Multiple sequence alignment - TraesCS7A01G074700

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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 TraesCS7A01G074700 chr7A 100.000 4006 0 0 1 4006 40401880 40397875 0.000000e+00 7398.0
1 TraesCS7A01G074700 chr7A 88.939 443 40 3 2044 2485 40437049 40436615 5.360000e-149 538.0
2 TraesCS7A01G074700 chr7A 100.000 219 0 0 4491 4709 40397390 40397172 5.670000e-109 405.0
3 TraesCS7A01G074700 chr7A 81.388 317 37 14 1025 1335 40441027 40440727 6.090000e-59 239.0
4 TraesCS7A01G074700 chr7D 92.691 2285 87 27 1715 3939 40856022 40853758 0.000000e+00 3221.0
5 TraesCS7A01G074700 chr7D 86.745 1524 96 49 1 1455 40857747 40856261 0.000000e+00 1598.0
6 TraesCS7A01G074700 chr7D 88.182 440 40 7 2044 2482 40874491 40874063 9.040000e-142 514.0
7 TraesCS7A01G074700 chr7D 95.652 184 6 2 1485 1667 40856205 40856023 1.280000e-75 294.0
8 TraesCS7A01G074700 chr7D 92.466 146 10 1 1025 1170 40878093 40877949 1.720000e-49 207.0
9 TraesCS7A01G074700 chr4A 94.553 1028 45 5 1485 2502 647277344 647278370 0.000000e+00 1578.0
10 TraesCS7A01G074700 chr4A 89.251 1228 76 23 2750 3939 647278779 647279988 0.000000e+00 1485.0
11 TraesCS7A01G074700 chr4A 89.017 519 25 21 872 1369 647276718 647277225 8.660000e-172 614.0
12 TraesCS7A01G074700 chr4A 87.097 217 17 5 2551 2759 647278382 647278595 7.880000e-58 235.0
13 TraesCS7A01G074700 chr4A 93.846 65 4 0 1391 1455 647277224 647277288 1.080000e-16 99.0
14 TraesCS7A01G074700 chr4A 100.000 29 0 0 1873 1901 294787098 294787070 2.000000e-03 54.7
15 TraesCS7A01G074700 chr3D 86.878 442 45 4 2041 2479 560883696 560884127 2.550000e-132 483.0
16 TraesCS7A01G074700 chr3D 88.571 175 8 1 996 1170 560881182 560881344 7.990000e-48 202.0
17 TraesCS7A01G074700 chr3A 86.261 444 50 5 2037 2479 696884875 696885308 5.520000e-129 472.0
18 TraesCS7A01G074700 chr3A 83.513 279 32 10 906 1170 696877806 696878084 1.010000e-61 248.0
19 TraesCS7A01G074700 chr3A 86.726 113 13 2 316 426 657952997 657953109 1.780000e-24 124.0
20 TraesCS7A01G074700 chr2D 87.988 333 28 10 2046 2375 618090589 618090912 2.660000e-102 383.0
21 TraesCS7A01G074700 chr1A 85.207 338 33 6 2046 2375 586506934 586507262 9.770000e-87 331.0
22 TraesCS7A01G074700 chr5A 87.615 218 21 5 2046 2259 143733997 143734212 1.010000e-61 248.0
23 TraesCS7A01G074700 chr2A 87.850 214 21 4 2046 2256 73145967 73146178 3.640000e-61 246.0
24 TraesCS7A01G074700 chr4B 87.065 201 17 3 2176 2375 79531931 79531739 7.930000e-53 219.0
25 TraesCS7A01G074700 chr1B 86.473 207 19 4 2170 2375 51236051 51235853 7.930000e-53 219.0
26 TraesCS7A01G074700 chr6A 85.714 112 14 2 315 424 617691916 617692027 2.980000e-22 117.0
27 TraesCS7A01G074700 chr6A 85.714 112 14 2 315 424 617694200 617694311 2.980000e-22 117.0
28 TraesCS7A01G074700 chr2B 86.111 108 13 2 318 423 385570411 385570518 1.070000e-21 115.0
29 TraesCS7A01G074700 chr7B 84.404 109 15 2 318 424 9008485 9008377 6.440000e-19 106.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G074700 chr7A 40397172 40401880 4708 True 3901.500000 7398 100.0000 1 4709 2 chr7A.!!$R1 4708
1 TraesCS7A01G074700 chr7A 40436615 40441027 4412 True 388.500000 538 85.1635 1025 2485 2 chr7A.!!$R2 1460
2 TraesCS7A01G074700 chr7D 40853758 40857747 3989 True 1704.333333 3221 91.6960 1 3939 3 chr7D.!!$R1 3938
3 TraesCS7A01G074700 chr7D 40874063 40878093 4030 True 360.500000 514 90.3240 1025 2482 2 chr7D.!!$R2 1457
4 TraesCS7A01G074700 chr4A 647276718 647279988 3270 False 802.200000 1578 90.7528 872 3939 5 chr4A.!!$F1 3067
5 TraesCS7A01G074700 chr3D 560881182 560884127 2945 False 342.500000 483 87.7245 996 2479 2 chr3D.!!$F1 1483

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
466 468 0.036732 ATCGCACCCACTCACATTGT 59.963 50.0 0.00 0.0 0.00 2.71 F
1372 3053 0.107508 TGCTTCTGCTGGGATGCTAC 60.108 55.0 11.48 0.0 40.48 3.58 F
1474 3731 0.107831 GCATCCCGGTAGTATTGGCA 59.892 55.0 0.00 0.0 0.00 4.92 F
2945 8070 0.539051 ATGGGTCTGCTGAGTACTGC 59.461 55.0 0.00 0.0 40.53 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1455 3712 0.107831 TGCCAATACTACCGGGATGC 59.892 55.000 6.32 0.0 0.0 3.91 R
3137 8262 0.771755 ACCTGAAAACAGGACTCCCC 59.228 55.000 20.85 0.0 45.0 4.81 R
3138 8263 2.230660 CAACCTGAAAACAGGACTCCC 58.769 52.381 20.85 0.0 45.0 4.30 R
4556 9737 0.322975 GTCATGCACAGTGGAGTCCT 59.677 55.000 11.33 0.0 0.0 3.85 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
43 44 5.697473 TTGTTCATTCCTAACGAATTGCA 57.303 34.783 0.00 0.00 39.28 4.08
44 45 5.295431 TGTTCATTCCTAACGAATTGCAG 57.705 39.130 0.00 0.00 39.28 4.41
61 62 5.545063 TTGCAGGTCTTGGATATATTCGA 57.455 39.130 0.00 0.00 0.00 3.71
81 82 4.003648 CGATACAAGGGATGGCTTAATCC 58.996 47.826 5.38 5.38 44.76 3.01
143 144 6.404074 CCTCTTTGAGTTTTATGCTTGGCTAG 60.404 42.308 0.00 0.00 0.00 3.42
164 165 8.189460 GGCTAGCCTATATATGTAGTGTACAAC 58.811 40.741 27.17 0.00 42.76 3.32
197 198 2.472861 GTCGATACATGTGCTCATTCCG 59.527 50.000 9.11 1.29 31.15 4.30
209 210 2.033801 GCTCATTCCGGATTCCAACATG 59.966 50.000 4.15 4.06 0.00 3.21
252 253 5.398603 ACATTGAAGAAAACCACACACAA 57.601 34.783 0.00 0.00 0.00 3.33
