Multiple sequence alignment - TraesCS1A01G377900

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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 TraesCS1A01G377900 chr1A 100.000 3011 0 0 1 3011 550970150 550967140 0.000000e+00 5561.0
1 TraesCS1A01G377900 chr1B 87.287 2116 128 62 623 2614 629939296 629937198 0.000000e+00 2287.0
2 TraesCS1A01G377900 chr1B 88.912 487 27 15 1 469 629940753 629940276 2.600000e-160 575.0
3 TraesCS1A01G377900 chr1B 92.580 283 20 1 2725 3007 629937175 629936894 3.610000e-109 405.0
4 TraesCS1A01G377900 chr1B 82.484 314 42 9 71 376 601488715 601488407 2.300000e-66 263.0
5 TraesCS1A01G377900 chr1D 87.007 1978 108 57 517 2387 458483411 458481476 0.000000e+00 2091.0
6 TraesCS1A01G377900 chr1D 96.226 371 9 3 1 367 458484195 458483826 1.190000e-168 603.0
7 TraesCS1A01G377900 chr1D 93.115 305 20 1 2705 3009 458480789 458480486 2.130000e-121 446.0
8 TraesCS1A01G377900 chr1D 83.333 84 13 1 2187 2270 19184291 19184373 3.220000e-10 76.8
9 TraesCS1A01G377900 chr5A 75.452 664 107 35 1364 2011 433567008 433567631 3.820000e-69 272.0
10 TraesCS1A01G377900 chr5D 77.547 481 76 25 1364 1831 332518203 332518664 8.280000e-66 261.0
11 TraesCS1A01G377900 chr5B 74.359 663 116 34 1364 2011 388594623 388595246 1.800000e-57 233.0
12 TraesCS1A01G377900 chrUn 73.154 745 142 45 1265 1980 74554129 74553414 6.540000e-52 215.0
13 TraesCS1A01G377900 chr6D 72.800 750 138 47 1260 1976 431466125 431466841 8.520000e-46 195.0
14 TraesCS1A01G377900 chr6D 82.927 82 9 2 2187 2264 11083665 11083585 5.390000e-08 69.4
15 TraesCS1A01G377900 chr6D 85.294 68 9 1 2197 2264 360056765 360056699 5.390000e-08 69.4
16 TraesCS1A01G377900 chr6B 73.381 556 102 33 1265 1797 651420409 651419877 6.680000e-37 165.0
17 TraesCS1A01G377900 chr4D 95.294 85 4 0 2620 2704 19930759 19930675 5.240000e-28 135.0
18 TraesCS1A01G377900 chr3D 95.294 85 4 0 2620 2704 589274769 589274853 5.240000e-28 135.0
19 TraesCS1A01G377900 chr3D 95.294 85 4 0 2620 2704 589277359 589277443 5.240000e-28 135.0
20 TraesCS1A01G377900 chr6A 95.312 64 3 0 2620 2683 252626497 252626434 5.310000e-18 102.0
21 TraesCS1A01G377900 chr3B 87.952 83 9 1 2183 2265 646041950 646042031 2.470000e-16 97.1
22 TraesCS1A01G377900 chr3B 87.692 65 6 2 2201 2264 747751383 747751320 1.160000e-09 75.0
23 TraesCS1A01G377900 chr2B 86.842 76 10 0 2200 2275 784711530 784711455 5.350000e-13 86.1
24 TraesCS1A01G377900 chr7B 83.133 83 10 4 2182 2263 713032625 713032704 4.160000e-09 73.1
25 TraesCS1A01G377900 chr4A 82.432 74 12 1 2188 2261 66337488 66337560 2.510000e-06 63.9


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 TraesCS1A01G377900 chr1A 550967140 550970150 3010 True 5561.000000 5561 100.000 1 3011 1 chr1A.!!$R1 3010
1 TraesCS1A01G377900 chr1B 629936894 629940753 3859 True 1089.000000 2287 89.593 1 3007 3 chr1B.!!$R2 3006
2 TraesCS1A01G377900 chr1D 458480486 458484195 3709 True 1046.666667 2091 92.116 1 3009 3 chr1D.!!$R1 3008
3 TraesCS1A01G377900 chr5A 433567008 433567631 623 False 272.000000 272 75.452 1364 2011 1 chr5A.!!$F1 647
4 TraesCS1A01G377900 chr5B 388594623 388595246 623 False 233.000000 233 74.359 1364 2011 1 chr5B.!!$F1 647
5 TraesCS1A01G377900 chrUn 74553414 74554129 715 True 215.000000 215 73.154 1265 1980 1 chrUn.!!$R1 715

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
277 280 0.457851 TGTTTCGCACCAGGGTTTTG 59.542 50.0 0.0 0.0 0.0 2.44 F
958 1860 0.472044 GCTCCCATTCCTTCTCCCTC 59.528 60.0 0.0 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1991 2949 1.078143 CAAGGCAGGTGGTAGAGGC 60.078 63.158 0.0 0.0 0.00 4.70 R
2535 3678 1.063266 AGGAAAGAGTTGTGGGGCAAA 60.063 47.619 0.0 0.0 39.03 3.68 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
163 166 4.868300 AGTTTTTGACTGTTCTGAGGCACT 60.868 41.667 0.00 0.00 38.52 4.40
165 168 2.245159 TGACTGTTCTGAGGCACTTG 57.755 50.000 0.00 0.00 41.55 3.16
196 199 6.295123 CCTGGTACTTTCAGCTTGAGTTACTA 60.295 42.308 0.00 0.00 0.00 1.82
277 280 0.457851 TGTTTCGCACCAGGGTTTTG 59.542 50.000 0.00 0.00 0.00 2.44
