Multiple sequence alignment - TraesCS3A01G483800

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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 TraesCS3A01G483800 chr3A 100.000 3926 0 0 1 3926 713933208 713929283 0.000000e+00 7251
1 TraesCS3A01G483800 chr3A 86.131 959 123 4 1955 2913 713869068 713868120 0.000000e+00 1026
2 TraesCS3A01G483800 chr3A 84.394 974 136 9 1943 2913 713850236 713849276 0.000000e+00 942
3 TraesCS3A01G483800 chr3A 77.389 942 177 27 1969 2901 713535484 713534570 9.660000e-146 527
4 TraesCS3A01G483800 chr3A 75.539 928 187 27 1971 2884 712552972 712553873 1.690000e-113 420
5 TraesCS3A01G483800 chr3D 90.759 2121 146 18 1816 3926 578260521 578258441 0.000000e+00 2785
6 TraesCS3A01G483800 chr3D 85.917 987 125 9 1931 2913 578243620 578242644 0.000000e+00 1040
7 TraesCS3A01G483800 chr3D 87.769 744 62 10 814 1530 578262194 578261453 0.000000e+00 843
8 TraesCS3A01G483800 chr3D 89.919 615 61 1 57 671 578263020 578262407 0.000000e+00 791
9 TraesCS3A01G483800 chr3D 87.206 680 60 11 1176 1838 578261218 578260549 0.000000e+00 749
10 TraesCS3A01G483800 chr3D 76.833 941 179 24 1985 2913 579429346 579430259 9.800000e-136 494
11 TraesCS3A01G483800 chr3D 97.541 122 3 0 671 792 578262376 578262255 3.980000e-50 209
12 TraesCS3A01G483800 chr3D 84.242 165 9 7 1587 1740 578261429 578261271 1.140000e-30 145
13 TraesCS3A01G483800 chr3B 93.579 1277 59 9 1877 3151 771559120 771557865 0.000000e+00 1882
14 TraesCS3A01G483800 chr3B 85.614 994 129 8 1937 2926 771533517 771532534 0.000000e+00 1031
15 TraesCS3A01G483800 chr3B 84.592 662 66 14 817 1458 771560350 771559705 3.330000e-175 625
16 TraesCS3A01G483800 chr3B 87.887 388 42 3 284 671 771561284 771560902 5.980000e-123 451
17 TraesCS3A01G483800 chr3B 85.882 255 29 5 6 254 771561532 771561279 8.360000e-67 265
18 TraesCS3A01G483800 chr3B 92.308 143 11 0 674 816 771560544 771560402 1.850000e-48 204
19 TraesCS3A01G483800 chr1D 79.181 562 107 8 2353 2910 96399578 96399023 7.960000e-102 381


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 TraesCS3A01G483800 chr3A 713929283 713933208 3925 True 7251.000000 7251 100.000000 1 3926 1 chr3A.!!$R4 3925
1 TraesCS3A01G483800 chr3A 713868120 713869068 948 True 1026.000000 1026 86.131000 1955 2913 1 chr3A.!!$R3 958
2 TraesCS3A01G483800 chr3A 713849276 713850236 960 True 942.000000 942 84.394000 1943 2913 1 chr3A.!!$R2 970
3 TraesCS3A01G483800 chr3A 713534570 713535484 914 True 527.000000 527 77.389000 1969 2901 1 chr3A.!!$R1 932
4 TraesCS3A01G483800 chr3A 712552972 712553873 901 False 420.000000 420 75.539000 1971 2884 1 chr3A.!!$F1 913
5 TraesCS3A01G483800 chr3D 578242644 578243620 976 True 1040.000000 1040 85.917000 1931 2913 1 chr3D.!!$R1 982
6 TraesCS3A01G483800 chr3D 578258441 578263020 4579 True 920.333333 2785 89.572667 57 3926 6 chr3D.!!$R2 3869
7 TraesCS3A01G483800 chr3D 579429346 579430259 913 False 494.000000 494 76.833000 1985 2913 1 chr3D.!!$F1 928
8 TraesCS3A01G483800 chr3B 771532534 771533517 983 True 1031.000000 1031 85.614000 1937 2926 1 chr3B.!!$R1 989
9 TraesCS3A01G483800 chr3B 771557865 771561532 3667 True 685.400000 1882 88.849600 6 3151 5 chr3B.!!$R2 3145
10 TraesCS3A01G483800 chr1D 96399023 96399578 555 True 381.000000 381 79.181000 2353 2910 1 chr1D.!!$R1 557

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
412 419 0.250727 TGCGGGAGAAAAGGAACTGG 60.251 55.0 0.0 0.0 40.86 4.00 F
1005 1444 0.616395 TAGGGTTCGACAGGATGCCA 60.616 55.0 0.0 0.0 42.53 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1263 1710 2.037385 ATCTATCAGAGAAGGGGCCC 57.963 55.0 17.12 17.12 37.85 5.80 R
3000 4328 0.873721 CCACACACACGCATCAATCA 59.126 50.0 0.00 0.00 0.00 2.57 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
38 39 3.491652 GCGAAGGCCGAAGCTCAC 61.492 66.667 11.26 0.00 41.76 3.51
