Multiple sequence alignment - TraesCS2D01G375300

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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 TraesCS2D01G375300 chr2D 100.000 4384 0 0 1 4384 479178070 479182453 0.000000e+00 8096.0
1 TraesCS2D01G375300 chr2B 91.831 3844 178 56 1 3785 562216227 562219993 0.000000e+00 5234.0
2 TraesCS2D01G375300 chr2A 91.643 2094 92 33 294 2346 621919748 621921799 0.000000e+00 2820.0
3 TraesCS2D01G375300 chr2A 95.360 819 32 3 2374 3190 621921794 621922608 0.000000e+00 1297.0
4 TraesCS2D01G375300 chr2A 94.717 530 24 4 3261 3786 621922960 621923489 0.000000e+00 821.0
5 TraesCS2D01G375300 chr2A 90.372 457 42 2 3782 4236 621926464 621926920 2.260000e-167 599.0
6 TraesCS2D01G375300 chr2A 82.927 164 25 3 26 188 205319163 205319324 1.270000e-30 145.0
7 TraesCS2D01G375300 chr4D 88.791 455 51 0 1185 1639 441900908 441901362 3.830000e-155 558.0
8 TraesCS2D01G375300 chr4D 89.710 379 32 6 2372 2748 441901416 441901789 1.100000e-130 477.0
9 TraesCS2D01G375300 chr4D 90.086 232 23 0 2911 3142 441901786 441902017 7.130000e-78 302.0
10 TraesCS2D01G375300 chr4A 87.473 455 57 0 1185 1639 25497771 25497317 3.880000e-145 525.0
11 TraesCS2D01G375300 chr4A 90.186 377 36 1 2372 2748 25497261 25496886 1.420000e-134 490.0
12 TraesCS2D01G375300 chr4A 87.952 249 26 3 2911 3157 25496889 25496643 1.540000e-74 291.0
13 TraesCS2D01G375300 chr4A 83.041 171 25 3 26 196 116847450 116847284 7.590000e-33 152.0
14 TraesCS2D01G375300 chr4B 87.033 455 59 0 1185 1639 548766813 548767267 8.410000e-142 514.0
15 TraesCS2D01G375300 chr4B 90.080 373 34 1 2376 2748 548767324 548767693 8.530000e-132 481.0
16 TraesCS2D01G375300 chr4B 84.615 494 47 13 1153 1642 659689655 659689187 8.590000e-127 464.0
17 TraesCS2D01G375300 chr4B 86.829 410 43 7 1240 1642 660089973 660090378 8.650000e-122 448.0
18 TraesCS2D01G375300 chr4B 87.429 350 33 3 2407 2755 660090484 660090823 4.110000e-105 392.0
19 TraesCS2D01G375300 chr4B 85.372 376 49 5 2378 2753 659689157 659688788 6.880000e-103 385.0
20 TraesCS2D01G375300 chr4B 89.655 232 24 0 2911 3142 548767690 548767921 3.320000e-76 296.0
21 TraesCS2D01G375300 chr5A 86.010 386 54 0 1251 1636 698888729 698889114 8.770000e-112 414.0
22 TraesCS2D01G375300 chr5A 89.300 243 26 0 2899 3141 698889653 698889895 5.510000e-79 305.0
23 TraesCS2D01G375300 chr5A 86.822 258 28 4 2888 3141 698896114 698896369 2.580000e-72 283.0
24 TraesCS2D01G375300 chr5A 88.742 151 17 0 1438 1588 698820530 698820680 7.490000e-43 185.0
25 TraesCS2D01G375300 chr6B 80.994 342 54 10 2410 2750 468010423 468010092 1.210000e-65 261.0
26 TraesCS2D01G375300 chr6B 84.211 171 23 3 26 196 40713357 40713523 3.510000e-36 163.0
27 TraesCS2D01G375300 chr6D 80.702 342 55 10 2410 2750 302249725 302249394 5.630000e-64 255.0
28 TraesCS2D01G375300 chr6D 86.250 80 6 4 202 281 93644407 93644481 1.010000e-11 82.4
29 TraesCS2D01G375300 chr6D 81.818 99 10 6 196 292 303549202 303549110 4.700000e-10 76.8
30 TraesCS2D01G375300 chr1B 84.431 167 22 3 32 198 164842241 164842403 1.260000e-35 161.0
31 TraesCS2D01G375300 chr1B 89.041 73 3 4 202 274 356207763 356207696 7.810000e-13 86.1
32 TraesCS2D01G375300 chr6A 83.140 172 25 3 26 196 150923240 150923072 2.110000e-33 154.0
33 TraesCS2D01G375300 chr3A 83.140 172 24 4 26 196 27476370 27476537 7.590000e-33 152.0
34 TraesCS2D01G375300 chr5D 83.030 165 23 4 32 196 45893970 45893811 1.270000e-30 145.0
35 TraesCS2D01G375300 chr5D 88.889 81 4 1 191 271 454834834 454834909 1.300000e-15 95.3
36 TraesCS2D01G375300 chr5D 88.889 81 4 1 191 271 455604468 455604543 1.300000e-15 95.3
37 TraesCS2D01G375300 chr5D 82.828 99 9 6 196 292 486112429 486112337 1.010000e-11 82.4
38 TraesCS2D01G375300 chr5D 81.443 97 13 5 202 295 458811331 458811237 1.690000e-09 75.0
39 TraesCS2D01G375300 chrUn 82.822 163 24 3 34 196 60728056 60727898 4.570000e-30 143.0
40 TraesCS2D01G375300 chr1A 87.654 81 3 6 194 274 330766857 330766930 2.170000e-13 87.9
41 TraesCS2D01G375300 chr7A 90.000 60 6 0 2899 2958 135533711 135533770 1.310000e-10 78.7


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 TraesCS2D01G375300 chr2D 479178070 479182453 4383 False 8096.000000 8096 100.000000 1 4384 1 chr2D.!!$F1 4383
1 TraesCS2D01G375300 chr2B 562216227 562219993 3766 False 5234.000000 5234 91.831000 1 3785 1 chr2B.!!$F1 3784
2 TraesCS2D01G375300 chr2A 621919748 621926920 7172 False 1384.250000 2820 93.023000 294 4236 4 chr2A.!!$F2 3942
3 TraesCS2D01G375300 chr4D 441900908 441902017 1109 False 445.666667 558 89.529000 1185 3142 3 chr4D.!!$F1 1957
4 TraesCS2D01G375300 chr4A 25496643 25497771 1128 True 435.333333 525 88.537000 1185 3157 3 chr4A.!!$R2 1972
