Multiple sequence alignment - TraesCS1D01G316900

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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 TraesCS1D01G316900 chr1D 100.000 2767 0 0 1 2767 412021881 412024647 0.000000e+00 5110.0
1 TraesCS1D01G316900 chr1B 88.028 2439 169 56 9 2335 555292516 555294943 0.000000e+00 2772.0
2 TraesCS1D01G316900 chr1B 86.538 156 12 4 2336 2487 555297334 555297484 2.200000e-36 163.0
3 TraesCS1D01G316900 chr1B 100.000 66 0 0 2702 2767 555297549 555297614 3.740000e-24 122.0
4 TraesCS1D01G316900 chr1B 100.000 30 0 0 2558 2587 555297521 555297550 3.850000e-04 56.5
5 TraesCS1D01G316900 chr1A 86.991 2160 162 62 1 2085 508526069 508528184 0.000000e+00 2322.0
6 TraesCS1D01G316900 chr3B 78.820 373 58 12 1277 1634 566835216 566834850 5.960000e-57 231.0
7 TraesCS1D01G316900 chr2D 83.562 219 36 0 1288 1506 192156799 192156581 3.610000e-49 206.0


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 TraesCS1D01G316900 chr1D 412021881 412024647 2766 False 5110.000 5110 100.0000 1 2767 1 chr1D.!!$F1 2766
1 TraesCS1D01G316900 chr1B 555292516 555297614 5098 False 778.375 2772 93.6415 9 2767 4 chr1B.!!$F1 2758
2 TraesCS1D01G316900 chr1A 508526069 508528184 2115 False 2322.000 2322 86.9910 1 2085 1 chr1A.!!$F1 2084

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
816 857 0.841961 TACTAGGTCTCGGCTAGGCA 59.158 55.0 17.45 2.79 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2591 5131 0.035056 CTTAACCAGGGGTGCAGGAG 60.035 60.0 0.0 0.0 35.34 3.69 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
60 61 1.437986 CCTAGAGCCGTGTACAGCC 59.562 63.158 0.00 0.00 0.00 4.85
108 120 3.992427 GCCTAATTATACGTTTCCTCCCG 59.008 47.826 0.00 0.00 0.00 5.14
171 183 2.546795 CGCCTCTCTCTCTCTCTCTCTC 60.547 59.091 0.00 0.00 0.00 3.20
180 192 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
181 193 4.078922 TCTCTCTCTCTCTCTCTCTCTCCT 60.079 50.000 0.00 0.00 0.00 3.69
182 194 4.219115 TCTCTCTCTCTCTCTCTCTCCTC 58.781 52.174 0.00 0.00 0.00 3.71
183 195 4.078922 TCTCTCTCTCTCTCTCTCTCCTCT 60.079 50.000 0.00 0.00 0.00 3.69
327 347 2.323105 CTCGTCGCGAGCTCTCTC 59.677 66.667 10.24 0.00 46.75 3.20
418 446 1.414158 TTTTGGTGCCCGGATTTGAA 58.586 45.000 0.73 0.00 0.00 2.69
424 452 1.095228 TGCCCGGATTTGAAGCGATC 61.095 55.000 0.73 0.00 0.00 3.69
431 459 3.372206 CGGATTTGAAGCGATCTGTTCTT 59.628 43.478 0.00 0.00 0.00 2.52
447 475 1.493772 TCTTGATTTCGCGTTCGTGT 58.506 45.000 5.77 0.00 36.96 4.49
468 496 3.077556 CTGAGGAGTCGGGGTGGG 61.078 72.222 0.00 0.00 0.00 4.61
499 527 1.142474 GTGTCGGTTTAGTTGTCGGG 58.858 55.000 0.00 0.00 0.00 5.14
512 540 2.680352 TCGGGTGGTCAGGCTCTC 60.680 66.667 0.00 0.00 0.00 3.20
582 614 2.621998 ACGGATCGATGGTTATTCTCGT 59.378 45.455 0.54 0.00 34.19 4.18
592 624 4.755411 TGGTTATTCTCGTGATCTGTTCC 58.245 43.478 0.00 0.00 0.00 3.62
594 626 2.586258 ATTCTCGTGATCTGTTCCGG 57.414 50.000 0.00 0.00 0.00 5.14
660 692 2.165845 CGGGAGAACTTGGTCTCGTTAT 59.834 50.000 9.27 0.00 44.30 1.89
664 696 4.562963 GGAGAACTTGGTCTCGTTATTGGT 60.563 45.833 9.27 0.00 44.30 3.67
674 706 3.009695 TCTCGTTATTGGTGGGGAAATGT 59.990 43.478 0.00 0.00 0.00 2.71
677 709 4.218852 TCGTTATTGGTGGGGAAATGTTTC 59.781 41.667 0.00 0.00 36.46 2.78
717 749 2.108976 TGCGCATCTCGGATTCCC 59.891 61.111 5.66 0.00 38.94 3.97
753 786 6.397272 AGAGTTTCATCTCTGTTCATCTGTC 58.603 40.000 0.00 0.00 42.36 3.51
754 787 5.486526 AGTTTCATCTCTGTTCATCTGTCC 58.513 41.667 0.00 0.00 0.00 4.02
757 790 1.573108 TCTCTGTTCATCTGTCCCCC 58.427 55.000 0.00 0.00 0.00 5.40
816 857 0.841961 TACTAGGTCTCGGCTAGGCA 59.158 55.000 17.45 2.79 0.00 4.75
837 888 1.678728 CGAGGGTGCCTGATTTGCTTA 60.679 52.381 0.00 0.00 31.76 3.09
858 911 1.869767 GGTCCTGCATATCGCTTTCAG 59.130 52.381 0.00 0.00 43.06 3.02
863 916 3.242543 CCTGCATATCGCTTTCAGTTGTC 60.243 47.826 0.00 0.00 43.06 3.18
885 942 9.993454 TTGTCATTTGTTTCCATTTAATCATCA 57.007 25.926 0.00 0.00 0.00 3.07
886 943 9.993454 TGTCATTTGTTTCCATTTAATCATCAA 57.007 25.926 0.00 0.00 0.00 2.57
912 969 5.386924 TCAATGAATGGCATGTGATGGATA 58.613 37.500 0.00 0.00 37.28 2.59
