Multiple sequence alignment - TraesCS4D01G291400

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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 TraesCS4D01G291400 chr4D 100.000 4263 0 0 1 4263 462785965 462790227 0.000000e+00 7873.0
1 TraesCS4D01G291400 chr4D 93.478 46 3 0 152 197 8888154 8888109 7.650000e-08 69.4
2 TraesCS4D01G291400 chr4B 86.905 3192 265 76 92 3208 578075541 578072428 0.000000e+00 3437.0
3 TraesCS4D01G291400 chr4B 92.444 675 46 3 3594 4263 578071757 578071083 0.000000e+00 959.0
4 TraesCS4D01G291400 chr4B 85.838 346 27 10 3257 3592 578072131 578071798 8.770000e-92 348.0
5 TraesCS4D01G291400 chr4B 77.483 151 25 4 135 284 400850408 400850550 9.820000e-12 82.4
6 TraesCS4D01G291400 chr4B 91.837 49 4 0 148 196 16810679 16810631 7.650000e-08 69.4
7 TraesCS4D01G291400 chr4A 89.885 1305 97 17 2303 3592 6800087 6801371 0.000000e+00 1646.0
8 TraesCS4D01G291400 chr4A 90.963 675 44 5 3594 4263 6801453 6802115 0.000000e+00 893.0
9 TraesCS4D01G291400 chr4A 87.478 567 46 14 1609 2169 6793981 6794528 7.780000e-177 630.0
10 TraesCS4D01G291400 chr4A 93.289 149 10 0 2159 2307 6794980 6795128 2.000000e-53 220.0
11 TraesCS4D01G291400 chr1B 79.814 322 50 10 1 316 322691340 322691028 2.000000e-53 220.0
12 TraesCS4D01G291400 chr3D 79.221 308 52 8 1 303 588336318 588336018 2.010000e-48 204.0
13 TraesCS4D01G291400 chr3D 79.208 303 51 8 6 303 588335724 588335429 2.600000e-47 200.0
14 TraesCS4D01G291400 chr7B 77.477 333 59 12 1 327 245607605 245607283 7.280000e-43 185.0
15 TraesCS4D01G291400 chr6A 70.963 644 121 41 765 1363 558987155 558986533 4.540000e-15 93.5
16 TraesCS4D01G291400 chr2D 94.595 37 2 0 1083 1119 35801923 35801887 1.660000e-04 58.4


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 TraesCS4D01G291400 chr4D 462785965 462790227 4262 False 7873.000000 7873 100.000000 1 4263 1 chr4D.!!$F1 4262
1 TraesCS4D01G291400 chr4B 578071083 578075541 4458 True 1581.333333 3437 88.395667 92 4263 3 chr4B.!!$R2 4171
2 TraesCS4D01G291400 chr4A 6800087 6802115 2028 False 1269.500000 1646 90.424000 2303 4263 2 chr4A.!!$F2 1960
3 TraesCS4D01G291400 chr4A 6793981 6795128 1147 False 425.000000 630 90.383500 1609 2307 2 chr4A.!!$F1 698
4 TraesCS4D01G291400 chr3D 588335429 588336318 889 True 202.000000 204 79.214500 1 303 2 chr3D.!!$R1 302

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
616 624 0.036590 TATGTGCTGCTTGTGAGGCA 59.963 50.0 0.00 0.0 38.1 4.75 F
1586 1642 0.803768 CGCATCGACAGGGTTCAGAG 60.804 60.0 0.00 0.0 0.0 3.35 F
2486 3029 0.176680 ATATCATCCGCGGCATCCTC 59.823 55.0 23.51 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1662 1728 0.231279 CGTTAGCGTGTTTGCGAGTT 59.769 50.0 0.00 0.00 40.67 3.01 R
2942 3488 0.306228 CCGCACGTTTCATGTCAACA 59.694 50.0 10.02 0.00 0.00 3.33 R
3609 4509 0.179119 AATACGTACCTGCGGCAGTC 60.179 55.0 26.79 15.85 35.98 3.51 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
24 25 6.688073 AACTCTAGGTCTGATTCTTTGGAA 57.312 37.500 0.00 0.00 35.78 3.53
25 26 6.882768 ACTCTAGGTCTGATTCTTTGGAAT 57.117 37.500 0.00 0.00 43.99 3.01
29 30 5.463051 AGGTCTGATTCTTTGGAATGGAT 57.537 39.130 0.00 0.00 41.68 3.41
37 38 5.524971 TTCTTTGGAATGGATGATGATGC 57.475 39.130 0.00 0.00 0.00 3.91
42 46 2.497138 GAATGGATGATGATGCCACGA 58.503 47.619 0.00 0.00 33.93 4.35
47 51 2.469826 GATGATGATGCCACGACGTTA 58.530 47.619 0.00 0.00 0.00 3.18
51 55 3.687212 TGATGATGCCACGACGTTATTTT 59.313 39.130 0.00 0.00 0.00 1.82
52 56 4.155099 TGATGATGCCACGACGTTATTTTT 59.845 37.500 0.00 0.00 0.00 1.94
53 57 3.816091 TGATGCCACGACGTTATTTTTG 58.184 40.909 0.00 0.00 0.00 2.44
59 63 4.083908 GCCACGACGTTATTTTTGTTCCTA 60.084 41.667 0.00 0.00 0.00 2.94
60 64 5.560567 GCCACGACGTTATTTTTGTTCCTAA 60.561 40.000 0.00 0.00 0.00 2.69
