Multiple sequence alignment - TraesCS7D01G161900

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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 TraesCS7D01G161900 chr7D 100.000 7356 0 0 491 7846 112045737 112053092 0.000000e+00 13585
1 TraesCS7D01G161900 chr7D 100.000 263 0 0 1 263 112045247 112045509 3.290000e-133 486
2 TraesCS7D01G161900 chr7D 83.410 217 22 8 7083 7291 112063456 112063666 1.040000e-43 189
3 TraesCS7D01G161900 chr7B 95.973 5935 165 32 1557 7455 71362363 71368259 0.000000e+00 9568
4 TraesCS7D01G161900 chr7B 89.040 1104 41 33 505 1547 71361295 71362379 0.000000e+00 1295
5 TraesCS7D01G161900 chr7B 94.231 156 4 4 7526 7681 71369857 71370007 4.730000e-57 233
6 TraesCS7D01G161900 chr7B 92.708 96 5 1 7721 7814 71370009 71370104 3.820000e-28 137
7 TraesCS7D01G161900 chr7B 88.073 109 10 3 1 106 71361004 71361112 8.270000e-25 126
8 TraesCS7D01G161900 chr7A 96.074 3668 97 12 2369 6025 116873445 116877076 0.000000e+00 5932
9 TraesCS7D01G161900 chr7A 93.844 1267 55 12 6054 7318 116877077 116878322 0.000000e+00 1886
10 TraesCS7D01G161900 chr7A 94.591 832 25 9 1533 2361 116872551 116873365 0.000000e+00 1269
11 TraesCS7D01G161900 chr7A 88.912 974 43 29 552 1493 116871602 116872542 0.000000e+00 1140
12 TraesCS7D01G161900 chr7A 84.892 139 13 7 54 188 116871001 116871135 4.940000e-27 134
13 TraesCS7D01G161900 chr2A 90.857 175 7 5 1025 1190 778407467 778407641 7.920000e-55 226
14 TraesCS7D01G161900 chr2A 96.774 93 3 0 2959 3051 778416479 778416571 1.050000e-33 156
15 TraesCS7D01G161900 chr2A 90.000 110 6 3 1185 1294 778416360 778416464 3.820000e-28 137
16 TraesCS7D01G161900 chr6B 87.156 109 14 0 1371 1479 140604465 140604357 2.970000e-24 124
17 TraesCS7D01G161900 chr6A 87.736 106 13 0 1371 1476 83251693 83251798 2.970000e-24 124
18 TraesCS7D01G161900 chr6D 86.239 109 15 0 1371 1479 65505127 65505019 1.380000e-22 119


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 TraesCS7D01G161900 chr7D 112045247 112053092 7845 False 7035.5 13585 100.0000 1 7846 2 chr7D.!!$F2 7845
1 TraesCS7D01G161900 chr7B 71361004 71370104 9100 False 2271.8 9568 92.0050 1 7814 5 chr7B.!!$F1 7813
2 TraesCS7D01G161900 chr7A 116871001 116878322 7321 False 2072.2 5932 91.6626 54 7318 5 chr7A.!!$F1 7264

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
941 1093 0.615850 GAAAGGTGGAGGAGGGACAG 59.384 60.000 0.00 0.00 0.00 3.51 F
1206 1383 0.320247 GTGCACCCAGAGTCAGTCAG 60.320 60.000 5.22 0.00 0.00 3.51 F
1560 1755 0.389817 CCATCTCGAACGCCACTGAA 60.390 55.000 0.00 0.00 0.00 3.02 F
1959 2155 1.203994 GCAATGCTGGCATCTGAACTT 59.796 47.619 8.57 0.00 35.31 2.66 F
3107 3387 0.955428 TGCGGTTCAGGATGCTGTTC 60.955 55.000 14.43 8.26 34.76 3.18 F
3220 3500 4.907457 CCTTCAGGTGTGCCACTT 57.093 55.556 0.00 0.00 37.19 3.16 F
4829 5147 0.322906 AGCAGGCCCTTTTACAGAGC 60.323 55.000 0.00 0.00 0.00 4.09 F
5158 5476 0.035725 TCAACTGCTCCATCTGCCAG 60.036 55.000 0.00 0.00 0.00 4.85 F
5327 5645 1.568504 AAGAAGCGATCCCTGTACCA 58.431 50.000 0.00 0.00 0.00 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2832 3112 2.028165 GCTGTCGCTCGATAAAACTGAC 59.972 50.000 0.00 0.0 0.00 3.51 R
2956 3236 1.386533 AGCAATAGTGTCTGCATGCC 58.613 50.000 16.68 0.0 41.17 4.40 R
3107 3387 1.736586 CCCCGAATCCTCAGTCTCG 59.263 63.158 0.00 0.0 0.00 4.04 R
3185 3465 2.807676 AGGTTCCGCCAATGAGAATTT 58.192 42.857 0.00 0.0 40.61 1.82 R
4829 5147 1.675483 TGTTGTAACTGCTGTTGCTGG 59.325 47.619 21.45 0.0 41.57 4.85 R
5095 5413 2.289072 GCAAGTGCTGAGTGAGACCTTA 60.289 50.000 0.00 0.0 38.21 2.69 R
5834 6155 0.180171 TTGTGGCTAGTGCAGTGTGT 59.820 50.000 3.69 0.0 41.91 3.72 R
6643 6966 0.242825 GGTGGGCGGTTTAAGAAAGC 59.757 55.000 0.00 0.0 35.62 3.51 R
6983 7307 1.305201 GGTTCGCTGAACACCTTTCA 58.695 50.000 18.49 0.0 43.54 2.69 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
179 197 2.263153 CCCGCGGGTGATTTTTCTT 58.737 52.632 36.64 0.00 0.00 2.52
182 200 1.402325 CCGCGGGTGATTTTTCTTTCC 60.402 52.381 20.10 0.00 0.00 3.13
532 568 2.439104 GCTTCCCATCTCGGCCTCT 61.439 63.158 0.00 0.00 0.00 3.69
569 701 3.403558 GCCTCCCTCCTCCCACAC 61.404 72.222 0.00 0.00 0.00 3.82
572 704 3.208592 TCCCTCCTCCCACACCCT 61.209 66.667 0.00 0.00 0.00 4.34
573 705 3.011517 CCCTCCTCCCACACCCTG 61.012 72.222 0.00 0.00 0.00 4.45
574 706 2.203998 CCTCCTCCCACACCCTGT 60.204 66.667 0.00 0.00 0.00 4.00
578 710 2.750350 CTCCCACACCCTGTGTCC 59.250 66.667 0.00 0.00 43.92 4.02