920 977 4.521256 TGGCATGTGATGGATATTGTGATG 59.479 41.667 0.00 0.00 0.00 3.07
921 978 4.482386 GCATGTGATGGATATTGTGATGC 58.518 43.478 0.00 0.00 0.00 3.91
924 981 3.566742 TGTGATGGATATTGTGATGCTGC 59.433 43.478 0.00 0.00 0.00 5.25
942 999 3.458872 CGCAGCTTCCACATAAGGA 57.541 52.632 0.00 0.00 35.41 3.36
968 1025 7.013369 ACCAACAAGAGAAACCTTAATCTGTTC 59.987 37.037 0.00 0.00 27.71 3.18
1050 1111 1.334869 GCCTTCGGTATGCTTCCATTG 59.665 52.381 0.00 0.00 32.85 2.82
1062 1123 2.034305 GCTTCCATTGCATCCATGTCTC 59.966 50.000 0.00 0.00 0.00 3.36
1156 1250 7.803659 GCTTCTCAAAACTAAATTGTAGTCACC 59.196 37.037 0.00 0.00 0.00 4.02
1198 1293 0.698818 GGTGTTCAATCTGGTCCCCT 59.301 55.000 0.00 0.00 0.00 4.79
1200 1295 2.162681 GTGTTCAATCTGGTCCCCTTG 58.837 52.381 0.00 0.00 0.00 3.61
1202 1297 2.176798 TGTTCAATCTGGTCCCCTTGTT 59.823 45.455 0.00 0.00 0.00 2.83
1211 1306 5.036916 TCTGGTCCCCTTGTTATGATACTT 58.963 41.667 0.00 0.00 0.00 2.24
1219 1314 8.553153 TCCCCTTGTTATGATACTTTCATGTTA 58.447 33.333 0.00 0.00 44.90 2.41
1234 1329 4.494484 TCATGTTACTCATCGTGACCTTG 58.506 43.478 0.00 0.00 34.09 3.61
1252 1347 5.208890 ACCTTGGTATGTACATGAGCTCTA 58.791 41.667 18.81 1.49 0.00 2.43
1263 1358 5.016051 ACATGAGCTCTACCTACATGTTG 57.984 43.478 16.19 0.84 45.66 3.33
1269 1364 4.959210 AGCTCTACCTACATGTTGTCTGAT 59.041 41.667 2.30 0.00 0.00 2.90
1283 1378 5.112686 GTTGTCTGATATGGTGTCTTCCTC 58.887 45.833 0.00 0.00 0.00 3.71
1284 1379 3.706594 TGTCTGATATGGTGTCTTCCTCC 59.293 47.826 0.00 0.00 0.00 4.30
1510 1605 3.436243 GAGCTAGGCCAGGTATGATACT 58.564 50.000 5.01 0.00 34.30 2.12
1533 1634 0.319813 GGCCGTGCTTCAATTGCTTT 60.320 50.000 0.00 0.00 0.00 3.51
1536 1644 1.715519 CCGTGCTTCAATTGCTTTTCG 59.284 47.619 0.00 3.23 0.00 3.46
1545 1653 0.174162 ATTGCTTTTCGGCCTGATGC 59.826 50.000 0.00 6.08 40.16 3.91
1560 1668 5.279708 GGCCTGATGCTGTTATACTGACTAT 60.280 44.000 0.00 0.00 40.92 2.12
1561 1669 5.636965 GCCTGATGCTGTTATACTGACTATG 59.363 44.000 0.00 0.00 36.87 2.23
1566 1674 9.264719 TGATGCTGTTATACTGACTATGATTTG 57.735 33.333 0.00 0.00 0.00 2.32
1569 1677 6.073003 GCTGTTATACTGACTATGATTTGCCC 60.073 42.308 0.00 0.00 0.00 5.36
1634 1744 4.021916 TGCTACTTTCCTAGTCCAGGTAC 58.978 47.826 0.00 0.00 45.71 3.34
1639 1751 2.842645 TCCTAGTCCAGGTACCTTCC 57.157 55.000 13.15 2.67 45.71 3.46
1643 1755 0.964358 AGTCCAGGTACCTTCCGACG 60.964 60.000 13.15 0.00 0.00 5.12
1654 1766 2.030451 ACCTTCCGACGTCTAACAAGAC 60.030 50.000 14.70 0.00 35.59 3.01
1679 1792 7.040755 ACGAACACCATTTATCATTCTGTCAAA 60.041 33.333 0.00 0.00 0.00 2.69
1680 1793 7.271223 CGAACACCATTTATCATTCTGTCAAAC 59.729 37.037 0.00 0.00 0.00 2.93
1681 1794 6.611381 ACACCATTTATCATTCTGTCAAACG 58.389 36.000 0.00 0.00 0.00 3.60
1685 1798 7.174946 ACCATTTATCATTCTGTCAAACGTTCT 59.825 33.333 0.00 0.00 0.00 3.01
1696 1809 4.634004 TGTCAAACGTTCTTGTGACTGATT 59.366 37.500 23.89 0.00 40.81 2.57
1700 1813 7.950496 GTCAAACGTTCTTGTGACTGATTATAC 59.050 37.037 18.96 0.00 37.88 1.47
1702 1815 6.032956 ACGTTCTTGTGACTGATTATACCA 57.967 37.500 0.00 0.00 0.00 3.25
1900 2016 5.510671 CAAGTTGTGTTGTCACCTGATTAC 58.489 41.667 0.00 0.00 43.26 1.89
1966 2083 8.281212 AGATGTTGCCGACTAAATAAAAATCT 57.719 30.769 0.00 0.00 0.00 2.40
2018 2136 2.032290 CCCAAGTTTCGTTTCCTTCGTC 60.032 50.000 0.00 0.00 0.00 4.20
2023 2141 1.270777 TTCGTTTCCTTCGTCGTCGC 61.271 55.000 0.00 0.00 36.96 5.19
2042 2163 2.664424 CGCGATCGTGGATGTTTGTTTT 60.664 45.455 20.77 0.00 0.00 2.43
2043 2164 2.908626 GCGATCGTGGATGTTTGTTTTC 59.091 45.455 17.81 0.00 0.00 2.29
2119 2240 2.408333 CCGATTCTTGGCCCACATC 58.592 57.895 0.00 0.00 0.00 3.06
2129 2250 1.231958 GGCCCACATCGTTTTGTCGA 61.232 55.000 0.00 0.00 43.86 4.20
2134 2255 2.742053 CCACATCGTTTTGTCGAATCCT 59.258 45.455 0.00 0.00 42.99 3.24
2202 2349 2.289133 CCGCTAAGGGGAAGCTTATCTC 60.289 54.545 0.00 0.00 37.91 2.75
2204 2351 3.007398 CGCTAAGGGGAAGCTTATCTCAT 59.993 47.826 0.00 0.00 37.85 2.90
2211 2358 1.530293 GAAGCTTATCTCATGGCGCTG 59.470 52.381 7.64 0.00 0.00 5.18
2241 2388 3.326588 ACTGTAGTTAACCATGTGCTCCA 59.673 43.478 0.88 0.00 0.00 3.86
