Multiple sequence alignment - TraesCS6B01G067700

Loading Multiple Alignment...

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 TraesCS6B01G067700 chr6B 100.000 3097 0 0 1 3097 45618559 45615463 0.000000e+00 5720.0
1 TraesCS6B01G067700 chr6B 91.413 1281 59 29 1 1232 45600358 45599080 0.000000e+00 1709.0
2 TraesCS6B01G067700 chr6B 94.071 1147 30 9 1637 2759 45572611 45571479 0.000000e+00 1707.0
3 TraesCS6B01G067700 chr6B 93.051 993 51 7 1 985 45671351 45670369 0.000000e+00 1435.0
4 TraesCS6B01G067700 chr6B 91.499 894 39 13 1903 2759 45598502 45597609 0.000000e+00 1195.0
5 TraesCS6B01G067700 chr6B 93.944 644 34 1 1526 2169 45670368 45669730 0.000000e+00 968.0
6 TraesCS6B01G067700 chr6B 88.921 686 37 11 769 1454 45573490 45572844 0.000000e+00 809.0
7 TraesCS6B01G067700 chr6B 92.675 314 19 2 1560 1873 45598806 45598497 1.690000e-122 449.0
8 TraesCS6B01G067700 chr6B 97.183 213 5 1 2547 2759 45669483 45669272 2.940000e-95 359.0
9 TraesCS6B01G067700 chr6B 88.356 292 29 4 2756 3045 454088042 454087754 2.290000e-91 346.0
10 TraesCS6B01G067700 chr6B 83.540 322 53 0 1104 1425 93840091 93839770 5.020000e-78 302.0
11 TraesCS6B01G067700 chr6B 79.907 428 68 11 1023 1433 93913999 93913573 6.490000e-77 298.0
12 TraesCS6B01G067700 chr6B 93.701 127 7 1 1327 1453 45599090 45598965 4.080000e-44 189.0
13 TraesCS6B01G067700 chr6B 85.714 105 13 1 2274 2378 93837557 93837455 3.270000e-20 110.0
14 TraesCS6B01G067700 chr6B 96.000 50 1 1 3048 3097 158373605 158373557 2.560000e-11 80.5
15 TraesCS6B01G067700 chr6B 94.000 50 2 1 3048 3097 158631213 158631165 1.190000e-09 75.0
16 TraesCS6B01G067700 chr6A 89.704 1486 109 13 1 1470 26622764 26621307 0.000000e+00 1857.0
17 TraesCS6B01G067700 chr6A 90.121 1235 93 9 1551 2759 26621322 26620091 0.000000e+00 1578.0
18 TraesCS6B01G067700 chr6A 83.486 327 53 1 1104 1429 57931008 57930682 1.400000e-78 303.0
19 TraesCS6B01G067700 chr6A 87.200 125 16 0 2224 2348 57887257 57887133 3.220000e-30 143.0
20 TraesCS6B01G067700 chr6A 95.745 47 2 0 1505 1551 602454108 602454154 3.310000e-10 76.8
21 TraesCS6B01G067700 chrUn 91.960 995 74 2 1553 2546 95232869 95231880 0.000000e+00 1389.0
22 TraesCS6B01G067700 chrUn 94.535 677 33 4 782 1454 95233550 95232874 0.000000e+00 1042.0
23 TraesCS6B01G067700 chrUn 80.800 500 80 13 966 1454 95229487 95228993 8.110000e-101 377.0
24 TraesCS6B01G067700 chrUn 87.372 293 31 5 2756 3045 288665815 288666104 6.400000e-87 331.0
25 TraesCS6B01G067700 chrUn 81.062 433 63 11 1008 1425 18917841 18918269 8.280000e-86 327.0
26 TraesCS6B01G067700 chrUn 95.500 200 9 0 2546 2745 95230314 95230115 1.390000e-83 320.0
27 TraesCS6B01G067700 chrUn 85.185 108 14 1 2265 2372 19084637 19084742 3.270000e-20 110.0