42 43 3.612247 AAGGCCGAAGCTCACGCAT 62.612 57.895 0.00 0.00 39.73 4.73
46 47 1.911293 GCCGAAGCTCACGCATGAAA 61.911 55.000 0.00 0.00 39.10 2.69
54 55 2.625737 CTCACGCATGAAAGACATCCT 58.374 47.619 0.00 0.00 37.07 3.24
59 60 2.738643 CGCATGAAAGACATCCTACCGT 60.739 50.000 0.00 0.00 37.07 4.83
80 82 1.825191 CCCAACCATGCCCAGATCG 60.825 63.158 0.00 0.00 0.00 3.69
81 83 1.224315 CCAACCATGCCCAGATCGA 59.776 57.895 0.00 0.00 0.00 3.59
142 145 0.745845 GCGTGTCTCCATGCCAATCT 60.746 55.000 0.00 0.00 45.96 2.40
150 153 4.039730 GTCTCCATGCCAATCTTCTAGCTA 59.960 45.833 0.00 0.00 0.00 3.32
157 164 1.069204 CAATCTTCTAGCTAGCCGCCA 59.931 52.381 16.35 0.00 40.39 5.69
350 357 2.115291 GGCCATCACCCTTCGCTTC 61.115 63.158 0.00 0.00 0.00 3.86
371 378 4.598894 CCCTCCGCCATGAGCTCG 62.599 72.222 9.64 0.00 40.39 5.03
372 379 3.842923 CCTCCGCCATGAGCTCGT 61.843 66.667 9.64 5.78 40.39 4.18
393 400 0.254178 AACTCATTGAGGATGCCGCT 59.746 50.000 17.66 0.00 35.64 5.52
412 419 0.250727 TGCGGGAGAAAAGGAACTGG 60.251 55.000 0.00 0.00 40.86 4.00
417 424 0.960861 GAGAAAAGGAACTGGCCCCG 60.961 60.000 0.00 0.00 40.86 5.73
418 425 1.228459 GAAAAGGAACTGGCCCCGT 60.228 57.895 0.00 0.00 40.86 5.28
488 495 4.026357 GGAGGAGGAGGGTGGGGT 62.026 72.222 0.00 0.00 0.00 4.95
491 498 1.072143 AGGAGGAGGGTGGGGTTTT 60.072 57.895 0.00 0.00 0.00 2.43
545 552 2.920912 TTGGGGAAGGAGCGACGT 60.921 61.111 0.00 0.00 0.00 4.34
547 554 3.379445 GGGGAAGGAGCGACGTGA 61.379 66.667 0.00 0.00 0.00 4.35
792 1165 2.235016 TGTGGTGCCAACTATTTCCAC 58.765 47.619 0.00 0.00 43.58 4.02
793 1166 2.158534 TGTGGTGCCAACTATTTCCACT 60.159 45.455 12.25 0.00 43.64 4.00
794 1167 2.890945 GTGGTGCCAACTATTTCCACTT 59.109 45.455 0.00 0.00 41.14 3.16
795 1168 3.057526 GTGGTGCCAACTATTTCCACTTC 60.058 47.826 0.00 0.00 41.14 3.01
796 1169 3.181434 TGGTGCCAACTATTTCCACTTCT 60.181 43.478 0.00 0.00 0.00 2.85
797 1170 4.042311 TGGTGCCAACTATTTCCACTTCTA 59.958 41.667 0.00 0.00 0.00 2.10
798 1171 4.395231 GGTGCCAACTATTTCCACTTCTAC 59.605 45.833 0.00 0.00 0.00 2.59
799 1172 5.246307 GTGCCAACTATTTCCACTTCTACT 58.754 41.667 0.00 0.00 0.00 2.57
800 1173 5.351740 GTGCCAACTATTTCCACTTCTACTC 59.648 44.000 0.00 0.00 0.00 2.59
801 1174 4.876679 GCCAACTATTTCCACTTCTACTCC 59.123 45.833 0.00 0.00 0.00 3.85
802 1175 5.570844 GCCAACTATTTCCACTTCTACTCCA 60.571 44.000 0.00 0.00 0.00 3.86
812 1185 4.818546 CCACTTCTACTCCATTAATGCAGG 59.181 45.833 11.09 5.41 0.00 4.85
828 1252 1.071699 GCAGGGGAGCAATTACGGATA 59.928 52.381 0.00 0.00 0.00 2.59
835 1259 4.246458 GGAGCAATTACGGATATGACCTC 58.754 47.826 0.00 0.00 0.00 3.85
1005 1444 0.616395 TAGGGTTCGACAGGATGCCA 60.616 55.000 0.00 0.00 42.53 4.92
1101 1540 4.081087 GGTATGTGTGAATCTGGTGTAGGT 60.081 45.833 0.00 0.00 0.00 3.08
1132 1571 7.649705 GGAAGTGGATCTGTTTTTCTTTTCTTC 59.350 37.037 0.00 0.00 0.00 2.87
1231 1678 6.736123 ACAAGCAGATTATGTACTACTACGG 58.264 40.000 0.00 0.00 0.00 4.02
1241 1688 5.395682 TGTACTACTACGGCTTGATTTGT 57.604 39.130 0.00 0.00 0.00 2.83
1263 1710 9.658799 TTTGTATGAAGTCTTCTCTTATGAAGG 57.341 33.333 13.67 0.00 42.54 3.46
1266 1713 4.080863 TGAAGTCTTCTCTTATGAAGGGGC 60.081 45.833 13.67 0.00 42.54 5.80
1269 1716 1.143889 CTTCTCTTATGAAGGGGCCCC 59.856 57.143 35.90 35.90 39.62 5.80
1287 1734 5.338789 GGGCCCCTTCTCTGATAGATTTATC 60.339 48.000 12.23 0.00 36.92 1.75
1305 1752 2.244486 TCAGAGAAGGACCAGAGCAT 57.756 50.000 0.00 0.00 0.00 3.79
1306 1753 2.544721 TCAGAGAAGGACCAGAGCATT 58.455 47.619 0.00 0.00 0.00 3.56
1310 1757 4.077822 AGAGAAGGACCAGAGCATTTTTG 58.922 43.478 0.00 0.00 0.00 2.44
1311 1758 3.823304 GAGAAGGACCAGAGCATTTTTGT 59.177 43.478 0.00 0.00 0.00 2.83
1312 1759 3.571401 AGAAGGACCAGAGCATTTTTGTG 59.429 43.478 0.00 0.00 0.00 3.33
1313 1760 3.228188 AGGACCAGAGCATTTTTGTGA 57.772 42.857 0.00 0.00 0.00 3.58
1314 1761 3.565307 AGGACCAGAGCATTTTTGTGAA 58.435 40.909 0.00 0.00 0.00 3.18