2242 2389 3.670625 TGTAGTTAACCATGTGCTCCAC 58.329 45.455 0.88 0.00 34.56 4.02
2243 2390 1.808411 AGTTAACCATGTGCTCCACG 58.192 50.000 0.88 0.00 37.14 4.94
2244 2391 1.071699 AGTTAACCATGTGCTCCACGT 59.928 47.619 0.88 0.00 37.14 4.49
2246 2393 2.264005 TAACCATGTGCTCCACGTTT 57.736 45.000 0.00 0.00 37.14 3.60
2247 2394 2.264005 AACCATGTGCTCCACGTTTA 57.736 45.000 0.00 0.00 37.14 2.01
2248 2395 1.519408 ACCATGTGCTCCACGTTTAC 58.481 50.000 0.00 0.00 37.14 2.01
2249 2396 1.071699 ACCATGTGCTCCACGTTTACT 59.928 47.619 0.00 0.00 37.14 2.24
2250 2397 1.464608 CCATGTGCTCCACGTTTACTG 59.535 52.381 0.00 0.00 37.14 2.74
2251 2398 2.143122 CATGTGCTCCACGTTTACTGT 58.857 47.619 0.00 0.00 37.14 3.55
2252 2399 2.319136 TGTGCTCCACGTTTACTGTT 57.681 45.000 0.00 0.00 37.14 3.16
2253 2400 2.206750 TGTGCTCCACGTTTACTGTTC 58.793 47.619 0.00 0.00 37.14 3.18
2297 2445 5.991328 TCTGTCAGCAAAACTACAGAAAG 57.009 39.130 0.00 0.00 43.90 2.62
2308 2456 7.359765 GCAAAACTACAGAAAGCGTATAGTCAA 60.360 37.037 0.00 0.00 0.00 3.18
2312 2460 3.551890 ACAGAAAGCGTATAGTCAATGCG 59.448 43.478 0.00 0.00 45.37 4.73
2356 4894 2.292845 GGAGCACCTATACGTGAGGTAC 59.707 54.545 20.08 15.87 45.93 3.34
2360 4898 3.548770 CACCTATACGTGAGGTACCTGA 58.451 50.000 22.10 8.52 45.93 3.86
2362 4900 4.400251 CACCTATACGTGAGGTACCTGAAA 59.600 45.833 22.10 1.16 45.93 2.69
2365 4903 6.155737 ACCTATACGTGAGGTACCTGAAAAAT 59.844 38.462 22.10 9.80 45.82 1.82
2369 4907 4.695455 ACGTGAGGTACCTGAAAAATGATG 59.305 41.667 22.10 0.00 0.00 3.07
2371 4909 4.458989 GTGAGGTACCTGAAAAATGATGCA 59.541 41.667 22.10 3.00 0.00 3.96
2372 4910 5.126061 GTGAGGTACCTGAAAAATGATGCAT 59.874 40.000 22.10 0.00 0.00 3.96
2384 4922 4.959596 AATGATGCATGTCAGTCACTTC 57.040 40.909 2.46 0.00 0.00 3.01
2386 4924 3.593096 TGATGCATGTCAGTCACTTCTC 58.407 45.455 2.46 0.00 0.00 2.87
2392 4930 4.152045 GCATGTCAGTCACTTCTCTTTCTG 59.848 45.833 0.00 0.00 0.00 3.02
2414 4954 6.328410 TCTGGTCATCAGATCAATATCCAACT 59.672 38.462 0.00 0.00 46.71 3.16
2429 4969 3.865929 AACTGTCAGGAGCACGCCG 62.866 63.158 4.53 0.00 0.00 6.46
2474 5014 1.592223 CCTGTGACGGTTCCTCCTC 59.408 63.158 0.00 0.00 0.00 3.71
2475 5015 1.592223 CTGTGACGGTTCCTCCTCC 59.408 63.158 0.00 0.00 0.00 4.30
2476 5016 0.900647 CTGTGACGGTTCCTCCTCCT 60.901 60.000 0.00 0.00 0.00 3.69
2487 5027 2.040606 TCCTCCTACCCTGTGGCC 59.959 66.667 0.00 0.00 33.59 5.36
2488 5028 2.041265 CCTCCTACCCTGTGGCCT 59.959 66.667 3.32 0.00 33.59 5.19
2489 5029 1.226104 TCCTCCTACCCTGTGGCCTA 61.226 60.000 3.32 0.00 33.59 3.93
2490 5030 1.049289 CCTCCTACCCTGTGGCCTAC 61.049 65.000 3.32 0.69 33.59 3.18
2491 5031 1.002533 TCCTACCCTGTGGCCTACC 59.997 63.158 3.32 0.00 33.59 3.18
2492 5032 1.003051 CCTACCCTGTGGCCTACCT 59.997 63.158 3.32 0.00 36.63 3.08
2493 5033 0.263765 CCTACCCTGTGGCCTACCTA 59.736 60.000 3.32 0.00 36.63 3.08
2494 5034 1.132817 CCTACCCTGTGGCCTACCTAT 60.133 57.143 3.32 0.00 36.63 2.57
2496 5036 2.400467 ACCCTGTGGCCTACCTATAG 57.600 55.000 3.32 0.00 36.63 1.31
2497 5037 0.977395 CCCTGTGGCCTACCTATAGC 59.023 60.000 3.32 0.00 36.63 2.97
2498 5038 0.977395 CCTGTGGCCTACCTATAGCC 59.023 60.000 3.32 0.00 36.63 3.93
2499 5039 1.717032 CTGTGGCCTACCTATAGCCA 58.283 55.000 3.32 0.00 34.29 4.75
2500 5040 2.260822 CTGTGGCCTACCTATAGCCAT 58.739 52.381 3.32 0.00 37.13 4.40
2502 5042 3.838317 CTGTGGCCTACCTATAGCCATAA 59.162 47.826 3.32 0.00 37.13 1.90
2503 5043 4.435137 TGTGGCCTACCTATAGCCATAAT 58.565 43.478 3.32 0.00 37.13 1.28
2505 5045 5.045869 TGTGGCCTACCTATAGCCATAATTC 60.046 44.000 3.32 0.00 37.13 2.17
2506 5046 4.473559 TGGCCTACCTATAGCCATAATTCC 59.526 45.833 3.32 0.00 32.76 3.01
2507 5047 4.141459 GGCCTACCTATAGCCATAATTCCC 60.141 50.000 0.00 0.00 0.00 3.97
2508 5048 4.722279 GCCTACCTATAGCCATAATTCCCT 59.278 45.833 0.00 0.00 0.00 4.20
2509 5049 5.903589 GCCTACCTATAGCCATAATTCCCTA 59.096 44.000 0.00 0.00 0.00 3.53
2510 5050 6.183360 GCCTACCTATAGCCATAATTCCCTAC 60.183 46.154 0.00 0.00 0.00 3.18
2511 5051 6.326843 CCTACCTATAGCCATAATTCCCTACC 59.673 46.154 0.00 0.00 0.00 3.18
