG 59.457 47.619 2.31 0.00 42.10 3.33
442 475 3.555168 GGCTGATTTATAGGGGTCAGTCG 60.555 52.174 0.00 0.00 40.08 4.18
499 535 2.927856 TGGAAGGGGCAGAGCGAA 60.928 61.111 0.00 0.00 0.00 4.70
586 667 2.169590 AAAGCGAGGAGGGGAGGAGA 62.170 60.000 0.00 0.00 0.00 3.71
597 678 3.494336 CGAGCAGGCAAAGCGAGG 61.494 66.667 0.00 0.00 37.01 4.63
645 753 2.042843 CCCTACCCGTGCTCTCCT 60.043 66.667 0.00 0.00 0.00 3.69
648 756 4.007323 ACCCCCTACCCGTGCTCT 62.007 66.667 0.00 0.00 0.00 4.09
663 800 1.604185 GCAGAGACAGACAGTGACACC 60.604 57.143 0.84 0.00 0.00 4.16
712 853 1.618074 GGGAGAGCAAAAGGCCAGAAT 60.618 52.381 5.01 0.00 46.50 2.40
728 879 0.254462 GAAGGGAAGAAGGCTGGGAG 59.746 60.000 0.00 0.00 0.00 4.30
738 889 5.671735 TCCATCATTATTGAGGAAGGGAAGA 59.328 40.000 1.04 0.00 35.69 2.87
746 900 4.041321 CAGCTCCTCCATCATTATTGAGGA 59.959 45.833 8.91 8.91 46.67 3.71
773 927 0.250338 GGCCTTCAGGAACGAACACT 60.250 55.000 0.00 0.00 37.39 3.55
775 929 0.034896 GAGGCCTTCAGGAACGAACA 59.965 55.000 6.77 0.00 37.39 3.18
856 1027 3.027412 TCCGGGAAGAAGAGAAGATCAG 58.973 50.000 0.00 0.00 0.00 2.90
857 1028 3.027412 CTCCGGGAAGAAGAGAAGATCA 58.973 50.000 0.00 0.00 0.00 2.92
858 1029 3.028130 ACTCCGGGAAGAAGAGAAGATC 58.972 50.000 0.00 0.00 0.00 2.75
859 1030 3.108847 ACTCCGGGAAGAAGAGAAGAT 57.891 47.619 0.00 0.00 0.00 2.40
861 1032 5.346181 AATTACTCCGGGAAGAAGAGAAG 57.654 43.478 0.00 0.00 0.00 2.85
862 1033 5.623824 CGAAATTACTCCGGGAAGAAGAGAA 60.624 44.000 0.00 0.00 0.00 2.87
864 1035 4.113354 CGAAATTACTCCGGGAAGAAGAG 58.887 47.826 0.00 0.00 0.00 2.85
904 1092 1.302033 CAGCAAGAACGAGGCCAGT 60.302 57.895 5.01 0.59 0.00 4.00
927 1270 5.012768 CCTAACCCTAAAGACAGAAACTCCA 59.987 44.000 0.00 0.00 0.00 3.86
954 1297 6.183361 ACCAACTTAACAACTAGCAACTCCTA 60.183 38.462 0.00 0.00 0.00 2.94
955 1298 5.063880 CCAACTTAACAACTAGCAACTCCT 58.936 41.667 0.00 0.00 0.00 3.69
956 1299 4.820173 ACCAACTTAACAACTAGCAACTCC 59.180 41.667 0.00 0.00 0.00 3.85
958 1301 5.527582 CAGACCAACTTAACAACTAGCAACT 59.472 40.000 0.00 0.00 0.00 3.16
959 1302 5.526111 TCAGACCAACTTAACAACTAGCAAC 59.474 40.000 0.00 0.00 0.00 4.17
960 1303 5.676552 TCAGACCAACTTAACAACTAGCAA 58.323 37.500 0.00 0.00 0.00 3.91
961 1304 5.284861 TCAGACCAACTTAACAACTAGCA 57.715 39.130 0.00 0.00 0.00 3.49
962 1305 5.758784 AGTTCAGACCAACTTAACAACTAGC 59.241 40.000 0.00 0.00 35.79 3.42
963 1306 6.202954 CCAGTTCAGACCAACTTAACAACTAG 59.797 42.308 0.00 0.00 35.79 2.57
964 1307 6.053005 CCAGTTCAGACCAACTTAACAACTA 58.947 40.000 0.00 0.00 35.79 2.24
