Multiple sequence alignment - TraesCS7D01G338500

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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 TraesCS7D01G338500 chr7D 100.000 7993 0 0 1 7993 431937068 431929076 0.000000e+00 14761.0
1 TraesCS7D01G338500 chr7B 96.322 4405 124 19 2115 6502 450565018 450569401 0.000000e+00 7203.0
2 TraesCS7D01G338500 chr7B 93.524 2023 70 27 115 2116 450562956 450564938 0.000000e+00 2953.0
3 TraesCS7D01G338500 chr7B 89.531 1471 83 22 6542 7957 450569412 450570866 0.000000e+00 1797.0
4 TraesCS7D01G338500 chr7B 95.161 62 3 0 1 62 671585176 671585237 1.840000e-16 99.0
5 TraesCS7D01G338500 chr7B 93.651 63 4 0 1 63 412543731 412543669 2.370000e-15 95.3
6 TraesCS7D01G338500 chr7B 97.619 42 0 1 62 103 450562798 450562838 4.000000e-08 71.3
7 TraesCS7D01G338500 chr7A 97.635 3002 49 12 3178 6168 501058988 501061978 0.000000e+00 5131.0
8 TraesCS7D01G338500 chr7A 94.658 2752 96 23 115 2853 501056035 501058748 0.000000e+00 4220.0
9 TraesCS7D01G338500 chr7A 88.229 909 64 17 6422 7322 501061972 501062845 0.000000e+00 1046.0
10 TraesCS7D01G338500 chr7A 82.448 621 54 23 7376 7957 501062844 501063448 7.210000e-135 492.0
11 TraesCS7D01G338500 chr7A 89.928 139 11 1 4736 4874 686805271 686805136 8.240000e-40 176.0
12 TraesCS7D01G338500 chr7A 96.386 83 2 1 2929 3011 501058745 501058826 1.400000e-27 135.0
13 TraesCS7D01G338500 chr7A 93.548 62 4 0 1 62 20732982 20732921 8.540000e-15 93.5
14 TraesCS7D01G338500 chr1D 90.909 803 49 12 4073 4874 468887210 468887989 0.000000e+00 1057.0
15 TraesCS7D01G338500 chr1D 90.311 805 51 13 4073 4874 49519566 49520346 0.000000e+00 1029.0
16 TraesCS7D01G338500 chr4D 90.773 802 47 13 4076 4874 500521924 500521147 0.000000e+00 1046.0
17 TraesCS7D01G338500 chr4D 98.182 55 1 0 1 55 30415697 30415643 6.600000e-16 97.1
18 TraesCS7D01G338500 chr1B 88.998 509 30 13 4376 4874 46149830 46150322 2.470000e-169 606.0
19 TraesCS7D01G338500 chr1B 92.469 239 13 1 4073 4311 46139480 46139713 3.570000e-88 337.0
20 TraesCS7D01G338500 chr5D 90.116 344 23 5 4208 4549 445653645 445653979 3.430000e-118 436.0
21 TraesCS7D01G338500 chr5D 89.826 344 24 5 4208 4549 445651784 445652118 1.590000e-116 431.0
22 TraesCS7D01G338500 chr4A 96.610 59 2 0 1 59 434312149 434312207 1.840000e-16 99.0
23 TraesCS7D01G338500 chr4A 95.000 60 3 0 1 60 497558963 497559022 2.370000e-15 95.3
24 TraesCS7D01G338500 chr6A 98.182 55 1 0 1 55 12857137 12857191 6.600000e-16 97.1
25 TraesCS7D01G338500 chr6B 91.045 67 6 0 1 67 691135659 691135593 3.070000e-14 91.6
26 TraesCS7D01G338500 chr2D 89.706 68 7 0 1 68 384255218 384255285 3.970000e-13 87.9
27 TraesCS7D01G338500 chr4B 100.000 31 0 0 7175 7205 417132601 417132631 3.120000e-04 58.4


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 TraesCS7D01G338500 chr7D 431929076 431937068 7992 True 14761.000 14761 100.0000 1 7993 1 chr7D.!!$R1 7992
1 TraesCS7D01G338500 chr7B 450562798 450570866 8068 False 3006.075 7203 94.2490 62 7957 4 chr7B.!!$F2 7895
2 TraesCS7D01G338500 chr7A 501056035 501063448 7413 False 2204.800 5131 91.8712 115 7957 5 chr7A.!!$F1 7842
3 TraesCS7D01G338500 chr1D 468887210 468887989 779 False 1057.000 1057 90.9090 4073 4874 1 chr1D.!!$F2 801
4 TraesCS7D01G338500 chr1D 49519566 49520346 780 False 1029.000 1029 90.3110 4073 4874 1 chr1D.!!$F1 801
5 TraesCS7D01G338500 chr4D 500521147 500521924 777 True 1046.000 1046 90.7730 4076 4874 1 chr4D.!!$R2 798
6 TraesCS7D01G338500 chr5D 445651784 445653979 2195 False 433.500 436 89.9710 4208 4549 2 chr5D.!!$F1 341

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
654 780 0.693767 CCCATCAGCTCTTCCTCCCT 60.694 60.000 0.00 0.00 0.00 4.20 F
1260 1395 1.001487 TGCCAGTGTGATTTTCAAGCG 60.001 47.619 0.00 0.00 0.00 4.68 F
1544 1683 1.552578 TGATGCCATGCTTTGCTTCT 58.447 45.000 11.14 0.00 33.98 2.85 F
2876 3107 1.131638 TCAGTTCTGCACTTCCACCT 58.868 50.000 0.00 0.00 30.92 4.00 F
3673 4011 0.839277 TGATGATCATTCCCGTGCCT 59.161 50.000 10.14 0.00 0.00 4.75 F
3801 4141 0.872388 CGAACCTTGCGGCTAAAACT 59.128 50.000 0.00 0.00 0.00 2.66 F
