Multiple sequence alignment - TraesCS7A01G400600

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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 TraesCS7A01G400600 chr7A 100.000 4484 0 0 1 4484 580510507 580506024 0.000000e+00 8281.0
1 TraesCS7A01G400600 chr7A 82.441 2392 379 30 1109 3485 580474411 580472046 0.000000e+00 2052.0
2 TraesCS7A01G400600 chr7A 76.849 2393 484 51 1082 3439 580693947 580696304 0.000000e+00 1286.0
3 TraesCS7A01G400600 chr7A 89.091 385 27 7 4006 4383 580470855 580470479 8.790000e-127 464.0
4 TraesCS7A01G400600 chr7A 93.064 173 8 2 3638 3810 323448430 323448598 2.680000e-62 250.0
5 TraesCS7A01G400600 chr7B 95.162 3142 129 7 386 3508 537831845 537828708 0.000000e+00 4939.0
6 TraesCS7A01G400600 chr7B 84.456 2554 326 43 984 3497 537795894 537793372 0.000000e+00 2451.0
7 TraesCS7A01G400600 chr7B 82.937 2397 357 36 1109 3485 537676791 537674427 0.000000e+00 2113.0
8 TraesCS7A01G400600 chr7B 77.115 2364 466 52 1080 3407 538243303 538245627 0.000000e+00 1299.0
9 TraesCS7A01G400600 chr7B 90.593 489 25 7 3907 4383 537827530 537827051 2.940000e-176 628.0
10 TraesCS7A01G400600 chr7B 93.797 403 19 4 1 400 537834246 537833847 6.420000e-168 601.0
11 TraesCS7A01G400600 chr7B 91.153 373 27 4 3875 4244 537792222 537791853 6.700000e-138 501.0
12 TraesCS7A01G400600 chr7B 89.870 385 24 6 4006 4383 537673207 537672831 8.720000e-132 481.0
13 TraesCS7A01G400600 chr7B 90.769 65 1 1 3584 3643 537828708 537828644 1.030000e-11 82.4
14 TraesCS7A01G400600 chr7B 100.000 40 0 0 4271 4310 537791847 537791808 1.730000e-09 75.0
15 TraesCS7A01G400600 chr7D 88.047 3539 344 38 1 3497 509615763 509612262 0.000000e+00 4119.0
16 TraesCS7A01G400600 chr7D 82.700 2393 367 35 1109 3485 509559686 509557325 0.000000e+00 2082.0
17 TraesCS7A01G400600 chr7D 91.057 615 34 11 3881 4484 509611455 509610851 0.000000e+00 811.0
18 TraesCS7A01G400600 chr7D 88.571 385 29 10 4006 4383 509556100 509555724 1.900000e-123 453.0
19 TraesCS7A01G400600 chr7D 90.000 50 2 1 1398 1444 509563257 509563208 1.350000e-05 62.1
20 TraesCS7A01G400600 chr6A 94.706 170 6 1 3637 3806 48520037 48520203 1.240000e-65 261.0
21 TraesCS7A01G400600 chr6A 92.045 176 7 4 3640 3812 97802688 97802517 1.610000e-59 241.0
22 TraesCS7A01G400600 chr2D 95.181 166 5 1 3641 3806 526524959 526525121 4.450000e-65 259.0
23 TraesCS7A01G400600 chr5A 94.048 168 7 1 3639 3806 567110802 567110966 7.450000e-63 252.0
24 TraesCS7A01G400600 chr5A 85.211 142 18 2 341 480 283309205 283309065 4.680000e-30 143.0
25 TraesCS7A01G400600 chr2B 93.529 170 6 4 3640 3807 769078004 769078170 9.630000e-62 248.0
26 TraesCS7A01G400600 chr2B 86.713 143 13 4 341 480 91043386 91043247 2.160000e-33 154.0
27 TraesCS7A01G400600 chr1B 92.090 177 8 4 3640 3814 390879196 390879368 1.250000e-60 244.0
28 TraesCS7A01G400600 chr5D 92.442 172 10 1 3637 3808 322370000 322370168 4.480000e-60 243.0
29 TraesCS7A01G400600 chr5D 86.577 149 17 2 335 480 61713913 61714061 1.290000e-35 161.0
30 TraesCS7A01G400600 chr3A 90.761 184 9 6 3632 3811 440422318 440422139 5.800000e-59 239.0
31 TraesCS7A01G400600 chr3A 86.755 151 11 6 337 480 506918987 506918839 4.640000e-35 159.0
32 TraesCS7A01G400600 chr3A 85.315 143 16 3 341 480 549622945 549622805 4.680000e-30 143.0
33 TraesCS7A01G400600 chr5B 89.247 186 12 5 4194 4379 667412452 667412629 4.510000e-55 226.0
34 TraesCS7A01G400600 chr1A 87.755 196 15 4 4185 4380 531824252 531824438 2.100000e-53 220.0
35 TraesCS7A01G400600 chr4A 86.486 148 16 2 337 480 48905994 48905847 4.640000e-35 159.0
36 TraesCS7A01G400600 chr6B 86.301 146 17 2 337 480 468734621 468734477 6.010000e-34 156.0
37 TraesCS7A01G400600 chr4D 85.034 147 19 2 338 481 354880802 354880656 3.610000e-31 147.0


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 TraesCS7A01G400600 chr7A 580506024 580510507 4483 True 8281.0 8281 100.000000 1 4484 1 chr7A.!!$R1 4483
1 TraesCS7A01G400600 chr7A 580693947 580696304 2357 False 1286.0 1286 76.849000 1082 3439 1 chr7A.!!$F2 2357
2 TraesCS7A01G400600 chr7A 580470479 580474411 3932 True 1258.0 2052 85.766000 1109 4383 2 chr7A.!!$R2 3274
3 TraesCS7A01G400600 chr7B 537827051 537834246 7195 True 1562.6 4939 92.580250 1 4383 4 chr7B.!!$R3 4382
