Multiple sequence alignment - TraesCS7A01G523000

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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 TraesCS7A01G523000 chr7A 100.000 4909 0 0 1 4909 705691866 705686958 0.000000e+00 9066
1 TraesCS7A01G523000 chr7A 87.937 630 72 4 2287 2915 2542756 2543382 0.000000e+00 739
2 TraesCS7A01G523000 chr7A 87.346 648 76 6 2287 2932 67565436 67566079 0.000000e+00 737
3 TraesCS7A01G523000 chr7A 91.188 522 41 4 4391 4909 34789058 34788539 0.000000e+00 704
4 TraesCS7A01G523000 chr7B 90.581 4438 256 74 585 4909 705257689 705253301 0.000000e+00 5731
5 TraesCS7A01G523000 chr7B 84.932 438 56 8 19 453 705258477 705258047 7.550000e-118 435
6 TraesCS7A01G523000 chr7B 82.069 290 48 4 1 289 601911570 601911284 1.360000e-60 244
7 TraesCS7A01G523000 chr7D 94.562 3494 125 24 663 4148 613874192 613870756 0.000000e+00 5339
8 TraesCS7A01G523000 chr7D 93.135 539 27 5 4379 4907 613870381 613869843 0.000000e+00 782
9 TraesCS7A01G523000 chr7D 87.854 247 11 5 4143 4384 613870638 613870406 6.260000e-69 272
10 TraesCS7A01G523000 chr7D 83.516 273 40 3 11 282 162984953 162984685 2.930000e-62 250
11 TraesCS7A01G523000 chr3A 87.654 648 74 6 2287 2932 141553388 141554031 0.000000e+00 749
12 TraesCS7A01G523000 chr3A 87.250 651 75 7 2287 2935 708546922 708546278 0.000000e+00 736
13 TraesCS7A01G523000 chr3B 87.404 651 75 7 2287 2935 492109351 492108706 0.000000e+00 741
14 TraesCS7A01G523000 chr4A 87.250 651 77 6 2287 2935 12666817 12666171 0.000000e+00 737
15 TraesCS7A01G523000 chr4A 83.088 272 44 2 1 271 578106455 578106725 3.800000e-61 246
16 TraesCS7A01G523000 chr1A 87.250 651 77 6 2287 2935 502835091 502834445 0.000000e+00 737
17 TraesCS7A01G523000 chr1A 83.473 478 58 13 1595 2071 362620539 362620996 4.540000e-115 425
18 TraesCS7A01G523000 chr6A 84.390 615 78 10 1595 2199 36490616 36491222 5.470000e-164 588
19 TraesCS7A01G523000 chr6A 84.411 263 39 2 10 271 608656264 608656003 1.750000e-64 257
20 TraesCS7A01G523000 chr2D 83.146 623 74 16 1844 2456 429498906 429499507 1.550000e-149 540
21 TraesCS7A01G523000 chr3D 84.249 273 38 3 11 282 56362323 56362591 1.360000e-65 261
22 TraesCS7A01G523000 chr3D 83.039 283 43 3 1 282 597288642 597288364 8.160000e-63 252
23 TraesCS7A01G523000 chr3D 82.310 277 43 5 10 284 578745301 578745029 8.210000e-58 235
24 TraesCS7A01G523000 chr6D 82.270 282 46 4 1 281 407203696 407203974 1.770000e-59 241
25 TraesCS7A01G523000 chr6D 90.076 131 13 0 3259 3389 331239656 331239786 2.350000e-38 171


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 TraesCS7A01G523000 chr7A 705686958 705691866 4908 True 9066 9066 100.000000 1 4909 1 chr7A.!!$R2 4908
1 TraesCS7A01G523000 chr7A 2542756 2543382 626 False 739 739 87.937000 2287 2915 1 chr7A.!!$F1 628
2 TraesCS7A01G523000 chr7A 67565436 67566079 643 False 737 737 87.346000 2287 2932 1 chr7A.!!$F2 645
3 TraesCS7A01G523000 chr7A 34788539 34789058 519 True 704 704 91.188000 4391 4909 1 chr7A.!!$R1 518
4 TraesCS7A01G523000 chr7B 705253301 705258477 5176 True 3083 5731 87.756500 19 4909 2 chr7B.!!$R2 4890
5 TraesCS7A01G523000 chr7D 613869843 613874192 4349 True 2131 5339 91.850333 663 4907 3 chr7D.!!$R2 4244
6 TraesCS7A01G523000 chr3A 141553388 141554031 643 False 749 749 87.654000 2287 2932 1 chr3A.!!$F1 645
7 TraesCS7A01G523000 chr3A 708546278 708546922 644 True 736 736 87.250000 2287 2935 1 chr3A.!!$R1 648
8 TraesCS7A01G523000 chr3B 492108706 492109351 645 True 741 741 87.404000 2287 2935 1 chr3B.!!$R1 648
9 TraesCS7A01G523000 chr4A 12666171 12666817 646 True 737 737 87.250000 2287 2935 1 chr4A.!!$R1 648
10 TraesCS7A01G523000 chr1A 502834445 502835091 646 True 737 737 87.250000 2287 2935 1 chr1A.!!$R1 648
11 TraesCS7A01G523000 chr6A 36490616 36491222 606 False 588 588 84.390000 1595 2199 1 chr6A.!!$F1 604
12 TraesCS7A01G523000 chr2D 429498906 429499507 601 False 540 540 83.146000 1844 2456 1 chr2D.!!$F1 612

