Multiple sequence alignment - TraesCS5A01G459000

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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 TraesCS5A01G459000 chr5A 100.000 3230 0 0 1 3230 639294330 639291101 0.000000e+00 5965.0
1 TraesCS5A01G459000 chr5A 81.609 1131 200 7 1088 2214 639301543 639300417 0.000000e+00 929.0
2 TraesCS5A01G459000 chr5A 79.279 555 105 6 1652 2206 639281107 639281651 2.350000e-101 379.0
3 TraesCS5A01G459000 chr5A 100.000 28 0 0 3203 3230 524899973 524899946 6.000000e-03 52.8
4 TraesCS5A01G459000 chr5D 91.091 2593 178 29 3 2562 510960424 510957852 0.000000e+00 3459.0
5 TraesCS5A01G459000 chr5D 81.883 1126 200 4 1091 2214 510966695 510965572 0.000000e+00 946.0
6 TraesCS5A01G459000 chr5D 77.457 692 138 8 1526 2206 510956078 510956762 6.490000e-107 398.0
7 TraesCS5A01G459000 chr5D 84.718 301 38 5 3 296 457669023 457669322 8.760000e-76 294.0
8 TraesCS5A01G459000 chr5B 90.570 2439 153 24 108 2513 642143234 642140840 0.000000e+00 3158.0
9 TraesCS5A01G459000 chr5B 91.075 2028 116 20 520 2513 642306152 642308148 0.000000e+00 2682.0
10 TraesCS5A01G459000 chr5B 82.363 1134 188 10 1088 2215 642281913 642283040 0.000000e+00 976.0
11 TraesCS5A01G459000 chr5B 87.138 552 50 14 3 535 642305586 642306135 9.910000e-170 606.0
12 TraesCS5A01G459000 chr5B 87.029 478 48 12 2590 3056 642308309 642308783 7.940000e-146 527.0
13 TraesCS5A01G459000 chr5B 88.614 202 19 4 2590 2790 642139328 642139130 3.220000e-60 243.0
14 TraesCS5A01G459000 chr5B 93.919 148 9 0 3055 3202 78743508 78743655 1.170000e-54 224.0
15 TraesCS5A01G459000 chr5B 86.275 102 12 2 1125 1225 642320742 642320642 3.410000e-20 110.0
16 TraesCS5A01G459000 chr5B 100.000 30 0 0 3201 3230 13073615 13073644 4.500000e-04 56.5
17 TraesCS5A01G459000 chr5B 100.000 30 0 0 3201 3230 195301595 195301566 4.500000e-04 56.5
18 TraesCS5A01G459000 chr3B 84.667 300 40 1 3 296 704570378 704570079 8.760000e-76 294.0
19 TraesCS5A01G459000 chr3D 84.281 299 41 3 4 296 553333918 553334216 1.470000e-73 287.0
20 TraesCS5A01G459000 chr3D 83.444 302 44 3 1 296 93478584 93478283 3.170000e-70 276.0
21 TraesCS5A01G459000 chr3D 83.333 300 44 3 3 296 147839107 147838808 4.110000e-69 272.0
22 TraesCS5A01G459000 chr3D 92.258 155 10 2 3053 3206 588063498 588063345 5.430000e-53 219.0
23 TraesCS5A01G459000 chr4D 83.828 303 39 5 3 296 421546249 421546550 2.450000e-71 279.0
24 TraesCS5A01G459000 chr4D 95.205 146 7 0 3057 3202 38457136 38457281 6.970000e-57 231.0
25 TraesCS5A01G459000 chr1A 84.407 295 35 6 12 296 580932469 580932176 2.450000e-71 279.0
26 TraesCS5A01G459000 chr2D 83.667 300 43 3 3 296 626118092 626118391 8.830000e-71 278.0
27 TraesCS5A01G459000 chr2D 100.000 29 0 0 3202 3230 266494440 266494412 2.000000e-03 54.7
28 TraesCS5A01G459000 chr1D 83.775 302 39 7 4 296 431763861 431764161 8.830000e-71 278.0
29 TraesCS5A01G459000 chr1D 72.552 725 177 21 1265 1978 47883134 47882421 1.950000e-52 217.0
30 TraesCS5A01G459000 chr4B 95.172 145 7 0 3059 3203 440617846 440617990 2.510000e-56 230.0
31 TraesCS5A01G459000 chr7D 94.595 148 7 1 3057 3203 571495248 571495101 9.010000e-56 228.0
32 TraesCS5A01G459000 chr7B 93.333 150 10 0 3054 3203 425260426 425260575 4.190000e-54 222.0
33 TraesCS5A01G459000 chr6D 93.333 150 9 1 3053 3202 351741559 351741411 1.510000e-53 220.0
34 TraesCS5A01G459000 chr7A 93.243 148 10 0 3056 3203 119459872 119459725 5.430000e-53 219.0
35 TraesCS5A01G459000 chr7A 90.741 162 12 2 3042 3203 116640310 116640152 2.520000e-51 213.0
36 TraesCS5A01G459000 chr2B 100.000 29 0 0 3202 3230 504698992 504698964 2.000000e-03 54.7
37 TraesCS5A01G459000 chr2B 96.774 31 1 0 3200 3230 64556894 64556924 6.000000e-03 52.8
38 TraesCS5A01G459000 chr2A 100.000 29 0 0 3202 3230 701373814 701373842 2.000000e-03 54.7
39 TraesCS5A01G459000 chr6A 100.000 28 0 0 3202 3229 61565399 61565372 6.000000e-03 52.8


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 TraesCS5A01G459000 chr5A 639291101 639294330 3229 True 5965.000000 5965 100.000 1 3230 1 chr5A.!!$R2 3229
1 TraesCS5A01G459000 chr5A 639300417 639301543 1126 True 929.000000 929 81.609 1088 2214 1 chr5A.!!$R3 1126