28 TraesCS6B01G067700 chrUn 86.567 67 7 2 1486 1551 66416543 66416478 4.280000e-09 73.1
29 TraesCS6B01G067700 chr5B 91.065 291 24 2 2756 3045 449719945 449719656 2.900000e-105 392.0
30 TraesCS6B01G067700 chr5B 89.273 289 29 2 2757 3044 690174557 690174270 8.160000e-96 361.0
31 TraesCS6B01G067700 chr5B 88.435 294 29 4 2756 3045 32194338 32194630 1.770000e-92 350.0
32 TraesCS6B01G067700 chr5B 88.396 293 29 5 2756 3045 473917540 473917250 6.360000e-92 348.0
33 TraesCS6B01G067700 chr5B 90.385 52 5 0 3046 3097 489030861 489030912 5.540000e-08 69.4
34 TraesCS6B01G067700 chr2B 87.931 290 30 4 2756 3043 384295125 384295411 1.380000e-88 337.0
35 TraesCS6B01G067700 chr2B 86.644 292 33 3 2756 3045 391713178 391713465 4.980000e-83 318.0
36 TraesCS6B01G067700 chr2B 92.308 52 4 0 3046 3097 666678258 666678207 1.190000e-09 75.0
37 TraesCS6B01G067700 chr7B 87.285 291 32 3 2756 3045 414512605 414512891 8.280000e-86 327.0
38 TraesCS6B01G067700 chr7B 94.231 52 3 0 3046 3097 750524626 750524677 2.560000e-11 80.5
39 TraesCS6B01G067700 chr1B 78.195 266 55 3 1 266 671470425 671470163 1.910000e-37 167.0
40 TraesCS6B01G067700 chr1B 78.947 228 42 6 2 225 671542299 671542074 1.920000e-32 150.0
41 TraesCS6B01G067700 chr1B 96.154 52 2 0 3046 3097 410981133 410981082 5.500000e-13 86.1
42 TraesCS6B01G067700 chr1B 95.918 49 1 1 3049 3097 533365661 533365614 9.210000e-11 78.7
43 TraesCS6B01G067700 chr1B 95.745 47 2 0 1505 1551 633041703 633041657 3.310000e-10 76.8
44 TraesCS6B01G067700 chr1D 79.612 206 42 0 61 266 483017111 483016906 6.920000e-32 148.0
45 TraesCS6B01G067700 chr3A 75.817 306 58 14 2 303 728236891 728237184 1.160000e-29 141.0
46 TraesCS6B01G067700 chr3A 79.888 179 32 4 2 179 728098435 728098610 9.010000e-26 128.0
47 TraesCS6B01G067700 chr3D 75.510 245 51 6 8 251 256986573 256986809 9.080000e-21 111.0
48 TraesCS6B01G067700 chr4B 94.231 52 3 0 3046 3097 660800273 660800324 2.560000e-11 80.5
49 TraesCS6B01G067700 chr4B 95.745 47 2 0 1505 1551 145083328 145083282 3.310000e-10 76.8
50 TraesCS6B01G067700 chr4B 92.308 52 4 0 1505 1556 534746461 534746512 1.190000e-09 75.0
51 TraesCS6B01G067700 chr6D 90.909 55 5 0 1501 1555 380589818 380589764 1.190000e-09 75.0
52 TraesCS6B01G067700 chr5D 86.111 72 6 3 1483 1551 1793475 1793405 1.190000e-09 75.0
53 TraesCS6B01G067700 chr5A 87.302 63 7 1 1490 1551 564214411 564214473 1.540000e-08 71.3
54 TraesCS6B01G067700 chr3B 88.136 59 7 0 3039 3097 113655965 113655907 1.540000e-08 71.3


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 TraesCS6B01G067700 chr6B 45615463 45618559 3096 True 5720.000000 5720 100.00000 1 3097 1 chr6B.!!$R1 3096