4 TraesCS7A01G400600 chr7B 538243303 538245627 2324 False 1299.0 1299 77.115000 1080 3407 1 chr7B.!!$F1 2327
5 TraesCS7A01G400600 chr7B 537672831 537676791 3960 True 1297.0 2113 86.403500 1109 4383 2 chr7B.!!$R1 3274
6 TraesCS7A01G400600 chr7B 537791808 537795894 4086 True 1009.0 2451 91.869667 984 4310 3 chr7B.!!$R2 3326
7 TraesCS7A01G400600 chr7D 509610851 509615763 4912 True 2465.0 4119 89.552000 1 4484 2 chr7D.!!$R2 4483
8 TraesCS7A01G400600 chr7D 509555724 509563257 7533 True 865.7 2082 87.090333 1109 4383 3 chr7D.!!$R1 3274

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
700 2738 2.159268 GGAACCTCGTACTTAGCAGTCC 60.159 54.545 0.0 0.00 34.06 3.85 F
1039 3080 0.112412 TCCCTCTTTTTCCAGCCACC 59.888 55.000 0.0 0.00 0.00 4.61 F
2019 4526 0.035439 ATGGTCCTAACAACCGGCTG 60.035 55.000 0.0 0.62 39.81 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1905 4409 0.107456 CTCTGACTGCCCACAACACT 59.893 55.0 0.00 0.0 0.0 3.55 R
2198 4711 0.109504 GTCTGCACACTCGTCCTCTC 60.110 60.0 0.00 0.0 0.0 3.20 R
3510 6058 0.035317 TCATTTCGACACTGCAGCCT 59.965 50.0 15.27 0.0 0.0 4.58 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
113 116 8.816144 GTGATAAAATCTTGCAAGTTCAACAAA 58.184 29.630 25.19 4.49 0.00 2.83
114 117 9.376075 TGATAAAATCTTGCAAGTTCAACAAAA 57.624 25.926 25.19 3.73 0.00 2.44
138 141 5.587844 ACACAAGTAATCCATGCTCATCTTC 59.412 40.000 0.00 0.00 0.00 2.87
146 149 6.785337 ATCCATGCTCATCTTCATTTTCAA 57.215 33.333 0.00 0.00 0.00 2.69
271 275 4.084537 CCACTAGTGTTTCTTTGTGTAGCG 60.085 45.833 21.18 0.00 32.05 4.26
305 309 8.611654 AACAAGTTCGCCTAAAGTAAGAAATA 57.388 30.769 0.00 0.00 0.00 1.40
421 2444 7.566760 ACTGAAATGAGTGAACAAATACACA 57.433 32.000 0.00 0.00 39.18 3.72
445 2468 9.337396 ACAAAAATGTGTATGTATACATCCGAT 57.663 29.630 21.49 7.53 44.25 4.18
700 2738 2.159268 GGAACCTCGTACTTAGCAGTCC 60.159 54.545 0.00 0.00 34.06 3.85
725 2763 6.156519 GGGTCAAGATTTAAAAGTGCGATTT 58.843 36.000 0.00 0.00 0.00 2.17
821 2859 2.677199 ACGTATGAGATATGGCGCTTG 58.323 47.619 7.64 0.00 0.00 4.01
1039 3080 0.112412 TCCCTCTTTTTCCAGCCACC 59.888 55.000 0.00 0.00 0.00 4.61
1042 3083 1.866853 CTCTTTTTCCAGCCACCGCC 61.867 60.000 0.00 0.00 34.57 6.13
1228 3692 1.674057 CTCCTTGCCGTCTGGTTCT 59.326 57.895 0.00 0.00 37.67 3.01
1362 3832 4.556697 TCAAAGATGGTATGCTCTCCCTA 58.443 43.478 0.00 0.00 0.00 3.53
1368 3838 1.153989 TATGCTCTCCCTAGCCGCT 59.846 57.895 0.00 0.00 42.05 5.52
1541 4020 1.990060 AGTACATGGGCGCTGGAGT 60.990 57.895 7.64 4.26 0.00 3.85
1551 4030 1.923227 GCGCTGGAGTTGCCCTTTAC 61.923 60.000 0.00 0.00 34.97 2.01
1664 4161 2.437180 CGCTGGCAATCTGGCTCA 60.437 61.111 1.71 0.00 44.10 4.26
1905 4409 3.897122 ACCGGGGGAAGCAGCAAA 61.897 61.111 6.32 0.00 0.00 3.68
1910 4414 1.115326 GGGGGAAGCAGCAAAGTGTT 61.115 55.000 0.00 0.00 0.00 3.32
2019 4526 0.035439 ATGGTCCTAACAACCGGCTG 60.035 55.000 0.00 0.62 39.81 4.85
2053 4560 1.409064 CAAGCGGCTACTCCTATGTCA 59.591 52.381 1.35 0.00 0.00 3.58
2198 4711 6.292542 CCATACGAAAGACTTATGCACATCAG 60.293 42.308 0.00 0.00 31.90 2.90
2243 4756 1.399744 TTGGACGACTGCCTCTGTGT 61.400 55.000 0.00 0.00 0.00 3.72
2296 4809 2.238847 GATGGTGTCGCTGGCAGGTA 62.239 60.000 17.64 0.00 0.00 3.08
2604 5117 1.338769 GGGGTGTTGAAGTCGCTACAT 60.339 52.381 0.00 0.00 0.00 2.29
2637 5150 2.302445 AGCAGTGAAGAAGCTCATCAGT 59.698 45.455 0.00 0.00 32.05 3.41
3009 5522 1.303074 CCAGCAGATGCACACCACT 60.303 57.895 7.68 0.00 45.16 4.00
3036 5549 3.350163 ATCAGGGGCACAAGGGGG 61.350 66.667 0.00 0.00 0.00 5.40
3045 5558 1.133482 GGCACAAGGGGGTATATTGCT 60.133 52.381 0.00 0.00 0.00 3.91
3208 5721 1.754745 GAGTGGGCTGGTCAGTTGA 59.245 57.895 0.00 0.00 0.00 3.18
3212 5725 0.895100 TGGGCTGGTCAGTTGATTGC 60.895 55.000 0.00 0.00 0.00 3.56
3423 5936 0.165944 CCAACTGTTCATCGCCGTTC 59.834 55.000 0.00 0.00 0.00 3.95
3458 5974 0.390998 GAGAGCCCTCTGTTGTCAGC 60.391 60.000 1.91 0.00 40.61 4.26
3495 6043 5.846994 CGCGATAGAGTGATTCTTACTGTAC 59.153 44.000 0.00 0.00 37.36 2.90
3496 6044 6.292973 CGCGATAGAGTGATTCTTACTGTACT 60.293 42.308 0.00 0.00 37.36 2.73
3497 6045 7.095732 CGCGATAGAGTGATTCTTACTGTACTA 60.096 40.741 0.00 0.00 37.36 1.82
3498 6046 8.225107 GCGATAGAGTGATTCTTACTGTACTAG 58.775 40.741 0.00 0.00 37.36 2.57
3499 6047 9.263538 CGATAGAGTGATTCTTACTGTACTAGT 57.736 37.037 0.00 0.00 39.14 2.57