2 TraesCS5A01G459000 chr5A 639281107 639281651 544 False 379.000000 379 79.279 1652 2206 1 chr5A.!!$F1 554
3 TraesCS5A01G459000 chr5D 510957852 510960424 2572 True 3459.000000 3459 91.091 3 2562 1 chr5D.!!$R1 2559
4 TraesCS5A01G459000 chr5D 510965572 510966695 1123 True 946.000000 946 81.883 1091 2214 1 chr5D.!!$R2 1123
5 TraesCS5A01G459000 chr5D 510956078 510956762 684 False 398.000000 398 77.457 1526 2206 1 chr5D.!!$F2 680
6 TraesCS5A01G459000 chr5B 642139130 642143234 4104 True 1700.500000 3158 89.592 108 2790 2 chr5B.!!$R3 2682
7 TraesCS5A01G459000 chr5B 642305586 642308783 3197 False 1271.666667 2682 88.414 3 3056 3 chr5B.!!$F4 3053
8 TraesCS5A01G459000 chr5B 642281913 642283040 1127 False 976.000000 976 82.363 1088 2215 1 chr5B.!!$F3 1127
9 TraesCS5A01G459000 chr1D 47882421 47883134 713 True 217.000000 217 72.552 1265 1978 1 chr1D.!!$R1 713

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
224 226 0.095417 CGGCTCGCTTTAGTTCTTGC 59.905 55.0 0.00 0.00 0.00 4.01 F
240 242 0.541063 TTGCAGTCGTCCCTAGGTGA 60.541 55.0 8.29 1.68 0.00 4.02 F
1239 1323 0.842467 AGGGCAAGACCTACCTGCTT 60.842 55.0 0.00 0.00 39.65 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1213 1297 0.326238 TAGGTCTTGCCCTCGGGAAT 60.326 55.0 6.08 0.00 38.26 3.01 R
1794 1888 0.464013 CGGAGACCTCGGCTCTAGAA 60.464 60.0 0.00 0.00 32.98 2.10 R
2981 4541 0.105039 GAATGGTCGCTCGAGGGAAT 59.895 55.0 30.97 20.04 38.76 3.01 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
44 45 1.126113 GGTCGTCGTTCGTCTACGTTA 59.874 52.381 0.00 0.00 42.01 3.18
73 74 1.762957 TCAGGTTGGATCCTTCCGATC 59.237 52.381 14.23 0.00 45.89 3.69
86 87 3.243569 CCTTCCGATCTACGCTCTTCATT 60.244 47.826 0.00 0.00 41.07 2.57
106 107 2.539338 GCGGCGGTTGTTGTTCTGA 61.539 57.895 9.78 0.00 0.00 3.27
171 172 7.287810 ACTGTCTACTACAACAATTTTTCCCT 58.712 34.615 0.00 0.00 37.74 4.20
178 179 2.368221 CAACAATTTTTCCCTGGCTCCA 59.632 45.455 0.00 0.00 0.00 3.86
206 207 1.374125 TGGTGATGACAGGCGTTCG 60.374 57.895 0.00 0.00 0.00 3.95
219 221 2.442084 CGTTCGGCTCGCTTTAGTT 58.558 52.632 0.00 0.00 0.00 2.24
224 226 0.095417 CGGCTCGCTTTAGTTCTTGC 59.905 55.000 0.00 0.00 0.00 4.01
232 234 2.157863 GCTTTAGTTCTTGCAGTCGTCC 59.842 50.000 0.00 0.00 0.00 4.79
240 242 0.541063 TTGCAGTCGTCCCTAGGTGA 60.541 55.000 8.29 1.68 0.00 4.02
245 247 3.757270 CAGTCGTCCCTAGGTGATCTAT 58.243 50.000 8.29 0.00 0.00 1.98
250 252 4.090090 CGTCCCTAGGTGATCTATGGATT 58.910 47.826 8.29 0.00 42.22 3.01
255 257 6.954684 TCCCTAGGTGATCTATGGATTTAGAC 59.045 42.308 8.29 0.00 37.69 2.59
305 317 7.039714 TCGTTATACTGGCATGAATAGATCAGT 60.040 37.037 0.00 0.00 42.53 3.41
367 389 9.638239 AAACATTATACTTTTTGTGGCACATAG 57.362 29.630 22.73 19.73 44.52 2.23
427 452 8.934023 ATGTTTGATTTATTATACGATGGGGT 57.066 30.769 0.00 0.00 0.00 4.95
444 469 2.629617 GGGGTCTAATAAATCCGGACGA 59.370 50.000 6.12 0.00 0.00 4.20
447 472 3.739810 GGTCTAATAAATCCGGACGAAGC 59.260 47.826 6.12 0.00 0.00 3.86
482 507 2.436542 TGTAACAGCACTACACCTGGTT 59.563 45.455 0.00 0.00 33.43 3.67
483 508 3.642377 TGTAACAGCACTACACCTGGTTA 59.358 43.478 0.00 0.00 33.43 2.85
566 623 1.141234 GCACTACGTACAGGGGAGC 59.859 63.158 0.00 0.00 0.00 4.70
639 699 4.498009 CGGACAAATCTGGCATGTTTATCC 60.498 45.833 10.39 10.39 28.70 2.59
808 880 1.135859 GCTTCTCCATCACAAGCAACG 60.136 52.381 0.00 0.00 41.87 4.10
878 950 1.391485 CACTTCGTCTTCATCGGCTTG 59.609 52.381 0.00 0.00 0.00 4.01
954 1036 1.372004 GCCACGTACGTACAGTGCA 60.372 57.895 29.05 0.00 35.00 4.57
958 1040 2.592194 CACGTACGTACAGTGCAATCT 58.408 47.619 25.93 0.00 35.00 2.40
978 1060 3.742882 TCTCATCTTCACTCTTGCGTTTG 59.257 43.478 0.00 0.00 0.00 2.93
1026 1110 3.466314 TTCATGGCGGCCGCTCTA 61.466 61.111 45.23 32.22 41.60 2.43
1127 1211 2.201708 TCGACAACTACGGTGCCCA 61.202 57.895 0.00 0.00 0.00 5.36
1239 1323 0.842467 AGGGCAAGACCTACCTGCTT 60.842 55.000 0.00 0.00 39.65 3.91
1521 1605 1.637553 ACCAATCTGCAGGTGGAGAAT 59.362 47.619 31.97 15.08 45.49 2.40
1575 1662 2.280797 GTGGAGGACTGCAACGCA 60.281 61.111 0.00 0.00 36.92 5.24
1630 1717 4.308458 CGAGCCCCAACACCGACA 62.308 66.667 0.00 0.00 0.00 4.35
1632 1719 3.168528 AGCCCCAACACCGACAGT 61.169 61.111 0.00 0.00 0.00 3.55
1721 1815 4.758692 CATCGAGAATGGGACCCG 57.241 61.111 5.91 0.00 0.00 5.28