256 257 7.390162 ACATTGAAGAAAACCACACACAATTTT 59.610 29.630 0.00 0.00 0.00 1.82
257 258 6.718454 TGAAGAAAACCACACACAATTTTG 57.282 33.333 0.00 0.00 0.00 2.44
258 259 6.226787 TGAAGAAAACCACACACAATTTTGT 58.773 32.000 0.00 0.00 43.36 2.83
260 261 7.872993 TGAAGAAAACCACACACAATTTTGTAA 59.127 29.630 0.00 0.00 39.91 2.41
261 262 7.589574 AGAAAACCACACACAATTTTGTAAC 57.410 32.000 0.00 0.00 39.91 2.50
262 263 7.382898 AGAAAACCACACACAATTTTGTAACT 58.617 30.769 0.00 0.00 39.91 2.24
263 264 8.524487 AGAAAACCACACACAATTTTGTAACTA 58.476 29.630 0.00 0.00 39.91 2.24
264 265 8.696410 AAAACCACACACAATTTTGTAACTAG 57.304 30.769 0.00 0.00 39.91 2.57
265 266 7.399245 AACCACACACAATTTTGTAACTAGT 57.601 32.000 0.00 0.00 39.91 2.57
266 267 7.399245 ACCACACACAATTTTGTAACTAGTT 57.601 32.000 13.68 13.68 39.91 2.24
267 268 8.508883 ACCACACACAATTTTGTAACTAGTTA 57.491 30.769 11.38 11.38 39.91 2.24
268 269 8.617809 ACCACACACAATTTTGTAACTAGTTAG 58.382 33.333 15.68 5.08 39.91 2.34
317 318 9.686683 ACCATCTTAAGTTTAGCAATCATTACT 57.313 29.630 1.63 0.00 0.00 2.24
327 328 4.298626 AGCAATCATTACTACTCCCTCCA 58.701 43.478 0.00 0.00 0.00 3.86
377 379 5.195001 TCAAATAGTGCCCAAAACAGTTC 57.805 39.130 0.00 0.00 0.00 3.01
397 399 1.391485 CAATCTCAGCTGTCCGAAACG 59.609 52.381 14.67 0.00 0.00 3.60
399 401 0.039437 TCTCAGCTGTCCGAAACGTC 60.039 55.000 14.67 0.00 0.00 4.34
401 403 0.387929 TCAGCTGTCCGAAACGTCTT 59.612 50.000 14.67 0.00 0.00 3.01
403 405 2.230508 TCAGCTGTCCGAAACGTCTTAT 59.769 45.455 14.67 0.00 0.00 1.73
407 409 5.119588 CAGCTGTCCGAAACGTCTTATAAAA 59.880 40.000 5.25 0.00 0.00 1.52
408 410 5.697633 AGCTGTCCGAAACGTCTTATAAAAA 59.302 36.000 0.00 0.00 0.00 1.94
409 411 6.370718 AGCTGTCCGAAACGTCTTATAAAAAT 59.629 34.615 0.00 0.00 0.00 1.82
410 412 6.681599 GCTGTCCGAAACGTCTTATAAAAATC 59.318 38.462 0.00 0.00 0.00 2.17
411 413 7.064060 TGTCCGAAACGTCTTATAAAAATCC 57.936 36.000 0.00 0.00 0.00 3.01
432 434 2.152830 CGGAGGGAGTAGTAAGGATCG 58.847 57.143 0.00 0.00 0.00 3.69
445 447 4.577693 AGTAAGGATCGTGTTGCGTCTATA 59.422 41.667 0.00 0.00 42.13 1.31
446 448 4.585955 AAGGATCGTGTTGCGTCTATAT 57.414 40.909 0.00 0.00 42.13 0.86
447 449 5.700722 AAGGATCGTGTTGCGTCTATATA 57.299 39.130 0.00 0.00 42.13 0.86
448 450 5.899120 AGGATCGTGTTGCGTCTATATAT 57.101 39.130 0.00 0.00 42.13 0.86
449 451 5.881447 AGGATCGTGTTGCGTCTATATATC 58.119 41.667 0.00 0.00 42.13 1.63
450 452 4.729086 GGATCGTGTTGCGTCTATATATCG 59.271 45.833 0.00 3.96 42.13 2.92
466 468 0.036732 ATCGCACCCACTCACATTGT 59.963 50.000 0.00 0.00 0.00 2.71
485 487 8.271487 CACATTGTATACAGTCTTTCATCATCG 58.729 37.037 5.56 0.00 0.00 3.84
496 498 5.049818 GTCTTTCATCATCGATAAGCAAGGG 60.050 44.000 0.00 0.00 0.00 3.95
498 500 2.104622 TCATCATCGATAAGCAAGGGCA 59.895 45.455 0.00 0.00 44.61 5.36
500 502 1.762370 TCATCGATAAGCAAGGGCAGA 59.238 47.619 0.00 0.00 44.61 4.26
503 505 2.838736 TCGATAAGCAAGGGCAGATTC 58.161 47.619 0.00 0.00 44.61 2.52
577 580 9.082313 CCTCTAAGCAACATATTATTCCCAATT 57.918 33.333 0.00 0.00 0.00 2.32
584 587 8.487176 GCAACATATTATTCCCAATTTTTAGCG 58.513 33.333 0.00 0.00 0.00 4.26
608 611 6.750039 CGGTACTTGACATTGTTGAAAAGTTT 59.250 34.615 11.06 0.00 35.33 2.66
685 699 4.811969 TTCTACGGAGCTTTTACCATGA 57.188 40.909 0.00 0.00 0.00 3.07
707 721 5.117406 ACTCCCTTTCCACCAGATATTTC 57.883 43.478 0.00 0.00 0.00 2.17
723 746 8.402472 CCAGATATTTCATCGAGTAGTATCTCC 58.598 40.741 0.00 0.00 0.00 3.71
749 772 3.870633 TCTTCTCTTTCCGGAAGTAGC 57.129 47.619 17.97 0.00 39.67 3.58
750 773 3.162666 TCTTCTCTTTCCGGAAGTAGCA 58.837 45.455 17.97 8.35 39.67 3.49
993 1048 2.646175 CGACGGGAGAAGGGAAGCA 61.646 63.158 0.00 0.00 0.00 3.91
1244 1338 0.745128 ATTGCTCTGCTCTGCTCTGC 60.745 55.000 0.00 0.00 0.00 4.26
1247 1341 1.952102 GCTCTGCTCTGCTCTGCTCT 61.952 60.000 0.00 0.00 0.00 4.09
1270 2402 1.010793 TCCCCCTGGATTGATGGTAGT 59.989 52.381 0.00 0.00 35.03 2.73
1273 2405 2.780010 CCCCTGGATTGATGGTAGTCTT 59.220 50.000 0.00 0.00 0.00 3.01
1292 2967 2.509052 TCCTAGATTGATCGCCGTTG 57.491 50.000 0.00 0.00 0.00 4.10
1329 3010 4.226113 AGATTCGCGATTACTACTGACC 57.774 45.455 10.88 0.00 0.00 4.02
1334 3015 1.864435 GCGATTACTACTGACCGCTGG 60.864 57.143 0.00 0.00 39.57 4.85
1341 3022 1.403679 CTACTGACCGCTGGAAGAGAG 59.596 57.143 1.50 0.00 34.81 3.20
1372 3053 0.107508 TGCTTCTGCTGGGATGCTAC 60.108 55.000 11.48 0.00 40.48 3.58
1376 3057 1.709578 TCTGCTGGGATGCTACTAGG 58.290 55.000 0.00 0.00 0.00 3.02
1385 3066 6.150140 GCTGGGATGCTACTAGGAATTAATTG 59.850 42.308 5.17 0.00 0.00 2.32
1389 3078 7.554476 GGGATGCTACTAGGAATTAATTGATCC 59.446 40.741 5.17 0.67 0.00 3.36
1455 3712 1.908299 GAAACACCCCTGGCCAAGG 60.908 63.158 14.09 14.09 46.94 3.61
1458 3715 4.387343 CACCCCTGGCCAAGGCAT 62.387 66.667 15.69 1.92 45.89 4.40
1460 3717 4.847367 CCCCTGGCCAAGGCATCC 62.847 72.222 15.69 0.00 45.89 3.51
1461 3718 4.847367 CCCTGGCCAAGGCATCCC 62.847 72.222 7.66 0.00 45.89 3.85
1465 3722 3.804329 GGCCAAGGCATCCCGGTA 61.804 66.667 13.87 0.00 44.11 4.02
1466 3723 2.203209 GCCAAGGCATCCCGGTAG 60.203 66.667 6.14 0.00 41.49 3.18
1467 3724 3.043999 GCCAAGGCATCCCGGTAGT 62.044 63.158 6.14 0.00 41.49 2.73
1468 3725 1.692173 GCCAAGGCATCCCGGTAGTA 61.692 60.000 6.14 0.00 41.49 1.82