3502 6050 8.865420 AGAGTGATTCTTACTGTACTAGTCAA 57.135 34.615 0.00 0.00 40.89 3.18
3503 6051 9.469097 AGAGTGATTCTTACTGTACTAGTCAAT 57.531 33.333 0.00 0.00 40.89 2.57
3513 6061 7.045126 ACTGTACTAGTCAATTCTGATAGGC 57.955 40.000 0.00 0.00 33.17 3.93
3514 6062 6.836527 ACTGTACTAGTCAATTCTGATAGGCT 59.163 38.462 0.00 0.00 33.17 4.58
3515 6063 7.043961 TGTACTAGTCAATTCTGATAGGCTG 57.956 40.000 0.00 0.00 33.05 4.85
3516 6064 4.954875 ACTAGTCAATTCTGATAGGCTGC 58.045 43.478 0.00 0.00 33.05 5.25
3517 6065 3.920231 AGTCAATTCTGATAGGCTGCA 57.080 42.857 0.50 0.00 33.05 4.41
3518 6066 3.806380 AGTCAATTCTGATAGGCTGCAG 58.194 45.455 10.11 10.11 33.05 4.41
3519 6067 3.199508 AGTCAATTCTGATAGGCTGCAGT 59.800 43.478 16.64 0.00 33.05 4.40
3520 6068 3.311871 GTCAATTCTGATAGGCTGCAGTG 59.688 47.826 16.64 0.65 33.05 3.66
3521 6069 3.054875 TCAATTCTGATAGGCTGCAGTGT 60.055 43.478 16.64 5.34 33.90 3.55
3522 6070 2.680312 TTCTGATAGGCTGCAGTGTC 57.320 50.000 16.64 4.84 33.90 3.67
3523 6071 0.457443 TCTGATAGGCTGCAGTGTCG 59.543 55.000 16.64 1.82 33.90 4.35
3524 6072 0.457443 CTGATAGGCTGCAGTGTCGA 59.543 55.000 16.64 2.49 0.00 4.20
3525 6073 0.894835 TGATAGGCTGCAGTGTCGAA 59.105 50.000 16.64 0.00 0.00 3.71
3526 6074 1.275010 TGATAGGCTGCAGTGTCGAAA 59.725 47.619 16.64 0.00 0.00 3.46
3527 6075 2.093500 TGATAGGCTGCAGTGTCGAAAT 60.093 45.455 16.64 0.00 0.00 2.17
3528 6076 1.725641 TAGGCTGCAGTGTCGAAATG 58.274 50.000 16.64 0.00 0.00 2.32
3529 6077 0.035317 AGGCTGCAGTGTCGAAATGA 59.965 50.000 16.64 0.00 0.00 2.57
3530 6078 0.445436 GGCTGCAGTGTCGAAATGAG 59.555 55.000 16.64 0.00 0.00 2.90
3531 6079 1.151668 GCTGCAGTGTCGAAATGAGT 58.848 50.000 16.64 0.00 0.00 3.41
3532 6080 1.532868 GCTGCAGTGTCGAAATGAGTT 59.467 47.619 16.64 0.00 0.00 3.01
3533 6081 2.031682 GCTGCAGTGTCGAAATGAGTTT 60.032 45.455 16.64 0.00 0.00 2.66
3534 6082 3.803555 CTGCAGTGTCGAAATGAGTTTC 58.196 45.455 5.25 0.00 40.25 2.78
3535 6083 3.466836 TGCAGTGTCGAAATGAGTTTCT 58.533 40.909 0.00 0.00 41.24 2.52
3536 6084 3.876914 TGCAGTGTCGAAATGAGTTTCTT 59.123 39.130 0.00 0.00 41.24 2.52
3537 6085 4.335315 TGCAGTGTCGAAATGAGTTTCTTT 59.665 37.500 0.00 0.00 41.24 2.52
3538 6086 5.525745 TGCAGTGTCGAAATGAGTTTCTTTA 59.474 36.000 0.00 0.00 41.24 1.85
3542 6090 8.761497 CAGTGTCGAAATGAGTTTCTTTACTTA 58.239 33.333 0.00 0.00 41.24 2.24
3566 6114 2.184448 CCAATGCTAATTGTTTCGCCG 58.816 47.619 0.00 0.00 41.46 6.46
3568 6116 2.825086 ATGCTAATTGTTTCGCCGTC 57.175 45.000 0.00 0.00 0.00 4.79
3569 6117 1.803334 TGCTAATTGTTTCGCCGTCT 58.197 45.000 0.00 0.00 0.00 4.18
3578 6126 1.193874 GTTTCGCCGTCTTGTAACTGG 59.806 52.381 0.00 0.00 0.00 4.00
3641 6197 9.619316 CATTCTAGCTACATACATGTCTTCTAC 57.381 37.037 0.00 0.00 41.97 2.59
3643 6199 8.610248 TCTAGCTACATACATGTCTTCTACTC 57.390 38.462 0.00 0.00 41.97 2.59
3644 6200 6.642707 AGCTACATACATGTCTTCTACTCC 57.357 41.667 0.00 0.00 41.97 3.85
3645 6201 5.536916 AGCTACATACATGTCTTCTACTCCC 59.463 44.000 0.00 0.00 41.97 4.30
3647 6203 6.294286 GCTACATACATGTCTTCTACTCCCTC 60.294 46.154 0.00 0.00 41.97 4.30
3649 6205 2.379972 ACATGTCTTCTACTCCCTCCG 58.620 52.381 0.00 0.00 0.00 4.63
3650 6206 2.291670 ACATGTCTTCTACTCCCTCCGT 60.292 50.000 0.00 0.00 0.00 4.69
3651 6207 2.599408 TGTCTTCTACTCCCTCCGTT 57.401 50.000 0.00 0.00 0.00 4.44
3652 6208 2.444421 TGTCTTCTACTCCCTCCGTTC 58.556 52.381 0.00 0.00 0.00 3.95
3653 6209 1.750206 GTCTTCTACTCCCTCCGTTCC 59.250 57.143 0.00 0.00 0.00 3.62
3654 6210 1.639628 TCTTCTACTCCCTCCGTTCCT 59.360 52.381 0.00 0.00 0.00 3.36
3655 6211 2.848694 TCTTCTACTCCCTCCGTTCCTA 59.151 50.000 0.00 0.00 0.00 2.94
3656 6212 3.267812 TCTTCTACTCCCTCCGTTCCTAA 59.732 47.826 0.00 0.00 0.00 2.69
3657 6213 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
3658 6214 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
3659 6215 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
3660 6216 5.136105 TCTACTCCCTCCGTTCCTAAATAC 58.864 45.833 0.00 0.00 0.00 1.89
3661 6217 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
3662 6218 5.134725 ACTCCCTCCGTTCCTAAATACTA 57.865 43.478 0.00 0.00 0.00 1.82
3663 6219 5.713807 ACTCCCTCCGTTCCTAAATACTAT 58.286 41.667 0.00 0.00 0.00 2.12
3664 6220 6.856757 ACTCCCTCCGTTCCTAAATACTATA 58.143 40.000 0.00 0.00 0.00 1.31
3665 6221 7.300658 ACTCCCTCCGTTCCTAAATACTATAA 58.699 38.462 0.00 0.00 0.00 0.98