1 TraesCS6B01G067700 chr6B 45571479 45573490 2011 True 1258.000000 1707 91.49600 769 2759 2 chr6B.!!$R6 1990
2 TraesCS6B01G067700 chr6B 45669272 45671351 2079 True 920.666667 1435 94.72600 1 2759 3 chr6B.!!$R8 2758
3 TraesCS6B01G067700 chr6B 45597609 45600358 2749 True 885.500000 1709 92.32200 1 2759 4 chr6B.!!$R7 2758
4 TraesCS6B01G067700 chr6B 93837455 93840091 2636 True 206.000000 302 84.62700 1104 2378 2 chr6B.!!$R9 1274
5 TraesCS6B01G067700 chr6A 26620091 26622764 2673 True 1717.500000 1857 89.91250 1 2759 2 chr6A.!!$R3 2758
6 TraesCS6B01G067700 chrUn 95228993 95233550 4557 True 782.000000 1389 90.69875 782 2745 4 chrUn.!!$R2 1963

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
226 229 0.389025 TGAGCTGAGAGCACGAACAA 59.611 50.0 0.0 0.0 45.56 2.83 F
1167 1232 0.323178 CCTGCATCCTCCACAAGCTT 60.323 55.0 0.0 0.0 0.00 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1289 1354 0.541764 GAACTTGGGGTGGAATGGCA 60.542 55.0 0.00 0.0 0.0 4.92 R
3009 6989 0.173481 CCGAGAATTGAGGCGTCTGA 59.827 55.0 8.06 0.0 0.0 3.27 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
21 22 1.764854 GATAACCCTCGGCCCCTGA 60.765 63.158 0.00 0.00 0.00 3.86
30 31 2.430367 GGCCCCTGAAACGAGTGT 59.570 61.111 0.00 0.00 0.00 3.55
121 124 1.051812 ACCTTCCTGGCGATCTATGG 58.948 55.000 0.00 0.00 40.22 2.74
160 163 2.158914 TGATAATGTGCTCTGACCGCAT 60.159 45.455 0.00 0.00 39.89 4.73
179 182 5.221106 CCGCATCAATTCACACCATCTAATT 60.221 40.000 0.00 0.00 0.00 1.40
180 183 5.911280 CGCATCAATTCACACCATCTAATTC 59.089 40.000 0.00 0.00 0.00 2.17
182 185 6.238456 GCATCAATTCACACCATCTAATTCGA 60.238 38.462 0.00 0.00 0.00 3.71
194 197 2.429250 TCTAATTCGATGGCCTCACGAA 59.571 45.455 24.79 24.79 46.83 3.85
226 229 0.389025 TGAGCTGAGAGCACGAACAA 59.611 50.000 0.00 0.00 45.56 2.83
257 260 1.356270 CACAACACGCACTGCATGT 59.644 52.632 0.00 0.00 36.20 3.21
270 273 2.780643 CATGTGCACGCTCTTCGG 59.219 61.111 13.13 0.00 43.86 4.30
280 283 2.342279 CTCTTCGGTCCGCCAACA 59.658 61.111 6.34 0.00 34.09 3.33
291 294 1.066502 TCCGCCAACATCATCTTTCGA 60.067 47.619 0.00 0.00 0.00 3.71
468 474 9.832445 ATAGTTGTATCTTATTTGTGGACGAAT 57.168 29.630 0.00 0.00 34.51 3.34
474 480 9.712359 GTATCTTATTTGTGGACGAATAAAACC 57.288 33.333 11.61 0.00 40.05 3.27
475 481 7.989416 TCTTATTTGTGGACGAATAAAACCT 57.011 32.000 11.61 0.00 40.05 3.50
539 549 7.866898 TGTTTTAATCATGTTTGTGATGACCTG 59.133 33.333 0.00 0.00 38.76 4.00
659 669 4.288366 TGTTTGTGATGGTAATCCTCCTCA 59.712 41.667 0.00 0.00 34.23 3.86
855 868 5.196341 ACTGTTACGTCTGTCAGAATCAA 57.804 39.130 3.51 0.00 0.00 2.57
907 924 1.077716 GGCCAGCAAACCGACCTAT 60.078 57.895 0.00 0.00 0.00 2.57
963 988 1.546476 GATCCACCGATATCGAAGCCT 59.454 52.381 26.32 7.83 43.02 4.58