67 71 5.566395 CGTTATTTTTGTTCCTAAAGGCGTC 59.434 40.000 0.00 0.00 34.44 5.19
81 85 1.949133 GCGTCGTCTTGTGTGCTCA 60.949 57.895 0.00 0.00 0.00 4.26
87 91 3.716006 CTTGTGTGCTCACGGCGG 61.716 66.667 13.24 0.00 46.49 6.13
112 116 2.572290 GGTGCTAGACTTGTGGTTGTT 58.428 47.619 0.00 0.00 0.00 2.83
129 133 1.342174 TGTTAGACTCCACGTTGGTCC 59.658 52.381 8.19 0.00 39.03 4.46
133 137 2.091102 GACTCCACGTTGGTCCGGAA 62.091 60.000 5.23 0.00 39.03 4.30
146 151 1.048724 TCCGGAATGCCTCCCTAGTG 61.049 60.000 0.00 0.00 41.87 2.74
155 160 1.196012 CCTCCCTAGTGAGTGGGTTC 58.804 60.000 1.36 0.00 43.74 3.62
157 162 1.550976 CTCCCTAGTGAGTGGGTTCAC 59.449 57.143 0.00 0.00 46.14 3.18
220 225 4.439305 TTTTTCTCTGATTTGGGCATCG 57.561 40.909 0.00 0.00 0.00 3.84
233 238 1.501741 GCATCGTGTTCACGCCATT 59.498 52.632 18.63 3.07 0.00 3.16
237 242 1.018148 TCGTGTTCACGCCATTTTGT 58.982 45.000 18.63 0.00 0.00 2.83
243 248 0.317436 TCACGCCATTTTGTGTTCGC 60.317 50.000 0.00 0.00 37.38 4.70
261 267 1.927210 CGCATGTATCGCACCTCAC 59.073 57.895 0.00 0.00 0.00 3.51
279 285 7.308830 GCACCTCACTGTATTCATTCTCTTTTT 60.309 37.037 0.00 0.00 0.00 1.94
369 375 1.171308 CCTCTGAAGGTTACGTCCGA 58.829 55.000 0.00 0.00 37.94 4.55
378 384 2.079925 GGTTACGTCCGAGTCTGTACT 58.920 52.381 0.00 0.00 39.21 2.73
384 390 3.373439 ACGTCCGAGTCTGTACTATGTTC 59.627 47.826 0.00 0.00 35.56 3.18
400 408 3.953712 TGTTCCTCATAAACGAGCTCA 57.046 42.857 15.40 0.00 0.00 4.26
404 412 1.203928 CTCATAAACGAGCTCAGCCG 58.796 55.000 15.40 2.30 0.00 5.52
415 423 2.034878 AGCTCAGCCGAGATACATCAA 58.965 47.619 0.00 0.00 42.34 2.57
422 430 2.047061 CCGAGATACATCAAAGGGGGA 58.953 52.381 0.00 0.00 0.00 4.81
426 434 4.618460 CGAGATACATCAAAGGGGGATACG 60.618 50.000 0.00 0.00 37.60 3.06
431 439 3.714798 ACATCAAAGGGGGATACGTACAT 59.285 43.478 0.00 0.00 37.60 2.29
479 487 9.353999 CTACAAAATTTCATTAACTGGGCTTAC 57.646 33.333 0.00 0.00 0.00 2.34
495 503 4.092968 GGGCTTACGAAACACACTAATGAG 59.907 45.833 0.00 0.00 0.00 2.90
498 506 6.297353 GCTTACGAAACACACTAATGAGTTC 58.703 40.000 0.00 0.00 38.51 3.01
500 508 5.907197 ACGAAACACACTAATGAGTTCTG 57.093 39.130 0.00 0.00 38.51 3.02
507 515 5.053145 CACACTAATGAGTTCTGGATAGGC 58.947 45.833 0.00 0.00 31.73 3.93
511 519 8.638444 CACTAATGAGTTCTGGATAGGCCCAG 62.638 50.000 0.00 0.00 43.70 4.45
541 549 0.536233 TGCTAGCGAAAAAGCCCACA 60.536 50.000 10.77 0.00 37.97 4.17
558 566 4.099824 CCCACAACTTCAAACACGTTAAC 58.900 43.478 0.00 0.00 0.00 2.01
559 567 4.379603 CCCACAACTTCAAACACGTTAACA 60.380 41.667 6.39 0.00 0.00 2.41
587 595 0.744281 CAAAGAGGCCGGTGTTTGTT 59.256 50.000 1.90 0.00 0.00 2.83
592 600 4.639171 GCCGGTGTTTGTTGGGCG 62.639 66.667 1.90 0.00 33.58 6.13
594 602 4.973360 CGGTGTTTGTTGGGCGCG 62.973 66.667 0.00 0.00 0.00 6.86
595 603 4.639171 GGTGTTTGTTGGGCGCGG 62.639 66.667 8.83 0.00 0.00 6.46
610 618 3.895025 CGGCTATGTGCTGCTTGT 58.105 55.556 0.00 0.00 41.61 3.16
611 619 1.426621 CGGCTATGTGCTGCTTGTG 59.573 57.895 0.00 0.00 41.61 3.33
613 621 0.731417 GGCTATGTGCTGCTTGTGAG 59.269 55.000 0.00 0.00 42.39 3.51
615 623 0.731417 CTATGTGCTGCTTGTGAGGC 59.269 55.000 0.00 0.00 0.00 4.70
616 624 0.036590 TATGTGCTGCTTGTGAGGCA 59.963 50.000 0.00 0.00 38.10 4.75
650 681 1.091771 CCGTGGGTCATCATGCTGAC 61.092 60.000 19.17 19.17 43.90 3.51
651 682 1.423721 CGTGGGTCATCATGCTGACG 61.424 60.000 20.26 8.50 45.26 4.35
654 685 1.148157 GGGTCATCATGCTGACGTCG 61.148 60.000 20.26 7.05 45.26 5.12
663 694 2.990735 CTGACGTCGCTCGATTGC 59.009 61.111 11.62 0.00 42.86 3.56
664 695 1.515088 CTGACGTCGCTCGATTGCT 60.515 57.895 11.62 0.00 42.86 3.91
836 869 5.867903 TGGTGACAATGAAAAATGGTTCT 57.132 34.783 0.00 0.00 37.44 3.01
838 871 5.128499 TGGTGACAATGAAAAATGGTTCTGT 59.872 36.000 0.00 0.00 37.44 3.41
839 872 5.691754 GGTGACAATGAAAAATGGTTCTGTC 59.308 40.000 0.00 0.00 35.13 3.51