1469 3726 1.056660 CCAAGGCATCCCGGTAGTAT 58.943 55.000 0.00 0.00 35.76 2.12
1470 3727 1.420138 CCAAGGCATCCCGGTAGTATT 59.580 52.381 0.00 0.00 35.76 1.89
1471 3728 2.494059 CAAGGCATCCCGGTAGTATTG 58.506 52.381 0.00 0.00 35.76 1.90
1472 3729 1.056660 AGGCATCCCGGTAGTATTGG 58.943 55.000 0.00 0.00 35.76 3.16
1473 3730 0.605589 GGCATCCCGGTAGTATTGGC 60.606 60.000 0.00 0.00 0.00 4.52
1474 3731 0.107831 GCATCCCGGTAGTATTGGCA 59.892 55.000 0.00 0.00 0.00 4.92
1475 3732 1.878102 GCATCCCGGTAGTATTGGCAG 60.878 57.143 0.00 0.00 0.00 4.85
1480 3737 2.169769 CCCGGTAGTATTGGCAGAGAAA 59.830 50.000 0.00 0.00 0.00 2.52
1481 3738 3.181454 CCCGGTAGTATTGGCAGAGAAAT 60.181 47.826 0.00 0.00 0.00 2.17
1482 3739 4.451900 CCGGTAGTATTGGCAGAGAAATT 58.548 43.478 0.00 0.00 0.00 1.82
1584 3880 2.027460 GGTTGCGGGTTGTTGCAG 59.973 61.111 0.00 0.00 42.89 4.41
1596 3892 2.825532 GTTGTTGCAGTCCCCATGTAAT 59.174 45.455 0.00 0.00 0.00 1.89
1626 3923 3.247411 GGAAATTTGTTTTGCCGTTCCAG 59.753 43.478 0.00 0.00 34.48 3.86
1677 6549 5.858581 GTGCTTGGTAGTTCAAATCATTGTC 59.141 40.000 0.00 0.00 37.79 3.18
1679 6551 5.334879 GCTTGGTAGTTCAAATCATTGTCGT 60.335 40.000 0.00 0.00 37.79 4.34
1693 6565 4.678509 ATTGTCGTGTTACAATGCGATT 57.321 36.364 1.63 0.00 45.90 3.34
1953 6855 2.857483 ACCCAATCGTTCACACATTCA 58.143 42.857 0.00 0.00 0.00 2.57
2054 6956 1.825090 ACATCGATGGCTTTGCTTGA 58.175 45.000 28.09 0.00 0.00 3.02
2078 6980 4.627058 TCTGTACTTGCTGAAACAATCGA 58.373 39.130 0.00 0.00 0.00 3.59
2079 6981 5.237815 TCTGTACTTGCTGAAACAATCGAT 58.762 37.500 0.00 0.00 0.00 3.59
2080 6982 5.700832 TCTGTACTTGCTGAAACAATCGATT 59.299 36.000 4.39 4.39 0.00 3.34
2297 7203 2.427095 GTGGCTGGTGTTCTTTTTCTGT 59.573 45.455 0.00 0.00 0.00 3.41
2298 7204 3.096092 TGGCTGGTGTTCTTTTTCTGTT 58.904 40.909 0.00 0.00 0.00 3.16
2592 7503 6.294508 GCCCACAGATGTTACTACATTTTTGT 60.295 38.462 0.00 0.00 44.90 2.83
2692 7604 8.863086 ACATGGTTATCAAATTATAAGCAGCAT 58.137 29.630 14.75 4.51 46.90 3.79
2733 7656 9.258629 TGGATGATTGGTTTTAATTTCTGAGAT 57.741 29.630 0.00 0.00 0.00 2.75
2770 7884 6.037500 TGTCTGATTTGTACAATGCTATCTGC 59.962 38.462 9.56 9.59 43.25 4.26
2773 7887 5.882000 TGATTTGTACAATGCTATCTGCTGT 59.118 36.000 9.56 0.00 43.37 4.40
2785 7899 5.822519 TGCTATCTGCTGTTTACCCTTATTG 59.177 40.000 0.00 0.00 43.37 1.90
2795 7909 7.164230 TGTTTACCCTTATTGTTATTGCTGG 57.836 36.000 0.00 0.00 0.00 4.85
2797 7911 6.767524 TTACCCTTATTGTTATTGCTGGTG 57.232 37.500 0.00 0.00 0.00 4.17
2814 7928 1.544246 GGTGGGTAATGCCTGTTTGTC 59.456 52.381 0.00 0.00 37.43 3.18
2827 7942 4.470602 CCTGTTTGTCCCCTAAAAGAACT 58.529 43.478 0.00 0.00 0.00 3.01
2847 7962 2.237143 CTGTTTCCCTCTGCAGTATCCA 59.763 50.000 14.67 2.22 0.00 3.41
2856 7971 1.394917 CTGCAGTATCCACAACGCTTC 59.605 52.381 5.25 0.00 0.00 3.86
2908 8023 6.533730 TGAGAAAGTGATCCTGTGTTATGTT 58.466 36.000 0.00 0.00 0.00 2.71
2945 8070 0.539051 ATGGGTCTGCTGAGTACTGC 59.461 55.000 0.00 0.00 40.53 4.40
2991 8116 8.918202 AACTTGTTAACTTGATGAATCCTACA 57.082 30.769 7.22 0.00 0.00 2.74
3111 8236 5.107104 ACGACATAAATGCAGGTATAATGCG 60.107 40.000 0.00 2.02 46.87 4.73
3131 8256 3.181520 GCGGTTTTGAGCAGTAGTGTATG 60.182 47.826 0.00 0.00 0.00 2.39
3137 8262 7.413000 GGTTTTGAGCAGTAGTGTATGTGTATG 60.413 40.741 0.00 0.00 0.00 2.39
3138 8263 5.262588 TGAGCAGTAGTGTATGTGTATGG 57.737 43.478 0.00 0.00 0.00 2.74
3603 8746 0.909610 TCAAGGAGCTCGGGGACAAT 60.910 55.000 7.83 0.00 0.00 2.71
3749 8921 2.922503 TGCGTGAGGCTGGGAGAA 60.923 61.111 0.00 0.00 44.05 2.87
3750 8922 2.435059 GCGTGAGGCTGGGAGAAC 60.435 66.667 0.00 0.00 39.11 3.01
3764 8936 5.684030 GCTGGGAGAACCGATCTGTTTATAA 60.684 44.000 3.88 0.00 44.64 0.98
3765 8937 6.494666 TGGGAGAACCGATCTGTTTATAAT 57.505 37.500 3.88 0.00 44.64 1.28
3766 8938 7.606135 TGGGAGAACCGATCTGTTTATAATA 57.394 36.000 3.88 0.00 44.64 0.98
3767 8939 8.202461 TGGGAGAACCGATCTGTTTATAATAT 57.798 34.615 3.88 0.00 44.64 1.28
3768 8940 9.316594 TGGGAGAACCGATCTGTTTATAATATA 57.683 33.333 3.88 0.00 44.64 0.86
3853 9033 4.099881 ACTTGGTTGTGCATGAAGATTGTT 59.900 37.500 0.00 0.00 0.00 2.83
3855 9035 3.243805 TGGTTGTGCATGAAGATTGTTGG 60.244 43.478 0.00 0.00 0.00 3.77
3859 9039 5.471556 TGTGCATGAAGATTGTTGGATTT 57.528 34.783 0.00 0.00 0.00 2.17
3863 9043 5.221682 TGCATGAAGATTGTTGGATTTTGGT 60.222 36.000 0.00 0.00 0.00 3.67
3864 9044 5.349543 GCATGAAGATTGTTGGATTTTGGTC 59.650 40.000 0.00 0.00 0.00 4.02
3865 9045 6.694447 CATGAAGATTGTTGGATTTTGGTCT 58.306 36.000 0.00 0.00 0.00 3.85
3869 9049 9.527157 TGAAGATTGTTGGATTTTGGTCTTATA 57.473 29.630 0.00 0.00 0.00 0.98
3920 9101 6.801575 TGTTTGAGAATTTACACCTGGTTTC 58.198 36.000 0.00 0.00 0.00 2.78
3922 9103 4.403734 TGAGAATTTACACCTGGTTTCCC 58.596 43.478 0.00 0.00 0.00 3.97
3924 9105 5.074746 AGAATTTACACCTGGTTTCCCTT 57.925 39.130 0.00 0.00 0.00 3.95
3939 9120 5.395214 GGTTTCCCTTTTGTTTGAGATGTGT 60.395 40.000 0.00 0.00 0.00 3.72
3940 9121 6.183360 GGTTTCCCTTTTGTTTGAGATGTGTA 60.183 38.462 0.00 0.00 0.00 2.90
3941 9122 7.433680 GTTTCCCTTTTGTTTGAGATGTGTAT 58.566 34.615 0.00 0.00 0.00 2.29
3942 9123 7.595819 TTCCCTTTTGTTTGAGATGTGTATT 57.404 32.000 0.00 0.00 0.00 1.89
3943 9124 7.595819 TCCCTTTTGTTTGAGATGTGTATTT 57.404 32.000 0.00 0.00 0.00 1.40