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
374 375 0.105862 ATCCCCTACCGGACGAATCA 60.106 55.000 9.46 0.0 33.77 2.57 F
798 1046 0.340208 TCTTTCCCCTCCTCCTCCTC 59.660 60.000 0.00 0.0 0.00 3.71 F
2033 2340 0.955919 GTGGAAGGCTCCCTTTGTCG 60.956 60.000 0.00 0.0 44.82 4.35 F
2681 3000 1.811965 CGTGGCAAATCACCAGATGAA 59.188 47.619 0.00 0.0 41.93 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2093 2400 0.039074 AAGCCGACGAACACTCAGAG 60.039 55.0 0.00 0.0 0.00 3.35 R
2504 2822 1.064003 TAAGCTCTGGGTTTGGCAGA 58.936 50.0 0.00 0.0 34.76 4.26 R
3449 3768 0.041090 ATTCAAACCGGGGGCTTGAT 59.959 50.0 6.32 0.0 0.00 2.57 R
3958 4282 0.248458 CACGGCTTGTTCAAAGCGTT 60.248 50.0 4.15 0.0 43.89 4.84 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
52 53 2.164422 CGATGGTTGCTCTCTAGTGTGA 59.836 50.000 0.00 0.00 0.00 3.58
63 64 5.380900 CTCTCTAGTGTGATGGTCCTATGA 58.619 45.833 0.00 0.00 0.00 2.15
66 67 1.765314 AGTGTGATGGTCCTATGAGGC 59.235 52.381 0.00 0.00 34.61 4.70
71 72 3.391296 GTGATGGTCCTATGAGGCCTTAA 59.609 47.826 6.77 0.00 34.61 1.85
77 78 4.103311 GGTCCTATGAGGCCTTAACAAGAT 59.897 45.833 6.77 0.00 34.61 2.40
83 84 4.985538 TGAGGCCTTAACAAGATGACTTT 58.014 39.130 6.77 0.00 33.70 2.66
85 86 5.221925 TGAGGCCTTAACAAGATGACTTTCT 60.222 40.000 6.77 0.00 33.70 2.52
106 107 9.450807 CTTTCTCAAATGTTTACTACAACAAGG 57.549 33.333 0.00 0.00 40.07 3.61
115 116 1.134037 ACTACAACAAGGTTTGCCCGA 60.134 47.619 0.00 0.00 38.74 5.14
118 119 0.310854 CAACAAGGTTTGCCCGACTC 59.689 55.000 0.00 0.00 38.74 3.36
131 132 3.917760 GACTCCGGCGAGGGGATG 61.918 72.222 9.30 0.00 46.06 3.51
139 140 3.063526 CGAGGGGATGGCGATGAT 58.936 61.111 0.00 0.00 0.00 2.45
143 144 3.052082 GGGATGGCGATGATGGCG 61.052 66.667 0.00 0.00 37.19 5.69
145 146 1.376424 GGATGGCGATGATGGCGAT 60.376 57.895 0.00 0.00 37.19 4.58
149 150 3.341043 GCGATGATGGCGATGCGT 61.341 61.111 0.00 0.00 0.00 5.24
153 154 0.510359 GATGATGGCGATGCGTCTTC 59.490 55.000 4.05 0.00 36.44 2.87
154 155 1.217585 ATGATGGCGATGCGTCTTCG 61.218 55.000 4.05 9.59 38.23 3.79
163 164 2.430244 GCGTCTTCGGTTCGCTCA 60.430 61.111 0.00 0.00 45.29 4.26
168 169 1.128692 GTCTTCGGTTCGCTCAAATGG 59.871 52.381 0.00 0.00 0.00 3.16
171 172 0.871722 TCGGTTCGCTCAAATGGTTG 59.128 50.000 0.00 0.00 35.95 3.77
174 175 2.159707 CGGTTCGCTCAAATGGTTGTAG 60.160 50.000 0.00 0.00 36.07 2.74
196 197 1.228769 TCGCTAGGTGGTCCACAGT 60.229 57.895 23.48 12.33 35.86 3.55
200 201 1.618888 GCTAGGTGGTCCACAGTCCTA 60.619 57.143 23.48 13.95 35.86 2.94
206 207 1.691976 TGGTCCACAGTCCTAGTTGTG 59.308 52.381 10.63 10.63 43.27 3.33
208 209 2.567615 GGTCCACAGTCCTAGTTGTGAT 59.432 50.000 16.46 0.00 45.79 3.06
213 214 5.530915 TCCACAGTCCTAGTTGTGATTTTTG 59.469 40.000 16.46 3.97 45.79 2.44
217 218 8.567948 CACAGTCCTAGTTGTGATTTTTGTTAT 58.432 33.333 11.70 0.00 45.79 1.89
223 224 9.003658 CCTAGTTGTGATTTTTGTTATCTCTGT 57.996 33.333 0.00 0.00 0.00 3.41
238 239 5.931441 ATCTCTGTTGTTCTTTGTACTGC 57.069 39.130 0.00 0.00 0.00 4.40
244 245 4.826733 TGTTGTTCTTTGTACTGCCATGAT 59.173 37.500 0.00 0.00 0.00 2.45
252 253 7.337938 TCTTTGTACTGCCATGATTGAAGATA 58.662 34.615 0.00 0.00 0.00 1.98
308 309 6.014156 TCAATTTGGACGAAATTAACCCCATT 60.014 34.615 7.71 0.00 41.50 3.16
317 318 5.624281 CGAAATTAACCCCATTGAACATGCT 60.624 40.000 0.00 0.00 0.00 3.79
329 330 1.277557 GAACATGCTCAGTCTCCACCT 59.722 52.381 0.00 0.00 0.00 4.00
330 331 1.356124 ACATGCTCAGTCTCCACCTT 58.644 50.000 0.00 0.00 0.00 3.50
345 346 6.151312 GTCTCCACCTTTTCCTTCTTTATTCC 59.849 42.308 0.00 0.00 0.00 3.01
360 361 2.775490 ATTCCCTTGGCTTTATCCCC 57.225 50.000 0.00 0.00 0.00 4.81
365 366 1.202770 CCTTGGCTTTATCCCCTACCG 60.203 57.143 0.00 0.00 0.00 4.02
370 371 1.696063 CTTTATCCCCTACCGGACGA 58.304 55.000 9.46 0.00 33.77 4.20
374 375 0.105862 ATCCCCTACCGGACGAATCA 60.106 55.000 9.46 0.00 33.77 2.57
394 395 3.580458 TCACCTCCTCTTCCTCTGAAAAG 59.420 47.826 0.00 0.00 0.00 2.27
395 396 3.580458 CACCTCCTCTTCCTCTGAAAAGA 59.420 47.826 3.12 3.12 0.00 2.52
