Multiple sequence alignment - TraesCS7B01G002000

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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 TraesCS7B01G002000 chr7B 100.000 2855 0 0 1 2855 783812 780958 0.000000e+00 5273.0
1 TraesCS7B01G002000 chr7B 84.674 783 104 13 1024 1798 1437074 1437848 0.000000e+00 767.0
2 TraesCS7B01G002000 chr7B 84.056 784 107 15 1024 1798 1482341 1483115 0.000000e+00 739.0
3 TraesCS7B01G002000 chr7B 93.333 45 3 0 729 773 97500310 97500354 1.840000e-07 67.6
4 TraesCS7B01G002000 chr7B 93.478 46 1 2 729 773 586229825 586229781 1.840000e-07 67.6
5 TraesCS7B01G002000 chr5D 88.944 1420 80 35 773 2167 562028789 562030156 0.000000e+00 1681.0
6 TraesCS7B01G002000 chr5D 84.334 766 108 10 1038 1797 556273502 556272743 0.000000e+00 739.0
7 TraesCS7B01G002000 chr5D 84.005 769 111 11 1036 1798 561573001 561572239 0.000000e+00 728.0
8 TraesCS7B01G002000 chr5D 92.330 339 10 3 401 725 562027536 562027872 4.310000e-128 468.0
9 TraesCS7B01G002000 chr5D 91.667 276 15 5 1 275 562026808 562027076 2.690000e-100 375.0
10 TraesCS7B01G002000 chr5D 94.828 116 2 1 270 385 562027345 562027456 8.130000e-41 178.0
11 TraesCS7B01G002000 chr5D 92.000 125 9 1 2731 2855 562031058 562031181 1.050000e-39 174.0
12 TraesCS7B01G002000 chr5D 96.190 105 4 0 2625 2729 562030709 562030813 3.780000e-39 172.0
13 TraesCS7B01G002000 chr5B 89.864 1253 74 24 801 2021 712396977 712398208 0.000000e+00 1561.0
14 TraesCS7B01G002000 chr5B 82.514 183 13 9 2356 2538 712401666 712401829 2.970000e-30 143.0
15 TraesCS7B01G002000 chr5B 93.182 44 3 0 729 772 491228849 491228806 6.600000e-07 65.8
16 TraesCS7B01G002000 chr4A 84.291 783 107 13 1024 1798 603666195 603666969 0.000000e+00 750.0
17 TraesCS7B01G002000 chr4A 94.231 52 3 0 1 52 631378689 631378638 2.360000e-11 80.5
18 TraesCS7B01G002000 chr4D 84.204 785 104 15 1039 1813 504597468 504598242 0.000000e+00 745.0
19 TraesCS7B01G002000 chr6B 82.984 811 118 18 1006 1808 96655236 96654438 0.000000e+00 715.0
20 TraesCS7B01G002000 chr6B 90.909 44 4 0 729 772 667224200 667224157 3.070000e-05 60.2
21 TraesCS7B01G002000 chr1B 88.542 96 11 0 1 96 54982287 54982382 1.800000e-22 117.0
22 TraesCS7B01G002000 chr1B 84.615 117 12 5 1 111 54924652 54924768 8.360000e-21 111.0
23 TraesCS7B01G002000 chr1B 89.091 55 3 3 729 780 474329152 474329206 6.600000e-07 65.8
24 TraesCS7B01G002000 chr5A 84.211 114 12 3 1 109 503509283 503509171 3.890000e-19 106.0
25 TraesCS7B01G002000 chr4B 93.182 44 3 0 729 772 625978528 625978571 6.600000e-07 65.8
26 TraesCS7B01G002000 chr2B 93.182 44 3 0 729 772 93399663 93399706 6.600000e-07 65.8
27 TraesCS7B01G002000 chr2B 93.182 44 3 0 729 772 532160669 532160626 6.600000e-07 65.8
28 TraesCS7B01G002000 chr3B 89.583 48 5 0 729 776 13264383 13264430 8.540000e-06 62.1


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 TraesCS7B01G002000 chr7B 780958 783812 2854 True 5273 5273 100.000000 1 2855 1 chr7B.!!$R1 2854
1 TraesCS7B01G002000 chr7B 1437074 1437848 774 False 767 767 84.674000 1024 1798 1 chr7B.!!$F1 774
2 TraesCS7B01G002000 chr7B 1482341 1483115 774 False 739 739 84.056000 1024 1798 1 chr7B.!!$F2 774
3 TraesCS7B01G002000 chr5D 556272743 556273502 759 True 739 739 84.334000 1038 1797 1 chr5D.!!$R1 759
4 TraesCS7B01G002000 chr5D 561572239 561573001 762 True 728 728 84.005000 1036 1798 1 chr5D.!!$R2 762
5 TraesCS7B01G002000 chr5D 562026808 562031181 4373 False 508 1681 92.659833 1 2855 6 chr5D.!!$F1 2854
6 TraesCS7B01G002000 chr5B 712396977 712401829 4852 False 852 1561 86.189000 801 2538 2 chr5B.!!$F1 1737
7 TraesCS7B01G002000 chr4A 603666195 603666969 774 False 750 750 84.291000 1024 1798 1 chr4A.!!$F1 774
8 TraesCS7B01G002000 chr4D 504597468 504598242 774 False 745 745 84.204000 1039 1813 1 chr4D.!!$F1 774
9 TraesCS7B01G002000 chr6B 96654438 96655236 798 True 715 715 82.984000 1006 1808 1 chr6B.!!$R1 802

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
791 2010 0.108585 GGTTGGCTGGTCACTTGAGA 59.891 55.0 0.00 0.00 0.0 3.27 F
963 2206 0.250038 TCATCGCCCATTCAGCTAGC 60.250 55.0 6.62 6.62 0.0 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1821 3090 0.034337 TGTAGTTGTGGCGGAAGGAC 59.966 55.0 0.00 0.00 0.00 3.85 R
2300 6174 0.041833 TGAGGTAGCAGCTCCTCCTT 59.958 55.0 25.95 9.28 46.76 3.36 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
87 88 6.479884 AGGAAATCTAACATCTGCTTCAACT 58.520 36.000 0.00 0.00 0.00 3.16