1794 1888 1.757699 GGGAGCTTAGGAGACGACAAT 59.242 52.381 0.00 0.00 0.00 2.71
1986 2081 2.045926 GACTCCGCCAAGCCATGT 60.046 61.111 0.00 0.00 0.00 3.21
1993 2088 1.453155 CGCCAAGCCATGTAAGAGTT 58.547 50.000 0.00 0.00 0.00 3.01
1998 2096 0.625849 AGCCATGTAAGAGTTGGGGG 59.374 55.000 0.00 0.00 0.00 5.40
2127 2225 4.920640 TGTCTTGGAGAATATCGACCTC 57.079 45.455 0.00 0.00 0.00 3.85
2267 2368 5.767816 AATTGGACAGGTTCTTGTTGTAC 57.232 39.130 0.00 0.00 0.00 2.90
2304 2407 8.480643 ACAGCTGTATCAAAACTAGAATGTAC 57.519 34.615 20.16 0.00 0.00 2.90
2305 2408 8.094548 ACAGCTGTATCAAAACTAGAATGTACA 58.905 33.333 20.16 0.00 0.00 2.90
2307 2410 9.502091 AGCTGTATCAAAACTAGAATGTACAAA 57.498 29.630 0.00 0.00 0.00 2.83
2490 2602 7.899973 AGCAGAAAGAAATACAAATGACCAAT 58.100 30.769 0.00 0.00 0.00 3.16
2523 2639 7.446931 TCTGAAAACAGGTGATAAACTTGCATA 59.553 33.333 0.00 0.00 39.44 3.14
2529 2645 5.877012 CAGGTGATAAACTTGCATAGACAGT 59.123 40.000 0.00 0.00 0.00 3.55
2533 2649 3.542712 AAACTTGCATAGACAGTTGCG 57.457 42.857 1.61 0.00 41.80 4.85
2534 2650 1.442769 ACTTGCATAGACAGTTGCGG 58.557 50.000 0.00 0.00 41.80 5.69
2541 2657 3.062234 GCATAGACAGTTGCGGTTCTAAC 59.938 47.826 0.00 0.00 0.00 2.34
2562 2678 5.181690 ACGTCAAGCTAGATTCTGATCTC 57.818 43.478 0.00 0.00 41.68 2.75
2564 2680 4.558496 CGTCAAGCTAGATTCTGATCTCCC 60.558 50.000 0.00 0.00 41.68 4.30
2566 2682 5.772672 GTCAAGCTAGATTCTGATCTCCCTA 59.227 44.000 0.00 0.00 41.68 3.53
2568 2684 6.841229 TCAAGCTAGATTCTGATCTCCCTAAA 59.159 38.462 0.00 0.00 41.68 1.85
2569 2685 6.664428 AGCTAGATTCTGATCTCCCTAAAC 57.336 41.667 0.00 0.00 41.68 2.01
2570 2686 6.381250 AGCTAGATTCTGATCTCCCTAAACT 58.619 40.000 0.00 0.00 41.68 2.66
2572 2688 8.007742 AGCTAGATTCTGATCTCCCTAAACTTA 58.992 37.037 0.00 0.00 41.68 2.24
2575 2691 8.616799 AGATTCTGATCTCCCTAAACTTACTT 57.383 34.615 0.00 0.00 38.21 2.24
2577 2693 9.974980 GATTCTGATCTCCCTAAACTTACTTAG 57.025 37.037 0.00 0.00 0.00 2.18
2578 2694 7.349412 TCTGATCTCCCTAAACTTACTTAGC 57.651 40.000 0.00 0.00 0.00 3.09
2579 2695 6.324254 TCTGATCTCCCTAAACTTACTTAGCC 59.676 42.308 0.00 0.00 0.00 3.93
2580 2696 5.365895 TGATCTCCCTAAACTTACTTAGCCC 59.634 44.000 0.00 0.00 0.00 5.19
2581 2697 4.691238 TCTCCCTAAACTTACTTAGCCCA 58.309 43.478 0.00 0.00 0.00 5.36
2582 2698 5.286221 TCTCCCTAAACTTACTTAGCCCAT 58.714 41.667 0.00 0.00 0.00 4.00
2583 2699 6.446451 TCTCCCTAAACTTACTTAGCCCATA 58.554 40.000 0.00 0.00 0.00 2.74
2584 2700 6.325804 TCTCCCTAAACTTACTTAGCCCATAC 59.674 42.308 0.00 0.00 0.00 2.39
2585 2701 6.207532 TCCCTAAACTTACTTAGCCCATACT 58.792 40.000 0.00 0.00 0.00 2.12
2587 2703 6.099269 CCCTAAACTTACTTAGCCCATACTCA 59.901 42.308 0.00 0.00 0.00 3.41
2623 4178 3.383505 CACCACATGGCATCAATCTCAAT 59.616 43.478 0.00 0.00 39.32 2.57
2625 4180 5.068067 CACCACATGGCATCAATCTCAATAA 59.932 40.000 0.00 0.00 39.32 1.40
2656 4211 1.439543 AGTTGGCCTTGAGGAAGAGT 58.560 50.000 3.32 0.00 37.39 3.24
2661 4216 4.222124 TGGCCTTGAGGAAGAGTAATTC 57.778 45.455 3.32 0.00 37.39 2.17
2675 4230 7.606456 GGAAGAGTAATTCCTACAATTGTGACA 59.394 37.037 21.42 0.00 44.57 3.58
2686 4241 3.187227 ACAATTGTGACAAGCTCGATCAC 59.813 43.478 11.07 14.84 42.54 3.06
2721 4277 2.528564 CCCCATCAAGAAAGAAGGCAA 58.471 47.619 0.00 0.00 0.00 4.52
2735 4291 6.566197 AAGAAGGCAATTCAGACAAGTTAG 57.434 37.500 4.01 0.00 40.67 2.34
2737 4293 5.936956 AGAAGGCAATTCAGACAAGTTAGAG 59.063 40.000 4.01 0.00 40.67 2.43
2739 4295 5.241662 AGGCAATTCAGACAAGTTAGAGAC 58.758 41.667 0.00 0.00 0.00 3.36
2740 4296 4.997395 GGCAATTCAGACAAGTTAGAGACA 59.003 41.667 0.00 0.00 0.00 3.41
2809 4365 0.678048 CTGGCTAGGTTGGGCTTGTC 60.678 60.000 0.00 0.00 0.00 3.18
2817 4373 1.012486 GTTGGGCTTGTCGAGGTACG 61.012 60.000 0.00 0.00 44.09 3.67
2836 4392 5.240183 GGTACGAGTAGATTACACTGGCATA 59.760 44.000 0.00 0.00 0.00 3.14
2839 4395 6.817184 ACGAGTAGATTACACTGGCATAAAT 58.183 36.000 0.00 0.00 0.00 1.40
2840 4396 6.924060 ACGAGTAGATTACACTGGCATAAATC 59.076 38.462 0.00 0.00 0.00 2.17
2841 4397 6.923508 CGAGTAGATTACACTGGCATAAATCA 59.076 38.462 11.38 0.00 0.00 2.57
2864 4420 5.446143 AAAAATCTTATCACGTGCACCAA 57.554 34.783 11.67 0.86 0.00 3.67
2910 4466 6.143598 CACGAGATTATCACTAGAAGCACATG 59.856 42.308 0.00 0.00 0.00 3.21