840 873 6.272318 GTGACAATGAAAAATGGTTCTGTCA 58.728 36.000 8.49 8.49 38.95 3.58
843 876 7.986320 TGACAATGAAAAATGGTTCTGTCATTT 59.014 29.630 8.49 0.00 43.97 2.32
928 972 6.949578 ATTTCGTGCCATTAAGAAAATGTG 57.050 33.333 0.00 0.00 36.39 3.21
929 973 5.446143 TTCGTGCCATTAAGAAAATGTGT 57.554 34.783 0.00 0.00 0.00 3.72
961 1005 8.537049 TTTTACGGAAATATTCTCTCGTTTCA 57.463 30.769 0.00 0.00 33.41 2.69
978 1022 8.385111 TCTCGTTTCAATAAAAATATCGGTGAC 58.615 33.333 0.00 0.00 0.00 3.67
1143 1191 6.018016 ACAACTTTAGAAAATGTTTGCATGGC 60.018 34.615 0.00 0.00 35.15 4.40
1174 1225 8.593492 AAATGCTTCTCTTTGGAAAATGTTAC 57.407 30.769 0.00 0.00 0.00 2.50
1175 1226 6.959639 TGCTTCTCTTTGGAAAATGTTACT 57.040 33.333 0.00 0.00 0.00 2.24
1176 1227 6.738114 TGCTTCTCTTTGGAAAATGTTACTG 58.262 36.000 0.00 0.00 0.00 2.74
1177 1228 6.321181 TGCTTCTCTTTGGAAAATGTTACTGT 59.679 34.615 0.00 0.00 0.00 3.55
1183 1234 9.965824 CTCTTTGGAAAATGTTACTGTGTATTT 57.034 29.630 0.00 0.00 0.00 1.40
1184 1235 9.743057 TCTTTGGAAAATGTTACTGTGTATTTG 57.257 29.630 0.00 0.00 0.00 2.32
1279 1330 4.346734 AATGTTTCACATGCGCTCTAAG 57.653 40.909 9.73 0.00 37.97 2.18
1282 1333 3.812609 TGTTTCACATGCGCTCTAAGAAA 59.187 39.130 9.73 9.96 0.00 2.52
1283 1334 4.455533 TGTTTCACATGCGCTCTAAGAAAT 59.544 37.500 9.73 0.00 0.00 2.17
1284 1335 4.604843 TTCACATGCGCTCTAAGAAATG 57.395 40.909 9.73 3.49 0.00 2.32
1285 1336 3.599343 TCACATGCGCTCTAAGAAATGT 58.401 40.909 9.73 4.23 0.00 2.71
1287 1338 4.805719 TCACATGCGCTCTAAGAAATGTAG 59.194 41.667 9.73 3.14 0.00 2.74
1289 1340 4.568359 ACATGCGCTCTAAGAAATGTAGTG 59.432 41.667 9.73 0.00 0.00 2.74
1290 1341 4.450082 TGCGCTCTAAGAAATGTAGTGA 57.550 40.909 9.73 0.00 0.00 3.41
1291 1342 4.816392 TGCGCTCTAAGAAATGTAGTGAA 58.184 39.130 9.73 0.00 0.00 3.18
1294 1345 5.220303 GCGCTCTAAGAAATGTAGTGAACTG 60.220 44.000 0.00 0.00 0.00 3.16
1295 1346 6.093404 CGCTCTAAGAAATGTAGTGAACTGA 58.907 40.000 0.00 0.00 0.00 3.41
1296 1347 6.252441 CGCTCTAAGAAATGTAGTGAACTGAG 59.748 42.308 0.00 0.00 0.00 3.35
1360 1415 5.867174 CCGACAAAGAAACCAAAAGAAAAGT 59.133 36.000 0.00 0.00 0.00 2.66
1389 1445 8.887036 AAAACCAAAGAAACTATAAAGCCAAG 57.113 30.769 0.00 0.00 0.00 3.61
1392 1448 7.886338 ACCAAAGAAACTATAAAGCCAAGAAG 58.114 34.615 0.00 0.00 0.00 2.85
1393 1449 7.724061 ACCAAAGAAACTATAAAGCCAAGAAGA 59.276 33.333 0.00 0.00 0.00 2.87
1394 1450 8.743714 CCAAAGAAACTATAAAGCCAAGAAGAT 58.256 33.333 0.00 0.00 0.00 2.40
1395 1451 9.565213 CAAAGAAACTATAAAGCCAAGAAGATG 57.435 33.333 0.00 0.00 0.00 2.90
1402 1458 9.553064 ACTATAAAGCCAAGAAGATGAACATAG 57.447 33.333 0.00 0.00 0.00 2.23
1470 1526 9.720769 ATAAAGAAAACCGAAGTAGAATGAAGA 57.279 29.630 0.00 0.00 0.00 2.87
1471 1527 7.659652 AAGAAAACCGAAGTAGAATGAAGAG 57.340 36.000 0.00 0.00 0.00 2.85
1472 1528 6.994221 AGAAAACCGAAGTAGAATGAAGAGA 58.006 36.000 0.00 0.00 0.00 3.10
1473 1529 7.442656 AGAAAACCGAAGTAGAATGAAGAGAA 58.557 34.615 0.00 0.00 0.00 2.87
1474 1530 7.931948 AGAAAACCGAAGTAGAATGAAGAGAAA 59.068 33.333 0.00 0.00 0.00 2.52
1475 1531 8.446599 AAAACCGAAGTAGAATGAAGAGAAAA 57.553 30.769 0.00 0.00 0.00 2.29
1476 1532 8.446599 AAACCGAAGTAGAATGAAGAGAAAAA 57.553 30.769 0.00 0.00 0.00 1.94
1477 1533 7.659652 ACCGAAGTAGAATGAAGAGAAAAAG 57.340 36.000 0.00 0.00 0.00 2.27
1478 1534 7.442656 ACCGAAGTAGAATGAAGAGAAAAAGA 58.557 34.615 0.00 0.00 0.00 2.52
1479 1535 7.931948 ACCGAAGTAGAATGAAGAGAAAAAGAA 59.068 33.333 0.00 0.00 0.00 2.52
1480 1536 8.774586 CCGAAGTAGAATGAAGAGAAAAAGAAA 58.225 33.333 0.00 0.00 0.00 2.52
1511 1567 9.308318 GTGAAAGCAAATAAAACCAAAGAAGTA 57.692 29.630 0.00 0.00 0.00 2.24
1586 1642 0.803768 CGCATCGACAGGGTTCAGAG 60.804 60.000 0.00 0.00 0.00 3.35
1624 1687 4.710695 CGGAGCACGCACGTACCA 62.711 66.667 0.00 0.00 34.82 3.25