88 89 6.944862 AGGAAATCTAACATCTGCTTCAACTT 59.055 34.615 0.00 0.00 0.00 2.66
89 90 7.449704 AGGAAATCTAACATCTGCTTCAACTTT 59.550 33.333 0.00 0.00 0.00 2.66
90 91 8.084684 GGAAATCTAACATCTGCTTCAACTTTT 58.915 33.333 0.00 0.00 0.00 2.27
91 92 9.468532 GAAATCTAACATCTGCTTCAACTTTTT 57.531 29.630 0.00 0.00 0.00 1.94
142 144 9.944376 TTTATATGCCACTCCAATCTTATACTC 57.056 33.333 0.00 0.00 0.00 2.59
170 172 6.095860 TCTGTTATTGCATTTCCAGAATCCTG 59.904 38.462 4.70 0.00 40.09 3.86
176 178 4.773674 TGCATTTCCAGAATCCTGTGAATT 59.226 37.500 0.00 0.00 38.74 2.17
192 194 6.374417 TGTGAATTAAAGAGGCCTAAGACT 57.626 37.500 4.42 0.00 0.00 3.24
242 244 4.053983 GTCAATTGAGATAGATGCTCGCA 58.946 43.478 8.80 0.00 35.15 5.10
275 277 9.589111 GGTTAATTAAGATACTGGATAGCTAGC 57.411 37.037 6.62 6.62 0.00 3.42
280 282 4.029520 AGATACTGGATAGCTAGCATGGG 58.970 47.826 18.83 4.31 0.00 4.00
281 283 0.689623 ACTGGATAGCTAGCATGGGC 59.310 55.000 18.83 0.98 41.61 5.36
282 284 0.689055 CTGGATAGCTAGCATGGGCA 59.311 55.000 18.83 0.00 44.61 5.36
284 286 2.502947 CTGGATAGCTAGCATGGGCATA 59.497 50.000 18.83 0.00 44.61 3.14
285 287 3.117745 TGGATAGCTAGCATGGGCATAT 58.882 45.455 18.83 3.69 44.61 1.78
289 561 5.221803 GGATAGCTAGCATGGGCATATATGT 60.222 44.000 18.83 0.00 44.61 2.29
323 595 2.629617 ACAAAGCAAAGCAAGCATAGGT 59.370 40.909 0.00 0.00 0.00 3.08
392 698 5.234329 CGTACAGTACATTTCTGGCTAATGG 59.766 44.000 11.37 0.00 37.32 3.16
470 806 4.918810 TGCCCTTCTTTCTTTCTTCAAC 57.081 40.909 0.00 0.00 0.00 3.18
685 1035 1.160946 TGCTACCTTTCGCAAACGCA 61.161 50.000 0.00 0.00 39.84 5.24
709 1059 6.693315 AAAAAGACTGCTTGCTACAACTTA 57.307 33.333 0.00 0.00 33.79 2.24
718 1068 9.667107 ACTGCTTGCTACAACTTAGAATTATTA 57.333 29.630 0.00 0.00 0.00 0.98
746 1464 8.908786 ATCACTCAGTGAAATCTTTACAAAGA 57.091 30.769 12.63 6.85 45.96 2.52
748 1466 7.987458 TCACTCAGTGAAATCTTTACAAAGACT 59.013 33.333 4.55 0.00 42.31 3.24
750 1468 9.832445 ACTCAGTGAAATCTTTACAAAGACTTA 57.168 29.630 6.56 0.00 46.80 2.24
752 1470 9.607988 TCAGTGAAATCTTTACAAAGACTTACA 57.392 29.630 6.56 3.47 46.80 2.41
762 1480 8.844441 TTTACAAAGACTTACATTTTGGAACG 57.156 30.769 0.00 0.00 35.11 3.95
763 1481 5.827666 ACAAAGACTTACATTTTGGAACGG 58.172 37.500 0.00 0.00 36.41 4.44
764 1482 5.219633 CAAAGACTTACATTTTGGAACGGG 58.780 41.667 0.00 0.00 0.00 5.28
765 1483 4.360951 AGACTTACATTTTGGAACGGGA 57.639 40.909 0.00 0.00 0.00 5.14
766 1484 4.324267 AGACTTACATTTTGGAACGGGAG 58.676 43.478 0.00 0.00 0.00 4.30
768 1486 3.073356 ACTTACATTTTGGAACGGGAGGA 59.927 43.478 0.00 0.00 0.00 3.71
769 1487 2.200373 ACATTTTGGAACGGGAGGAG 57.800 50.000 0.00 0.00 0.00 3.69
771 1489 2.640826 ACATTTTGGAACGGGAGGAGTA 59.359 45.455 0.00 0.00 0.00 2.59
778 1997 1.551019 AACGGGAGGAGTAGGTTGGC 61.551 60.000 0.00 0.00 0.00 4.52
791 2010 0.108585 GGTTGGCTGGTCACTTGAGA 59.891 55.000 0.00 0.00 0.00 3.27
792 2011 1.230324 GTTGGCTGGTCACTTGAGAC 58.770 55.000 0.00 0.00 37.80 3.36
828 2053 7.595502 GGGATCAGTTCATACTCTAATTACACG 59.404 40.741 0.00 0.00 30.26 4.49
860 2085 1.226101 CGCCGCATGTGCAAACTAG 60.226 57.895 0.00 0.00 42.21 2.57
861 2086 1.514873 GCCGCATGTGCAAACTAGC 60.515 57.895 0.00 0.00 42.21 3.42
862 2087 1.226101 CCGCATGTGCAAACTAGCG 60.226 57.895 11.93 11.93 44.24 4.26
863 2088 1.226101 CGCATGTGCAAACTAGCGG 60.226 57.895 11.23 0.00 41.30 5.52
865 2095 1.926511 GCATGTGCAAACTAGCGGCT 61.927 55.000 7.98 7.98 41.59 5.52
879 2109 2.033294 GGCTAGCTAGGGCATGCC 59.967 66.667 29.47 29.47 45.70 4.40
963 2206 0.250038 TCATCGCCCATTCAGCTAGC 60.250 55.000 6.62 6.62 0.00 3.42
964 2207 0.250209 CATCGCCCATTCAGCTAGCT 60.250 55.000 12.68 12.68 0.00 3.32
965 2208 1.001293 CATCGCCCATTCAGCTAGCTA 59.999 52.381 18.86 2.62 0.00 3.32
966 2209 0.676184 TCGCCCATTCAGCTAGCTAG 59.324 55.000 18.86 16.84 0.00 3.42
984 2227 0.639392 AGAGCTACCCATCTCCACCT 59.361 55.000 0.00 0.00 0.00 4.00
985 2228 0.755686 GAGCTACCCATCTCCACCTG 59.244 60.000 0.00 0.00 0.00 4.00
989 2232 1.974236 CTACCCATCTCCACCTGATCC 59.026 57.143 0.00 0.00 0.00 3.36
993 2236 1.001746 CCATCTCCACCTGATCCATCG 59.998 57.143 0.00 0.00 0.00 3.84
1376 2642 1.589993 CGCTGCTCTACATGGTCGG 60.590 63.158 0.00 0.00 0.00 4.79
1723 2992 1.228154 AACAAGAAGGCGTGGGACC 60.228 57.895 0.00 0.00 0.00 4.46
1848 3117 2.165641 CCGCCACAACTACATCTCTACA 59.834 50.000 0.00 0.00 0.00 2.74
1856 3125 6.699204 CACAACTACATCTCTACAGCCTAATG 59.301 42.308 0.00 0.00 0.00 1.90
1857 3126 5.461032 ACTACATCTCTACAGCCTAATGC 57.539 43.478 0.00 0.00 41.71 3.56
1861 3130 6.425210 ACATCTCTACAGCCTAATGCATTA 57.575 37.500 17.94 17.94 44.83 1.90