1315 1762 3.571401 AGGACCAGAGCATTTTTGTGAAG 59.429 43.478 0.00 0.00 0.00 3.02
1316 1763 3.319122 GGACCAGAGCATTTTTGTGAAGT 59.681 43.478 0.00 0.00 0.00 3.01
1317 1764 4.518970 GGACCAGAGCATTTTTGTGAAGTA 59.481 41.667 0.00 0.00 0.00 2.24
1320 1767 5.594317 ACCAGAGCATTTTTGTGAAGTAGTT 59.406 36.000 0.00 0.00 0.00 2.24
1323 1770 5.827797 AGAGCATTTTTGTGAAGTAGTTGGA 59.172 36.000 0.00 0.00 0.00 3.53
1325 1772 6.449698 AGCATTTTTGTGAAGTAGTTGGATG 58.550 36.000 0.00 0.00 0.00 3.51
1329 1776 8.755018 CATTTTTGTGAAGTAGTTGGATGTTTC 58.245 33.333 0.00 0.00 0.00 2.78
1331 1786 6.618287 TTGTGAAGTAGTTGGATGTTTCTG 57.382 37.500 0.00 0.00 0.00 3.02
1355 1810 7.640634 GTATTTTTAAATACGCGACACCTTC 57.359 36.000 15.93 0.00 40.72 3.46
1358 1813 4.914312 TTAAATACGCGACACCTTCTTG 57.086 40.909 15.93 0.00 0.00 3.02
1359 1814 2.450609 AATACGCGACACCTTCTTGT 57.549 45.000 15.93 0.00 0.00 3.16
1360 1815 1.992170 ATACGCGACACCTTCTTGTC 58.008 50.000 15.93 0.00 42.24 3.18
1378 1834 7.633361 TCTTGTCGTGTTCTACTATCAAAAC 57.367 36.000 0.00 0.00 0.00 2.43
1460 1916 6.092122 CACGAGAATAAGTTTCATAGCCACAA 59.908 38.462 0.00 0.00 0.00 3.33
1463 1919 6.245408 AGAATAAGTTTCATAGCCACAACCA 58.755 36.000 0.00 0.00 0.00 3.67
1468 1924 1.136961 TCATAGCCACAACCACCCCA 61.137 55.000 0.00 0.00 0.00 4.96
1470 1926 0.485099 ATAGCCACAACCACCCCAAA 59.515 50.000 0.00 0.00 0.00 3.28
1551 2055 6.844696 ATTATTTCGTACTCGGTACTCGTA 57.155 37.500 10.96 0.00 36.93 3.43
1552 2056 6.844696 TTATTTCGTACTCGGTACTCGTAT 57.155 37.500 10.96 4.25 36.93 3.06
1553 2057 5.741388 ATTTCGTACTCGGTACTCGTATT 57.259 39.130 10.96 0.00 36.93 1.89
1554 2058 6.844696 ATTTCGTACTCGGTACTCGTATTA 57.155 37.500 10.96 0.00 36.93 0.98
1555 2059 6.656314 TTTCGTACTCGGTACTCGTATTAA 57.344 37.500 10.96 0.00 36.93 1.40
1556 2060 6.656314 TTCGTACTCGGTACTCGTATTAAA 57.344 37.500 10.96 0.00 36.93 1.52
1557 2061 6.032722 TCGTACTCGGTACTCGTATTAAAC 57.967 41.667 10.96 0.00 36.93 2.01
1558 2062 5.810587 TCGTACTCGGTACTCGTATTAAACT 59.189 40.000 10.96 0.00 36.93 2.66
1559 2063 6.019801 TCGTACTCGGTACTCGTATTAAACTC 60.020 42.308 10.96 0.00 36.93 3.01
1560 2064 5.149054 ACTCGGTACTCGTATTAAACTCG 57.851 43.478 0.00 0.00 40.32 4.18
1561 2065 3.940303 TCGGTACTCGTATTAAACTCGC 58.060 45.455 0.00 0.00 40.32 5.03
1562 2066 2.710961 CGGTACTCGTATTAAACTCGCG 59.289 50.000 0.00 0.00 0.00 5.87
1563 2067 3.544048 CGGTACTCGTATTAAACTCGCGA 60.544 47.826 9.26 9.26 0.00 5.87
1564 2068 3.721307 GGTACTCGTATTAAACTCGCGAC 59.279 47.826 3.71 0.00 0.00 5.19
1565 2069 3.476295 ACTCGTATTAAACTCGCGACA 57.524 42.857 3.71 0.00 0.00 4.35
1566 2070 3.166657 ACTCGTATTAAACTCGCGACAC 58.833 45.455 3.71 0.00 0.00 3.67
1567 2071 3.120060 ACTCGTATTAAACTCGCGACACT 60.120 43.478 3.71 0.00 0.00 3.55
1568 2072 3.825308 TCGTATTAAACTCGCGACACTT 58.175 40.909 3.71 0.78 0.00 3.16
1569 2073 4.229096 TCGTATTAAACTCGCGACACTTT 58.771 39.130 3.71 5.80 0.00 2.66
1570 2074 4.681025 TCGTATTAAACTCGCGACACTTTT 59.319 37.500 3.71 5.12 0.00 2.27
1571 2075 5.175491 TCGTATTAAACTCGCGACACTTTTT 59.825 36.000 3.71 2.51 0.00 1.94
1612 2118 9.195411 GTATCAATTGTCATGAATGTTGTTTGT 57.805 29.630 5.13 0.00 0.00 2.83
1617 2123 3.974401 GTCATGAATGTTGTTTGTCGGTG 59.026 43.478 0.00 0.00 0.00 4.94
1751 2891 6.310224 CGTTTGGATTTACAAGGCTTATTTGG 59.690 38.462 0.00 0.00 0.00 3.28
1764 2904 6.981722 AGGCTTATTTGGTTTGTCTTTAGTG 58.018 36.000 0.00 0.00 0.00 2.74
1892 3200 7.826744 TGTAGTGGTATTTGATTTACTGATGCA 59.173 33.333 0.00 0.00 0.00 3.96
2010 3323 2.421314 TGCTACGGCATCATCGGG 59.579 61.111 0.00 0.00 44.28 5.14
2184 3500 3.767806 CTCGCCAGCAGCCTCTCA 61.768 66.667 0.00 0.00 38.78 3.27
2931 4259 3.058432 CCATGAGATTCGCATGAACATCC 60.058 47.826 26.02 0.00 42.66 3.51
2932 4260 2.564771 TGAGATTCGCATGAACATCCC 58.435 47.619 0.00 0.00 36.81 3.85
2933 4261 1.876156 GAGATTCGCATGAACATCCCC 59.124 52.381 0.00 0.00 36.81 4.81