2918 4474 3.313526 CACTAGAAGCACATGCCCATAAC 59.686 47.826 0.00 0.00 43.38 1.89
2923 4479 2.372264 AGCACATGCCCATAACAGAAG 58.628 47.619 0.00 0.00 43.38 2.85
2927 4483 4.438744 GCACATGCCCATAACAGAAGTAAC 60.439 45.833 0.00 0.00 34.31 2.50
2929 4485 3.688694 TGCCCATAACAGAAGTAACGT 57.311 42.857 0.00 0.00 0.00 3.99
2959 4519 0.438445 CATTGGTGCACGTGTAGTCG 59.562 55.000 18.38 0.00 0.00 4.18
2964 4524 1.464608 GGTGCACGTGTAGTCGTACTA 59.535 52.381 18.38 0.00 42.27 1.82
2966 4526 3.349176 GTGCACGTGTAGTCGTACTATC 58.651 50.000 18.38 0.00 42.27 2.08
2969 4529 4.201753 TGCACGTGTAGTCGTACTATCTTC 60.202 45.833 18.38 0.00 42.27 2.87
2971 4531 5.726245 CACGTGTAGTCGTACTATCTTCTC 58.274 45.833 7.58 0.00 42.27 2.87
2975 4535 5.466393 GTGTAGTCGTACTATCTTCTCCTCC 59.534 48.000 0.00 0.00 32.65 4.30
2980 4540 3.253677 CGTACTATCTTCTCCTCCGCATT 59.746 47.826 0.00 0.00 0.00 3.56
2981 4541 4.454847 CGTACTATCTTCTCCTCCGCATTA 59.545 45.833 0.00 0.00 0.00 1.90
3000 4560 0.105039 ATTCCCTCGAGCGACCATTC 59.895 55.000 6.99 0.00 0.00 2.67
3015 4575 5.049398 GACCATTCGAGTACCATAGCTAG 57.951 47.826 0.00 0.00 0.00 3.42
3019 4579 5.009710 CCATTCGAGTACCATAGCTAGAACA 59.990 44.000 0.00 0.00 31.26 3.18
3041 4601 2.618053 CTCCAAGGTATCCACACGTTC 58.382 52.381 0.00 0.00 0.00 3.95
3047 4607 2.163815 AGGTATCCACACGTTCGAGAAG 59.836 50.000 0.00 0.00 0.00 2.85
3056 4616 1.148310 CGTTCGAGAAGCAACACCAT 58.852 50.000 0.00 0.00 0.00 3.55
3057 4617 1.136252 CGTTCGAGAAGCAACACCATG 60.136 52.381 0.00 0.00 0.00 3.66
3058 4618 1.873591 GTTCGAGAAGCAACACCATGT 59.126 47.619 0.00 0.00 0.00 3.21
3059 4619 2.254546 TCGAGAAGCAACACCATGTT 57.745 45.000 0.00 0.00 42.08 2.71
3071 4631 5.659440 AACACCATGTTGGAAATATGACC 57.341 39.130 0.00 0.00 46.88 4.02
3072 4632 4.934356 ACACCATGTTGGAAATATGACCT 58.066 39.130 0.00 0.00 46.88 3.85
3073 4633 6.073447 ACACCATGTTGGAAATATGACCTA 57.927 37.500 0.00 0.00 46.88 3.08
3074 4634 6.489603 ACACCATGTTGGAAATATGACCTAA 58.510 36.000 0.00 0.00 46.88 2.69
3075 4635 6.951198 ACACCATGTTGGAAATATGACCTAAA 59.049 34.615 0.00 0.00 46.88 1.85
3076 4636 7.122650 ACACCATGTTGGAAATATGACCTAAAG 59.877 37.037 0.00 0.00 46.88 1.85
3077 4637 6.607198 ACCATGTTGGAAATATGACCTAAAGG 59.393 38.462 0.00 0.00 46.88 3.11
3078 4638 6.461509 CCATGTTGGAAATATGACCTAAAGGC 60.462 42.308 0.00 0.00 46.88 4.35
3079 4639 5.575157 TGTTGGAAATATGACCTAAAGGCA 58.425 37.500 0.00 0.00 39.32 4.75
3080 4640 6.013379 TGTTGGAAATATGACCTAAAGGCAA 58.987 36.000 0.00 0.00 39.32 4.52
3081 4641 6.667414 TGTTGGAAATATGACCTAAAGGCAAT 59.333 34.615 0.00 0.00 39.32 3.56
3082 4642 7.836685 TGTTGGAAATATGACCTAAAGGCAATA 59.163 33.333 0.00 0.00 39.32 1.90
3083 4643 8.691797 GTTGGAAATATGACCTAAAGGCAATAA 58.308 33.333 0.00 0.00 39.32 1.40
3084 4644 9.432982 TTGGAAATATGACCTAAAGGCAATAAT 57.567 29.630 0.00 0.00 39.32 1.28
3153 4713 9.866798 TTCTATGCTATAACTGCTATGATTCTG 57.133 33.333 0.00 0.00 0.00 3.02
3154 4714 8.473219 TCTATGCTATAACTGCTATGATTCTGG 58.527 37.037 0.00 0.00 0.00 3.86
3155 4715 6.670695 TGCTATAACTGCTATGATTCTGGA 57.329 37.500 0.00 0.00 0.00 3.86
3156 4716 7.066307 TGCTATAACTGCTATGATTCTGGAA 57.934 36.000 0.00 0.00 0.00 3.53
3157 4717 7.683578 TGCTATAACTGCTATGATTCTGGAAT 58.316 34.615 0.00 0.00 0.00 3.01
3158 4718 8.815912 TGCTATAACTGCTATGATTCTGGAATA 58.184 33.333 0.00 0.00 0.00 1.75
3159 4719 9.829507 GCTATAACTGCTATGATTCTGGAATAT 57.170 33.333 0.00 0.00 0.00 1.28
3162 4722 7.741027 AACTGCTATGATTCTGGAATATGTG 57.259 36.000 0.00 0.00 0.00 3.21
3163 4723 7.071069 ACTGCTATGATTCTGGAATATGTGA 57.929 36.000 0.00 0.00 0.00 3.58
3164 4724 7.687388 ACTGCTATGATTCTGGAATATGTGAT 58.313 34.615 0.00 0.00 0.00 3.06
3165 4725 8.162085 ACTGCTATGATTCTGGAATATGTGATT 58.838 33.333 0.00 0.00 0.00 2.57
3166 4726 8.557592 TGCTATGATTCTGGAATATGTGATTC 57.442 34.615 0.00 0.00 0.00 2.52
3167 4727 8.158789 TGCTATGATTCTGGAATATGTGATTCA 58.841 33.333 0.00 0.00 0.00 2.57
3168 4728 8.666573 GCTATGATTCTGGAATATGTGATTCAG 58.333 37.037 0.00 0.00 0.00 3.02
3169 4729 9.722184 CTATGATTCTGGAATATGTGATTCAGT 57.278 33.333 0.00 0.00 0.00 3.41
3170 4730 7.797038 TGATTCTGGAATATGTGATTCAGTG 57.203 36.000 0.00 0.00 0.00 3.66
3171 4731 6.769341 TGATTCTGGAATATGTGATTCAGTGG 59.231 38.462 0.00 0.00 0.00 4.00