5 TraesCS2D01G375300 chr4B 548766813 548767921 1108 False 430.333333 514 88.922667 1185 3142 3 chr4B.!!$F1 1957
6 TraesCS2D01G375300 chr4B 659688788 659689655 867 True 424.500000 464 84.993500 1153 2753 2 chr4B.!!$R1 1600
7 TraesCS2D01G375300 chr4B 660089973 660090823 850 False 420.000000 448 87.129000 1240 2755 2 chr4B.!!$F2 1515
8 TraesCS2D01G375300 chr5A 698888729 698889895 1166 False 359.500000 414 87.655000 1251 3141 2 chr5A.!!$F3 1890

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
828 842 0.171007 CCGTCCGTAAGTAAAGGCGA 59.829 55.0 0.00 0.00 0.00 5.54 F
1833 1910 0.023354 GCGCGCGATCGTTATATTCC 59.977 55.0 37.18 6.74 38.14 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2370 2457 0.250038 CCCATCAGCCATCAGTACGG 60.250 60.000 0.0 0.0 0.0 4.02 R
3752 4300 1.401905 GAATGGCCGTGATTTGAGACC 59.598 52.381 0.0 0.0 0.0 3.85 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
43 44 1.837439 TGCTCGGACCTAAACATGGAT 59.163 47.619 0.00 0.00 0.00 3.41
56 57 7.893302 ACCTAAACATGGATCAAAAATGGACTA 59.107 33.333 0.00 0.00 0.00 2.59
57 58 8.917088 CCTAAACATGGATCAAAAATGGACTAT 58.083 33.333 0.00 0.00 0.00 2.12
91 92 2.289444 TGAGCCGGGTCTTAAACTCAAG 60.289 50.000 31.97 0.00 31.60 3.02
122 123 3.873952 ACTCCGATACCACGTAGAAGTAC 59.126 47.826 0.00 0.00 0.00 2.73
133 134 1.952990 GTAGAAGTACCCGGTCTAGCC 59.047 57.143 0.00 0.00 0.00 3.93
134 135 0.333993 AGAAGTACCCGGTCTAGCCA 59.666 55.000 0.00 0.00 36.97 4.75
137 138 2.761786 AGTACCCGGTCTAGCCAATA 57.238 50.000 0.00 0.00 36.97 1.90
141 142 1.208776 ACCCGGTCTAGCCAATACAAC 59.791 52.381 0.00 0.00 36.97 3.32
152 153 2.352323 GCCAATACAACCAAAAGACCGG 60.352 50.000 0.00 0.00 0.00 5.28
153 154 2.230266 CCAATACAACCAAAAGACCGGG 59.770 50.000 6.32 0.00 0.00 5.73
180 181 9.306777 TCTGATAGAAGAGACTATGCAATACAT 57.693 33.333 0.00 0.00 43.18 2.29
181 182 9.926158 CTGATAGAAGAGACTATGCAATACATT 57.074 33.333 0.00 0.00 40.38 2.71
198 199 8.597227 GCAATACATTTATACACGTCAACACTA 58.403 33.333 0.00 0.00 0.00 2.74
202 203 8.236084 ACATTTATACACGTCAACACTACTTC 57.764 34.615 0.00 0.00 0.00 3.01
208 209 2.056577 CGTCAACACTACTTCCGTTCC 58.943 52.381 0.00 0.00 0.00 3.62
220 221 8.548721 CACTACTTCCGTTCCATAATATTTGTC 58.451 37.037 0.00 0.00 0.00 3.18
222 223 6.110707 ACTTCCGTTCCATAATATTTGTCGT 58.889 36.000 0.00 0.00 0.00 4.34
226 227 5.292345 CCGTTCCATAATATTTGTCGTGTCA 59.708 40.000 0.00 0.00 0.00 3.58
261 262 6.853720 TCAAATTTGAACTAAAACCACGACA 58.146 32.000 18.45 0.00 33.55 4.35
274 275 7.696992 AAAACCACGACAAGTATTATGGAAT 57.303 32.000 0.00 0.00 0.00 3.01
275 276 7.696992 AAACCACGACAAGTATTATGGAATT 57.303 32.000 0.00 0.00 0.00 2.17
282 283 5.140454 ACAAGTATTATGGAATTGGGGAGC 58.860 41.667 0.00 0.00 0.00 4.70
303 304 9.169592 GGGAGCAACTAATAAGTAATTAACACA 57.830 33.333 0.00 0.00 33.75 3.72
563 577 4.470462 GTGATGTGCATCTCAAGAAACAC 58.530 43.478 12.64 8.19 38.60 3.32
574 588 5.050490 TCTCAAGAAACACACAAGTAGCTC 58.950 41.667 0.00 0.00 0.00 4.09
597 611 1.864565 ATTTGGACCTTTTGCAACGC 58.135 45.000 0.00 0.00 34.84 4.84
599 613 1.323271 TTGGACCTTTTGCAACGCCA 61.323 50.000 0.00 0.00 29.00 5.69
602 616 2.331019 GACCTTTTGCAACGCCACGT 62.331 55.000 0.00 0.00 43.97 4.49
632 646 1.355916 GCACCGAGTCTAGCTACCG 59.644 63.158 0.00 0.00 0.00 4.02
684 698 2.098770 GCATTGAATGGAGCCTCAAGTC 59.901 50.000 7.35 0.00 35.14 3.01
778 792 3.220629 CTCAGCCCTCAGAGGATCA 57.779 57.895 19.21 0.00 37.67 2.92
828 842 0.171007 CCGTCCGTAAGTAAAGGCGA 59.829 55.000 0.00 0.00 0.00 5.54
885 906 2.681348 AGCACATGTCCAGCTCTCT 58.319 52.632 3.43 0.00 32.05 3.10
971 992 1.562783 ATATAGGCCTCTCGCTTCCC 58.437 55.000 9.68 0.00 37.74 3.97
1039 1071 0.462759 GCCCAGTGGTAGCTAAGCTG 60.463 60.000 8.74 4.33 40.10 4.24
1082 1114 4.955774 ACACGACGACCGGTTGGC 62.956 66.667 25.74 22.54 43.93 4.52
1192 1227 3.282157 CCAGCCATTGATCCGCCG 61.282 66.667 0.00 0.00 0.00 6.46
1618 1674 2.772691 GGAGGACTGCGACTACGGG 61.773 68.421 0.00 0.00 40.15 5.28
1672 1741 2.338015 CCGCCCATATGCATGCCTC 61.338 63.158 16.68 0.00 0.00 4.70
1684 1753 4.551702 TGCATGCCTCTTCTTGTTACTA 57.448 40.909 16.68 0.00 0.00 1.82
1697 1766 7.613411 TCTTCTTGTTACTACCCTACTTACTCC 59.387 40.741 0.00 0.00 0.00 3.85
1699 1768 4.526970 TGTTACTACCCTACTTACTCCGG 58.473 47.826 0.00 0.00 0.00 5.14
1707 1776 2.223829 CCTACTTACTCCGGCAGACATG 60.224 54.545 0.00 0.00 0.00 3.21
1733 1803 5.169032 GCGAACGTGCTTAATTACAATTAGC 59.831 40.000 0.00 0.05 32.87 3.09
1755 1825 4.206609 GCTACATTAATCAGTTCCGTCGAC 59.793 45.833 5.18 5.18 0.00 4.20
1764 1835 2.864343 CAGTTCCGTCGACAGAGTTTTT 59.136 45.455 17.16 0.00 0.00 1.94
1833 1910 0.023354 GCGCGCGATCGTTATATTCC 59.977 55.000 37.18 6.74 38.14 3.01