4591 4947 0.469494 TTCTGCCTGCTCTTGTGTCA 59.531 50.000 0.00 0.00 0.00 3.58 F
5651 6012 9.719279 GATCATTTTGTTGCAAATTTGAAAGAA 57.281 25.926 22.31 18.71 28.07 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2010 2159 4.229876 GCTAACTTTCCTTGCATGACAAC 58.770 43.478 0.00 0.0 33.68 3.32 R
2575 2806 5.186942 TGCAAAACACTCACAGTACCTAAA 58.813 37.500 0.00 0.0 0.00 1.85 R
3380 3718 3.119637 ACGTGCAGCAACTAAAAACAACT 60.120 39.130 0.00 0.0 0.00 3.16 R
3889 4238 1.830279 TGCCATCTGAAAGGAAGCAG 58.170 50.000 3.94 0.0 0.00 4.24 R
4591 4947 4.526650 GGATGTACACCCAACTGGATTTTT 59.473 41.667 0.00 0.0 37.39 1.94 R
5038 5398 4.951254 TGACATCTGTTCTTTCGTAACCA 58.049 39.130 0.00 0.0 0.00 3.67 R
5950 6311 1.002366 CCTGCTCGTCACACAATAGC 58.998 55.000 0.00 0.0 0.00 2.97 R
7407 7780 0.100325 TTTTGTGCCAAGACAGCGTG 59.900 50.000 0.00 0.0 0.00 5.34 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
49 50 9.490379 AAATGCTCTTATATTAGTTTACGGAGG 57.510 33.333 0.00 0.00 0.00 4.30
50 51 6.989659 TGCTCTTATATTAGTTTACGGAGGG 58.010 40.000 0.00 0.00 0.00 4.30
51 52 6.779049 TGCTCTTATATTAGTTTACGGAGGGA 59.221 38.462 0.00 0.00 0.00 4.20
52 53 7.039923 TGCTCTTATATTAGTTTACGGAGGGAG 60.040 40.741 0.00 0.00 0.00 4.30
54 55 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
55 56 9.512588 TCTTATATTAGTTTACGGAGGGAGTAG 57.487 37.037 0.00 0.00 0.00 2.57
56 57 9.512588 CTTATATTAGTTTACGGAGGGAGTAGA 57.487 37.037 0.00 0.00 0.00 2.59
57 58 9.866655 TTATATTAGTTTACGGAGGGAGTAGAA 57.133 33.333 0.00 0.00 0.00 2.10
58 59 8.953223 ATATTAGTTTACGGAGGGAGTAGAAT 57.047 34.615 0.00 0.00 0.00 2.40
60 61 7.573968 TTAGTTTACGGAGGGAGTAGAATAC 57.426 40.000 0.00 0.00 43.47 1.89
213 321 5.203358 TCGACGTTATTGATGAAAAGCAG 57.797 39.130 0.00 0.00 0.00 4.24
370 483 7.235430 AGAGCAATATCAAAACTAAGCGTAC 57.765 36.000 0.00 0.00 0.00 3.67
508 633 7.446769 ACAAAATAAAGGCGGAAATAAAACCT 58.553 30.769 0.00 0.00 0.00 3.50
654 780 0.693767 CCCATCAGCTCTTCCTCCCT 60.694 60.000 0.00 0.00 0.00 4.20
655 781 1.211456 CCATCAGCTCTTCCTCCCTT 58.789 55.000 0.00 0.00 0.00 3.95
656 782 1.134159 CCATCAGCTCTTCCTCCCTTG 60.134 57.143 0.00 0.00 0.00 3.61
660 786 3.002371 CTCTTCCTCCCTTGCCCC 58.998 66.667 0.00 0.00 0.00 5.80
662 788 2.615288 CTTCCTCCCTTGCCCCCT 60.615 66.667 0.00 0.00 0.00 4.79
669 795 4.366684 CCTTGCCCCCTCCCACAC 62.367 72.222 0.00 0.00 0.00 3.82
670 796 4.366684 CTTGCCCCCTCCCACACC 62.367 72.222 0.00 0.00 0.00 4.16
1260 1395 1.001487 TGCCAGTGTGATTTTCAAGCG 60.001 47.619 0.00 0.00 0.00 4.68
1295 1431 5.431731 TCTTATGGAGCCAGGAAGGATTTTA 59.568 40.000 11.78 0.00 41.22 1.52
1338 1474 7.040686 TGAGGTTAGAGAAATTTTGGTAGTTGC 60.041 37.037 0.00 0.00 0.00 4.17
1454 1590 7.448748 TTTGCTATCTGACTTTTAGGGTTTC 57.551 36.000 0.00 0.00 0.00 2.78
1543 1682 2.201732 CATGATGCCATGCTTTGCTTC 58.798 47.619 5.07 5.07 43.06 3.86
1544 1683 1.552578 TGATGCCATGCTTTGCTTCT 58.447 45.000 11.14 0.00 33.98 2.85
1547 1686 2.914695 TGCCATGCTTTGCTTCTTTT 57.085 40.000 0.00 0.00 0.00 2.27
1548 1687 2.758009 TGCCATGCTTTGCTTCTTTTC 58.242 42.857 0.00 0.00 0.00 2.29
1551 1690 3.431233 GCCATGCTTTGCTTCTTTTCTTC 59.569 43.478 0.00 0.00 0.00 2.87
1552 1691 4.798593 GCCATGCTTTGCTTCTTTTCTTCT 60.799 41.667 0.00 0.00 0.00 2.85
1553 1692 5.295152 CCATGCTTTGCTTCTTTTCTTCTT 58.705 37.500 0.00 0.00 0.00 2.52
1554 1693 5.404667 CCATGCTTTGCTTCTTTTCTTCTTC 59.595 40.000 0.00 0.00 0.00 2.87
1661 1808 5.045140 TCCGTTCTCCATTCTTAAGGGAAAT 60.045 40.000 1.85 0.00 41.42 2.17
1762 1910 6.152492 TGGTCAGATATAACAAATGCAAGCAA 59.848 34.615 0.00 0.00 0.00 3.91
1829 1977 8.865590 TTTACTTGTATTTTTCAGAAAGCCAC 57.134 30.769 0.00 0.00 0.00 5.01
1923 2071 2.630098 AGCTGTGAGTTCTCTAGCACAA 59.370 45.455 21.44 0.00 40.34 3.33
1924 2072 2.734079 GCTGTGAGTTCTCTAGCACAAC 59.266 50.000 17.58 0.00 40.34 3.32
1925 2073 3.800261 GCTGTGAGTTCTCTAGCACAACA 60.800 47.826 17.58 6.02 40.34 3.33
1942 2090 8.801715 AGCACAACATGAGTATTTGTTTTTAG 57.198 30.769 0.00 0.00 33.93 1.85
2032 2181 4.229876 GTTGTCATGCAAGGAAAGTTAGC 58.770 43.478 0.00 0.00 37.83 3.09
2033 2182 3.485394 TGTCATGCAAGGAAAGTTAGCA 58.515 40.909 0.00 0.00 39.79 3.49