278 281 0.874175 GTTTCGCACCAGGGTTTTGC 60.874 55.000 0.00 0.00 0.00 3.68
348 354 3.432933 TCGTATTTGTCTTTGCGGGTTAC 59.567 43.478 0.00 0.00 0.00 2.50
351 357 1.600023 TTGTCTTTGCGGGTTACTGG 58.400 50.000 0.00 0.00 0.00 4.00
367 373 1.199852 CTGGTTGTCGTTTGCGTTGC 61.200 55.000 0.00 0.00 39.49 4.17
369 375 1.942223 GTTGTCGTTTGCGTTGCCC 60.942 57.895 0.00 0.00 39.49 5.36
373 379 2.115911 TCGTTTGCGTTGCCCTTGT 61.116 52.632 0.00 0.00 39.49 3.16
375 381 1.435515 GTTTGCGTTGCCCTTGTGA 59.564 52.632 0.00 0.00 0.00 3.58
379 385 1.008538 GCGTTGCCCTTGTGAGTTG 60.009 57.895 0.00 0.00 0.00 3.16
391 411 4.440525 CCTTGTGAGTTGCTGATTGTTTGT 60.441 41.667 0.00 0.00 0.00 2.83
401 421 3.066621 GCTGATTGTTTGTGAACTGTGGA 59.933 43.478 0.00 0.00 36.70 4.02
402 422 4.790766 GCTGATTGTTTGTGAACTGTGGAG 60.791 45.833 0.00 0.00 36.70 3.86
413 433 3.442273 TGAACTGTGGAGTGTTGTTTTCC 59.558 43.478 0.00 0.00 30.61 3.13
438 460 0.823356 TCCCCTTTGTCTTGCAGCAC 60.823 55.000 0.00 0.00 0.00 4.40
444 466 2.849880 TTGTCTTGCAGCACTTGTTC 57.150 45.000 0.00 0.00 0.00 3.18
445 467 1.748950 TGTCTTGCAGCACTTGTTCA 58.251 45.000 0.00 0.00 0.00 3.18
490 1114 5.913137 ATTCTCATCAACTTCGAGTCTCT 57.087 39.130 0.00 0.00 0.00 3.10
493 1117 5.704888 TCTCATCAACTTCGAGTCTCTTTC 58.295 41.667 0.00 0.00 0.00 2.62
494 1118 4.810790 TCATCAACTTCGAGTCTCTTTCC 58.189 43.478 0.00 0.00 0.00 3.13
495 1119 4.524714 TCATCAACTTCGAGTCTCTTTCCT 59.475 41.667 0.00 0.00 0.00 3.36
496 1120 4.506886 TCAACTTCGAGTCTCTTTCCTC 57.493 45.455 0.00 0.00 0.00 3.71
497 1121 4.145807 TCAACTTCGAGTCTCTTTCCTCT 58.854 43.478 0.00 0.00 0.00 3.69
499 1123 2.823154 ACTTCGAGTCTCTTTCCTCTGG 59.177 50.000 0.00 0.00 0.00 3.86
501 1125 3.715638 TCGAGTCTCTTTCCTCTGGTA 57.284 47.619 0.00 0.00 0.00 3.25
502 1126 4.237976 TCGAGTCTCTTTCCTCTGGTAT 57.762 45.455 0.00 0.00 0.00 2.73
503 1127 3.948473 TCGAGTCTCTTTCCTCTGGTATG 59.052 47.826 0.00 0.00 0.00 2.39
505 1129 4.201970 CGAGTCTCTTTCCTCTGGTATGAC 60.202 50.000 0.00 0.00 0.00 3.06
506 1130 4.941713 AGTCTCTTTCCTCTGGTATGACT 58.058 43.478 0.00 0.00 0.00 3.41
507 1131 4.709397 AGTCTCTTTCCTCTGGTATGACTG 59.291 45.833 0.00 0.00 32.05 3.51
508 1132 4.464597 GTCTCTTTCCTCTGGTATGACTGT 59.535 45.833 0.00 0.00 0.00 3.55
509 1133 4.707448 TCTCTTTCCTCTGGTATGACTGTC 59.293 45.833 0.00 0.00 0.00 3.51
510 1134 4.416516 TCTTTCCTCTGGTATGACTGTCA 58.583 43.478 13.60 13.60 0.00 3.58
512 1136 5.127845 TCTTTCCTCTGGTATGACTGTCATC 59.872 44.000 25.35 16.46 38.26 2.92
513 1137 3.981212 TCCTCTGGTATGACTGTCATCA 58.019 45.455 25.35 17.08 38.26 3.07
514 1138 3.956848 TCCTCTGGTATGACTGTCATCAG 59.043 47.826 25.35 24.19 46.18 2.90
515 1139 3.492309 CCTCTGGTATGACTGTCATCAGC 60.492 52.174 25.35 19.52 44.77 4.26
518 1142 2.432146 TGGTATGACTGTCATCAGCTCC 59.568 50.000 25.35 19.09 44.77 4.70
519 1143 2.697751 GGTATGACTGTCATCAGCTCCT 59.302 50.000 25.35 4.12 44.77 3.69
521 1145 3.540314 ATGACTGTCATCAGCTCCTTC 57.460 47.619 17.24 0.00 44.77 3.46
522 1146 2.533916 TGACTGTCATCAGCTCCTTCT 58.466 47.619 6.36 0.00 44.77 2.85
524 1148 2.760092 GACTGTCATCAGCTCCTTCTCT 59.240 50.000 2.24 0.00 44.77 3.10
525 1149 3.951037 GACTGTCATCAGCTCCTTCTCTA 59.049 47.826 2.24 0.00 44.77 2.43
558 1182 2.209838 TCTTGAGTGCGATTCGGATC 57.790 50.000 8.34 0.00 0.00 3.36
566 1190 3.252215 AGTGCGATTCGGATCAAAACAAA 59.748 39.130 8.34 0.00 32.33 2.83
571 1195 4.793216 CGATTCGGATCAAAACAAATGGAC 59.207 41.667 4.19 0.00 32.33 4.02
572 1196 3.822594 TCGGATCAAAACAAATGGACG 57.177 42.857 0.00 0.00 0.00 4.79
587 1211 2.668550 ACGGAGCCTCGTTTTGCC 60.669 61.111 0.00 0.00 40.85 4.52
590 1214 1.964373 GGAGCCTCGTTTTGCCGAA 60.964 57.895 0.00 0.00 36.24 4.30
591 1215 1.497722 GAGCCTCGTTTTGCCGAAG 59.502 57.895 0.00 0.00 36.24 3.79
592 1216 2.126850 GCCTCGTTTTGCCGAAGC 60.127 61.111 0.00 0.00 37.16 3.86
615 1239 2.154462 GTGTAGGCTGCACAATGTCTT 58.846 47.619 27.60 0.00 36.88 3.01
616 1240 2.095567 GTGTAGGCTGCACAATGTCTTG 60.096 50.000 27.60 0.00 36.88 3.02
625 1249 2.033801 GCACAATGTCTTGAGCACTTGT 59.966 45.455 3.41 0.00 45.07 3.16
667 1515 3.190079 GTGAGCATCTGTCGATTAGCAA 58.810 45.455 0.00 0.00 34.92 3.91