579 711 1.843376 CTCCCACACCCTGTGTCCT 60.843 63.158 0.00 0.00 43.92 3.85
883 1034 2.434185 TGTAGCTGGAAAGGCGCG 60.434 61.111 0.00 0.00 34.52 6.86
928 1080 1.069358 GCGCCTAGCTGATAGAAAGGT 59.931 52.381 0.67 0.00 44.04 3.50
936 1088 2.103941 GCTGATAGAAAGGTGGAGGAGG 59.896 54.545 0.00 0.00 0.00 4.30
941 1093 0.615850 GAAAGGTGGAGGAGGGACAG 59.384 60.000 0.00 0.00 0.00 3.51
942 1094 0.842467 AAAGGTGGAGGAGGGACAGG 60.842 60.000 0.00 0.00 0.00 4.00
951 1103 2.876858 AGGGACAGGAGGGGAGGT 60.877 66.667 0.00 0.00 0.00 3.85
1118 1276 1.636003 ACTCCAATTCCCCTCAAGGAC 59.364 52.381 0.00 0.00 38.24 3.85
1119 1277 0.999712 TCCAATTCCCCTCAAGGACC 59.000 55.000 0.00 0.00 38.24 4.46
1129 1299 3.112263 CCCTCAAGGACCCATTAGTACA 58.888 50.000 0.00 0.00 38.24 2.90
1141 1318 6.187682 ACCCATTAGTACAAGCTTAAGCATT 58.812 36.000 28.39 16.45 45.16 3.56
1203 1380 2.737180 CGTGCACCCAGAGTCAGT 59.263 61.111 12.15 0.00 0.00 3.41
1204 1381 1.373497 CGTGCACCCAGAGTCAGTC 60.373 63.158 12.15 0.00 0.00 3.51
1205 1382 1.748403 GTGCACCCAGAGTCAGTCA 59.252 57.895 5.22 0.00 0.00 3.41
1206 1383 0.320247 GTGCACCCAGAGTCAGTCAG 60.320 60.000 5.22 0.00 0.00 3.51
1272 1449 7.648908 CACAAGATTTGTACTTTTCTGCATGAA 59.351 33.333 0.00 0.00 43.23 2.57
1294 1471 5.064441 ACTTCCTATGAATGTTTGCAAGC 57.936 39.130 6.31 6.31 0.00 4.01
1295 1472 4.523943 ACTTCCTATGAATGTTTGCAAGCA 59.476 37.500 18.67 18.67 0.00 3.91
1296 1473 5.186409 ACTTCCTATGAATGTTTGCAAGCAT 59.814 36.000 21.53 21.53 0.00 3.79
1297 1474 5.001237 TCCTATGAATGTTTGCAAGCATG 57.999 39.130 26.65 14.75 29.93 4.06
1298 1475 4.463539 TCCTATGAATGTTTGCAAGCATGT 59.536 37.500 26.65 18.13 29.93 3.21
1299 1476 5.651576 TCCTATGAATGTTTGCAAGCATGTA 59.348 36.000 26.65 18.98 29.93 2.29
1305 1494 4.747540 TGTTTGCAAGCATGTACTACTG 57.252 40.909 12.36 0.00 0.00 2.74
1309 1498 6.261158 TGTTTGCAAGCATGTACTACTGTAAA 59.739 34.615 12.36 0.00 0.00 2.01
1493 1688 4.813161 CAGGTGCGTCATTTATCTCTCAAT 59.187 41.667 0.00 0.00 0.00 2.57
1494 1689 5.985530 CAGGTGCGTCATTTATCTCTCAATA 59.014 40.000 0.00 0.00 0.00 1.90
1531 1726 6.024552 TGCCAAAAATCATGACTAGTTTCC 57.975 37.500 0.00 0.00 0.00 3.13
1543 1738 4.202482 TGACTAGTTTCCGAAAATTCCCCA 60.202 41.667 0.00 0.00 0.00 4.96
1550 1745 2.237643 TCCGAAAATTCCCCATCTCGAA 59.762 45.455 0.00 0.00 0.00 3.71
1555 1750 1.622607 ATTCCCCATCTCGAACGCCA 61.623 55.000 0.00 0.00 0.00 5.69
1556 1751 2.511600 CCCCATCTCGAACGCCAC 60.512 66.667 0.00 0.00 0.00 5.01
1557 1752 2.579201 CCCATCTCGAACGCCACT 59.421 61.111 0.00 0.00 0.00 4.00
1558 1753 1.811266 CCCATCTCGAACGCCACTG 60.811 63.158 0.00 0.00 0.00 3.66
1559 1754 1.215382 CCATCTCGAACGCCACTGA 59.785 57.895 0.00 0.00 0.00 3.41
1560 1755 0.389817 CCATCTCGAACGCCACTGAA 60.390 55.000 0.00 0.00 0.00 3.02
1562 1757 1.391485 CATCTCGAACGCCACTGAAAG 59.609 52.381 0.00 0.00 42.29 2.62
1631 1827 3.117131 ACATCATCCCCAATTACCCTTCC 60.117 47.826 0.00 0.00 0.00 3.46
1720 1916 1.518325 TCTACCGTGGTTGCAATGTG 58.482 50.000 0.59 0.00 0.00 3.21
1863 2059 6.723131 ACAAAGTAAGTTAGCGGATTTCTC 57.277 37.500 0.00 0.00 0.00 2.87
1864 2060 6.465084 ACAAAGTAAGTTAGCGGATTTCTCT 58.535 36.000 0.00 0.00 0.00 3.10
1865 2061 6.935208 ACAAAGTAAGTTAGCGGATTTCTCTT 59.065 34.615 0.00 0.00 0.00 2.85
1866 2062 6.969828 AAGTAAGTTAGCGGATTTCTCTTG 57.030 37.500 0.00 0.00 0.00 3.02
1867 2063 6.282199 AGTAAGTTAGCGGATTTCTCTTGA 57.718 37.500 0.00 0.00 0.00 3.02
1877 2073 2.859165 TTTCTCTTGATTCCCGTGCT 57.141 45.000 0.00 0.00 0.00 4.40
1885 2081 3.066291 TGATTCCCGTGCTATGTGTTT 57.934 42.857 0.00 0.00 0.00 2.83
1959 2155 1.203994 GCAATGCTGGCATCTGAACTT 59.796 47.619 8.57 0.00 35.31 2.66
2098 2294 9.220906 TCCCACCACTAGTAAGAATAATTATGT 57.779 33.333 0.00 0.00 0.00 2.29
2413 2685 5.231702 AGTGGGCACAATTTCATTTTGAT 57.768 34.783 0.00 0.00 0.00 2.57
2675 2953 5.391416 GCTTTTAGCTGGTGATTCAGTTCTC 60.391 44.000 0.00 0.00 38.45 2.87
2832 3112 2.141517 CCTCAGCCAGCTTTATCATCG 58.858 52.381 0.00 0.00 0.00 3.84
2941 3221 6.770746 TCTACAATCCAAGGTAGTGTAGTC 57.229 41.667 17.37 0.00 41.47 2.59
2945 3225 5.221581 ACAATCCAAGGTAGTGTAGTCGTTT 60.222 40.000 0.00 0.00 0.00 3.60
2946 3226 4.942761 TCCAAGGTAGTGTAGTCGTTTT 57.057 40.909 0.00 0.00 0.00 2.43
2970 3250 1.408969 TATCCGGCATGCAGACACTA 58.591 50.000 21.36 2.58 0.00 2.74
2978 3258 3.567164 GGCATGCAGACACTATTGCTATT 59.433 43.478 21.36 0.00 40.87 1.73
3020 3300 2.871096 TTGTTTTGGATAGGGCGAGT 57.129 45.000 0.00 0.00 0.00 4.18