2512 5052 5.928656 ACCTATAGCCATAATTCCCTACCT 58.071 41.667 0.00 0.00 0.00 3.08
2513 5053 5.726793 ACCTATAGCCATAATTCCCTACCTG 59.273 44.000 0.00 0.00 0.00 4.00
2514 5054 2.959465 AGCCATAATTCCCTACCTGC 57.041 50.000 0.00 0.00 0.00 4.85
2515 5055 1.425448 AGCCATAATTCCCTACCTGCC 59.575 52.381 0.00 0.00 0.00 4.85
2516 5056 1.882352 GCCATAATTCCCTACCTGCCG 60.882 57.143 0.00 0.00 0.00 5.69
2517 5057 1.523758 CATAATTCCCTACCTGCCGC 58.476 55.000 0.00 0.00 0.00 6.53
2518 5058 0.400594 ATAATTCCCTACCTGCCGCC 59.599 55.000 0.00 0.00 0.00 6.13
2519 5059 1.702022 TAATTCCCTACCTGCCGCCC 61.702 60.000 0.00 0.00 0.00 6.13
2538 5078 3.492353 CCTCCCCCATCGCCATGT 61.492 66.667 0.00 0.00 0.00 3.21
2539 5079 2.597340 CTCCCCCATCGCCATGTT 59.403 61.111 0.00 0.00 0.00 2.71
2540 5080 1.825191 CTCCCCCATCGCCATGTTG 60.825 63.158 0.00 0.00 0.00 3.33
2541 5081 2.834505 CCCCCATCGCCATGTTGG 60.835 66.667 0.00 0.00 41.55 3.77
2550 5090 3.061848 CCATGTTGGCCACCGTCC 61.062 66.667 3.88 0.00 0.00 4.79
2551 5091 3.061848 CATGTTGGCCACCGTCCC 61.062 66.667 3.88 0.00 0.00 4.46
2552 5092 3.256960 ATGTTGGCCACCGTCCCT 61.257 61.111 3.88 0.00 0.00 4.20
2553 5093 3.268103 ATGTTGGCCACCGTCCCTC 62.268 63.158 3.88 0.00 0.00 4.30
2554 5094 3.637273 GTTGGCCACCGTCCCTCT 61.637 66.667 3.88 0.00 0.00 3.69
2555 5095 2.852075 TTGGCCACCGTCCCTCTT 60.852 61.111 3.88 0.00 0.00 2.85
2556 5096 1.536907 TTGGCCACCGTCCCTCTTA 60.537 57.895 3.88 0.00 0.00 2.10
2587 5127 3.628646 ATGAACACCTCCGGCAGCC 62.629 63.158 0.00 0.00 0.00 4.85
2600 5140 4.106925 CAGCCCCTCTCCTGCACC 62.107 72.222 0.00 0.00 0.00 5.01
2603 5143 4.748798 CCCCTCTCCTGCACCCCT 62.749 72.222 0.00 0.00 0.00 4.79
2604 5144 3.406200 CCCTCTCCTGCACCCCTG 61.406 72.222 0.00 0.00 0.00 4.45
2605 5145 3.406200 CCTCTCCTGCACCCCTGG 61.406 72.222 0.00 0.00 0.00 4.45
2606 5146 2.608988 CTCTCCTGCACCCCTGGT 60.609 66.667 0.00 0.00 35.62 4.00
2607 5147 2.121963 TCTCCTGCACCCCTGGTT 60.122 61.111 0.00 0.00 31.02 3.67
2608 5148 0.909610 CTCTCCTGCACCCCTGGTTA 60.910 60.000 0.00 0.00 31.02 2.85
2609 5149 0.474854 TCTCCTGCACCCCTGGTTAA 60.475 55.000 0.00 0.00 31.02 2.01
2610 5150 0.035056 CTCCTGCACCCCTGGTTAAG 60.035 60.000 0.00 0.00 31.02 1.85
2611 5151 0.770557 TCCTGCACCCCTGGTTAAGT 60.771 55.000 0.00 0.00 31.02 2.24
2612 5152 0.112412 CCTGCACCCCTGGTTAAGTT 59.888 55.000 0.00 0.00 31.02 2.66
2613 5153 1.480498 CCTGCACCCCTGGTTAAGTTT 60.480 52.381 0.00 0.00 31.02 2.66
2614 5154 1.886542 CTGCACCCCTGGTTAAGTTTC 59.113 52.381 0.00 0.00 31.02 2.78
2615 5155 0.879090 GCACCCCTGGTTAAGTTTCG 59.121 55.000 0.00 0.00 31.02 3.46
2616 5156 1.530323 CACCCCTGGTTAAGTTTCGG 58.470 55.000 0.00 0.00 31.02 4.30
2617 5157 1.072648 CACCCCTGGTTAAGTTTCGGA 59.927 52.381 0.00 0.00 31.02 4.55
2618 5158 1.072806 ACCCCTGGTTAAGTTTCGGAC 59.927 52.381 0.00 0.00 27.29 4.79
2619 5159 1.350019 CCCCTGGTTAAGTTTCGGACT 59.650 52.381 0.00 0.00 41.47 3.85
2620 5160 2.614734 CCCCTGGTTAAGTTTCGGACTC 60.615 54.545 0.00 0.00 37.72 3.36
2621 5161 2.334838 CCTGGTTAAGTTTCGGACTCG 58.665 52.381 0.00 0.00 37.72 4.18
2622 5162 1.725164 CTGGTTAAGTTTCGGACTCGC 59.275 52.381 0.00 0.00 37.72 5.03
2623 5163 1.073964 GGTTAAGTTTCGGACTCGCC 58.926 55.000 0.00 0.00 37.72 5.54
2624 5164 1.606224 GGTTAAGTTTCGGACTCGCCA 60.606 52.381 0.00 0.00 37.72 5.69
2625 5165 2.344025 GTTAAGTTTCGGACTCGCCAT 58.656 47.619 0.00 0.00 37.72 4.40
2626 5166 2.740447 GTTAAGTTTCGGACTCGCCATT 59.260 45.455 0.00 0.00 37.72 3.16
2627 5167 1.156736 AAGTTTCGGACTCGCCATTG 58.843 50.000 0.00 0.00 37.72 2.82
2628 5168 1.134694 GTTTCGGACTCGCCATTGC 59.865 57.895 0.00 0.00 35.94 3.56
2629 5169 2.038269 TTTCGGACTCGCCATTGCC 61.038 57.895 0.00 0.00 35.94 4.52
2630 5170 4.812476 TCGGACTCGCCATTGCCG 62.812 66.667 0.00 0.00 43.11 5.69
2639 5179 4.431131 CCATTGCCGGCTCCCACT 62.431 66.667 29.70 0.00 0.00 4.00
2640 5180 2.825836 CATTGCCGGCTCCCACTC 60.826 66.667 29.70 0.00 0.00 3.51
2641 5181 4.473520 ATTGCCGGCTCCCACTCG 62.474 66.667 29.70 0.00 0.00 4.18
2676 5216 4.767255 CTGTGGCCGGTGCTCCTC 62.767 72.222 1.90 0.00 37.74 3.71
2678 5218 4.101448 GTGGCCGGTGCTCCTCAT 62.101 66.667 1.90 0.00 37.74 2.90