1630 1693 2.724690 GAGCACGCACGTACCATAATAG 59.275 50.000 0.00 0.00 0.00 1.73
1760 1826 3.928727 TCGTTCGGTATATCCATGTCC 57.071 47.619 0.00 0.00 35.57 4.02
1761 1827 3.224269 TCGTTCGGTATATCCATGTCCA 58.776 45.455 0.00 0.00 35.57 4.02
1765 1831 3.516586 TCGGTATATCCATGTCCACCAT 58.483 45.455 0.00 0.00 35.57 3.55
2053 2122 4.541779 GACGATGATGATCACTCCTACAC 58.458 47.826 0.00 0.00 0.00 2.90
2054 2123 3.954258 ACGATGATGATCACTCCTACACA 59.046 43.478 0.00 0.00 0.00 3.72
2449 2992 2.187946 GATCACCGTGGGAGCAGG 59.812 66.667 0.00 0.00 0.00 4.85
2486 3029 0.176680 ATATCATCCGCGGCATCCTC 59.823 55.000 23.51 0.00 0.00 3.71
2493 3036 2.825836 GCGGCATCCTCCTGGTTG 60.826 66.667 0.00 0.00 36.41 3.77
2684 3227 4.241555 GGCGATGGTGGGAGCGAT 62.242 66.667 0.00 0.00 0.00 4.58
2756 3299 2.504244 CGGAGCTTCACGGTCGAC 60.504 66.667 7.13 7.13 41.03 4.20
2834 3377 1.109323 ACAAGGCCAAGCAACTGGAC 61.109 55.000 5.01 0.54 45.99 4.02
2891 3437 1.203928 CGCAGGATGATGACTTCGTC 58.796 55.000 2.61 2.61 39.69 4.20
2903 3449 2.760650 TGACTTCGTCTACATGATGGCT 59.239 45.455 0.00 0.00 33.15 4.75
2921 3467 2.541556 GCTAGGGTGAACGATGAAGAC 58.458 52.381 0.00 0.00 0.00 3.01
3053 3601 1.903139 CAAGTACATCGACACGACGAC 59.097 52.381 0.00 0.00 44.84 4.34
3085 3633 3.072476 ACCGGTGATTCTTCCTTCTTTCA 59.928 43.478 6.12 0.00 0.00 2.69
3133 3681 1.163554 CCTGCTCTTGGTTTCTCTGC 58.836 55.000 0.00 0.00 0.00 4.26
3155 3703 6.520272 TGCTGGTTAATGTGTGCTTAATTTT 58.480 32.000 0.00 0.00 0.00 1.82
3186 3734 2.753989 TGTGTTGACGCAAATGACAG 57.246 45.000 0.00 0.00 32.83 3.51
3224 3943 5.554822 TTATTATCTGTTGGTCAAACCGC 57.445 39.130 0.00 0.00 42.58 5.68
3242 3961 1.895280 GCGCGATTATCTCCTGCTGC 61.895 60.000 12.10 0.00 0.00 5.25
3251 3970 6.641723 CGATTATCTCCTGCTGCAGATATATG 59.358 42.308 30.10 12.66 32.75 1.78
3252 3971 4.757019 ATCTCCTGCTGCAGATATATGG 57.243 45.455 30.10 13.08 32.44 2.74
3255 3974 3.514539 TCCTGCTGCAGATATATGGTCT 58.485 45.455 30.10 0.00 32.44 3.85
3332 4142 5.669164 ACCTTCTTCTGAGATCCACTTAC 57.331 43.478 0.00 0.00 0.00 2.34
3349 4166 5.323900 CACTTACGTATTGTCCATTGCAAG 58.676 41.667 4.94 0.00 0.00 4.01
3362 4179 4.082081 TCCATTGCAAGTAAATGCTTGGAG 60.082 41.667 4.94 0.55 45.66 3.86
3382 4199 5.008613 TGGAGTTTGAGAATGCAAGTTACAC 59.991 40.000 0.00 0.00 0.00 2.90
3384 4201 4.887071 AGTTTGAGAATGCAAGTTACACCA 59.113 37.500 0.00 0.00 0.00 4.17
3385 4202 5.009010 AGTTTGAGAATGCAAGTTACACCAG 59.991 40.000 0.00 0.00 0.00 4.00
3430 4247 3.243737 TGTGCAGTGTCATCTCTACGTTT 60.244 43.478 0.00 0.00 0.00 3.60
3446 4263 7.279981 TCTCTACGTTTCAATATTTGGGTGATG 59.720 37.037 0.00 0.00 0.00 3.07
3447 4264 5.323371 ACGTTTCAATATTTGGGTGATGG 57.677 39.130 0.00 0.00 0.00 3.51
3448 4265 4.770010 ACGTTTCAATATTTGGGTGATGGT 59.230 37.500 0.00 0.00 0.00 3.55
3449 4266 5.245075 ACGTTTCAATATTTGGGTGATGGTT 59.755 36.000 0.00 0.00 0.00 3.67
3450 4267 6.162777 CGTTTCAATATTTGGGTGATGGTTT 58.837 36.000 0.00 0.00 0.00 3.27
3451 4268 6.310224 CGTTTCAATATTTGGGTGATGGTTTC 59.690 38.462 0.00 0.00 0.00 2.78
3452 4269 6.924913 TTCAATATTTGGGTGATGGTTTCA 57.075 33.333 0.00 0.00 0.00 2.69
3460 4277 2.558359 GGGTGATGGTTTCAGGTTTCAG 59.442 50.000 0.00 0.00 34.17 3.02
3483 4300 5.371472 AGACTAGGAGCCTATACAGTTCTCT 59.629 44.000 0.00 0.00 0.00 3.10
3484 4301 5.381757 ACTAGGAGCCTATACAGTTCTCTG 58.618 45.833 0.00 0.00 46.18 3.35
3485 4302 4.528076 AGGAGCCTATACAGTTCTCTGA 57.472 45.455 2.17 0.00 43.76 3.27
3491 4308 7.654116 GGAGCCTATACAGTTCTCTGAAATTAC 59.346 40.741 2.17 0.00 43.76 1.89
3510 4327 6.619801 ATTACGATTATGCTCAAACTTCCC 57.380 37.500 0.00 0.00 0.00 3.97
3519 4336 9.657419 ATTATGCTCAAACTTCCCTTTAATTTG 57.343 29.630 0.00 0.00 0.00 2.32
3577 4395 6.307318 CGGTGTTCTGATGTACAGTTTACTAC 59.693 42.308 0.33 0.00 45.86 2.73
3579 4397 7.328737 GGTGTTCTGATGTACAGTTTACTACAG 59.671 40.741 0.33 0.00 45.86 2.74