3944 9125 7.432869 TCCCTTTTGTTTGAGATGTGTATTTG 58.567 34.615 0.00 0.00 0.00 2.32
3945 9126 7.286546 TCCCTTTTGTTTGAGATGTGTATTTGA 59.713 33.333 0.00 0.00 0.00 2.69
3946 9127 7.925483 CCCTTTTGTTTGAGATGTGTATTTGAA 59.075 33.333 0.00 0.00 0.00 2.69
3947 9128 8.971321 CCTTTTGTTTGAGATGTGTATTTGAAG 58.029 33.333 0.00 0.00 0.00 3.02
3948 9129 9.520204 CTTTTGTTTGAGATGTGTATTTGAAGT 57.480 29.630 0.00 0.00 0.00 3.01
3950 9131 9.944663 TTTGTTTGAGATGTGTATTTGAAGTAC 57.055 29.630 0.00 0.00 0.00 2.73
3951 9132 8.902540 TGTTTGAGATGTGTATTTGAAGTACT 57.097 30.769 0.00 0.00 0.00 2.73
3952 9133 9.990360 TGTTTGAGATGTGTATTTGAAGTACTA 57.010 29.630 0.00 0.00 0.00 1.82
3954 9135 8.703604 TTGAGATGTGTATTTGAAGTACTAGC 57.296 34.615 0.00 0.00 0.00 3.42
3955 9136 8.067751 TGAGATGTGTATTTGAAGTACTAGCT 57.932 34.615 0.00 0.00 0.00 3.32
3956 9137 8.531982 TGAGATGTGTATTTGAAGTACTAGCTT 58.468 33.333 0.00 0.00 0.00 3.74
3957 9138 9.372369 GAGATGTGTATTTGAAGTACTAGCTTT 57.628 33.333 0.00 0.00 0.00 3.51
3958 9139 9.155975 AGATGTGTATTTGAAGTACTAGCTTTG 57.844 33.333 0.00 0.00 0.00 2.77
3959 9140 7.129109 TGTGTATTTGAAGTACTAGCTTTGC 57.871 36.000 0.00 0.00 0.00 3.68
3960 9141 6.708502 TGTGTATTTGAAGTACTAGCTTTGCA 59.291 34.615 0.00 0.00 0.00 4.08
3961 9142 7.015877 GTGTATTTGAAGTACTAGCTTTGCAC 58.984 38.462 0.00 0.00 0.00 4.57
3962 9143 6.934645 TGTATTTGAAGTACTAGCTTTGCACT 59.065 34.615 0.00 0.00 0.00 4.40
3963 9144 8.092068 TGTATTTGAAGTACTAGCTTTGCACTA 58.908 33.333 0.00 0.00 0.00 2.74
3964 9145 7.979444 ATTTGAAGTACTAGCTTTGCACTAA 57.021 32.000 0.00 0.00 0.00 2.24
3965 9146 7.979444 TTTGAAGTACTAGCTTTGCACTAAT 57.021 32.000 0.00 0.00 0.00 1.73
3966 9147 7.979444 TTGAAGTACTAGCTTTGCACTAATT 57.021 32.000 0.00 0.00 0.00 1.40
3967 9148 7.979444 TGAAGTACTAGCTTTGCACTAATTT 57.021 32.000 0.00 0.00 0.00 1.82
3968 9149 8.391075 TGAAGTACTAGCTTTGCACTAATTTT 57.609 30.769 0.00 0.00 0.00 1.82
3969 9150 8.289618 TGAAGTACTAGCTTTGCACTAATTTTG 58.710 33.333 0.00 0.00 0.00 2.44
3970 9151 7.745620 AGTACTAGCTTTGCACTAATTTTGT 57.254 32.000 0.00 0.00 0.00 2.83
3971 9152 8.842358 AGTACTAGCTTTGCACTAATTTTGTA 57.158 30.769 0.00 0.00 0.00 2.41
3972 9153 9.280174 AGTACTAGCTTTGCACTAATTTTGTAA 57.720 29.630 0.00 0.00 0.00 2.41
3973 9154 9.887406 GTACTAGCTTTGCACTAATTTTGTAAA 57.113 29.630 0.00 3.94 0.00 2.01
3975 9156 9.410556 ACTAGCTTTGCACTAATTTTGTAAATG 57.589 29.630 0.00 2.02 29.69 2.32
3976 9157 7.656707 AGCTTTGCACTAATTTTGTAAATGG 57.343 32.000 0.00 0.00 29.69 3.16
3977 9158 7.441017 AGCTTTGCACTAATTTTGTAAATGGA 58.559 30.769 0.00 0.00 29.69 3.41
3978 9159 7.599998 AGCTTTGCACTAATTTTGTAAATGGAG 59.400 33.333 0.00 0.00 29.69 3.86
3979 9160 7.384932 GCTTTGCACTAATTTTGTAAATGGAGT 59.615 33.333 0.00 0.00 29.69 3.85
3980 9161 8.586570 TTTGCACTAATTTTGTAAATGGAGTG 57.413 30.769 15.93 15.93 36.88 3.51
3981 9162 6.686630 TGCACTAATTTTGTAAATGGAGTGG 58.313 36.000 18.95 8.99 34.88 4.00
3982 9163 6.491745 TGCACTAATTTTGTAAATGGAGTGGA 59.508 34.615 18.95 16.13 34.88 4.02
3983 9164 7.178274 TGCACTAATTTTGTAAATGGAGTGGAT 59.822 33.333 18.95 0.00 34.88 3.41
3984 9165 8.682710 GCACTAATTTTGTAAATGGAGTGGATA 58.317 33.333 18.95 0.00 34.88 2.59
3990 9171 9.699410 ATTTTGTAAATGGAGTGGATAAGATGA 57.301 29.630 0.00 0.00 0.00 2.92
3991 9172 8.506168 TTTGTAAATGGAGTGGATAAGATGAC 57.494 34.615 0.00 0.00 0.00 3.06
3992 9173 7.437713 TGTAAATGGAGTGGATAAGATGACT 57.562 36.000 0.00 0.00 0.00 3.41
3993 9174 7.275183 TGTAAATGGAGTGGATAAGATGACTG 58.725 38.462 0.00 0.00 0.00 3.51
3994 9175 3.827008 TGGAGTGGATAAGATGACTGC 57.173 47.619 0.00 0.00 0.00 4.40
3995 9176 3.378512 TGGAGTGGATAAGATGACTGCT 58.621 45.455 0.00 0.00 0.00 4.24
3996 9177 3.386078 TGGAGTGGATAAGATGACTGCTC 59.614 47.826 0.00 0.00 0.00 4.26
3997 9178 3.551863 GGAGTGGATAAGATGACTGCTCG 60.552 52.174 0.00 0.00 0.00 5.03
3998 9179 2.363680 AGTGGATAAGATGACTGCTCGG 59.636 50.000 0.00 0.00 0.00 4.63
3999 9180 2.101582 GTGGATAAGATGACTGCTCGGT 59.898 50.000 0.00 0.00 0.00 4.69
4000 9181 2.101415 TGGATAAGATGACTGCTCGGTG 59.899 50.000 0.00 0.00 0.00 4.94
4001 9182 2.101582 GGATAAGATGACTGCTCGGTGT 59.898 50.000 0.00 0.00 0.00 4.16
4002 9183 3.430929 GGATAAGATGACTGCTCGGTGTT 60.431 47.826 0.00 0.00 0.00 3.32
4003 9184 2.550830 AAGATGACTGCTCGGTGTTT 57.449 45.000 0.00 0.00 0.00 2.83
4004 9185 2.550830 AGATGACTGCTCGGTGTTTT 57.449 45.000 0.00 0.00 0.00 2.43
4005 9186 2.851195 AGATGACTGCTCGGTGTTTTT 58.149 42.857 0.00 0.00 0.00 1.94
4507 9688 2.526110 GGGGAGGTGCCAAGGTTT 59.474 61.111 0.00 0.00 38.95 3.27
4508 9689 1.152333 GGGGAGGTGCCAAGGTTTT 60.152 57.895 0.00 0.00 38.95 2.43
4509 9690 1.471829 GGGGAGGTGCCAAGGTTTTG 61.472 60.000 0.00 0.00 38.95 2.44
4510 9691 0.469144 GGGAGGTGCCAAGGTTTTGA 60.469 55.000 0.00 0.00 38.95 2.69
4511 9692 1.408969 GGAGGTGCCAAGGTTTTGAA 58.591 50.000 0.00 0.00 36.36 2.69
4512 9693 1.760029 GGAGGTGCCAAGGTTTTGAAA 59.240 47.619 0.00 0.00 36.36 2.69
4513 9694 2.224042 GGAGGTGCCAAGGTTTTGAAAG 60.224 50.000 0.00 0.00 36.36 2.62
4514 9695 2.430694 GAGGTGCCAAGGTTTTGAAAGT 59.569 45.455 0.00 0.00 36.36 2.66
4515 9696 2.430694 AGGTGCCAAGGTTTTGAAAGTC 59.569 45.455 0.00 0.00 36.36 3.01
4516 9697 2.430694 GGTGCCAAGGTTTTGAAAGTCT 59.569 45.455 0.00 0.00 36.36 3.24