965 1308 4.881850 CCAGTTCAGACCAACTTAACAACT 59.118 41.667 0.00 0.00 35.79 3.16
978 1330 1.002544 CCAACCTCTCCCAGTTCAGAC 59.997 57.143 0.00 0.00 0.00 3.51
985 1337 1.225704 GCATCCCAACCTCTCCCAG 59.774 63.158 0.00 0.00 0.00 4.45
1026 1378 1.693640 CATCAACCCCTTCCTGGCT 59.306 57.895 0.00 0.00 0.00 4.75
1062 1426 2.995574 CCGACGGGGAACTGGTCT 60.996 66.667 5.81 0.00 42.76 3.85
1293 1862 6.884832 AGCAATAGTAATTACAGGTGCACTA 58.115 36.000 26.01 10.19 33.49 2.74
1294 1863 5.745227 AGCAATAGTAATTACAGGTGCACT 58.255 37.500 26.01 12.95 33.49 4.40
1381 1987 9.176181 GCGAAAGTGTTCATCTGTAAAATTTAA 57.824 29.630 0.00 0.00 32.89 1.52
1414 2024 9.051027 GCATAACAATTAACATATATGTCGCAC 57.949 33.333 18.52 0.00 40.80 5.34
1452 2195 3.432252 AGCTTACGATTGTCGAAACTTGG 59.568 43.478 6.34 0.00 43.74 3.61
1461 2204 6.863645 TGCTCTTATATCAGCTTACGATTGTC 59.136 38.462 0.00 0.00 36.53 3.18
1467 2213 5.923114 ACATGTGCTCTTATATCAGCTTACG 59.077 40.000 0.00 0.00 36.53 3.18
1657 2410 7.828508 TGTAGAGAAACTTGTGGACTTACTA 57.171 36.000 0.00 0.00 0.00 1.82
1674 2427 7.004555 ACAACAAGTACCATGATTGTAGAGA 57.995 36.000 0.00 0.00 36.18 3.10
1680 2433 5.049749 TCGACAACAACAAGTACCATGATTG 60.050 40.000 0.00 6.64 0.00 2.67
1702 2462 3.069586 TGGGACCTCATTAGCATTACTCG 59.930 47.826 0.00 0.00 0.00 4.18
1759 2537 5.065914 ACACTGCATGAGTTGAATTGTACT 58.934 37.500 0.00 0.00 29.75 2.73
1764 2542 6.432162 ACTGATAACACTGCATGAGTTGAATT 59.568 34.615 0.00 0.00 29.75 2.17
1787 2566 4.767928 ACAGATTTAGTCTCTCCGTTCACT 59.232 41.667 0.00 0.00 34.00 3.41
2085 2885 4.771356 CTTCTTCGACGCCGCCGA 62.771 66.667 0.00 0.00 38.29 5.54
2122 2925 3.883744 AACTTCCGGTGCAGCTCCG 62.884 63.158 25.91 25.91 46.49 4.63
2248 3069 3.879295 CAGCAAGAGAGAAAGGACACAAA 59.121 43.478 0.00 0.00 0.00 2.83
2331 3153 1.011968 TGACTCGCGACATTTTCCCG 61.012 55.000 3.71 0.00 0.00 5.14
2431 3267 1.004595 CTCTGTGCATCACATGGTCG 58.995 55.000 0.00 0.00 43.71 4.79
2472 3310 5.346822 GCCAATTTGCAGACAGTTTTATCAG 59.653 40.000 0.00 0.00 0.00 2.90
2492 3331 1.859302 ACACAGGAAAACAAGGCCAA 58.141 45.000 5.01 0.00 0.00 4.52
2533 3372 1.068610 TGCTCCGCAATTAACACTTGC 60.069 47.619 2.75 2.75 44.32 4.01
2538 3377 2.472695 ACTCTGCTCCGCAATTAACA 57.527 45.000 0.00 0.00 38.41 2.41
2767 5167 0.113776 AGTCTACACGGTTGGAGGGA 59.886 55.000 0.00 0.00 33.88 4.20
2771 5171 4.558226 TCTACTAGTCTACACGGTTGGA 57.442 45.455 0.00 0.00 0.00 3.53
2911 5587 8.511321 TGAAACAATGTAGCCAAAATACTACTG 58.489 33.333 0.00 0.00 39.60 2.74