1841 1918 4.211374 GCGATCGTTATATTCCTTTGCTGT 59.789 41.667 17.81 0.00 0.00 4.40
1859 1936 5.950965 GCTGTCGGCATATATATGTGTAC 57.049 43.478 21.10 16.29 41.35 2.90
1893 1973 0.543749 AAGGGAAGAAGATGGAGGCG 59.456 55.000 0.00 0.00 0.00 5.52
1896 1976 1.884926 GAAGAAGATGGAGGCGCGG 60.885 63.158 8.83 0.00 0.00 6.46
2105 2190 5.027737 CGAATATTAATTTGTGTGCTGCGT 58.972 37.500 0.00 0.00 0.00 5.24
2129 2214 0.966920 CCCTTCCGTGTACAGTGTCT 59.033 55.000 0.00 0.00 0.00 3.41
2191 2276 2.991190 ACGAACAATACACACGACCATC 59.009 45.455 0.00 0.00 0.00 3.51
2193 2278 3.060761 CGAACAATACACACGACCATCAG 59.939 47.826 0.00 0.00 0.00 2.90
2237 2323 8.786955 CGAGCGCTAGTTTTAATAGTATACATC 58.213 37.037 11.50 0.00 0.00 3.06
2326 2413 2.991190 GCGAGATTTTTACCACGAGTCA 59.009 45.455 0.00 0.00 0.00 3.41
2329 2416 4.862574 CGAGATTTTTACCACGAGTCATGA 59.137 41.667 0.00 0.00 0.00 3.07
2331 2418 5.178797 AGATTTTTACCACGAGTCATGAGG 58.821 41.667 0.00 0.00 0.00 3.86
2350 2437 9.793259 TCATGAGGAGTAGTTTTATTGACTTTT 57.207 29.630 0.00 0.00 0.00 2.27
2351 2438 9.831737 CATGAGGAGTAGTTTTATTGACTTTTG 57.168 33.333 0.00 0.00 0.00 2.44
2370 2457 0.525029 GGTCGTAACAGAGTAGCGGC 60.525 60.000 0.00 0.00 0.00 6.53
2390 2492 0.465705 CGTACTGATGGCTGATGGGT 59.534 55.000 0.00 0.00 0.00 4.51
2392 2494 2.545952 CGTACTGATGGCTGATGGGTAC 60.546 54.545 0.00 0.00 0.00 3.34
2394 2496 1.210478 ACTGATGGCTGATGGGTACAC 59.790 52.381 0.00 0.00 0.00 2.90
2398 2500 0.321210 TGGCTGATGGGTACACGTTG 60.321 55.000 0.00 0.00 0.00 4.10
2773 3036 0.529378 TCTCCTCCTCGGCGTTTTAC 59.471 55.000 6.85 0.00 0.00 2.01
2833 3096 2.677875 AGGTGTACCCGACCGTCC 60.678 66.667 0.00 0.00 38.64 4.79
2857 3120 5.765182 CCATCAGATGGTGGTACTATTTTCC 59.235 44.000 20.30 0.00 45.54 3.13
3059 3322 3.384532 TCCCCGTACAGGCCGTTC 61.385 66.667 5.57 0.55 39.21 3.95
3168 3431 0.247262 CGTTGACGCCATGAATCACG 60.247 55.000 0.00 0.00 0.00 4.35
3178 3441 2.086869 CATGAATCACGGCCTCTGTTT 58.913 47.619 0.00 0.00 0.00 2.83
3504 4049 4.661993 TGTTCCAATCGAGATGTTTTCG 57.338 40.909 0.00 0.00 39.33 3.46
3512 4057 3.759418 TCGAGATGTTTTCGCTAGACAG 58.241 45.455 0.00 0.00 37.94 3.51
3516 4061 1.508632 TGTTTTCGCTAGACAGGCAC 58.491 50.000 0.00 0.00 0.00 5.01
3517 4062 0.438830 GTTTTCGCTAGACAGGCACG 59.561 55.000 0.00 0.00 0.00 5.34
3586 4132 9.570488 AGTTAGACTTAGACGTCATATTTTCAC 57.430 33.333 19.50 6.07 36.38 3.18
3620 4166 1.750018 CTTGGCGCATGGTCATGGA 60.750 57.895 10.83 0.00 39.16 3.41
3722 4270 9.736023 GAGGGTTTTGCATAGAGTAAATTATTG 57.264 33.333 0.00 0.00 31.75 1.90
3752 4300 8.944029 CAAGGCATTACTCTCCTGATATAATTG 58.056 37.037 0.00 0.00 0.00 2.32
3764 4312 8.908786 TCCTGATATAATTGGTCTCAAATCAC 57.091 34.615 0.00 0.00 36.36 3.06
3865 7392 4.915704 TCGAAAGTAGCTTTGTTGGTTTG 58.084 39.130 0.00 0.00 33.49 2.93
3868 7395 5.575218 CGAAAGTAGCTTTGTTGGTTTGTTT 59.425 36.000 0.00 0.00 33.49 2.83
3871 7398 5.416083 AGTAGCTTTGTTGGTTTGTTTTCC 58.584 37.500 0.00 0.00 0.00 3.13
3873 7400 4.503910 AGCTTTGTTGGTTTGTTTTCCTC 58.496 39.130 0.00 0.00 0.00 3.71
3897 7425 7.629157 TCAAAAACATATCATGTCAGGTCCTA 58.371 34.615 0.00 0.00 44.07 2.94
3955 7483 9.981460 ATTCTTTGGTATTTCAGACTTAATCCT 57.019 29.630 0.00 0.00 0.00 3.24
4049 7578 2.028130 AGAGCCATTACTCTCCTCACG 58.972 52.381 0.00 0.00 43.68 4.35
4052 7581 3.362706 AGCCATTACTCTCCTCACGTAA 58.637 45.455 0.00 0.00 0.00 3.18
4053 7582 3.961408 AGCCATTACTCTCCTCACGTAAT 59.039 43.478 0.00 0.00 35.00 1.89
4103 7632 6.763715 ATAGTTCAAGGGGTTGCATCTATA 57.236 37.500 0.00 0.00 0.00 1.31
4111 7640 4.354987 AGGGGTTGCATCTATATTGATGGT 59.645 41.667 22.98 0.00 42.82 3.55
4112 7641 4.460382 GGGGTTGCATCTATATTGATGGTG 59.540 45.833 22.98 5.78 42.82 4.17
4129 7658 2.038952 TGGTGTCAAGAAGGATGGTCTG 59.961 50.000 0.00 0.00 0.00 3.51
4130 7659 2.079925 GTGTCAAGAAGGATGGTCTGC 58.920 52.381 0.00 0.00 0.00 4.26
4132 7661 2.289882 TGTCAAGAAGGATGGTCTGCAG 60.290 50.000 7.63 7.63 0.00 4.41
4135 7664 0.035630 AGAAGGATGGTCTGCAGCAC 60.036 55.000 9.47 8.27 31.21 4.40
4146 7675 2.050985 GCAGCACGAACTTGTGGC 60.051 61.111 0.00 0.00 40.26 5.01
4147 7676 2.833533 GCAGCACGAACTTGTGGCA 61.834 57.895 0.00 0.00 40.26 4.92
4189 7718 7.610580 TTCCATCCTAAATTGTCCAACTTTT 57.389 32.000 0.00 0.00 0.00 2.27
4198 7727 4.781775 TTGTCCAACTTTTGAGTAGGGA 57.218 40.909 0.00 0.00 0.00 4.20
4209 7738 5.923733 TTTGAGTAGGGAGAGAAGTCATC 57.076 43.478 0.00 0.00 0.00 2.92
4216 7745 1.202475 GGAGAGAAGTCATCGCCCTTC 60.202 57.143 0.00 0.00 37.85 3.46
4225 7754 4.223953 AGTCATCGCCCTTCTATTAGGAA 58.776 43.478 0.00 0.00 37.50 3.36
4227 7756 6.017192 AGTCATCGCCCTTCTATTAGGAATA 58.983 40.000 0.00 0.00 37.50 1.75
4232 7761 9.667107 CATCGCCCTTCTATTAGGAATATTTTA 57.333 33.333 0.00 0.00 37.50 1.52