3172 4732 5.955961 TCTGGAATATGTGATTCAGTGGA 57.044 39.130 0.00 0.00 0.00 4.02
3173 4733 6.312141 TCTGGAATATGTGATTCAGTGGAA 57.688 37.500 0.00 0.00 37.45 3.53
3174 4734 6.720309 TCTGGAATATGTGATTCAGTGGAAA 58.280 36.000 0.00 0.00 36.43 3.13
3175 4735 7.174413 TCTGGAATATGTGATTCAGTGGAAAA 58.826 34.615 0.00 0.00 36.43 2.29
3176 4736 7.121168 TCTGGAATATGTGATTCAGTGGAAAAC 59.879 37.037 0.00 0.00 36.43 2.43
3177 4737 6.947733 TGGAATATGTGATTCAGTGGAAAACT 59.052 34.615 0.00 0.00 40.93 2.66
3178 4738 7.121168 TGGAATATGTGATTCAGTGGAAAACTC 59.879 37.037 0.00 0.00 36.83 3.01
3179 4739 7.121168 GGAATATGTGATTCAGTGGAAAACTCA 59.879 37.037 0.00 0.00 36.83 3.41
3180 4740 8.585471 AATATGTGATTCAGTGGAAAACTCAT 57.415 30.769 0.00 0.00 36.83 2.90
3181 4741 9.685276 AATATGTGATTCAGTGGAAAACTCATA 57.315 29.630 0.00 0.00 36.83 2.15
3182 4742 9.857656 ATATGTGATTCAGTGGAAAACTCATAT 57.142 29.630 0.00 0.00 36.83 1.78
3183 4743 7.381766 TGTGATTCAGTGGAAAACTCATATG 57.618 36.000 0.00 0.00 36.83 1.78
3184 4744 6.127925 TGTGATTCAGTGGAAAACTCATATGC 60.128 38.462 0.00 0.00 36.83 3.14
3185 4745 5.945191 TGATTCAGTGGAAAACTCATATGCA 59.055 36.000 0.00 0.00 36.83 3.96
3186 4746 5.627499 TTCAGTGGAAAACTCATATGCAC 57.373 39.130 0.00 0.00 36.83 4.57
3187 4747 3.684305 TCAGTGGAAAACTCATATGCACG 59.316 43.478 0.00 0.00 39.94 5.34
3188 4748 3.436704 CAGTGGAAAACTCATATGCACGT 59.563 43.478 0.00 0.00 39.94 4.49
3189 4749 3.436704 AGTGGAAAACTCATATGCACGTG 59.563 43.478 12.28 12.28 39.94 4.49
3190 4750 3.188460 GTGGAAAACTCATATGCACGTGT 59.812 43.478 18.38 0.00 0.00 4.49
3191 4751 3.188254 TGGAAAACTCATATGCACGTGTG 59.812 43.478 18.38 7.51 0.00 3.82
3192 4752 3.426159 GGAAAACTCATATGCACGTGTGG 60.426 47.826 18.38 4.41 0.00 4.17
3193 4753 2.760634 AACTCATATGCACGTGTGGA 57.239 45.000 18.38 6.96 34.81 4.02
3194 4754 2.760634 ACTCATATGCACGTGTGGAA 57.239 45.000 18.38 0.95 33.77 3.53
3195 4755 3.266510 ACTCATATGCACGTGTGGAAT 57.733 42.857 18.38 8.68 33.77 3.01
3196 4756 2.938451 ACTCATATGCACGTGTGGAATG 59.062 45.455 18.38 15.00 33.77 2.67
3197 4757 3.197265 CTCATATGCACGTGTGGAATGA 58.803 45.455 18.38 17.96 33.77 2.57
3198 4758 3.807553 TCATATGCACGTGTGGAATGAT 58.192 40.909 18.38 0.00 33.77 2.45
3199 4759 4.954875 TCATATGCACGTGTGGAATGATA 58.045 39.130 18.38 3.33 33.77 2.15
3200 4760 5.363939 TCATATGCACGTGTGGAATGATAA 58.636 37.500 18.38 0.00 33.77 1.75
3201 4761 5.819901 TCATATGCACGTGTGGAATGATAAA 59.180 36.000 18.38 0.00 33.77 1.40
3202 4762 6.486320 TCATATGCACGTGTGGAATGATAAAT 59.514 34.615 18.38 0.00 33.77 1.40
3203 4763 5.581126 ATGCACGTGTGGAATGATAAATT 57.419 34.783 18.38 0.00 33.77 1.82
3204 4764 6.691754 ATGCACGTGTGGAATGATAAATTA 57.308 33.333 18.38 0.00 33.77 1.40
3205 4765 6.691754 TGCACGTGTGGAATGATAAATTAT 57.308 33.333 18.38 0.00 0.00 1.28
3206 4766 6.724263 TGCACGTGTGGAATGATAAATTATC 58.276 36.000 18.38 6.07 35.74 1.75
3207 4767 5.845953 GCACGTGTGGAATGATAAATTATCG 59.154 40.000 18.38 0.00 38.02 2.92
3208 4768 6.362686 CACGTGTGGAATGATAAATTATCGG 58.637 40.000 7.58 0.00 38.02 4.18
3209 4769 5.468746 ACGTGTGGAATGATAAATTATCGGG 59.531 40.000 8.30 0.00 38.02 5.14
3210 4770 5.106712 CGTGTGGAATGATAAATTATCGGGG 60.107 44.000 8.30 0.00 38.02 5.73
3211 4771 6.001460 GTGTGGAATGATAAATTATCGGGGA 58.999 40.000 8.30 0.00 38.02 4.81
3212 4772 6.659242 GTGTGGAATGATAAATTATCGGGGAT 59.341 38.462 8.30 0.00 38.02 3.85
3213 4773 7.827236 GTGTGGAATGATAAATTATCGGGGATA 59.173 37.037 8.30 0.00 38.02 2.59
3214 4774 8.556589 TGTGGAATGATAAATTATCGGGGATAT 58.443 33.333 8.30 0.00 38.02 1.63
3217 4777 9.503399 GGAATGATAAATTATCGGGGATATACC 57.497 37.037 8.30 0.00 38.02 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.238320 CCAAATTCGAGCAAATTCACCAAAAA 60.238 34.615 0.00 0.00 0.00 1.94
1 2 5.236047 CCAAATTCGAGCAAATTCACCAAAA 59.764 36.000 0.00 0.00 0.00 2.44
9 10 3.666902 CGACGACCAAATTCGAGCAAATT 60.667 43.478 0.00 0.00 41.78 1.82
12 13 0.787787 CGACGACCAAATTCGAGCAA 59.212 50.000 0.00 0.00 41.78 3.91
19 20 2.144482 AGACGAACGACGACCAAATT 57.856 45.000 0.00 0.00 45.77 1.82
22 23 3.753774 GTAGACGAACGACGACCAA 57.246 52.632 0.00 0.00 45.77 3.67
44 45 2.519013 GATCCAACCTGAAGCCAAACT 58.481 47.619 0.00 0.00 0.00 2.66