2912 5588 8.630054 TGAAACAATGTAGCCAAAATACTACT 57.370 30.769 0.00 0.00 39.60 2.57
2942 6293 5.869888 GTCATCCTTCTAGCCGGTTTATATG 59.130 44.000 1.90 0.00 0.00 1.78
2963 6314 1.337384 ACTGGGCTGTGTCAGTGTCA 61.337 55.000 0.00 0.00 42.00 3.58
2983 6358 0.687354 CCCATTGGGCTAGATACGCT 59.313 55.000 9.28 0.00 35.35 5.07
3010 6385 2.298729 TGAACAATTTTACAGCTGGCCC 59.701 45.455 19.93 0.00 0.00 5.80
3035 6410 1.457831 GGCGGATCTAGAGGGTGGT 60.458 63.158 0.00 0.00 0.00 4.16
3222 6622 7.365840 ACATCTGACGAATTTTCCTAACTTC 57.634 36.000 0.00 0.00 0.00 3.01
3280 6682 0.179166 TGGCATCGAAATTCTTGCGC 60.179 50.000 0.00 0.00 35.95 6.09
3302 6704 6.773638 ACAATCAGAGATAACCACTTTCTGT 58.226 36.000 0.00 0.00 37.23 3.41
3361 6764 8.890718 GCATATGTTTCATGCATGAGATATACT 58.109 33.333 27.76 18.33 46.47 2.12
3621 8667 3.009723 GCTAGCACACTGAATTGCCTTA 58.990 45.455 10.63 0.00 39.75 2.69
3647 8693 1.535028 CGCAATGACTTACTGCACCAA 59.465 47.619 0.00 0.00 35.78 3.67
3742 8788 2.029073 CTGCCCAAGTGACGACGT 59.971 61.111 0.00 0.00 0.00 4.34
3776 8822 2.710377 TGGTTTCTTGATGGATCCACG 58.290 47.619 18.99 6.21 0.00 4.94
3830 8876 0.035056 GCCAGACATAGTGTTGGCCT 60.035 55.000 17.68 0.00 42.87 5.19
3880 8926 3.190118 CACTCCAAAAGATCTTCTGGTGC 59.810 47.826 24.06 0.00 0.00 5.01
3919 8965 1.666365 ATGGATGGATGGGCTCCTAG 58.334 55.000 0.00 0.00 45.21 3.02
4042 9202 2.472695 TGGTCCATCTTTGGTTCTCG 57.527 50.000 0.00 0.00 44.06 4.04
4049 9209 2.888212 TCCCCTTTTGGTCCATCTTTG 58.112 47.619 0.00 0.00 38.10 2.77
4051 9211 5.487861 AATATCCCCTTTTGGTCCATCTT 57.512 39.130 0.00 0.00 38.10 2.40
4107 9267 1.370810 GGCTGCTATGAGGCTCTCC 59.629 63.158 16.72 1.97 35.65 3.71
4134 9297 4.326826 CAGAAGAACTGGCTCCACATTTA 58.673 43.478 0.00 0.00 42.39 1.40
4255 9424 3.841643 CATTGTTCAGGCATTGGTCTTC 58.158 45.455 0.00 0.00 0.00 2.87
4264 9433 4.618927 GCTAAAATCTGCATTGTTCAGGCA 60.619 41.667 0.00 0.00 40.80 4.75
4277 9446 5.278169 GCACCACCATCATAGCTAAAATCTG 60.278 44.000 0.00 0.00 0.00 2.90
4321 9496 6.921486 TGGAATTCCCAAATCATCCATATG 57.079 37.500 21.90 0.00 43.29 1.78
4424 9611 9.832445 AAGGCGATAGAAGTTAAAGAATAATCA 57.168 29.630 0.00 0.00 39.76 2.57
4441 9628 1.651987 TTGAGCGGAAAAGGCGATAG 58.348 50.000 0.00 0.00 35.00 2.08
4464 9654 8.682936 AAATATGGGCTAACAGAAATAGTGAG 57.317 34.615 0.00 0.00 0.00 3.51
4481 9671 7.553402 TGCAAATGATTTGAAAGGAAATATGGG 59.447 33.333 21.14 0.00 43.26 4.00
4513 9703 6.683312 AGGATTATAGGTTACTGGGCTTAC 57.317 41.667 0.00 0.00 0.00 2.34