1862 3131 6.830912 ACATCTCTACAGCCTAATGCATTAA 58.169 36.000 19.32 3.61 44.83 1.40
1864 3133 7.941238 ACATCTCTACAGCCTAATGCATTAATT 59.059 33.333 19.32 6.00 44.83 1.40
1865 3134 8.790718 CATCTCTACAGCCTAATGCATTAATTT 58.209 33.333 19.32 5.67 44.83 1.82
1866 3135 8.158169 TCTCTACAGCCTAATGCATTAATTTG 57.842 34.615 19.32 17.50 44.83 2.32
1867 3136 7.775093 TCTCTACAGCCTAATGCATTAATTTGT 59.225 33.333 19.32 21.20 44.83 2.83
1868 3137 8.292444 TCTACAGCCTAATGCATTAATTTGTT 57.708 30.769 23.23 10.83 44.83 2.83
1869 3138 8.748412 TCTACAGCCTAATGCATTAATTTGTTT 58.252 29.630 23.23 10.72 44.83 2.83
1870 3139 7.832503 ACAGCCTAATGCATTAATTTGTTTC 57.167 32.000 19.32 3.96 44.83 2.78
1871 3140 6.818142 ACAGCCTAATGCATTAATTTGTTTCC 59.182 34.615 19.32 1.98 44.83 3.13
1872 3141 7.043565 CAGCCTAATGCATTAATTTGTTTCCT 58.956 34.615 19.32 3.91 44.83 3.36
1873 3142 7.550196 CAGCCTAATGCATTAATTTGTTTCCTT 59.450 33.333 19.32 0.00 44.83 3.36
1874 3143 7.765819 AGCCTAATGCATTAATTTGTTTCCTTC 59.234 33.333 19.32 0.00 44.83 3.46
1875 3144 7.011389 GCCTAATGCATTAATTTGTTTCCTTCC 59.989 37.037 19.32 0.00 40.77 3.46
1923 3192 2.028385 TGCAAAATGTACATGCATGGCA 60.028 40.909 29.41 25.49 44.52 4.92
1945 3214 2.618241 TGCATTCACCTTCTTGTGTGTC 59.382 45.455 0.00 0.00 37.51 3.67
1988 3258 6.417635 CGTTCTGTAGTTTTTGTCATGCAAAT 59.582 34.615 13.57 4.96 45.38 2.32
1989 3259 7.043458 CGTTCTGTAGTTTTTGTCATGCAAATT 60.043 33.333 13.57 7.55 45.38 1.82
2096 3370 6.952773 ACAATACAAACATGTAAGTGGTGT 57.047 33.333 12.03 11.86 0.00 4.16
2097 3371 9.557061 TTACAATACAAACATGTAAGTGGTGTA 57.443 29.630 12.03 14.43 35.30 2.90
2098 3372 7.867752 ACAATACAAACATGTAAGTGGTGTAC 58.132 34.615 12.03 0.00 31.11 2.90
2099 3373 6.715344 ATACAAACATGTAAGTGGTGTACG 57.285 37.500 12.03 0.00 31.11 3.67
2100 3374 4.444536 ACAAACATGTAAGTGGTGTACGT 58.555 39.130 0.00 0.00 0.00 3.57
2108 4249 2.389962 AGTGGTGTACGTTGTGTTGT 57.610 45.000 0.00 0.00 0.00 3.32
2123 4264 6.137926 CGTTGTGTTGTGTGTTTAGTTAATCG 59.862 38.462 0.00 0.00 0.00 3.34
2131 4272 6.987992 TGTGTGTTTAGTTAATCGTCTTCCTT 59.012 34.615 0.00 0.00 0.00 3.36
2133 4274 6.987992 TGTGTTTAGTTAATCGTCTTCCTTGT 59.012 34.615 0.00 0.00 0.00 3.16
2135 4276 8.645487 GTGTTTAGTTAATCGTCTTCCTTGTAG 58.355 37.037 0.00 0.00 0.00 2.74
2142 4283 9.148104 GTTAATCGTCTTCCTTGTAGTAAATGT 57.852 33.333 0.00 0.00 0.00 2.71
2143 4284 7.596749 AATCGTCTTCCTTGTAGTAAATGTG 57.403 36.000 0.00 0.00 0.00 3.21
2144 4285 6.092955 TCGTCTTCCTTGTAGTAAATGTGT 57.907 37.500 0.00 0.00 0.00 3.72
2146 4287 5.694910 CGTCTTCCTTGTAGTAAATGTGTGT 59.305 40.000 0.00 0.00 0.00 3.72
2153 4294 6.582295 CCTTGTAGTAAATGTGTGTGAATTGC 59.418 38.462 0.00 0.00 0.00 3.56
2175 4329 4.691216 GCTCGTTAATTCACTCACCTTCTT 59.309 41.667 0.00 0.00 0.00 2.52
2186 4340 2.291741 CTCACCTTCTTTTGAGCACCAC 59.708 50.000 0.00 0.00 33.23 4.16
2188 4342 2.426738 CACCTTCTTTTGAGCACCACAA 59.573 45.455 0.00 0.00 0.00 3.33
2208 5160 8.589338 ACCACAAAAACTTGTATGGCATTTATA 58.411 29.630 4.78 0.00 33.17 0.98
2250 5963 5.107143 CCTTTTTGCAAAACATATCCGGTTG 60.107 40.000 23.79 0.00 0.00 3.77
2263 5976 1.604755 TCCGGTTGTATTGTTGCACAC 59.395 47.619 0.00 0.00 0.00 3.82
2277 5992 4.250431 ACACGGTTGCAGCAACGC 62.250 61.111 28.00 20.34 44.36 4.84
2280 5995 2.026014 CGGTTGCAGCAACGCTTT 59.974 55.556 28.00 0.00 44.36 3.51
2300 6174 1.005748 CAGTCACGAGGCTTGCAGA 60.006 57.895 0.37 0.00 0.00 4.26
2301 6175 0.601046 CAGTCACGAGGCTTGCAGAA 60.601 55.000 0.37 0.00 0.00 3.02
2302 6176 0.320247 AGTCACGAGGCTTGCAGAAG 60.320 55.000 0.37 0.00 0.00 2.85
2303 6177 1.004560 TCACGAGGCTTGCAGAAGG 60.005 57.895 0.37 0.00 0.00 3.46
2304 6178 1.004560 CACGAGGCTTGCAGAAGGA 60.005 57.895 0.37 0.00 0.00 3.36
2305 6179 1.018226 CACGAGGCTTGCAGAAGGAG 61.018 60.000 0.37 0.00 0.00 3.69
2353 6633 2.435938 TGGATCGCCGGTCAAAGC 60.436 61.111 1.90 0.00 36.79 3.51
2369 6848 0.612744 AAGCTGTGAGAAGGAGGAGC 59.387 55.000 0.00 0.00 0.00 4.70
2370 6849 1.153667 GCTGTGAGAAGGAGGAGCG 60.154 63.158 0.00 0.00 0.00 5.03
2371 6850 1.153667 CTGTGAGAAGGAGGAGCGC 60.154 63.158 0.00 0.00 0.00 5.92
2373 6852 2.283894 TGAGAAGGAGGAGCGCCA 60.284 61.111 9.88 0.00 36.29 5.69
2389 6869 4.069232 CAGAGCGTTGGCCTCCGA 62.069 66.667 17.14 0.00 41.24 4.55
2415 6895 1.520120 CAGCCATGCATCGTCGTCT 60.520 57.895 0.00 0.00 0.00 4.18
2446 6926 1.802960 GATACATGCTGCATTCCTCCG 59.197 52.381 13.38 3.02 0.00 4.63
2447 6927 0.829990 TACATGCTGCATTCCTCCGA 59.170 50.000 13.38 0.00 0.00 4.55
2449 6929 0.873054 CATGCTGCATTCCTCCGATC 59.127 55.000 13.38 0.00 0.00 3.69