3107 3387 0.955428 TGCGGTTCAGGATGCTGTTC 60.955 55.000 14.43 8.26 34.76 3.18
3220 3500 4.907457 CCTTCAGGTGTGCCACTT 57.093 55.556 0.00 0.00 37.19 3.16
3246 3526 6.143438 GTCTCATTTTCAATTCTGCAGTGTTG 59.857 38.462 14.67 18.32 0.00 3.33
3254 3535 5.063817 TCAATTCTGCAGTGTTGTCATATCG 59.936 40.000 23.31 5.84 0.00 2.92
3283 3565 5.473504 CACCCAGCTGTGTTTAGTAAGAAAT 59.526 40.000 13.81 0.00 0.00 2.17
3346 3628 6.006275 ACCCTGACACTGAGCAAATATTAT 57.994 37.500 0.00 0.00 0.00 1.28
3347 3629 7.136822 ACCCTGACACTGAGCAAATATTATA 57.863 36.000 0.00 0.00 0.00 0.98
3348 3630 7.220030 ACCCTGACACTGAGCAAATATTATAG 58.780 38.462 0.00 0.00 0.00 1.31
3403 3689 8.985315 ATGATATTTGCATTTCTCCTGACTTA 57.015 30.769 0.00 0.00 0.00 2.24
3614 3903 9.529823 TCTATGTATGGTAGTATGGTTTAGGAG 57.470 37.037 0.00 0.00 0.00 3.69
3623 3912 7.232127 GGTAGTATGGTTTAGGAGCAGTACATA 59.768 40.741 0.00 0.00 39.48 2.29
3708 3997 5.921004 TTTTGTTGCATTCATAAACTGGC 57.079 34.783 0.00 0.00 0.00 4.85
3983 4301 8.686334 TCAGTTTTAAGCACTTTTCTGAAGATT 58.314 29.630 0.00 0.00 0.00 2.40
3984 4302 9.305925 CAGTTTTAAGCACTTTTCTGAAGATTT 57.694 29.630 0.00 0.00 0.00 2.17
3985 4303 9.305925 AGTTTTAAGCACTTTTCTGAAGATTTG 57.694 29.630 0.00 0.00 0.00 2.32
3986 4304 9.087424 GTTTTAAGCACTTTTCTGAAGATTTGT 57.913 29.630 0.00 0.00 0.00 2.83
3987 4305 9.651913 TTTTAAGCACTTTTCTGAAGATTTGTT 57.348 25.926 0.00 0.00 0.00 2.83
3988 4306 9.651913 TTTAAGCACTTTTCTGAAGATTTGTTT 57.348 25.926 0.00 0.00 0.00 2.83
3989 4307 7.529880 AAGCACTTTTCTGAAGATTTGTTTG 57.470 32.000 0.00 0.00 0.00 2.93
3990 4308 6.044682 AGCACTTTTCTGAAGATTTGTTTGG 58.955 36.000 0.00 0.00 0.00 3.28
3991 4309 5.812127 GCACTTTTCTGAAGATTTGTTTGGT 59.188 36.000 0.00 0.00 0.00 3.67
3992 4310 6.019559 GCACTTTTCTGAAGATTTGTTTGGTC 60.020 38.462 0.00 0.00 0.00 4.02
3993 4311 7.035004 CACTTTTCTGAAGATTTGTTTGGTCA 58.965 34.615 0.00 0.00 0.00 4.02
3994 4312 7.707893 CACTTTTCTGAAGATTTGTTTGGTCAT 59.292 33.333 0.00 0.00 0.00 3.06
3995 4313 8.260114 ACTTTTCTGAAGATTTGTTTGGTCATT 58.740 29.630 0.00 0.00 0.00 2.57
4013 4331 9.853555 TTGGTCATTATATAACTTGCAAACTTG 57.146 29.630 0.00 0.00 0.00 3.16
4829 5147 0.322906 AGCAGGCCCTTTTACAGAGC 60.323 55.000 0.00 0.00 0.00 4.09
4892 5210 2.159407 GCTCCAGCTGCTTCAAAAGATC 60.159 50.000 8.66 0.00 38.21 2.75
4940 5258 3.120385 CCGCAGCATCAGTCGCAA 61.120 61.111 0.00 0.00 0.00 4.85
5158 5476 0.035725 TCAACTGCTCCATCTGCCAG 60.036 55.000 0.00 0.00 0.00 4.85
5249 5567 4.142622 ACATCGCCACATATTGACAACTTG 60.143 41.667 0.00 0.00 0.00 3.16
5327 5645 1.568504 AAGAAGCGATCCCTGTACCA 58.431 50.000 0.00 0.00 0.00 3.25
5766 6084 8.488668 AGGTTGGTACTGTTTACTTTTAAGAGA 58.511 33.333 0.00 0.00 0.00 3.10
5832 6153 9.530633 GTGAAGTACCCTGTGAAGTATATTTAG 57.469 37.037 0.00 0.00 0.00 1.85
5845 6166 8.528643 TGAAGTATATTTAGTACACACTGCACT 58.471 33.333 0.00 0.00 36.14 4.40
5910 6231 4.951603 ACTTGATTCTGGATTGGGGAATT 58.048 39.130 0.00 0.00 30.98 2.17
5986 6309 4.937015 GCCCTGCAAATTCATAAAACATGT 59.063 37.500 0.00 0.00 0.00 3.21
6016 6339 6.723298 TCAACTCCTTTGCAAATCCTTTAA 57.277 33.333 13.23 0.00 34.88 1.52
6174 6497 3.304391 CCATGGAGGTTGTGTTTGTAACG 60.304 47.826 5.56 0.00 0.00 3.18
6233 6556 8.329502 AGTTATCCTGTTTTGCTAGGACTAAAT 58.670 33.333 0.00 0.00 45.30 1.40
6288 6611 4.024048 CCTGTTCCAAAGTCACATGTGTAC 60.024 45.833 24.63 19.73 0.00 2.90
6313 6636 3.550678 GTCCTAACCTAACAATCGAAGCG 59.449 47.826 0.00 0.00 0.00 4.68
6318 6641 2.028385 ACCTAACAATCGAAGCGTCCTT 60.028 45.455 0.00 0.00 0.00 3.36
6358 6681 8.899771 CACCCAAGTTATTCTTAATTCCGTATT 58.100 33.333 0.00 0.00 34.66 1.89
6643 6966 5.055642 TCTATCCAGTATTATCCGCAACG 57.944 43.478 0.00 0.00 0.00 4.10
6983 7307 6.527423 ACAAAATTGATCAAATGCTTCTGGT 58.473 32.000 13.09 0.00 0.00 4.00
7046 7371 4.435121 CGTCTTGTTCCCACTAAAATACGC 60.435 45.833 0.00 0.00 0.00 4.42
7048 7373 5.180680 GTCTTGTTCCCACTAAAATACGCTT 59.819 40.000 0.00 0.00 0.00 4.68
7098 7423 4.229876 GTTTTTGGCATACAGAACTGCTC 58.770 43.478 1.46 0.00 38.45 4.26
7206 7531 4.055360 TGCGATTTATGTACCTTCCGATG 58.945 43.478 0.00 0.00 0.00 3.84
7207 7532 4.056050 GCGATTTATGTACCTTCCGATGT 58.944 43.478 0.00 0.00 0.00 3.06
7208 7533 5.221283 TGCGATTTATGTACCTTCCGATGTA 60.221 40.000 0.00 0.00 0.00 2.29
7226 7551 7.776969 TCCGATGTAGTAATAGTTCCACTACTT 59.223 37.037 11.23 6.09 43.23 2.24
7227 7552 9.060347 CCGATGTAGTAATAGTTCCACTACTTA 57.940 37.037 11.23 0.00 43.23 2.24