688 1536 7.290061 AGCAATTGCCCTCTAGTTATTGATTA 58.710 34.615 26.45 0.00 43.38 1.75
770 1618 3.450096 TCTGACATCATCTCTGAACCCAG 59.550 47.826 0.00 0.00 41.74 4.45
834 1699 1.469251 GCGTAATCAGTCTCTTCGCCA 60.469 52.381 0.00 0.00 36.95 5.69
921 1819 2.478831 CGCTCCATTTCCTTCTCTAGC 58.521 52.381 0.00 0.00 0.00 3.42
956 1858 1.147153 CGCTCCCATTCCTTCTCCC 59.853 63.158 0.00 0.00 0.00 4.30
957 1859 1.341156 CGCTCCCATTCCTTCTCCCT 61.341 60.000 0.00 0.00 0.00 4.20
958 1860 0.472044 GCTCCCATTCCTTCTCCCTC 59.528 60.000 0.00 0.00 0.00 4.30
959 1861 0.755686 CTCCCATTCCTTCTCCCTCG 59.244 60.000 0.00 0.00 0.00 4.63
996 1900 2.685017 ACCTGATCCCAGAGCGCA 60.685 61.111 11.47 0.00 43.02 6.09
1157 2073 2.184579 GTCCTTCTTCTCCGGCGG 59.815 66.667 22.51 22.51 0.00 6.13
1335 2281 3.549150 GTCTACGCGCTGCAGCTG 61.549 66.667 34.22 27.56 39.32 4.24
2076 3062 0.387565 GTTGAATTTGTGCGGGTGGT 59.612 50.000 0.00 0.00 0.00 4.16
2079 3065 0.387565 GAATTTGTGCGGGTGGTTGT 59.612 50.000 0.00 0.00 0.00 3.32
2080 3066 0.103937 AATTTGTGCGGGTGGTTGTG 59.896 50.000 0.00 0.00 0.00 3.33
2083 3069 2.831284 GTGCGGGTGGTTGTGGTT 60.831 61.111 0.00 0.00 0.00 3.67
2111 3097 8.964476 TGGATAAGAAGAGGATAATTTGACAC 57.036 34.615 0.00 0.00 0.00 3.67
2124 3110 3.863396 TTTGACACGTCCATTTGTACG 57.137 42.857 0.00 0.00 44.47 3.67
2133 3119 5.712217 CGTCCATTTGTACGTCATACATT 57.288 39.130 0.00 0.00 43.46 2.71
2134 3120 5.489335 CGTCCATTTGTACGTCATACATTG 58.511 41.667 0.00 0.00 43.46 2.82
2143 3129 9.804758 TTTGTACGTCATACATTGATACATACA 57.195 29.630 0.00 0.00 43.46 2.29
2153 3139 9.797642 ATACATTGATACATACATTCATGGTGT 57.202 29.630 9.16 9.16 35.74 4.16
2154 3140 8.158169 ACATTGATACATACATTCATGGTGTC 57.842 34.615 7.75 0.00 34.28 3.67
2178 3164 2.670905 TCCAGTGCGTGTATTTCATTCG 59.329 45.455 0.00 0.00 0.00 3.34
2191 3177 9.726232 GTGTATTTCATTCGTAGTACATACTCA 57.274 33.333 0.38 0.00 37.73 3.41
2192 3178 9.726232 TGTATTTCATTCGTAGTACATACTCAC 57.274 33.333 0.38 0.00 37.73 3.51
2200 3186 6.537566 TCGTAGTACATACTCACTTCGTTTC 58.462 40.000 0.38 0.00 37.03 2.78
2204 3193 9.189723 GTAGTACATACTCACTTCGTTTCTTTT 57.810 33.333 0.00 0.00 37.73 2.27
2305 3335 8.862325 AATGAATCTAATGATATTACCCGCAA 57.138 30.769 0.00 0.00 31.70 4.85
2306 3336 8.862325 ATGAATCTAATGATATTACCCGCAAA 57.138 30.769 0.00 0.00 31.70 3.68
2307 3337 8.684386 TGAATCTAATGATATTACCCGCAAAA 57.316 30.769 0.00 0.00 31.70 2.44
2308 3338 9.126151 TGAATCTAATGATATTACCCGCAAAAA 57.874 29.630 0.00 0.00 31.70 1.94
2409 3533 4.451096 TGACTTCAGACAAACCTAATTCGC 59.549 41.667 0.00 0.00 0.00 4.70
2450 3577 5.354234 GGACTACATACTTTCATGGTGTTGG 59.646 44.000 0.00 0.00 0.00 3.77
2456 3583 4.986054 ACTTTCATGGTGTTGGTACCTA 57.014 40.909 14.36 1.78 41.43 3.08
2487 3616 4.095483 TCGGGTTTCTATACACGTCTTCTC 59.905 45.833 0.00 0.00 44.93 2.87
2511 3640 9.731819 CTCCTTTAATATATGATATACACGCGT 57.268 33.333 5.58 5.58 0.00 6.01
2535 3678 3.573538 TGCATGGTGTTGCTACATTTCTT 59.426 39.130 3.85 0.00 43.18 2.52
2541 4029 3.740832 GTGTTGCTACATTTCTTTTGCCC 59.259 43.478 3.85 0.00 36.50 5.36
2557 4045 0.110486 GCCCCACAACTCTTTCCTGA 59.890 55.000 0.00 0.00 0.00 3.86
2559 4047 2.026262 GCCCCACAACTCTTTCCTGATA 60.026 50.000 0.00 0.00 0.00 2.15
2569 4057 8.912988 ACAACTCTTTCCTGATAAACAATTCAA 58.087 29.630 0.00 0.00 0.00 2.69
2615 4103 5.398416 GTCCAAAAAGAAAGTCAACATACGC 59.602 40.000 0.00 0.00 0.00 4.42
2619 4107 4.732285 AAGAAAGTCAACATACGCAGTG 57.268 40.909 0.00 0.00 45.73 3.66
2620 4108 3.990092 AGAAAGTCAACATACGCAGTGA 58.010 40.909 0.00 0.00 45.73 3.41
2621 4109 4.377021 AGAAAGTCAACATACGCAGTGAA 58.623 39.130 0.00 0.00 45.73 3.18
2622 4110 4.449068 AGAAAGTCAACATACGCAGTGAAG 59.551 41.667 0.00 0.00 45.73 3.02
2623 4111 3.386768 AGTCAACATACGCAGTGAAGT 57.613 42.857 0.00 0.00 45.73 3.01
2624 4112 3.318017 AGTCAACATACGCAGTGAAGTC 58.682 45.455 0.00 0.00 45.73 3.01
2625 4113 3.005897 AGTCAACATACGCAGTGAAGTCT 59.994 43.478 0.00 0.00 45.73 3.24
2626 4114 3.741344 GTCAACATACGCAGTGAAGTCTT 59.259 43.478 0.00 0.00 45.73 3.01
2627 4115 3.740832 TCAACATACGCAGTGAAGTCTTG 59.259 43.478 0.00 0.00 45.73 3.02