2450 6930 0.250640 ATGCTGCATTCCTCCGATCC 60.251 55.000 9.81 0.00 0.00 3.36
2451 6931 1.599240 GCTGCATTCCTCCGATCCC 60.599 63.158 0.00 0.00 0.00 3.85
2452 6932 1.301244 CTGCATTCCTCCGATCCCG 60.301 63.158 0.00 0.00 0.00 5.14
2453 6933 2.032860 CTGCATTCCTCCGATCCCGT 62.033 60.000 0.00 0.00 0.00 5.28
2454 6934 1.146263 GCATTCCTCCGATCCCGTT 59.854 57.895 0.00 0.00 0.00 4.44
2455 6935 1.160329 GCATTCCTCCGATCCCGTTG 61.160 60.000 0.00 0.00 0.00 4.10
2456 6936 0.178068 CATTCCTCCGATCCCGTTGT 59.822 55.000 0.00 0.00 0.00 3.32
2457 6937 1.411246 CATTCCTCCGATCCCGTTGTA 59.589 52.381 0.00 0.00 0.00 2.41
2458 6938 1.559368 TTCCTCCGATCCCGTTGTAA 58.441 50.000 0.00 0.00 0.00 2.41
2459 6939 1.108776 TCCTCCGATCCCGTTGTAAG 58.891 55.000 0.00 0.00 0.00 2.34
2491 6971 1.150536 TGCACGGGAAAGAAAGGCT 59.849 52.632 0.00 0.00 0.00 4.58
2492 6972 1.172180 TGCACGGGAAAGAAAGGCTG 61.172 55.000 0.00 0.00 0.00 4.85
2493 6973 0.889186 GCACGGGAAAGAAAGGCTGA 60.889 55.000 0.00 0.00 0.00 4.26
2494 6974 0.875059 CACGGGAAAGAAAGGCTGAC 59.125 55.000 0.00 0.00 0.00 3.51
2495 6975 0.765510 ACGGGAAAGAAAGGCTGACT 59.234 50.000 0.00 0.00 0.00 3.41
2544 7024 3.144871 TGCTGGGCATGCATGAGC 61.145 61.111 30.64 27.16 35.67 4.26
2545 7025 4.266070 GCTGGGCATGCATGAGCG 62.266 66.667 30.64 14.83 46.23 5.03
2546 7026 2.515290 CTGGGCATGCATGAGCGA 60.515 61.111 30.64 9.19 46.23 4.93
2547 7027 2.515290 TGGGCATGCATGAGCGAG 60.515 61.111 30.64 2.65 46.23 5.03
2548 7028 3.285215 GGGCATGCATGAGCGAGG 61.285 66.667 30.64 1.83 46.23 4.63
2549 7029 2.515523 GGCATGCATGAGCGAGGT 60.516 61.111 30.64 0.00 46.23 3.85
2550 7030 2.713770 GCATGCATGAGCGAGGTG 59.286 61.111 30.64 1.88 46.23 4.00
2551 7031 2.831366 GCATGCATGAGCGAGGTGG 61.831 63.158 30.64 0.00 46.23 4.61
2552 7032 1.153309 CATGCATGAGCGAGGTGGA 60.153 57.895 22.59 0.00 46.23 4.02
2553 7033 0.745486 CATGCATGAGCGAGGTGGAA 60.745 55.000 22.59 0.00 46.23 3.53
2554 7034 0.463295 ATGCATGAGCGAGGTGGAAG 60.463 55.000 0.00 0.00 46.23 3.46
2555 7035 1.078848 GCATGAGCGAGGTGGAAGT 60.079 57.895 0.00 0.00 0.00 3.01
2556 7036 1.086634 GCATGAGCGAGGTGGAAGTC 61.087 60.000 0.00 0.00 0.00 3.01
2557 7037 0.534412 CATGAGCGAGGTGGAAGTCT 59.466 55.000 0.00 0.00 0.00 3.24
2558 7038 1.751351 CATGAGCGAGGTGGAAGTCTA 59.249 52.381 0.00 0.00 0.00 2.59
2559 7039 1.174783 TGAGCGAGGTGGAAGTCTAC 58.825 55.000 0.00 0.00 0.00 2.59
2560 7040 1.174783 GAGCGAGGTGGAAGTCTACA 58.825 55.000 0.00 0.00 0.00 2.74
2561 7041 1.544691 GAGCGAGGTGGAAGTCTACAA 59.455 52.381 0.00 0.00 0.00 2.41
2562 7042 1.272769 AGCGAGGTGGAAGTCTACAAC 59.727 52.381 0.00 0.00 0.00 3.32
2563 7043 1.000506 GCGAGGTGGAAGTCTACAACA 59.999 52.381 0.00 0.00 0.00 3.33
2564 7044 2.927014 GCGAGGTGGAAGTCTACAACAG 60.927 54.545 0.00 0.00 0.00 3.16
2565 7045 2.689646 GAGGTGGAAGTCTACAACAGC 58.310 52.381 0.00 0.00 0.00 4.40
2566 7046 2.037251 GAGGTGGAAGTCTACAACAGCA 59.963 50.000 0.00 0.00 32.43 4.41
2567 7047 2.438021 AGGTGGAAGTCTACAACAGCAA 59.562 45.455 0.00 0.00 32.43 3.91
2568 7048 2.808543 GGTGGAAGTCTACAACAGCAAG 59.191 50.000 0.00 0.00 0.00 4.01
2569 7049 2.224314 GTGGAAGTCTACAACAGCAAGC 59.776 50.000 0.00 0.00 0.00 4.01
2570 7050 2.158827 TGGAAGTCTACAACAGCAAGCA 60.159 45.455 0.00 0.00 0.00 3.91
2571 7051 3.077359 GGAAGTCTACAACAGCAAGCAT 58.923 45.455 0.00 0.00 0.00 3.79
2572 7052 3.120060 GGAAGTCTACAACAGCAAGCATG 60.120 47.826 0.00 0.00 0.00 4.06
2586 7066 3.274586 CATGCGGCCGGTCTCATG 61.275 66.667 29.38 23.33 0.00 3.07
2591 7071 4.424711 GGCCGGTCTCATGCCCAA 62.425 66.667 1.90 0.00 39.30 4.12
2592 7072 2.124151 GCCGGTCTCATGCCCAAT 60.124 61.111 1.90 0.00 0.00 3.16
2593 7073 2.189499 GCCGGTCTCATGCCCAATC 61.189 63.158 1.90 0.00 0.00 2.67
2594 7074 1.526917 CCGGTCTCATGCCCAATCC 60.527 63.158 0.00 0.00 0.00 3.01
2595 7075 1.224315 CGGTCTCATGCCCAATCCA 59.776 57.895 0.00 0.00 0.00 3.41
2596 7076 0.179009 CGGTCTCATGCCCAATCCAT 60.179 55.000 0.00 0.00 0.00 3.41
2597 7077 1.613836 GGTCTCATGCCCAATCCATC 58.386 55.000 0.00 0.00 0.00 3.51
2598 7078 1.233019 GTCTCATGCCCAATCCATCG 58.767 55.000 0.00 0.00 0.00 3.84
2599 7079 0.535780 TCTCATGCCCAATCCATCGC 60.536 55.000 0.00 0.00 0.00 4.58
2600 7080 1.521450 CTCATGCCCAATCCATCGCC 61.521 60.000 0.00 0.00 0.00 5.54
2601 7081 2.203538 ATGCCCAATCCATCGCCC 60.204 61.111 0.00 0.00 0.00 6.13
2602 7082 3.072292 ATGCCCAATCCATCGCCCA 62.072 57.895 0.00 0.00 0.00 5.36
2603 7083 2.441901 GCCCAATCCATCGCCCAA 60.442 61.111 0.00 0.00 0.00 4.12