401 402 4.402793 CCTCTTCCTCTGAAAAGACCGATA 59.597 45.833 0.00 0.00 0.00 2.92
402 403 5.451242 CCTCTTCCTCTGAAAAGACCGATAG 60.451 48.000 0.00 0.00 0.00 2.08
408 409 6.381420 TCCTCTGAAAAGACCGATAGAAATCT 59.619 38.462 0.00 0.00 39.76 2.40
411 412 8.063200 TCTGAAAAGACCGATAGAAATCTACA 57.937 34.615 0.00 0.00 39.76 2.74
426 427 6.773200 AGAAATCTACATCACCGATCTACTCA 59.227 38.462 0.00 0.00 0.00 3.41
433 434 0.393944 ACCGATCTACTCACCTCGCA 60.394 55.000 0.00 0.00 0.00 5.10
490 654 8.995027 TTTATAGAGGAAAATGTGCCATATGT 57.005 30.769 1.24 0.00 0.00 2.29
511 675 2.619177 TTGGTACATGTGGTTGAAACCG 59.381 45.455 9.11 0.00 46.47 4.44
527 691 6.592798 TGAAACCGTACAAACTTTGTAGAG 57.407 37.500 13.61 10.66 45.99 2.43
531 695 5.861727 ACCGTACAAACTTTGTAGAGGAAT 58.138 37.500 27.04 13.54 45.99 3.01
533 697 5.061808 CCGTACAAACTTTGTAGAGGAATCG 59.938 44.000 21.02 15.52 45.99 3.34
536 700 5.238583 ACAAACTTTGTAGAGGAATCGAGG 58.761 41.667 5.30 0.00 43.27 4.63
540 704 2.068834 TGTAGAGGAATCGAGGGACC 57.931 55.000 0.00 0.00 0.00 4.46
545 709 3.863086 AGAGGAATCGAGGGACCATATT 58.137 45.455 0.00 0.00 0.00 1.28
550 722 0.673985 TCGAGGGACCATATTGCTCG 59.326 55.000 8.73 8.73 30.92 5.03
552 724 0.394565 GAGGGACCATATTGCTCGCT 59.605 55.000 0.00 0.00 0.00 4.93
553 725 0.394565 AGGGACCATATTGCTCGCTC 59.605 55.000 0.00 0.00 0.00 5.03
563 735 6.936900 ACCATATTGCTCGCTCATATAAGTTT 59.063 34.615 0.00 0.00 0.00 2.66
583 782 7.363205 AGTTTGTTTCATTCAAAACCACTTG 57.637 32.000 0.00 0.00 38.16 3.16
597 796 8.700051 TCAAAACCACTTGAAAGGAATTATTCA 58.300 29.630 7.29 0.00 32.39 2.57
598 797 9.323985 CAAAACCACTTGAAAGGAATTATTCAA 57.676 29.630 7.29 11.06 41.78 2.69
599 798 8.887036 AAACCACTTGAAAGGAATTATTCAAC 57.113 30.769 7.29 0.00 39.81 3.18
600 799 6.993079 ACCACTTGAAAGGAATTATTCAACC 58.007 36.000 7.29 0.00 39.81 3.77
601 800 6.553100 ACCACTTGAAAGGAATTATTCAACCA 59.447 34.615 7.29 0.00 39.81 3.67
605 804 8.650490 ACTTGAAAGGAATTATTCAACCATTGT 58.350 29.630 7.29 4.34 39.81 2.71
641 870 8.978539 CAAACCTAAGTTTCATAAAAAGAAGGC 58.021 33.333 0.00 0.00 44.47 4.35
644 873 8.700973 ACCTAAGTTTCATAAAAAGAAGGCAAA 58.299 29.630 0.00 0.00 0.00 3.68
645 874 9.541143 CCTAAGTTTCATAAAAAGAAGGCAAAA 57.459 29.630 0.00 0.00 0.00 2.44
796 1044 0.692756 CCTCTTTCCCCTCCTCCTCC 60.693 65.000 0.00 0.00 0.00 4.30
797 1045 0.341609 CTCTTTCCCCTCCTCCTCCT 59.658 60.000 0.00 0.00 0.00 3.69
798 1046 0.340208 TCTTTCCCCTCCTCCTCCTC 59.660 60.000 0.00 0.00 0.00 3.71
799 1047 1.001760 TTTCCCCTCCTCCTCCTCG 59.998 63.158 0.00 0.00 0.00 4.63
802 1050 2.837291 CCCTCCTCCTCCTCGCAG 60.837 72.222 0.00 0.00 0.00 5.18
803 1051 2.043450 CCTCCTCCTCCTCGCAGT 60.043 66.667 0.00 0.00 0.00 4.40
805 1053 2.438614 TCCTCCTCCTCGCAGTCG 60.439 66.667 0.00 0.00 0.00 4.18
806 1054 4.200283 CCTCCTCCTCGCAGTCGC 62.200 72.222 0.00 0.00 35.26 5.19
807 1055 3.443925 CTCCTCCTCGCAGTCGCA 61.444 66.667 0.00 0.00 38.40 5.10
808 1056 3.691744 CTCCTCCTCGCAGTCGCAC 62.692 68.421 0.00 0.00 38.40 5.34
809 1057 4.803426 CCTCCTCGCAGTCGCACC 62.803 72.222 0.00 0.00 38.40 5.01
810 1058 4.056125 CTCCTCGCAGTCGCACCA 62.056 66.667 0.00 0.00 38.40 4.17
811 1059 3.362399 CTCCTCGCAGTCGCACCAT 62.362 63.158 0.00 0.00 38.40 3.55
812 1060 2.887568 CCTCGCAGTCGCACCATC 60.888 66.667 0.00 0.00 38.40 3.51
813 1061 2.887568 CTCGCAGTCGCACCATCC 60.888 66.667 0.00 0.00 38.40 3.51
814 1062 3.647649 CTCGCAGTCGCACCATCCA 62.648 63.158 0.00 0.00 38.40 3.41
815 1063 3.490759 CGCAGTCGCACCATCCAC 61.491 66.667 0.00 0.00 38.40 4.02
863 1111 2.506472 GCCTCCTCGAATCCACCC 59.494 66.667 0.00 0.00 0.00 4.61
995 1255 1.364536 GCGGGGAAAAGCGGAAAAA 59.635 52.632 0.00 0.00 0.00 1.94
1001 1261 2.029020 GGGAAAAGCGGAAAAAGCAGAT 60.029 45.455 0.00 0.00 37.01 2.90
1044 1308 2.964911 CGTCTCTTCTGCGGATTCC 58.035 57.895 0.00 0.00 0.00 3.01
1051 1315 1.863454 CTTCTGCGGATTCCAGATTCG 59.137 52.381 3.09 0.00 38.95 3.34
1210 1479 1.525995 CTTGCCCGTTGACCTGTGT 60.526 57.895 0.00 0.00 0.00 3.72
1217 1486 2.028476 CCCGTTGACCTGTGTGAGATTA 60.028 50.000 0.00 0.00 0.00 1.75