1167 1232 0.323178 CCTGCATCCTCCACAAGCTT 60.323 55.000 0.00 0.00 0.00 3.74
1172 1237 1.004044 CATCCTCCACAAGCTTGACCT 59.996 52.381 32.50 7.93 0.00 3.85
1289 1354 4.657824 CGGCCTGTGGTTCGTCGT 62.658 66.667 0.00 0.00 0.00 4.34
1433 1498 5.707298 CCAAGCAGTAAGATTTCTTCCTTCA 59.293 40.000 0.00 0.00 37.40 3.02
1465 1723 9.862149 TTCCCTAATTAATTACTTTCTCCATCC 57.138 33.333 3.71 0.00 0.00 3.51
1466 1724 8.445588 TCCCTAATTAATTACTTTCTCCATCCC 58.554 37.037 3.71 0.00 0.00 3.85
1467 1725 8.224720 CCCTAATTAATTACTTTCTCCATCCCA 58.775 37.037 3.71 0.00 0.00 4.37
1468 1726 9.640952 CCTAATTAATTACTTTCTCCATCCCAA 57.359 33.333 3.71 0.00 0.00 4.12
1477 1735 7.797121 ACTTTCTCCATCCCAAAATTATTGT 57.203 32.000 0.00 0.00 0.00 2.71
1478 1736 7.840931 ACTTTCTCCATCCCAAAATTATTGTC 58.159 34.615 0.00 0.00 0.00 3.18
1479 1737 7.675619 ACTTTCTCCATCCCAAAATTATTGTCT 59.324 33.333 0.00 0.00 0.00 3.41
1481 1739 7.408756 TCTCCATCCCAAAATTATTGTCTTG 57.591 36.000 0.00 0.00 0.00 3.02
1482 1740 6.380846 TCTCCATCCCAAAATTATTGTCTTGG 59.619 38.462 1.08 1.08 38.45 3.61
1483 1741 6.259893 TCCATCCCAAAATTATTGTCTTGGA 58.740 36.000 8.09 7.91 40.72 3.53
1484 1742 6.902416 TCCATCCCAAAATTATTGTCTTGGAT 59.098 34.615 8.09 5.13 40.72 3.41
1485 1743 7.402650 TCCATCCCAAAATTATTGTCTTGGATT 59.597 33.333 8.09 0.00 40.72 3.01
1486 1744 8.048514 CCATCCCAAAATTATTGTCTTGGATTT 58.951 33.333 8.09 0.00 40.72 2.17
1487 1745 9.101655 CATCCCAAAATTATTGTCTTGGATTTC 57.898 33.333 8.09 0.00 40.72 2.17
1489 1747 8.531146 TCCCAAAATTATTGTCTTGGATTTCTC 58.469 33.333 8.09 0.00 40.72 2.87
1499 1757 7.827819 TGTCTTGGATTTCTCTAAATACACG 57.172 36.000 0.00 0.00 44.04 4.49
1500 1758 7.383687 TGTCTTGGATTTCTCTAAATACACGT 58.616 34.615 0.00 0.00 44.04 4.49
1501 1759 8.525316 TGTCTTGGATTTCTCTAAATACACGTA 58.475 33.333 0.00 0.00 44.04 3.57
1502 1760 9.530633 GTCTTGGATTTCTCTAAATACACGTAT 57.469 33.333 0.00 0.00 44.04 3.06
1503 1761 9.745880 TCTTGGATTTCTCTAAATACACGTATC 57.254 33.333 0.00 0.00 44.04 2.24
1504 1762 9.751542 CTTGGATTTCTCTAAATACACGTATCT 57.248 33.333 0.00 0.00 44.04 1.98
1505 1763 9.745880 TTGGATTTCTCTAAATACACGTATCTC 57.254 33.333 0.00 0.00 44.04 2.75
1506 1764 8.358148 TGGATTTCTCTAAATACACGTATCTCC 58.642 37.037 0.00 0.00 40.35 3.71
1507 1765 8.578151 GGATTTCTCTAAATACACGTATCTCCT 58.422 37.037 0.00 0.00 36.14 3.69
1520 1778 8.466617 ACACGTATCTCCTAATATTCTTGTCT 57.533 34.615 0.00 0.00 0.00 3.41
1521 1779 8.915036 ACACGTATCTCCTAATATTCTTGTCTT 58.085 33.333 0.00 0.00 0.00 3.01
1522 1780 9.186323 CACGTATCTCCTAATATTCTTGTCTTG 57.814 37.037 0.00 0.00 0.00 3.02
1523 1781 8.361139 ACGTATCTCCTAATATTCTTGTCTTGG 58.639 37.037 0.00 0.00 0.00 3.61
1524 1782 8.577296 CGTATCTCCTAATATTCTTGTCTTGGA 58.423 37.037 0.00 0.00 0.00 3.53