2604 7084 1.833934 GCCCAATCCATCGCCCAAT 60.834 57.895 0.00 0.00 0.00 3.16
2605 7085 1.402107 GCCCAATCCATCGCCCAATT 61.402 55.000 0.00 0.00 0.00 2.32
2606 7086 0.675633 CCCAATCCATCGCCCAATTC 59.324 55.000 0.00 0.00 0.00 2.17
2607 7087 0.675633 CCAATCCATCGCCCAATTCC 59.324 55.000 0.00 0.00 0.00 3.01
2608 7088 1.696063 CAATCCATCGCCCAATTCCT 58.304 50.000 0.00 0.00 0.00 3.36
2609 7089 2.488891 CCAATCCATCGCCCAATTCCTA 60.489 50.000 0.00 0.00 0.00 2.94
2610 7090 2.554032 CAATCCATCGCCCAATTCCTAC 59.446 50.000 0.00 0.00 0.00 3.18
2611 7091 1.208706 TCCATCGCCCAATTCCTACA 58.791 50.000 0.00 0.00 0.00 2.74
2612 7092 1.774254 TCCATCGCCCAATTCCTACAT 59.226 47.619 0.00 0.00 0.00 2.29
2613 7093 2.976185 TCCATCGCCCAATTCCTACATA 59.024 45.455 0.00 0.00 0.00 2.29
2614 7094 3.074412 CCATCGCCCAATTCCTACATAC 58.926 50.000 0.00 0.00 0.00 2.39
2615 7095 2.922740 TCGCCCAATTCCTACATACC 57.077 50.000 0.00 0.00 0.00 2.73
2616 7096 1.418637 TCGCCCAATTCCTACATACCC 59.581 52.381 0.00 0.00 0.00 3.69
2617 7097 1.142060 CGCCCAATTCCTACATACCCA 59.858 52.381 0.00 0.00 0.00 4.51
2618 7098 2.422235 CGCCCAATTCCTACATACCCAA 60.422 50.000 0.00 0.00 0.00 4.12
2619 7099 3.750599 CGCCCAATTCCTACATACCCAAT 60.751 47.826 0.00 0.00 0.00 3.16
2620 7100 3.826729 GCCCAATTCCTACATACCCAATC 59.173 47.826 0.00 0.00 0.00 2.67
2621 7101 4.072131 CCCAATTCCTACATACCCAATCG 58.928 47.826 0.00 0.00 0.00 3.34
2622 7102 4.202419 CCCAATTCCTACATACCCAATCGA 60.202 45.833 0.00 0.00 0.00 3.59
2623 7103 5.373222 CCAATTCCTACATACCCAATCGAA 58.627 41.667 0.00 0.00 0.00 3.71
2651 7131 7.557719 AGGGTTTACAATGAGTCAAGATAATGG 59.442 37.037 0.00 0.00 0.00 3.16
2664 7144 0.250901 ATAATGGATGGAGGCGGTGC 60.251 55.000 0.00 0.00 0.00 5.01
2722 7202 1.449601 CGGTTGGATCCTTGGACGG 60.450 63.158 14.23 7.20 0.00 4.79
2729 7209 4.577988 TGGATCCTTGGACGGAATTTTA 57.422 40.909 14.23 0.00 36.49 1.52
2761 7484 3.990245 AGTCCTAGGCCCATTTCCATAAT 59.010 43.478 2.96 0.00 0.00 1.28
2763 7486 5.797987 AGTCCTAGGCCCATTTCCATAATAT 59.202 40.000 2.96 0.00 0.00 1.28
2839 7562 6.980051 AGGAACATGTTATAAAGGTTCGTC 57.020 37.500 11.95 0.00 38.90 4.20
2842 7565 6.237755 GGAACATGTTATAAAGGTTCGTCGAG 60.238 42.308 11.95 0.00 38.90 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
118 119 8.901472 AGAGTATAAGATTGGAGTGGCATATA 57.099 34.615 0.00 0.00 0.00 0.86
142 144 7.490402 GGATTCTGGAAATGCAATAACAGAAAG 59.510 37.037 22.42 1.98 40.92 2.62
155 157 8.742777 TCTTTAATTCACAGGATTCTGGAAATG 58.257 33.333 5.84 0.00 44.99 2.32
160 162 5.067023 GCCTCTTTAATTCACAGGATTCTGG 59.933 44.000 5.84 0.00 44.99 3.86
170 172 6.645306 AGAGTCTTAGGCCTCTTTAATTCAC 58.355 40.000 9.68 0.00 34.40 3.18
200 202 8.621532 ATTGACATAAGTTGCTCTTCTTGTTA 57.378 30.769 0.00 0.59 37.56 2.41
211 213 7.802251 GCATCTATCTCAATTGACATAAGTTGC 59.198 37.037 3.38 11.78 0.00 4.17
263 265 0.689055 TGCCCATGCTAGCTATCCAG 59.311 55.000 17.23 1.11 38.71 3.86
281 283 9.874215 CTTTGTCAGTTCTTGCATACATATATG 57.126 33.333 11.29 11.29 41.16 1.78
282 284 8.562892 GCTTTGTCAGTTCTTGCATACATATAT 58.437 33.333 0.00 0.00 0.00 0.86
284 286 6.375174 TGCTTTGTCAGTTCTTGCATACATAT 59.625 34.615 0.00 0.00 0.00 1.78
285 287 5.704978 TGCTTTGTCAGTTCTTGCATACATA 59.295 36.000 0.00 0.00 0.00 2.29
289 561 5.512753 TTTGCTTTGTCAGTTCTTGCATA 57.487 34.783 0.00 0.00 0.00 3.14
323 595 7.039270 GCGATATGACAATACATGTACCCATA 58.961 38.462 7.96 12.66 44.12 2.74
392 698 1.770294 TTGGTGGTGGGTCAACTTTC 58.230 50.000 0.00 0.00 0.00 2.62
444 780 4.925390 AGAAAGAAAGAAGGGCATCTCT 57.075 40.909 0.00 0.00 0.00 3.10
470 806 8.744568 AGCTAAAAGGGAATCTTAAAGATGAG 57.255 34.615 0.00 0.00 34.65 2.90
532 868 8.773033 AGTGCCTTTCCAATTTCTTATATGAT 57.227 30.769 0.00 0.00 0.00 2.45
563 899 2.508526 ACTCCACAAAGGCACATCTTC 58.491 47.619 0.00 0.00 37.29 2.87
691 1041 6.487689 AATTCTAAGTTGTAGCAAGCAGTC 57.512 37.500 0.00 0.00 0.00 3.51
726 1076 9.607988 TGTAAGTCTTTGTAAAGATTTCACTGA 57.392 29.630 15.46 0.00 45.83 3.41
737 1455 7.916450 CCGTTCCAAAATGTAAGTCTTTGTAAA 59.084 33.333 0.00 0.00 0.00 2.01
743 1461 4.721132 TCCCGTTCCAAAATGTAAGTCTT 58.279 39.130 0.00 0.00 0.00 3.01
746 1464 3.073356 TCCTCCCGTTCCAAAATGTAAGT 59.927 43.478 0.00 0.00 0.00 2.24
748 1466 3.073356 ACTCCTCCCGTTCCAAAATGTAA 59.927 43.478 0.00 0.00 0.00 2.41
750 1468 1.423921 ACTCCTCCCGTTCCAAAATGT 59.576 47.619 0.00 0.00 0.00 2.71
752 1470 2.238898 CCTACTCCTCCCGTTCCAAAAT 59.761 50.000 0.00 0.00 0.00 1.82
754 1472 1.272807 CCTACTCCTCCCGTTCCAAA 58.727 55.000 0.00 0.00 0.00 3.28
759 1477 1.551019 GCCAACCTACTCCTCCCGTT 61.551 60.000 0.00 0.00 0.00 4.44