86 87 1.070105 AGAACAACAACCGCCGCTA 59.930 52.632 0.00 0.00 0.00 4.26
106 107 1.149174 CCCCATAGAACCAGCGCAT 59.851 57.895 11.47 0.00 0.00 4.73
178 179 1.305297 TCATCACCACTCCCTCGCT 60.305 57.895 0.00 0.00 0.00 4.93
188 189 1.374125 CGAACGCCTGTCATCACCA 60.374 57.895 0.00 0.00 0.00 4.17
191 192 2.434185 GCCGAACGCCTGTCATCA 60.434 61.111 0.00 0.00 0.00 3.07
206 207 1.129437 CTGCAAGAACTAAAGCGAGCC 59.871 52.381 0.00 0.00 34.07 4.70
219 221 0.251653 ACCTAGGGACGACTGCAAGA 60.252 55.000 14.81 0.00 37.43 3.02
224 226 2.060050 AGATCACCTAGGGACGACTG 57.940 55.000 14.81 0.59 0.00 3.51
232 234 6.434652 ACGTCTAAATCCATAGATCACCTAGG 59.565 42.308 7.41 7.41 34.59 3.02
284 286 8.200024 ACTAACTGATCTATTCATGCCAGTAT 57.800 34.615 0.00 0.00 34.22 2.12
427 452 3.316029 TCGCTTCGTCCGGATTTATTAGA 59.684 43.478 7.81 0.00 0.00 2.10
444 469 6.696148 GCTGTTACATACAATAGTACTCGCTT 59.304 38.462 0.00 0.00 36.02 4.68
447 472 7.194278 AGTGCTGTTACATACAATAGTACTCG 58.806 38.462 0.00 0.00 37.83 4.18
566 623 7.215719 TCTGAATCTTCACGTATATACCCAG 57.784 40.000 7.30 0.00 32.90 4.45
808 880 1.715585 CATGTGGATGTCGTTCGGC 59.284 57.895 0.00 0.00 0.00 5.54
868 940 2.768253 ACAAGTGATCAAGCCGATGA 57.232 45.000 0.00 0.00 33.17 2.92
878 950 4.501198 GCTAAGAGAAGCGTACAAGTGATC 59.499 45.833 0.00 0.00 31.76 2.92
954 1036 4.199432 ACGCAAGAGTGAAGATGAGATT 57.801 40.909 0.00 0.00 43.62 2.40
958 1040 2.224079 GCAAACGCAAGAGTGAAGATGA 59.776 45.455 0.00 0.00 43.62 2.92
978 1060 0.726256 GCAGCAGCTAGAGACAAAGC 59.274 55.000 0.00 0.00 39.08 3.51
1158 1242 3.884774 TTCCACGCCTTGGCCAGT 61.885 61.111 5.11 0.00 46.47 4.00
1204 1288 1.147824 CCTCGGGAATGAGCAGCAT 59.852 57.895 0.00 0.00 39.43 3.79
1213 1297 0.326238 TAGGTCTTGCCCTCGGGAAT 60.326 55.000 6.08 0.00 38.26 3.01
1521 1605 3.141398 CTGGCTGTTTACAAGCTTCAGA 58.859 45.455 14.47 0.00 0.00 3.27
1630 1717 0.465705 CTGCGGGTGATGTGGATACT 59.534 55.000 0.00 0.00 37.61 2.12
1632 1719 1.146041 GCTGCGGGTGATGTGGATA 59.854 57.895 0.00 0.00 0.00 2.59
1716 1810 2.922335 GCTGACAAAAAGATTGCGGGTC 60.922 50.000 0.00 0.00 0.00 4.46
1721 1815 5.063817 ACAACTTTGCTGACAAAAAGATTGC 59.936 36.000 14.27 0.00 44.90 3.56
1794 1888 0.464013 CGGAGACCTCGGCTCTAGAA 60.464 60.000 0.00 0.00 32.98 2.10
1986 2081 1.550130 CCGCAGACCCCCAACTCTTA 61.550 60.000 0.00 0.00 0.00 2.10
1993 2088 2.363795 CTCTACCGCAGACCCCCA 60.364 66.667 0.00 0.00 0.00 4.96
1998 2096 1.139947 GCTGACCTCTACCGCAGAC 59.860 63.158 0.00 0.00 0.00 3.51
2127 2225 1.216178 CTTGCCGCCCTCCATTTTG 59.784 57.895 0.00 0.00 0.00 2.44
2340 2444 5.331876 ACATAGGAGAGAGTAGTTTGCAC 57.668 43.478 0.00 0.00 0.00 4.57
2523 2639 1.068127 ACGTTAGAACCGCAACTGTCT 59.932 47.619 0.00 0.00 0.00 3.41
2529 2645 0.863144 GCTTGACGTTAGAACCGCAA 59.137 50.000 0.00 0.00 0.00 4.85
2533 2649 5.517054 CAGAATCTAGCTTGACGTTAGAACC 59.483 44.000 0.00 0.00 38.66 3.62
2534 2650 6.323266 TCAGAATCTAGCTTGACGTTAGAAC 58.677 40.000 0.00 0.00 38.66 3.01
2541 2657 4.545610 GGAGATCAGAATCTAGCTTGACG 58.454 47.826 0.00 0.00 42.46 4.35
2562 2678 6.099269 TGAGTATGGGCTAAGTAAGTTTAGGG 59.901 42.308 0.00 0.00 32.47 3.53
2564 2680 7.783042 ACTGAGTATGGGCTAAGTAAGTTTAG 58.217 38.462 0.00 0.00 28.61 1.85
2566 2682 6.622427 ACTGAGTATGGGCTAAGTAAGTTT 57.378 37.500 0.00 0.00 28.61 2.66
2568 2684 6.192773 TGTACTGAGTATGGGCTAAGTAAGT 58.807 40.000 0.00 0.00 34.99 2.24
2569 2685 6.710597 TGTACTGAGTATGGGCTAAGTAAG 57.289 41.667 0.00 0.00 34.99 2.34
2570 2686 6.666546 ACTTGTACTGAGTATGGGCTAAGTAA 59.333 38.462 0.00 0.00 34.99 2.24
2572 2688 5.024118 ACTTGTACTGAGTATGGGCTAAGT 58.976 41.667 0.00 0.00 34.66 2.24
2575 2691 3.958798 GGACTTGTACTGAGTATGGGCTA 59.041 47.826 0.00 0.00 0.00 3.93
2577 2693 2.766828 AGGACTTGTACTGAGTATGGGC 59.233 50.000 0.00 0.00 0.00 5.36
2578 2694 4.038162 GCTAGGACTTGTACTGAGTATGGG 59.962 50.000 0.00 0.00 0.00 4.00
2579 2695 4.645136 TGCTAGGACTTGTACTGAGTATGG 59.355 45.833 0.00 0.00 0.00 2.74
2580 2696 5.450688 GGTGCTAGGACTTGTACTGAGTATG 60.451 48.000 14.52 0.00 0.00 2.39
2581 2697 4.645588 GGTGCTAGGACTTGTACTGAGTAT 59.354 45.833 14.52 0.00 0.00 2.12
2582 2698 4.015084 GGTGCTAGGACTTGTACTGAGTA 58.985 47.826 14.52 0.00 0.00 2.59
2583 2699 2.826725 GGTGCTAGGACTTGTACTGAGT 59.173 50.000 14.52 2.68 0.00 3.41