1538 1796 8.251750 TCTTGTCTTGGATTTGTCTAAATACG 57.748 34.615 0.00 0.00 39.54 3.06
1602 1975 2.168054 CCCGTTGCTAGGGTTTTCG 58.832 57.895 6.16 0.00 43.89 3.46
1604 1977 1.500396 CGTTGCTAGGGTTTTCGCC 59.500 57.895 0.00 0.00 0.00 5.54
1605 1978 0.953960 CGTTGCTAGGGTTTTCGCCT 60.954 55.000 0.00 0.00 0.00 5.52
1644 2017 6.255887 GGATTAATTAGGGAGAATACGATGCG 59.744 42.308 0.00 0.00 0.00 4.73
1828 2253 7.042797 AGATTTCGAAATGTCCCCAAATATG 57.957 36.000 27.27 0.00 0.00 1.78
1919 2344 3.932459 GCACTGCCATGCTGATTAC 57.068 52.632 2.15 0.00 42.62 1.89
2049 3867 4.473559 ACCTACAGTACCTTAACATGGCAT 59.526 41.667 0.00 0.00 0.00 4.40
2095 3915 2.642807 ACCTACCAGAAAAGCTTGCCTA 59.357 45.455 0.00 0.00 0.00 3.93
2211 4043 1.633945 ACTGCCGTCCCTTATCCTTTT 59.366 47.619 0.00 0.00 0.00 2.27
2419 4278 8.070171 GTGCAAACTCGCTCAATAATATACATT 58.930 33.333 0.00 0.00 0.00 2.71
2473 4334 6.044046 TCACTCGAAACAAGTTTAAGTGCTA 58.956 36.000 22.88 12.59 41.40 3.49
2704 6136 0.380378 TCGTTCAGTTTGCTGCCAAC 59.620 50.000 8.42 8.42 42.29 3.77
2736 6208 1.673923 GGTGCCCCGTAGAAGTACAAC 60.674 57.143 0.00 0.00 0.00 3.32
2759 6231 5.301551 ACATGCCAATTCTCAACTTGTTACA 59.698 36.000 0.00 0.00 0.00 2.41
2760 6232 5.437289 TGCCAATTCTCAACTTGTTACAG 57.563 39.130 0.00 0.00 0.00 2.74
2761 6233 5.129634 TGCCAATTCTCAACTTGTTACAGA 58.870 37.500 0.00 0.00 0.00 3.41
2762 6234 5.769662 TGCCAATTCTCAACTTGTTACAGAT 59.230 36.000 0.00 0.00 0.00 2.90
2763 6235 6.088824 GCCAATTCTCAACTTGTTACAGATG 58.911 40.000 0.00 0.00 0.00 2.90
2765 6237 6.294120 CCAATTCTCAACTTGTTACAGATGCA 60.294 38.462 0.00 0.00 0.00 3.96
2767 6239 5.213891 TCTCAACTTGTTACAGATGCAGA 57.786 39.130 0.00 0.00 0.00 4.26
2768 6240 5.798132 TCTCAACTTGTTACAGATGCAGAT 58.202 37.500 0.00 0.00 0.00 2.90
2769 6241 5.871524 TCTCAACTTGTTACAGATGCAGATC 59.128 40.000 0.00 0.00 0.00 2.75
2771 6243 5.640783 TCAACTTGTTACAGATGCAGATCAG 59.359 40.000 0.00 0.00 0.00 2.90
2772 6244 5.411831 ACTTGTTACAGATGCAGATCAGA 57.588 39.130 0.00 0.00 0.00 3.27
2773 6245 5.174395 ACTTGTTACAGATGCAGATCAGAC 58.826 41.667 0.00 0.00 0.00 3.51
2774 6246 5.046735 ACTTGTTACAGATGCAGATCAGACT 60.047 40.000 0.00 0.00 0.00 3.24
2775 6247 4.752146 TGTTACAGATGCAGATCAGACTG 58.248 43.478 0.00 0.00 40.43 3.51
2781 6253 4.509756 CAGATCAGACTGCGGTGG 57.490 61.111 0.80 0.00 0.00 4.61
2782 6254 1.893062 CAGATCAGACTGCGGTGGA 59.107 57.895 0.80 0.00 0.00 4.02
2783 6255 0.179116 CAGATCAGACTGCGGTGGAG 60.179 60.000 0.80 0.00 0.00 3.86
2784 6256 1.520342 GATCAGACTGCGGTGGAGC 60.520 63.158 0.80 0.00 37.71 4.70
2785 6257 3.362399 ATCAGACTGCGGTGGAGCG 62.362 63.158 0.80 0.00 40.67 5.03
2796 6268 4.373116 TGGAGCGCCGGTGTTCTC 62.373 66.667 27.72 20.08 36.79 2.87