3666 6222 7.450944 ACTCCCTCCGTTCCTAAATACTATAAG 59.549 40.741 0.00 0.00 0.00 1.73
3667 6223 7.300658 TCCCTCCGTTCCTAAATACTATAAGT 58.699 38.462 0.00 0.00 0.00 2.24
3668 6224 7.449704 TCCCTCCGTTCCTAAATACTATAAGTC 59.550 40.741 0.00 0.00 0.00 3.01
3669 6225 7.450944 CCCTCCGTTCCTAAATACTATAAGTCT 59.549 40.741 0.00 0.00 0.00 3.24
3670 6226 8.858094 CCTCCGTTCCTAAATACTATAAGTCTT 58.142 37.037 0.00 0.00 0.00 3.01
3700 6256 9.656040 AGAGATTACACTATAGACTACATACGG 57.344 37.037 6.78 0.00 0.00 4.02
3701 6257 9.650539 GAGATTACACTATAGACTACATACGGA 57.349 37.037 6.78 0.00 0.00 4.69
3702 6258 9.656040 AGATTACACTATAGACTACATACGGAG 57.344 37.037 6.78 0.00 0.00 4.63
3722 6278 8.699283 ACGGAGTAAAATGAGTGAACTTATAC 57.301 34.615 0.00 0.00 41.94 1.47
3723 6279 8.529476 ACGGAGTAAAATGAGTGAACTTATACT 58.471 33.333 0.00 0.00 41.94 2.12
3724 6280 9.021863 CGGAGTAAAATGAGTGAACTTATACTC 57.978 37.037 7.56 7.56 42.77 2.59
3732 6288 8.950208 ATGAGTGAACTTATACTCTAAAAGGC 57.050 34.615 0.00 0.00 42.86 4.35
3733 6289 7.033791 TGAGTGAACTTATACTCTAAAAGGCG 58.966 38.462 0.00 0.00 42.86 5.52
3734 6290 6.932947 AGTGAACTTATACTCTAAAAGGCGT 58.067 36.000 0.00 0.00 0.00 5.68
3735 6291 7.034397 AGTGAACTTATACTCTAAAAGGCGTC 58.966 38.462 0.00 0.00 0.00 5.19
3736 6292 7.034397 GTGAACTTATACTCTAAAAGGCGTCT 58.966 38.462 0.00 0.00 0.00 4.18
3737 6293 8.186821 GTGAACTTATACTCTAAAAGGCGTCTA 58.813 37.037 0.00 0.00 0.00 2.59
3738 6294 8.910944 TGAACTTATACTCTAAAAGGCGTCTAT 58.089 33.333 0.00 0.00 0.00 1.98
3746 6302 7.828712 ACTCTAAAAGGCGTCTATATACATCC 58.171 38.462 0.00 0.00 0.00 3.51
3747 6303 6.849502 TCTAAAAGGCGTCTATATACATCCG 58.150 40.000 0.00 0.00 0.00 4.18
3748 6304 5.717078 AAAAGGCGTCTATATACATCCGA 57.283 39.130 0.00 0.00 0.00 4.55
3749 6305 4.966965 AAGGCGTCTATATACATCCGAG 57.033 45.455 0.00 0.00 0.00 4.63
3750 6306 3.952931 AGGCGTCTATATACATCCGAGT 58.047 45.455 0.00 0.00 0.00 4.18
3751 6307 3.690139 AGGCGTCTATATACATCCGAGTG 59.310 47.826 0.00 0.00 0.00 3.51
3752 6308 3.439476 GGCGTCTATATACATCCGAGTGT 59.561 47.826 0.00 0.00 36.13 3.55
3753 6309 4.633126 GGCGTCTATATACATCCGAGTGTA 59.367 45.833 2.98 2.98 38.79 2.90
3754 6310 5.220624 GGCGTCTATATACATCCGAGTGTAG 60.221 48.000 6.15 0.00 37.93 2.74
3755 6311 5.350914 GCGTCTATATACATCCGAGTGTAGT 59.649 44.000 6.15 1.58 37.93 2.73
3756 6312 6.455380 GCGTCTATATACATCCGAGTGTAGTC 60.455 46.154 6.15 0.00 37.93 2.59
3757 6313 6.812656 CGTCTATATACATCCGAGTGTAGTCT 59.187 42.308 6.15 0.00 37.93 3.24
3758 6314 7.009448 CGTCTATATACATCCGAGTGTAGTCTC 59.991 44.444 6.15 0.00 37.93 3.36
3759 6315 8.036575 GTCTATATACATCCGAGTGTAGTCTCT 58.963 40.741 6.15 0.00 37.93 3.10
3760 6316 9.252635 TCTATATACATCCGAGTGTAGTCTCTA 57.747 37.037 6.15 0.00 37.93 2.43
3764 6320 6.177310 ACATCCGAGTGTAGTCTCTATAGT 57.823 41.667 0.00 0.00 32.83 2.12
3765 6321 5.992829 ACATCCGAGTGTAGTCTCTATAGTG 59.007 44.000 0.00 0.00 32.83 2.74
3766 6322 4.958509 TCCGAGTGTAGTCTCTATAGTGG 58.041 47.826 0.00 0.00 32.83 4.00
3767 6323 4.652881 TCCGAGTGTAGTCTCTATAGTGGA 59.347 45.833 0.00 0.00 32.83 4.02
3768 6324 5.129980 TCCGAGTGTAGTCTCTATAGTGGAA 59.870 44.000 0.00 0.00 32.83 3.53
3769 6325 5.998981 CCGAGTGTAGTCTCTATAGTGGAAT 59.001 44.000 0.00 2.23 32.83 3.01
3770 6326 6.148150 CCGAGTGTAGTCTCTATAGTGGAATC 59.852 46.154 0.00 0.00 32.83 2.52
3771 6327 6.932400 CGAGTGTAGTCTCTATAGTGGAATCT 59.068 42.308 0.00 0.00 32.83 2.40
3772 6328 7.117236 CGAGTGTAGTCTCTATAGTGGAATCTC 59.883 44.444 0.00 2.66 32.83 2.75
3773 6329 8.041143 AGTGTAGTCTCTATAGTGGAATCTCT 57.959 38.462 0.00 0.00 0.00 3.10
3774 6330 9.161572 AGTGTAGTCTCTATAGTGGAATCTCTA 57.838 37.037 0.00 0.00 0.00 2.43
3775 6331 9.781633 GTGTAGTCTCTATAGTGGAATCTCTAA 57.218 37.037 0.00 0.00 0.00 2.10
3800 6356 8.959705 AAAAGACTTATATTTAGGAACGGAGG 57.040 34.615 0.00 0.00 0.00 4.30
3801 6357 6.667558 AGACTTATATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
3802 6358 6.379579 AGACTTATATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
3803 6359 6.494146 AGACTTATATTTAGGAACGGAGGGAG 59.506 42.308 0.00 0.00 0.00 4.30
3804 6360 6.141790 ACTTATATTTAGGAACGGAGGGAGT 58.858 40.000 0.00 0.00 0.00 3.85
3805 6361 7.300658 ACTTATATTTAGGAACGGAGGGAGTA 58.699 38.462 0.00 0.00 0.00 2.59
3806 6362 7.450944 ACTTATATTTAGGAACGGAGGGAGTAG 59.549 40.741 0.00 0.00 0.00 2.57