1329 1608 7.227910 TCCCAGTTTTACAGTTGAGTGTAAATC 59.772 37.037 19.35 18.13 46.93 2.17
1333 1612 8.827677 AGTTTTACAGTTGAGTGTAAATCTCAC 58.172 33.333 19.35 15.41 46.93 3.51
1336 1615 5.918608 ACAGTTGAGTGTAAATCTCACAGT 58.081 37.500 0.00 0.00 40.90 3.55
1384 1663 1.968540 GAGCTGCGCCCAAGAAACT 60.969 57.895 4.18 0.00 0.00 2.66
1399 1679 7.533426 CCCAAGAAACTGAGATTATTGTTGAG 58.467 38.462 8.61 0.00 30.20 3.02
1449 1729 5.769662 ACAAGATTTTGGTGATTCTGCAGTA 59.230 36.000 14.67 4.08 38.66 2.74
1486 1773 4.648762 TGTTGTTGAGAAACCAATGGTGAT 59.351 37.500 5.34 0.00 35.34 3.06
1532 1819 4.742201 CAGCCCACCGACACCGAG 62.742 72.222 0.00 0.00 38.22 4.63
1568 1855 3.020237 GCTGGAGAAGGACCCCGAC 62.020 68.421 0.00 0.00 0.00 4.79
1652 1939 2.088104 ATCTGAAGCACCGGATAGGA 57.912 50.000 9.46 0.00 45.00 2.94
1740 2027 1.511305 GAGGTCGCCGTGAAGATGA 59.489 57.895 0.00 0.00 0.00 2.92
1847 2134 1.839354 TGCTTCCTACATGGCATCTCA 59.161 47.619 0.00 0.00 35.26 3.27
1881 2170 3.571590 AGGGTATGTTTTTGTCTGGCAA 58.428 40.909 0.00 0.00 34.87 4.52
2033 2340 0.955919 GTGGAAGGCTCCCTTTGTCG 60.956 60.000 0.00 0.00 44.82 4.35
2049 2356 6.152154 CCCTTTGTCGGATGTTTTAAGGTATT 59.848 38.462 0.00 0.00 31.03 1.89
2127 2434 6.798482 TCGTCGGCTTATCTTAAGAATACAA 58.202 36.000 9.71 1.18 0.00 2.41
2248 2565 9.596308 TGGCAGATATAGTTTATGACCTTAGTA 57.404 33.333 0.00 0.00 0.00 1.82
2305 2623 8.424133 TGCTTATGATGCTCTGTTTAGAAGATA 58.576 33.333 0.00 0.00 31.21 1.98
2360 2678 9.851686 TGAATTCTTATAACTTGCAGATATGGT 57.148 29.630 7.05 0.00 0.00 3.55
2504 2822 3.297134 TCCTTGCTGTTTGGACTTTCT 57.703 42.857 0.00 0.00 0.00 2.52
2681 3000 1.811965 CGTGGCAAATCACCAGATGAA 59.188 47.619 0.00 0.00 41.93 2.57
2813 3132 4.070716 GCCCCTTGATGTCAGATATCTTG 58.929 47.826 1.33 0.00 0.00 3.02
2894 3213 5.102313 GCAGTATTTGGTTAAACTGCCATC 58.898 41.667 14.17 0.00 38.75 3.51
2895 3214 5.336372 GCAGTATTTGGTTAAACTGCCATCA 60.336 40.000 14.17 0.00 38.75 3.07
3044 3363 5.437060 AGTCACACTAATTGGTCACACTTT 58.563 37.500 0.00 0.00 0.00 2.66
3122 3441 7.505585 TCTTGTACTCCTGAAACAATGGAAATT 59.494 33.333 0.00 0.00 33.01 1.82
3152 3471 2.267174 CCATAGTTGGCATGGAGGAG 57.733 55.000 0.00 0.00 44.95 3.69
3353 3672 2.152830 GGCACCGTGTATGTTGGTTTA 58.847 47.619 0.00 0.00 32.48 2.01
3449 3768 2.698274 TGTGAGGCTGAGAACTAACACA 59.302 45.455 0.00 0.00 35.24 3.72
3632 3951 0.038251 TGAGCTTCGACAAGTGCGAT 60.038 50.000 0.00 0.00 37.64 4.58
3676 3995 0.905357 CTCGAGGACTTCCATTGGGT 59.095 55.000 3.91 0.00 38.89 4.51
3740 4059 2.892784 AGCTAGGTATCTTTGTCGGC 57.107 50.000 0.00 0.00 0.00 5.54
3794 4113 3.532155 AGCGTCTCCGATCAGGGC 61.532 66.667 0.00 0.00 41.52 5.19
3821 4140 1.805345 CCTCAGAAAGTTCAGCAGCAG 59.195 52.381 0.00 0.00 0.00 4.24
3932 4251 1.209019 TGCAAAAGCAATGTTGGGTGT 59.791 42.857 0.00 0.00 0.00 4.16
3958 4282 5.105595 CCCTGAAGTATATCTCGATCATGCA 60.106 44.000 0.00 0.00 0.00 3.96
3973 4297 1.190763 CATGCAACGCTTTGAACAAGC 59.809 47.619 7.19 0.00 39.77 4.01
4030 4354 6.521162 ACCTTGCCAAAACCTTGTAAATTAG 58.479 36.000 0.00 0.00 0.00 1.73
4031 4355 6.099125 ACCTTGCCAAAACCTTGTAAATTAGT 59.901 34.615 0.00 0.00 0.00 2.24
4032 4356 7.288158 ACCTTGCCAAAACCTTGTAAATTAGTA 59.712 33.333 0.00 0.00 0.00 1.82
4042 4366 8.548880 ACCTTGTAAATTAGTATCTGCCTCTA 57.451 34.615 0.00 0.00 0.00 2.43
4134 4466 3.262660 TGAGGTTCTCTCTTCATGCATGT 59.737 43.478 25.43 2.03 42.86 3.21
4153 4608 6.164176 GCATGTCTAGTTGGTAGTTTACAGT 58.836 40.000 0.00 0.00 0.00 3.55
4167 4630 8.219105 GGTAGTTTACAGTTACTTCATGTTTCG 58.781 37.037 0.00 0.00 0.00 3.46
4168 4631 7.781548 AGTTTACAGTTACTTCATGTTTCGT 57.218 32.000 0.00 0.00 0.00 3.85
4169 4632 8.876275 AGTTTACAGTTACTTCATGTTTCGTA 57.124 30.769 0.00 0.00 0.00 3.43
4170 4633 9.316730 AGTTTACAGTTACTTCATGTTTCGTAA 57.683 29.630 0.00 0.00 0.00 3.18
4227 4696 5.874810 TCTATCTGTGCCATAAGAAACACAC 59.125 40.000 0.00 0.00 38.07 3.82
4230 4699 4.826733 TCTGTGCCATAAGAAACACACAAT 59.173 37.500 0.00 0.00 38.07 2.71