2798 6270 2.811317 GAGCGCCGGTGTTCTCTG 60.811 66.667 22.94 0.00 0.00 3.35
2799 6271 4.379243 AGCGCCGGTGTTCTCTGG 62.379 66.667 17.91 0.00 36.96 3.86
2801 6273 2.432628 CGCCGGTGTTCTCTGGTC 60.433 66.667 6.91 0.00 36.33 4.02
2802 6274 2.047179 GCCGGTGTTCTCTGGTCC 60.047 66.667 1.90 0.00 36.33 4.46
2803 6275 2.261671 CCGGTGTTCTCTGGTCCG 59.738 66.667 0.00 0.00 40.72 4.79
2804 6276 2.273179 CCGGTGTTCTCTGGTCCGA 61.273 63.158 0.00 0.00 43.22 4.55
2808 6280 1.630148 GTGTTCTCTGGTCCGAATCG 58.370 55.000 0.00 0.00 0.00 3.34
2819 6291 2.016961 CCGAATCGGGTTGATGCTG 58.983 57.895 14.91 0.00 44.15 4.41
2820 6292 1.353103 CGAATCGGGTTGATGCTGC 59.647 57.895 0.00 0.00 37.39 5.25
2821 6293 1.353103 GAATCGGGTTGATGCTGCG 59.647 57.895 0.00 0.00 37.39 5.18
2822 6294 2.051804 GAATCGGGTTGATGCTGCGG 62.052 60.000 0.00 0.00 37.39 5.69
2827 6299 3.869272 GTTGATGCTGCGGCCGAG 61.869 66.667 33.48 23.56 37.74 4.63
2840 6312 4.180946 CCGAGGACGAGGCAGACG 62.181 72.222 0.00 0.00 42.66 4.18
2841 6313 4.180946 CGAGGACGAGGCAGACGG 62.181 72.222 0.00 0.00 42.66 4.79
2843 6315 3.343788 GAGGACGAGGCAGACGGTG 62.344 68.421 0.00 0.00 34.93 4.94
2844 6316 3.371063 GGACGAGGCAGACGGTGA 61.371 66.667 0.00 0.00 34.93 4.02
2845 6317 2.179517 GACGAGGCAGACGGTGAG 59.820 66.667 0.00 0.00 34.93 3.51
2848 6320 1.006102 CGAGGCAGACGGTGAGTTT 60.006 57.895 0.00 0.00 0.00 2.66
2849 6321 1.009389 CGAGGCAGACGGTGAGTTTC 61.009 60.000 0.00 0.00 0.00 2.78
2850 6322 0.033504 GAGGCAGACGGTGAGTTTCA 59.966 55.000 0.00 0.00 0.00 2.69
2858 6330 2.844146 GTGAGTTTCACGACGGCG 59.156 61.111 10.39 10.39 37.67 6.46
2859 6331 2.355363 TGAGTTTCACGACGGCGG 60.355 61.111 18.49 3.71 43.17 6.13
2860 6332 2.355481 GAGTTTCACGACGGCGGT 60.355 61.111 18.49 0.00 43.17 5.68
2861 6333 2.654912 GAGTTTCACGACGGCGGTG 61.655 63.158 18.49 11.58 43.17 4.94
2863 6335 4.595538 TTTCACGACGGCGGTGCT 62.596 61.111 18.49 0.00 43.17 4.40
2873 6345 3.123620 GCGGTGCTGGAGCTCAAG 61.124 66.667 14.33 14.33 42.66 3.02
2874 6346 2.345244 CGGTGCTGGAGCTCAAGT 59.655 61.111 19.51 0.00 42.66 3.16
2878 6858 1.270839 GGTGCTGGAGCTCAAGTAACA 60.271 52.381 18.55 6.12 42.66 2.41
2881 6861 1.276421 GCTGGAGCTCAAGTAACAGGA 59.724 52.381 19.51 0.00 38.21 3.86
2883 6863 2.828520 CTGGAGCTCAAGTAACAGGAGA 59.171 50.000 17.19 0.00 0.00 3.71
2886 6866 3.119280 GGAGCTCAAGTAACAGGAGAGTC 60.119 52.174 17.19 0.00 0.00 3.36
2891 6871 1.088306 AGTAACAGGAGAGTCGCGAG 58.912 55.000 10.24 0.00 0.00 5.03
2893 6873 1.062880 GTAACAGGAGAGTCGCGAGAG 59.937 57.143 10.24 0.00 43.49 3.20
2894 6874 1.309499 AACAGGAGAGTCGCGAGAGG 61.309 60.000 10.24 0.00 43.49 3.69
2896 6876 1.153249 AGGAGAGTCGCGAGAGGAG 60.153 63.158 10.24 0.00 43.49 3.69