3807 6363 3.463048 TTTAGGAACGGAGGGAGTAGT 57.537 47.619 0.00 0.00 0.00 2.73
3808 6364 4.591321 TTTAGGAACGGAGGGAGTAGTA 57.409 45.455 0.00 0.00 0.00 1.82
3809 6365 4.591321 TTAGGAACGGAGGGAGTAGTAA 57.409 45.455 0.00 0.00 0.00 2.24
3810 6366 3.463048 AGGAACGGAGGGAGTAGTAAA 57.537 47.619 0.00 0.00 0.00 2.01
3811 6367 3.991683 AGGAACGGAGGGAGTAGTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
3812 6368 3.705072 AGGAACGGAGGGAGTAGTAAATG 59.295 47.826 0.00 0.00 0.00 2.32
3813 6369 3.450096 GGAACGGAGGGAGTAGTAAATGT 59.550 47.826 0.00 0.00 0.00 2.71
3829 6385 9.144747 GTAGTAAATGTCAGCATATCCTATGTG 57.855 37.037 0.00 0.00 34.39 3.21
3888 7739 5.184096 TGGTTTGAGCACTACAAAAGTTCAA 59.816 36.000 0.00 0.00 38.63 2.69
3893 7744 7.189693 TGAGCACTACAAAAGTTCAATAGTG 57.810 36.000 12.66 12.66 43.62 2.74
3926 7777 6.814146 ACCTCAAACTTTATTCAGATCGAGTC 59.186 38.462 0.00 0.00 0.00 3.36
4064 7921 1.519898 GCATGGGGAATTGCGCAAG 60.520 57.895 28.62 16.66 43.44 4.01
4065 7922 1.142314 CATGGGGAATTGCGCAAGG 59.858 57.895 28.62 11.84 38.28 3.61
4077 7941 2.009774 TGCGCAAGGATAGAAGAAAGC 58.990 47.619 8.16 0.00 38.28 3.51
4112 7976 5.048083 GCTAGGATGTCTCTCATAAGTCCTG 60.048 48.000 0.00 0.00 34.09 3.86
4114 7978 3.323403 GGATGTCTCTCATAAGTCCTGGG 59.677 52.174 0.00 0.00 36.83 4.45
4157 8022 3.132289 TCATCGTCTTCACCAGGAATACC 59.868 47.826 0.00 0.00 34.32 2.73
4160 8025 1.134491 GTCTTCACCAGGAATACCCCG 60.134 57.143 0.00 0.00 34.32 5.73
4188 8053 1.901591 ACAGAACCATGGCAGAACAG 58.098 50.000 13.04 0.00 0.00 3.16
4215 8080 5.454062 AGTATGAGTAGCTCCAGAAGATGT 58.546 41.667 0.00 0.00 0.00 3.06
4252 8117 1.271871 TGAGGTACCAGCAAACCCATG 60.272 52.381 15.94 0.00 36.34 3.66
4268 8133 2.123769 TGCCCAGCATATGCCACC 60.124 61.111 23.96 10.66 43.38 4.61
4312 8177 1.887198 ACTTCCCAGTGAGTACAGACG 59.113 52.381 0.00 0.00 0.00 4.18
4313 8178 1.887198 CTTCCCAGTGAGTACAGACGT 59.113 52.381 0.00 0.00 0.00 4.34
4314 8179 2.865119 TCCCAGTGAGTACAGACGTA 57.135 50.000 0.00 0.00 0.00 3.57
4392 8257 6.037172 GTGAACTGTATAGCCAACGATTTCAT 59.963 38.462 0.00 0.00 0.00 2.57
4405 8270 2.353889 CGATTTCATGTCTGGAGCTTGG 59.646 50.000 0.00 0.00 0.00 3.61
4408 8273 3.726557 TTCATGTCTGGAGCTTGGAAT 57.273 42.857 0.00 0.00 0.00 3.01
4411 8276 2.479566 TGTCTGGAGCTTGGAATGAC 57.520 50.000 0.00 0.00 0.00 3.06
4415 8280 1.452108 GGAGCTTGGAATGACGGGG 60.452 63.158 0.00 0.00 0.00 5.73
4417 8282 2.198304 GAGCTTGGAATGACGGGGGT 62.198 60.000 0.00 0.00 0.00 4.95
4418 8283 2.046285 GCTTGGAATGACGGGGGTG 61.046 63.158 0.00 0.00 0.00 4.61
4419 8284 2.034999 TTGGAATGACGGGGGTGC 59.965 61.111 0.00 0.00 0.00 5.01
4457 8323 0.523072 CCAATGTTCTGGCTTGTCCG 59.477 55.000 0.00 0.00 37.80 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 4.156373 TCTGGTTATGTACGACGATGTGAA 59.844 41.667 0.00 0.00 0.00 3.18
87 88 7.928908 TGTTGAACTTGCAAGATTTTATCAC 57.071 32.000 32.50 16.13 0.00 3.06
113 116 5.503927 AGATGAGCATGGATTACTTGTGTT 58.496 37.500 0.00 0.00 0.00 3.32
114 117 5.108187 AGATGAGCATGGATTACTTGTGT 57.892 39.130 0.00 0.00 0.00 3.72
156 159 8.130307 TGATAATTACATCATCAACACGACTG 57.870 34.615 0.00 0.00 29.93 3.51
305 309 7.504924 TTCTTTTCCGACAGATACATGTTTT 57.495 32.000 2.30 0.00 32.25 2.43
430 2453 9.051679 CCTTTTTGTGAATCGGATGTATACATA 57.948 33.333 18.28 3.82 36.57 2.29
433 2456 7.316544 ACCTTTTTGTGAATCGGATGTATAC 57.683 36.000 0.00 0.00 0.00 1.47
700 2738 3.187637 TCGCACTTTTAAATCTTGACCCG 59.812 43.478 0.00 0.00 0.00 5.28
821 2859 3.496130 CAGTCACAGACAATGTCAAGGTC 59.504 47.826 16.38 3.34 41.41 3.85
1368 3838 1.302431 CCAGATGTTGCCGGTGTCA 60.302 57.895 1.90 0.00 0.00 3.58
1534 4013 1.454201 GAGTAAAGGGCAACTCCAGC 58.546 55.000 0.00 0.00 36.86 4.85
1541 4020 1.705186 AGAGCTTGGAGTAAAGGGCAA 59.295 47.619 0.00 0.00 0.00 4.52
1551 4030 0.108898 CTGTGTCCGAGAGCTTGGAG 60.109 60.000 6.72 0.00 43.54 3.86
1664 4161 5.070580 GCCCAGTATATGTTGTCTAAGTCCT 59.929 44.000 0.00 0.00 0.00 3.85
1789 4292 4.361420 GAGTTTAGAAGTGGAGGTATCGC 58.639 47.826 0.00 0.00 0.00 4.58
1790 4293 4.401519 TGGAGTTTAGAAGTGGAGGTATCG 59.598 45.833 0.00 0.00 0.00 2.92
1905 4409 0.107456 CTCTGACTGCCCACAACACT 59.893 55.000 0.00 0.00 0.00 3.55
1910 4414 1.459348 TGTCCTCTGACTGCCCACA 60.459 57.895 0.00 0.00 42.28 4.17
1949 4453 2.543653 CCTTGCAAAGTGGTTTTCCTCG 60.544 50.000 0.00 0.00 44.25 4.63