760 1478 1.988406 GCCAACCTACTCCTCCCGT 60.988 63.158 0.00 0.00 0.00 5.28
762 1480 1.627297 CCAGCCAACCTACTCCTCCC 61.627 65.000 0.00 0.00 0.00 4.30
763 1481 0.910088 ACCAGCCAACCTACTCCTCC 60.910 60.000 0.00 0.00 0.00 4.30
764 1482 0.537653 GACCAGCCAACCTACTCCTC 59.462 60.000 0.00 0.00 0.00 3.71
765 1483 0.178903 TGACCAGCCAACCTACTCCT 60.179 55.000 0.00 0.00 0.00 3.69
766 1484 0.036294 GTGACCAGCCAACCTACTCC 60.036 60.000 0.00 0.00 0.00 3.85
768 1486 1.072331 CAAGTGACCAGCCAACCTACT 59.928 52.381 0.00 0.00 0.00 2.57
769 1487 1.071699 TCAAGTGACCAGCCAACCTAC 59.928 52.381 0.00 0.00 0.00 3.18
771 1489 0.109342 CTCAAGTGACCAGCCAACCT 59.891 55.000 0.00 0.00 0.00 3.50
778 1997 0.389391 ACACCGTCTCAAGTGACCAG 59.611 55.000 0.00 0.00 37.43 4.00
791 2010 1.078214 CTGATCCCATGCACACCGT 60.078 57.895 0.00 0.00 0.00 4.83
792 2011 0.677731 AACTGATCCCATGCACACCG 60.678 55.000 0.00 0.00 0.00 4.94
828 2053 2.725641 GGCGTGTGGGTTTTGTCC 59.274 61.111 0.00 0.00 0.00 4.02
860 2085 2.358003 CATGCCCTAGCTAGCCGC 60.358 66.667 15.74 17.75 40.80 6.53
861 2086 2.358003 GCATGCCCTAGCTAGCCG 60.358 66.667 15.74 8.35 40.80 5.52
862 2087 2.033294 GGCATGCCCTAGCTAGCC 59.967 66.667 27.24 9.42 46.88 3.93
863 2088 1.302351 CAGGCATGCCCTAGCTAGC 60.302 63.158 33.14 6.62 44.09 3.42
879 2109 5.925397 GCATGTATATATAGCTAGCCTGCAG 59.075 44.000 12.13 6.78 34.99 4.41
882 2112 7.282332 TCTGCATGTATATATAGCTAGCCTG 57.718 40.000 12.13 0.00 0.00 4.85
883 2113 6.015519 GCTCTGCATGTATATATAGCTAGCCT 60.016 42.308 12.13 1.34 32.56 4.58
884 2114 6.015519 AGCTCTGCATGTATATATAGCTAGCC 60.016 42.308 12.13 0.00 37.30 3.93
885 2115 6.980593 AGCTCTGCATGTATATATAGCTAGC 58.019 40.000 6.62 6.62 37.30 3.42
887 2117 7.941790 AGCTAGCTCTGCATGTATATATAGCTA 59.058 37.037 12.68 9.85 40.16 3.32
888 2118 6.777091 AGCTAGCTCTGCATGTATATATAGCT 59.223 38.462 12.68 12.70 41.61 3.32
963 2206 2.158385 AGGTGGAGATGGGTAGCTCTAG 60.158 54.545 0.00 0.00 39.29 2.43
964 2207 1.860240 AGGTGGAGATGGGTAGCTCTA 59.140 52.381 0.00 0.00 39.29 2.43
965 2208 0.639392 AGGTGGAGATGGGTAGCTCT 59.361 55.000 0.00 0.00 39.29 4.09
966 2209 0.755686 CAGGTGGAGATGGGTAGCTC 59.244 60.000 0.00 0.00 38.61 4.09
972 2215 1.350351 GATGGATCAGGTGGAGATGGG 59.650 57.143 0.00 0.00 0.00 4.00
985 2228 2.332104 CACCATGTCGATCGATGGATC 58.668 52.381 33.69 17.72 41.63 3.36
989 2232 2.229039 GGCACCATGTCGATCGATG 58.771 57.895 22.50 16.06 0.00 3.84
1014 2280 2.659279 GGTGTTGTTGTTGTCGTTGTTG 59.341 45.455 0.00 0.00 0.00 3.33
1821 3090 0.034337 TGTAGTTGTGGCGGAAGGAC 59.966 55.000 0.00 0.00 0.00 3.85
1848 3117 7.186570 AGGAAACAAATTAATGCATTAGGCT 57.813 32.000 18.13 5.95 45.15 4.58
1856 3125 6.368791 GTGGAAGGAAGGAAACAAATTAATGC 59.631 38.462 0.00 0.00 0.00 3.56
1857 3126 6.873605 GGTGGAAGGAAGGAAACAAATTAATG 59.126 38.462 0.00 0.00 0.00 1.90
1861 3130 4.294347 TGGTGGAAGGAAGGAAACAAATT 58.706 39.130 0.00 0.00 0.00 1.82
1862 3131 3.922375 TGGTGGAAGGAAGGAAACAAAT 58.078 40.909 0.00 0.00 0.00 2.32
1864 3133 3.611025 ATGGTGGAAGGAAGGAAACAA 57.389 42.857 0.00 0.00 0.00 2.83
1865 3134 3.117322 TGAATGGTGGAAGGAAGGAAACA 60.117 43.478 0.00 0.00 0.00 2.83
1866 3135 3.496331 TGAATGGTGGAAGGAAGGAAAC 58.504 45.455 0.00 0.00 0.00 2.78
1867 3136 3.893753 TGAATGGTGGAAGGAAGGAAA 57.106 42.857 0.00 0.00 0.00 3.13
1868 3137 3.333381 TGATGAATGGTGGAAGGAAGGAA 59.667 43.478 0.00 0.00 0.00 3.36
1869 3138 2.918934 TGATGAATGGTGGAAGGAAGGA 59.081 45.455 0.00 0.00 0.00 3.36
1870 3139 3.054139 TCTGATGAATGGTGGAAGGAAGG 60.054 47.826 0.00 0.00 0.00 3.46
1871 3140 4.080695 TCTCTGATGAATGGTGGAAGGAAG 60.081 45.833 0.00 0.00 0.00 3.46
1872 3141 3.845992 TCTCTGATGAATGGTGGAAGGAA 59.154 43.478 0.00 0.00 0.00 3.36
1873 3142 3.453717 CTCTCTGATGAATGGTGGAAGGA 59.546 47.826 0.00 0.00 0.00 3.36
1874 3143 3.453717 TCTCTCTGATGAATGGTGGAAGG 59.546 47.826 0.00 0.00 0.00 3.46
1875 3144 4.405036 TCTCTCTCTGATGAATGGTGGAAG 59.595 45.833 0.00 0.00 0.00 3.46
1923 3192 3.225104 ACACACAAGAAGGTGAATGCAT 58.775 40.909 0.00 0.00 41.32 3.96
1959 3229 6.086765 GCATGACAAAAACTACAGAACGATTG 59.913 38.462 0.00 0.00 0.00 2.67
1988 3258 5.062433 CACCAAACGTACATATGCTCGTTAA 59.938 40.000 26.68 0.00 43.86 2.01
1989 3259 4.563580 CACCAAACGTACATATGCTCGTTA 59.436 41.667 26.68 3.15 43.86 3.18
2025 3299 5.278758 CCAAATTAAACCCTGCGAAGAAGAA 60.279 40.000 0.00 0.00 0.00 2.52
2026 3300 4.217550 CCAAATTAAACCCTGCGAAGAAGA 59.782 41.667 0.00 0.00 0.00 2.87
2027 3301 4.022329 ACCAAATTAAACCCTGCGAAGAAG 60.022 41.667 0.00 0.00 0.00 2.85