4517 9698 3.634910 GGTGCCAAGGTTTTGAAAGTCTA 59.365 43.478 0.00 0.00 36.36 2.59
4518 9699 4.280929 GGTGCCAAGGTTTTGAAAGTCTAT 59.719 41.667 0.00 0.00 36.36 1.98
4519 9700 5.461526 GTGCCAAGGTTTTGAAAGTCTATC 58.538 41.667 0.00 0.00 36.36 2.08
4520 9701 5.009610 GTGCCAAGGTTTTGAAAGTCTATCA 59.990 40.000 0.00 0.00 36.36 2.15
4521 9702 5.596361 TGCCAAGGTTTTGAAAGTCTATCAA 59.404 36.000 0.00 0.00 36.36 2.57
4522 9703 6.267471 TGCCAAGGTTTTGAAAGTCTATCAAT 59.733 34.615 0.00 0.00 36.72 2.57
4523 9704 6.587608 GCCAAGGTTTTGAAAGTCTATCAATG 59.412 38.462 0.00 0.00 36.72 2.82
4524 9705 6.587608 CCAAGGTTTTGAAAGTCTATCAATGC 59.412 38.462 0.00 0.00 36.72 3.56
4525 9706 7.373493 CAAGGTTTTGAAAGTCTATCAATGCT 58.627 34.615 0.00 0.00 36.72 3.79
4526 9707 7.150783 AGGTTTTGAAAGTCTATCAATGCTC 57.849 36.000 0.00 0.00 36.72 4.26
4527 9708 6.944862 AGGTTTTGAAAGTCTATCAATGCTCT 59.055 34.615 0.00 0.00 36.72 4.09
4528 9709 7.120432 AGGTTTTGAAAGTCTATCAATGCTCTC 59.880 37.037 0.00 0.00 36.72 3.20
4529 9710 6.653273 TTTGAAAGTCTATCAATGCTCTCG 57.347 37.500 0.00 0.00 36.72 4.04
4530 9711 4.115516 TGAAAGTCTATCAATGCTCTCGC 58.884 43.478 0.00 0.00 0.00 5.03
4531 9712 4.142071 TGAAAGTCTATCAATGCTCTCGCT 60.142 41.667 0.00 0.00 36.97 4.93
4532 9713 3.367992 AGTCTATCAATGCTCTCGCTG 57.632 47.619 0.00 0.00 36.97 5.18
4533 9714 2.954989 AGTCTATCAATGCTCTCGCTGA 59.045 45.455 0.00 0.00 36.97 4.26
4534 9715 3.049206 GTCTATCAATGCTCTCGCTGAC 58.951 50.000 0.00 0.00 36.97 3.51
4535 9716 2.689983 TCTATCAATGCTCTCGCTGACA 59.310 45.455 0.00 0.00 36.97 3.58
4536 9717 1.649664 ATCAATGCTCTCGCTGACAC 58.350 50.000 0.00 0.00 36.97 3.67
4537 9718 0.605083 TCAATGCTCTCGCTGACACT 59.395 50.000 0.00 0.00 36.97 3.55
4538 9719 1.001293 TCAATGCTCTCGCTGACACTT 59.999 47.619 0.00 0.00 36.97 3.16
4539 9720 1.392853 CAATGCTCTCGCTGACACTTC 59.607 52.381 0.00 0.00 36.97 3.01
4540 9721 0.457509 ATGCTCTCGCTGACACTTCG 60.458 55.000 0.00 0.00 36.97 3.79
4541 9722 1.803519 GCTCTCGCTGACACTTCGG 60.804 63.158 0.00 0.00 0.00 4.30
4542 9723 1.153939 CTCTCGCTGACACTTCGGG 60.154 63.158 0.00 0.00 0.00 5.14
4543 9724 2.125912 CTCGCTGACACTTCGGGG 60.126 66.667 0.00 0.00 41.48 5.73
4544 9725 4.373116 TCGCTGACACTTCGGGGC 62.373 66.667 0.00 0.00 40.22 5.80
4546 9727 4.681978 GCTGACACTTCGGGGCGT 62.682 66.667 0.00 0.00 0.00 5.68
4547 9728 2.738521 CTGACACTTCGGGGCGTG 60.739 66.667 0.00 0.00 37.18 5.34
4548 9729 4.308458 TGACACTTCGGGGCGTGG 62.308 66.667 0.00 0.00 35.51 4.94
4561 9742 4.457496 CGTGGCATGGCGAGGACT 62.457 66.667 15.27 0.00 0.00 3.85
4562 9743 2.512515 GTGGCATGGCGAGGACTC 60.513 66.667 15.27 0.00 0.00 3.36
4563 9744 3.785859 TGGCATGGCGAGGACTCC 61.786 66.667 15.27 0.00 0.00 3.85
4564 9745 3.785859 GGCATGGCGAGGACTCCA 61.786 66.667 2.41 0.00 35.28 3.86
4565 9746 2.512515 GCATGGCGAGGACTCCAC 60.513 66.667 0.00 0.00 33.52 4.02
4566 9747 3.023949 GCATGGCGAGGACTCCACT 62.024 63.158 0.00 0.00 33.52 4.00
4567 9748 1.153489 CATGGCGAGGACTCCACTG 60.153 63.158 0.00 0.00 33.52 3.66
4568 9749 1.610673 ATGGCGAGGACTCCACTGT 60.611 57.895 0.00 0.00 33.52 3.55
4569 9750 1.892819 ATGGCGAGGACTCCACTGTG 61.893 60.000 0.00 0.00 33.52 3.66
4570 9751 2.433318 GCGAGGACTCCACTGTGC 60.433 66.667 1.29 0.00 0.00 4.57
4571 9752 3.051210 CGAGGACTCCACTGTGCA 58.949 61.111 1.29 0.00 0.00 4.57
4572 9753 1.593787 CGAGGACTCCACTGTGCAT 59.406 57.895 1.29 0.00 0.00 3.96
4573 9754 0.738762 CGAGGACTCCACTGTGCATG 60.739 60.000 1.29 0.00 0.00 4.06
4574 9755 0.610174 GAGGACTCCACTGTGCATGA 59.390 55.000 1.29 0.00 0.00 3.07
4575 9756 0.322975 AGGACTCCACTGTGCATGAC 59.677 55.000 1.29 0.00 0.00 3.06
4576 9757 0.322975 GGACTCCACTGTGCATGACT 59.677 55.000 1.29 0.00 0.00 3.41
4577 9758 1.271054 GGACTCCACTGTGCATGACTT 60.271 52.381 1.29 0.00 0.00 3.01
4578 9759 2.072298 GACTCCACTGTGCATGACTTC 58.928 52.381 1.29 0.00 0.00 3.01
4579 9760 1.696336 ACTCCACTGTGCATGACTTCT 59.304 47.619 1.29 0.00 0.00 2.85
4580 9761 2.899900 ACTCCACTGTGCATGACTTCTA 59.100 45.455 1.29 0.00 0.00 2.10
4581 9762 3.517100 ACTCCACTGTGCATGACTTCTAT 59.483 43.478 1.29 0.00 0.00 1.98
4582 9763 4.019860 ACTCCACTGTGCATGACTTCTATT 60.020 41.667 1.29 0.00 0.00 1.73
4583 9764 4.910195 TCCACTGTGCATGACTTCTATTT 58.090 39.130 1.29 0.00 0.00 1.40
4584 9765 5.316167 TCCACTGTGCATGACTTCTATTTT 58.684 37.500 1.29 0.00 0.00 1.82
4585 9766 5.769662 TCCACTGTGCATGACTTCTATTTTT 59.230 36.000 1.29 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 6.669154 AGGAATGAACAAATTATCCACCACAT 59.331 34.615 0.00 0.00 0.00 3.21
10 11 7.148154 CGTTAGGAATGAACAAATTATCCACCA 60.148 37.037 0.00 0.00 0.00 4.17
17 18 8.300286 TGCAATTCGTTAGGAATGAACAAATTA 58.700 29.630 0.71 0.00 44.59 1.40
43 44 7.093289 CCCTTGTATCGAATATATCCAAGACCT 60.093 40.741 0.00 0.00 29.88 3.85
44 45 7.042335 CCCTTGTATCGAATATATCCAAGACC 58.958 42.308 0.00 0.00 29.88 3.85
61 62 5.140454 GTTGGATTAAGCCATCCCTTGTAT 58.860 41.667 14.31 0.00 42.14 2.29
81 82 4.288531 CAGCTTTGCTCTCTTTCTTGTTG 58.711 43.478 0.00 0.00 36.40 3.33
112 113 8.734386 CAAGCATAAAACTCAAAGAGGATAGTT 58.266 33.333 0.00 0.00 33.35 2.24
143 144 9.976511 TTTGAGTTGTACACTACATATATAGGC 57.023 33.333 0.00 0.00 38.68 3.93