2628 4116 3.386768 ACATACGCAGTGAAGTCTTGT 57.613 42.857 0.00 0.00 45.73 3.16
2629 4117 3.728845 ACATACGCAGTGAAGTCTTGTT 58.271 40.909 0.00 0.00 45.73 2.83
2630 4118 4.878439 ACATACGCAGTGAAGTCTTGTTA 58.122 39.130 0.00 0.00 45.73 2.41
2631 4119 5.294356 ACATACGCAGTGAAGTCTTGTTAA 58.706 37.500 0.00 0.00 45.73 2.01
2632 4120 5.932303 ACATACGCAGTGAAGTCTTGTTAAT 59.068 36.000 0.00 0.00 45.73 1.40
2633 4121 4.992381 ACGCAGTGAAGTCTTGTTAATC 57.008 40.909 0.00 0.00 42.51 1.75
2634 4122 4.632153 ACGCAGTGAAGTCTTGTTAATCT 58.368 39.130 0.00 0.00 42.51 2.40
2635 4123 4.686554 ACGCAGTGAAGTCTTGTTAATCTC 59.313 41.667 0.00 0.00 42.51 2.75
2636 4124 4.926238 CGCAGTGAAGTCTTGTTAATCTCT 59.074 41.667 0.00 0.00 0.00 3.10
2637 4125 5.406780 CGCAGTGAAGTCTTGTTAATCTCTT 59.593 40.000 0.00 0.00 0.00 2.85
2638 4126 6.400515 CGCAGTGAAGTCTTGTTAATCTCTTC 60.401 42.308 0.00 0.00 34.02 2.87
2639 4127 6.425114 GCAGTGAAGTCTTGTTAATCTCTTCA 59.575 38.462 0.00 0.00 38.84 3.02
2640 4128 7.118971 GCAGTGAAGTCTTGTTAATCTCTTCAT 59.881 37.037 8.30 0.00 41.59 2.57
2641 4129 8.441608 CAGTGAAGTCTTGTTAATCTCTTCATG 58.558 37.037 8.30 0.00 41.59 3.07
2642 4130 7.118971 AGTGAAGTCTTGTTAATCTCTTCATGC 59.881 37.037 8.30 0.00 41.59 4.06
2643 4131 7.118971 GTGAAGTCTTGTTAATCTCTTCATGCT 59.881 37.037 8.30 0.00 41.59 3.79
2644 4132 7.332926 TGAAGTCTTGTTAATCTCTTCATGCTC 59.667 37.037 0.00 0.00 37.13 4.26
2645 4133 5.809562 AGTCTTGTTAATCTCTTCATGCTCG 59.190 40.000 0.00 0.00 0.00 5.03
2646 4134 5.578727 GTCTTGTTAATCTCTTCATGCTCGT 59.421 40.000 0.00 0.00 0.00 4.18
2647 4135 6.091441 GTCTTGTTAATCTCTTCATGCTCGTT 59.909 38.462 0.00 0.00 0.00 3.85
2648 4136 6.311445 TCTTGTTAATCTCTTCATGCTCGTTC 59.689 38.462 0.00 0.00 0.00 3.95
2649 4137 4.870426 TGTTAATCTCTTCATGCTCGTTCC 59.130 41.667 0.00 0.00 0.00 3.62
2650 4138 3.902881 AATCTCTTCATGCTCGTTCCT 57.097 42.857 0.00 0.00 0.00 3.36
2651 4139 6.127451 TGTTAATCTCTTCATGCTCGTTCCTA 60.127 38.462 0.00 0.00 0.00 2.94
2652 4140 4.582701 ATCTCTTCATGCTCGTTCCTAG 57.417 45.455 0.00 0.00 0.00 3.02
2653 4141 3.357203 TCTCTTCATGCTCGTTCCTAGT 58.643 45.455 0.00 0.00 0.00 2.57
2654 4142 3.764434 TCTCTTCATGCTCGTTCCTAGTT 59.236 43.478 0.00 0.00 0.00 2.24
2655 4143 4.109050 CTCTTCATGCTCGTTCCTAGTTC 58.891 47.826 0.00 0.00 0.00 3.01
2656 4144 2.561733 TCATGCTCGTTCCTAGTTCG 57.438 50.000 0.00 0.00 0.00 3.95
2657 4145 2.089201 TCATGCTCGTTCCTAGTTCGA 58.911 47.619 0.00 0.00 0.00 3.71
2658 4146 2.490509 TCATGCTCGTTCCTAGTTCGAA 59.509 45.455 0.00 0.00 33.32 3.71
2659 4147 2.631418 TGCTCGTTCCTAGTTCGAAG 57.369 50.000 0.00 0.00 33.32 3.79
2660 4148 1.884579 TGCTCGTTCCTAGTTCGAAGT 59.115 47.619 10.90 10.90 33.32 3.01
2661 4149 3.076621 TGCTCGTTCCTAGTTCGAAGTA 58.923 45.455 12.06 12.06 33.32 2.24
2662 4150 3.693085 TGCTCGTTCCTAGTTCGAAGTAT 59.307 43.478 12.97 0.00 33.32 2.12
2663 4151 4.201891 TGCTCGTTCCTAGTTCGAAGTATC 60.202 45.833 12.97 4.45 33.32 2.24
2664 4152 4.035441 GCTCGTTCCTAGTTCGAAGTATCT 59.965 45.833 12.97 2.30 33.32 1.98
2665 4153 5.448904 GCTCGTTCCTAGTTCGAAGTATCTT 60.449 44.000 12.97 0.00 33.32 2.40
2666 4154 6.506500 TCGTTCCTAGTTCGAAGTATCTTT 57.493 37.500 12.97 0.00 0.00 2.52
2667 4155 6.917533 TCGTTCCTAGTTCGAAGTATCTTTT 58.082 36.000 12.97 0.00 0.00 2.27
2668 4156 6.805271 TCGTTCCTAGTTCGAAGTATCTTTTG 59.195 38.462 12.97 1.04 0.00 2.44
2669 4157 6.034683 CGTTCCTAGTTCGAAGTATCTTTTGG 59.965 42.308 12.97 9.70 0.00 3.28
2670 4158 5.416947 TCCTAGTTCGAAGTATCTTTTGGC 58.583 41.667 12.97 0.00 0.00 4.52
2671 4159 4.571176 CCTAGTTCGAAGTATCTTTTGGCC 59.429 45.833 12.97 0.00 0.00 5.36
2672 4160 4.015872 AGTTCGAAGTATCTTTTGGCCA 57.984 40.909 0.00 0.00 0.00 5.36
2673 4161 4.394729 AGTTCGAAGTATCTTTTGGCCAA 58.605 39.130 16.05 16.05 0.00 4.52
2674 4162 4.825085 AGTTCGAAGTATCTTTTGGCCAAA 59.175 37.500 27.13 27.13 0.00 3.28
2675 4163 5.048713 AGTTCGAAGTATCTTTTGGCCAAAG 60.049 40.000 28.79 22.08 43.15 2.77
2683 4171 3.879998 TCTTTTGGCCAAAGAAAAACCC 58.120 40.909 28.79 0.00 46.68 4.11
2684 4172 3.521531 TCTTTTGGCCAAAGAAAAACCCT 59.478 39.130 28.79 0.00 46.68 4.34
2685 4173 3.552132 TTTGGCCAAAGAAAAACCCTC 57.448 42.857 27.13 0.00 0.00 4.30