2028 3302 3.892588 ACCAAATTAAACCCTGCGAAGAA 59.107 39.130 0.00 0.00 0.00 2.52
2033 3307 3.056304 CAACACCAAATTAAACCCTGCG 58.944 45.455 0.00 0.00 0.00 5.18
2076 3350 6.225318 ACGTACACCACTTACATGTTTGTAT 58.775 36.000 2.30 0.00 38.12 2.29
2092 3366 1.733360 ACACACAACACAACGTACACC 59.267 47.619 0.00 0.00 0.00 4.16
2096 3370 5.859521 AACTAAACACACAACACAACGTA 57.140 34.783 0.00 0.00 0.00 3.57
2097 3371 4.752661 AACTAAACACACAACACAACGT 57.247 36.364 0.00 0.00 0.00 3.99
2098 3372 6.137926 CGATTAACTAAACACACAACACAACG 59.862 38.462 0.00 0.00 0.00 4.10
2099 3373 6.962678 ACGATTAACTAAACACACAACACAAC 59.037 34.615 0.00 0.00 0.00 3.32
2100 3374 7.064847 AGACGATTAACTAAACACACAACACAA 59.935 33.333 0.00 0.00 0.00 3.33
2108 4249 6.987992 ACAAGGAAGACGATTAACTAAACACA 59.012 34.615 0.00 0.00 0.00 3.72
2123 4264 6.704493 TCACACACATTTACTACAAGGAAGAC 59.296 38.462 0.00 0.00 0.00 3.01
2131 4272 6.347321 CGAGCAATTCACACACATTTACTACA 60.347 38.462 0.00 0.00 0.00 2.74
2133 4274 5.699001 ACGAGCAATTCACACACATTTACTA 59.301 36.000 0.00 0.00 0.00 1.82
2135 4276 4.783242 ACGAGCAATTCACACACATTTAC 58.217 39.130 0.00 0.00 0.00 2.01
2142 4283 5.681337 TGAATTAACGAGCAATTCACACA 57.319 34.783 15.03 0.00 43.81 3.72
2146 4287 5.106712 GGTGAGTGAATTAACGAGCAATTCA 60.107 40.000 15.03 15.03 45.50 2.57
2153 4294 6.787085 AAAGAAGGTGAGTGAATTAACGAG 57.213 37.500 0.00 0.00 0.00 4.18
2175 4329 4.264460 ACAAGTTTTTGTGGTGCTCAAA 57.736 36.364 0.00 0.00 45.54 2.69
2224 5176 5.221541 ACCGGATATGTTTTGCAAAAAGGAA 60.222 36.000 25.40 12.29 0.00 3.36
2228 5180 5.360591 ACAACCGGATATGTTTTGCAAAAA 58.639 33.333 25.40 15.82 0.00 1.94
2229 5181 4.950050 ACAACCGGATATGTTTTGCAAAA 58.050 34.783 20.46 20.46 0.00 2.44
2234 5186 6.034470 GCAACAATACAACCGGATATGTTTTG 59.966 38.462 25.07 25.07 41.34 2.44
2235 5187 6.096695 GCAACAATACAACCGGATATGTTTT 58.903 36.000 9.46 8.91 0.00 2.43
2236 5188 5.184096 TGCAACAATACAACCGGATATGTTT 59.816 36.000 9.46 2.57 0.00 2.83
2263 5976 2.026014 AAAGCGTTGCTGCAACCG 59.974 55.556 32.70 27.52 40.82 4.44
2273 5986 1.498865 CCTCGTGACTGCAAAGCGTT 61.499 55.000 0.00 0.00 0.00 4.84
2274 5987 1.956170 CCTCGTGACTGCAAAGCGT 60.956 57.895 0.00 0.00 0.00 5.07
2277 5992 0.236711 CAAGCCTCGTGACTGCAAAG 59.763 55.000 0.00 0.00 0.00 2.77
2280 5995 2.666190 GCAAGCCTCGTGACTGCA 60.666 61.111 0.00 0.00 0.00 4.41
2283 5998 0.320247 CTTCTGCAAGCCTCGTGACT 60.320 55.000 0.00 0.00 0.00 3.41
2300 6174 0.041833 TGAGGTAGCAGCTCCTCCTT 59.958 55.000 25.95 9.28 46.76 3.36
2301 6175 0.686112 GTGAGGTAGCAGCTCCTCCT 60.686 60.000 25.95 19.83 46.76 3.69
2302 6176 1.681486 GGTGAGGTAGCAGCTCCTCC 61.681 65.000 25.95 19.82 46.76 4.30
2304 6178 2.055042 CGGTGAGGTAGCAGCTCCT 61.055 63.158 11.91 11.91 41.77 3.69
2305 6179 2.496817 CGGTGAGGTAGCAGCTCC 59.503 66.667 0.00 0.00 41.77 4.70
2336 6289 2.435938 GCTTTGACCGGCGATCCA 60.436 61.111 9.30 0.00 0.00 3.41
2353 6633 1.153667 GCGCTCCTCCTTCTCACAG 60.154 63.158 0.00 0.00 0.00 3.66
2373 6852 4.070552 GTCGGAGGCCAACGCTCT 62.071 66.667 5.01 0.00 34.44 4.09
2405 6885 1.326852 ACGCTACAGTAGACGACGATG 59.673 52.381 22.97 0.00 32.43 3.84
2406 6886 1.326852 CACGCTACAGTAGACGACGAT 59.673 52.381 22.97 5.77 32.43 3.73
2407 6887 0.717784 CACGCTACAGTAGACGACGA 59.282 55.000 22.97 0.00 32.43 4.20
2408 6888 0.717784 TCACGCTACAGTAGACGACG 59.282 55.000 22.97 14.54 32.43 5.12
2412 6892 3.975670 GCATGTATCACGCTACAGTAGAC 59.024 47.826 12.15 2.16 35.21 2.59
2415 6895 3.795488 GCAGCATGTATCACGCTACAGTA 60.795 47.826 0.00 0.00 39.31 2.74
2453 6933 1.500108 CGGCCACGTTGTACTTACAA 58.500 50.000 2.24 0.00 43.32 2.41
2454 6934 3.198187 CGGCCACGTTGTACTTACA 57.802 52.632 2.24 0.00 34.81 2.41
2486 6966 0.538287 GCCAACCTTGAGTCAGCCTT 60.538 55.000 0.00 0.00 0.00 4.35
2487 6967 1.073897 GCCAACCTTGAGTCAGCCT 59.926 57.895 0.00 0.00 0.00 4.58
2491 6971 0.320374 CTACCGCCAACCTTGAGTCA 59.680 55.000 0.00 0.00 0.00 3.41
2492 6972 1.019805 GCTACCGCCAACCTTGAGTC 61.020 60.000 0.00 0.00 0.00 3.36
2493 6973 1.003718 GCTACCGCCAACCTTGAGT 60.004 57.895 0.00 0.00 0.00 3.41
2494 6974 3.890674 GCTACCGCCAACCTTGAG 58.109 61.111 0.00 0.00 0.00 3.02
2530 7010 2.515290 CTCGCTCATGCATGCCCA 60.515 61.111 22.25 3.99 39.64 5.36
2538 7018 0.534412 AGACTTCCACCTCGCTCATG 59.466 55.000 0.00 0.00 0.00 3.07
2539 7019 1.751924 GTAGACTTCCACCTCGCTCAT 59.248 52.381 0.00 0.00 0.00 2.90
2540 7020 1.174783 GTAGACTTCCACCTCGCTCA 58.825 55.000 0.00 0.00 0.00 4.26
2541 7021 1.174783 TGTAGACTTCCACCTCGCTC 58.825 55.000 0.00 0.00 0.00 5.03