2052 2201 8.721478 AGTTAGCATTGTGTTAGTGATTAACTG 58.279 33.333 0.00 0.00 41.82 3.16
2074 2223 4.460731 TGAACTGTGTGGTGTCATTTGAAA 59.539 37.500 0.00 0.00 0.00 2.69
2075 2224 5.047731 TGAACTGTGTGGTGTCATTTGAAAA 60.048 36.000 0.00 0.00 0.00 2.29
2076 2225 5.398603 ACTGTGTGGTGTCATTTGAAAAA 57.601 34.783 0.00 0.00 0.00 1.94
2327 2557 6.756074 TCGCAAGATCAGTTTGTTTTGAAAAT 59.244 30.769 0.00 0.00 45.01 1.82
2361 2591 4.494350 TCAGCTTTCATGCTCTTGTTTC 57.506 40.909 0.00 0.00 41.98 2.78
2431 2661 7.690952 AATTACCACTTCGGCAGTTTTATTA 57.309 32.000 0.00 0.00 39.03 0.98
2575 2806 9.357652 GTGCAACACTGACATGATATTTATTTT 57.642 29.630 0.00 0.00 36.32 1.82
2872 3103 3.817647 AGAAACATCAGTTCTGCACTTCC 59.182 43.478 0.00 0.00 36.84 3.46
2876 3107 1.131638 TCAGTTCTGCACTTCCACCT 58.868 50.000 0.00 0.00 30.92 4.00
2903 3134 8.611757 TCGTTTTTATGATGTTCCTACATGATG 58.388 33.333 0.00 0.00 44.90 3.07
3048 3279 5.864628 AAAGAACCTATTCAAGAACGAGC 57.135 39.130 0.00 0.00 37.29 5.03
3049 3280 4.810191 AGAACCTATTCAAGAACGAGCT 57.190 40.909 0.00 0.00 37.29 4.09
3051 3282 6.282199 AGAACCTATTCAAGAACGAGCTAA 57.718 37.500 0.00 0.00 37.29 3.09
3052 3283 6.100668 AGAACCTATTCAAGAACGAGCTAAC 58.899 40.000 0.00 0.00 37.29 2.34
3053 3284 5.401531 ACCTATTCAAGAACGAGCTAACA 57.598 39.130 0.00 0.00 0.00 2.41
3054 3285 5.978814 ACCTATTCAAGAACGAGCTAACAT 58.021 37.500 0.00 0.00 0.00 2.71
3055 3286 5.812642 ACCTATTCAAGAACGAGCTAACATG 59.187 40.000 0.00 0.00 0.00 3.21
3056 3287 6.042777 CCTATTCAAGAACGAGCTAACATGA 58.957 40.000 0.00 0.00 0.00 3.07
3057 3288 6.199908 CCTATTCAAGAACGAGCTAACATGAG 59.800 42.308 0.00 0.00 0.00 2.90
3058 3289 4.783764 TCAAGAACGAGCTAACATGAGA 57.216 40.909 0.00 0.00 0.00 3.27
3098 3330 8.764287 CGAACATGAGCATATTTGTATGAACTA 58.236 33.333 0.00 0.00 0.00 2.24
3131 3363 8.725405 TGACTTTGTACTAAACAGTGATCAAA 57.275 30.769 0.00 0.00 39.87 2.69
3204 3541 7.931407 AGTTTGTATGAAATGTGTCACAGTAGA 59.069 33.333 12.03 0.00 0.00 2.59
3401 3739 3.240401 CAGTTGTTTTTAGTTGCTGCACG 59.760 43.478 0.00 0.00 0.00 5.34
3563 3901 8.774586 ACTGTTTTATCACTCAACTCAATACAC 58.225 33.333 0.00 0.00 0.00 2.90
3565 3903 7.936847 TGTTTTATCACTCAACTCAATACACCT 59.063 33.333 0.00 0.00 0.00 4.00
3673 4011 0.839277 TGATGATCATTCCCGTGCCT 59.161 50.000 10.14 0.00 0.00 4.75
3794 4134 3.723348 GTGGACGAACCTTGCGGC 61.723 66.667 0.00 0.00 39.86 6.53
3801 4141 0.872388 CGAACCTTGCGGCTAAAACT 59.128 50.000 0.00 0.00 0.00 2.66
3813 4153 3.759618 CGGCTAAAACTTTGGGTATTGGA 59.240 43.478 0.00 0.00 0.00 3.53
3828 4176 6.071560 TGGGTATTGGAGCATTATACTCTACG 60.072 42.308 0.00 0.00 34.46 3.51
3889 4238 1.590238 CATCGACTCCGCTTTCATGAC 59.410 52.381 0.00 0.00 35.37 3.06
4051 4400 9.468532 GCCTCTCCTTTTGCATTATTTATTTAG 57.531 33.333 0.00 0.00 0.00 1.85
4539 4895 9.034544 TGACATATTAAATTCTGATCTCGTGTG 57.965 33.333 0.00 0.00 0.00 3.82
4591 4947 0.469494 TTCTGCCTGCTCTTGTGTCA 59.531 50.000 0.00 0.00 0.00 3.58
5651 6012 9.719279 GATCATTTTGTTGCAAATTTGAAAGAA 57.281 25.926 22.31 18.71 28.07 2.52
5732 6093 9.860898 ATTTATTTTGAGCTAAAGTGTCATTCC 57.139 29.630 0.00 0.00 0.00 3.01
5950 6311 1.079543 CTCTCCAGGAACACAGGCG 60.080 63.158 0.00 0.00 0.00 5.52
6158 6519 5.994668 GCTAAGATCTTTCTACCCTTCCATG 59.005 44.000 14.36 0.00 0.00 3.66
6175 6536 4.717877 TCCATGTTGATGACTTGACACTT 58.282 39.130 0.00 0.00 35.92 3.16
6190 6551 8.311395 ACTTGACACTTATCTGAGATATCCAA 57.689 34.615 2.54 3.52 0.00 3.53
6215 6576 6.889722 ACTTGTTACAGTTGGGTATATTGCAT 59.110 34.615 0.00 0.00 0.00 3.96
6262 6623 5.067544 CACTTGGTTTTCAAATTGGCCATTT 59.932 36.000 6.09 6.67 35.24 2.32
6267 6628 7.710896 TGGTTTTCAAATTGGCCATTTTAAAG 58.289 30.769 21.88 12.29 32.19 1.85
6347 6708 7.426929 GATGAAATCAGAACTACACACAAGT 57.573 36.000 0.00 0.00 44.70 3.16
6349 6710 7.624360 TGAAATCAGAACTACACACAAGTTT 57.376 32.000 0.00 0.00 37.31 2.66
6394 6755 1.728323 TCATGACTCCAGGTGGTGAA 58.272 50.000 5.09 0.00 36.34 3.18
6481 6842 9.801873 CGAAATATTTAACATCCCATTCTTGTT 57.198 29.630 0.00 0.00 37.37 2.83
6500 6861 2.336945 TCAGCATGATGTTAGCCCAG 57.663 50.000 11.32 0.00 42.56 4.45
6502 6863 2.440627 TCAGCATGATGTTAGCCCAGAT 59.559 45.455 11.32 0.00 42.56 2.90