3616 4516 3.886505 ACTATTCTCTAGAAGGACTGCCG 59.113 47.826 0.00 0.00 39.96 5.69
3645 4548 3.924686 CGTATTCTGCTACGAACTTGGTT 59.075 43.478 0.00 0.00 45.64 3.67
3647 4550 3.746045 TTCTGCTACGAACTTGGTTCT 57.254 42.857 8.46 0.15 40.05 3.01
3651 4554 4.280174 TCTGCTACGAACTTGGTTCTACTT 59.720 41.667 8.46 0.00 40.05 2.24
3658 4561 5.761234 ACGAACTTGGTTCTACTTTGCAATA 59.239 36.000 0.00 0.00 40.05 1.90
3659 4562 6.077838 CGAACTTGGTTCTACTTTGCAATAC 58.922 40.000 0.00 0.00 40.05 1.89
3671 4574 9.665719 TCTACTTTGCAATACAATCATACTGAA 57.334 29.630 0.00 0.00 38.31 3.02
3673 4576 7.765307 ACTTTGCAATACAATCATACTGAAGG 58.235 34.615 0.00 0.00 38.31 3.46
3678 4581 7.280876 TGCAATACAATCATACTGAAGGAACTC 59.719 37.037 0.00 0.00 38.49 3.01
3683 4586 6.998074 ACAATCATACTGAAGGAACTCAACAA 59.002 34.615 0.00 0.00 38.49 2.83
3684 4587 7.041098 ACAATCATACTGAAGGAACTCAACAAC 60.041 37.037 0.00 0.00 38.49 3.32
3693 4596 4.526970 AGGAACTCAACAACACAAGATGT 58.473 39.130 0.00 0.00 46.42 3.06
3720 4623 9.677567 GTTAACTTGAACAAGATTCAGCATTAA 57.322 29.630 19.35 9.16 40.79 1.40
3750 4653 2.437897 AGCTGTTTCAGGCTGGGG 59.562 61.111 15.73 2.03 37.41 4.96
3871 4774 2.494870 GTTTGCAGGAGGCTGAAATGAT 59.505 45.455 0.00 0.00 45.15 2.45
3873 4776 2.923121 TGCAGGAGGCTGAAATGATAC 58.077 47.619 0.00 0.00 45.15 2.24
3881 4784 5.406780 GGAGGCTGAAATGATACGAATACAG 59.593 44.000 0.00 0.00 0.00 2.74
4016 4919 3.393089 ACAGATGCTGACGAGTCTTTT 57.607 42.857 4.78 0.00 35.18 2.27
4138 5041 9.880157 GTATGTACTTCTAAAAAGGGTGTCATA 57.120 33.333 0.00 0.00 0.00 2.15
4254 5157 7.824289 ACAGTTTCAGTATGCATAGCTAGAAAA 59.176 33.333 6.67 6.62 34.76 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 5.726308 TCCATTCCAAAGAATCAGACCTAGA 59.274 40.000 0.00 0.00 40.89 2.43
20 21 2.589720 GTGGCATCATCATCCATTCCA 58.410 47.619 0.00 0.00 31.83 3.53
21 22 1.538512 CGTGGCATCATCATCCATTCC 59.461 52.381 0.00 0.00 31.83 3.01
24 25 1.875157 CGTCGTGGCATCATCATCCAT 60.875 52.381 0.00 0.00 31.83 3.41
25 26 0.530431 CGTCGTGGCATCATCATCCA 60.530 55.000 0.00 0.00 0.00 3.41
29 30 2.595124 ATAACGTCGTGGCATCATCA 57.405 45.000 0.00 0.00 0.00 3.07
37 38 4.477302 AGGAACAAAAATAACGTCGTGG 57.523 40.909 0.00 0.00 0.00 4.94
42 46 5.008911 ACGCCTTTAGGAACAAAAATAACGT 59.991 36.000 0.00 0.00 37.39 3.99
47 51 3.566742 ACGACGCCTTTAGGAACAAAAAT 59.433 39.130 0.00 0.00 37.39 1.82
51 55 1.342174 AGACGACGCCTTTAGGAACAA 59.658 47.619 0.00 0.00 37.39 2.83
52 56 0.963962 AGACGACGCCTTTAGGAACA 59.036 50.000 0.00 0.00 37.39 3.18
53 57 1.725164 CAAGACGACGCCTTTAGGAAC 59.275 52.381 0.00 0.00 37.39 3.62
59 63 1.772063 GCACACAAGACGACGCCTTT 61.772 55.000 0.00 0.00 0.00 3.11
60 64 2.244651 GCACACAAGACGACGCCTT 61.245 57.895 0.00 0.00 0.00 4.35
67 71 2.943345 GCCGTGAGCACACAAGACG 61.943 63.158 14.75 0.00 46.20 4.18
87 91 0.737715 CACAAGTCTAGCACCGAGGC 60.738 60.000 0.00 0.00 0.00 4.70
90 94 1.045407 AACCACAAGTCTAGCACCGA 58.955 50.000 0.00 0.00 0.00 4.69
112 116 1.246056 CCGGACCAACGTGGAGTCTA 61.246 60.000 0.00 0.00 40.96 2.59
133 137 2.922162 CCACTCACTAGGGAGGCAT 58.078 57.895 25.64 2.08 39.27 4.40
146 151 0.600255 CGACACAGGTGAACCCACTC 60.600 60.000 6.40 0.00 42.77 3.51
155 160 0.732571 ACAAGCAAACGACACAGGTG 59.267 50.000 0.00 0.00 0.00 4.00
157 162 1.594518 CGAACAAGCAAACGACACAGG 60.595 52.381 0.00 0.00 0.00 4.00
220 225 2.202295 ACACAAAATGGCGTGAACAC 57.798 45.000 0.00 0.00 36.91 3.32
233 238 1.201866 CGATACATGCGCGAACACAAA 60.202 47.619 12.10 0.00 0.00 2.83
237 242 3.002673 GCGATACATGCGCGAACA 58.997 55.556 12.10 0.00 45.27 3.18
243 248 0.528466 AGTGAGGTGCGATACATGCG 60.528 55.000 0.00 0.00 34.24 4.73
254 259 7.678947 AAAAGAGAATGAATACAGTGAGGTG 57.321 36.000 0.00 0.00 0.00 4.00
361 367 4.128925 ACATAGTACAGACTCGGACGTA 57.871 45.455 0.00 0.00 37.10 3.57