4265 7794 9.476928 TTTTTCGGGGTAGGAATATTTTTATCA 57.523 29.630 0.00 0.00 0.00 2.15
4266 7795 8.685838 TTTCGGGGTAGGAATATTTTTATCAG 57.314 34.615 0.00 0.00 0.00 2.90
4267 7796 6.775708 TCGGGGTAGGAATATTTTTATCAGG 58.224 40.000 0.00 0.00 0.00 3.86
4268 7797 5.414765 CGGGGTAGGAATATTTTTATCAGGC 59.585 44.000 0.00 0.00 0.00 4.85
4269 7798 6.311735 GGGGTAGGAATATTTTTATCAGGCA 58.688 40.000 0.00 0.00 0.00 4.75
4270 7799 6.954102 GGGGTAGGAATATTTTTATCAGGCAT 59.046 38.462 0.00 0.00 0.00 4.40
4271 7800 7.093771 GGGGTAGGAATATTTTTATCAGGCATG 60.094 40.741 0.00 0.00 0.00 4.06
4272 7801 7.451566 GGGTAGGAATATTTTTATCAGGCATGT 59.548 37.037 0.00 0.00 0.00 3.21
4273 7802 8.860088 GGTAGGAATATTTTTATCAGGCATGTT 58.140 33.333 0.00 0.00 0.00 2.71
4281 7810 8.947055 ATTTTTATCAGGCATGTTAATCAACC 57.053 30.769 0.00 0.00 33.41 3.77
4282 7811 7.473735 TTTTATCAGGCATGTTAATCAACCA 57.526 32.000 0.00 0.00 33.41 3.67
4283 7812 7.473735 TTTATCAGGCATGTTAATCAACCAA 57.526 32.000 0.00 0.00 33.41 3.67
4284 7813 7.658525 TTATCAGGCATGTTAATCAACCAAT 57.341 32.000 0.00 0.00 33.41 3.16
4285 7814 5.999205 TCAGGCATGTTAATCAACCAATT 57.001 34.783 0.00 0.00 33.41 2.32
4286 7815 5.964758 TCAGGCATGTTAATCAACCAATTC 58.035 37.500 0.00 0.00 33.41 2.17
4287 7816 5.716228 TCAGGCATGTTAATCAACCAATTCT 59.284 36.000 0.00 0.00 33.41 2.40
4288 7817 6.038356 CAGGCATGTTAATCAACCAATTCTC 58.962 40.000 0.00 0.00 33.41 2.87
4289 7818 5.036737 GGCATGTTAATCAACCAATTCTCG 58.963 41.667 0.00 0.00 33.41 4.04
4290 7819 5.163663 GGCATGTTAATCAACCAATTCTCGA 60.164 40.000 0.00 0.00 33.41 4.04
4291 7820 6.460123 GGCATGTTAATCAACCAATTCTCGAT 60.460 38.462 0.00 0.00 33.41 3.59
4292 7821 6.415867 GCATGTTAATCAACCAATTCTCGATG 59.584 38.462 0.00 0.00 33.41 3.84
4293 7822 6.435430 TGTTAATCAACCAATTCTCGATGG 57.565 37.500 1.14 1.14 42.60 3.51
4294 7823 6.176896 TGTTAATCAACCAATTCTCGATGGA 58.823 36.000 9.74 0.00 39.12 3.41
4295 7824 6.657117 TGTTAATCAACCAATTCTCGATGGAA 59.343 34.615 9.74 0.00 39.12 3.53
4296 7825 7.175816 TGTTAATCAACCAATTCTCGATGGAAA 59.824 33.333 9.74 0.00 39.12 3.13
4297 7826 5.824904 ATCAACCAATTCTCGATGGAAAG 57.175 39.130 9.74 0.00 39.12 2.62
4298 7827 3.440173 TCAACCAATTCTCGATGGAAAGC 59.560 43.478 9.74 0.00 39.12 3.51
4299 7828 3.356529 ACCAATTCTCGATGGAAAGCT 57.643 42.857 9.74 0.00 39.12 3.74
4300 7829 3.274288 ACCAATTCTCGATGGAAAGCTC 58.726 45.455 9.74 0.00 39.12 4.09
4301 7830 3.054802 ACCAATTCTCGATGGAAAGCTCT 60.055 43.478 9.74 0.00 39.12 4.09
4302 7831 3.559242 CCAATTCTCGATGGAAAGCTCTC 59.441 47.826 0.00 0.00 39.12 3.20
4303 7832 2.969628 TTCTCGATGGAAAGCTCTCC 57.030 50.000 0.00 0.00 35.88 3.71
4314 7843 6.179906 TGGAAAGCTCTCCATTCTAATAGG 57.820 41.667 4.10 0.00 40.71 2.57
4315 7844 5.905331 TGGAAAGCTCTCCATTCTAATAGGA 59.095 40.000 4.10 0.00 40.71 2.94
4316 7845 6.386927 TGGAAAGCTCTCCATTCTAATAGGAA 59.613 38.462 4.10 0.00 40.71 3.36
4317 7846 6.934083 GGAAAGCTCTCCATTCTAATAGGAAG 59.066 42.308 0.00 0.00 35.36 3.46
4318 7847 7.419634 GGAAAGCTCTCCATTCTAATAGGAAGT 60.420 40.741 0.00 0.00 35.36 3.01
4319 7848 6.418057 AGCTCTCCATTCTAATAGGAAGTG 57.582 41.667 0.00 0.00 0.00 3.16
4320 7849 5.902431 AGCTCTCCATTCTAATAGGAAGTGT 59.098 40.000 0.00 0.00 0.00 3.55
4321 7850 6.385467 AGCTCTCCATTCTAATAGGAAGTGTT 59.615 38.462 0.00 0.00 0.00 3.32
4322 7851 7.565398 AGCTCTCCATTCTAATAGGAAGTGTTA 59.435 37.037 0.00 0.00 0.00 2.41
4323 7852 7.870445 GCTCTCCATTCTAATAGGAAGTGTTAG 59.130 40.741 0.00 0.00 32.43 2.34
4324 7853 8.251383 TCTCCATTCTAATAGGAAGTGTTAGG 57.749 38.462 0.00 0.00 32.14 2.69
4325 7854 6.827727 TCCATTCTAATAGGAAGTGTTAGGC 58.172 40.000 0.00 0.00 32.14 3.93
4326 7855 6.615726 TCCATTCTAATAGGAAGTGTTAGGCT 59.384 38.462 0.00 0.00 32.14 4.58
4327 7856 6.931840 CCATTCTAATAGGAAGTGTTAGGCTC 59.068 42.308 0.00 0.00 32.14 4.70
4328 7857 7.419057 CCATTCTAATAGGAAGTGTTAGGCTCA 60.419 40.741 0.00 0.00 32.14 4.26
4329 7858 6.466885 TCTAATAGGAAGTGTTAGGCTCAC 57.533 41.667 0.00 0.00 32.14 3.51
4330 7859 6.195700 TCTAATAGGAAGTGTTAGGCTCACT 58.804 40.000 3.18 3.18 46.30 3.41
4331 7860 7.351952 TCTAATAGGAAGTGTTAGGCTCACTA 58.648 38.462 9.05 0.00 44.03 2.74
4332 7861 6.472686 AATAGGAAGTGTTAGGCTCACTAG 57.527 41.667 9.05 0.00 44.03 2.57
4333 7862 3.100671 AGGAAGTGTTAGGCTCACTAGG 58.899 50.000 9.05 0.00 44.03 3.02
4350 7879 2.817396 GCAGAGCCACTCCTTCGC 60.817 66.667 0.00 0.00 0.00 4.70
4351 7880 2.125350 CAGAGCCACTCCTTCGCC 60.125 66.667 0.00 0.00 0.00 5.54
4352 7881 2.604686 AGAGCCACTCCTTCGCCA 60.605 61.111 0.00 0.00 0.00 5.69
4353 7882 1.992277 AGAGCCACTCCTTCGCCAT 60.992 57.895 0.00 0.00 0.00 4.40
4354 7883 1.078143 GAGCCACTCCTTCGCCATT 60.078 57.895 0.00 0.00 0.00 3.16
4355 7884 1.078143 AGCCACTCCTTCGCCATTC 60.078 57.895 0.00 0.00 0.00 2.67