4239 4708 5.767816 AAGAAACACACAATCCTGGTAAC 57.232 39.130 0.00 0.00 0.00 2.50
4298 4785 9.726438 AACCTTTCAGAATACAGGTATATATGC 57.274 33.333 5.57 0.00 38.80 3.14
4326 4815 9.744468 GAAAGTTGTATACACCAAAAACTGAAT 57.256 29.630 4.68 0.00 0.00 2.57
4407 4926 1.065126 ACATAGCAACCAGGAGCCTTC 60.065 52.381 0.00 0.00 0.00 3.46
4419 4940 0.539051 GAGCCTTCCTCAGCTGCTTA 59.461 55.000 9.47 0.00 40.11 3.09
4557 5081 1.191489 TGCCTGATCCACCAGACGAA 61.191 55.000 0.00 0.00 36.29 3.85
4563 5087 3.636231 CCACCAGACGAAGGCCCA 61.636 66.667 0.00 0.00 0.00 5.36
4694 5218 3.304026 TCGATGTAAATGGCGTCGTTAAC 59.696 43.478 0.00 0.00 43.45 2.01
4724 5251 2.034926 GCGCAAGTTTTGTTTACAGCAC 60.035 45.455 0.30 0.00 41.68 4.40
4728 5255 4.738252 GCAAGTTTTGTTTACAGCACCTAC 59.262 41.667 0.00 0.00 0.00 3.18
4806 5338 7.888021 TGAACATGTAGAAAACCAACCATATCT 59.112 33.333 0.00 0.00 0.00 1.98
4818 5350 5.908831 ACCAACCATATCTTGATACCCTGTA 59.091 40.000 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.012508 TGAAGAAAGGTGTAGATCCAAAGGAT 60.013 38.462 0.00 0.00 46.28 3.24
2 3 5.309543 TGAAGAAAGGTGTAGATCCAAAGGA 59.690 40.000 0.00 0.00 35.55 3.36
3 4 5.560724 TGAAGAAAGGTGTAGATCCAAAGG 58.439 41.667 0.00 0.00 0.00 3.11
4 5 6.036517 CGATGAAGAAAGGTGTAGATCCAAAG 59.963 42.308 0.00 0.00 0.00 2.77
5 6 5.874810 CGATGAAGAAAGGTGTAGATCCAAA 59.125 40.000 0.00 0.00 0.00 3.28
6 7 5.419542 CGATGAAGAAAGGTGTAGATCCAA 58.580 41.667 0.00 0.00 0.00 3.53
7 8 4.141937 CCGATGAAGAAAGGTGTAGATCCA 60.142 45.833 0.00 0.00 0.00 3.41
8 9 4.372656 CCGATGAAGAAAGGTGTAGATCC 58.627 47.826 0.00 0.00 0.00 3.36
9 10 3.804873 GCCGATGAAGAAAGGTGTAGATC 59.195 47.826 0.00 0.00 0.00 2.75
10 11 3.738281 CGCCGATGAAGAAAGGTGTAGAT 60.738 47.826 0.00 0.00 0.00 1.98
11 12 2.416836 CGCCGATGAAGAAAGGTGTAGA 60.417 50.000 0.00 0.00 0.00 2.59
12 13 1.927174 CGCCGATGAAGAAAGGTGTAG 59.073 52.381 0.00 0.00 0.00 2.74
13 14 1.546923 TCGCCGATGAAGAAAGGTGTA 59.453 47.619 0.00 0.00 35.86 2.90
14 15 0.320374 TCGCCGATGAAGAAAGGTGT 59.680 50.000 0.00 0.00 35.86 4.16
15 16 1.328680 CATCGCCGATGAAGAAAGGTG 59.671 52.381 22.11 0.00 42.09 4.00
16 17 1.656652 CATCGCCGATGAAGAAAGGT 58.343 50.000 22.11 0.00 42.09 3.50
17 18 0.940126 CCATCGCCGATGAAGAAAGG 59.060 55.000 27.59 5.81 42.09 3.11
63 64 5.221925 TGAGAAAGTCATCTTGTTAAGGCCT 60.222 40.000 0.00 0.00 33.79 5.19
66 67 8.571336 ACATTTGAGAAAGTCATCTTGTTAAGG 58.429 33.333 0.00 0.00 34.17 2.69
71 72 9.125026 AGTAAACATTTGAGAAAGTCATCTTGT 57.875 29.630 0.00 0.00 34.17 3.16
77 78 9.168451 TGTTGTAGTAAACATTTGAGAAAGTCA 57.832 29.630 0.00 0.00 38.10 3.41
83 84 8.514330 AACCTTGTTGTAGTAAACATTTGAGA 57.486 30.769 0.00 0.00 39.68 3.27
85 86 7.489757 GCAAACCTTGTTGTAGTAAACATTTGA 59.510 33.333 14.24 0.00 38.56 2.69
123 124 1.002868 CCATCATCGCCATCCCCTC 60.003 63.158 0.00 0.00 0.00 4.30
124 125 3.164479 CCATCATCGCCATCCCCT 58.836 61.111 0.00 0.00 0.00 4.79
125 126 2.674380 GCCATCATCGCCATCCCC 60.674 66.667 0.00 0.00 0.00 4.81
130 131 2.974148 GCATCGCCATCATCGCCA 60.974 61.111 0.00 0.00 0.00 5.69
131 132 4.081030 CGCATCGCCATCATCGCC 62.081 66.667 0.00 0.00 0.00 5.54
139 140 3.583276 AACCGAAGACGCATCGCCA 62.583 57.895 0.11 0.00 38.93 5.69
149 150 1.270625 ACCATTTGAGCGAACCGAAGA 60.271 47.619 0.00 0.00 0.00 2.87
153 154 0.591170 ACAACCATTTGAGCGAACCG 59.409 50.000 0.00 0.00 36.48 4.44
154 155 2.812011 ACTACAACCATTTGAGCGAACC 59.188 45.455 0.00 0.00 36.48 3.62
163 164 2.450609 AGCGACGACTACAACCATTT 57.549 45.000 0.00 0.00 0.00 2.32
168 169 1.467035 CCACCTAGCGACGACTACAAC 60.467 57.143 0.00 0.00 0.00 3.32
171 172 0.376502 GACCACCTAGCGACGACTAC 59.623 60.000 0.00 0.00 0.00 2.73
174 175 2.338015 TGGACCACCTAGCGACGAC 61.338 63.158 0.00 0.00 37.04 4.34
196 197 9.219603 CAGAGATAACAAAAATCACAACTAGGA 57.780 33.333 0.00 0.00 0.00 2.94
200 201 8.686334 ACAACAGAGATAACAAAAATCACAACT 58.314 29.630 0.00 0.00 0.00 3.16
213 214 7.291567 GCAGTACAAAGAACAACAGAGATAAC 58.708 38.462 0.00 0.00 0.00 1.89
217 218 4.127171 GGCAGTACAAAGAACAACAGAGA 58.873 43.478 0.00 0.00 0.00 3.10