2934 4262 0.954452 GATTCGCATGAACATCCCCC 59.046 55.000 0.00 0.00 36.81 5.40
2935 4263 0.552848 ATTCGCATGAACATCCCCCT 59.447 50.000 0.00 0.00 36.81 4.79
2936 4264 1.208706 TTCGCATGAACATCCCCCTA 58.791 50.000 0.00 0.00 0.00 3.53
2937 4265 1.434188 TCGCATGAACATCCCCCTAT 58.566 50.000 0.00 0.00 0.00 2.57
2969 4297 1.875963 CCAACCACATGAACTCGCC 59.124 57.895 0.00 0.00 0.00 5.54
2986 4314 1.671556 CGCCTGGGTTTAATTTGGTGC 60.672 52.381 0.00 0.00 0.00 5.01
2988 4316 2.612721 GCCTGGGTTTAATTTGGTGCAG 60.613 50.000 0.00 0.00 0.00 4.41
2997 4325 9.313118 GGGTTTAATTTGGTGCAGATTAATTAG 57.687 33.333 0.00 0.00 32.92 1.73
3111 4439 5.226396 TGTGTTTAATGGCTTTGTGCATAC 58.774 37.500 0.00 0.00 45.15 2.39
3112 4440 5.010516 TGTGTTTAATGGCTTTGTGCATACT 59.989 36.000 0.00 0.00 45.15 2.12
3141 4469 2.954611 GTTGCTTTCCGTCCCTGC 59.045 61.111 0.00 0.00 0.00 4.85
3151 4479 2.890474 GTCCCTGCGGCATGTACG 60.890 66.667 1.75 7.45 0.00 3.67
3152 4480 3.387091 TCCCTGCGGCATGTACGT 61.387 61.111 1.75 0.00 0.00 3.57
3153 4481 2.053277 TCCCTGCGGCATGTACGTA 61.053 57.895 1.75 7.88 0.00 3.57
3154 4482 1.881252 CCCTGCGGCATGTACGTAC 60.881 63.158 18.90 18.90 0.00 3.67
3257 4586 3.008594 AGGTGTCCGATTGTACATTTGGA 59.991 43.478 18.82 18.82 0.00 3.53
3269 4598 4.462483 TGTACATTTGGAAAGGGCATCTTC 59.538 41.667 0.00 0.00 33.94 2.87
3270 4599 3.782992 ACATTTGGAAAGGGCATCTTCT 58.217 40.909 0.00 0.00 33.94 2.85
3274 4603 1.906574 TGGAAAGGGCATCTTCTACGT 59.093 47.619 0.00 0.00 33.94 3.57
3278 4607 2.969628 AGGGCATCTTCTACGTTGAG 57.030 50.000 0.00 0.00 0.00 3.02
3286 4615 1.126846 CTTCTACGTTGAGCCGCAAAG 59.873 52.381 0.00 0.00 41.05 2.77
3291 4620 1.081840 GTTGAGCCGCAAAGCAGAC 60.082 57.895 0.00 0.00 38.44 3.51
3305 4634 0.602638 GCAGACACCACATCCGTTCA 60.603 55.000 0.00 0.00 0.00 3.18
3320 4649 1.911766 TTCACGGACTGGAGGGGAC 60.912 63.158 0.00 0.00 0.00 4.46
3337 4666 2.839486 GACCAGTCCATGACACTGAA 57.161 50.000 20.60 0.00 43.54 3.02
3338 4667 2.693069 GACCAGTCCATGACACTGAAG 58.307 52.381 20.60 10.94 43.54 3.02
3339 4668 1.271054 ACCAGTCCATGACACTGAAGC 60.271 52.381 20.60 0.00 43.54 3.86
3357 4686 2.746375 CGGGAGCTGGTATTGGCCT 61.746 63.158 3.32 0.00 0.00 5.19
3359 4688 0.466372 GGGAGCTGGTATTGGCCTTC 60.466 60.000 3.32 0.00 0.00 3.46
3373 4702 7.012138 GGTATTGGCCTTCTAGCTTAAAACTAC 59.988 40.741 3.32 0.00 0.00 2.73
3452 4781 1.752310 CCGCACCACCATTGCCATA 60.752 57.895 0.00 0.00 36.57 2.74
3453 4782 1.108727 CCGCACCACCATTGCCATAT 61.109 55.000 0.00 0.00 36.57 1.78
3458 4787 2.099592 CACCACCATTGCCATATGTGTC 59.900 50.000 1.24 0.00 0.00 3.67
3459 4788 2.291475 ACCACCATTGCCATATGTGTCA 60.291 45.455 1.24 0.00 0.00 3.58
3480 4809 1.415289 TCGTAGTCATCCCTCTAGCGA 59.585 52.381 0.00 0.00 0.00 4.93
3488 4817 1.988293 TCCCTCTAGCGATGGAAGAG 58.012 55.000 0.00 0.00 37.17 2.85
3489 4818 0.316841 CCCTCTAGCGATGGAAGAGC 59.683 60.000 0.00 0.00 36.29 4.09
3490 4819 1.035923 CCTCTAGCGATGGAAGAGCA 58.964 55.000 0.00 0.00 36.29 4.26
3497 4826 1.901085 GATGGAAGAGCACGGGTCT 59.099 57.895 0.51 0.51 42.52 3.85
3536 4865 4.519437 TGATGCCTGGAGCTCGCG 62.519 66.667 7.83 0.00 44.23 5.87
3543 4872 3.423162 CTGGAGCTCGCGGAGAAGG 62.423 68.421 6.13 0.00 0.00 3.46
3558 4895 4.988598 AGGCACTTCACCACCGCG 62.989 66.667 0.00 0.00 27.25 6.46
3590 4927 4.463879 CACCCGCAGAGCCCTGAG 62.464 72.222 0.00 0.00 43.02 3.35
3593 4930 2.739996 CCCGCAGAGCCCTGAGAAT 61.740 63.158 0.00 0.00 41.89 2.40
3594 4931 1.222936 CCGCAGAGCCCTGAGAATT 59.777 57.895 0.00 0.00 41.89 2.17
3595 4932 0.393537 CCGCAGAGCCCTGAGAATTT 60.394 55.000 0.00 0.00 41.89 1.82
3602 4939 0.820226 GCCCTGAGAATTTCCTTGCC 59.180 55.000 0.00 0.00 0.00 4.52
3604 4941 1.478631 CCTGAGAATTTCCTTGCCCC 58.521 55.000 0.00 0.00 0.00 5.80
3607 4944 1.428912 TGAGAATTTCCTTGCCCCTGT 59.571 47.619 0.00 0.00 0.00 4.00
3644 4981 0.741221 CCGCTAAGCAACCACTCCTC 60.741 60.000 0.00 0.00 0.00 3.71