6505 6866 5.008331 CAGCATGATGTTAGCCCAGATATT 58.992 41.667 1.88 0.00 39.69 1.28
6506 6867 5.475909 CAGCATGATGTTAGCCCAGATATTT 59.524 40.000 1.88 0.00 39.69 1.40
6507 6868 6.656270 CAGCATGATGTTAGCCCAGATATTTA 59.344 38.462 1.88 0.00 39.69 1.40
6508 6869 6.883217 AGCATGATGTTAGCCCAGATATTTAG 59.117 38.462 0.00 0.00 0.00 1.85
6511 6872 9.376075 CATGATGTTAGCCCAGATATTTAGTAG 57.624 37.037 0.00 0.00 0.00 2.57
6515 6884 8.721133 TGTTAGCCCAGATATTTAGTAGATGA 57.279 34.615 0.00 0.00 0.00 2.92
6523 6892 9.941325 CCAGATATTTAGTAGATGATGCTTTCT 57.059 33.333 0.00 0.00 0.00 2.52
6529 6898 8.599055 TTTAGTAGATGATGCTTTCTATGCTG 57.401 34.615 0.00 0.00 0.00 4.41
6534 6903 5.527951 AGATGATGCTTTCTATGCTGACAAG 59.472 40.000 0.00 0.00 0.00 3.16
6549 6918 6.013842 GCTGACAAGCTTTATTGTAAACCT 57.986 37.500 0.00 0.00 46.60 3.50
6568 6937 6.746745 AACCTTAACGTTTTCTTCTGTTGA 57.253 33.333 5.91 0.00 0.00 3.18
6569 6938 6.746745 ACCTTAACGTTTTCTTCTGTTGAA 57.253 33.333 5.91 0.00 0.00 2.69
6572 6941 7.282450 ACCTTAACGTTTTCTTCTGTTGAATCT 59.718 33.333 5.91 0.00 0.00 2.40
6578 6947 6.576313 CGTTTTCTTCTGTTGAATCTCATGTG 59.424 38.462 0.00 0.00 0.00 3.21
6579 6948 7.518848 CGTTTTCTTCTGTTGAATCTCATGTGA 60.519 37.037 0.00 0.00 0.00 3.58
6580 6949 6.791887 TTCTTCTGTTGAATCTCATGTGAC 57.208 37.500 0.00 0.00 0.00 3.67
6582 6951 6.528321 TCTTCTGTTGAATCTCATGTGACTT 58.472 36.000 0.00 0.00 0.00 3.01
6583 6952 6.426025 TCTTCTGTTGAATCTCATGTGACTTG 59.574 38.462 0.00 0.00 0.00 3.16
6584 6953 5.857268 TCTGTTGAATCTCATGTGACTTGA 58.143 37.500 0.00 1.10 0.00 3.02
6585 6954 6.290605 TCTGTTGAATCTCATGTGACTTGAA 58.709 36.000 0.00 0.00 0.00 2.69
6586 6955 6.767423 TCTGTTGAATCTCATGTGACTTGAAA 59.233 34.615 0.00 0.00 0.00 2.69
6587 6956 7.446319 TCTGTTGAATCTCATGTGACTTGAAAT 59.554 33.333 0.00 0.00 0.00 2.17
6588 6957 7.944061 TGTTGAATCTCATGTGACTTGAAATT 58.056 30.769 0.00 0.30 0.00 1.82
6589 6958 8.415553 TGTTGAATCTCATGTGACTTGAAATTT 58.584 29.630 0.00 0.00 0.00 1.82
6590 6959 8.697067 GTTGAATCTCATGTGACTTGAAATTTG 58.303 33.333 0.00 0.00 0.00 2.32
6591 6960 7.372714 TGAATCTCATGTGACTTGAAATTTGG 58.627 34.615 0.00 0.00 0.00 3.28
6597 6966 2.036346 GTGACTTGAAATTTGGGCAGCT 59.964 45.455 0.00 0.00 0.00 4.24
6613 6982 1.139058 CAGCTAATAACTCAGCCGGGT 59.861 52.381 0.00 0.00 38.61 5.28
6641 7010 1.374125 CCAACACATCGTCCGAGCA 60.374 57.895 0.00 0.00 0.00 4.26
6642 7011 0.740868 CCAACACATCGTCCGAGCAT 60.741 55.000 0.00 0.00 0.00 3.79
6705 7074 1.003718 CCCCGGTGTGAGTTCCTTC 60.004 63.158 0.00 0.00 0.00 3.46
6782 7151 0.757188 AGTGACCCCTCCGCATAGAG 60.757 60.000 0.00 0.00 0.00 2.43
6808 7177 3.445008 TGATTAGAAGGCCAGAGTCAGT 58.555 45.455 5.01 0.00 0.00 3.41
6832 7201 6.361748 GTGTGACTGTTAAAGTAGTAGGTTCG 59.638 42.308 0.00 0.00 40.07 3.95
6934 7303 3.518068 GGCCCGCCATTGTAGCAC 61.518 66.667 0.00 0.00 35.81 4.40
7102 7473 1.151668 GCGCCTGCTAATATGTGGAG 58.848 55.000 0.00 0.00 38.39 3.86
7107 7478 2.149578 CTGCTAATATGTGGAGCCAGC 58.850 52.381 0.00 0.00 35.24 4.85
7124 7495 1.064505 CAGCGATTACCACATGCCTTG 59.935 52.381 0.00 0.00 0.00 3.61
7130 7501 2.897271 TACCACATGCCTTGGACAAT 57.103 45.000 7.78 0.00 37.58 2.71
7158 7529 7.321153 TGTTCTTATACCTGTTTCTCTGCTAC 58.679 38.462 0.00 0.00 0.00 3.58
7289 7662 5.789643 TTTCCTGCAATAAGCTTCTGTTT 57.210 34.783 0.00 0.00 45.94 2.83
7313 7686 5.706833 TGATTACTGTTGCATTGACATGTCT 59.293 36.000 25.55 4.51 32.28 3.41
7314 7687 6.878389 TGATTACTGTTGCATTGACATGTCTA 59.122 34.615 25.55 19.23 32.28 2.59
7322 7695 3.310774 GCATTGACATGTCTAGCGTGAAT 59.689 43.478 25.55 12.52 37.53 2.57
7369 7742 1.302033 CTCCAAGCCTCGCACAACT 60.302 57.895 0.00 0.00 0.00 3.16
7407 7780 1.674962 GGCAACATGAGAGCCTGAATC 59.325 52.381 16.71 0.00 44.92 2.52
7414 7787 0.108424 GAGAGCCTGAATCACGCTGT 60.108 55.000 11.27 7.48 31.61 4.40
7418 7791 0.445436 GCCTGAATCACGCTGTCTTG 59.555 55.000 0.00 0.00 0.00 3.02
7483 7869 5.763204 AGATGTGTTTTCTCCGCTTAAGAAA 59.237 36.000 6.67 0.00 40.14 2.52
7485 7871 4.636648 TGTGTTTTCTCCGCTTAAGAAACA 59.363 37.500 6.67 9.88 41.24 2.83
7486 7872 5.298276 TGTGTTTTCTCCGCTTAAGAAACAT 59.702 36.000 16.37 0.00 41.24 2.71
7487 7873 5.625311 GTGTTTTCTCCGCTTAAGAAACATG 59.375 40.000 16.37 0.00 41.24 3.21