7261 7586 6.670695 AAAAGTTGTATTGGCCAGAGAAAT 57.329 33.333 5.11 0.00 0.00 2.17
7287 7612 6.360370 TGCTCCAGTGTCTAAAGAATTACT 57.640 37.500 0.00 0.00 0.00 2.24
7291 7616 7.817962 GCTCCAGTGTCTAAAGAATTACTACAA 59.182 37.037 0.00 0.00 0.00 2.41
7293 7618 8.644216 TCCAGTGTCTAAAGAATTACTACAACA 58.356 33.333 0.00 0.00 0.00 3.33
7294 7619 8.709646 CCAGTGTCTAAAGAATTACTACAACAC 58.290 37.037 0.00 0.00 34.88 3.32
7300 7625 9.826574 TCTAAAGAATTACTACAACACTTGTGT 57.173 29.630 0.00 0.00 45.03 3.72
7334 7660 0.539051 AGTGTAGATGAGCCAGCACC 59.461 55.000 0.00 0.00 0.00 5.01
7347 7673 1.682854 CCAGCACCAACTCACAATTGT 59.317 47.619 4.92 4.92 0.00 2.71
7366 7692 3.391965 TGTGAATGTTTGCCTTTCATGC 58.608 40.909 0.00 0.00 38.86 4.06
7390 7716 4.760204 CGTTCCTAGTTTTCACTTTGGGAT 59.240 41.667 0.00 0.00 34.06 3.85
7403 7729 0.766131 TTGGGATACGTGTGGTGGTT 59.234 50.000 0.00 0.00 37.60 3.67
7453 7779 3.399305 AGGGAGAGAAAAACATTGGGAGT 59.601 43.478 0.00 0.00 0.00 3.85
7454 7780 3.759086 GGGAGAGAAAAACATTGGGAGTC 59.241 47.826 0.00 0.00 0.00 3.36
7455 7781 4.507512 GGGAGAGAAAAACATTGGGAGTCT 60.508 45.833 0.00 0.00 0.00 3.24
7456 7782 5.073428 GGAGAGAAAAACATTGGGAGTCTT 58.927 41.667 0.00 0.00 0.00 3.01
7457 7783 5.182190 GGAGAGAAAAACATTGGGAGTCTTC 59.818 44.000 0.00 0.00 0.00 2.87
7458 7784 5.946486 AGAGAAAAACATTGGGAGTCTTCT 58.054 37.500 0.00 0.00 0.00 2.85
7459 7785 5.767168 AGAGAAAAACATTGGGAGTCTTCTG 59.233 40.000 0.00 0.00 0.00 3.02
7460 7786 4.279420 AGAAAAACATTGGGAGTCTTCTGC 59.721 41.667 0.00 0.00 0.00 4.26
7461 7787 1.813513 AACATTGGGAGTCTTCTGCG 58.186 50.000 0.00 0.00 32.69 5.18
7462 7788 0.687354 ACATTGGGAGTCTTCTGCGT 59.313 50.000 0.00 0.00 32.69 5.24
7463 7789 1.072331 ACATTGGGAGTCTTCTGCGTT 59.928 47.619 0.00 0.00 32.69 4.84
7464 7790 2.154462 CATTGGGAGTCTTCTGCGTTT 58.846 47.619 0.00 0.00 32.69 3.60
7465 7791 2.341846 TTGGGAGTCTTCTGCGTTTT 57.658 45.000 0.00 0.00 32.69 2.43
7466 7792 1.878953 TGGGAGTCTTCTGCGTTTTC 58.121 50.000 0.00 0.00 32.69 2.29
7467 7793 1.416401 TGGGAGTCTTCTGCGTTTTCT 59.584 47.619 0.00 0.00 32.69 2.52
7468 7794 2.158813 TGGGAGTCTTCTGCGTTTTCTT 60.159 45.455 0.00 0.00 32.69 2.52
7469 7795 2.224314 GGGAGTCTTCTGCGTTTTCTTG 59.776 50.000 0.00 0.00 32.69 3.02
7470 7796 3.131396 GGAGTCTTCTGCGTTTTCTTGA 58.869 45.455 0.00 0.00 0.00 3.02
7471 7797 3.560068 GGAGTCTTCTGCGTTTTCTTGAA 59.440 43.478 0.00 0.00 0.00 2.69
7472 7798 4.035208 GGAGTCTTCTGCGTTTTCTTGAAA 59.965 41.667 0.00 0.00 0.00 2.69
7473 7799 5.448632 GGAGTCTTCTGCGTTTTCTTGAAAA 60.449 40.000 4.61 4.61 0.00 2.29
7474 7800 5.949735 AGTCTTCTGCGTTTTCTTGAAAAA 58.050 33.333 9.71 0.00 0.00 1.94
7527 7853 1.660167 GGTAAATACCACCGGTGCTC 58.340 55.000 29.75 12.14 45.73 4.26
7556 9446 0.521735 GCTTTTGTTGGAGTAGGGCG 59.478 55.000 0.00 0.00 0.00 6.13
7562 9452 0.879090 GTTGGAGTAGGGCGTTTTGG 59.121 55.000 0.00 0.00 0.00 3.28
7687 9577 8.442632 AGGATGAAATATGTAAGATGTGTGTG 57.557 34.615 0.00 0.00 0.00 3.82
7688 9578 8.049117 AGGATGAAATATGTAAGATGTGTGTGT 58.951 33.333 0.00 0.00 0.00 3.72
7689 9579 8.124823 GGATGAAATATGTAAGATGTGTGTGTG 58.875 37.037 0.00 0.00 0.00 3.82
7690 9580 7.977789 TGAAATATGTAAGATGTGTGTGTGT 57.022 32.000 0.00 0.00 0.00 3.72
7691 9581 7.805700 TGAAATATGTAAGATGTGTGTGTGTG 58.194 34.615 0.00 0.00 0.00 3.82
7692 9582 7.443879 TGAAATATGTAAGATGTGTGTGTGTGT 59.556 33.333 0.00 0.00 0.00 3.72
7693 9583 6.726258 ATATGTAAGATGTGTGTGTGTGTG 57.274 37.500 0.00 0.00 0.00 3.82
7694 9584 3.867857 TGTAAGATGTGTGTGTGTGTGT 58.132 40.909 0.00 0.00 0.00 3.72
7695 9585 3.620821 TGTAAGATGTGTGTGTGTGTGTG 59.379 43.478 0.00 0.00 0.00 3.82
7696 9586 2.401583 AGATGTGTGTGTGTGTGTGT 57.598 45.000 0.00 0.00 0.00 3.72
7697 9587 2.009051 AGATGTGTGTGTGTGTGTGTG 58.991 47.619 0.00 0.00 0.00 3.82
7698 9588 1.737236 GATGTGTGTGTGTGTGTGTGT 59.263 47.619 0.00 0.00 0.00 3.72