2901 6881 0.745128 GAGTCGCGAGAGGAGGAAGA 60.745 60.000 10.24 0.00 43.49 2.87
2904 6884 2.107292 CGCGAGAGGAGGAAGACGA 61.107 63.158 0.00 0.00 0.00 4.20
2905 6885 1.645704 CGCGAGAGGAGGAAGACGAA 61.646 60.000 0.00 0.00 0.00 3.85
2907 6887 0.736053 CGAGAGGAGGAAGACGAAGG 59.264 60.000 0.00 0.00 0.00 3.46
2908 6888 1.679336 CGAGAGGAGGAAGACGAAGGA 60.679 57.143 0.00 0.00 0.00 3.36
2909 6889 2.448453 GAGAGGAGGAAGACGAAGGAA 58.552 52.381 0.00 0.00 0.00 3.36
2910 6890 2.826725 GAGAGGAGGAAGACGAAGGAAA 59.173 50.000 0.00 0.00 0.00 3.13
2911 6891 2.829120 AGAGGAGGAAGACGAAGGAAAG 59.171 50.000 0.00 0.00 0.00 2.62
2914 6894 2.093921 GGAGGAAGACGAAGGAAAGAGG 60.094 54.545 0.00 0.00 0.00 3.69
2915 6895 1.903183 AGGAAGACGAAGGAAAGAGGG 59.097 52.381 0.00 0.00 0.00 4.30
2916 6896 1.066071 GGAAGACGAAGGAAAGAGGGG 60.066 57.143 0.00 0.00 0.00 4.79
2918 6898 1.562783 AGACGAAGGAAAGAGGGGAG 58.437 55.000 0.00 0.00 0.00 4.30
2920 6900 1.900486 GACGAAGGAAAGAGGGGAGAA 59.100 52.381 0.00 0.00 0.00 2.87
2921 6901 2.502130 GACGAAGGAAAGAGGGGAGAAT 59.498 50.000 0.00 0.00 0.00 2.40
2922 6902 2.237392 ACGAAGGAAAGAGGGGAGAATG 59.763 50.000 0.00 0.00 0.00 2.67
2923 6903 2.501723 CGAAGGAAAGAGGGGAGAATGA 59.498 50.000 0.00 0.00 0.00 2.57
2925 6905 3.498614 AGGAAAGAGGGGAGAATGAGA 57.501 47.619 0.00 0.00 0.00 3.27
2927 6907 3.779738 AGGAAAGAGGGGAGAATGAGAAG 59.220 47.826 0.00 0.00 0.00 2.85
2929 6909 2.188818 AGAGGGGAGAATGAGAAGGG 57.811 55.000 0.00 0.00 0.00 3.95
2930 6910 1.135960 GAGGGGAGAATGAGAAGGGG 58.864 60.000 0.00 0.00 0.00 4.79
2931 6911 0.327964 AGGGGAGAATGAGAAGGGGG 60.328 60.000 0.00 0.00 0.00 5.40
2933 6913 1.147153 GGAGAATGAGAAGGGGGCG 59.853 63.158 0.00 0.00 0.00 6.13
2934 6914 1.627297 GGAGAATGAGAAGGGGGCGT 61.627 60.000 0.00 0.00 0.00 5.68
2935 6915 0.253327 GAGAATGAGAAGGGGGCGTT 59.747 55.000 0.00 0.00 0.00 4.84
2936 6916 0.253327 AGAATGAGAAGGGGGCGTTC 59.747 55.000 0.00 0.00 0.00 3.95
2938 6918 1.550130 AATGAGAAGGGGGCGTTCGA 61.550 55.000 0.00 0.00 34.07 3.71
2940 6920 3.660732 GAGAAGGGGGCGTTCGACC 62.661 68.421 8.76 8.76 34.07 4.79
2946 6926 4.948257 GGGCGTTCGACCCTATTT 57.052 55.556 5.71 0.00 44.68 1.40
2948 6928 2.538512 GGGCGTTCGACCCTATTTAT 57.461 50.000 5.71 0.00 44.68 1.40
2949 6929 3.665745 GGGCGTTCGACCCTATTTATA 57.334 47.619 5.71 0.00 44.68 0.98
2950 6930 3.993920 GGGCGTTCGACCCTATTTATAA 58.006 45.455 5.71 0.00 44.68 0.98
2951 6931 3.992427 GGGCGTTCGACCCTATTTATAAG 59.008 47.826 5.71 0.00 44.68 1.73
2952 6932 3.992427 GGCGTTCGACCCTATTTATAAGG 59.008 47.826 0.00 0.00 0.00 2.69
2954 6934 5.291971 GCGTTCGACCCTATTTATAAGGAA 58.708 41.667 0.00 0.00 36.08 3.36
2955 6935 5.754890 GCGTTCGACCCTATTTATAAGGAAA 59.245 40.000 0.00 0.00 36.08 3.13