3645 4982 0.037326 CGCTAAGCAACCACTCCTCA 60.037 55.000 0.00 0.00 0.00 3.86
3647 4984 1.002544 GCTAAGCAACCACTCCTCACT 59.997 52.381 0.00 0.00 0.00 3.41
3710 5047 3.036084 CGTGTCTGCGGTGGTGAC 61.036 66.667 0.00 0.00 0.00 3.67
3733 5070 2.203788 AGTCGAGGGCCCAGACAA 60.204 61.111 36.30 14.06 37.36 3.18
3747 5084 4.539083 ACAACGGCCGTGTCTGCA 62.539 61.111 34.95 0.00 0.00 4.41
3755 5092 1.956170 CCGTGTCTGCAGTGGTGAC 60.956 63.158 14.67 4.75 0.00 3.67
3759 5096 3.625897 TCTGCAGTGGTGACGGGG 61.626 66.667 14.67 0.00 0.00 5.73
3787 5124 4.087892 CCCAGAGTGGCCAGGTCG 62.088 72.222 5.11 2.89 35.79 4.79
3790 5127 4.316823 AGAGTGGCCAGGTCGGGA 62.317 66.667 5.11 0.00 34.06 5.14
3791 5128 4.083862 GAGTGGCCAGGTCGGGAC 62.084 72.222 5.11 0.00 36.06 4.46
3833 5170 0.439985 CACATCTGACTTGGCGAACG 59.560 55.000 0.00 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.078759 GTGGATCTGACGCTTCGTGG 61.079 60.000 0.00 0.00 41.37 4.94
1 2 1.078759 GGTGGATCTGACGCTTCGTG 61.079 60.000 0.00 0.00 41.37 4.35
2 3 1.215647 GGTGGATCTGACGCTTCGT 59.784 57.895 0.00 0.00 45.10 3.85
3 4 1.874019 CGGTGGATCTGACGCTTCG 60.874 63.158 0.00 0.00 0.00 3.79
4 5 4.094684 CGGTGGATCTGACGCTTC 57.905 61.111 0.00 0.00 0.00 3.86
9 10 1.519455 CCTTCGCGGTGGATCTGAC 60.519 63.158 6.13 0.00 0.00 3.51
42 43 2.429610 GGCTACGGTAGGATGTCTTTCA 59.570 50.000 16.43 0.00 0.00 2.69
46 47 0.260816 TGGGCTACGGTAGGATGTCT 59.739 55.000 16.43 0.00 0.00 3.41
54 55 1.222387 GCATGGTTGGGCTACGGTA 59.778 57.895 0.00 0.00 0.00 4.02
59 60 1.288508 ATCTGGGCATGGTTGGGCTA 61.289 55.000 0.00 0.00 0.00 3.93
191 198 2.111384 GTCCCCATCTGTTAGCTCAGA 58.889 52.381 7.51 7.51 46.39 3.27
224 231 4.722700 GGAGCGGGCTTGAAGGCA 62.723 66.667 20.63 0.00 43.44 4.75
286 293 2.592993 CCGATGTGGTGAGGTGGGT 61.593 63.158 0.00 0.00 0.00 4.51
371 378 1.667724 CGGCATCCTCAATGAGTTGAC 59.332 52.381 9.63 7.74 39.36 3.18
372 379 2.013563 GCGGCATCCTCAATGAGTTGA 61.014 52.381 9.63 0.54 41.89 3.18
393 400 0.250727 CCAGTTCCTTTTCTCCCGCA 60.251 55.000 0.00 0.00 0.00 5.69
461 468 3.237741 CCTCCTCCCCTCGCCATC 61.238 72.222 0.00 0.00 0.00 3.51
463 470 4.465446 CTCCTCCTCCCCTCGCCA 62.465 72.222 0.00 0.00 0.00 5.69
497 504 4.388499 CGACCCCAACCACCGAGG 62.388 72.222 0.00 0.00 45.67 4.63
545 552 2.046023 CCAAGACGCATGCCCTCA 60.046 61.111 13.15 0.00 0.00 3.86
547 554 3.984193 GAGCCAAGACGCATGCCCT 62.984 63.158 13.15 6.78 0.00 5.19
792 1165 4.103153 TCCCCTGCATTAATGGAGTAGAAG 59.897 45.833 28.53 16.36 43.71 2.85
793 1166 4.044308 TCCCCTGCATTAATGGAGTAGAA 58.956 43.478 28.53 13.11 43.71 2.10
794 1167 3.648067 CTCCCCTGCATTAATGGAGTAGA 59.352 47.826 28.53 23.22 43.71 2.59
795 1168 3.808618 GCTCCCCTGCATTAATGGAGTAG 60.809 52.174 28.53 23.08 43.71 2.57
796 1169 2.106511 GCTCCCCTGCATTAATGGAGTA 59.893 50.000 28.53 16.24 43.71 2.59
797 1170 1.133668 GCTCCCCTGCATTAATGGAGT 60.134 52.381 28.53 0.00 43.71 3.85
798 1171 1.133699 TGCTCCCCTGCATTAATGGAG 60.134 52.381 25.47 25.47 44.66 3.86
799 1172 0.925558 TGCTCCCCTGCATTAATGGA 59.074 50.000 17.02 13.34 38.12 3.41
800 1173 1.779221 TTGCTCCCCTGCATTAATGG 58.221 50.000 17.02 0.48 42.96 3.16
801 1174 4.557296 CGTAATTGCTCCCCTGCATTAATG 60.557 45.833 11.27 11.27 42.96 1.90
802 1175 3.569701 CGTAATTGCTCCCCTGCATTAAT 59.430 43.478 0.00 0.00 42.96 1.40
812 1185 3.008049 AGGTCATATCCGTAATTGCTCCC 59.992 47.826 0.00 0.00 0.00 4.30
828 1252 1.204941 GTAGCCAACTGTCGAGGTCAT 59.795 52.381 0.00 0.00 0.00 3.06
835 1259 1.274167 TGTAAGGGTAGCCAACTGTCG 59.726 52.381 14.62 0.00 0.00 4.35
937 1361 3.510360 AGAATGTACACGCTTCTACTGGT 59.490 43.478 8.17 0.00 0.00 4.00
992 1431 1.383109 ATCCCTGGCATCCTGTCGA 60.383 57.895 0.00 0.00 0.00 4.20
1042 1481 0.888619 ATGAAGACTCCGACGAGCAA 59.111 50.000 0.00 0.00 40.03 3.91
1101 1540 5.656416 AGAAAAACAGATCCACTTCCAAACA 59.344 36.000 0.00 0.00 0.00 2.83