362 368 2.983229 ACATAGTACAGACTCGGACGT 58.017 47.619 0.00 0.00 37.10 4.34
367 373 5.759506 ATGAGGAACATAGTACAGACTCG 57.240 43.478 0.00 0.00 37.46 4.18
369 375 7.338703 TCGTTTATGAGGAACATAGTACAGACT 59.661 37.037 0.00 0.00 41.64 3.24
378 384 5.592054 CTGAGCTCGTTTATGAGGAACATA 58.408 41.667 9.64 0.00 40.07 2.29
384 390 1.576356 GGCTGAGCTCGTTTATGAGG 58.424 55.000 9.64 0.00 36.47 3.86
400 408 1.417890 CCCCTTTGATGTATCTCGGCT 59.582 52.381 0.00 0.00 0.00 5.52
404 412 4.283722 ACGTATCCCCCTTTGATGTATCTC 59.716 45.833 0.00 0.00 0.00 2.75
471 479 3.472283 TTAGTGTGTTTCGTAAGCCCA 57.528 42.857 0.00 0.00 37.18 5.36
479 487 4.988540 TCCAGAACTCATTAGTGTGTTTCG 59.011 41.667 7.06 2.71 40.88 3.46
507 515 2.874648 TAGCATGTTGAGCGGCTGGG 62.875 60.000 7.50 0.00 37.17 4.45
511 519 2.711924 GCTAGCATGTTGAGCGGC 59.288 61.111 10.63 0.00 37.01 6.53
522 530 0.536233 TGTGGGCTTTTTCGCTAGCA 60.536 50.000 16.45 0.00 39.15 3.49
529 537 4.092821 GTGTTTGAAGTTGTGGGCTTTTTC 59.907 41.667 0.00 0.00 0.00 2.29
541 549 5.616488 ACTGTGTTAACGTGTTTGAAGTT 57.384 34.783 0.26 0.00 0.00 2.66
558 566 0.954452 GGCCTCTTTGTCCAACTGTG 59.046 55.000 0.00 0.00 0.00 3.66
559 567 0.535102 CGGCCTCTTTGTCCAACTGT 60.535 55.000 0.00 0.00 0.00 3.55
595 603 0.731417 CCTCACAAGCAGCACATAGC 59.269 55.000 0.00 0.00 46.19 2.97
622 653 4.324991 GACCCACGGTCCACCACC 62.325 72.222 0.00 0.00 46.19 4.61
650 681 0.296056 GAGAAAGCAATCGAGCGACG 59.704 55.000 0.00 0.00 44.09 5.12
651 682 1.634702 AGAGAAAGCAATCGAGCGAC 58.365 50.000 0.00 0.00 40.15 5.19
654 685 4.867608 AGTAGAAAGAGAAAGCAATCGAGC 59.132 41.667 0.00 0.00 0.00 5.03
800 833 7.972527 TCATTGTCACCAACATTTTTGAAAAG 58.027 30.769 0.00 0.00 37.82 2.27
804 837 7.912056 TTTTCATTGTCACCAACATTTTTGA 57.088 28.000 0.00 0.00 37.82 2.69
805 838 9.011407 CATTTTTCATTGTCACCAACATTTTTG 57.989 29.630 0.00 0.00 37.82 2.44
812 845 6.018832 CAGAACCATTTTTCATTGTCACCAAC 60.019 38.462 0.00 0.00 32.26 3.77
813 846 6.047870 CAGAACCATTTTTCATTGTCACCAA 58.952 36.000 0.00 0.00 34.45 3.67
814 847 5.128499 ACAGAACCATTTTTCATTGTCACCA 59.872 36.000 0.00 0.00 0.00 4.17
815 848 5.600696 ACAGAACCATTTTTCATTGTCACC 58.399 37.500 0.00 0.00 0.00 4.02
904 948 6.928492 ACACATTTTCTTAATGGCACGAAATT 59.072 30.769 0.00 0.00 32.14 1.82
905 949 6.454795 ACACATTTTCTTAATGGCACGAAAT 58.545 32.000 0.00 0.00 32.14 2.17
909 953 6.550843 TCATACACATTTTCTTAATGGCACG 58.449 36.000 0.00 0.00 32.14 5.34
941 985 9.982291 TTTTATTGAAACGAGAGAATATTTCCG 57.018 29.630 0.00 0.00 31.39 4.30
952 996 8.385111 GTCACCGATATTTTTATTGAAACGAGA 58.615 33.333 0.00 0.00 0.00 4.04
1116 1164 9.206870 CCATGCAAACATTTTCTAAAGTTGTAT 57.793 29.630 0.00 0.00 32.87 2.29
1119 1167 6.203338 AGCCATGCAAACATTTTCTAAAGTTG 59.797 34.615 0.00 0.00 32.87 3.16
1121 1169 5.857268 AGCCATGCAAACATTTTCTAAAGT 58.143 33.333 0.00 0.00 32.87 2.66
1122 1170 6.790285 AAGCCATGCAAACATTTTCTAAAG 57.210 33.333 0.00 0.00 32.87 1.85
1126 1174 7.565323 TTTTTAAGCCATGCAAACATTTTCT 57.435 28.000 0.00 0.00 32.87 2.52
1151 1202 7.014615 ACAGTAACATTTTCCAAAGAGAAGCAT 59.985 33.333 0.00 0.00 0.00 3.79
1154 1205 7.707104 ACACAGTAACATTTTCCAAAGAGAAG 58.293 34.615 0.00 0.00 0.00 2.85
1157 1208 9.965824 AAATACACAGTAACATTTTCCAAAGAG 57.034 29.630 0.00 0.00 0.00 2.85
1159 1210 9.743057 TCAAATACACAGTAACATTTTCCAAAG 57.257 29.630 0.00 0.00 0.00 2.77
1282 1333 8.421784 TGTCTACTTTTTCTCAGTTCACTACAT 58.578 33.333 0.00 0.00 0.00 2.29
1283 1334 7.778083 TGTCTACTTTTTCTCAGTTCACTACA 58.222 34.615 0.00 0.00 0.00 2.74
1284 1335 8.704234 CATGTCTACTTTTTCTCAGTTCACTAC 58.296 37.037 0.00 0.00 0.00 2.73
1285 1336 8.421784 ACATGTCTACTTTTTCTCAGTTCACTA 58.578 33.333 0.00 0.00 0.00 2.74
1287 1338 7.011482 ACACATGTCTACTTTTTCTCAGTTCAC 59.989 37.037 0.00 0.00 0.00 3.18
1289 1340 7.484035 ACACATGTCTACTTTTTCTCAGTTC 57.516 36.000 0.00 0.00 0.00 3.01