164 165 6.481134 CACATGTATCGACCTTTCATTTGAG 58.519 40.000 0.00 0.00 0.00 3.02
197 198 9.936759 TTTAATAGGTTTTTCATGTTGGAATCC 57.063 29.630 0.00 0.00 0.00 3.01
256 257 8.989131 AGCAGAAATTATCCCTAACTAGTTACA 58.011 33.333 11.38 0.00 0.00 2.41
257 258 9.833917 AAGCAGAAATTATCCCTAACTAGTTAC 57.166 33.333 11.38 0.00 0.00 2.50
352 354 5.983540 ACTGTTTTGGGCACTATTTGAAAA 58.016 33.333 0.00 0.00 0.00 2.29
377 379 1.391485 CGTTTCGGACAGCTGAGATTG 59.609 52.381 23.35 5.30 0.00 2.67
410 412 0.554792 TCCTTACTACTCCCTCCGGG 59.445 60.000 0.00 0.00 46.11 5.73
411 413 2.516906 GATCCTTACTACTCCCTCCGG 58.483 57.143 0.00 0.00 0.00 5.14
445 447 2.092968 ACAATGTGAGTGGGTGCGATAT 60.093 45.455 0.00 0.00 0.00 1.63
446 448 1.277842 ACAATGTGAGTGGGTGCGATA 59.722 47.619 0.00 0.00 0.00 2.92
447 449 0.036732 ACAATGTGAGTGGGTGCGAT 59.963 50.000 0.00 0.00 0.00 4.58
448 450 0.682292 TACAATGTGAGTGGGTGCGA 59.318 50.000 0.00 0.00 0.00 5.10
449 451 1.737838 ATACAATGTGAGTGGGTGCG 58.262 50.000 0.00 0.00 0.00 5.34
450 452 3.605634 TGTATACAATGTGAGTGGGTGC 58.394 45.455 2.20 0.00 0.00 5.01
466 468 8.576442 TGCTTATCGATGATGAAAGACTGTATA 58.424 33.333 8.54 0.00 0.00 1.47
485 487 4.022503 GGAATGAATCTGCCCTTGCTTATC 60.023 45.833 0.00 0.00 38.71 1.75
496 498 7.118245 CCTTTGTTTTTAAGGGAATGAATCTGC 59.882 37.037 0.00 0.00 38.79 4.26
498 500 8.491045 TCCTTTGTTTTTAAGGGAATGAATCT 57.509 30.769 0.00 0.00 42.02 2.40
500 502 8.933653 TCTTCCTTTGTTTTTAAGGGAATGAAT 58.066 29.630 3.10 0.00 42.59 2.57
503 505 8.992073 CATTCTTCCTTTGTTTTTAAGGGAATG 58.008 33.333 13.90 13.90 42.59 2.67
577 580 5.527951 TCAACAATGTCAAGTACCGCTAAAA 59.472 36.000 0.00 0.00 0.00 1.52
584 587 8.474006 AAAACTTTTCAACAATGTCAAGTACC 57.526 30.769 0.00 0.00 32.87 3.34
662 676 5.585047 GTCATGGTAAAAGCTCCGTAGAAAT 59.415 40.000 0.00 0.00 0.00 2.17
685 699 4.540099 TGAAATATCTGGTGGAAAGGGAGT 59.460 41.667 0.00 0.00 0.00 3.85
707 721 9.781834 GAAGATATTTGGAGATACTACTCGATG 57.218 37.037 0.00 0.00 37.74 3.84
723 746 7.042389 GCTACTTCCGGAAAGAGAAGATATTTG 60.042 40.741 23.09 8.55 41.69 2.32
749 772 0.954452 GGGGAGAAAAGTGTGCTGTG 59.046 55.000 0.00 0.00 0.00 3.66
750 773 0.550914 TGGGGAGAAAAGTGTGCTGT 59.449 50.000 0.00 0.00 0.00 4.40
810 834 2.406401 CGTAGGCGTACGTGGGAG 59.594 66.667 26.31 2.54 45.84 4.30
853 877 7.508977 TCTCCCCTTTTCTGATTTGTTTTATGT 59.491 33.333 0.00 0.00 0.00 2.29
977 1024 2.960688 GCTGCTTCCCTTCTCCCGT 61.961 63.158 0.00 0.00 0.00 5.28
980 1027 2.124942 CCGCTGCTTCCCTTCTCC 60.125 66.667 0.00 0.00 0.00 3.71
984 1039 1.222936 CATCTCCGCTGCTTCCCTT 59.777 57.895 0.00 0.00 0.00 3.95
989 1044 1.220206 CTCACCATCTCCGCTGCTT 59.780 57.895 0.00 0.00 0.00 3.91
993 1048 4.521062 GCGCTCACCATCTCCGCT 62.521 66.667 0.00 0.00 41.28 5.52
1270 2402 2.307768 ACGGCGATCAATCTAGGAAGA 58.692 47.619 16.62 0.00 35.80 2.87
1273 2405 1.754803 ACAACGGCGATCAATCTAGGA 59.245 47.619 16.62 0.00 0.00 2.94
1321 2996 1.403679 CTCTCTTCCAGCGGTCAGTAG 59.596 57.143 0.00 0.00 0.00 2.57
1329 3010 1.153667 GTCTGCCTCTCTTCCAGCG 60.154 63.158 0.00 0.00 0.00 5.18
1334 3015 0.179124 AATCGCGTCTGCCTCTCTTC 60.179 55.000 5.77 0.00 38.08 2.87
1341 3022 2.401195 GAAGCAATCGCGTCTGCC 59.599 61.111 24.49 11.75 42.61 4.85
1372 3053 8.622948 GGTAACCAGGATCAATTAATTCCTAG 57.377 38.462 6.83 3.38 37.80 3.02
1395 3084 2.044806 AACGCTGCAGAGAGTTGGGT 62.045 55.000 25.03 3.98 40.35 4.51
1455 3712 0.107831 TGCCAATACTACCGGGATGC 59.892 55.000 6.32 0.00 0.00 3.91
1457 3714 1.971357 CTCTGCCAATACTACCGGGAT 59.029 52.381 6.32 0.00 0.00 3.85
1458 3715 1.063492 TCTCTGCCAATACTACCGGGA 60.063 52.381 6.32 0.00 0.00 5.14
1460 3717 3.536956 TTTCTCTGCCAATACTACCGG 57.463 47.619 0.00 0.00 0.00 5.28
1461 3718 6.706270 ACATAATTTCTCTGCCAATACTACCG 59.294 38.462 0.00 0.00 0.00 4.02
1462 3719 7.499232 ACACATAATTTCTCTGCCAATACTACC 59.501 37.037 0.00 0.00 0.00 3.18
1463 3720 8.438676 ACACATAATTTCTCTGCCAATACTAC 57.561 34.615 0.00 0.00 0.00 2.73
1464 3721 8.486210 AGACACATAATTTCTCTGCCAATACTA 58.514 33.333 0.00 0.00 0.00 1.82
1465 3722 7.281774 CAGACACATAATTTCTCTGCCAATACT 59.718 37.037 0.00 0.00 0.00 2.12
1466 3723 7.412853 CAGACACATAATTTCTCTGCCAATAC 58.587 38.462 0.00 0.00 0.00 1.89
1467 3724 6.543465 CCAGACACATAATTTCTCTGCCAATA 59.457 38.462 0.00 0.00 0.00 1.90
1468 3725 5.359009 CCAGACACATAATTTCTCTGCCAAT 59.641 40.000 0.00 0.00 0.00 3.16
1469 3726 4.701651 CCAGACACATAATTTCTCTGCCAA 59.298 41.667 0.00 0.00 0.00 4.52
1470 3727 4.263462 ACCAGACACATAATTTCTCTGCCA 60.263 41.667 0.00 0.00 0.00 4.92
1471 3728 4.265073 ACCAGACACATAATTTCTCTGCC 58.735 43.478 0.00 0.00 0.00 4.85
1472 3729 4.333926 GGACCAGACACATAATTTCTCTGC 59.666 45.833 0.00 0.00 0.00 4.26
1473 3730 4.568359 CGGACCAGACACATAATTTCTCTG 59.432 45.833 0.00 0.00 0.00 3.35
1474 3731 4.383118 CCGGACCAGACACATAATTTCTCT 60.383 45.833 0.00 0.00 0.00 3.10
1475 3732 3.871594 CCGGACCAGACACATAATTTCTC 59.128 47.826 0.00 0.00 0.00 2.87
1480 3737 3.637229 CTCTACCGGACCAGACACATAAT 59.363 47.826 9.46 0.00 0.00 1.28
1481 3738 3.021695 CTCTACCGGACCAGACACATAA 58.978 50.000 9.46 0.00 0.00 1.90
1482 3739 2.651455 CTCTACCGGACCAGACACATA 58.349 52.381 9.46 0.00 0.00 2.29
1568 3864 1.299089 GACTGCAACAACCCGCAAC 60.299 57.895 0.00 0.00 37.76 4.17