223 224 5.534278 TCAATCATGGCAGTACAAAGAACAA 59.466 36.000 0.00 0.00 0.00 2.83
281 282 5.047590 GGGGTTAATTTCGTCCAAATTGACT 60.048 40.000 12.39 0.00 44.66 3.41
282 283 5.165676 GGGGTTAATTTCGTCCAAATTGAC 58.834 41.667 0.00 6.99 44.59 3.18
283 284 4.833380 TGGGGTTAATTTCGTCCAAATTGA 59.167 37.500 0.00 0.00 43.38 2.57
284 285 5.140747 TGGGGTTAATTTCGTCCAAATTG 57.859 39.130 4.13 0.00 43.38 2.32
285 286 6.014156 TCAATGGGGTTAATTTCGTCCAAATT 60.014 34.615 0.00 0.00 45.17 1.82
286 287 5.482175 TCAATGGGGTTAATTTCGTCCAAAT 59.518 36.000 0.00 0.00 36.12 2.32
287 288 4.833380 TCAATGGGGTTAATTTCGTCCAAA 59.167 37.500 0.00 0.00 0.00 3.28
288 289 4.408276 TCAATGGGGTTAATTTCGTCCAA 58.592 39.130 0.00 0.00 0.00 3.53
289 290 4.035612 TCAATGGGGTTAATTTCGTCCA 57.964 40.909 0.00 0.00 0.00 4.02
291 292 5.379732 TGTTCAATGGGGTTAATTTCGTC 57.620 39.130 0.00 0.00 0.00 4.20
292 293 5.719173 CATGTTCAATGGGGTTAATTTCGT 58.281 37.500 0.00 0.00 0.00 3.85
293 294 4.566360 GCATGTTCAATGGGGTTAATTTCG 59.434 41.667 0.00 0.00 0.00 3.46
298 299 3.763360 CTGAGCATGTTCAATGGGGTTAA 59.237 43.478 13.57 0.00 0.00 2.01
299 300 3.245229 ACTGAGCATGTTCAATGGGGTTA 60.245 43.478 13.57 0.00 0.00 2.85
308 309 1.002430 GGTGGAGACTGAGCATGTTCA 59.998 52.381 12.02 12.02 0.00 3.18
317 318 3.318313 AGAAGGAAAAGGTGGAGACTGA 58.682 45.455 0.00 0.00 0.00 3.41
329 330 5.402630 AGCCAAGGGAATAAAGAAGGAAAA 58.597 37.500 0.00 0.00 0.00 2.29
330 331 5.010708 AGCCAAGGGAATAAAGAAGGAAA 57.989 39.130 0.00 0.00 0.00 3.13
345 346 1.202770 CGGTAGGGGATAAAGCCAAGG 60.203 57.143 0.00 0.00 0.00 3.61
360 361 0.384669 GGAGGTGATTCGTCCGGTAG 59.615 60.000 0.00 0.00 40.54 3.18
370 371 3.481559 TCAGAGGAAGAGGAGGTGATT 57.518 47.619 0.00 0.00 0.00 2.57
374 375 3.580895 GTCTTTTCAGAGGAAGAGGAGGT 59.419 47.826 0.00 0.00 36.25 3.85
394 395 5.048921 TCGGTGATGTAGATTTCTATCGGTC 60.049 44.000 0.00 0.00 35.85 4.79
395 396 4.825634 TCGGTGATGTAGATTTCTATCGGT 59.174 41.667 0.00 0.00 35.85 4.69
401 402 6.773200 TGAGTAGATCGGTGATGTAGATTTCT 59.227 38.462 0.00 0.00 0.00 2.52
402 403 6.858993 GTGAGTAGATCGGTGATGTAGATTTC 59.141 42.308 0.00 0.00 0.00 2.17
408 409 4.135306 GAGGTGAGTAGATCGGTGATGTA 58.865 47.826 0.00 0.00 0.00 2.29
411 412 2.222886 CGAGGTGAGTAGATCGGTGAT 58.777 52.381 0.00 0.00 0.00 3.06
450 451 8.698973 TCCTCTATAAAATGTGTTGGTTTTGA 57.301 30.769 0.00 0.00 0.00 2.69
451 452 9.757227 TTTCCTCTATAAAATGTGTTGGTTTTG 57.243 29.630 0.00 0.00 0.00 2.44
511 675 6.310711 CCTCGATTCCTCTACAAAGTTTGTAC 59.689 42.308 21.79 11.07 43.27 2.90
516 680 4.081586 GTCCCTCGATTCCTCTACAAAGTT 60.082 45.833 0.00 0.00 0.00 2.66
520 684 2.291996 TGGTCCCTCGATTCCTCTACAA 60.292 50.000 0.00 0.00 0.00 2.41
522 686 2.068834 TGGTCCCTCGATTCCTCTAC 57.931 55.000 0.00 0.00 0.00 2.59
527 691 2.039084 AGCAATATGGTCCCTCGATTCC 59.961 50.000 0.00 0.00 0.00 3.01
531 695 0.673985 CGAGCAATATGGTCCCTCGA 59.326 55.000 7.05 0.00 45.87 4.04
533 697 0.394565 AGCGAGCAATATGGTCCCTC 59.605 55.000 4.17 0.00 41.50 4.30
536 700 2.175878 ATGAGCGAGCAATATGGTCC 57.824 50.000 4.17 0.00 41.50 4.46
540 704 7.800767 ACAAACTTATATGAGCGAGCAATATG 58.199 34.615 11.24 3.84 0.00 1.78
545 709 5.641636 TGAAACAAACTTATATGAGCGAGCA 59.358 36.000 0.00 0.00 0.00 4.26
563 735 6.593382 CCTTTCAAGTGGTTTTGAATGAAACA 59.407 34.615 12.94 0.00 44.12 2.83
576 775 6.553100 TGGTTGAATAATTCCTTTCAAGTGGT 59.447 34.615 9.95 0.00 41.20 4.16
637 866 7.309770 TCCTTTTGGTGTATTATTTTGCCTT 57.690 32.000 0.00 0.00 41.38 4.35
638 867 6.926630 TCCTTTTGGTGTATTATTTTGCCT 57.073 33.333 0.00 0.00 41.38 4.75
639 868 7.119116 CCTTTCCTTTTGGTGTATTATTTTGCC 59.881 37.037 0.00 0.00 41.38 4.52
640 869 7.360861 GCCTTTCCTTTTGGTGTATTATTTTGC 60.361 37.037 0.00 0.00 41.38 3.68
641 870 7.659390 TGCCTTTCCTTTTGGTGTATTATTTTG 59.341 33.333 0.00 0.00 41.38 2.44
644 873 6.574269 GCTGCCTTTCCTTTTGGTGTATTATT 60.574 38.462 0.00 0.00 41.38 1.40
645 874 5.105351 GCTGCCTTTCCTTTTGGTGTATTAT 60.105 40.000 0.00 0.00 41.38 1.28
646 875 4.219725 GCTGCCTTTCCTTTTGGTGTATTA 59.780 41.667 0.00 0.00 41.38 0.98