7490 7876 6.817765 TTTCTCCGCTTAAGAAACATGATT 57.182 33.333 6.67 0.00 37.72 2.57
7491 7877 6.817765 TTCTCCGCTTAAGAAACATGATTT 57.182 33.333 6.67 0.00 30.00 2.17
7492 7878 7.915293 TTCTCCGCTTAAGAAACATGATTTA 57.085 32.000 6.67 0.00 30.00 1.40
7701 8089 6.198029 GGTTGTATTTTTGCACCAAATTTTGC 59.802 34.615 7.74 7.74 39.33 3.68
7714 8102 7.292292 CACCAAATTTTGCATGAATAGTTGTG 58.708 34.615 0.00 0.00 0.00 3.33
7763 8174 3.068873 AGTGGAGAATATCTGCTTCGGAC 59.931 47.826 0.65 0.00 35.71 4.79
7766 8177 4.054671 GGAGAATATCTGCTTCGGACTTG 58.945 47.826 0.00 0.00 31.63 3.16
7770 8181 3.793144 CTGCTTCGGACTTGGCGC 61.793 66.667 0.00 0.00 0.00 6.53
7877 8313 3.548745 AGTCATCTGAATCATTCGGCA 57.451 42.857 0.71 0.00 35.98 5.69
7886 8322 5.857892 TCTGAATCATTCGGCACAGTATGTT 60.858 40.000 0.71 0.00 40.63 2.71
7916 8352 1.196808 TGCGCTTTCTTGAATCCGTTC 59.803 47.619 9.73 0.00 34.85 3.95
7939 8375 3.326747 GTTACGAGCTCTGTTCCATGTT 58.673 45.455 12.85 0.00 0.00 2.71
7949 8385 1.271871 TGTTCCATGTTCCCGCTGAAT 60.272 47.619 0.00 0.00 34.90 2.57
7971 8407 8.712103 TGAATCTGATCAGAAGGAGAAATATGT 58.288 33.333 28.40 5.18 41.36 2.29
7972 8408 9.558396 GAATCTGATCAGAAGGAGAAATATGTT 57.442 33.333 28.40 13.44 41.36 2.71
7973 8409 8.905660 ATCTGATCAGAAGGAGAAATATGTTG 57.094 34.615 28.40 0.00 41.36 3.33
7974 8410 6.765036 TCTGATCAGAAGGAGAAATATGTTGC 59.235 38.462 23.17 0.00 33.91 4.17
7975 8411 6.656902 TGATCAGAAGGAGAAATATGTTGCT 58.343 36.000 0.00 0.00 0.00 3.91
7976 8412 6.541278 TGATCAGAAGGAGAAATATGTTGCTG 59.459 38.462 0.00 0.00 0.00 4.41
7977 8413 5.809001 TCAGAAGGAGAAATATGTTGCTGT 58.191 37.500 0.00 0.00 0.00 4.40
7978 8414 5.877012 TCAGAAGGAGAAATATGTTGCTGTC 59.123 40.000 0.00 0.00 0.00 3.51
7979 8415 5.065731 CAGAAGGAGAAATATGTTGCTGTCC 59.934 44.000 0.00 0.00 0.00 4.02
7980 8416 4.851639 AGGAGAAATATGTTGCTGTCCT 57.148 40.909 0.00 0.00 0.00 3.85
7981 8417 5.957771 AGGAGAAATATGTTGCTGTCCTA 57.042 39.130 0.00 0.00 0.00 2.94
7982 8418 6.313519 AGGAGAAATATGTTGCTGTCCTAA 57.686 37.500 0.00 0.00 0.00 2.69
7983 8419 6.352516 AGGAGAAATATGTTGCTGTCCTAAG 58.647 40.000 0.00 0.00 0.00 2.18
7984 8420 5.008118 GGAGAAATATGTTGCTGTCCTAAGC 59.992 44.000 0.00 0.00 43.82 3.09
7985 8421 5.749462 AGAAATATGTTGCTGTCCTAAGCT 58.251 37.500 0.00 0.00 43.90 3.74
7986 8422 5.587844 AGAAATATGTTGCTGTCCTAAGCTG 59.412 40.000 0.00 0.00 43.90 4.24
7987 8423 2.119801 ATGTTGCTGTCCTAAGCTGG 57.880 50.000 0.00 0.00 43.90 4.85
7988 8424 0.764890 TGTTGCTGTCCTAAGCTGGT 59.235 50.000 0.00 0.00 43.90 4.00
7989 8425 1.160137 GTTGCTGTCCTAAGCTGGTG 58.840 55.000 0.00 0.00 43.90 4.17
7990 8426 0.036732 TTGCTGTCCTAAGCTGGTGG 59.963 55.000 0.00 0.00 43.90 4.61
7991 8427 0.835971 TGCTGTCCTAAGCTGGTGGA 60.836 55.000 0.00 0.00 43.90 4.02
7992 8428 0.324943 GCTGTCCTAAGCTGGTGGAA 59.675 55.000 4.45 0.00 40.20 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 9.490379 CCTCCGTAAACTAATATAAGAGCATTT 57.510 33.333 0.00 0.00 0.00 2.32
24 25 8.095169 CCCTCCGTAAACTAATATAAGAGCATT 58.905 37.037 0.00 0.00 0.00 3.56
25 26 7.453752 TCCCTCCGTAAACTAATATAAGAGCAT 59.546 37.037 0.00 0.00 0.00 3.79
28 29 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
29 30 9.512588 CTACTCCCTCCGTAAACTAATATAAGA 57.487 37.037 0.00 0.00 0.00 2.10
30 31 9.512588 TCTACTCCCTCCGTAAACTAATATAAG 57.487 37.037 0.00 0.00 0.00 1.73
31 32 9.866655 TTCTACTCCCTCCGTAAACTAATATAA 57.133 33.333 0.00 0.00 0.00 0.98
33 34 8.953223 ATTCTACTCCCTCCGTAAACTAATAT 57.047 34.615 0.00 0.00 0.00 1.28
35 36 8.003629 AGTATTCTACTCCCTCCGTAAACTAAT 58.996 37.037 0.00 0.00 32.47 1.73
36 37 7.349598 AGTATTCTACTCCCTCCGTAAACTAA 58.650 38.462 0.00 0.00 32.47 2.24
37 38 6.904626 AGTATTCTACTCCCTCCGTAAACTA 58.095 40.000 0.00 0.00 32.47 2.24
38 39 5.764432 AGTATTCTACTCCCTCCGTAAACT 58.236 41.667 0.00 0.00 32.47 2.66
39 40 6.462552 AAGTATTCTACTCCCTCCGTAAAC 57.537 41.667 0.00 0.00 38.26 2.01
40 41 5.297776 CGAAGTATTCTACTCCCTCCGTAAA 59.702 44.000 0.00 0.00 44.75 2.01
41 42 4.818546 CGAAGTATTCTACTCCCTCCGTAA 59.181 45.833 0.00 0.00 44.75 3.18
42 43 4.384056 CGAAGTATTCTACTCCCTCCGTA 58.616 47.826 0.00 0.00 44.75 4.02