1596 3892 4.039852 GGCAAAACAAATTTCCCCACTAGA 59.960 41.667 0.00 0.00 0.00 2.43
1677 6549 2.239751 TGCAATCGCATTGTAACACG 57.760 45.000 9.58 0.00 45.36 4.49
1906 6808 2.364970 TGGCCAAGTTTCCAAACATCTG 59.635 45.455 0.61 0.00 41.30 2.90
2054 6956 5.700832 TCGATTGTTTCAGCAAGTACAGAAT 59.299 36.000 0.00 0.00 0.00 2.40
2174 7079 1.144708 TGTTGGGGATTCTGCAACTCA 59.855 47.619 0.00 0.00 0.00 3.41
2297 7203 6.229936 ACTATGGCTCGAACCACTATTTAA 57.770 37.500 10.31 0.00 44.17 1.52
2298 7204 5.864418 ACTATGGCTCGAACCACTATTTA 57.136 39.130 10.31 0.00 44.17 1.40
2457 7365 6.829811 TCCAGCAGAATGATTTGAATACATGA 59.170 34.615 0.00 0.00 39.69 3.07
2466 7374 4.158949 TGACCAATCCAGCAGAATGATTTG 59.841 41.667 0.00 0.00 39.69 2.32
2537 7445 4.261578 AGCATGTTTGACCAAAATCCAG 57.738 40.909 0.00 0.00 31.33 3.86
2689 7601 6.866480 TCATCCAAGGAAGAAACAAATATGC 58.134 36.000 0.00 0.00 0.00 3.14
2692 7604 7.454380 ACCAATCATCCAAGGAAGAAACAAATA 59.546 33.333 0.00 0.00 0.00 1.40
2693 7605 6.270695 ACCAATCATCCAAGGAAGAAACAAAT 59.729 34.615 0.00 0.00 0.00 2.32
2694 7606 5.602145 ACCAATCATCCAAGGAAGAAACAAA 59.398 36.000 0.00 0.00 0.00 2.83
2695 7607 5.147032 ACCAATCATCCAAGGAAGAAACAA 58.853 37.500 0.00 0.00 0.00 2.83
2696 7608 4.739793 ACCAATCATCCAAGGAAGAAACA 58.260 39.130 0.00 0.00 0.00 2.83
2697 7609 5.728637 AACCAATCATCCAAGGAAGAAAC 57.271 39.130 0.00 0.00 0.00 2.78
2698 7610 6.745794 AAAACCAATCATCCAAGGAAGAAA 57.254 33.333 0.00 0.00 0.00 2.52
2733 7656 9.952030 TGTACAAATCAGACAAGAATATGGTTA 57.048 29.630 0.00 0.00 0.00 2.85
2770 7884 7.093945 ACCAGCAATAACAATAAGGGTAAACAG 60.094 37.037 0.00 0.00 0.00 3.16
2773 7887 6.153680 CCACCAGCAATAACAATAAGGGTAAA 59.846 38.462 0.00 0.00 0.00 2.01
2785 7899 2.100749 GGCATTACCCACCAGCAATAAC 59.899 50.000 0.00 0.00 0.00 1.89
2795 7909 1.544246 GGACAAACAGGCATTACCCAC 59.456 52.381 0.00 0.00 40.58 4.61
2797 7911 1.182667 GGGACAAACAGGCATTACCC 58.817 55.000 0.00 0.00 40.58 3.69
2814 7928 4.079970 GAGGGAAACAGTTCTTTTAGGGG 58.920 47.826 0.00 0.00 33.92 4.79
2827 7942 2.027192 GTGGATACTGCAGAGGGAAACA 60.027 50.000 23.35 6.88 37.61 2.83
2856 7971 7.581476 AGATGGTGTAATAAGAACAAACAACG 58.419 34.615 0.00 0.00 30.29 4.10
2864 7979 9.436957 TTTCTCAAGAGATGGTGTAATAAGAAC 57.563 33.333 0.00 0.00 37.29 3.01
2908 8023 4.476113 ACCCATCCAAGAAGAAGATGATGA 59.524 41.667 0.00 0.00 39.84 2.92
2970 8095 8.321353 ACAGATGTAGGATTCATCAAGTTAACA 58.679 33.333 8.61 0.00 42.63 2.41
2991 8116 3.072915 TGACATCACCTGGACAAACAGAT 59.927 43.478 0.00 0.00 40.97 2.90
3082 8207 4.621068 ACCTGCATTTATGTCGTTCATG 57.379 40.909 0.00 0.00 37.91 3.07
3111 8236 4.755123 ACACATACACTACTGCTCAAAACC 59.245 41.667 0.00 0.00 0.00 3.27
3131 8256 3.244770 TGAAAACAGGACTCCCCATACAC 60.245 47.826 0.00 0.00 37.41 2.90
3137 8262 0.771755 ACCTGAAAACAGGACTCCCC 59.228 55.000 20.85 0.00 45.00 4.81
3138 8263 2.230660 CAACCTGAAAACAGGACTCCC 58.769 52.381 20.85 0.00 45.00 4.30
3712 8856 2.031157 CAGAAAACCCATCGAACCACAC 60.031 50.000 0.00 0.00 0.00 3.82
3715 8859 1.243902 GCAGAAAACCCATCGAACCA 58.756 50.000 0.00 0.00 0.00 3.67
3716 8860 0.168128 CGCAGAAAACCCATCGAACC 59.832 55.000 0.00 0.00 0.00 3.62
3717 8861 0.872388 ACGCAGAAAACCCATCGAAC 59.128 50.000 0.00 0.00 0.00 3.95
3718 8862 0.871722 CACGCAGAAAACCCATCGAA 59.128 50.000 0.00 0.00 0.00 3.71
3822 9002 1.525995 CACAACCAAGTCCCTGCGT 60.526 57.895 0.00 0.00 0.00 5.24
3920 9101 7.432869 TCAAATACACATCTCAAACAAAAGGG 58.567 34.615 0.00 0.00 0.00 3.95
3922 9103 9.520204 ACTTCAAATACACATCTCAAACAAAAG 57.480 29.630 0.00 0.00 0.00 2.27
3924 9105 9.944663 GTACTTCAAATACACATCTCAAACAAA 57.055 29.630 0.00 0.00 0.00 2.83
3939 9120 9.667107 ATTAGTGCAAAGCTAGTACTTCAAATA 57.333 29.630 13.50 0.00 33.87 1.40
3940 9121 7.979444 TTAGTGCAAAGCTAGTACTTCAAAT 57.021 32.000 13.50 0.00 33.87 2.32
3941 9122 7.979444 ATTAGTGCAAAGCTAGTACTTCAAA 57.021 32.000 13.50 4.86 33.87 2.69
3942 9123 7.979444 AATTAGTGCAAAGCTAGTACTTCAA 57.021 32.000 13.50 5.44 33.87 2.69
3943 9124 7.979444 AAATTAGTGCAAAGCTAGTACTTCA 57.021 32.000 13.50 4.07 33.87 3.02
3944 9125 8.290325 ACAAAATTAGTGCAAAGCTAGTACTTC 58.710 33.333 13.50 0.00 33.87 3.01
3945 9126 8.166422 ACAAAATTAGTGCAAAGCTAGTACTT 57.834 30.769 13.50 0.00 33.87 2.24
3946 9127 7.745620 ACAAAATTAGTGCAAAGCTAGTACT 57.254 32.000 12.98 12.98 36.00 2.73
3947 9128 9.887406 TTTACAAAATTAGTGCAAAGCTAGTAC 57.113 29.630 0.00 0.00 0.00 2.73
3949 9130 9.410556 CATTTACAAAATTAGTGCAAAGCTAGT 57.589 29.630 0.00 0.00 0.00 2.57
3950 9131 8.863049 CCATTTACAAAATTAGTGCAAAGCTAG 58.137 33.333 0.00 0.00 0.00 3.42
3951 9132 8.580720 TCCATTTACAAAATTAGTGCAAAGCTA 58.419 29.630 0.00 0.00 0.00 3.32
3952 9133 7.441017 TCCATTTACAAAATTAGTGCAAAGCT 58.559 30.769 0.00 0.00 0.00 3.74
3953 9134 7.384932 ACTCCATTTACAAAATTAGTGCAAAGC 59.615 33.333 0.00 0.00 0.00 3.51
3954 9135 8.702438 CACTCCATTTACAAAATTAGTGCAAAG 58.298 33.333 0.00 0.00 0.00 2.77
3955 9136 7.655328 CCACTCCATTTACAAAATTAGTGCAAA 59.345 33.333 13.92 0.00 33.44 3.68
3956 9137 7.014711 TCCACTCCATTTACAAAATTAGTGCAA 59.985 33.333 13.92 6.53 33.44 4.08
3957 9138 6.491745 TCCACTCCATTTACAAAATTAGTGCA 59.508 34.615 13.92 0.00 33.44 4.57
3958 9139 6.919721 TCCACTCCATTTACAAAATTAGTGC 58.080 36.000 13.92 0.00 33.44 4.40