2679 5219 4.100084 TGGCCGGTGCTCCTCATG 62.100 66.667 1.90 0.00 37.74 3.07
2681 5221 4.479993 GCCGGTGCTCCTCATGCT 62.480 66.667 1.90 0.00 33.53 3.79
2682 5222 2.513204 CCGGTGCTCCTCATGCTG 60.513 66.667 2.85 0.00 0.00 4.41
2683 5223 2.267006 CGGTGCTCCTCATGCTGT 59.733 61.111 2.85 0.00 0.00 4.40
2684 5224 1.812922 CGGTGCTCCTCATGCTGTC 60.813 63.158 2.85 0.00 0.00 3.51
2685 5225 1.451028 GGTGCTCCTCATGCTGTCC 60.451 63.158 0.00 0.00 0.00 4.02
2686 5226 1.451028 GTGCTCCTCATGCTGTCCC 60.451 63.158 0.00 0.00 0.00 4.46
2687 5227 2.202987 GCTCCTCATGCTGTCCCG 60.203 66.667 0.00 0.00 0.00 5.14
2688 5228 2.202987 CTCCTCATGCTGTCCCGC 60.203 66.667 0.00 0.00 0.00 6.13
2689 5229 3.746949 CTCCTCATGCTGTCCCGCC 62.747 68.421 0.00 0.00 0.00 6.13
2690 5230 3.790437 CCTCATGCTGTCCCGCCT 61.790 66.667 0.00 0.00 0.00 5.52
2691 5231 2.270205 CTCATGCTGTCCCGCCTT 59.730 61.111 0.00 0.00 0.00 4.35
2692 5232 1.817099 CTCATGCTGTCCCGCCTTC 60.817 63.158 0.00 0.00 0.00 3.46
2693 5233 2.046023 CATGCTGTCCCGCCTTCA 60.046 61.111 0.00 0.00 0.00 3.02
2694 5234 2.110967 CATGCTGTCCCGCCTTCAG 61.111 63.158 0.00 0.00 0.00 3.02
2697 5237 2.348998 CTGTCCCGCCTTCAGCTT 59.651 61.111 0.00 0.00 40.39 3.74
2698 5238 1.743252 CTGTCCCGCCTTCAGCTTC 60.743 63.158 0.00 0.00 40.39 3.86
2699 5239 2.815647 GTCCCGCCTTCAGCTTCG 60.816 66.667 0.00 0.00 40.39 3.79
2700 5240 4.760047 TCCCGCCTTCAGCTTCGC 62.760 66.667 0.00 0.00 40.39 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.317406 ACCCATCCAGAAAAGCCTTTTT 58.683 40.909 3.56 0.00 39.16 1.94
7 8 0.035056 CGACCCATCCAGAAAAGCCT 60.035 55.000 0.00 0.00 0.00 4.58
60 61 1.752084 GCCTTATGCAAAGAGAGGGGG 60.752 57.143 9.37 0.00 40.77 5.40
171 183 0.393673 TGCGGTGAGAGGAGAGAGAG 60.394 60.000 0.00 0.00 0.00 3.20
224 243 0.039527 GTGGTTACCTTTTGCTGGCG 60.040 55.000 2.07 0.00 0.00 5.69
247 267 3.373329 GGATTTAATCGGGGAGGGGAAAA 60.373 47.826 0.00 0.00 0.00 2.29
418 446 2.349886 GCGAAATCAAGAACAGATCGCT 59.650 45.455 9.69 0.00 36.44 4.93
424 452 2.096909 ACGAACGCGAAATCAAGAACAG 60.097 45.455 15.93 0.00 41.64 3.16
431 459 0.781787 CAGACACGAACGCGAAATCA 59.218 50.000 15.93 0.00 41.64 2.57
447 475 2.363018 CCCCGACTCCTCAGCAGA 60.363 66.667 0.00 0.00 0.00 4.26
468 496 1.517257 CCGACACAGATCGCCTCAC 60.517 63.158 0.00 0.00 40.87 3.51
499 527 1.617947 ATTCCCGAGAGCCTGACCAC 61.618 60.000 0.00 0.00 0.00 4.16
512 540 6.699575 AATCACCAAGATAAGAAATTCCCG 57.300 37.500 0.00 0.00 35.39 5.14
594 626 8.753175 CAATTTAAGCTATACACGGAGTTCTAC 58.247 37.037 0.00 0.00 41.61 2.59
606 638 6.001725 CGAATCGCGTCAATTTAAGCTATAC 58.998 40.000 5.77 0.00 34.64 1.47
639 671 0.317479 AACGAGACCAAGTTCTCCCG 59.683 55.000 0.00 0.00 39.18 5.14
660 692 2.366640 TCGAAACATTTCCCCACCAA 57.633 45.000 0.00 0.00 33.68 3.67
664 696 0.808125 CGCATCGAAACATTTCCCCA 59.192 50.000 0.00 0.00 33.68 4.96
717 749 3.777465 TGAAACTCTCCGAGGATTACG 57.223 47.619 0.00 0.00 33.35 3.18
753 786 2.313749 ATCTACAGACCTCCCGGGGG 62.314 65.000 23.50 19.89 40.03 5.40
754 787 0.828343 GATCTACAGACCTCCCGGGG 60.828 65.000 23.50 6.77 40.03 5.73
757 790 2.060050 ACAGATCTACAGACCTCCCG 57.940 55.000 0.00 0.00 0.00 5.14
816 857 1.675641 GCAAATCAGGCACCCTCGT 60.676 57.895 0.00 0.00 0.00 4.18
824 875 2.019984 CAGGACCTAAGCAAATCAGGC 58.980 52.381 0.00 0.00 32.31 4.85
885 942 5.820423 CCATCACATGCCATTCATTGAATTT 59.180 36.000 9.19 0.00 31.79 1.82
886 943 5.129650 TCCATCACATGCCATTCATTGAATT 59.870 36.000 9.19 0.00 31.79 2.17
890 947 4.600692 ATCCATCACATGCCATTCATTG 57.399 40.909 0.00 0.00 31.79 2.82
892 949 5.778241 ACAATATCCATCACATGCCATTCAT 59.222 36.000 0.00 0.00 35.31 2.57
921 978 0.376152 CTTATGTGGAAGCTGCGCAG 59.624 55.000 32.83 32.83 30.22 5.18
924 981 1.009829 GTCCTTATGTGGAAGCTGCG 58.990 55.000 0.00 0.00 37.93 5.18
940 997 6.004574 AGATTAAGGTTTCTCTTGTTGGTCC 58.995 40.000 0.00 0.00 0.00 4.46
942 999 6.365520 ACAGATTAAGGTTTCTCTTGTTGGT 58.634 36.000 0.00 0.00 0.00 3.67
968 1025 0.817634 TTGAGGTTTGACTGGCACCG 60.818 55.000 0.00 0.00 35.54 4.94
1050 1111 1.216122 GAGAAGCGAGACATGGATGC 58.784 55.000 0.00 0.00 0.00 3.91