7699 9589 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7700 9590 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7701 9591 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7702 9592 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7703 9593 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7704 9594 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7705 9595 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7706 9596 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7707 9597 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7708 9598 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7709 9599 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7710 9600 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7711 9601 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7712 9602 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7713 9603 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7714 9604 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7715 9605 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7716 9606 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7717 9607 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7718 9608 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
7719 9609 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
7748 9638 4.933400 ACAAGATGAAATGCCTTGAATTGC 59.067 37.500 0.00 0.00 39.55 3.56
7752 9644 4.191033 TGAAATGCCTTGAATTGCGATT 57.809 36.364 0.00 0.00 0.00 3.34
7819 9711 9.982651 AGTAATATAGTATCACGTGCTGAAAAT 57.017 29.630 11.67 0.00 30.60 1.82
7830 9722 8.138365 TCACGTGCTGAAAATAATAATACTCC 57.862 34.615 11.67 0.00 0.00 3.85
7831 9723 7.985184 TCACGTGCTGAAAATAATAATACTCCT 59.015 33.333 11.67 0.00 0.00 3.69
7832 9724 9.256477 CACGTGCTGAAAATAATAATACTCCTA 57.744 33.333 0.82 0.00 0.00 2.94
7833 9725 9.257651 ACGTGCTGAAAATAATAATACTCCTAC 57.742 33.333 0.00 0.00 0.00 3.18
7834 9726 9.477484 CGTGCTGAAAATAATAATACTCCTACT 57.523 33.333 0.00 0.00 0.00 2.57
7845 9737 5.373812 AATACTCCTACTCAACCATTGGG 57.626 43.478 7.78 0.00 41.29 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 2.028925 GTTTGCCTTGGCCCGTTG 59.971 61.111 9.35 0.00 0.00 4.10
36 37 1.007387 GGCTTGTCGGTTTGCCTTG 60.007 57.895 0.00 0.00 41.92 3.61
37 38 2.551912 CGGCTTGTCGGTTTGCCTT 61.552 57.895 0.00 0.00 42.90 4.35
38 39 2.978010 CGGCTTGTCGGTTTGCCT 60.978 61.111 0.00 0.00 42.90 4.75
39 40 4.700365 GCGGCTTGTCGGTTTGCC 62.700 66.667 0.00 0.00 41.76 4.52
40 41 4.700365 GGCGGCTTGTCGGTTTGC 62.700 66.667 0.00 0.00 0.00 3.68
41 42 4.038080 GGGCGGCTTGTCGGTTTG 62.038 66.667 9.56 0.00 0.00 2.93
179 197 2.754658 GGACCGAGCGAGAGGGAA 60.755 66.667 0.00 0.00 0.00 3.97
490 526 3.732849 GAGGGGGAAGGCCAGTGG 61.733 72.222 5.01 4.20 35.15 4.00
491 527 3.732849 GGAGGGGGAAGGCCAGTG 61.733 72.222 5.01 0.00 35.15 3.66
505 541 2.770048 ATGGGAAGCGAGGGGGAG 60.770 66.667 0.00 0.00 0.00 4.30
506 542 2.768344 GATGGGAAGCGAGGGGGA 60.768 66.667 0.00 0.00 0.00 4.81
514 550 2.110006 GAGGCCGAGATGGGAAGC 59.890 66.667 0.00 0.00 38.63 3.86
569 701 4.087892 CGGCCAGAGGACACAGGG 62.088 72.222 2.24 0.00 0.00 4.45
572 704 3.311110 GGACGGCCAGAGGACACA 61.311 66.667 0.00 0.00 0.00 3.72
573 705 4.083862 GGGACGGCCAGAGGACAC 62.084 72.222 11.00 0.00 35.15 3.67
767 915 1.209275 CGTAAAGCGAGAGATGCCCG 61.209 60.000 0.00 0.00 44.77 6.13
908 1059 1.069358 ACCTTTCTATCAGCTAGGCGC 59.931 52.381 0.00 0.00 39.57 6.53
911 1062 3.323403 CCTCCACCTTTCTATCAGCTAGG 59.677 52.174 0.00 0.00 0.00 3.02
913 1065 4.219115 CTCCTCCACCTTTCTATCAGCTA 58.781 47.826 0.00 0.00 0.00 3.32
922 1074 0.615850 CTGTCCCTCCTCCACCTTTC 59.384 60.000 0.00 0.00 0.00 2.62
928 1080 2.780693 CCTCCTGTCCCTCCTCCA 59.219 66.667 0.00 0.00 0.00 3.86
936 1088 2.553438 ATCCACCTCCCCTCCTGTCC 62.553 65.000 0.00 0.00 0.00 4.02
941 1093 0.977395 CGAATATCCACCTCCCCTCC 59.023 60.000 0.00 0.00 0.00 4.30
942 1094 0.321996 GCGAATATCCACCTCCCCTC 59.678 60.000 0.00 0.00 0.00 4.30
951 1103 2.094906 CCTTCCGATACGCGAATATCCA 60.095 50.000 15.93 0.00 44.57 3.41
1097 1255 2.844348 GTCCTTGAGGGGAATTGGAGTA 59.156 50.000 0.00 0.00 37.10 2.59
1102 1260 0.704076 TGGGTCCTTGAGGGGAATTG 59.296 55.000 0.00 0.00 37.10 2.32
1118 1276 6.699575 AATGCTTAAGCTTGTACTAATGGG 57.300 37.500 26.90 0.00 42.66 4.00
1119 1277 7.912250 CAGAAATGCTTAAGCTTGTACTAATGG 59.088 37.037 26.90 7.03 42.66 3.16
1129 1299 4.390909 GCAAATGCAGAAATGCTTAAGCTT 59.609 37.500 26.90 18.70 40.62 3.74
1141 1318 6.330004 TGAATGAACTTAGCAAATGCAGAA 57.670 33.333 8.28 0.71 45.16 3.02
1203 1380 0.602638 CAACCAACCGCTACAGCTGA 60.603 55.000 23.35 2.95 39.32 4.26
1204 1381 1.868997 CAACCAACCGCTACAGCTG 59.131 57.895 13.48 13.48 39.32 4.24
1205 1382 1.966451 GCAACCAACCGCTACAGCT 60.966 57.895 0.00 0.00 39.32 4.24
1206 1383 1.791103 TTGCAACCAACCGCTACAGC 61.791 55.000 0.00 0.00 37.78 4.40
1272 1449 4.523943 TGCTTGCAAACATTCATAGGAAGT 59.476 37.500 0.00 0.00 36.25 3.01
1294 1471 7.772166 TCCATCAGACTTTACAGTAGTACATG 58.228 38.462 2.52 0.00 31.22 3.21