1132 1571 6.433766 CACTTCTTCTCTTGTTAAAAGGCAG 58.566 40.000 0.00 0.00 0.00 4.85
1222 1669 6.216801 TCATACAAATCAAGCCGTAGTAGT 57.783 37.500 0.00 0.00 0.00 2.73
1231 1678 7.608308 AGAGAAGACTTCATACAAATCAAGC 57.392 36.000 17.34 0.00 0.00 4.01
1241 1688 6.183361 GCCCCTTCATAAGAGAAGACTTCATA 60.183 42.308 17.34 7.71 46.18 2.15
1263 1710 2.037385 ATCTATCAGAGAAGGGGCCC 57.963 55.000 17.12 17.12 37.85 5.80
1275 1722 8.007153 TCTGGTCCTTCTCTGATAAATCTATCA 58.993 37.037 0.00 0.00 41.36 2.15
1287 1734 3.347077 AAATGCTCTGGTCCTTCTCTG 57.653 47.619 0.00 0.00 0.00 3.35
1297 1744 5.695851 ACTACTTCACAAAAATGCTCTGG 57.304 39.130 0.00 0.00 0.00 3.86
1305 1752 7.973388 CAGAAACATCCAACTACTTCACAAAAA 59.027 33.333 0.00 0.00 0.00 1.94
1306 1753 7.122055 ACAGAAACATCCAACTACTTCACAAAA 59.878 33.333 0.00 0.00 0.00 2.44
1310 1757 7.907214 ATACAGAAACATCCAACTACTTCAC 57.093 36.000 0.00 0.00 0.00 3.18
1311 1758 8.918202 AAATACAGAAACATCCAACTACTTCA 57.082 30.769 0.00 0.00 0.00 3.02
1320 1767 9.562583 GCGTATTTAAAAATACAGAAACATCCA 57.437 29.630 20.07 0.00 46.97 3.41
1323 1770 9.269415 GTCGCGTATTTAAAAATACAGAAACAT 57.731 29.630 20.07 0.00 46.97 2.71
1325 1772 8.561503 GTGTCGCGTATTTAAAAATACAGAAAC 58.438 33.333 20.07 18.24 46.97 2.78
1329 1776 6.768078 AGGTGTCGCGTATTTAAAAATACAG 58.232 36.000 20.07 14.71 46.97 2.74
1331 1786 7.458677 AGAAGGTGTCGCGTATTTAAAAATAC 58.541 34.615 5.77 13.31 44.51 1.89
1350 1805 5.475909 TGATAGTAGAACACGACAAGAAGGT 59.524 40.000 0.00 0.00 0.00 3.50
1355 1810 6.361481 TCGTTTTGATAGTAGAACACGACAAG 59.639 38.462 0.00 0.00 0.00 3.16
1358 1813 6.866179 ATCGTTTTGATAGTAGAACACGAC 57.134 37.500 7.76 0.00 34.83 4.34
1359 1814 7.216881 CGTTATCGTTTTGATAGTAGAACACGA 59.783 37.037 7.95 7.95 40.58 4.35
1360 1815 7.317901 CGTTATCGTTTTGATAGTAGAACACG 58.682 38.462 0.00 0.00 40.58 4.49
1362 1817 7.537715 TCCGTTATCGTTTTGATAGTAGAACA 58.462 34.615 0.00 0.00 40.58 3.18
1378 1834 4.201589 GCATATCCGACAAATCCGTTATCG 60.202 45.833 0.00 0.00 0.00 2.92
1432 1888 6.312918 TGGCTATGAAACTTATTCTCGTGAAC 59.687 38.462 1.37 0.00 34.71 3.18
1470 1926 5.984926 CGGCATGTGGCTATGAAATAATTTT 59.015 36.000 5.01 0.00 44.01 1.82
1474 1930 3.814625 TCGGCATGTGGCTATGAAATAA 58.185 40.909 5.01 0.00 44.01 1.40
1476 1932 2.224606 CTCGGCATGTGGCTATGAAAT 58.775 47.619 5.01 0.00 44.01 2.17
1530 2034 6.844696 AATACGAGTACCGAGTACGAAATA 57.155 37.500 10.17 2.68 43.05 1.40
1531 2035 5.741388 AATACGAGTACCGAGTACGAAAT 57.259 39.130 10.17 1.11 43.05 2.17
1532 2036 6.656314 TTAATACGAGTACCGAGTACGAAA 57.344 37.500 10.17 0.00 43.05 3.46
1535 2039 6.037423 AGTTTAATACGAGTACCGAGTACG 57.963 41.667 10.17 0.00 43.05 3.67
1536 2040 6.123441 CGAGTTTAATACGAGTACCGAGTAC 58.877 44.000 10.17 6.19 41.76 2.73
1537 2041 5.276868 GCGAGTTTAATACGAGTACCGAGTA 60.277 44.000 10.17 3.46 41.76 2.59
1538 2042 4.494855 GCGAGTTTAATACGAGTACCGAGT 60.495 45.833 10.17 1.36 41.76 4.18
1539 2043 3.964970 GCGAGTTTAATACGAGTACCGAG 59.035 47.826 10.17 0.00 41.76 4.63
1541 2045 2.710961 CGCGAGTTTAATACGAGTACCG 59.289 50.000 0.00 2.71 45.44 4.02
1542 2046 3.721307 GTCGCGAGTTTAATACGAGTACC 59.279 47.826 10.24 0.00 32.76 3.34
1548 2052 4.557276 AAAGTGTCGCGAGTTTAATACG 57.443 40.909 10.24 0.00 0.00 3.06
1569 2073 9.695526 CAATTGATACTCACTTTGATCCAAAAA 57.304 29.630 0.00 0.00 32.75 1.94
1570 2074 8.859090 ACAATTGATACTCACTTTGATCCAAAA 58.141 29.630 13.59 0.00 32.75 2.44
1571 2075 8.408043 ACAATTGATACTCACTTTGATCCAAA 57.592 30.769 13.59 0.00 0.00 3.28
1572 2076 7.665145 TGACAATTGATACTCACTTTGATCCAA 59.335 33.333 13.59 0.00 0.00 3.53
1573 2077 7.167535 TGACAATTGATACTCACTTTGATCCA 58.832 34.615 13.59 0.00 0.00 3.41
1574 2078 7.615582 TGACAATTGATACTCACTTTGATCC 57.384 36.000 13.59 0.00 0.00 3.36
1575 2079 8.886719 TCATGACAATTGATACTCACTTTGATC 58.113 33.333 13.59 0.00 0.00 2.92
1576 2080 8.797350 TCATGACAATTGATACTCACTTTGAT 57.203 30.769 13.59 0.00 0.00 2.57