4356 7885 2.115291 GCCACTCCTTCGCCATTCC 61.115 63.158 0.00 0.00 0.00 3.01
4357 7886 1.452108 CCACTCCTTCGCCATTCCC 60.452 63.158 0.00 0.00 0.00 3.97
4358 7887 1.452108 CACTCCTTCGCCATTCCCC 60.452 63.158 0.00 0.00 0.00 4.81
4359 7888 1.923395 ACTCCTTCGCCATTCCCCA 60.923 57.895 0.00 0.00 0.00 4.96
4360 7889 1.281925 ACTCCTTCGCCATTCCCCAT 61.282 55.000 0.00 0.00 0.00 4.00
4361 7890 0.764890 CTCCTTCGCCATTCCCCATA 59.235 55.000 0.00 0.00 0.00 2.74
4362 7891 1.142870 CTCCTTCGCCATTCCCCATAA 59.857 52.381 0.00 0.00 0.00 1.90
4363 7892 1.566703 TCCTTCGCCATTCCCCATAAA 59.433 47.619 0.00 0.00 0.00 1.40
4364 7893 1.681264 CCTTCGCCATTCCCCATAAAC 59.319 52.381 0.00 0.00 0.00 2.01
4365 7894 2.654863 CTTCGCCATTCCCCATAAACT 58.345 47.619 0.00 0.00 0.00 2.66
4366 7895 2.341846 TCGCCATTCCCCATAAACTC 57.658 50.000 0.00 0.00 0.00 3.01
4367 7896 1.562008 TCGCCATTCCCCATAAACTCA 59.438 47.619 0.00 0.00 0.00 3.41
4368 7897 2.025793 TCGCCATTCCCCATAAACTCAA 60.026 45.455 0.00 0.00 0.00 3.02
4369 7898 2.358898 CGCCATTCCCCATAAACTCAAG 59.641 50.000 0.00 0.00 0.00 3.02
4370 7899 2.695147 GCCATTCCCCATAAACTCAAGG 59.305 50.000 0.00 0.00 0.00 3.61
4371 7900 3.881713 GCCATTCCCCATAAACTCAAGGT 60.882 47.826 0.00 0.00 0.00 3.50
4372 7901 3.701040 CCATTCCCCATAAACTCAAGGTG 59.299 47.826 0.00 0.00 0.00 4.00
4373 7902 3.449746 TTCCCCATAAACTCAAGGTGG 57.550 47.619 0.00 0.00 0.00 4.61
4374 7903 2.638325 TCCCCATAAACTCAAGGTGGA 58.362 47.619 0.00 0.00 31.59 4.02
4375 7904 2.307686 TCCCCATAAACTCAAGGTGGAC 59.692 50.000 0.00 0.00 31.59 4.02
4376 7905 2.620627 CCCCATAAACTCAAGGTGGACC 60.621 54.545 0.00 0.00 31.59 4.46
4377 7906 2.041081 CCCATAAACTCAAGGTGGACCA 59.959 50.000 0.00 0.00 38.89 4.02
4378 7907 3.309121 CCCATAAACTCAAGGTGGACCAT 60.309 47.826 0.00 0.00 38.89 3.55
4379 7908 3.947834 CCATAAACTCAAGGTGGACCATC 59.052 47.826 0.00 0.00 38.89 3.51
4380 7909 4.567537 CCATAAACTCAAGGTGGACCATCA 60.568 45.833 7.68 0.00 38.89 3.07
4381 7910 3.814504 AAACTCAAGGTGGACCATCAT 57.185 42.857 7.68 0.00 38.89 2.45
4382 7911 3.814504 AACTCAAGGTGGACCATCATT 57.185 42.857 7.68 0.00 38.89 2.57
4383 7912 3.814504 ACTCAAGGTGGACCATCATTT 57.185 42.857 7.68 0.00 38.89 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 9.299963 CGCAATGAAATTATAGTCCATTTTTGA 57.700 29.630 0.00 0.00 32.46 2.69
56 57 2.033299 CCGGCTCACGCAATGAAATTAT 59.967 45.455 0.00 0.00 42.52 1.28
57 58 1.400142 CCGGCTCACGCAATGAAATTA 59.600 47.619 0.00 0.00 42.52 1.40
63 64 3.499737 GACCCGGCTCACGCAATG 61.500 66.667 0.00 0.00 42.52 2.82
91 92 2.099427 GTGGTATCGGAGTCAAGAGGTC 59.901 54.545 0.00 0.00 0.00 3.85
100 101 2.996631 ACTTCTACGTGGTATCGGAGT 58.003 47.619 0.00 0.00 41.85 3.85
103 104 2.291741 GGGTACTTCTACGTGGTATCGG 59.708 54.545 0.00 0.00 34.94 4.18
122 123 1.474498 GGTTGTATTGGCTAGACCGGG 60.474 57.143 6.32 0.00 43.94 5.73
133 134 2.888414 ACCCGGTCTTTTGGTTGTATTG 59.112 45.455 0.00 0.00 0.00 1.90
134 135 3.151554 GACCCGGTCTTTTGGTTGTATT 58.848 45.455 10.59 0.00 30.97 1.89
137 138 0.549469 AGACCCGGTCTTTTGGTTGT 59.451 50.000 14.84 0.00 40.28 3.32
141 142 2.500098 TCTATCAGACCCGGTCTTTTGG 59.500 50.000 18.03 9.98 41.37 3.28
152 153 6.398234 TTGCATAGTCTCTTCTATCAGACC 57.602 41.667 0.00 0.00 40.06 3.85
153 154 8.572185 TGTATTGCATAGTCTCTTCTATCAGAC 58.428 37.037 0.00 0.00 39.58 3.51
180 181 5.858049 CGGAAGTAGTGTTGACGTGTATAAA 59.142 40.000 0.00 0.00 0.00 1.40
181 182 5.048782 ACGGAAGTAGTGTTGACGTGTATAA 60.049 40.000 0.00 0.00 46.88 0.98
182 183 4.455533 ACGGAAGTAGTGTTGACGTGTATA 59.544 41.667 0.00 0.00 46.88 1.47
183 184 3.254166 ACGGAAGTAGTGTTGACGTGTAT 59.746 43.478 0.00 0.00 46.88 2.29
184 185 2.618241 ACGGAAGTAGTGTTGACGTGTA 59.382 45.455 0.00 0.00 46.88 2.90
185 186 1.406539 ACGGAAGTAGTGTTGACGTGT 59.593 47.619 0.00 0.00 46.88 4.49
186 187 2.129823 ACGGAAGTAGTGTTGACGTG 57.870 50.000 0.00 0.00 46.88 4.49
202 203 5.292345 TGACACGACAAATATTATGGAACGG 59.708 40.000 0.00 0.00 0.00 4.44
208 209 8.909708 AAAACCATGACACGACAAATATTATG 57.090 30.769 0.00 0.00 0.00 1.90
220 221 8.759641 TCAAATTTGAAATAAAACCATGACACG 58.240 29.630 18.45 0.00 33.55 4.49
254 255 5.008613 CCCAATTCCATAATACTTGTCGTGG 59.991 44.000 0.00 0.00 0.00 4.94
261 262 5.402054 TGCTCCCCAATTCCATAATACTT 57.598 39.130 0.00 0.00 0.00 2.24
274 275 9.181061 GTTAATTACTTATTAGTTGCTCCCCAA 57.819 33.333 0.00 0.00 35.78 4.12
275 276 8.330247 TGTTAATTACTTATTAGTTGCTCCCCA 58.670 33.333 0.00 0.00 35.78 4.96
303 304 2.897271 TGGTTGCACCACCATATCTT 57.103 45.000 6.14 0.00 44.79 2.40
407 414 5.424252 AGTGCAATTTTGATCATTCCATCCT 59.576 36.000 0.00 0.00 0.00 3.24
563 577 4.154918 GGTCCAAATTCAGAGCTACTTGTG 59.845 45.833 0.00 0.00 0.00 3.33
574 588 3.490526 CGTTGCAAAAGGTCCAAATTCAG 59.509 43.478 0.00 0.00 0.00 3.02