44 45 2.553172 CCGAAGTATTCTACTCCCTCCG 59.447 54.545 0.00 0.00 44.75 4.63
45 46 2.892215 CCCGAAGTATTCTACTCCCTCC 59.108 54.545 0.00 0.00 44.75 4.30
46 47 2.892215 CCCCGAAGTATTCTACTCCCTC 59.108 54.545 0.00 0.00 44.75 4.30
47 48 2.425975 CCCCCGAAGTATTCTACTCCCT 60.426 54.545 0.00 0.00 44.75 4.20
48 49 1.969208 CCCCCGAAGTATTCTACTCCC 59.031 57.143 0.00 0.00 44.75 4.30
49 50 1.343789 GCCCCCGAAGTATTCTACTCC 59.656 57.143 0.00 0.00 44.75 3.85
50 51 1.000496 CGCCCCCGAAGTATTCTACTC 60.000 57.143 0.00 0.00 44.75 2.59
51 52 1.038280 CGCCCCCGAAGTATTCTACT 58.962 55.000 0.00 0.00 44.75 2.57
52 53 0.749049 ACGCCCCCGAAGTATTCTAC 59.251 55.000 0.00 0.00 44.75 2.59
54 55 1.488390 TAACGCCCCCGAAGTATTCT 58.512 50.000 0.00 0.00 44.75 2.40
55 56 2.538512 ATAACGCCCCCGAAGTATTC 57.461 50.000 0.00 0.00 43.09 1.75
56 57 3.389002 ACTAATAACGCCCCCGAAGTATT 59.611 43.478 0.00 0.00 38.29 1.89
57 58 2.967887 ACTAATAACGCCCCCGAAGTAT 59.032 45.455 0.00 0.00 38.29 2.12
58 59 2.387757 ACTAATAACGCCCCCGAAGTA 58.612 47.619 0.00 0.00 38.29 2.24
60 61 2.320745 AACTAATAACGCCCCCGAAG 57.679 50.000 0.00 0.00 38.29 3.79
61 62 2.785540 AAACTAATAACGCCCCCGAA 57.214 45.000 0.00 0.00 38.29 4.30
62 63 2.785540 AAAACTAATAACGCCCCCGA 57.214 45.000 0.00 0.00 38.29 5.14
63 64 2.748532 TGAAAAACTAATAACGCCCCCG 59.251 45.455 0.00 0.00 41.14 5.73
64 65 3.119388 GGTGAAAAACTAATAACGCCCCC 60.119 47.826 0.00 0.00 0.00 5.40
65 66 3.119388 GGGTGAAAAACTAATAACGCCCC 60.119 47.826 0.00 0.00 40.76 5.80
138 246 5.888412 AACGAACAACAAATTTCATGCTC 57.112 34.783 0.00 0.00 0.00 4.26
275 387 2.701951 GCCATTGATTTCCCATCCATGT 59.298 45.455 0.00 0.00 0.00 3.21
401 515 7.998753 ACTTACTTATACATTTGAGCGGTAC 57.001 36.000 0.00 0.00 0.00 3.34
445 570 6.418101 ACAGGTATGAATTGTCAGCTGTAAT 58.582 36.000 14.67 12.71 45.18 1.89
660 786 3.330720 GGAGGGTGGTGTGGGAGG 61.331 72.222 0.00 0.00 0.00 4.30
662 788 2.203938 GAGGAGGGTGGTGTGGGA 60.204 66.667 0.00 0.00 0.00 4.37
667 793 3.721706 GGCAGGAGGAGGGTGGTG 61.722 72.222 0.00 0.00 0.00 4.17
670 796 4.748798 AGGGGCAGGAGGAGGGTG 62.749 72.222 0.00 0.00 0.00 4.61
1260 1395 3.489229 GGCTCCATAAGACGGCAATTTTC 60.489 47.826 0.00 0.00 0.00 2.29
1309 1445 9.416284 ACTACCAAAATTTCTCTAACCTCAAAA 57.584 29.630 0.00 0.00 0.00 2.44
1310 1446 8.990163 ACTACCAAAATTTCTCTAACCTCAAA 57.010 30.769 0.00 0.00 0.00 2.69
1311 1447 8.846211 CAACTACCAAAATTTCTCTAACCTCAA 58.154 33.333 0.00 0.00 0.00 3.02
1312 1448 7.040686 GCAACTACCAAAATTTCTCTAACCTCA 60.041 37.037 0.00 0.00 0.00 3.86
1338 1474 3.303329 CGTCCACAAGCATATCAAATCCG 60.303 47.826 0.00 0.00 0.00 4.18
1829 1977 6.310711 GGAGTAACACTCTTAATTTCGACCAG 59.689 42.308 6.30 0.00 44.46 4.00
1923 2071 9.410556 GTGCATTCTAAAAACAAATACTCATGT 57.589 29.630 0.00 0.00 0.00 3.21
1924 2072 9.409312 TGTGCATTCTAAAAACAAATACTCATG 57.591 29.630 0.00 0.00 0.00 3.07
2010 2159 4.229876 GCTAACTTTCCTTGCATGACAAC 58.770 43.478 0.00 0.00 33.68 3.32
2032 2181 8.559536 ACAGTTCAGTTAATCACTAACACAATG 58.440 33.333 0.00 0.00 42.18 2.82
2033 2182 8.559536 CACAGTTCAGTTAATCACTAACACAAT 58.440 33.333 0.00 0.00 42.18 2.71
2052 2201 4.630894 TTCAAATGACACCACACAGTTC 57.369 40.909 0.00 0.00 0.00 3.01
2204 2434 6.468956 CACAAAGTTTCTACACACATCACAAC 59.531 38.462 0.00 0.00 0.00 3.32
2303 2533 5.947503 TTTCAAAACAAACTGATCTTGCG 57.052 34.783 0.00 0.00 0.00 4.85
2327 2557 6.403200 GCATGAAAGCTGAACCTACGAATTTA 60.403 38.462 0.00 0.00 0.00 1.40
2476 2706 8.893563 AAATTGGATGGGATTAGTCAACTAAA 57.106 30.769 6.70 0.00 41.27 1.85
2575 2806 5.186942 TGCAAAACACTCACAGTACCTAAA 58.813 37.500 0.00 0.00 0.00 1.85
2872 3103 6.254281 AGGAACATCATAAAAACGAAGGTG 57.746 37.500 0.00 0.00 0.00 4.00
2876 3107 8.554835 TCATGTAGGAACATCATAAAAACGAA 57.445 30.769 0.00 0.00 44.70 3.85
3098 3330 9.174166 ACTGTTTAGTACAAAGTCATCAAGTTT 57.826 29.630 0.00 0.00 36.02 2.66
3131 3363 6.457355 TCAAATAGTCATGCAATGTGCTTTT 58.543 32.000 0.00 0.00 46.80 2.27
3204 3541 6.037172 GCATGAATACCACGTAATTCAGAAGT 59.963 38.462 18.95 6.12 36.61 3.01
3380 3718 3.119637 ACGTGCAGCAACTAAAAACAACT 60.120 39.130 0.00 0.00 0.00 3.16
3401 3739 4.054671 TCGGATTGGCAAAAACAAATCAC 58.945 39.130 3.01 0.00 0.00 3.06