2686 4174 2.470057 TGGCCAAAGAAAAACCCTCT 57.530 45.000 0.61 0.00 0.00 3.69
2687 4175 2.758130 TGGCCAAAGAAAAACCCTCTT 58.242 42.857 0.61 0.00 34.56 2.85
2688 4176 3.111484 TGGCCAAAGAAAAACCCTCTTT 58.889 40.909 0.61 0.00 42.52 2.52
2689 4177 3.133901 TGGCCAAAGAAAAACCCTCTTTC 59.866 43.478 0.61 0.00 40.37 2.62
2690 4178 3.388024 GGCCAAAGAAAAACCCTCTTTCT 59.612 43.478 0.00 0.00 43.38 2.52
2691 4179 4.371786 GCCAAAGAAAAACCCTCTTTCTG 58.628 43.478 0.00 0.00 41.24 3.02
2692 4180 4.099419 GCCAAAGAAAAACCCTCTTTCTGA 59.901 41.667 0.00 0.00 41.24 3.27
2693 4181 5.592054 CCAAAGAAAAACCCTCTTTCTGAC 58.408 41.667 0.00 0.00 41.24 3.51
2694 4182 5.127031 CCAAAGAAAAACCCTCTTTCTGACA 59.873 40.000 0.00 0.00 41.24 3.58
2695 4183 5.836821 AAGAAAAACCCTCTTTCTGACAC 57.163 39.130 0.00 0.00 41.24 3.67
2696 4184 3.877508 AGAAAAACCCTCTTTCTGACACG 59.122 43.478 0.00 0.00 40.72 4.49
2697 4185 3.553828 AAAACCCTCTTTCTGACACGA 57.446 42.857 0.00 0.00 0.00 4.35
2698 4186 3.771577 AAACCCTCTTTCTGACACGAT 57.228 42.857 0.00 0.00 0.00 3.73
2699 4187 3.771577 AACCCTCTTTCTGACACGATT 57.228 42.857 0.00 0.00 0.00 3.34
2700 4188 3.045601 ACCCTCTTTCTGACACGATTG 57.954 47.619 0.00 0.00 0.00 2.67
2701 4189 1.734465 CCCTCTTTCTGACACGATTGC 59.266 52.381 0.00 0.00 0.00 3.56
2702 4190 1.734465 CCTCTTTCTGACACGATTGCC 59.266 52.381 0.00 0.00 0.00 4.52
2703 4191 2.613977 CCTCTTTCTGACACGATTGCCT 60.614 50.000 0.00 0.00 0.00 4.75
2710 4198 3.684305 TCTGACACGATTGCCTAAATGTG 59.316 43.478 0.00 0.00 35.33 3.21
2723 4211 5.350365 TGCCTAAATGTGACGAATAACTCAC 59.650 40.000 0.00 0.00 37.83 3.51
2811 4299 3.071874 TCCATACCAAGTGAAGCAAGG 57.928 47.619 0.00 0.00 0.00 3.61
2958 4446 7.328982 CGTATACTAACCACAACAACATACACA 59.671 37.037 0.56 0.00 0.00 3.72
3009 4497 6.014669 AGCTACAAATTATTTTGGGCACTCAA 60.015 34.615 21.01 0.00 45.34 3.02
3010 4498 6.090763 GCTACAAATTATTTTGGGCACTCAAC 59.909 38.462 13.17 0.00 45.34 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
163 166 1.771854 TGAAAGTACCAGGCAGACCAA 59.228 47.619 0.00 0.00 39.06 3.67
165 168 1.946283 GCTGAAAGTACCAGGCAGACC 60.946 57.143 0.00 0.00 35.30 3.85
196 199 8.409358 ACAAATCACCTAAGCAGAAAGTAAAT 57.591 30.769 0.00 0.00 0.00 1.40
277 280 2.497107 TGAAAGCAGCAGTCAAAAGC 57.503 45.000 0.00 0.00 0.00 3.51
278 281 7.484007 CAGTATATTGAAAGCAGCAGTCAAAAG 59.516 37.037 13.16 0.27 35.07 2.27
348 354 1.199852 GCAACGCAAACGACAACCAG 61.200 55.000 0.00 0.00 43.93 4.00
351 357 1.942223 GGGCAACGCAAACGACAAC 60.942 57.895 0.00 0.00 43.93 3.32
367 373 2.233271 ACAATCAGCAACTCACAAGGG 58.767 47.619 0.00 0.00 0.00 3.95
369 375 4.501559 CACAAACAATCAGCAACTCACAAG 59.498 41.667 0.00 0.00 0.00 3.16
373 379 4.398988 AGTTCACAAACAATCAGCAACTCA 59.601 37.500 0.00 0.00 37.88 3.41
375 381 4.158394 ACAGTTCACAAACAATCAGCAACT 59.842 37.500 0.00 0.00 37.88 3.16
379 385 3.066621 TCCACAGTTCACAAACAATCAGC 59.933 43.478 0.00 0.00 37.88 4.26
391 411 3.442273 GGAAAACAACACTCCACAGTTCA 59.558 43.478 0.00 0.00 0.00 3.18
401 421 2.227194 GGATCACCGGAAAACAACACT 58.773 47.619 9.46 0.00 0.00 3.55
402 422 1.268625 GGGATCACCGGAAAACAACAC 59.731 52.381 9.46 0.00 36.97 3.32
413 433 1.453155 CAAGACAAAGGGGATCACCG 58.547 55.000 8.77 0.00 41.60 4.94
438 460 2.498892 GCAAAGCGCACTGAACAAG 58.501 52.632 11.47 0.00 41.79 3.16
450 472 1.978454 ATAGCTCCTCCATGCAAAGC 58.022 50.000 0.00 0.00 0.00 3.51
482 1106 3.948473 TCATACCAGAGGAAAGAGACTCG 59.052 47.826 0.00 0.00 38.72 4.18
490 1114 4.777366 TGATGACAGTCATACCAGAGGAAA 59.223 41.667 16.40 0.00 37.20 3.13
493 1117 3.492309 GCTGATGACAGTCATACCAGAGG 60.492 52.174 25.96 9.65 45.04 3.69
494 1118 3.384146 AGCTGATGACAGTCATACCAGAG 59.616 47.826 25.96 14.77 45.04 3.35
495 1119 3.369175 AGCTGATGACAGTCATACCAGA 58.631 45.455 25.96 7.23 45.04 3.86
496 1120 3.492309 GGAGCTGATGACAGTCATACCAG 60.492 52.174 20.71 20.71 45.04 4.00
497 1121 2.432146 GGAGCTGATGACAGTCATACCA 59.568 50.000 16.40 10.02 45.04 3.25
499 1123 4.099266 AGAAGGAGCTGATGACAGTCATAC 59.901 45.833 16.40 9.01 45.04 2.39
501 1125 3.106054 AGAAGGAGCTGATGACAGTCAT 58.894 45.455 16.37 16.37 45.04 3.06