1062 1123 8.792831 ATTTAGCATTTATTTCATGAGAAGCG 57.207 30.769 0.00 0.00 34.71 4.68
1112 1175 8.311650 TGAGAAGCTCAAAGTGACTAAATTAC 57.688 34.615 0.00 0.00 37.57 1.89
1144 1207 9.614792 GTTTAGGATAATCAGGTGACTACAATT 57.385 33.333 0.00 0.00 40.21 2.32
1146 1209 8.141298 TGTTTAGGATAATCAGGTGACTACAA 57.859 34.615 0.00 0.00 40.21 2.41
1211 1306 4.801330 AGGTCACGATGAGTAACATGAA 57.199 40.909 0.00 0.00 39.56 2.57
1219 1314 2.832129 ACATACCAAGGTCACGATGAGT 59.168 45.455 6.71 0.00 0.00 3.41
1234 1329 5.768662 TGTAGGTAGAGCTCATGTACATACC 59.231 44.000 22.90 19.39 41.64 2.73
1252 1347 5.189736 ACACCATATCAGACAACATGTAGGT 59.810 40.000 0.00 0.00 0.00 3.08
1263 1358 3.243569 CGGAGGAAGACACCATATCAGAC 60.244 52.174 0.00 0.00 0.00 3.51
1269 1364 3.657398 TCTACGGAGGAAGACACCATA 57.343 47.619 0.00 0.00 0.00 2.74
1283 1378 2.555199 CCTCAGCAAAAGGATCTACGG 58.445 52.381 0.00 0.00 35.83 4.02
1284 1379 1.936547 GCCTCAGCAAAAGGATCTACG 59.063 52.381 3.44 0.00 39.53 3.51
1533 1634 2.434336 AGTATAACAGCATCAGGCCGAA 59.566 45.455 0.00 0.00 46.50 4.30
1536 1644 3.134458 GTCAGTATAACAGCATCAGGCC 58.866 50.000 0.00 0.00 46.50 5.19
1545 1653 7.220030 AGGGCAAATCATAGTCAGTATAACAG 58.780 38.462 0.00 0.00 0.00 3.16
1548 1656 7.445121 CAGAGGGCAAATCATAGTCAGTATAA 58.555 38.462 0.00 0.00 0.00 0.98
1569 1677 2.008329 GAAGCTGAATGACCTGCAGAG 58.992 52.381 17.39 8.04 34.07 3.35
1634 1744 2.593257 GTCTTGTTAGACGTCGGAAGG 58.407 52.381 10.46 0.75 41.28 3.46
1643 1755 5.668558 AAATGGTGTTCGTCTTGTTAGAC 57.331 39.130 0.00 0.00 46.01 2.59
1654 1766 6.421377 TGACAGAATGATAAATGGTGTTCG 57.579 37.500 0.00 0.00 39.69 3.95
1679 1792 6.032956 TGGTATAATCAGTCACAAGAACGT 57.967 37.500 0.00 0.00 0.00 3.99
1680 1793 6.201044 GGATGGTATAATCAGTCACAAGAACG 59.799 42.308 0.00 0.00 0.00 3.95
1681 1794 7.275920 AGGATGGTATAATCAGTCACAAGAAC 58.724 38.462 0.00 0.00 0.00 3.01
1685 1798 7.770433 CAGAAAGGATGGTATAATCAGTCACAA 59.230 37.037 0.00 0.00 0.00 3.33
1696 1809 7.309744 CCTTTGCAAAACAGAAAGGATGGTATA 60.310 37.037 13.84 0.00 45.93 1.47
1700 1813 4.060205 CCTTTGCAAAACAGAAAGGATGG 58.940 43.478 13.84 2.40 45.93 3.51
1702 1815 3.389002 AGCCTTTGCAAAACAGAAAGGAT 59.611 39.130 13.84 4.60 45.93 3.24
1770 1883 1.876416 GCATTTATCGGAGGCGGCTAA 60.876 52.381 13.24 0.82 0.00 3.09
1771 1884 0.320421 GCATTTATCGGAGGCGGCTA 60.320 55.000 13.24 0.00 0.00 3.93
1912 2028 6.126768 ACAAACCATACTGATATGCTGGTACT 60.127 38.462 0.00 0.00 39.24 2.73
1966 2083 2.434336 AGAGCCATAGCCAAACGATACA 59.566 45.455 0.00 0.00 41.25 2.29
2018 2136 1.410737 AAACATCCACGATCGCGACG 61.411 55.000 23.00 23.00 41.64 5.12
2023 2141 4.404507 AGAAAACAAACATCCACGATCG 57.595 40.909 14.88 14.88 0.00 3.69
2042 2163 1.895798 AGGCTCATCAGACGAACAAGA 59.104 47.619 0.00 0.00 29.68 3.02
2043 2164 2.376808 AGGCTCATCAGACGAACAAG 57.623 50.000 0.00 0.00 29.68 3.16
2115 2236 5.235516 ACTAAGGATTCGACAAAACGATGT 58.764 37.500 0.00 0.00 41.82 3.06
2117 2238 4.561606 CGACTAAGGATTCGACAAAACGAT 59.438 41.667 0.00 0.00 41.82 3.73
2119 2240 3.060363 CCGACTAAGGATTCGACAAAACG 59.940 47.826 0.00 0.00 37.43 3.60
2129 2250 2.694109 GACCTACTGCCGACTAAGGATT 59.306 50.000 0.00 0.00 0.00 3.01
2134 2255 0.961857 TGCGACCTACTGCCGACTAA 60.962 55.000 0.00 0.00 0.00 2.24
2159 2306 1.133407 GTGGTCTCAGATGACTCGTCC 59.867 57.143 0.00 0.00 37.16 4.79
2211 2358 2.029649 TGGTTAACTACAGTGTCGAGCC 60.030 50.000 0.00 0.00 0.00 4.70
2249 2396 2.649531 ACGTTTGGAATCTGGGAACA 57.350 45.000 0.00 0.00 39.59 3.18
2250 2397 5.182380 TGATTAACGTTTGGAATCTGGGAAC 59.818 40.000 18.34 0.00 32.01 3.62
2251 2398 5.317808 TGATTAACGTTTGGAATCTGGGAA 58.682 37.500 18.34 0.17 32.01 3.97
2252 2399 4.912586 TGATTAACGTTTGGAATCTGGGA 58.087 39.130 18.34 1.57 32.01 4.37
2253 2400 5.590259 AGATGATTAACGTTTGGAATCTGGG 59.410 40.000 18.34 0.00 32.01 4.45
2296 2444 3.181490 TGACTTCGCATTGACTATACGCT 60.181 43.478 0.00 0.00 0.00 5.07
2297 2445 3.061139 GTGACTTCGCATTGACTATACGC 60.061 47.826 0.00 0.00 0.00 4.42
2308 2456 1.899437 ATGACCCCGTGACTTCGCAT 61.899 55.000 0.00 0.00 0.00 4.73
2312 2460 2.100989 AGTAGATGACCCCGTGACTTC 58.899 52.381 0.00 0.00 0.00 3.01