1577 2081 8.620116 TTCATGACAATTGATACTCACTTTGA 57.380 30.769 13.59 3.78 0.00 2.69
1578 2082 9.285770 CATTCATGACAATTGATACTCACTTTG 57.714 33.333 13.59 1.46 0.00 2.77
1579 2083 9.017509 ACATTCATGACAATTGATACTCACTTT 57.982 29.630 13.59 0.00 0.00 2.66
1580 2084 8.571461 ACATTCATGACAATTGATACTCACTT 57.429 30.769 13.59 0.00 0.00 3.16
1581 2085 8.456471 CAACATTCATGACAATTGATACTCACT 58.544 33.333 13.59 0.00 0.00 3.41
1582 2086 8.239314 ACAACATTCATGACAATTGATACTCAC 58.761 33.333 13.59 0.00 0.00 3.51
1583 2087 8.339344 ACAACATTCATGACAATTGATACTCA 57.661 30.769 13.59 5.66 0.00 3.41
1584 2088 9.630098 AAACAACATTCATGACAATTGATACTC 57.370 29.630 13.59 0.00 0.00 2.59
1595 2099 3.974401 CACCGACAAACAACATTCATGAC 59.026 43.478 0.00 0.00 0.00 3.06
1607 2113 4.823790 AAAAGTATGGACACCGACAAAC 57.176 40.909 0.00 0.00 0.00 2.93
1683 2199 7.215719 ACAGCGCATACTGACTATATTCTAA 57.784 36.000 11.47 0.00 40.25 2.10
1684 2200 6.819397 ACAGCGCATACTGACTATATTCTA 57.181 37.500 11.47 0.00 40.25 2.10
1686 2202 6.771188 AAACAGCGCATACTGACTATATTC 57.229 37.500 11.47 0.00 40.25 1.75
1687 2203 7.207383 TGTAAACAGCGCATACTGACTATATT 58.793 34.615 11.47 0.00 40.25 1.28
1688 2204 6.745116 TGTAAACAGCGCATACTGACTATAT 58.255 36.000 11.47 0.00 40.25 0.86
1689 2205 6.139048 TGTAAACAGCGCATACTGACTATA 57.861 37.500 11.47 0.00 40.25 1.31
1854 3047 6.808321 AATACCACTACATGTACCATGACT 57.192 37.500 10.96 0.00 0.00 3.41
1867 3060 8.208718 TGCATCAGTAAATCAAATACCACTAC 57.791 34.615 0.00 0.00 0.00 2.73
2931 4259 3.003763 GCCGCCTAGGGATAGGGG 61.004 72.222 11.72 10.55 46.26 4.79
2932 4260 2.203788 TGCCGCCTAGGGATAGGG 60.204 66.667 11.72 0.00 41.48 3.53
2933 4261 2.948720 GCTGCCGCCTAGGGATAGG 61.949 68.421 11.72 0.00 40.56 2.57
2934 4262 2.659610 GCTGCCGCCTAGGGATAG 59.340 66.667 11.72 4.09 40.56 2.08
2969 4297 4.806640 ATCTGCACCAAATTAAACCCAG 57.193 40.909 0.00 0.00 0.00 4.45
2986 4314 9.326339 CACGCATCAATCAATCTAATTAATCTG 57.674 33.333 0.00 0.00 0.00 2.90
2988 4316 9.110617 CACACGCATCAATCAATCTAATTAATC 57.889 33.333 0.00 0.00 0.00 1.75
2997 4325 3.165890 CACACACACGCATCAATCAATC 58.834 45.455 0.00 0.00 0.00 2.67
2998 4326 2.095110 CCACACACACGCATCAATCAAT 60.095 45.455 0.00 0.00 0.00 2.57
2999 4327 1.266446 CCACACACACGCATCAATCAA 59.734 47.619 0.00 0.00 0.00 2.57
3000 4328 0.873721 CCACACACACGCATCAATCA 59.126 50.000 0.00 0.00 0.00 2.57
3075 4403 7.883311 AGCCATTAAACACATAGTACAAGTCTT 59.117 33.333 0.00 0.00 0.00 3.01
3076 4404 7.394816 AGCCATTAAACACATAGTACAAGTCT 58.605 34.615 0.00 0.00 0.00 3.24
3077 4405 7.611213 AGCCATTAAACACATAGTACAAGTC 57.389 36.000 0.00 0.00 0.00 3.01
3078 4406 7.996098 AAGCCATTAAACACATAGTACAAGT 57.004 32.000 0.00 0.00 0.00 3.16
3079 4407 8.296713 ACAAAGCCATTAAACACATAGTACAAG 58.703 33.333 0.00 0.00 0.00 3.16
3084 4412 5.010516 TGCACAAAGCCATTAAACACATAGT 59.989 36.000 0.00 0.00 44.83 2.12
3085 4413 5.468592 TGCACAAAGCCATTAAACACATAG 58.531 37.500 0.00 0.00 44.83 2.23
3087 4415 4.333913 TGCACAAAGCCATTAAACACAT 57.666 36.364 0.00 0.00 44.83 3.21
3088 4416 3.808466 TGCACAAAGCCATTAAACACA 57.192 38.095 0.00 0.00 44.83 3.72
3089 4417 5.469479 AGTATGCACAAAGCCATTAAACAC 58.531 37.500 0.00 0.00 44.83 3.32
3090 4418 5.720371 AGTATGCACAAAGCCATTAAACA 57.280 34.783 0.00 0.00 44.83 2.83
3091 4419 6.253512 GCTAAGTATGCACAAAGCCATTAAAC 59.746 38.462 0.00 0.00 44.83 2.01
3092 4420 6.152661 AGCTAAGTATGCACAAAGCCATTAAA 59.847 34.615 0.00 0.00 44.83 1.52
3093 4421 5.652014 AGCTAAGTATGCACAAAGCCATTAA 59.348 36.000 0.00 0.00 44.83 1.40
3094 4422 5.192927 AGCTAAGTATGCACAAAGCCATTA 58.807 37.500 0.00 0.00 44.83 1.90
3095 4423 4.019174 AGCTAAGTATGCACAAAGCCATT 58.981 39.130 0.00 0.00 44.83 3.16
3096 4424 3.624777 AGCTAAGTATGCACAAAGCCAT 58.375 40.909 0.00 0.00 44.83 4.40
3111 4439 3.555518 GAAAGCAACGGAACAAGCTAAG 58.444 45.455 0.00 0.00 36.07 2.18