502 1126 2.495270 GAGAAGGAGCTGATGACAGTCA 59.505 50.000 5.50 5.50 45.04 3.41
503 1127 2.760092 AGAGAAGGAGCTGATGACAGTC 59.240 50.000 0.00 0.00 45.04 3.51
505 1129 6.489700 TCTTATAGAGAAGGAGCTGATGACAG 59.510 42.308 0.00 0.00 45.91 3.51
506 1130 6.368805 TCTTATAGAGAAGGAGCTGATGACA 58.631 40.000 0.00 0.00 0.00 3.58
507 1131 6.892658 TCTTATAGAGAAGGAGCTGATGAC 57.107 41.667 0.00 0.00 0.00 3.06
519 1143 8.759481 TCAAGATGAGCTCTTCTTATAGAGAA 57.241 34.615 32.69 16.17 42.48 2.87
548 1172 4.793216 GTCCATTTGTTTTGATCCGAATCG 59.207 41.667 0.00 0.00 34.39 3.34
558 1182 1.613437 AGGCTCCGTCCATTTGTTTTG 59.387 47.619 0.00 0.00 0.00 2.44
566 1190 0.673644 CAAAACGAGGCTCCGTCCAT 60.674 55.000 9.32 0.00 42.54 3.41
571 1195 3.788766 CGGCAAAACGAGGCTCCG 61.789 66.667 9.32 6.86 35.47 4.63
572 1196 1.912371 CTTCGGCAAAACGAGGCTCC 61.912 60.000 9.32 0.00 44.47 4.70
587 1211 0.950555 TGCAGCCTACACTTGCTTCG 60.951 55.000 0.00 0.00 38.60 3.79
590 1214 0.179020 TTGTGCAGCCTACACTTGCT 60.179 50.000 0.00 0.00 38.86 3.91
591 1215 0.883833 ATTGTGCAGCCTACACTTGC 59.116 50.000 0.00 0.00 38.86 4.01
592 1216 1.881973 ACATTGTGCAGCCTACACTTG 59.118 47.619 0.00 0.00 38.86 3.16
593 1217 2.154462 GACATTGTGCAGCCTACACTT 58.846 47.619 0.00 0.00 38.86 3.16
595 1219 1.813513 AGACATTGTGCAGCCTACAC 58.186 50.000 0.00 0.00 38.55 2.90
598 1222 2.703416 CTCAAGACATTGTGCAGCCTA 58.297 47.619 0.00 0.00 37.68 3.93
625 1249 1.621814 AGGGTACAGCGAGTTAAGCAA 59.378 47.619 0.00 0.00 37.01 3.91
637 1485 1.552337 ACAGATGCTCACAGGGTACAG 59.448 52.381 0.00 0.00 0.00 2.74
667 1515 8.329502 GGGTATAATCAATAACTAGAGGGCAAT 58.670 37.037 0.00 0.00 0.00 3.56
688 1536 3.476419 CGGGCTTCCACGGGGTAT 61.476 66.667 2.12 0.00 34.93 2.73
770 1618 4.455070 AGGGTTATAAAATGGGAGAGGC 57.545 45.455 0.00 0.00 0.00 4.70
834 1699 1.645034 CTGCTGATTTGGTCGACGAT 58.355 50.000 9.92 3.39 0.00 3.73
921 1819 2.447887 CGCTGCGTCTGCTACTTGG 61.448 63.158 14.93 0.00 43.34 3.61
996 1900 0.252696 TGTACAGGGAGGACATGGCT 60.253 55.000 0.00 0.00 0.00 4.75
1048 1964 3.775654 GAGGTGGGAGGCCGTGAG 61.776 72.222 0.00 0.00 0.00 3.51
1053 1969 2.367512 ATGAGGAGGTGGGAGGCC 60.368 66.667 0.00 0.00 0.00 5.19
1056 1972 1.828768 GAGCATGAGGAGGTGGGAG 59.171 63.158 0.00 0.00 0.00 4.30
1459 2405 2.034879 CCATGTTCTCGGCGCAGTT 61.035 57.895 10.83 0.00 0.00 3.16
1557 2506 1.570967 CAGGTACGTGTCGTCGTCA 59.429 57.895 7.41 0.00 43.12 4.35
1647 2596 2.430921 AAGTTCTCGCGGTCGCAG 60.431 61.111 15.68 11.27 42.06 5.18
1991 2949 1.078143 CAAGGCAGGTGGTAGAGGC 60.078 63.158 0.00 0.00 0.00 4.70
2050 3016 1.838913 GCACAAATTCAACGCACACT 58.161 45.000 0.00 0.00 0.00 3.55
2076 3062 5.070001 CCTCTTCTTATCCAACAACCACAA 58.930 41.667 0.00 0.00 0.00 3.33
2079 3065 5.779241 ATCCTCTTCTTATCCAACAACCA 57.221 39.130 0.00 0.00 0.00 3.67
2080 3066 8.753497 AATTATCCTCTTCTTATCCAACAACC 57.247 34.615 0.00 0.00 0.00 3.77
2083 3069 9.396022 GTCAAATTATCCTCTTCTTATCCAACA 57.604 33.333 0.00 0.00 0.00 3.33
2111 3097 5.289917 TCAATGTATGACGTACAAATGGACG 59.710 40.000 16.22 16.22 45.87 4.79
2127 3113 9.797642 ACACCATGAATGTATGTATCAATGTAT 57.202 29.630 0.00 0.00 0.00 2.29
2128 3114 9.271828 GACACCATGAATGTATGTATCAATGTA 57.728 33.333 0.00 0.00 0.00 2.29
2129 3115 7.994911 AGACACCATGAATGTATGTATCAATGT 59.005 33.333 0.00 0.00 0.00 2.71
2130 3116 8.287503 CAGACACCATGAATGTATGTATCAATG 58.712 37.037 13.52 0.00 35.13 2.82
2131 3117 8.387190 CAGACACCATGAATGTATGTATCAAT 57.613 34.615 13.52 0.00 35.13 2.57
2132 3118 7.790823 CAGACACCATGAATGTATGTATCAA 57.209 36.000 13.52 0.00 35.13 2.57
2143 3129 2.877300 GCACTGGACAGACACCATGAAT 60.877 50.000 6.29 0.00 36.79 2.57
2152 3138 2.080286 AATACACGCACTGGACAGAC 57.920 50.000 6.29 0.00 0.00 3.51
2153 3139 2.036604 TGAAATACACGCACTGGACAGA 59.963 45.455 6.29 0.00 0.00 3.41
2154 3140 2.412870 TGAAATACACGCACTGGACAG 58.587 47.619 0.00 0.00 0.00 3.51
2178 3164 8.739649 AAAGAAACGAAGTGAGTATGTACTAC 57.260 34.615 0.00 0.00 45.00 2.73
2318 3348 8.875803 GCATTCACAATACAAAATCAATGTCAT 58.124 29.630 0.00 0.00 32.27 3.06
2319 3349 8.089597 AGCATTCACAATACAAAATCAATGTCA 58.910 29.630 0.00 0.00 32.27 3.58