2356 4894 5.068234 ACTGACATGCATCATTTTTCAGG 57.932 39.130 0.00 0.00 31.90 3.86
2360 4898 5.717078 AGTGACTGACATGCATCATTTTT 57.283 34.783 0.00 0.00 0.00 1.94
2362 4900 5.008331 AGAAGTGACTGACATGCATCATTT 58.992 37.500 0.00 0.00 0.00 2.32
2365 4903 3.260128 AGAGAAGTGACTGACATGCATCA 59.740 43.478 0.00 0.00 0.00 3.07
2369 4907 4.152045 CAGAAAGAGAAGTGACTGACATGC 59.848 45.833 0.00 0.00 0.00 4.06
2371 4909 4.346418 ACCAGAAAGAGAAGTGACTGACAT 59.654 41.667 0.00 0.00 0.00 3.06
2372 4910 3.706594 ACCAGAAAGAGAAGTGACTGACA 59.293 43.478 0.00 0.00 0.00 3.58
2392 4930 6.294473 ACAGTTGGATATTGATCTGATGACC 58.706 40.000 0.00 0.00 32.15 4.02
2403 4941 3.624861 GTGCTCCTGACAGTTGGATATTG 59.375 47.826 0.93 0.00 0.00 1.90
2405 4943 2.159043 CGTGCTCCTGACAGTTGGATAT 60.159 50.000 0.93 0.00 0.00 1.63
2406 4944 1.204704 CGTGCTCCTGACAGTTGGATA 59.795 52.381 0.93 0.00 0.00 2.59
2407 4945 0.036952 CGTGCTCCTGACAGTTGGAT 60.037 55.000 0.93 0.00 0.00 3.41
2408 4946 1.367471 CGTGCTCCTGACAGTTGGA 59.633 57.895 0.93 0.00 0.00 3.53
2409 4947 2.320587 GCGTGCTCCTGACAGTTGG 61.321 63.158 0.93 0.00 0.00 3.77
2410 4948 2.320587 GGCGTGCTCCTGACAGTTG 61.321 63.158 0.93 0.00 0.00 3.16
2411 4949 2.031163 GGCGTGCTCCTGACAGTT 59.969 61.111 0.93 0.00 0.00 3.16
2429 4969 3.876320 GAGGAAGAAGATGAACAGATGGC 59.124 47.826 0.00 0.00 0.00 4.40
2474 5014 0.263765 TAGGTAGGCCACAGGGTAGG 59.736 60.000 5.01 0.00 37.19 3.18
2475 5015 2.400467 ATAGGTAGGCCACAGGGTAG 57.600 55.000 5.01 0.00 37.19 3.18
2476 5016 2.492196 GCTATAGGTAGGCCACAGGGTA 60.492 54.545 5.01 0.00 37.19 3.69
2487 5027 7.070074 CAGGTAGGGAATTATGGCTATAGGTAG 59.930 44.444 1.04 0.00 0.00 3.18
2488 5028 6.901300 CAGGTAGGGAATTATGGCTATAGGTA 59.099 42.308 1.04 0.00 0.00 3.08
2489 5029 5.726793 CAGGTAGGGAATTATGGCTATAGGT 59.273 44.000 1.04 0.00 0.00 3.08
2490 5030 5.396884 GCAGGTAGGGAATTATGGCTATAGG 60.397 48.000 1.04 0.00 0.00 2.57
2491 5031 5.396884 GGCAGGTAGGGAATTATGGCTATAG 60.397 48.000 0.00 0.00 0.00 1.31
2492 5032 4.473559 GGCAGGTAGGGAATTATGGCTATA 59.526 45.833 0.00 0.00 0.00 1.31
2493 5033 3.267031 GGCAGGTAGGGAATTATGGCTAT 59.733 47.826 0.00 0.00 0.00 2.97
2494 5034 2.642807 GGCAGGTAGGGAATTATGGCTA 59.357 50.000 0.00 0.00 0.00 3.93
2496 5036 1.882352 CGGCAGGTAGGGAATTATGGC 60.882 57.143 0.00 0.00 0.00 4.40
2497 5037 1.882352 GCGGCAGGTAGGGAATTATGG 60.882 57.143 0.00 0.00 0.00 2.74
2498 5038 1.523758 GCGGCAGGTAGGGAATTATG 58.476 55.000 0.00 0.00 0.00 1.90
2499 5039 0.400594 GGCGGCAGGTAGGGAATTAT 59.599 55.000 3.07 0.00 0.00 1.28
2500 5040 1.702022 GGGCGGCAGGTAGGGAATTA 61.702 60.000 12.47 0.00 0.00 1.40
2502 5042 3.489513 GGGCGGCAGGTAGGGAAT 61.490 66.667 12.47 0.00 0.00 3.01
2520 5060 4.275508 CATGGCGATGGGGGAGGG 62.276 72.222 0.00 0.00 0.00 4.30
2538 5078 1.128809 TTAAGAGGGACGGTGGCCAA 61.129 55.000 7.24 0.00 0.00 4.52
2539 5079 1.536907 TTAAGAGGGACGGTGGCCA 60.537 57.895 0.00 0.00 0.00 5.36
2540 5080 1.221021 CTTAAGAGGGACGGTGGCC 59.779 63.158 0.00 0.00 0.00 5.36
2541 5081 1.449778 GCTTAAGAGGGACGGTGGC 60.450 63.158 6.67 0.00 0.00 5.01
2542 5082 0.541863 ATGCTTAAGAGGGACGGTGG 59.458 55.000 6.67 0.00 0.00 4.61
2543 5083 1.802880 CGATGCTTAAGAGGGACGGTG 60.803 57.143 6.67 0.00 0.00 4.94
2544 5084 0.460311 CGATGCTTAAGAGGGACGGT 59.540 55.000 6.67 0.00 0.00 4.83
2545 5085 0.876342 GCGATGCTTAAGAGGGACGG 60.876 60.000 6.67 0.00 0.00 4.79
2546 5086 0.876342 GGCGATGCTTAAGAGGGACG 60.876 60.000 6.67 5.29 0.00 4.79
2547 5087 0.533085 GGGCGATGCTTAAGAGGGAC 60.533 60.000 6.67 0.00 0.00 4.46
2548 5088 0.980754 TGGGCGATGCTTAAGAGGGA 60.981 55.000 6.67 0.00 0.00 4.20
2549 5089 0.533755 CTGGGCGATGCTTAAGAGGG 60.534 60.000 6.67 0.00 0.00 4.30
2550 5090 0.465705 TCTGGGCGATGCTTAAGAGG 59.534 55.000 6.67 0.00 0.00 3.69
2551 5091 2.141517 CATCTGGGCGATGCTTAAGAG 58.858 52.381 6.67 0.00 42.75 2.85
2552 5092 2.245159 CATCTGGGCGATGCTTAAGA 57.755 50.000 6.67 0.00 42.75 2.10
2587 5127 3.406200 CAGGGGTGCAGGAGAGGG 61.406 72.222 0.00 0.00 0.00 4.30
2588 5128 3.406200 CCAGGGGTGCAGGAGAGG 61.406 72.222 0.00 0.00 0.00 3.69