2019 4526 1.885871 GCTTGGGCACTCACAATCC 59.114 57.895 0.00 0.00 38.54 3.01
2053 4560 3.118112 CCCATGTACCTGAGCTGAGAATT 60.118 47.826 0.01 0.00 0.00 2.17
2188 4695 1.408340 CTCGTCCTCTCTGATGTGCAT 59.592 52.381 0.00 0.00 0.00 3.96
2198 4711 0.109504 GTCTGCACACTCGTCCTCTC 60.110 60.000 0.00 0.00 0.00 3.20
2243 4756 3.384789 AGTTCCATCATAAGTAGCAGCGA 59.615 43.478 0.00 0.00 0.00 4.93
2401 4914 2.435938 GAATGCCGAGCCACCGAA 60.436 61.111 0.00 0.00 0.00 4.30
2604 5117 0.616395 TCACTGCTATGTCGGGGGAA 60.616 55.000 0.00 0.00 0.00 3.97
2637 5150 4.782691 TCCCTCTCACTGTAATCATTGGAA 59.217 41.667 0.00 0.00 0.00 3.53
3009 5522 1.074775 GCCCCTGATGTTGGTCACA 59.925 57.895 0.00 0.00 40.71 3.58
3036 5549 3.391049 GAACCACTCGGGAGCAATATAC 58.609 50.000 0.00 0.00 41.15 1.47
3045 5558 1.072505 GCTTTGGAACCACTCGGGA 59.927 57.895 0.00 0.00 41.15 5.14
3212 5725 1.903877 AACCTCGGTCCTGCCATCAG 61.904 60.000 0.00 0.00 40.02 2.90
3225 5738 5.289675 GTCATCACTATGAAACAGAACCTCG 59.710 44.000 0.00 0.00 43.69 4.63
3458 5974 2.794621 TCGCGAGAGTAGCAGCAG 59.205 61.111 3.71 0.00 34.84 4.24
3471 5987 4.849883 ACAGTAAGAATCACTCTATCGCG 58.150 43.478 0.00 0.00 32.46 5.87
3495 6043 4.953667 TGCAGCCTATCAGAATTGACTAG 58.046 43.478 0.00 0.00 35.83 2.57
3496 6044 4.406972 ACTGCAGCCTATCAGAATTGACTA 59.593 41.667 15.27 0.00 35.83 2.59
3497 6045 3.199508 ACTGCAGCCTATCAGAATTGACT 59.800 43.478 15.27 0.00 35.83 3.41
3498 6046 3.311871 CACTGCAGCCTATCAGAATTGAC 59.688 47.826 15.27 0.00 35.83 3.18
3499 6047 3.054875 ACACTGCAGCCTATCAGAATTGA 60.055 43.478 15.27 0.00 37.81 2.57
3500 6048 3.276857 ACACTGCAGCCTATCAGAATTG 58.723 45.455 15.27 2.06 34.57 2.32
3501 6049 3.539604 GACACTGCAGCCTATCAGAATT 58.460 45.455 15.27 0.00 34.57 2.17
3502 6050 2.482664 CGACACTGCAGCCTATCAGAAT 60.483 50.000 15.27 0.00 34.57 2.40
3503 6051 1.134995 CGACACTGCAGCCTATCAGAA 60.135 52.381 15.27 0.00 34.57 3.02
3504 6052 0.457443 CGACACTGCAGCCTATCAGA 59.543 55.000 15.27 0.00 34.57 3.27
3505 6053 0.457443 TCGACACTGCAGCCTATCAG 59.543 55.000 15.27 0.00 36.45 2.90
3506 6054 0.894835 TTCGACACTGCAGCCTATCA 59.105 50.000 15.27 0.00 0.00 2.15
3507 6055 2.010145 TTTCGACACTGCAGCCTATC 57.990 50.000 15.27 5.34 0.00 2.08
3508 6056 2.093500 TCATTTCGACACTGCAGCCTAT 60.093 45.455 15.27 0.00 0.00 2.57
3509 6057 1.275010 TCATTTCGACACTGCAGCCTA 59.725 47.619 15.27 0.00 0.00 3.93
3510 6058 0.035317 TCATTTCGACACTGCAGCCT 59.965 50.000 15.27 0.00 0.00 4.58
3511 6059 0.445436 CTCATTTCGACACTGCAGCC 59.555 55.000 15.27 2.18 0.00 4.85
3512 6060 1.151668 ACTCATTTCGACACTGCAGC 58.848 50.000 15.27 0.00 0.00 5.25
3513 6061 3.803555 GAAACTCATTTCGACACTGCAG 58.196 45.455 13.48 13.48 35.18 4.41
3514 6062 3.878086 GAAACTCATTTCGACACTGCA 57.122 42.857 0.00 0.00 35.18 4.41
3527 6075 9.515226 AGCATTGGTAATAAGTAAAGAAACTCA 57.485 29.630 0.00 0.00 0.00 3.41
3538 6086 7.700656 GCGAAACAATTAGCATTGGTAATAAGT 59.299 33.333 18.62 16.74 39.60 2.24
3542 6090 5.348164 GGCGAAACAATTAGCATTGGTAAT 58.652 37.500 13.90 13.90 39.60 1.89
3566 6114 4.164294 CGTAGCTACACCAGTTACAAGAC 58.836 47.826 23.21 0.00 40.08 3.01
3568 6116 4.170292 ACGTAGCTACACCAGTTACAAG 57.830 45.455 23.21 5.22 40.08 3.16
3569 6117 4.589216 AACGTAGCTACACCAGTTACAA 57.411 40.909 23.21 0.00 40.08 2.41
3578 6126 5.118203 CCTGTTTACAGAAACGTAGCTACAC 59.882 44.000 23.21 10.15 46.76 2.90
3641 6197 7.450944 ACTTATAGTATTTAGGAACGGAGGGAG 59.549 40.741 0.00 0.00 0.00 4.30
3643 6199 7.450944 AGACTTATAGTATTTAGGAACGGAGGG 59.549 40.741 0.00 0.00 0.00 4.30
3644 6200 8.406730 AGACTTATAGTATTTAGGAACGGAGG 57.593 38.462 0.00 0.00 0.00 4.30
3674 6230 9.656040 CCGTATGTAGTCTATAGTGTAATCTCT 57.344 37.037 0.00 0.00 0.00 3.10
3675 6231 9.650539 TCCGTATGTAGTCTATAGTGTAATCTC 57.349 37.037 0.00 0.00 0.00 2.75
3676 6232 9.656040 CTCCGTATGTAGTCTATAGTGTAATCT 57.344 37.037 0.00 0.00 0.00 2.40
3677 6233 9.434420 ACTCCGTATGTAGTCTATAGTGTAATC 57.566 37.037 0.00 0.00 0.00 1.75
3681 6237 9.618890 TTTTACTCCGTATGTAGTCTATAGTGT 57.381 33.333 0.00 0.00 0.00 3.55
3686 6242 9.352191 ACTCATTTTACTCCGTATGTAGTCTAT 57.648 33.333 0.00 0.00 0.00 1.98
3687 6243 8.618677 CACTCATTTTACTCCGTATGTAGTCTA 58.381 37.037 0.00 0.00 0.00 2.59
3688 6244 7.338703 TCACTCATTTTACTCCGTATGTAGTCT 59.661 37.037 0.00 0.00 0.00 3.24