1295 1472 7.956328 TCCATCAGACTTTACAGTAGTACAT 57.044 36.000 2.52 0.00 31.22 2.29
1296 1473 7.630728 GCATCCATCAGACTTTACAGTAGTACA 60.631 40.741 2.52 0.00 31.22 2.90
1297 1474 6.697892 GCATCCATCAGACTTTACAGTAGTAC 59.302 42.308 0.00 0.00 31.22 2.73
1298 1475 6.379988 TGCATCCATCAGACTTTACAGTAGTA 59.620 38.462 0.00 0.00 31.22 1.82
1299 1476 5.187772 TGCATCCATCAGACTTTACAGTAGT 59.812 40.000 0.00 0.00 31.22 2.73
1305 1494 4.256920 ACAGTGCATCCATCAGACTTTAC 58.743 43.478 0.00 0.00 0.00 2.01
1309 1498 3.517100 ACTTACAGTGCATCCATCAGACT 59.483 43.478 0.00 0.00 0.00 3.24
1439 1634 1.402456 CCCTGTGGAAAGTAGACGACG 60.402 57.143 0.00 0.00 0.00 5.12
1493 1688 6.716934 TTTTTGGCATGTTTCCTACAGTTA 57.283 33.333 0.00 0.00 40.83 2.24
1494 1689 5.606348 TTTTTGGCATGTTTCCTACAGTT 57.394 34.783 0.00 0.00 40.83 3.16
1531 1726 2.030457 CGTTCGAGATGGGGAATTTTCG 59.970 50.000 0.00 0.00 0.00 3.46
1543 1738 1.000955 ACTTTCAGTGGCGTTCGAGAT 59.999 47.619 0.00 0.00 0.00 2.75
1550 1745 1.228154 GGGGAACTTTCAGTGGCGT 60.228 57.895 0.00 0.00 0.00 5.68
1555 1750 2.158460 CCAAGAAGGGGGAACTTTCAGT 60.158 50.000 0.00 0.00 0.00 3.41
1556 1751 2.519013 CCAAGAAGGGGGAACTTTCAG 58.481 52.381 0.00 0.00 0.00 3.02
1557 1752 2.675658 CCAAGAAGGGGGAACTTTCA 57.324 50.000 0.00 0.00 0.00 2.69
1631 1827 3.118482 TGCAGATCAGCTTAGAAGGAAGG 60.118 47.826 11.68 0.00 34.99 3.46
1720 1916 7.203218 AGAATAGAAACAAAAGGCAAACTGTC 58.797 34.615 0.00 0.00 0.00 3.51
1863 2059 2.632377 ACACATAGCACGGGAATCAAG 58.368 47.619 0.00 0.00 0.00 3.02
1864 2060 2.779755 ACACATAGCACGGGAATCAA 57.220 45.000 0.00 0.00 0.00 2.57
1865 2061 2.779755 AACACATAGCACGGGAATCA 57.220 45.000 0.00 0.00 0.00 2.57
1866 2062 3.689649 AGAAAACACATAGCACGGGAATC 59.310 43.478 0.00 0.00 0.00 2.52
1867 2063 3.686016 AGAAAACACATAGCACGGGAAT 58.314 40.909 0.00 0.00 0.00 3.01
1959 2155 2.098614 TGCTTGTTTTGCTTCAGACCA 58.901 42.857 0.00 0.00 0.00 4.02
2331 2531 8.026607 GCTAAACATAAGTAATTGCTCCACAAA 58.973 33.333 0.00 0.00 42.86 2.83
2413 2685 7.939039 AGTCCATGAAAATCAACAGAGAAGTTA 59.061 33.333 0.00 0.00 0.00 2.24
2526 2798 3.758023 CTGTTGATTGACCAGCCAACATA 59.242 43.478 14.72 1.16 45.01 2.29
2743 3023 6.010219 CCCTGAAAAAGAAGTTTAGGATCCA 58.990 40.000 15.82 0.00 0.00 3.41
2832 3112 2.028165 GCTGTCGCTCGATAAAACTGAC 59.972 50.000 0.00 0.00 0.00 3.51
2945 3225 2.618241 GTCTGCATGCCGGATATCAAAA 59.382 45.455 16.68 0.00 0.00 2.44
2946 3226 2.221169 GTCTGCATGCCGGATATCAAA 58.779 47.619 16.68 0.00 0.00 2.69
2956 3236 1.386533 AGCAATAGTGTCTGCATGCC 58.613 50.000 16.68 0.00 41.17 4.40
2978 3258 8.575589 ACAAATGTTATGAGTTTATTGTGCTGA 58.424 29.630 0.00 0.00 0.00 4.26
3020 3300 4.868172 AGGGATGACAAATTCTGATGGA 57.132 40.909 0.00 0.00 0.00 3.41
3107 3387 1.736586 CCCCGAATCCTCAGTCTCG 59.263 63.158 0.00 0.00 0.00 4.04
3185 3465 2.807676 AGGTTCCGCCAATGAGAATTT 58.192 42.857 0.00 0.00 40.61 1.82
3220 3500 5.300034 ACACTGCAGAATTGAAAATGAGACA 59.700 36.000 23.35 0.00 0.00 3.41
3246 3526 4.081972 ACAGCTGGGTGATATCGATATGAC 60.082 45.833 22.37 22.34 0.00 3.06
3254 3535 4.770795 ACTAAACACAGCTGGGTGATATC 58.229 43.478 25.17 0.00 41.32 1.63
3283 3565 5.883685 AGCTGACTATTTGATGGAGATGA 57.116 39.130 0.00 0.00 0.00 2.92
3348 3630 8.969267 CGTTTGTCTCAGATTATTGGTATCTAC 58.031 37.037 0.00 0.00 31.32 2.59
3367 3649 9.885743 GAAATGCAAATATCATTTACGTTTGTC 57.114 29.630 0.00 0.00 42.30 3.18
3403 3689 6.665248 CCAACCTATCTTGGAAAAAGGAGATT 59.335 38.462 0.00 0.00 43.19 2.40
3708 3997 8.816640 AACTTAAGTTTGCAATGTCCTAAATG 57.183 30.769 15.22 0.00 33.93 2.32
3804 4093 4.523083 ACTCCACACTTCTTGCTGTTAAA 58.477 39.130 0.00 0.00 0.00 1.52
3984 4302 9.632807 GTTTGCAAGTTATATAATGACCAAACA 57.367 29.630 22.80 7.08 38.56 2.83
3985 4303 9.855021 AGTTTGCAAGTTATATAATGACCAAAC 57.145 29.630 21.63 21.63 38.83 2.93
3987 4305 9.853555 CAAGTTTGCAAGTTATATAATGACCAA 57.146 29.630 0.00 0.00 0.00 3.67
3988 4306 9.237187 TCAAGTTTGCAAGTTATATAATGACCA 57.763 29.630 0.00 0.00 0.00 4.02
4013 4331 6.965500 CGCCTTCATCATCTGCAAAATATATC 59.035 38.462 0.00 0.00 0.00 1.63
4442 4760 2.950309 GAGATGAATGGCATTCTGCTGT 59.050 45.455 33.21 19.78 44.28 4.40
4829 5147 1.675483 TGTTGTAACTGCTGTTGCTGG 59.325 47.619 21.45 0.00 41.57 4.85
4892 5210 6.381481 TGAGATAACATATTTTGCTGCTGG 57.619 37.500 0.00 0.00 0.00 4.85
4940 5258 7.692460 TTTCTGAGATAACTGTTGCATCAAT 57.308 32.000 2.69 0.00 0.00 2.57