647 876 3.006859 GCTGCCTTTCCTTTTGGTGTATT 59.993 43.478 0.00 0.00 41.38 1.89
649 878 1.960689 GCTGCCTTTCCTTTTGGTGTA 59.039 47.619 0.00 0.00 41.38 2.90
651 880 0.752054 TGCTGCCTTTCCTTTTGGTG 59.248 50.000 0.00 0.00 41.38 4.17
653 882 1.270465 CCTTGCTGCCTTTCCTTTTGG 60.270 52.381 0.00 0.00 42.21 3.28
799 1047 3.127533 GGTGGATGGTGCGACTGC 61.128 66.667 0.00 0.00 43.20 4.40
802 1050 3.561120 TTGGGGTGGATGGTGCGAC 62.561 63.158 0.00 0.00 0.00 5.19
803 1051 3.253061 TTGGGGTGGATGGTGCGA 61.253 61.111 0.00 0.00 0.00 5.10
805 1053 2.679996 GGTTGGGGTGGATGGTGC 60.680 66.667 0.00 0.00 0.00 5.01
806 1054 1.000896 GAGGTTGGGGTGGATGGTG 60.001 63.158 0.00 0.00 0.00 4.17
807 1055 2.238701 GGAGGTTGGGGTGGATGGT 61.239 63.158 0.00 0.00 0.00 3.55
808 1056 2.215451 CTGGAGGTTGGGGTGGATGG 62.215 65.000 0.00 0.00 0.00 3.51
809 1057 1.304282 CTGGAGGTTGGGGTGGATG 59.696 63.158 0.00 0.00 0.00 3.51
810 1058 1.151587 ACTGGAGGTTGGGGTGGAT 60.152 57.895 0.00 0.00 0.00 3.41
811 1059 2.153401 CACTGGAGGTTGGGGTGGA 61.153 63.158 0.00 0.00 0.00 4.02
812 1060 2.436109 CACTGGAGGTTGGGGTGG 59.564 66.667 0.00 0.00 0.00 4.61
813 1061 2.282462 GCACTGGAGGTTGGGGTG 60.282 66.667 0.00 0.00 0.00 4.61
814 1062 2.776526 TGCACTGGAGGTTGGGGT 60.777 61.111 0.00 0.00 0.00 4.95
815 1063 2.034687 CTGCACTGGAGGTTGGGG 59.965 66.667 0.00 0.00 0.00 4.96
896 1144 7.979444 ACTGAAAAAGAAACCTATGAATCGA 57.021 32.000 0.00 0.00 0.00 3.59
929 1184 1.271102 GCGAATTGGGTTTGCTTGGTA 59.729 47.619 0.00 0.00 42.84 3.25
995 1255 1.476085 CTGTCGTCTTCTCCATCTGCT 59.524 52.381 0.00 0.00 0.00 4.24
1001 1261 1.248486 CTCACCTGTCGTCTTCTCCA 58.752 55.000 0.00 0.00 0.00 3.86
1037 1301 2.598632 GCGGCGAATCTGGAATCCG 61.599 63.158 12.98 0.00 39.81 4.18
1044 1308 2.102394 CTGCATCAGCGGCGAATCTG 62.102 60.000 12.98 9.10 46.23 2.90
1051 1315 1.589716 AAAGAACCTGCATCAGCGGC 61.590 55.000 0.00 0.00 46.03 6.53
1159 1428 2.679837 CCTGGATCACGGACAAAATCAG 59.320 50.000 0.00 0.00 0.00 2.90
1192 1461 1.525995 ACACAGGTCAACGGGCAAG 60.526 57.895 0.00 0.00 0.00 4.01
1193 1462 1.821759 CACACAGGTCAACGGGCAA 60.822 57.895 0.00 0.00 0.00 4.52
1194 1463 2.203139 CACACAGGTCAACGGGCA 60.203 61.111 0.00 0.00 0.00 5.36
1195 1464 1.961277 CTCACACAGGTCAACGGGC 60.961 63.158 0.00 0.00 0.00 6.13
1196 1465 0.321671 ATCTCACACAGGTCAACGGG 59.678 55.000 0.00 0.00 0.00 5.28
1197 1466 2.169832 AATCTCACACAGGTCAACGG 57.830 50.000 0.00 0.00 0.00 4.44
1198 1467 3.914312 ACTAATCTCACACAGGTCAACG 58.086 45.455 0.00 0.00 0.00 4.10
1199 1468 5.297547 TCAACTAATCTCACACAGGTCAAC 58.702 41.667 0.00 0.00 0.00 3.18
1200 1469 5.070446 ACTCAACTAATCTCACACAGGTCAA 59.930 40.000 0.00 0.00 0.00 3.18
1201 1470 4.588951 ACTCAACTAATCTCACACAGGTCA 59.411 41.667 0.00 0.00 0.00 4.02
1210 1479 7.093902 ACCGTAAGAATCACTCAACTAATCTCA 60.094 37.037 0.00 0.00 43.02 3.27
1217 1486 6.540914 TCAAAAACCGTAAGAATCACTCAACT 59.459 34.615 0.00 0.00 43.02 3.16
1303 1582 4.497291 ACACTCAACTGTAAAACTGGGA 57.503 40.909 0.00 0.00 0.00 4.37
1329 1608 5.174395 CAGAAACAAGATCCCTACTGTGAG 58.826 45.833 0.00 0.00 0.00 3.51
1333 1612 4.559862 ACCAGAAACAAGATCCCTACTG 57.440 45.455 0.00 0.00 0.00 2.74
1336 1615 4.993705 ACAACCAGAAACAAGATCCCTA 57.006 40.909 0.00 0.00 0.00 3.53
1384 1663 8.354711 ACTCTCACTACTCAACAATAATCTCA 57.645 34.615 0.00 0.00 0.00 3.27
1399 1679 3.090037 TGGGAGCTTGTACTCTCACTAC 58.910 50.000 11.78 0.00 42.30 2.73
1449 1729 5.538813 TCTCAACAACAGGTACAGAGTACAT 59.461 40.000 9.27 0.00 0.00 2.29
1486 1773 2.234414 GCCATCCCTGCAATCAGAAAAA 59.766 45.455 0.00 0.00 42.95 1.94
1532 1819 0.640768 GCAGCATGTACTCGAACGAC 59.359 55.000 0.00 0.00 39.31 4.34
1847 2134 1.134098 CATACCCTCCCATTCTGCGTT 60.134 52.381 0.00 0.00 0.00 4.84
1881 2170 1.109323 GTGACCCAACAGCAAGGCTT 61.109 55.000 0.00 0.00 36.40 4.35
2033 2340 7.393515 AGACTTCCACAATACCTTAAAACATCC 59.606 37.037 0.00 0.00 0.00 3.51
2093 2400 0.039074 AAGCCGACGAACACTCAGAG 60.039 55.000 0.00 0.00 0.00 3.35