3563 3901 6.591448 GGAGCCAGTTTTCAAAATGATAAAGG 59.409 38.462 1.35 0.00 36.17 3.11
3565 3903 6.928492 GTGGAGCCAGTTTTCAAAATGATAAA 59.072 34.615 1.35 0.00 36.17 1.40
3673 4011 2.097110 ACTGGTCCTACACACCTTCA 57.903 50.000 0.00 0.00 34.66 3.02
3794 4134 5.975693 TGCTCCAATACCCAAAGTTTTAG 57.024 39.130 0.00 0.00 0.00 1.85
3801 4141 7.149202 AGAGTATAATGCTCCAATACCCAAA 57.851 36.000 0.00 0.00 33.69 3.28
3889 4238 1.830279 TGCCATCTGAAAGGAAGCAG 58.170 50.000 3.94 0.00 0.00 4.24
4539 4895 7.381678 GGATACTACCAACGAAATAGATGTGTC 59.618 40.741 0.00 0.00 0.00 3.67
4591 4947 4.526650 GGATGTACACCCAACTGGATTTTT 59.473 41.667 0.00 0.00 37.39 1.94
5038 5398 4.951254 TGACATCTGTTCTTTCGTAACCA 58.049 39.130 0.00 0.00 0.00 3.67
5443 5804 7.721286 ACTATGCAAGCATCTGAAATACTAC 57.279 36.000 11.32 0.00 37.82 2.73
5563 5924 7.408756 TCTTCTACATGCAGGCATTTATTTT 57.591 32.000 3.57 0.00 33.90 1.82
5732 6093 7.482654 TCTCGACTTTATTATCTGCAAATGG 57.517 36.000 0.00 0.00 0.00 3.16
5950 6311 1.002366 CCTGCTCGTCACACAATAGC 58.998 55.000 0.00 0.00 0.00 2.97
6158 6519 7.093354 TCTCAGATAAGTGTCAAGTCATCAAC 58.907 38.462 0.00 0.00 0.00 3.18
6175 6536 9.201989 ACTGTAACAAGTTGGATATCTCAGATA 57.798 33.333 7.96 0.00 0.00 1.98
6190 6551 6.242396 TGCAATATACCCAACTGTAACAAGT 58.758 36.000 0.00 0.00 0.00 3.16
6208 6569 6.777091 AGCATAGGGTGAATTTACATGCAATA 59.223 34.615 19.58 0.00 39.72 1.90
6215 6576 6.633500 GCAATAGCATAGGGTGAATTTACA 57.367 37.500 2.50 0.00 41.58 2.41
6267 6628 9.528018 TGATTTTTCTTTGTGAAGGTCATTTAC 57.472 29.630 0.00 0.00 35.89 2.01
6345 6706 7.161404 TGCTCACTATCAACTGTTATCAAACT 58.839 34.615 0.00 0.00 36.51 2.66
6346 6707 7.331934 TCTGCTCACTATCAACTGTTATCAAAC 59.668 37.037 0.00 0.00 36.07 2.93
6347 6708 7.386059 TCTGCTCACTATCAACTGTTATCAAA 58.614 34.615 0.00 0.00 0.00 2.69
6349 6710 6.530019 TCTGCTCACTATCAACTGTTATCA 57.470 37.500 0.00 0.00 0.00 2.15
6408 6769 6.016860 TCGACTAGTATTATTCTTTGCGCCTA 60.017 38.462 4.18 0.00 0.00 3.93
6466 6827 3.159213 TGCTGAACAAGAATGGGATGT 57.841 42.857 0.00 0.00 0.00 3.06
6481 6842 1.839354 TCTGGGCTAACATCATGCTGA 59.161 47.619 3.02 0.00 0.00 4.26
6494 6855 6.443206 AGCATCATCTACTAAATATCTGGGCT 59.557 38.462 0.00 0.00 0.00 5.19
6495 6856 6.648192 AGCATCATCTACTAAATATCTGGGC 58.352 40.000 0.00 0.00 0.00 5.36
6496 6857 9.160496 GAAAGCATCATCTACTAAATATCTGGG 57.840 37.037 0.00 0.00 0.00 4.45
6497 6858 9.941325 AGAAAGCATCATCTACTAAATATCTGG 57.059 33.333 0.00 0.00 0.00 3.86
6505 6866 7.869937 GTCAGCATAGAAAGCATCATCTACTAA 59.130 37.037 0.00 0.00 31.35 2.24
6506 6867 7.014615 TGTCAGCATAGAAAGCATCATCTACTA 59.985 37.037 0.00 0.00 31.35 1.82
6507 6868 6.183360 TGTCAGCATAGAAAGCATCATCTACT 60.183 38.462 0.00 0.00 31.35 2.57
6508 6869 5.987953 TGTCAGCATAGAAAGCATCATCTAC 59.012 40.000 0.00 0.00 31.35 2.59
6511 6872 5.746307 TTGTCAGCATAGAAAGCATCATC 57.254 39.130 0.00 0.00 0.00 2.92
6529 6898 8.071967 ACGTTAAGGTTTACAATAAAGCTTGTC 58.928 33.333 25.17 18.68 44.59 3.18
6534 6903 9.454585 AGAAAACGTTAAGGTTTACAATAAAGC 57.545 29.630 22.59 2.96 40.40 3.51
6540 6909 8.042944 ACAGAAGAAAACGTTAAGGTTTACAA 57.957 30.769 22.59 0.00 40.40 2.41
6549 6918 8.203937 TGAGATTCAACAGAAGAAAACGTTAA 57.796 30.769 0.00 0.00 0.00 2.01
6568 6937 6.694447 CCCAAATTTCAAGTCACATGAGATT 58.306 36.000 0.00 0.00 34.25 2.40
6569 6938 5.337009 GCCCAAATTTCAAGTCACATGAGAT 60.337 40.000 0.00 0.00 0.00 2.75
6572 6941 3.640498 TGCCCAAATTTCAAGTCACATGA 59.360 39.130 0.00 0.00 0.00 3.07
6578 6947 4.519540 TTAGCTGCCCAAATTTCAAGTC 57.480 40.909 0.00 0.00 0.00 3.01
6579 6948 6.211384 AGTTATTAGCTGCCCAAATTTCAAGT 59.789 34.615 0.00 0.00 0.00 3.16
6580 6949 6.633856 AGTTATTAGCTGCCCAAATTTCAAG 58.366 36.000 0.00 0.00 0.00 3.02
6582 6951 5.714333 TGAGTTATTAGCTGCCCAAATTTCA 59.286 36.000 0.00 0.00 0.00 2.69
6583 6952 6.207691 TGAGTTATTAGCTGCCCAAATTTC 57.792 37.500 0.00 0.00 0.00 2.17
6584 6953 5.394553 GCTGAGTTATTAGCTGCCCAAATTT 60.395 40.000 0.00 0.00 36.99 1.82
6585 6954 4.098501 GCTGAGTTATTAGCTGCCCAAATT 59.901 41.667 0.00 0.00 36.99 1.82
6586 6955 3.633986 GCTGAGTTATTAGCTGCCCAAAT 59.366 43.478 0.00 0.00 36.99 2.32