1290 1341 7.865706 AACACATGTCTACTTTTTCTCAGTT 57.134 32.000 0.00 0.00 0.00 3.16
1291 1342 8.958119 TTAACACATGTCTACTTTTTCTCAGT 57.042 30.769 0.00 0.00 0.00 3.41
1327 1382 6.249035 TGGTTTCTTTGTCGGATTTCATAC 57.751 37.500 0.00 0.00 0.00 2.39
1330 1385 5.584253 TTTGGTTTCTTTGTCGGATTTCA 57.416 34.783 0.00 0.00 0.00 2.69
1364 1419 8.700973 TCTTGGCTTTATAGTTTCTTTGGTTTT 58.299 29.630 0.00 0.00 0.00 2.43
1377 1432 8.997323 CCTATGTTCATCTTCTTGGCTTTATAG 58.003 37.037 0.00 0.00 0.00 1.31
1378 1433 8.713971 TCCTATGTTCATCTTCTTGGCTTTATA 58.286 33.333 0.00 0.00 0.00 0.98
1444 1500 9.720769 TCTTCATTCTACTTCGGTTTTCTTTAT 57.279 29.630 0.00 0.00 0.00 1.40
1445 1501 9.204570 CTCTTCATTCTACTTCGGTTTTCTTTA 57.795 33.333 0.00 0.00 0.00 1.85
1446 1502 7.931948 TCTCTTCATTCTACTTCGGTTTTCTTT 59.068 33.333 0.00 0.00 0.00 2.52
1449 1505 7.653767 TTCTCTTCATTCTACTTCGGTTTTC 57.346 36.000 0.00 0.00 0.00 2.29
1483 1539 9.528018 CTTCTTTGGTTTTATTTGCTTTCACTA 57.472 29.630 0.00 0.00 0.00 2.74
1484 1540 8.040727 ACTTCTTTGGTTTTATTTGCTTTCACT 58.959 29.630 0.00 0.00 0.00 3.41
1485 1541 8.196802 ACTTCTTTGGTTTTATTTGCTTTCAC 57.803 30.769 0.00 0.00 0.00 3.18
1486 1542 9.877178 TTACTTCTTTGGTTTTATTTGCTTTCA 57.123 25.926 0.00 0.00 0.00 2.69
1531 1587 5.444745 CGATCTGCTTCGGTTTTCTACTTTC 60.445 44.000 0.00 0.00 35.50 2.62
1536 1592 3.861276 TCGATCTGCTTCGGTTTTCTA 57.139 42.857 4.83 0.00 39.56 2.10
1578 1634 1.153997 GCGAGTCCGACTCTGAACC 60.154 63.158 23.09 5.84 42.92 3.62
1580 1636 1.876664 CTGCGAGTCCGACTCTGAA 59.123 57.895 23.09 12.26 42.92 3.02
1586 1642 4.803426 CTGGGCTGCGAGTCCGAC 62.803 72.222 0.00 0.00 44.85 4.79
1610 1673 2.359848 TCTATTATGGTACGTGCGTGCT 59.640 45.455 12.01 0.00 0.00 4.40
1624 1687 9.102757 CGGTGTATATGTACTACGGTCTATTAT 57.897 37.037 1.08 0.00 31.65 1.28
1630 1693 3.365364 GGCGGTGTATATGTACTACGGTC 60.365 52.174 14.47 7.93 33.99 4.79
1661 1727 1.717429 CGTTAGCGTGTTTGCGAGTTC 60.717 52.381 0.00 0.00 40.67 3.01
1662 1728 0.231279 CGTTAGCGTGTTTGCGAGTT 59.769 50.000 0.00 0.00 40.67 3.01
1663 1729 1.850640 CGTTAGCGTGTTTGCGAGT 59.149 52.632 0.00 0.00 40.67 4.18
1664 1730 1.507096 GCGTTAGCGTGTTTGCGAG 60.507 57.895 0.00 0.00 40.67 5.03
1711 1777 2.826702 GTTGGGTGGACTGGACGT 59.173 61.111 0.00 0.00 0.00 4.34
1760 1826 1.705337 GGAACGGCATCGACATGGTG 61.705 60.000 0.00 0.00 40.11 4.17
1761 1827 1.449601 GGAACGGCATCGACATGGT 60.450 57.895 0.00 0.00 40.11 3.55
2036 2105 4.089361 AGTGTGTGTAGGAGTGATCATCA 58.911 43.478 0.00 0.00 0.00 3.07
2087 2156 1.807573 GCTGAAGAGAACGAGGGCG 60.808 63.158 0.00 0.00 44.79 6.13
2128 2197 4.037684 AGACAAAATACTCGTAGCGGCTAT 59.962 41.667 13.60 0.00 0.00 2.97
2412 2943 3.041940 CTTGCCGGTGTCGTGGTC 61.042 66.667 1.90 0.00 33.95 4.02
2493 3036 2.668280 GCTCGTCGAACAGGTTGGC 61.668 63.158 0.00 0.00 0.00 4.52
2742 3285 4.719369 GGCGTCGACCGTGAAGCT 62.719 66.667 10.58 0.00 42.08 3.74
2834 3377 3.614616 CGTAGTAAGCAAGCTTCTTCAGG 59.385 47.826 11.05 0.00 37.47 3.86
2891 3437 3.733337 GTTCACCCTAGCCATCATGTAG 58.267 50.000 0.00 0.00 0.00 2.74
2903 3449 2.163010 GTCGTCTTCATCGTTCACCCTA 59.837 50.000 0.00 0.00 0.00 3.53
2921 3467 2.434884 ATGACGCAGGCCTTGTCG 60.435 61.111 23.33 19.42 35.40 4.35
2942 3488 0.306228 CCGCACGTTTCATGTCAACA 59.694 50.000 10.02 0.00 0.00 3.33
2943 3489 0.996727 GCCGCACGTTTCATGTCAAC 60.997 55.000 0.00 0.00 0.00 3.18
3003 3549 1.665679 CATGGAGTACGTTGTGATGCC 59.334 52.381 0.00 0.00 0.00 4.40
3053 3601 2.209064 AATCACCGGTCTGTCGTCCG 62.209 60.000 2.59 0.00 45.42 4.79
3070 3618 5.388654 ACCACATGTGAAAGAAGGAAGAAT 58.611 37.500 27.46 0.00 0.00 2.40
3085 3633 5.505181 AGAATTCCTGAGTAACCACATGT 57.495 39.130 0.65 0.00 0.00 3.21
3133 3681 8.081633 TCTCAAAATTAAGCACACATTAACCAG 58.918 33.333 0.00 0.00 0.00 4.00