2094 2401 1.241165 TAAGCCGACGAACACTCAGA 58.759 50.000 0.00 0.00 0.00 3.27
2099 2406 4.418392 TCTTAAGATAAGCCGACGAACAC 58.582 43.478 0.00 0.00 0.00 3.32
2239 2556 5.070580 AGGATAATGTGCCTGTACTAAGGTC 59.929 44.000 1.52 0.00 39.75 3.85
2504 2822 1.064003 TAAGCTCTGGGTTTGGCAGA 58.936 50.000 0.00 0.00 34.76 4.26
2681 3000 7.004086 TCTTCAGGACAACCAACTGATAAATT 58.996 34.615 0.00 0.00 40.56 1.82
2813 3132 4.143052 GCATGTTACCTTTCAAATGCTTGC 60.143 41.667 0.00 0.00 37.89 4.01
2894 3213 7.056635 AGAACTATGGTAAAATCACCCATCTG 58.943 38.462 0.00 0.00 39.61 2.90
2895 3214 7.213178 AGAACTATGGTAAAATCACCCATCT 57.787 36.000 0.00 0.00 39.61 2.90
3044 3363 4.009675 CACCAACTTGCAGCTTATCCTTA 58.990 43.478 0.00 0.00 0.00 2.69
3122 3441 3.931907 CCAACTATGGTTCCATCAGGA 57.068 47.619 7.67 0.00 42.18 3.86
3150 3469 2.625790 AGCTATCACGTTCTCCATCCTC 59.374 50.000 0.00 0.00 0.00 3.71
3151 3470 2.672098 AGCTATCACGTTCTCCATCCT 58.328 47.619 0.00 0.00 0.00 3.24
3152 3471 3.318275 TGTAGCTATCACGTTCTCCATCC 59.682 47.826 0.00 0.00 0.00 3.51
3217 3536 1.479709 CCTCTCCACTGTCGAGGAAT 58.520 55.000 10.31 0.00 45.67 3.01
3353 3672 2.780010 CCAGAGGGTGTCCATTCCTATT 59.220 50.000 0.00 0.00 34.83 1.73
3449 3768 0.041090 ATTCAAACCGGGGGCTTGAT 59.959 50.000 6.32 0.00 0.00 2.57
3632 3951 3.559171 GCTCATACTTCTTCACAACCCCA 60.559 47.826 0.00 0.00 0.00 4.96
3676 3995 0.615331 GATGAACAGAGGCCTCACCA 59.385 55.000 33.90 23.42 43.14 4.17
3729 4048 2.012673 GATGCTCTTGCCGACAAAGAT 58.987 47.619 0.00 0.00 38.71 2.40
3740 4059 1.201647 CTTGGCCTTGTGATGCTCTTG 59.798 52.381 3.32 0.00 0.00 3.02
3794 4113 3.257393 CTGAACTTTCTGAGGATCACCG 58.743 50.000 0.00 0.00 42.56 4.94
3796 4115 3.668447 TGCTGAACTTTCTGAGGATCAC 58.332 45.455 0.00 0.00 42.56 3.06
3932 4251 6.095580 GCATGATCGAGATATACTTCAGGGTA 59.904 42.308 0.00 0.00 0.00 3.69
3958 4282 0.248458 CACGGCTTGTTCAAAGCGTT 60.248 50.000 4.15 0.00 43.89 4.84
3973 4297 2.806244 GCCCTAAATATACACAGCACGG 59.194 50.000 0.00 0.00 0.00 4.94
4030 4354 3.131223 TGCTGAGTTGTAGAGGCAGATAC 59.869 47.826 0.00 0.00 0.00 2.24
4031 4355 3.365472 TGCTGAGTTGTAGAGGCAGATA 58.635 45.455 0.00 0.00 0.00 1.98
4032 4356 2.182827 TGCTGAGTTGTAGAGGCAGAT 58.817 47.619 0.00 0.00 0.00 2.90
4042 4366 3.244764 CTCAGGCATGCTGAGTTGT 57.755 52.632 26.16 2.57 42.30 3.32
4062 4386 4.679373 GGAATGATCCTAGAGCAGTTGA 57.321 45.455 0.00 0.00 42.93 3.18
4134 4466 9.135189 TGAAGTAACTGTAAACTACCAACTAGA 57.865 33.333 0.00 0.00 0.00 2.43
4153 4608 7.644490 AGTTTGCATTACGAAACATGAAGTAA 58.356 30.769 0.00 4.76 35.00 2.24
4167 4630 7.367285 TGTGAAGATTGGTAAGTTTGCATTAC 58.633 34.615 0.85 0.85 33.29 1.89
4168 4631 7.517614 TGTGAAGATTGGTAAGTTTGCATTA 57.482 32.000 0.00 0.00 0.00 1.90
4169 4632 6.403866 TGTGAAGATTGGTAAGTTTGCATT 57.596 33.333 0.00 0.00 0.00 3.56
4170 4633 6.265196 TCTTGTGAAGATTGGTAAGTTTGCAT 59.735 34.615 0.00 0.00 31.20 3.96
4227 4696 4.881850 GGTGATAACAGGTTACCAGGATTG 59.118 45.833 3.51 0.00 0.00 2.67
4230 4699 3.517901 CTGGTGATAACAGGTTACCAGGA 59.482 47.826 18.52 0.00 35.17 3.86
4239 4708 4.698780 CCATGATATGCTGGTGATAACAGG 59.301 45.833 0.00 0.00 36.48 4.00
4297 4784 7.167468 CAGTTTTTGGTGTATACAACTTTCAGC 59.833 37.037 21.18 7.87 33.92 4.26
4298 4785 8.402472 TCAGTTTTTGGTGTATACAACTTTCAG 58.598 33.333 21.18 6.31 33.92 3.02
4326 4815 4.589647 TCCATTCCCATCTCATGTTTCA 57.410 40.909 0.00 0.00 0.00 2.69
4365 4854 6.603095 TGTGTATTTGTTTTGGTTTTGCAAC 58.397 32.000 0.00 0.00 0.00 4.17
4407 4926 2.079925 GGAAACAGTAAGCAGCTGAGG 58.920 52.381 20.43 1.46 37.40 3.86
4694 5218 2.223340 ACAAAACTTGCGCTCTTCTGTG 60.223 45.455 9.73 1.27 0.00 3.66
4724 5251 4.369182 CCAAGTAAACATAGGCTCGTAGG 58.631 47.826 0.00 0.00 0.00 3.18
4728 5255 2.936498 CACCCAAGTAAACATAGGCTCG 59.064 50.000 0.00 0.00 0.00 5.03
4806 5338 4.622220 GCGAAACTCCTTACAGGGTATCAA 60.622 45.833 0.00 0.00 35.59 2.57
4818 5350 0.765510 AGGACTTGGCGAAACTCCTT 59.234 50.000 2.43 0.00 29.43 3.36


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

AutoCloner maintained by Alex Coulton.