3964 9145 9.699410 TCATCTTATCCACTCCATTTACAAAAT 57.301 29.630 0.00 0.00 0.00 1.82
3965 9146 8.956426 GTCATCTTATCCACTCCATTTACAAAA 58.044 33.333 0.00 0.00 0.00 2.44
3966 9147 8.328758 AGTCATCTTATCCACTCCATTTACAAA 58.671 33.333 0.00 0.00 0.00 2.83
3967 9148 7.770433 CAGTCATCTTATCCACTCCATTTACAA 59.230 37.037 0.00 0.00 0.00 2.41
3968 9149 7.275183 CAGTCATCTTATCCACTCCATTTACA 58.725 38.462 0.00 0.00 0.00 2.41
3969 9150 6.203723 GCAGTCATCTTATCCACTCCATTTAC 59.796 42.308 0.00 0.00 0.00 2.01
3970 9151 6.100279 AGCAGTCATCTTATCCACTCCATTTA 59.900 38.462 0.00 0.00 0.00 1.40
3971 9152 5.104193 AGCAGTCATCTTATCCACTCCATTT 60.104 40.000 0.00 0.00 0.00 2.32
3972 9153 4.411540 AGCAGTCATCTTATCCACTCCATT 59.588 41.667 0.00 0.00 0.00 3.16
3973 9154 3.972638 AGCAGTCATCTTATCCACTCCAT 59.027 43.478 0.00 0.00 0.00 3.41
3974 9155 3.378512 AGCAGTCATCTTATCCACTCCA 58.621 45.455 0.00 0.00 0.00 3.86
3975 9156 3.551863 CGAGCAGTCATCTTATCCACTCC 60.552 52.174 0.00 0.00 0.00 3.85
3976 9157 3.551863 CCGAGCAGTCATCTTATCCACTC 60.552 52.174 0.00 0.00 0.00 3.51
3977 9158 2.363680 CCGAGCAGTCATCTTATCCACT 59.636 50.000 0.00 0.00 0.00 4.00
3978 9159 2.101582 ACCGAGCAGTCATCTTATCCAC 59.898 50.000 0.00 0.00 0.00 4.02
3979 9160 2.101415 CACCGAGCAGTCATCTTATCCA 59.899 50.000 0.00 0.00 0.00 3.41
3980 9161 2.101582 ACACCGAGCAGTCATCTTATCC 59.898 50.000 0.00 0.00 0.00 2.59
3981 9162 3.444703 ACACCGAGCAGTCATCTTATC 57.555 47.619 0.00 0.00 0.00 1.75
3982 9163 3.895232 AACACCGAGCAGTCATCTTAT 57.105 42.857 0.00 0.00 0.00 1.73
3983 9164 3.678056 AAACACCGAGCAGTCATCTTA 57.322 42.857 0.00 0.00 0.00 2.10
3984 9165 2.550830 AAACACCGAGCAGTCATCTT 57.449 45.000 0.00 0.00 0.00 2.40
3985 9166 2.550830 AAAACACCGAGCAGTCATCT 57.449 45.000 0.00 0.00 0.00 2.90
4490 9671 1.152333 AAAACCTTGGCACCTCCCC 60.152 57.895 0.00 0.00 0.00 4.81
4491 9672 0.469144 TCAAAACCTTGGCACCTCCC 60.469 55.000 0.00 0.00 33.01 4.30
4492 9673 1.408969 TTCAAAACCTTGGCACCTCC 58.591 50.000 0.00 0.00 33.01 4.30
4493 9674 2.430694 ACTTTCAAAACCTTGGCACCTC 59.569 45.455 0.00 0.00 33.01 3.85
4494 9675 2.430694 GACTTTCAAAACCTTGGCACCT 59.569 45.455 0.00 0.00 33.01 4.00
4495 9676 2.430694 AGACTTTCAAAACCTTGGCACC 59.569 45.455 0.00 0.00 33.01 5.01
4496 9677 3.801114 AGACTTTCAAAACCTTGGCAC 57.199 42.857 0.00 0.00 33.01 5.01
4497 9678 5.136828 TGATAGACTTTCAAAACCTTGGCA 58.863 37.500 0.00 0.00 33.01 4.92
4498 9679 5.705609 TGATAGACTTTCAAAACCTTGGC 57.294 39.130 0.00 0.00 33.01 4.52
4499 9680 6.587608 GCATTGATAGACTTTCAAAACCTTGG 59.412 38.462 11.64 0.00 36.72 3.61
4500 9681 7.373493 AGCATTGATAGACTTTCAAAACCTTG 58.627 34.615 11.64 7.01 36.72 3.61
4501 9682 7.449704 AGAGCATTGATAGACTTTCAAAACCTT 59.550 33.333 11.64 0.00 36.72 3.50
4502 9683 6.944862 AGAGCATTGATAGACTTTCAAAACCT 59.055 34.615 11.64 8.45 36.72 3.50
4503 9684 7.150783 AGAGCATTGATAGACTTTCAAAACC 57.849 36.000 11.64 4.60 36.72 3.27
4504 9685 6.958193 CGAGAGCATTGATAGACTTTCAAAAC 59.042 38.462 11.64 7.52 36.72 2.43
4505 9686 7.065216 CGAGAGCATTGATAGACTTTCAAAA 57.935 36.000 11.64 0.00 36.72 2.44
4506 9687 6.653273 CGAGAGCATTGATAGACTTTCAAA 57.347 37.500 11.64 0.00 36.72 2.69
4524 9705 1.153939 CCCGAAGTGTCAGCGAGAG 60.154 63.158 0.00 0.00 0.00 3.20
4525 9706 2.636412 CCCCGAAGTGTCAGCGAGA 61.636 63.158 0.00 0.00 0.00 4.04
4526 9707 2.125912 CCCCGAAGTGTCAGCGAG 60.126 66.667 0.00 0.00 0.00 5.03
4527 9708 4.373116 GCCCCGAAGTGTCAGCGA 62.373 66.667 0.00 0.00 0.00 4.93
4529 9710 4.681978 ACGCCCCGAAGTGTCAGC 62.682 66.667 0.00 0.00 0.00 4.26
4530 9711 2.738521 CACGCCCCGAAGTGTCAG 60.739 66.667 0.00 0.00 33.97 3.51
4531 9712 4.308458 CCACGCCCCGAAGTGTCA 62.308 66.667 0.00 0.00 36.69 3.58
4544 9725 4.457496 AGTCCTCGCCATGCCACG 62.457 66.667 0.00 0.00 0.00 4.94
4545 9726 2.512515 GAGTCCTCGCCATGCCAC 60.513 66.667 0.00 0.00 0.00 5.01
4546 9727 3.785859 GGAGTCCTCGCCATGCCA 61.786 66.667 0.41 0.00 33.68 4.92
4547 9728 3.785859 TGGAGTCCTCGCCATGCC 61.786 66.667 11.33 0.00 38.55 4.40
4548 9729 2.512515 GTGGAGTCCTCGCCATGC 60.513 66.667 11.33 0.00 44.63 4.06
4549 9730 1.153489 CAGTGGAGTCCTCGCCATG 60.153 63.158 11.33 0.00 44.63 3.66
4550 9731 1.610673 ACAGTGGAGTCCTCGCCAT 60.611 57.895 11.33 0.00 44.63 4.40
4551 9732 2.203640 ACAGTGGAGTCCTCGCCA 60.204 61.111 11.33 0.00 41.02 5.69
4552 9733 2.262915 CACAGTGGAGTCCTCGCC 59.737 66.667 11.33 0.00 0.00 5.54
4553 9734 2.433318 GCACAGTGGAGTCCTCGC 60.433 66.667 11.33 2.32 0.00 5.03
4554 9735 0.738762 CATGCACAGTGGAGTCCTCG 60.739 60.000 11.33 6.18 0.00 4.63
4555 9736 0.610174 TCATGCACAGTGGAGTCCTC 59.390 55.000 11.33 6.96 0.00 3.71
4556 9737 0.322975 GTCATGCACAGTGGAGTCCT 59.677 55.000 11.33 0.00 0.00 3.85
4557 9738 0.322975 AGTCATGCACAGTGGAGTCC 59.677 55.000 0.73 0.73 0.00 3.85
4558 9739 2.072298 GAAGTCATGCACAGTGGAGTC 58.928 52.381 1.84 0.00 0.00 3.36
4559 9740 1.696336 AGAAGTCATGCACAGTGGAGT 59.304 47.619 1.84 0.00 0.00 3.85
4560 9741 2.469274 AGAAGTCATGCACAGTGGAG 57.531 50.000 1.84 0.00 0.00 3.86
4561 9742 4.558226 AATAGAAGTCATGCACAGTGGA 57.442 40.909 1.84 0.00 0.00 4.02
4562 9743 5.633830 AAAATAGAAGTCATGCACAGTGG 57.366 39.130 1.84 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.