2584 2700 2.826128 TGGTGCTAGGACTTGTACTGAG 59.174 50.000 14.52 0.00 0.00 3.35
2585 2701 2.561419 GTGGTGCTAGGACTTGTACTGA 59.439 50.000 14.52 0.00 0.00 3.41
2587 2703 2.605257 TGTGGTGCTAGGACTTGTACT 58.395 47.619 14.52 0.00 0.00 2.73
2623 4178 2.026262 GGCCAACTTGGTCCATCTCTTA 60.026 50.000 9.63 0.00 40.46 2.10
2625 4180 0.329596 GGCCAACTTGGTCCATCTCT 59.670 55.000 9.63 0.00 40.46 3.10
2656 4211 6.092122 CGAGCTTGTCACAATTGTAGGAATTA 59.908 38.462 11.53 0.00 0.00 1.40
2661 4216 3.325870 TCGAGCTTGTCACAATTGTAGG 58.674 45.455 11.53 0.00 0.00 3.18
2675 4230 3.599730 TGTGATGAAGTGATCGAGCTT 57.400 42.857 0.90 0.48 0.00 3.74
2686 4241 3.196039 TGATGGGGCAATTTGTGATGAAG 59.804 43.478 0.00 0.00 0.00 3.02
2721 4277 6.931840 GTCCTTTGTCTCTAACTTGTCTGAAT 59.068 38.462 0.00 0.00 0.00 2.57
2735 4291 4.876107 TGTCACTTTCTTGTCCTTTGTCTC 59.124 41.667 0.00 0.00 0.00 3.36
2737 4293 5.560966 TTGTCACTTTCTTGTCCTTTGTC 57.439 39.130 0.00 0.00 0.00 3.18
2739 4295 4.354587 GCTTGTCACTTTCTTGTCCTTTG 58.645 43.478 0.00 0.00 0.00 2.77
2740 4296 3.381590 GGCTTGTCACTTTCTTGTCCTTT 59.618 43.478 0.00 0.00 0.00 3.11
2792 4348 1.745489 CGACAAGCCCAACCTAGCC 60.745 63.158 0.00 0.00 0.00 3.93
2809 4365 4.025061 CCAGTGTAATCTACTCGTACCTCG 60.025 50.000 0.00 0.00 41.41 4.63
2817 4373 8.662781 TTGATTTATGCCAGTGTAATCTACTC 57.337 34.615 0.00 0.00 0.00 2.59
2847 4403 3.394674 TTCTTGGTGCACGTGATAAGA 57.605 42.857 22.23 17.86 0.00 2.10
2862 4418 8.577939 CGTGATTTATTACTGCAACAATTCTTG 58.422 33.333 0.00 0.00 0.00 3.02
2864 4420 8.039603 TCGTGATTTATTACTGCAACAATTCT 57.960 30.769 0.00 0.00 0.00 2.40
2910 4466 2.601763 CGACGTTACTTCTGTTATGGGC 59.398 50.000 0.00 0.00 0.00 5.36
2918 4474 2.776765 CGCTACATCGACGTTACTTCTG 59.223 50.000 0.00 0.00 0.00 3.02
2923 4479 1.474017 ATGCGCTACATCGACGTTAC 58.526 50.000 9.73 0.00 31.52 2.50
2927 4483 1.145759 ACCAATGCGCTACATCGACG 61.146 55.000 9.73 0.00 38.34 5.12
2929 4485 1.428370 GCACCAATGCGCTACATCGA 61.428 55.000 9.73 0.00 43.33 3.59
2948 4504 5.276773 GGAGAAGATAGTACGACTACACGTG 60.277 48.000 15.48 15.48 46.02 4.49
2959 4519 4.857509 AATGCGGAGGAGAAGATAGTAC 57.142 45.455 0.00 0.00 0.00 2.73
2964 4524 3.008485 GGGAATAATGCGGAGGAGAAGAT 59.992 47.826 0.00 0.00 0.00 2.40
2966 4526 2.370189 AGGGAATAATGCGGAGGAGAAG 59.630 50.000 0.00 0.00 0.00 2.85
2969 4529 1.337260 CGAGGGAATAATGCGGAGGAG 60.337 57.143 0.00 0.00 0.00 3.69
2971 4531 0.679505 TCGAGGGAATAATGCGGAGG 59.320 55.000 0.00 0.00 0.00 4.30
2975 4535 0.318699 TCGCTCGAGGGAATAATGCG 60.319 55.000 27.88 15.83 42.70 4.73
2980 4540 1.340248 GAATGGTCGCTCGAGGGAATA 59.660 52.381 30.97 22.67 38.76 1.75
2981 4541 0.105039 GAATGGTCGCTCGAGGGAAT 59.895 55.000 30.97 20.04 38.76 3.01
3000 4560 3.884091 AGGTGTTCTAGCTATGGTACTCG 59.116 47.826 0.00 0.00 34.81 4.18
3004 4564 4.259933 TGGAGGTGTTCTAGCTATGGTA 57.740 45.455 0.00 0.00 37.23 3.25
3035 4595 0.232303 GGTGTTGCTTCTCGAACGTG 59.768 55.000 0.00 0.00 0.00 4.49
3037 4597 1.136252 CATGGTGTTGCTTCTCGAACG 60.136 52.381 0.00 0.00 0.00 3.95
3056 4616 5.575157 TGCCTTTAGGTCATATTTCCAACA 58.425 37.500 0.00 0.00 37.57 3.33
3057 4617 6.524101 TTGCCTTTAGGTCATATTTCCAAC 57.476 37.500 0.00 0.00 37.57 3.77
3058 4618 8.830915 TTATTGCCTTTAGGTCATATTTCCAA 57.169 30.769 0.00 0.00 37.57 3.53
3127 4687 9.866798 CAGAATCATAGCAGTTATAGCATAGAA 57.133 33.333 0.00 0.00 0.00 2.10
3128 4688 8.473219 CCAGAATCATAGCAGTTATAGCATAGA 58.527 37.037 0.00 0.00 0.00 1.98
3129 4689 8.473219 TCCAGAATCATAGCAGTTATAGCATAG 58.527 37.037 0.00 0.00 0.00 2.23
3130 4690 8.366359 TCCAGAATCATAGCAGTTATAGCATA 57.634 34.615 0.00 0.00 0.00 3.14
3131 4691 7.250032 TCCAGAATCATAGCAGTTATAGCAT 57.750 36.000 0.00 0.00 0.00 3.79
3132 4692 6.670695 TCCAGAATCATAGCAGTTATAGCA 57.329 37.500 0.00 0.00 0.00 3.49
3133 4693 9.829507 ATATTCCAGAATCATAGCAGTTATAGC 57.170 33.333 0.00 0.00 32.50 2.97
3136 4696 9.445878 CACATATTCCAGAATCATAGCAGTTAT 57.554 33.333 0.00 0.00 32.50 1.89
3137 4697 8.650490 TCACATATTCCAGAATCATAGCAGTTA 58.350 33.333 0.00 0.00 32.50 2.24
3138 4698 7.512130 TCACATATTCCAGAATCATAGCAGTT 58.488 34.615 0.00 0.00 32.50 3.16
3139 4699 7.071069 TCACATATTCCAGAATCATAGCAGT 57.929 36.000 0.00 0.00 32.50 4.40
3140 4700 8.563123 AATCACATATTCCAGAATCATAGCAG 57.437 34.615 0.00 0.00 32.50 4.24