597 611 4.668666 CATTGCATGCGTACGTGG 57.331 55.556 17.90 7.81 33.09 4.94
684 698 2.170985 CTTGTCTTTGACCGCGCG 59.829 61.111 25.67 25.67 0.00 6.86
760 774 0.752054 GTGATCCTCTGAGGGCTGAG 59.248 60.000 23.00 0.00 39.15 3.35
761 775 0.337773 AGTGATCCTCTGAGGGCTGA 59.662 55.000 23.00 4.53 35.59 4.26
762 776 0.752054 GAGTGATCCTCTGAGGGCTG 59.248 60.000 23.00 0.00 37.22 4.85
763 777 0.754957 CGAGTGATCCTCTGAGGGCT 60.755 60.000 23.00 15.27 38.11 5.19
764 778 0.753479 TCGAGTGATCCTCTGAGGGC 60.753 60.000 23.00 15.57 38.11 5.19
765 779 1.769026 TTCGAGTGATCCTCTGAGGG 58.231 55.000 23.00 5.75 38.11 4.30
778 792 1.400737 ATAGCCTAGCCGTTTCGAGT 58.599 50.000 0.00 0.00 0.00 4.18
911 932 2.507324 GCGGCGCTAGCTATAGGC 60.507 66.667 26.86 8.11 44.37 3.93
912 933 2.202492 CGCGGCGCTAGCTATAGG 60.202 66.667 30.54 6.78 44.37 2.57
971 992 0.924090 GCGGTGCTACGAAAGATCTG 59.076 55.000 0.00 0.00 35.47 2.90
1039 1071 1.006805 AGTGCACACTCACTCGCTC 60.007 57.895 21.04 0.00 43.28 5.03
1043 1075 1.592669 ACGCAGTGCACACTCACTC 60.593 57.895 21.04 0.00 44.81 3.51
1082 1114 1.372251 CTAGCGCGCTAGTGATGGG 60.372 63.158 44.83 27.68 40.68 4.00
1618 1674 0.612744 ACCTCAAGGAGCTGAGCTTC 59.387 55.000 9.00 6.49 41.36 3.86
1672 1741 7.414984 CGGAGTAAGTAGGGTAGTAACAAGAAG 60.415 44.444 0.00 0.00 0.00 2.85
1684 1753 0.333993 TCTGCCGGAGTAAGTAGGGT 59.666 55.000 5.05 0.00 0.00 4.34
1697 1766 2.792290 CGTTCGCTCATGTCTGCCG 61.792 63.158 0.00 0.00 0.00 5.69
1699 1768 1.417592 CACGTTCGCTCATGTCTGC 59.582 57.895 0.00 0.00 0.00 4.26
1707 1776 3.984018 TGTAATTAAGCACGTTCGCTC 57.016 42.857 0.31 0.00 42.89 5.03
1726 1796 8.142994 ACGGAACTGATTAATGTAGCTAATTG 57.857 34.615 0.00 0.00 0.00 2.32
1733 1803 5.337554 TGTCGACGGAACTGATTAATGTAG 58.662 41.667 11.62 0.00 0.00 2.74
1764 1835 5.449862 CGTCCTTGGACTCACAAATGAAAAA 60.450 40.000 16.60 0.00 33.30 1.94
1813 1884 0.706184 GAATATAACGATCGCGCGCA 59.294 50.000 32.61 18.69 42.48 6.09
1893 1973 1.006220 CAGGAAAGTTTTGCCCCGC 60.006 57.895 0.00 0.00 0.00 6.13
1896 1976 2.430694 AGTTGACAGGAAAGTTTTGCCC 59.569 45.455 0.00 0.00 0.00 5.36
1973 2057 1.132262 CCATGTTTCGTGGGCACATAC 59.868 52.381 0.00 0.00 36.92 2.39
2155 2240 5.913305 TTGTTCGTTCATACACGTATACG 57.087 39.130 23.24 23.24 46.33 3.06
2172 2257 3.994392 ACTGATGGTCGTGTGTATTGTTC 59.006 43.478 0.00 0.00 0.00 3.18
2191 2276 2.222796 CGTGCATGTACCATTTCGACTG 60.223 50.000 8.45 0.00 0.00 3.51
2193 2278 1.996898 TCGTGCATGTACCATTTCGAC 59.003 47.619 8.45 0.00 0.00 4.20
2211 2296 8.670804 ATGTATACTATTAAAACTAGCGCTCG 57.329 34.615 16.34 11.32 0.00 5.03
2311 2398 4.039973 ACTCCTCATGACTCGTGGTAAAAA 59.960 41.667 0.00 0.00 0.00 1.94
2326 2413 9.014297 CCAAAAGTCAATAAAACTACTCCTCAT 57.986 33.333 0.00 0.00 0.00 2.90
2329 2416 7.172703 CGACCAAAAGTCAATAAAACTACTCCT 59.827 37.037 0.00 0.00 46.69 3.69
2331 2418 7.858583 ACGACCAAAAGTCAATAAAACTACTC 58.141 34.615 0.00 0.00 46.69 2.59
2350 2437 0.806868 CCGCTACTCTGTTACGACCA 59.193 55.000 0.00 0.00 0.00 4.02
2351 2438 0.525029 GCCGCTACTCTGTTACGACC 60.525 60.000 0.00 0.00 0.00 4.79
2370 2457 0.250038 CCCATCAGCCATCAGTACGG 60.250 60.000 0.00 0.00 0.00 4.02
2392 2494 1.272715 GCTCGTGTGACACAACGTG 59.727 57.895 16.74 20.30 39.75 4.49
2394 2496 1.559814 CTGCTCGTGTGACACAACG 59.440 57.895 16.74 15.60 33.40 4.10
2398 2500 2.357517 CCCCTGCTCGTGTGACAC 60.358 66.667 5.47 5.47 0.00 3.67
2756 3019 1.593265 GGTAAAACGCCGAGGAGGA 59.407 57.895 0.00 0.00 45.00 3.71
2845 3108 2.925563 CGTCCACACGGAAAATAGTACC 59.074 50.000 0.00 0.00 45.20 3.34
2846 3109 2.346545 GCGTCCACACGGAAAATAGTAC 59.653 50.000 0.00 0.00 45.20 2.73
2849 3112 1.434555 TGCGTCCACACGGAAAATAG 58.565 50.000 0.00 0.00 44.23 1.73
2851 3114 4.466133 TGCGTCCACACGGAAAAT 57.534 50.000 0.00 0.00 44.23 1.82
3044 3307 2.433664 GTGAACGGCCTGTACGGG 60.434 66.667 17.09 17.09 35.23 5.28
3168 3431 3.811497 AGTACGTGTTAAAAACAGAGGCC 59.189 43.478 0.00 0.00 43.10 5.19
3178 3441 5.403166 CGGTGAGATTTGAGTACGTGTTAAA 59.597 40.000 0.00 0.00 0.00 1.52
3221 3503 6.092807 GGAAATTATCTCCGATTCCATACTGC 59.907 42.308 0.00 0.00 39.45 4.40
3222 3504 6.595716 GGGAAATTATCTCCGATTCCATACTG 59.404 42.308 5.34 0.00 41.03 2.74
3223 3505 6.502158 AGGGAAATTATCTCCGATTCCATACT 59.498 38.462 5.34 0.00 41.03 2.12
3504 4049 3.323243 TCTAAAAACGTGCCTGTCTAGC 58.677 45.455 0.00 0.00 0.00 3.42
3571 4116 7.855904 AGTTCAAACAAGTGAAAATATGACGTC 59.144 33.333 9.11 9.11 39.18 4.34
3573 4118 7.113404 CCAGTTCAAACAAGTGAAAATATGACG 59.887 37.037 0.00 0.00 39.18 4.35
3586 4132 2.544486 GCCAAGCTCCAGTTCAAACAAG 60.544 50.000 0.00 0.00 0.00 3.16
3620 4166 5.126384 TGAAGGAAAACAAATCTTCCGTTGT 59.874 36.000 0.00 0.00 44.94 3.32