3155 3703 4.513318 TGCGTCAACACATAAACATTCTCA 59.487 37.500 0.00 0.00 0.00 3.27
3186 3734 6.526674 CAGATAATAAACACGAAAAAGCCCAC 59.473 38.462 0.00 0.00 0.00 4.61
3224 3943 0.598419 TGCAGCAGGAGATAATCGCG 60.598 55.000 0.00 0.00 0.00 5.87
3288 4090 5.456186 GGTTACATGCCATAGGGTCAACTAT 60.456 44.000 0.00 0.00 36.17 2.12
3289 4091 4.141574 GGTTACATGCCATAGGGTCAACTA 60.142 45.833 0.00 0.00 36.17 2.24
3290 4092 3.371595 GGTTACATGCCATAGGGTCAACT 60.372 47.826 0.00 0.00 36.17 3.16
3332 4142 5.229887 GCATTTACTTGCAATGGACAATACG 59.770 40.000 0.00 0.00 42.31 3.06
3349 4166 5.574443 GCATTCTCAAACTCCAAGCATTTAC 59.426 40.000 0.00 0.00 0.00 2.01
3362 4179 5.181690 TGGTGTAACTTGCATTCTCAAAC 57.818 39.130 0.00 0.00 36.74 2.93
3430 4247 5.421693 CCTGAAACCATCACCCAAATATTGA 59.578 40.000 0.00 0.00 33.47 2.57
3446 4263 4.570930 CTCCTAGTCTGAAACCTGAAACC 58.429 47.826 0.00 0.00 0.00 3.27
3447 4264 3.997681 GCTCCTAGTCTGAAACCTGAAAC 59.002 47.826 0.00 0.00 0.00 2.78
3448 4265 3.008049 GGCTCCTAGTCTGAAACCTGAAA 59.992 47.826 0.00 0.00 0.00 2.69
3449 4266 2.567615 GGCTCCTAGTCTGAAACCTGAA 59.432 50.000 0.00 0.00 0.00 3.02
3450 4267 2.180276 GGCTCCTAGTCTGAAACCTGA 58.820 52.381 0.00 0.00 0.00 3.86
3451 4268 2.183679 AGGCTCCTAGTCTGAAACCTG 58.816 52.381 0.00 0.00 0.00 4.00
3452 4269 2.632763 AGGCTCCTAGTCTGAAACCT 57.367 50.000 0.00 0.00 0.00 3.50
3460 4277 5.472137 CAGAGAACTGTATAGGCTCCTAGTC 59.528 48.000 0.00 0.00 39.11 2.59
3483 4300 8.181573 GGAAGTTTGAGCATAATCGTAATTTCA 58.818 33.333 0.00 0.00 0.00 2.69
3484 4301 7.644157 GGGAAGTTTGAGCATAATCGTAATTTC 59.356 37.037 0.00 0.00 0.00 2.17
3485 4302 7.339466 AGGGAAGTTTGAGCATAATCGTAATTT 59.661 33.333 0.00 0.00 0.00 1.82
3491 4308 5.567138 AAAGGGAAGTTTGAGCATAATCG 57.433 39.130 0.00 0.00 0.00 3.34
3510 4327 7.730364 ACCTGACTGTCTGTACAAATTAAAG 57.270 36.000 9.51 0.00 34.49 1.85
3519 4336 8.773404 AATGTTTTATACCTGACTGTCTGTAC 57.227 34.615 9.51 2.56 0.00 2.90
3592 4410 5.708230 CGGCAGTCCTTCTAGAGAATAGTAT 59.292 44.000 0.00 0.00 33.01 2.12
3594 4412 3.886505 CGGCAGTCCTTCTAGAGAATAGT 59.113 47.826 0.00 0.00 33.01 2.12
3596 4414 2.623889 GCGGCAGTCCTTCTAGAGAATA 59.376 50.000 0.00 0.00 33.01 1.75
3597 4415 1.410882 GCGGCAGTCCTTCTAGAGAAT 59.589 52.381 0.00 0.00 33.01 2.40
3598 4416 0.818296 GCGGCAGTCCTTCTAGAGAA 59.182 55.000 0.00 0.00 0.00 2.87
3599 4417 0.323451 TGCGGCAGTCCTTCTAGAGA 60.323 55.000 0.00 0.00 0.00 3.10
3609 4509 0.179119 AATACGTACCTGCGGCAGTC 60.179 55.000 26.79 15.85 35.98 3.51
3623 4523 6.129326 AGAACCAAGTTCGTAGCAGAATACG 61.129 44.000 2.04 0.02 45.96 3.06
3624 4524 5.169295 AGAACCAAGTTCGTAGCAGAATAC 58.831 41.667 2.04 0.00 45.96 1.89
3626 4526 4.273148 AGAACCAAGTTCGTAGCAGAAT 57.727 40.909 2.04 0.00 45.96 2.40
3671 4574 4.336433 CACATCTTGTGTTGTTGAGTTCCT 59.664 41.667 0.00 0.00 43.08 3.36
3693 4596 6.691754 TGCTGAATCTTGTTCAAGTTAACA 57.308 33.333 8.61 7.45 37.58 2.41
3700 4603 9.414295 CATTCTTTAATGCTGAATCTTGTTCAA 57.586 29.630 0.00 0.00 36.35 2.69
3702 4605 8.976986 ACATTCTTTAATGCTGAATCTTGTTC 57.023 30.769 0.00 0.00 45.41 3.18
3704 4607 7.395489 AGGACATTCTTTAATGCTGAATCTTGT 59.605 33.333 0.00 0.00 45.41 3.16
3720 4623 2.283145 AACAGCTGCAGGACATTCTT 57.717 45.000 17.12 0.00 0.00 2.52
3750 4653 0.727398 GTAATGGCGCAGAGTTGGAC 59.273 55.000 10.83 0.00 0.00 4.02
3816 4719 4.204012 CCGTTATGGATAAAGGAAAGGCA 58.796 43.478 5.66 0.00 42.23 4.75
3873 4776 9.440784 GTCTTTACTCATACTTCTCTGTATTCG 57.559 37.037 0.00 0.00 31.45 3.34
3934 4837 9.595823 GAGCACTAGACAAGTATTACCAAATAA 57.404 33.333 0.00 0.00 35.76 1.40
4016 4919 2.674177 GCTGCTACTAAAGGCTTCACGA 60.674 50.000 0.00 0.00 0.00 4.35
4138 5041 4.380531 CAGTGGATGAATGCTTACGGTAT 58.619 43.478 0.00 0.00 0.00 2.73


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

AutoCloner maintained by Alex Coulton.