3141 4701 8.158789 TGAATCACATATTCCAGAATCATAGCA 58.841 33.333 0.00 0.00 32.50 3.49
3142 4702 8.557592 TGAATCACATATTCCAGAATCATAGC 57.442 34.615 0.00 0.00 32.50 2.97
3143 4703 9.722184 ACTGAATCACATATTCCAGAATCATAG 57.278 33.333 0.00 0.00 32.50 2.23
3144 4704 9.498176 CACTGAATCACATATTCCAGAATCATA 57.502 33.333 0.00 0.00 32.50 2.15
3145 4705 7.447545 CCACTGAATCACATATTCCAGAATCAT 59.552 37.037 0.00 0.00 32.50 2.45
3146 4706 6.769341 CCACTGAATCACATATTCCAGAATCA 59.231 38.462 0.00 0.00 32.50 2.57
3147 4707 6.994496 TCCACTGAATCACATATTCCAGAATC 59.006 38.462 0.00 0.00 32.50 2.52
3148 4708 6.903516 TCCACTGAATCACATATTCCAGAAT 58.096 36.000 0.00 0.00 34.93 2.40
3149 4709 6.312141 TCCACTGAATCACATATTCCAGAA 57.688 37.500 0.00 0.00 0.00 3.02
3150 4710 5.955961 TCCACTGAATCACATATTCCAGA 57.044 39.130 0.00 0.00 0.00 3.86
3151 4711 7.121759 AGTTTTCCACTGAATCACATATTCCAG 59.878 37.037 0.00 0.00 32.83 3.86
3152 4712 6.947733 AGTTTTCCACTGAATCACATATTCCA 59.052 34.615 0.00 0.00 32.83 3.53
3153 4713 7.121168 TGAGTTTTCCACTGAATCACATATTCC 59.879 37.037 0.00 0.00 35.01 3.01
3154 4714 8.044060 TGAGTTTTCCACTGAATCACATATTC 57.956 34.615 0.00 0.00 35.01 1.75
3155 4715 8.585471 ATGAGTTTTCCACTGAATCACATATT 57.415 30.769 0.00 0.00 35.01 1.28
3156 4716 9.857656 ATATGAGTTTTCCACTGAATCACATAT 57.142 29.630 0.00 0.00 35.01 1.78
3157 4717 9.112725 CATATGAGTTTTCCACTGAATCACATA 57.887 33.333 0.00 0.00 35.01 2.29
3158 4718 7.415989 GCATATGAGTTTTCCACTGAATCACAT 60.416 37.037 6.97 0.00 35.01 3.21
3159 4719 6.127925 GCATATGAGTTTTCCACTGAATCACA 60.128 38.462 6.97 0.00 35.01 3.58
3160 4720 6.127925 TGCATATGAGTTTTCCACTGAATCAC 60.128 38.462 6.97 0.00 35.01 3.06
3161 4721 5.945191 TGCATATGAGTTTTCCACTGAATCA 59.055 36.000 6.97 0.00 35.01 2.57
3162 4722 6.261118 GTGCATATGAGTTTTCCACTGAATC 58.739 40.000 6.97 0.00 35.01 2.52
3163 4723 5.163723 CGTGCATATGAGTTTTCCACTGAAT 60.164 40.000 6.97 0.00 35.01 2.57
3164 4724 4.154015 CGTGCATATGAGTTTTCCACTGAA 59.846 41.667 6.97 0.00 35.01 3.02
3165 4725 3.684305 CGTGCATATGAGTTTTCCACTGA 59.316 43.478 6.97 0.00 35.01 3.41
3166 4726 3.436704 ACGTGCATATGAGTTTTCCACTG 59.563 43.478 6.97 3.06 35.01 3.66
3167 4727 3.436704 CACGTGCATATGAGTTTTCCACT 59.563 43.478 6.97 0.00 39.07 4.00
3168 4728 3.188460 ACACGTGCATATGAGTTTTCCAC 59.812 43.478 17.22 2.20 0.00 4.02
3169 4729 3.188254 CACACGTGCATATGAGTTTTCCA 59.812 43.478 17.22 0.00 0.00 3.53
3170 4730 3.426159 CCACACGTGCATATGAGTTTTCC 60.426 47.826 17.22 0.00 0.00 3.13
3171 4731 3.435327 TCCACACGTGCATATGAGTTTTC 59.565 43.478 17.22 0.00 0.00 2.29
3172 4732 3.407698 TCCACACGTGCATATGAGTTTT 58.592 40.909 17.22 0.00 0.00 2.43
3173 4733 3.052455 TCCACACGTGCATATGAGTTT 57.948 42.857 17.22 0.00 0.00 2.66
3174 4734 2.760634 TCCACACGTGCATATGAGTT 57.239 45.000 17.22 0.00 0.00 3.01
3175 4735 2.760634 TTCCACACGTGCATATGAGT 57.239 45.000 17.22 0.00 0.00 3.41
3176 4736 3.197265 TCATTCCACACGTGCATATGAG 58.803 45.455 17.22 0.53 0.00 2.90
3177 4737 3.258971 TCATTCCACACGTGCATATGA 57.741 42.857 17.22 15.86 0.00 2.15
3178 4738 5.671742 TTATCATTCCACACGTGCATATG 57.328 39.130 17.22 13.86 0.00 1.78
3179 4739 6.882610 ATTTATCATTCCACACGTGCATAT 57.117 33.333 17.22 1.12 0.00 1.78
3180 4740 6.691754 AATTTATCATTCCACACGTGCATA 57.308 33.333 17.22 0.00 0.00 3.14
3181 4741 5.581126 AATTTATCATTCCACACGTGCAT 57.419 34.783 17.22 0.00 0.00 3.96
3182 4742 6.510960 CGATAATTTATCATTCCACACGTGCA 60.511 38.462 17.22 0.00 34.87 4.57
3183 4743 5.845953 CGATAATTTATCATTCCACACGTGC 59.154 40.000 17.22 0.00 34.87 5.34
3184 4744 6.362686 CCGATAATTTATCATTCCACACGTG 58.637 40.000 15.48 15.48 34.87 4.49
3185 4745 5.468746 CCCGATAATTTATCATTCCACACGT 59.531 40.000 15.00 0.00 34.87 4.49
3186 4746 5.106712 CCCCGATAATTTATCATTCCACACG 60.107 44.000 15.00 0.75 34.87 4.49
3187 4747 6.001460 TCCCCGATAATTTATCATTCCACAC 58.999 40.000 15.00 0.00 34.87 3.82
3188 4748 6.194285 TCCCCGATAATTTATCATTCCACA 57.806 37.500 15.00 0.00 34.87 4.17
3189 4749 8.980481 ATATCCCCGATAATTTATCATTCCAC 57.020 34.615 15.00 0.00 34.87 4.02
3191 4751 9.503399 GGTATATCCCCGATAATTTATCATTCC 57.497 37.037 15.00 5.19 34.87 3.01


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

AutoCloner maintained by Alex Coulton.