3722 4270 2.877168 CAGGAGAGTAATGCCTTGATGC 59.123 50.000 0.00 0.00 0.00 3.91
3752 4300 1.401905 GAATGGCCGTGATTTGAGACC 59.598 52.381 0.00 0.00 0.00 3.85
3764 4312 5.643777 CCTAATATTCCTAACAGAATGGCCG 59.356 44.000 0.00 0.00 43.62 6.13
3868 7395 6.947733 ACCTGACATGATATGTTTTTGAGGAA 59.052 34.615 0.00 0.00 45.03 3.36
3871 7398 6.600822 AGGACCTGACATGATATGTTTTTGAG 59.399 38.462 0.00 0.00 45.03 3.02
3873 7400 6.764308 AGGACCTGACATGATATGTTTTTG 57.236 37.500 0.00 0.00 45.03 2.44
3973 7501 9.667107 AAGTCATATCATCGTCTAAAAAGGAAA 57.333 29.630 0.00 0.00 0.00 3.13
3974 7502 9.667107 AAAGTCATATCATCGTCTAAAAAGGAA 57.333 29.630 0.00 0.00 0.00 3.36
4016 7545 7.928706 AGAGTAATGGCTCTGATGTAAACATAC 59.071 37.037 0.00 0.00 43.54 2.39
4017 7546 8.023021 AGAGTAATGGCTCTGATGTAAACATA 57.977 34.615 0.00 0.00 43.54 2.29
4030 7559 1.751924 ACGTGAGGAGAGTAATGGCTC 59.248 52.381 0.00 0.00 35.82 4.70
4103 7632 4.264083 ACCATCCTTCTTGACACCATCAAT 60.264 41.667 0.00 0.00 46.37 2.57
4111 7640 1.699083 TGCAGACCATCCTTCTTGACA 59.301 47.619 0.00 0.00 0.00 3.58
4112 7641 2.354259 CTGCAGACCATCCTTCTTGAC 58.646 52.381 8.42 0.00 0.00 3.18
4129 7658 2.050985 GCCACAAGTTCGTGCTGC 60.051 61.111 0.00 0.00 35.47 5.25
4130 7659 1.159713 TCTGCCACAAGTTCGTGCTG 61.160 55.000 0.00 0.00 35.47 4.41
4132 7661 1.438651 TATCTGCCACAAGTTCGTGC 58.561 50.000 0.00 0.00 35.47 5.34
4135 7664 3.589988 AGAGTTATCTGCCACAAGTTCG 58.410 45.455 0.00 0.00 33.30 3.95
4189 7718 3.546724 CGATGACTTCTCTCCCTACTCA 58.453 50.000 0.00 0.00 0.00 3.41
4239 7768 9.476928 TGATAAAAATATTCCTACCCCGAAAAA 57.523 29.630 0.00 0.00 0.00 1.94
4240 7769 9.127277 CTGATAAAAATATTCCTACCCCGAAAA 57.873 33.333 0.00 0.00 0.00 2.29
4241 7770 7.722285 CCTGATAAAAATATTCCTACCCCGAAA 59.278 37.037 0.00 0.00 0.00 3.46
4242 7771 7.228590 CCTGATAAAAATATTCCTACCCCGAA 58.771 38.462 0.00 0.00 0.00 4.30
4243 7772 6.746043 GCCTGATAAAAATATTCCTACCCCGA 60.746 42.308 0.00 0.00 0.00 5.14
4244 7773 5.414765 GCCTGATAAAAATATTCCTACCCCG 59.585 44.000 0.00 0.00 0.00 5.73
4245 7774 6.311735 TGCCTGATAAAAATATTCCTACCCC 58.688 40.000 0.00 0.00 0.00 4.95
4246 7775 7.451566 ACATGCCTGATAAAAATATTCCTACCC 59.548 37.037 0.00 0.00 0.00 3.69
4247 7776 8.409358 ACATGCCTGATAAAAATATTCCTACC 57.591 34.615 0.00 0.00 0.00 3.18
4256 7785 8.538701 TGGTTGATTAACATGCCTGATAAAAAT 58.461 29.630 2.50 0.00 38.58 1.82
4257 7786 7.901029 TGGTTGATTAACATGCCTGATAAAAA 58.099 30.769 2.50 0.00 38.58 1.94
4258 7787 7.473735 TGGTTGATTAACATGCCTGATAAAA 57.526 32.000 2.50 0.00 38.58 1.52
4259 7788 7.473735 TTGGTTGATTAACATGCCTGATAAA 57.526 32.000 2.50 0.00 38.58 1.40
4260 7789 7.658525 ATTGGTTGATTAACATGCCTGATAA 57.341 32.000 2.50 0.00 38.58 1.75
4261 7790 7.560991 AGAATTGGTTGATTAACATGCCTGATA 59.439 33.333 2.50 0.00 38.58 2.15
4262 7791 6.381994 AGAATTGGTTGATTAACATGCCTGAT 59.618 34.615 2.50 0.00 38.58 2.90
4263 7792 5.716228 AGAATTGGTTGATTAACATGCCTGA 59.284 36.000 2.50 0.00 38.58 3.86
4264 7793 5.969423 AGAATTGGTTGATTAACATGCCTG 58.031 37.500 2.50 0.00 38.58 4.85
4265 7794 5.163622 CGAGAATTGGTTGATTAACATGCCT 60.164 40.000 2.50 0.00 38.58 4.75
4266 7795 5.036737 CGAGAATTGGTTGATTAACATGCC 58.963 41.667 2.50 0.00 38.58 4.40
4267 7796 5.879237 TCGAGAATTGGTTGATTAACATGC 58.121 37.500 2.50 0.00 38.58 4.06
4268 7797 6.914215 CCATCGAGAATTGGTTGATTAACATG 59.086 38.462 2.50 0.00 38.58 3.21
4269 7798 6.828273 TCCATCGAGAATTGGTTGATTAACAT 59.172 34.615 2.50 0.00 38.58 2.71
4270 7799 6.176896 TCCATCGAGAATTGGTTGATTAACA 58.823 36.000 2.50 0.00 38.58 2.41
4271 7800 6.677781 TCCATCGAGAATTGGTTGATTAAC 57.322 37.500 2.83 0.00 34.48 2.01
4272 7801 7.628366 GCTTTCCATCGAGAATTGGTTGATTAA 60.628 37.037 2.83 0.00 34.48 1.40
4273 7802 6.183360 GCTTTCCATCGAGAATTGGTTGATTA 60.183 38.462 2.83 0.00 34.48 1.75
4274 7803 5.393461 GCTTTCCATCGAGAATTGGTTGATT 60.393 40.000 2.83 0.00 34.48 2.57
4275 7804 4.096984 GCTTTCCATCGAGAATTGGTTGAT 59.903 41.667 2.83 0.00 34.48 2.57
4276 7805 3.440173 GCTTTCCATCGAGAATTGGTTGA 59.560 43.478 2.83 0.00 34.48 3.18
4277 7806 3.441572 AGCTTTCCATCGAGAATTGGTTG 59.558 43.478 2.83 0.00 34.48 3.77
4278 7807 3.690460 AGCTTTCCATCGAGAATTGGTT 58.310 40.909 2.83 0.00 34.48 3.67
4279 7808 3.054802 AGAGCTTTCCATCGAGAATTGGT 60.055 43.478 2.83 0.00 34.48 3.67
4280 7809 3.539604 AGAGCTTTCCATCGAGAATTGG 58.460 45.455 0.00 0.00 0.00 3.16
4281 7810 3.559242 GGAGAGCTTTCCATCGAGAATTG 59.441 47.826 18.21 0.00 37.20 2.32
4282 7811 3.198635 TGGAGAGCTTTCCATCGAGAATT 59.801 43.478 21.62 0.00 42.24 2.17
4283 7812 2.768527 TGGAGAGCTTTCCATCGAGAAT 59.231 45.455 21.62 0.00 42.24 2.40
4284 7813 2.179427 TGGAGAGCTTTCCATCGAGAA 58.821 47.619 21.62 0.00 42.24 2.87
4285 7814 1.852633 TGGAGAGCTTTCCATCGAGA 58.147 50.000 21.62 0.00 42.24 4.04