4548 9751 6.208204 CAGAAGATGGGTTCAGAAAAATCACT 59.792 38.462 0.00 0.00 0.00 3.41
4568 9771 5.049129 GGTTCTCCTGTGTTCAAATCAGAAG 60.049 44.000 0.00 0.00 0.00 2.85
4578 9781 2.154462 CATGTGGGTTCTCCTGTGTTC 58.846 52.381 0.00 0.00 36.20 3.18
4615 9818 2.364002 CTGGGAAAGAGGTAGCTAGAGC 59.636 54.545 0.00 0.00 42.49 4.09
4667 9874 1.287730 CGGATATCGCTTGCTCCAGC 61.288 60.000 0.00 0.00 42.50 4.85
4720 9928 2.159170 CGAAGGTGATTCTCCTCCTGAC 60.159 54.545 7.71 0.00 35.61 3.51
4754 9970 4.537751 TCCGTTCAGATCTATGGTCTTCT 58.462 43.478 0.00 0.00 0.00 2.85
4755 9971 4.794655 GCTCCGTTCAGATCTATGGTCTTC 60.795 50.000 0.00 0.00 0.00 2.87
4756 9972 3.068873 GCTCCGTTCAGATCTATGGTCTT 59.931 47.826 0.00 0.00 0.00 3.01
4899 10116 2.357034 GCGCCGTCAAAGAGGTCA 60.357 61.111 0.00 0.00 0.00 4.02
4912 10133 0.665972 GAGATCTTCTCGATGGCGCC 60.666 60.000 22.73 22.73 33.35 6.53
4918 10139 2.226330 CACCTCGGAGATCTTCTCGAT 58.774 52.381 6.58 2.34 44.28 3.59
5033 10260 4.580580 CCTTGTACTTGTCTCAAAAAGCCT 59.419 41.667 0.00 0.00 0.00 4.58
5034 10261 4.261614 CCCTTGTACTTGTCTCAAAAAGCC 60.262 45.833 0.00 0.00 0.00 4.35
5036 10263 5.008712 GGACCCTTGTACTTGTCTCAAAAAG 59.991 44.000 0.00 0.00 0.00 2.27
5056 10287 1.301716 ACACATGCTCACGTGGACC 60.302 57.895 17.00 4.91 37.45 4.46
5073 10304 2.808543 CAAACCAGCCTTAGACAGTCAC 59.191 50.000 2.66 0.00 0.00 3.67
5109 10340 4.274705 CACAGCACACCTACATACAACAAA 59.725 41.667 0.00 0.00 0.00 2.83
5114 11540 1.338674 GCCACAGCACACCTACATACA 60.339 52.381 0.00 0.00 39.53 2.29
5141 11567 3.746940 TGGTCAGTACTTTTAACAGCCC 58.253 45.455 0.00 0.00 0.00 5.19
5210 11636 2.171237 TGTGTCATATCTGGGCCTGAAG 59.829 50.000 17.53 10.33 0.00 3.02
5215 11641 4.357918 ACTAATGTGTCATATCTGGGCC 57.642 45.455 0.00 0.00 0.00 5.80
5337 11773 6.611381 GCCCTTTGCCTCATTTTTATTTTTC 58.389 36.000 0.00 0.00 0.00 2.29
5398 11834 3.081409 TGAAGCTACCCCCGCTCC 61.081 66.667 0.00 0.00 36.56 4.70
5411 11847 4.437930 CCGCTCCTTTATTTTCAGCTGAAG 60.438 45.833 27.02 15.48 35.21 3.02
5450 11886 4.054671 CTCCAAGAAATACGAGGATCTGC 58.945 47.826 0.00 0.00 0.00 4.26
5460 11896 1.134907 TCCGACGGCTCCAAGAAATAC 60.135 52.381 9.66 0.00 0.00 1.89
5535 11971 8.742777 CCAAGAATGAAGGATTTTAATGAGACA 58.257 33.333 0.00 0.00 0.00 3.41
5550 11986 6.098017 GCTCATTTTCCTTCCAAGAATGAAG 58.902 40.000 0.00 0.00 36.59 3.02
5581 12017 6.976934 ATCCTTTTGTAATTTGGAGTGTGT 57.023 33.333 0.00 0.00 0.00 3.72


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

AutoCloner maintained by Alex Coulton.