2320 3350 8.470040 AGCATTCACAATACAAAATCAATGTC 57.530 30.769 0.00 0.00 32.27 3.06
2321 3351 9.926158 TTAGCATTCACAATACAAAATCAATGT 57.074 25.926 0.00 0.00 34.81 2.71
2323 3353 9.926158 TGTTAGCATTCACAATACAAAATCAAT 57.074 25.926 0.00 0.00 0.00 2.57
2324 3354 9.755804 TTGTTAGCATTCACAATACAAAATCAA 57.244 25.926 0.00 0.00 0.00 2.57
2358 3388 9.981114 ATTCTTCAAGGTTTAACCAAGTTTATG 57.019 29.630 17.10 3.91 41.95 1.90
2370 3494 7.969536 CTGAAGTCAGATTCTTCAAGGTTTA 57.030 36.000 1.88 0.00 46.58 2.01
2423 3550 5.104900 ACACCATGAAAGTATGTAGTCCCTC 60.105 44.000 0.00 0.00 0.00 4.30
2429 3556 6.315393 GGTACCAACACCATGAAAGTATGTAG 59.685 42.308 7.15 0.00 38.55 2.74
2450 3577 3.832615 AACCCGAATCACCATAGGTAC 57.167 47.619 0.00 0.00 32.11 3.34
2456 3583 5.365619 GTGTATAGAAACCCGAATCACCAT 58.634 41.667 0.00 0.00 0.00 3.55
2487 3616 9.297586 ACACGCGTGTATATCATATATTAAAGG 57.702 33.333 41.14 10.27 42.90 3.11
2535 3678 1.063266 AGGAAAGAGTTGTGGGGCAAA 60.063 47.619 0.00 0.00 39.03 3.68
2541 4029 6.633500 TTGTTTATCAGGAAAGAGTTGTGG 57.367 37.500 0.00 0.00 0.00 4.17
2569 4057 8.139350 TGGACGATATCAATTTATGTACTTCGT 58.861 33.333 3.12 0.00 35.69 3.85
2591 4079 5.398416 GCGTATGTTGACTTTCTTTTTGGAC 59.602 40.000 0.00 0.00 0.00 4.02
2615 4103 7.953158 TGAAGAGATTAACAAGACTTCACTG 57.047 36.000 0.00 0.00 38.73 3.66
2619 4107 7.463913 CGAGCATGAAGAGATTAACAAGACTTC 60.464 40.741 0.00 0.00 35.70 3.01
2620 4108 6.312426 CGAGCATGAAGAGATTAACAAGACTT 59.688 38.462 0.00 0.00 0.00 3.01
2621 4109 5.809562 CGAGCATGAAGAGATTAACAAGACT 59.190 40.000 0.00 0.00 0.00 3.24
2622 4110 5.578727 ACGAGCATGAAGAGATTAACAAGAC 59.421 40.000 0.00 0.00 0.00 3.01
2623 4111 5.724328 ACGAGCATGAAGAGATTAACAAGA 58.276 37.500 0.00 0.00 0.00 3.02
2624 4112 6.414408 AACGAGCATGAAGAGATTAACAAG 57.586 37.500 0.00 0.00 0.00 3.16
2625 4113 5.351465 GGAACGAGCATGAAGAGATTAACAA 59.649 40.000 0.00 0.00 0.00 2.83
2626 4114 4.870426 GGAACGAGCATGAAGAGATTAACA 59.130 41.667 0.00 0.00 0.00 2.41
2627 4115 5.112686 AGGAACGAGCATGAAGAGATTAAC 58.887 41.667 0.00 0.00 0.00 2.01
2628 4116 5.344743 AGGAACGAGCATGAAGAGATTAA 57.655 39.130 0.00 0.00 0.00 1.40
2629 4117 5.594725 ACTAGGAACGAGCATGAAGAGATTA 59.405 40.000 0.00 0.00 33.18 1.75
2630 4118 3.902881 AGGAACGAGCATGAAGAGATT 57.097 42.857 0.00 0.00 0.00 2.40
2631 4119 3.957497 ACTAGGAACGAGCATGAAGAGAT 59.043 43.478 0.00 0.00 33.18 2.75
2632 4120 3.357203 ACTAGGAACGAGCATGAAGAGA 58.643 45.455 0.00 0.00 33.18 3.10
2633 4121 3.791973 ACTAGGAACGAGCATGAAGAG 57.208 47.619 0.00 0.00 33.18 2.85
2634 4122 3.427638 CGAACTAGGAACGAGCATGAAGA 60.428 47.826 0.00 0.00 33.18 2.87
2635 4123 2.854777 CGAACTAGGAACGAGCATGAAG 59.145 50.000 0.00 0.00 33.18 3.02
2636 4124 2.490509 TCGAACTAGGAACGAGCATGAA 59.509 45.455 0.00 0.00 33.18 2.57
2637 4125 2.089201 TCGAACTAGGAACGAGCATGA 58.911 47.619 0.00 0.00 33.18 3.07
2638 4126 2.561733 TCGAACTAGGAACGAGCATG 57.438 50.000 0.00 0.00 33.18 4.06
2639 4127 2.492484 ACTTCGAACTAGGAACGAGCAT 59.508 45.455 0.00 0.00 37.36 3.79
2640 4128 1.884579 ACTTCGAACTAGGAACGAGCA 59.115 47.619 0.00 0.00 37.36 4.26
2641 4129 2.633199 ACTTCGAACTAGGAACGAGC 57.367 50.000 0.00 0.00 37.36 5.03
2642 4130 5.738118 AGATACTTCGAACTAGGAACGAG 57.262 43.478 0.00 0.37 37.36 4.18
2643 4131 6.506500 AAAGATACTTCGAACTAGGAACGA 57.493 37.500 0.00 0.00 0.00 3.85
2644 4132 6.034683 CCAAAAGATACTTCGAACTAGGAACG 59.965 42.308 0.00 0.00 0.00 3.95
2645 4133 6.183360 GCCAAAAGATACTTCGAACTAGGAAC 60.183 42.308 0.00 0.00 0.00 3.62
2646 4134 5.873164 GCCAAAAGATACTTCGAACTAGGAA 59.127 40.000 0.00 0.00 0.00 3.36
2647 4135 5.416947 GCCAAAAGATACTTCGAACTAGGA 58.583 41.667 0.00 0.00 0.00 2.94
2648 4136 4.571176 GGCCAAAAGATACTTCGAACTAGG 59.429 45.833 0.00 0.00 0.00 3.02
2649 4137 5.175859 TGGCCAAAAGATACTTCGAACTAG 58.824 41.667 0.61 0.00 0.00 2.57
2650 4138 5.155278 TGGCCAAAAGATACTTCGAACTA 57.845 39.130 0.61 0.00 0.00 2.24
2651 4139 4.015872 TGGCCAAAAGATACTTCGAACT 57.984 40.909 0.61 0.00 0.00 3.01
2652 4140 4.759516 TTGGCCAAAAGATACTTCGAAC 57.240 40.909 17.98 0.00 0.00 3.95