4292 7821 6.426646 TCCTATTAGAATGGAGAGCTTTCC 57.573 41.667 16.39 16.39 37.77 3.13
4293 7822 7.440856 CACTTCCTATTAGAATGGAGAGCTTTC 59.559 40.741 0.00 0.00 0.00 2.62
4294 7823 7.092668 ACACTTCCTATTAGAATGGAGAGCTTT 60.093 37.037 0.00 0.00 0.00 3.51
4295 7824 6.385467 ACACTTCCTATTAGAATGGAGAGCTT 59.615 38.462 0.00 0.00 0.00 3.74
4296 7825 5.902431 ACACTTCCTATTAGAATGGAGAGCT 59.098 40.000 0.00 0.00 0.00 4.09
4297 7826 6.168270 ACACTTCCTATTAGAATGGAGAGC 57.832 41.667 0.00 0.00 0.00 4.09
4298 7827 8.364142 CCTAACACTTCCTATTAGAATGGAGAG 58.636 40.741 0.00 0.00 0.00 3.20
4299 7828 7.202011 GCCTAACACTTCCTATTAGAATGGAGA 60.202 40.741 0.00 0.00 0.00 3.71
4300 7829 6.931840 GCCTAACACTTCCTATTAGAATGGAG 59.068 42.308 0.00 0.00 0.00 3.86
4301 7830 6.615726 AGCCTAACACTTCCTATTAGAATGGA 59.384 38.462 0.00 0.00 0.00 3.41
4302 7831 6.831976 AGCCTAACACTTCCTATTAGAATGG 58.168 40.000 0.00 0.00 0.00 3.16
4303 7832 7.439655 GTGAGCCTAACACTTCCTATTAGAATG 59.560 40.741 0.00 0.00 35.66 2.67
4304 7833 7.345914 AGTGAGCCTAACACTTCCTATTAGAAT 59.654 37.037 0.00 0.00 44.69 2.40
4305 7834 6.668283 AGTGAGCCTAACACTTCCTATTAGAA 59.332 38.462 0.00 0.00 44.69 2.10
4306 7835 6.195700 AGTGAGCCTAACACTTCCTATTAGA 58.804 40.000 0.00 0.00 44.69 2.10
4307 7836 6.472686 AGTGAGCCTAACACTTCCTATTAG 57.527 41.667 0.00 0.00 44.69 1.73
4308 7837 6.550108 CCTAGTGAGCCTAACACTTCCTATTA 59.450 42.308 0.00 0.00 44.69 0.98
4309 7838 5.364157 CCTAGTGAGCCTAACACTTCCTATT 59.636 44.000 0.00 0.00 44.69 1.73
4310 7839 4.896482 CCTAGTGAGCCTAACACTTCCTAT 59.104 45.833 0.00 0.00 44.69 2.57
4311 7840 4.279145 CCTAGTGAGCCTAACACTTCCTA 58.721 47.826 0.00 0.00 44.69 2.94
4312 7841 3.100671 CCTAGTGAGCCTAACACTTCCT 58.899 50.000 0.00 0.00 44.69 3.36
4313 7842 2.418884 GCCTAGTGAGCCTAACACTTCC 60.419 54.545 0.00 0.00 44.69 3.46
4314 7843 2.233922 TGCCTAGTGAGCCTAACACTTC 59.766 50.000 0.00 0.00 44.69 3.01
4315 7844 2.234908 CTGCCTAGTGAGCCTAACACTT 59.765 50.000 0.00 0.00 44.69 3.16
4317 7846 1.825474 TCTGCCTAGTGAGCCTAACAC 59.175 52.381 0.00 0.00 38.38 3.32
4318 7847 2.103373 CTCTGCCTAGTGAGCCTAACA 58.897 52.381 0.00 0.00 0.00 2.41
4319 7848 2.880963 CTCTGCCTAGTGAGCCTAAC 57.119 55.000 0.00 0.00 0.00 2.34
4333 7862 2.817396 GCGAAGGAGTGGCTCTGC 60.817 66.667 0.00 0.00 34.62 4.26
4334 7863 2.125350 GGCGAAGGAGTGGCTCTG 60.125 66.667 0.00 0.00 0.00 3.35
4335 7864 1.557269 AATGGCGAAGGAGTGGCTCT 61.557 55.000 0.00 0.00 0.00 4.09
4336 7865 1.078143 AATGGCGAAGGAGTGGCTC 60.078 57.895 0.00 0.00 0.00 4.70
4337 7866 1.078143 GAATGGCGAAGGAGTGGCT 60.078 57.895 0.00 0.00 0.00 4.75
4338 7867 2.115291 GGAATGGCGAAGGAGTGGC 61.115 63.158 0.00 0.00 0.00 5.01
4339 7868 1.452108 GGGAATGGCGAAGGAGTGG 60.452 63.158 0.00 0.00 0.00 4.00
4340 7869 1.452108 GGGGAATGGCGAAGGAGTG 60.452 63.158 0.00 0.00 0.00 3.51
4341 7870 1.281925 ATGGGGAATGGCGAAGGAGT 61.282 55.000 0.00 0.00 0.00 3.85
4342 7871 0.764890 TATGGGGAATGGCGAAGGAG 59.235 55.000 0.00 0.00 0.00 3.69
4343 7872 1.217916 TTATGGGGAATGGCGAAGGA 58.782 50.000 0.00 0.00 0.00 3.36
4344 7873 1.681264 GTTTATGGGGAATGGCGAAGG 59.319 52.381 0.00 0.00 0.00 3.46
4345 7874 2.618709 GAGTTTATGGGGAATGGCGAAG 59.381 50.000 0.00 0.00 0.00 3.79
4346 7875 2.025793 TGAGTTTATGGGGAATGGCGAA 60.026 45.455 0.00 0.00 0.00 4.70
4347 7876 1.562008 TGAGTTTATGGGGAATGGCGA 59.438 47.619 0.00 0.00 0.00 5.54
4348 7877 2.051334 TGAGTTTATGGGGAATGGCG 57.949 50.000 0.00 0.00 0.00 5.69
4349 7878 2.695147 CCTTGAGTTTATGGGGAATGGC 59.305 50.000 0.00 0.00 0.00 4.40
4350 7879 3.701040 CACCTTGAGTTTATGGGGAATGG 59.299 47.826 0.00 0.00 0.00 3.16
4351 7880 3.701040 CCACCTTGAGTTTATGGGGAATG 59.299 47.826 0.00 0.00 0.00 2.67
4352 7881 3.596046 TCCACCTTGAGTTTATGGGGAAT 59.404 43.478 0.00 0.00 0.00 3.01
4353 7882 2.990284 TCCACCTTGAGTTTATGGGGAA 59.010 45.455 0.00 0.00 0.00 3.97
4354 7883 2.307686 GTCCACCTTGAGTTTATGGGGA 59.692 50.000 0.00 0.00 0.00 4.81
4355 7884 2.620627 GGTCCACCTTGAGTTTATGGGG 60.621 54.545 0.00 0.00 0.00 4.96
4356 7885 2.041081 TGGTCCACCTTGAGTTTATGGG 59.959 50.000 0.00 0.00 36.82 4.00
4357 7886 3.433306 TGGTCCACCTTGAGTTTATGG 57.567 47.619 0.00 0.00 36.82 2.74
4358 7887 4.588899 TGATGGTCCACCTTGAGTTTATG 58.411 43.478 0.00 0.00 36.82 1.90
4359 7888 4.927267 TGATGGTCCACCTTGAGTTTAT 57.073 40.909 0.00 0.00 36.82 1.40
4360 7889 4.927267 ATGATGGTCCACCTTGAGTTTA 57.073 40.909 0.00 0.00 36.82 2.01
4361 7890 3.814504 ATGATGGTCCACCTTGAGTTT 57.185 42.857 0.00 0.00 36.82 2.66
4362 7891 3.814504 AATGATGGTCCACCTTGAGTT 57.185 42.857 0.00 0.00 36.82 3.01
4363 7892 3.814504 AAATGATGGTCCACCTTGAGT 57.185 42.857 0.00 0.00 36.82 3.41


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

AutoCloner maintained by Alex Coulton.