3689 6245 7.478322 TCACTCATTTTACTCCGTATGTAGTC 58.522 38.462 0.00 0.00 0.00 2.59
3690 6246 7.400599 TCACTCATTTTACTCCGTATGTAGT 57.599 36.000 0.00 0.00 0.00 2.73
3691 6247 7.974501 AGTTCACTCATTTTACTCCGTATGTAG 59.025 37.037 0.00 0.00 0.00 2.74
3692 6248 7.833786 AGTTCACTCATTTTACTCCGTATGTA 58.166 34.615 0.00 0.00 0.00 2.29
3693 6249 6.698380 AGTTCACTCATTTTACTCCGTATGT 58.302 36.000 0.00 0.00 0.00 2.29
3694 6250 7.596749 AAGTTCACTCATTTTACTCCGTATG 57.403 36.000 0.00 0.00 0.00 2.39
3696 6252 9.793252 GTATAAGTTCACTCATTTTACTCCGTA 57.207 33.333 0.00 0.00 0.00 4.02
3697 6253 8.529476 AGTATAAGTTCACTCATTTTACTCCGT 58.471 33.333 0.00 0.00 0.00 4.69
3698 6254 8.928270 AGTATAAGTTCACTCATTTTACTCCG 57.072 34.615 0.00 0.00 0.00 4.63
3706 6262 9.384764 GCCTTTTAGAGTATAAGTTCACTCATT 57.615 33.333 16.02 3.65 42.99 2.57
3707 6263 7.707035 CGCCTTTTAGAGTATAAGTTCACTCAT 59.293 37.037 16.02 7.20 42.99 2.90
3708 6264 7.033791 CGCCTTTTAGAGTATAAGTTCACTCA 58.966 38.462 16.02 4.12 42.99 3.41
3709 6265 7.034397 ACGCCTTTTAGAGTATAAGTTCACTC 58.966 38.462 8.76 8.76 41.25 3.51
3710 6266 6.932947 ACGCCTTTTAGAGTATAAGTTCACT 58.067 36.000 0.00 0.00 0.00 3.41
3711 6267 7.034397 AGACGCCTTTTAGAGTATAAGTTCAC 58.966 38.462 0.00 0.00 0.00 3.18
3712 6268 7.166691 AGACGCCTTTTAGAGTATAAGTTCA 57.833 36.000 0.00 0.00 0.00 3.18
3720 6276 8.954350 GGATGTATATAGACGCCTTTTAGAGTA 58.046 37.037 2.86 0.00 0.00 2.59
3721 6277 7.361885 CGGATGTATATAGACGCCTTTTAGAGT 60.362 40.741 7.38 0.00 0.00 3.24
3722 6278 6.967767 CGGATGTATATAGACGCCTTTTAGAG 59.032 42.308 7.38 0.00 0.00 2.43
3723 6279 6.656270 TCGGATGTATATAGACGCCTTTTAGA 59.344 38.462 7.38 0.00 0.00 2.10
3724 6280 6.849502 TCGGATGTATATAGACGCCTTTTAG 58.150 40.000 7.38 0.00 0.00 1.85
3725 6281 6.432162 ACTCGGATGTATATAGACGCCTTTTA 59.568 38.462 7.38 0.00 0.00 1.52
3726 6282 5.243283 ACTCGGATGTATATAGACGCCTTTT 59.757 40.000 7.38 0.00 0.00 2.27
3727 6283 4.765856 ACTCGGATGTATATAGACGCCTTT 59.234 41.667 7.38 0.00 0.00 3.11
3728 6284 4.156190 CACTCGGATGTATATAGACGCCTT 59.844 45.833 7.38 0.00 0.00 4.35
3729 6285 3.690139 CACTCGGATGTATATAGACGCCT 59.310 47.826 7.38 0.00 0.00 5.52
3730 6286 3.439476 ACACTCGGATGTATATAGACGCC 59.561 47.826 0.00 0.00 0.00 5.68
3731 6287 4.681835 ACACTCGGATGTATATAGACGC 57.318 45.455 0.00 0.00 0.00 5.19
3732 6288 6.812656 AGACTACACTCGGATGTATATAGACG 59.187 42.308 0.94 0.00 34.59 4.18
3733 6289 8.036575 AGAGACTACACTCGGATGTATATAGAC 58.963 40.741 0.94 0.00 41.25 2.59
3734 6290 8.136563 AGAGACTACACTCGGATGTATATAGA 57.863 38.462 0.94 0.00 41.25 1.98
3738 6294 9.033711 ACTATAGAGACTACACTCGGATGTATA 57.966 37.037 6.78 0.00 41.25 1.47
3739 6295 7.820386 CACTATAGAGACTACACTCGGATGTAT 59.180 40.741 6.78 0.00 41.25 2.29
3740 6296 7.153315 CACTATAGAGACTACACTCGGATGTA 58.847 42.308 6.78 0.68 41.25 2.29
3741 6297 5.992829 CACTATAGAGACTACACTCGGATGT 59.007 44.000 6.78 0.00 41.25 3.06
3742 6298 5.410132 CCACTATAGAGACTACACTCGGATG 59.590 48.000 6.78 0.00 41.25 3.51
3743 6299 5.307456 TCCACTATAGAGACTACACTCGGAT 59.693 44.000 6.78 0.00 41.25 4.18
3744 6300 4.652881 TCCACTATAGAGACTACACTCGGA 59.347 45.833 6.78 0.00 41.25 4.55
3745 6301 4.958509 TCCACTATAGAGACTACACTCGG 58.041 47.826 6.78 0.00 41.25 4.63
3746 6302 6.932400 AGATTCCACTATAGAGACTACACTCG 59.068 42.308 6.78 0.00 41.25 4.18
3747 6303 8.154856 AGAGATTCCACTATAGAGACTACACTC 58.845 40.741 6.78 5.80 37.19 3.51
3748 6304 8.041143 AGAGATTCCACTATAGAGACTACACT 57.959 38.462 6.78 0.00 0.00 3.55
3749 6305 9.781633 TTAGAGATTCCACTATAGAGACTACAC 57.218 37.037 6.78 0.00 0.00 2.90
3774 6330 9.392259 CCTCCGTTCCTAAATATAAGTCTTTTT 57.608 33.333 0.00 0.00 0.00 1.94
3775 6331 7.991460 CCCTCCGTTCCTAAATATAAGTCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
3776 6332 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
3777 6333 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
3778 6334 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
3779 6335 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
3780 6336 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
3781 6337 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
3782 6338 7.300658 ACTACTCCCTCCGTTCCTAAATATAA 58.699 38.462 0.00 0.00 0.00 0.98
3783 6339 6.856757 ACTACTCCCTCCGTTCCTAAATATA 58.143 40.000 0.00 0.00 0.00 0.86
3784 6340 5.713807 ACTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