3112 4440 2.292292 GGAAAGCAACGGAACAAGCTAA 59.708 45.455 0.00 0.00 36.07 3.09
3141 4469 0.738063 TGCCTTGTACGTACATGCCG 60.738 55.000 31.32 21.82 35.89 5.69
3209 4538 2.680312 TCGAAAGAAGGATGGAGCTG 57.320 50.000 0.00 0.00 37.03 4.24
3257 4586 3.600388 CTCAACGTAGAAGATGCCCTTT 58.400 45.455 0.00 0.00 34.68 3.11
3269 4598 1.132640 GCTTTGCGGCTCAACGTAG 59.867 57.895 0.00 0.00 33.73 3.51
3270 4599 1.565156 CTGCTTTGCGGCTCAACGTA 61.565 55.000 0.00 0.00 33.73 3.57
3274 4603 1.525765 TGTCTGCTTTGCGGCTCAA 60.526 52.632 0.00 0.00 34.49 3.02
3278 4607 3.286751 TGGTGTCTGCTTTGCGGC 61.287 61.111 0.00 0.00 34.49 6.53
3286 4615 0.602638 TGAACGGATGTGGTGTCTGC 60.603 55.000 0.00 0.00 0.00 4.26
3305 4634 3.907027 CTGGTCCCCTCCAGTCCGT 62.907 68.421 4.75 0.00 46.92 4.69
3320 4649 1.446907 GCTTCAGTGTCATGGACTGG 58.553 55.000 19.61 10.09 41.11 4.00
3325 4654 0.742281 CTCCCGCTTCAGTGTCATGG 60.742 60.000 0.00 0.00 0.00 3.66
3338 4667 2.902343 GCCAATACCAGCTCCCGC 60.902 66.667 0.00 0.00 0.00 6.13
3339 4668 2.203209 GGCCAATACCAGCTCCCG 60.203 66.667 0.00 0.00 0.00 5.14
3352 4681 4.501071 CGTAGTTTTAAGCTAGAAGGCCA 58.499 43.478 5.01 0.00 0.00 5.36
3388 4717 3.770666 AGATGGTCGTTCGATACAAGTG 58.229 45.455 0.00 0.00 0.00 3.16
3391 4720 4.182693 ACAAGATGGTCGTTCGATACAA 57.817 40.909 0.00 0.00 0.00 2.41
3396 4725 1.536766 ACGTACAAGATGGTCGTTCGA 59.463 47.619 0.00 0.00 29.93 3.71
3435 4764 0.031043 CATATGGCAATGGTGGTGCG 59.969 55.000 0.00 0.00 43.18 5.34
3450 4779 5.080337 AGGGATGACTACGATGACACATAT 58.920 41.667 0.00 0.00 0.00 1.78
3452 4781 3.300388 AGGGATGACTACGATGACACAT 58.700 45.455 0.00 0.00 0.00 3.21
3453 4782 2.688446 GAGGGATGACTACGATGACACA 59.312 50.000 0.00 0.00 0.00 3.72
3458 4787 2.160615 CGCTAGAGGGATGACTACGATG 59.839 54.545 0.00 0.00 0.00 3.84
3459 4788 2.038689 TCGCTAGAGGGATGACTACGAT 59.961 50.000 0.00 0.00 31.73 3.73
3480 4809 1.599047 CAGACCCGTGCTCTTCCAT 59.401 57.895 0.00 0.00 0.00 3.41
3518 4847 2.588314 GCGAGCTCCAGGCATCAG 60.588 66.667 8.47 0.00 44.79 2.90
3527 4856 4.882396 GCCTTCTCCGCGAGCTCC 62.882 72.222 8.23 0.00 0.00 4.70
3529 4858 4.443266 GTGCCTTCTCCGCGAGCT 62.443 66.667 8.23 0.00 0.00 4.09
3531 4860 1.807573 GAAGTGCCTTCTCCGCGAG 60.808 63.158 8.23 3.02 37.49 5.03
3574 4911 4.704103 TCTCAGGGCTCTGCGGGT 62.704 66.667 9.36 0.00 40.69 5.28
3578 4915 1.064832 AGGAAATTCTCAGGGCTCTGC 60.065 52.381 9.36 0.00 40.69 4.26
3579 4916 3.015327 CAAGGAAATTCTCAGGGCTCTG 58.985 50.000 7.48 7.48 42.21 3.35
3580 4917 2.620108 GCAAGGAAATTCTCAGGGCTCT 60.620 50.000 0.00 0.00 0.00 4.09
3589 4926 1.428912 TGACAGGGGCAAGGAAATTCT 59.571 47.619 0.00 0.00 0.00 2.40
3590 4927 1.821136 CTGACAGGGGCAAGGAAATTC 59.179 52.381 0.00 0.00 0.00 2.17
3593 4930 1.228552 GCTGACAGGGGCAAGGAAA 60.229 57.895 4.26 0.00 0.00 3.13
3594 4931 1.792757 ATGCTGACAGGGGCAAGGAA 61.793 55.000 4.26 0.00 41.90 3.36
3595 4932 1.792757 AATGCTGACAGGGGCAAGGA 61.793 55.000 4.26 0.00 41.90 3.36
3602 4939 3.136123 CCGCCAATGCTGACAGGG 61.136 66.667 4.26 0.00 34.43 4.45
3604 4941 2.758089 GCTCCGCCAATGCTGACAG 61.758 63.158 0.00 0.00 34.43 3.51
3607 4944 2.033911 TTGCTCCGCCAATGCTGA 59.966 55.556 0.00 0.00 34.43 4.26
3624 4961 1.003718 GGAGTGGTTGCTTAGCGGT 60.004 57.895 0.00 0.00 0.00 5.68
3625 4962 0.741221 GAGGAGTGGTTGCTTAGCGG 60.741 60.000 0.00 0.00 0.00 5.52
3644 4981 0.040514 CGAGCTCGCCTAGATCAGTG 60.041 60.000 25.07 0.00 40.85 3.66
3645 4982 2.326222 CGAGCTCGCCTAGATCAGT 58.674 57.895 25.07 0.00 40.85 3.41
3733 5070 4.969196 CACTGCAGACACGGCCGT 62.969 66.667 28.70 28.70 0.00 5.68
3787 5124 2.979649 GAGGTCCTCAACGGTCCC 59.020 66.667 14.46 0.00 41.40 4.46
3790 5127 3.692406 GCCGAGGTCCTCAACGGT 61.692 66.667 19.15 0.00 45.91 4.83
3791 5128 4.452733 GGCCGAGGTCCTCAACGG 62.453 72.222 19.15 15.47 46.74 4.44
3817 5154 3.876300 GCGTTCGCCAAGTCAGAT 58.124 55.556 5.87 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.