2542 7022 1.272769 GTTGTAGACTTCCACCTCGCT 59.727 52.381 0.00 0.00 0.00 4.93
2543 7023 1.000506 TGTTGTAGACTTCCACCTCGC 59.999 52.381 0.00 0.00 0.00 5.03
2544 7024 2.927014 GCTGTTGTAGACTTCCACCTCG 60.927 54.545 0.00 0.00 0.00 4.63
2545 7025 2.037251 TGCTGTTGTAGACTTCCACCTC 59.963 50.000 0.00 0.00 0.00 3.85
2546 7026 2.047061 TGCTGTTGTAGACTTCCACCT 58.953 47.619 0.00 0.00 0.00 4.00
2547 7027 2.543777 TGCTGTTGTAGACTTCCACC 57.456 50.000 0.00 0.00 0.00 4.61
2548 7028 2.224314 GCTTGCTGTTGTAGACTTCCAC 59.776 50.000 0.00 0.00 0.00 4.02
2549 7029 2.158827 TGCTTGCTGTTGTAGACTTCCA 60.159 45.455 0.00 0.00 0.00 3.53
2550 7030 2.494059 TGCTTGCTGTTGTAGACTTCC 58.506 47.619 0.00 0.00 0.00 3.46
2551 7031 3.669023 GCATGCTTGCTGTTGTAGACTTC 60.669 47.826 16.80 0.00 45.77 3.01
2552 7032 2.227388 GCATGCTTGCTGTTGTAGACTT 59.773 45.455 16.80 0.00 45.77 3.01
2553 7033 1.808945 GCATGCTTGCTGTTGTAGACT 59.191 47.619 16.80 0.00 45.77 3.24
2554 7034 2.253392 GCATGCTTGCTGTTGTAGAC 57.747 50.000 16.80 0.00 45.77 2.59
2569 7049 3.274586 CATGAGACCGGCCGCATG 61.275 66.667 22.85 23.02 37.83 4.06
2578 7058 1.613836 GATGGATTGGGCATGAGACC 58.386 55.000 0.00 0.00 46.36 3.85
2579 7059 1.233019 CGATGGATTGGGCATGAGAC 58.767 55.000 0.00 0.00 0.00 3.36
2580 7060 0.535780 GCGATGGATTGGGCATGAGA 60.536 55.000 0.00 0.00 0.00 3.27
2581 7061 1.521450 GGCGATGGATTGGGCATGAG 61.521 60.000 0.00 0.00 0.00 2.90
2582 7062 1.529010 GGCGATGGATTGGGCATGA 60.529 57.895 0.00 0.00 0.00 3.07
2583 7063 2.567497 GGGCGATGGATTGGGCATG 61.567 63.158 0.00 0.00 0.00 4.06
2584 7064 2.203538 GGGCGATGGATTGGGCAT 60.204 61.111 0.00 0.00 0.00 4.40
2585 7065 2.586450 ATTGGGCGATGGATTGGGCA 62.586 55.000 0.00 0.00 0.00 5.36
2586 7066 1.402107 AATTGGGCGATGGATTGGGC 61.402 55.000 0.00 0.00 0.00 5.36
2587 7067 0.675633 GAATTGGGCGATGGATTGGG 59.324 55.000 0.00 0.00 0.00 4.12
2588 7068 0.675633 GGAATTGGGCGATGGATTGG 59.324 55.000 0.00 0.00 0.00 3.16
2589 7069 1.696063 AGGAATTGGGCGATGGATTG 58.304 50.000 0.00 0.00 0.00 2.67
2590 7070 2.174639 TGTAGGAATTGGGCGATGGATT 59.825 45.455 0.00 0.00 0.00 3.01
2591 7071 1.774254 TGTAGGAATTGGGCGATGGAT 59.226 47.619 0.00 0.00 0.00 3.41
2592 7072 1.208706 TGTAGGAATTGGGCGATGGA 58.791 50.000 0.00 0.00 0.00 3.41
2593 7073 2.276732 ATGTAGGAATTGGGCGATGG 57.723 50.000 0.00 0.00 0.00 3.51
2594 7074 3.074412 GGTATGTAGGAATTGGGCGATG 58.926 50.000 0.00 0.00 0.00 3.84
2595 7075 2.039879 GGGTATGTAGGAATTGGGCGAT 59.960 50.000 0.00 0.00 0.00 4.58
2596 7076 1.418637 GGGTATGTAGGAATTGGGCGA 59.581 52.381 0.00 0.00 0.00 5.54
2597 7077 1.142060 TGGGTATGTAGGAATTGGGCG 59.858 52.381 0.00 0.00 0.00 6.13
2598 7078 3.306472 TTGGGTATGTAGGAATTGGGC 57.694 47.619 0.00 0.00 0.00 5.36
2599 7079 4.072131 CGATTGGGTATGTAGGAATTGGG 58.928 47.826 0.00 0.00 0.00 4.12
2600 7080 4.968259 TCGATTGGGTATGTAGGAATTGG 58.032 43.478 0.00 0.00 0.00 3.16
2601 7081 7.334421 CCTATTCGATTGGGTATGTAGGAATTG 59.666 40.741 1.79 0.00 31.31 2.32
2602 7082 7.394816 CCTATTCGATTGGGTATGTAGGAATT 58.605 38.462 1.79 0.00 31.31 2.17
2603 7083 6.070194 CCCTATTCGATTGGGTATGTAGGAAT 60.070 42.308 8.64 0.00 40.01 3.01
2604 7084 5.247564 CCCTATTCGATTGGGTATGTAGGAA 59.752 44.000 8.64 0.00 40.01 3.36
2605 7085 4.775780 CCCTATTCGATTGGGTATGTAGGA 59.224 45.833 8.64 0.00 40.01 2.94
2606 7086 5.086104 CCCTATTCGATTGGGTATGTAGG 57.914 47.826 8.64 0.00 40.01 3.18
2615 7095 6.542370 ACTCATTGTAAACCCTATTCGATTGG 59.458 38.462 0.00 0.00 0.00 3.16
2616 7096 7.279981 TGACTCATTGTAAACCCTATTCGATTG 59.720 37.037 0.00 0.00 0.00 2.67
2617 7097 7.335627 TGACTCATTGTAAACCCTATTCGATT 58.664 34.615 0.00 0.00 0.00 3.34
2618 7098 6.884832 TGACTCATTGTAAACCCTATTCGAT 58.115 36.000 0.00 0.00 0.00 3.59
2619 7099 6.288941 TGACTCATTGTAAACCCTATTCGA 57.711 37.500 0.00 0.00 0.00 3.71
2620 7100 6.816640 TCTTGACTCATTGTAAACCCTATTCG 59.183 38.462 0.00 0.00 0.00 3.34
2621 7101 8.738645 ATCTTGACTCATTGTAAACCCTATTC 57.261 34.615 0.00 0.00 0.00 1.75
2649 7129 3.410628 ATGCACCGCCTCCATCCA 61.411 61.111 0.00 0.00 0.00 3.41
2651 7131 1.890979 CTCATGCACCGCCTCCATC 60.891 63.158 0.00 0.00 0.00 3.51
2722 7202 3.058224 AGGACTTGCACACGCTAAAATTC 60.058 43.478 0.00 0.00 39.64 2.17
2729 7209 1.293498 CCTAGGACTTGCACACGCT 59.707 57.895 1.05 0.00 39.64 5.07
2761 7484 9.689976 CATGGACTGAAACAATTGTAAACAATA 57.310 29.630 12.39 0.00 45.06 1.90
2763 7486 6.983307 CCATGGACTGAAACAATTGTAAACAA 59.017 34.615 12.39 0.00 40.51 2.83
2820 7543 5.957798 TCTCGACGAACCTTTATAACATGT 58.042 37.500 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.