2663 4151 3.876914 GAGGGTTTTTCTTTGGCCAAAAG 59.123 43.478 29.93 22.59 45.76 2.27
2664 4152 3.521531 AGAGGGTTTTTCTTTGGCCAAAA 59.478 39.130 29.93 18.37 0.00 2.44
2665 4153 3.111484 AGAGGGTTTTTCTTTGGCCAAA 58.889 40.909 28.65 28.65 0.00 3.28
2666 4154 2.758130 AGAGGGTTTTTCTTTGGCCAA 58.242 42.857 16.05 16.05 0.00 4.52
2667 4155 2.470057 AGAGGGTTTTTCTTTGGCCA 57.530 45.000 0.00 0.00 0.00 5.36
2668 4156 3.388024 AGAAAGAGGGTTTTTCTTTGGCC 59.612 43.478 0.00 0.00 43.07 5.36
2669 4157 4.099419 TCAGAAAGAGGGTTTTTCTTTGGC 59.901 41.667 5.08 0.00 43.07 4.52
2670 4158 5.127031 TGTCAGAAAGAGGGTTTTTCTTTGG 59.873 40.000 5.08 0.00 43.07 3.28
2671 4159 6.036470 GTGTCAGAAAGAGGGTTTTTCTTTG 58.964 40.000 5.08 0.00 43.07 2.77
2672 4160 5.163652 CGTGTCAGAAAGAGGGTTTTTCTTT 60.164 40.000 0.24 0.24 45.05 2.52
2673 4161 4.335594 CGTGTCAGAAAGAGGGTTTTTCTT 59.664 41.667 0.00 0.00 41.60 2.52
2674 4162 3.877508 CGTGTCAGAAAGAGGGTTTTTCT 59.122 43.478 0.00 0.00 43.66 2.52
2675 4163 3.875134 TCGTGTCAGAAAGAGGGTTTTTC 59.125 43.478 0.00 0.00 35.32 2.29
2676 4164 3.881220 TCGTGTCAGAAAGAGGGTTTTT 58.119 40.909 0.00 0.00 0.00 1.94
2677 4165 3.553828 TCGTGTCAGAAAGAGGGTTTT 57.446 42.857 0.00 0.00 0.00 2.43
2678 4166 3.771577 ATCGTGTCAGAAAGAGGGTTT 57.228 42.857 0.00 0.00 0.00 3.27
2679 4167 3.403038 CAATCGTGTCAGAAAGAGGGTT 58.597 45.455 0.00 0.00 0.00 4.11
2680 4168 2.872038 GCAATCGTGTCAGAAAGAGGGT 60.872 50.000 0.00 0.00 0.00 4.34
2681 4169 1.734465 GCAATCGTGTCAGAAAGAGGG 59.266 52.381 0.00 0.00 0.00 4.30
2682 4170 1.734465 GGCAATCGTGTCAGAAAGAGG 59.266 52.381 0.00 0.00 0.00 3.69
2683 4171 2.693069 AGGCAATCGTGTCAGAAAGAG 58.307 47.619 0.00 0.00 0.00 2.85
2684 4172 2.839486 AGGCAATCGTGTCAGAAAGA 57.161 45.000 0.00 0.00 0.00 2.52
2685 4173 5.106555 ACATTTAGGCAATCGTGTCAGAAAG 60.107 40.000 0.00 0.00 0.00 2.62
2686 4174 4.759693 ACATTTAGGCAATCGTGTCAGAAA 59.240 37.500 0.00 0.00 0.00 2.52
2687 4175 4.154015 CACATTTAGGCAATCGTGTCAGAA 59.846 41.667 0.00 0.00 0.00 3.02
2688 4176 3.684305 CACATTTAGGCAATCGTGTCAGA 59.316 43.478 0.00 0.00 0.00 3.27
2689 4177 3.684305 TCACATTTAGGCAATCGTGTCAG 59.316 43.478 0.00 0.00 31.25 3.51
2690 4178 3.435327 GTCACATTTAGGCAATCGTGTCA 59.565 43.478 0.00 0.00 31.25 3.58
2691 4179 3.483574 CGTCACATTTAGGCAATCGTGTC 60.484 47.826 0.00 0.00 31.25 3.67
2692 4180 2.415168 CGTCACATTTAGGCAATCGTGT 59.585 45.455 0.00 0.00 31.25 4.49
2693 4181 2.670905 TCGTCACATTTAGGCAATCGTG 59.329 45.455 0.00 0.00 0.00 4.35
2694 4182 2.967362 TCGTCACATTTAGGCAATCGT 58.033 42.857 0.00 0.00 0.00 3.73
2695 4183 4.536364 ATTCGTCACATTTAGGCAATCG 57.464 40.909 0.00 0.00 0.00 3.34
2696 4184 7.016361 AGTTATTCGTCACATTTAGGCAATC 57.984 36.000 0.00 0.00 0.00 2.67
2697 4185 6.597672 TGAGTTATTCGTCACATTTAGGCAAT 59.402 34.615 0.00 0.00 0.00 3.56
2698 4186 5.935206 TGAGTTATTCGTCACATTTAGGCAA 59.065 36.000 0.00 0.00 0.00 4.52
2699 4187 5.350365 GTGAGTTATTCGTCACATTTAGGCA 59.650 40.000 0.00 0.00 42.31 4.75
2700 4188 5.581085 AGTGAGTTATTCGTCACATTTAGGC 59.419 40.000 5.35 0.00 44.70 3.93
2701 4189 7.330946 TCAAGTGAGTTATTCGTCACATTTAGG 59.669 37.037 5.35 0.00 44.70 2.69
2702 4190 8.239681 TCAAGTGAGTTATTCGTCACATTTAG 57.760 34.615 5.35 0.00 44.70 1.85
2703 4191 8.596271 TTCAAGTGAGTTATTCGTCACATTTA 57.404 30.769 5.35 0.00 44.70 1.40
2710 4198 5.917541 TGGTTTCAAGTGAGTTATTCGTC 57.082 39.130 0.00 0.00 0.00 4.20
2723 4211 4.247267 ACACATTGCTGATGGTTTCAAG 57.753 40.909 5.78 0.00 40.21 3.02
2811 4299 8.973378 CGAAAAACTATCTTCATCTGGATACTC 58.027 37.037 0.00 0.00 37.61 2.59
2831 4319 6.252441 CACTTGCGCCAATATATTTCGAAAAA 59.748 34.615 15.66 4.06 0.00 1.94
2845 4333 2.094803 CCATTATGAACACTTGCGCCAA 60.095 45.455 4.18 0.00 0.00 4.52
2879 4367 4.630894 TTGAGTTGTGTCAACATGTTCC 57.369 40.909 8.48 2.89 35.83 3.62
2883 4371 8.854979 TTCTTAAATTGAGTTGTGTCAACATG 57.145 30.769 13.74 0.00 39.25 3.21
2917 4405 8.567948 GGTTAGTATACGTAACTGCTACCAATA 58.432 37.037 15.98 0.00 32.02 1.90
2927 4415 7.432869 TGTTGTTGTGGTTAGTATACGTAACT 58.567 34.615 17.31 7.44 32.02 2.24


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

AutoCloner maintained by Alex Coulton.