6587 6956 3.016736 GCTGAGTTATTAGCTGCCCAAA 58.983 45.455 0.00 0.00 36.99 3.28
6588 6957 2.643551 GCTGAGTTATTAGCTGCCCAA 58.356 47.619 0.00 0.00 36.99 4.12
6589 6958 1.134098 GGCTGAGTTATTAGCTGCCCA 60.134 52.381 0.00 0.00 39.75 5.36
6590 6959 1.598882 GGCTGAGTTATTAGCTGCCC 58.401 55.000 0.00 0.00 39.75 5.36
6591 6960 1.221414 CGGCTGAGTTATTAGCTGCC 58.779 55.000 0.00 0.00 39.22 4.85
6597 6966 2.568062 TGTCAACCCGGCTGAGTTATTA 59.432 45.455 0.00 0.00 0.00 0.98
6613 6982 1.872952 CGATGTGTTGGCTTCTGTCAA 59.127 47.619 0.00 0.00 35.16 3.18
6705 7074 2.089980 CTTTCCACAGCTTCTGATGGG 58.910 52.381 0.29 0.21 35.20 4.00
6782 7151 4.327680 ACTCTGGCCTTCTAATCAACAAC 58.672 43.478 3.32 0.00 0.00 3.32
6808 7177 6.441274 CGAACCTACTACTTTAACAGTCACA 58.559 40.000 0.00 0.00 36.88 3.58
6859 7228 7.813087 ATCCACATATACACATGAATAGGGA 57.187 36.000 0.00 4.28 0.00 4.20
7085 7456 1.202806 TGGCTCCACATATTAGCAGGC 60.203 52.381 0.00 0.00 38.01 4.85
7087 7458 2.149578 GCTGGCTCCACATATTAGCAG 58.850 52.381 0.00 0.00 38.01 4.24
7102 7473 1.356624 GCATGTGGTAATCGCTGGC 59.643 57.895 0.00 0.00 0.00 4.85
7107 7478 1.670811 GTCCAAGGCATGTGGTAATCG 59.329 52.381 0.00 0.00 37.43 3.34
7124 7495 9.406828 GAAACAGGTATAAGAACAAAATTGTCC 57.593 33.333 0.00 0.00 41.31 4.02
7130 7501 7.719633 AGCAGAGAAACAGGTATAAGAACAAAA 59.280 33.333 0.00 0.00 0.00 2.44
7269 7642 4.397420 TCAAACAGAAGCTTATTGCAGGA 58.603 39.130 0.00 0.00 45.94 3.86
7289 7662 5.706833 AGACATGTCAATGCAACAGTAATCA 59.293 36.000 27.02 0.00 37.29 2.57
7322 7695 3.998341 GGGTCTATTTTGACGTGCTAACA 59.002 43.478 0.00 0.00 37.81 2.41
7369 7742 2.696187 TGCCAGTATACATGTTAGGCGA 59.304 45.455 2.30 0.17 43.35 5.54
7407 7780 0.100325 TTTTGTGCCAAGACAGCGTG 59.900 50.000 0.00 0.00 0.00 5.34
7464 7850 5.529430 TCATGTTTCTTAAGCGGAGAAAACA 59.471 36.000 15.92 15.92 42.77 2.83
7499 7887 6.587206 TGATGTTCATGCATGGTTCTTTTA 57.413 33.333 25.97 1.33 0.00 1.52
7667 8055 5.341196 GTGCAAAAATACAACCGTACATGTC 59.659 40.000 0.00 0.00 0.00 3.06
7701 8089 5.996669 TGCTGCTATCACAACTATTCATG 57.003 39.130 0.00 0.00 0.00 3.07
7770 8181 4.707988 CAACAGGTTTGTGGCACG 57.292 55.556 13.77 0.00 37.67 5.34
7781 8192 0.607489 CTCAGGGGACAAGCAACAGG 60.607 60.000 0.00 0.00 0.00 4.00
7877 8313 3.436704 CGCAACAGATTCCAACATACTGT 59.563 43.478 0.00 0.00 42.40 3.55
7886 8322 1.896220 AGAAAGCGCAACAGATTCCA 58.104 45.000 11.47 0.00 0.00 3.53
7916 8352 0.242825 TGGAACAGAGCTCGTAACCG 59.757 55.000 8.37 0.00 0.00 4.44
7929 8365 1.271871 ATTCAGCGGGAACATGGAACA 60.272 47.619 0.00 0.00 40.44 3.18
7939 8375 1.780503 TCTGATCAGATTCAGCGGGA 58.219 50.000 21.67 0.00 42.37 5.14
7949 8385 6.765036 GCAACATATTTCTCCTTCTGATCAGA 59.235 38.462 21.67 21.67 35.27 3.27
7957 8393 5.189180 AGGACAGCAACATATTTCTCCTTC 58.811 41.667 0.00 0.00 0.00 3.46
7958 8394 5.184892 AGGACAGCAACATATTTCTCCTT 57.815 39.130 0.00 0.00 0.00 3.36
7959 8395 4.851639 AGGACAGCAACATATTTCTCCT 57.148 40.909 0.00 0.00 0.00 3.69
7960 8396 5.008118 GCTTAGGACAGCAACATATTTCTCC 59.992 44.000 0.00 0.00 39.83 3.71
7961 8397 5.819901 AGCTTAGGACAGCAACATATTTCTC 59.180 40.000 0.00 0.00 42.84 2.87
7962 8398 5.587844 CAGCTTAGGACAGCAACATATTTCT 59.412 40.000 0.00 0.00 42.84 2.52
7963 8399 5.220931 CCAGCTTAGGACAGCAACATATTTC 60.221 44.000 0.00 0.00 42.84 2.17
7964 8400 4.641989 CCAGCTTAGGACAGCAACATATTT 59.358 41.667 0.00 0.00 42.84 1.40
7965 8401 4.202441 CCAGCTTAGGACAGCAACATATT 58.798 43.478 0.00 0.00 42.84 1.28
7966 8402 3.200825 ACCAGCTTAGGACAGCAACATAT 59.799 43.478 0.00 0.00 42.84 1.78
7967 8403 2.571653 ACCAGCTTAGGACAGCAACATA 59.428 45.455 0.00 0.00 42.84 2.29
7968 8404 1.352352 ACCAGCTTAGGACAGCAACAT 59.648 47.619 0.00 0.00 42.84 2.71
7969 8405 0.764890 ACCAGCTTAGGACAGCAACA 59.235 50.000 0.00 0.00 42.84 3.33
7970 8406 1.160137 CACCAGCTTAGGACAGCAAC 58.840 55.000 0.00 0.00 42.84 4.17
7971 8407 0.036732 CCACCAGCTTAGGACAGCAA 59.963 55.000 0.00 0.00 42.84 3.91
7972 8408 0.835971 TCCACCAGCTTAGGACAGCA 60.836 55.000 0.00 0.00 42.84 4.41
7973 8409 0.324943 TTCCACCAGCTTAGGACAGC 59.675 55.000 0.00 0.00 40.44 4.40


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

AutoCloner maintained by Alex Coulton.