5095 5413 2.289072 GCAAGTGCTGAGTGAGACCTTA 60.289 50.000 0.00 0.00 38.21 2.69
5158 5476 5.862924 TGAATTCATTGGAGAAAGACGAC 57.137 39.130 3.38 0.00 0.00 4.34
5249 5567 3.431233 GCTTGCTTTGAATTTCCTGAAGC 59.569 43.478 16.20 16.20 42.19 3.86
5313 5631 1.202486 TCGATTTGGTACAGGGATCGC 60.202 52.381 0.54 0.54 42.62 4.58
5327 5645 5.989477 TGATCTGAAACTGGGTATCGATTT 58.011 37.500 1.71 0.00 0.00 2.17
5766 6084 5.449588 CGTGTAGGTATCCGTGATAAACACT 60.450 44.000 19.20 10.37 46.24 3.55
5832 6153 1.270094 TGTGGCTAGTGCAGTGTGTAC 60.270 52.381 3.69 0.00 41.91 2.90
5834 6155 0.180171 TTGTGGCTAGTGCAGTGTGT 59.820 50.000 3.69 0.00 41.91 3.72
5845 6166 3.432186 GCATGTAGGATCAGTTGTGGCTA 60.432 47.826 0.00 0.00 0.00 3.93
5846 6167 2.681976 GCATGTAGGATCAGTTGTGGCT 60.682 50.000 0.00 0.00 0.00 4.75
5940 6261 9.788889 GGGCTATATACAAACCAACTATTAGTT 57.211 33.333 3.16 3.16 39.39 2.24
5941 6262 9.167387 AGGGCTATATACAAACCAACTATTAGT 57.833 33.333 0.00 0.00 0.00 2.24
5942 6263 9.436957 CAGGGCTATATACAAACCAACTATTAG 57.563 37.037 0.00 0.00 0.00 1.73
5943 6264 7.881232 GCAGGGCTATATACAAACCAACTATTA 59.119 37.037 0.00 0.00 0.00 0.98
5944 6265 6.715264 GCAGGGCTATATACAAACCAACTATT 59.285 38.462 0.00 0.00 0.00 1.73
5945 6266 6.183361 TGCAGGGCTATATACAAACCAACTAT 60.183 38.462 0.00 0.00 0.00 2.12
5957 6280 9.360901 TGTTTTATGAATTTGCAGGGCTATATA 57.639 29.630 0.00 0.00 0.00 0.86
5986 6309 6.093357 GGATTTGCAAAGGAGTTGAAAAACAA 59.907 34.615 18.19 0.00 45.93 2.83
5998 6321 4.283212 CAGGGTTAAAGGATTTGCAAAGGA 59.717 41.667 18.19 0.00 39.63 3.36
5999 6322 4.568956 CAGGGTTAAAGGATTTGCAAAGG 58.431 43.478 18.19 0.00 39.63 3.11
6000 6323 3.996363 GCAGGGTTAAAGGATTTGCAAAG 59.004 43.478 18.19 0.08 39.63 2.77
6001 6324 3.389329 TGCAGGGTTAAAGGATTTGCAAA 59.611 39.130 15.44 15.44 39.63 3.68
6002 6325 2.968574 TGCAGGGTTAAAGGATTTGCAA 59.031 40.909 0.00 0.00 39.63 4.08
6003 6326 2.603021 TGCAGGGTTAAAGGATTTGCA 58.397 42.857 0.00 0.00 39.63 4.08
6004 6327 3.676291 TTGCAGGGTTAAAGGATTTGC 57.324 42.857 0.00 0.00 39.63 3.68
6005 6328 7.386059 ACTAATTTGCAGGGTTAAAGGATTTG 58.614 34.615 0.00 0.00 39.63 2.32
6006 6329 7.553504 ACTAATTTGCAGGGTTAAAGGATTT 57.446 32.000 0.00 0.00 43.42 2.17
6007 6330 8.113462 TCTACTAATTTGCAGGGTTAAAGGATT 58.887 33.333 0.00 0.00 0.00 3.01
6008 6331 7.639378 TCTACTAATTTGCAGGGTTAAAGGAT 58.361 34.615 0.00 0.00 0.00 3.24
6016 6339 4.650972 TGGTTCTACTAATTTGCAGGGT 57.349 40.909 0.00 0.00 0.00 4.34
6078 6401 1.202698 GCTACATAACAGCCTCCCTGG 60.203 57.143 0.00 0.00 46.14 4.45
6174 6497 9.956720 CAAAATAGACATGGATATGGAGAAAAC 57.043 33.333 0.00 0.00 38.66 2.43
6233 6556 6.730507 TGATGCTCCAGGACATAAGGATAATA 59.269 38.462 4.93 0.00 0.00 0.98
6288 6611 5.063564 GCTTCGATTGTTAGGTTAGGACTTG 59.936 44.000 0.00 0.00 0.00 3.16
6313 6636 8.974060 TTGGGTGTAAATAATGATCTAAGGAC 57.026 34.615 0.00 0.00 0.00 3.85
6358 6681 9.767684 CACATAACAAAAATTAATGCTACTCGA 57.232 29.630 0.00 0.00 0.00 4.04
6643 6966 0.242825 GGTGGGCGGTTTAAGAAAGC 59.757 55.000 0.00 0.00 35.62 3.51
6983 7307 1.305201 GGTTCGCTGAACACCTTTCA 58.695 50.000 18.49 0.00 43.54 2.69
7098 7423 6.363577 ACACATGTAGCTTATGAAATTCGG 57.636 37.500 15.19 0.00 0.00 4.30
7227 7552 8.520351 GGCCAATACAACTTTTTACTTCAGTAT 58.480 33.333 0.00 0.00 0.00 2.12
7261 7586 2.889512 TCTTTAGACACTGGAGCAGGA 58.110 47.619 0.00 0.00 35.51 3.86
7293 7618 6.260936 CACTATGGAGAGAACAAAACACAAGT 59.739 38.462 0.00 0.00 0.00 3.16
7294 7619 6.260936 ACACTATGGAGAGAACAAAACACAAG 59.739 38.462 0.00 0.00 0.00 3.16
7296 7621 5.680619 ACACTATGGAGAGAACAAAACACA 58.319 37.500 0.00 0.00 0.00 3.72
7297 7622 7.152645 TCTACACTATGGAGAGAACAAAACAC 58.847 38.462 0.00 0.00 30.99 3.32
7298 7623 7.297936 TCTACACTATGGAGAGAACAAAACA 57.702 36.000 0.00 0.00 30.99 2.83
7299 7624 8.035394 TCATCTACACTATGGAGAGAACAAAAC 58.965 37.037 0.00 0.00 41.36 2.43
7300 7625 8.134202 TCATCTACACTATGGAGAGAACAAAA 57.866 34.615 0.00 0.00 41.36 2.44
7366 7692 3.252458 CCCAAAGTGAAAACTAGGAACGG 59.748 47.826 0.00 0.00 0.00 4.44
7390 7716 1.446791 GGTCCAACCACCACACGTA 59.553 57.895 0.00 0.00 38.42 3.57
7403 7729 0.754957 CAAAAGCACTGGTGGGTCCA 60.755 55.000 2.84 0.00 45.01 4.02
7412 7738 3.120199 CCCTCGATACAACAAAAGCACTG 60.120 47.826 0.00 0.00 0.00 3.66
7417 7743 5.073311 TCTCTCCCTCGATACAACAAAAG 57.927 43.478 0.00 0.00 0.00 2.27
7485 7811 2.753247 AGTCTGACATTAGGGACTCCC 58.247 52.381 10.88 5.90 45.90 4.30
7486 7812 3.118592 CCAAGTCTGACATTAGGGACTCC 60.119 52.174 10.88 0.00 41.75 3.85