3785 6341 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
3786 6342 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
3787 6343 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
3788 6344 4.591321 TTACTACTCCCTCCGTTCCTAA 57.409 45.455 0.00 0.00 0.00 2.69
3789 6345 4.591321 TTTACTACTCCCTCCGTTCCTA 57.409 45.455 0.00 0.00 0.00 2.94
3790 6346 3.463048 TTTACTACTCCCTCCGTTCCT 57.537 47.619 0.00 0.00 0.00 3.36
3791 6347 3.450096 ACATTTACTACTCCCTCCGTTCC 59.550 47.826 0.00 0.00 0.00 3.62
3792 6348 4.159135 TGACATTTACTACTCCCTCCGTTC 59.841 45.833 0.00 0.00 0.00 3.95
3793 6349 4.091549 TGACATTTACTACTCCCTCCGTT 58.908 43.478 0.00 0.00 0.00 4.44
3794 6350 3.700038 CTGACATTTACTACTCCCTCCGT 59.300 47.826 0.00 0.00 0.00 4.69
3795 6351 3.491104 GCTGACATTTACTACTCCCTCCG 60.491 52.174 0.00 0.00 0.00 4.63
3796 6352 3.451178 TGCTGACATTTACTACTCCCTCC 59.549 47.826 0.00 0.00 0.00 4.30
3797 6353 4.737855 TGCTGACATTTACTACTCCCTC 57.262 45.455 0.00 0.00 0.00 4.30
3798 6354 6.014156 GGATATGCTGACATTTACTACTCCCT 60.014 42.308 0.00 0.00 37.74 4.20
3799 6355 6.014156 AGGATATGCTGACATTTACTACTCCC 60.014 42.308 0.00 0.00 37.74 4.30
3800 6356 6.998802 AGGATATGCTGACATTTACTACTCC 58.001 40.000 0.00 0.00 37.74 3.85
3801 6357 9.579768 CATAGGATATGCTGACATTTACTACTC 57.420 37.037 7.05 0.00 34.61 2.59
3802 6358 9.094578 ACATAGGATATGCTGACATTTACTACT 57.905 33.333 7.05 0.00 34.61 2.57
3803 6359 9.144747 CACATAGGATATGCTGACATTTACTAC 57.855 37.037 7.05 0.00 34.61 2.73
3804 6360 8.870116 ACACATAGGATATGCTGACATTTACTA 58.130 33.333 7.05 0.00 35.78 1.82
3805 6361 7.739825 ACACATAGGATATGCTGACATTTACT 58.260 34.615 7.05 0.00 37.74 2.24
3806 6362 7.969536 ACACATAGGATATGCTGACATTTAC 57.030 36.000 7.05 0.00 37.74 2.01
3807 6363 8.210265 TGAACACATAGGATATGCTGACATTTA 58.790 33.333 7.05 0.00 37.74 1.40
3808 6364 7.056006 TGAACACATAGGATATGCTGACATTT 58.944 34.615 7.05 0.00 37.74 2.32
3809 6365 6.594744 TGAACACATAGGATATGCTGACATT 58.405 36.000 7.05 0.00 37.74 2.71
3810 6366 6.178607 TGAACACATAGGATATGCTGACAT 57.821 37.500 7.05 0.00 40.49 3.06
3811 6367 5.612725 TGAACACATAGGATATGCTGACA 57.387 39.130 7.05 0.00 0.00 3.58
3812 6368 5.641209 GGATGAACACATAGGATATGCTGAC 59.359 44.000 7.05 0.00 0.00 3.51
3813 6369 5.307716 TGGATGAACACATAGGATATGCTGA 59.692 40.000 7.05 0.00 0.00 4.26
3829 6385 2.795329 ACTGGACCACAATGGATGAAC 58.205 47.619 0.84 0.00 40.96 3.18
3893 7744 9.057089 TCTGAATAAAGTTTGAGGTTTCTTCTC 57.943 33.333 0.00 0.00 0.00 2.87
4064 7921 3.942115 GGAACCACTGCTTTCTTCTATCC 59.058 47.826 0.00 0.00 0.00 2.59
4065 7922 4.633565 CAGGAACCACTGCTTTCTTCTATC 59.366 45.833 0.00 0.00 0.00 2.08
4157 8022 0.462047 GGTTCTGTATCTGCACCGGG 60.462 60.000 6.32 0.00 0.00 5.73
4160 8025 2.292267 CCATGGTTCTGTATCTGCACC 58.708 52.381 2.57 0.00 0.00 5.01
4188 8053 7.753309 TCTTCTGGAGCTACTCATACTATTC 57.247 40.000 0.00 0.00 31.08 1.75
4215 8080 0.250252 TCACTTGCGATGCTTGTCCA 60.250 50.000 0.00 0.00 0.00 4.02
4252 8117 1.532316 ATGGTGGCATATGCTGGGC 60.532 57.895 26.12 10.88 41.70 5.36
4268 8133 0.742505 AATCGCCATTGCTGGACATG 59.257 50.000 0.00 0.00 46.37 3.21
4310 8175 7.108841 TCCTCATTAAAGCTCTATTGTACGT 57.891 36.000 0.00 0.00 0.00 3.57
4311 8176 7.867909 TCATCCTCATTAAAGCTCTATTGTACG 59.132 37.037 0.00 0.00 0.00 3.67
4312 8177 8.983724 GTCATCCTCATTAAAGCTCTATTGTAC 58.016 37.037 0.00 0.00 0.00 2.90
4313 8178 8.928448 AGTCATCCTCATTAAAGCTCTATTGTA 58.072 33.333 0.00 0.00 0.00 2.41
4314 8179 7.800092 AGTCATCCTCATTAAAGCTCTATTGT 58.200 34.615 0.00 0.00 0.00 2.71
4315 8180 8.557864 CAAGTCATCCTCATTAAAGCTCTATTG 58.442 37.037 0.00 0.00 0.00 1.90
4316 8181 7.228308 GCAAGTCATCCTCATTAAAGCTCTATT 59.772 37.037 0.00 0.00 0.00 1.73
4317 8182 6.709846 GCAAGTCATCCTCATTAAAGCTCTAT 59.290 38.462 0.00 0.00 0.00 1.98
4392 8257 1.338105 CGTCATTCCAAGCTCCAGACA 60.338 52.381 0.00 0.00 0.00 3.41
4415 8280 0.960364 TGAAGAAAGATGGGCGCACC 60.960 55.000 7.46 7.71 40.81 5.01
4417 8282 1.167851 CTTGAAGAAAGATGGGCGCA 58.832 50.000 10.83 5.70 38.24 6.09
4418 8283 1.131315 GTCTTGAAGAAAGATGGGCGC 59.869 52.381 0.00 0.00 46.53 6.53
4419 8284 1.740025 GGTCTTGAAGAAAGATGGGCG 59.260 52.381 0.00 0.00 46.53 6.13
4457 8323 1.261619 CGTGTGGTTTCAAGTCTCTGC 59.738 52.381 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.