2589 5129 0.909610 TAACCAGGGGTGCAGGAGAG 60.910 60.000 0.00 0.00 35.34 3.20
2590 5130 0.474854 TTAACCAGGGGTGCAGGAGA 60.475 55.000 0.00 0.00 35.34 3.71
2591 5131 0.035056 CTTAACCAGGGGTGCAGGAG 60.035 60.000 0.00 0.00 35.34 3.69
2592 5132 0.770557 ACTTAACCAGGGGTGCAGGA 60.771 55.000 0.00 0.00 35.34 3.86
2593 5133 0.112412 AACTTAACCAGGGGTGCAGG 59.888 55.000 0.00 0.00 35.34 4.85
2594 5134 1.886542 GAAACTTAACCAGGGGTGCAG 59.113 52.381 0.00 0.00 35.34 4.41
2595 5135 1.816183 CGAAACTTAACCAGGGGTGCA 60.816 52.381 0.00 0.00 35.34 4.57
2596 5136 0.879090 CGAAACTTAACCAGGGGTGC 59.121 55.000 0.00 0.00 35.34 5.01
2597 5137 1.072648 TCCGAAACTTAACCAGGGGTG 59.927 52.381 0.00 0.00 35.34 4.61
2598 5138 1.072806 GTCCGAAACTTAACCAGGGGT 59.927 52.381 0.00 0.00 37.65 4.95
2599 5139 1.350019 AGTCCGAAACTTAACCAGGGG 59.650 52.381 0.00 0.00 33.03 4.79
2600 5140 2.696506 GAGTCCGAAACTTAACCAGGG 58.303 52.381 0.00 0.00 38.74 4.45
2601 5141 2.334838 CGAGTCCGAAACTTAACCAGG 58.665 52.381 0.00 0.00 38.74 4.45
2602 5142 1.725164 GCGAGTCCGAAACTTAACCAG 59.275 52.381 0.00 0.00 38.74 4.00
2603 5143 1.606224 GGCGAGTCCGAAACTTAACCA 60.606 52.381 0.00 0.00 38.74 3.67
2604 5144 1.073964 GGCGAGTCCGAAACTTAACC 58.926 55.000 0.00 0.00 38.74 2.85
2605 5145 1.787012 TGGCGAGTCCGAAACTTAAC 58.213 50.000 0.00 0.00 38.74 2.01
2606 5146 2.739913 CAATGGCGAGTCCGAAACTTAA 59.260 45.455 0.00 0.00 38.74 1.85
2607 5147 2.343101 CAATGGCGAGTCCGAAACTTA 58.657 47.619 0.00 0.00 38.74 2.24
2608 5148 1.156736 CAATGGCGAGTCCGAAACTT 58.843 50.000 0.00 0.00 38.74 2.66
2609 5149 1.298859 GCAATGGCGAGTCCGAAACT 61.299 55.000 0.00 0.00 42.42 2.66
2610 5150 1.134694 GCAATGGCGAGTCCGAAAC 59.865 57.895 0.00 0.00 38.22 2.78
2611 5151 2.038269 GGCAATGGCGAGTCCGAAA 61.038 57.895 0.00 0.00 42.47 3.46
2612 5152 2.435938 GGCAATGGCGAGTCCGAA 60.436 61.111 0.00 0.00 42.47 4.30
2622 5162 4.431131 AGTGGGAGCCGGCAATGG 62.431 66.667 31.54 0.00 0.00 3.16
2623 5163 2.825836 GAGTGGGAGCCGGCAATG 60.826 66.667 31.54 0.00 0.00 2.82
2624 5164 4.473520 CGAGTGGGAGCCGGCAAT 62.474 66.667 31.54 9.09 0.00 3.56
2659 5199 4.767255 GAGGAGCACCGGCCACAG 62.767 72.222 0.00 0.00 42.56 3.66
2661 5201 4.101448 ATGAGGAGCACCGGCCAC 62.101 66.667 0.00 0.00 42.56 5.01
2662 5202 4.100084 CATGAGGAGCACCGGCCA 62.100 66.667 0.00 0.00 42.56 5.36
2664 5204 4.479993 AGCATGAGGAGCACCGGC 62.480 66.667 0.00 0.00 41.83 6.13
2665 5205 2.513204 CAGCATGAGGAGCACCGG 60.513 66.667 0.00 0.00 39.69 5.28
2666 5206 1.812922 GACAGCATGAGGAGCACCG 60.813 63.158 0.00 0.00 39.69 4.94
2667 5207 1.451028 GGACAGCATGAGGAGCACC 60.451 63.158 0.00 0.00 39.69 5.01
2668 5208 1.451028 GGGACAGCATGAGGAGCAC 60.451 63.158 0.00 0.00 39.69 4.40
2669 5209 2.993008 GGGACAGCATGAGGAGCA 59.007 61.111 0.00 0.00 39.69 4.26
2670 5210 2.202987 CGGGACAGCATGAGGAGC 60.203 66.667 0.00 0.00 39.69 4.70
2671 5211 2.202987 GCGGGACAGCATGAGGAG 60.203 66.667 0.00 0.00 39.69 3.69
2672 5212 3.785859 GGCGGGACAGCATGAGGA 61.786 66.667 0.00 0.00 39.69 3.71
2673 5213 3.335356 AAGGCGGGACAGCATGAGG 62.335 63.158 0.00 0.00 39.69 3.86
2674 5214 1.817099 GAAGGCGGGACAGCATGAG 60.817 63.158 0.00 0.00 39.69 2.90
2675 5215 2.268920 GAAGGCGGGACAGCATGA 59.731 61.111 0.00 0.00 39.69 3.07
2676 5216 2.046023 TGAAGGCGGGACAGCATG 60.046 61.111 0.00 0.00 46.00 4.06
2677 5217 2.270205 CTGAAGGCGGGACAGCAT 59.730 61.111 0.00 0.00 39.27 3.79
2695 5235 1.568612 TTCTCTGCCAAAGCGCGAAG 61.569 55.000 12.10 0.00 44.31 3.79
2696 5236 1.163420 TTTCTCTGCCAAAGCGCGAA 61.163 50.000 12.10 0.00 44.31 4.70
2697 5237 1.163420 TTTTCTCTGCCAAAGCGCGA 61.163 50.000 12.10 0.00 44.31 5.87
2698 5238 0.998727 GTTTTCTCTGCCAAAGCGCG 60.999 55.000 0.00 0.00 44.31 6.86
2699 5239 0.312102 AGTTTTCTCTGCCAAAGCGC 59.688 50.000 0.00 0.00 44.31 5.92
2700 5240 1.603802 TCAGTTTTCTCTGCCAAAGCG 59.396 47.619 0.00 0.00 44.31 4.68
2701 5241 2.620585 AGTCAGTTTTCTCTGCCAAAGC 59.379 45.455 0.00 0.00 40.48 3.51
2702 5242 3.879295 TCAGTCAGTTTTCTCTGCCAAAG 59.121 43.478 0.00 0.00 35.63 2.77


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

AutoCloner maintained by Alex Coulton.