7487 7813 3.118592 CCCAAGTCTGACATTAGGGACTC 60.119 52.174 16.85 0.00 41.75 3.36
7488 7814 2.840651 CCCAAGTCTGACATTAGGGACT 59.159 50.000 16.85 0.00 46.37 3.85
7489 7815 2.572104 ACCCAAGTCTGACATTAGGGAC 59.428 50.000 24.17 0.00 38.21 4.46
7499 7825 3.055675 CGGTGGTATTTACCCAAGTCTGA 60.056 47.826 4.35 0.00 45.87 3.27
7527 7853 8.237267 CCTACTCCAACAAAAGCAGTAAATAAG 58.763 37.037 0.00 0.00 0.00 1.73
7556 9446 2.265904 GGAGCCCCGTCACCAAAAC 61.266 63.158 0.00 0.00 0.00 2.43
7562 9452 1.450312 CTTCATGGAGCCCCGTCAC 60.450 63.158 0.00 0.00 34.29 3.67
7600 9490 9.238368 ACCGAAAAGTCTGGATTTTGATTATTA 57.762 29.630 0.00 0.00 30.22 0.98
7601 9491 8.122472 ACCGAAAAGTCTGGATTTTGATTATT 57.878 30.769 0.00 0.00 30.22 1.40
7602 9492 7.703058 ACCGAAAAGTCTGGATTTTGATTAT 57.297 32.000 0.00 0.00 30.22 1.28
7603 9493 7.519032 AACCGAAAAGTCTGGATTTTGATTA 57.481 32.000 0.00 0.00 30.22 1.75
7674 9564 3.621268 ACACACACACACACACATCTTAC 59.379 43.478 0.00 0.00 0.00 2.34
7681 9571 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7682 9572 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7683 9573 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7684 9574 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7685 9575 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7686 9576 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7687 9577 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7688 9578 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7689 9579 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7690 9580 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7691 9581 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7692 9582 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7693 9583 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7694 9584 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7695 9585 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7696 9586 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7697 9587 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7698 9588 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7699 9589 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
7700 9590 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
7701 9591 1.152510 TCACACACACACACACACAC 58.847 50.000 0.00 0.00 0.00 3.82
7702 9592 1.884235 TTCACACACACACACACACA 58.116 45.000 0.00 0.00 0.00 3.72
7703 9593 4.811555 ATATTCACACACACACACACAC 57.188 40.909 0.00 0.00 0.00 3.82
7704 9594 5.360591 TGTATATTCACACACACACACACA 58.639 37.500 0.00 0.00 0.00 3.72
7705 9595 5.915812 TGTATATTCACACACACACACAC 57.084 39.130 0.00 0.00 0.00 3.82
7706 9596 6.284459 TCTTGTATATTCACACACACACACA 58.716 36.000 0.00 0.00 0.00 3.72
7707 9597 6.779115 TCTTGTATATTCACACACACACAC 57.221 37.500 0.00 0.00 0.00 3.82
7708 9598 7.158021 TCATCTTGTATATTCACACACACACA 58.842 34.615 0.00 0.00 0.00 3.72
7709 9599 7.595311 TCATCTTGTATATTCACACACACAC 57.405 36.000 0.00 0.00 0.00 3.82
7710 9600 8.614469 TTTCATCTTGTATATTCACACACACA 57.386 30.769 0.00 0.00 0.00 3.72
7711 9601 9.494479 CATTTCATCTTGTATATTCACACACAC 57.506 33.333 0.00 0.00 0.00 3.82
7712 9602 8.183536 GCATTTCATCTTGTATATTCACACACA 58.816 33.333 0.00 0.00 0.00 3.72
7713 9603 7.645340 GGCATTTCATCTTGTATATTCACACAC 59.355 37.037 0.00 0.00 0.00 3.82
7714 9604 7.557358 AGGCATTTCATCTTGTATATTCACACA 59.443 33.333 0.00 0.00 0.00 3.72
7715 9605 7.934457 AGGCATTTCATCTTGTATATTCACAC 58.066 34.615 0.00 0.00 0.00 3.82
7716 9606 8.407832 CAAGGCATTTCATCTTGTATATTCACA 58.592 33.333 0.00 0.00 34.76 3.58
7717 9607 8.623903 TCAAGGCATTTCATCTTGTATATTCAC 58.376 33.333 0.00 0.00 38.99 3.18
7718 9608 8.750515 TCAAGGCATTTCATCTTGTATATTCA 57.249 30.769 0.00 0.00 38.99 2.57
7771 9663 6.962182 ACTATTCATCCTCAAAGTCCATGAA 58.038 36.000 0.00 0.00 37.75 2.57
7808 9700 9.477484 AGTAGGAGTATTATTATTTTCAGCACG 57.523 33.333 0.00 0.00 0.00 5.34
7819 9711 8.656806 CCCAATGGTTGAGTAGGAGTATTATTA 58.343 37.037 0.00 0.00 0.00 0.98
7820 9712 7.518188 CCCAATGGTTGAGTAGGAGTATTATT 58.482 38.462 0.00 0.00 0.00 1.40
7821 9713 7.079451 CCCAATGGTTGAGTAGGAGTATTAT 57.921 40.000 0.00 0.00 0.00 1.28
7822 9714 6.494666 CCCAATGGTTGAGTAGGAGTATTA 57.505 41.667 0.00 0.00 0.00 0.98
7823 9715 5.373812 CCCAATGGTTGAGTAGGAGTATT 57.626 43.478 0.00 0.00 0.00 1.89


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

AutoCloner maintained by Alex Coulton.