2956 6936 6.073927 GCGTTCGACCCTATTTATAAGGAAAG 60.074 42.308 0.00 0.00 36.08 2.62
2957 6937 6.423001 CGTTCGACCCTATTTATAAGGAAAGG 59.577 42.308 0.00 0.00 36.08 3.11
2958 6938 7.503549 GTTCGACCCTATTTATAAGGAAAGGA 58.496 38.462 0.00 0.00 36.08 3.36
2959 6939 7.867160 TCGACCCTATTTATAAGGAAAGGAT 57.133 36.000 6.22 0.00 36.08 3.24
2960 6940 8.961293 TCGACCCTATTTATAAGGAAAGGATA 57.039 34.615 6.22 0.00 36.08 2.59
2961 6941 8.810041 TCGACCCTATTTATAAGGAAAGGATAC 58.190 37.037 6.22 0.00 36.08 2.24
2962 6942 8.591072 CGACCCTATTTATAAGGAAAGGATACA 58.409 37.037 6.22 0.00 36.08 2.29
2968 6948 8.996651 ATTTATAAGGAAAGGATACAAGTGGG 57.003 34.615 0.00 0.00 41.41 4.61
2971 6951 0.733150 GAAAGGATACAAGTGGGCGC 59.267 55.000 0.00 0.00 41.41 6.53
2972 6952 1.024579 AAAGGATACAAGTGGGCGCG 61.025 55.000 0.00 0.00 41.41 6.86
2976 6956 0.800012 GATACAAGTGGGCGCGAAAA 59.200 50.000 12.10 0.00 0.00 2.29
2977 6957 1.198178 GATACAAGTGGGCGCGAAAAA 59.802 47.619 12.10 0.00 0.00 1.94
2978 6958 0.308376 TACAAGTGGGCGCGAAAAAC 59.692 50.000 12.10 1.26 0.00 2.43
2979 6959 2.008697 CAAGTGGGCGCGAAAAACG 61.009 57.895 12.10 0.00 45.66 3.60
2980 6960 2.181521 AAGTGGGCGCGAAAAACGA 61.182 52.632 12.10 0.00 45.77 3.85
2983 6963 3.045492 GGGCGCGAAAAACGAGGA 61.045 61.111 12.10 0.00 45.77 3.71
2984 6964 2.474712 GGCGCGAAAAACGAGGAG 59.525 61.111 12.10 0.00 45.77 3.69
2986 6966 2.474712 CGCGAAAAACGAGGAGGC 59.525 61.111 0.00 0.00 45.77 4.70
2987 6967 2.868196 GCGAAAAACGAGGAGGCC 59.132 61.111 0.00 0.00 45.77 5.19
2988 6968 1.964373 GCGAAAAACGAGGAGGCCA 60.964 57.895 5.01 0.00 45.77 5.36
2989 6969 1.512156 GCGAAAAACGAGGAGGCCAA 61.512 55.000 5.01 0.00 45.77 4.52
2990 6970 0.948678 CGAAAAACGAGGAGGCCAAA 59.051 50.000 5.01 0.00 45.77 3.28
2991 6971 1.335496 CGAAAAACGAGGAGGCCAAAA 59.665 47.619 5.01 0.00 45.77 2.44
2994 6974 1.995376 AAACGAGGAGGCCAAAACAT 58.005 45.000 5.01 0.00 0.00 2.71
2995 6975 1.247567 AACGAGGAGGCCAAAACATG 58.752 50.000 5.01 0.00 0.00 3.21
3013 6993 1.571955 TGGTTATCCAGCTGCTCAGA 58.428 50.000 8.66 0.00 39.03 3.27
3015 6995 1.565305 GTTATCCAGCTGCTCAGACG 58.435 55.000 8.66 0.00 0.00 4.18
3016 6996 0.179100 TTATCCAGCTGCTCAGACGC 60.179 55.000 8.66 0.00 0.00 5.19
3018 6998 4.079850 CCAGCTGCTCAGACGCCT 62.080 66.667 8.66 0.00 0.00 5.52
3019 6999 2.508887 CAGCTGCTCAGACGCCTC 60.509 66.667 0.00 0.00 0.00 4.70
3020 7000 2.993840 AGCTGCTCAGACGCCTCA 60.994 61.111 0.00 0.00 0.00 3.86
3021 7001 2.047844 GCTGCTCAGACGCCTCAA 60.048 61.111 0.29 0.00 0.00 3.02
3022 7002 1.449246 GCTGCTCAGACGCCTCAAT 60.449 57.895 0.29 0.00 0.00 2.57
3023 7003 1.023513 GCTGCTCAGACGCCTCAATT 61.024 55.000 0.29 0.00 0.00 2.32
3026 7006 1.285578 GCTCAGACGCCTCAATTCTC 58.714 55.000 0.00 0.00 0.00 2.87
3028 7008 0.173481 TCAGACGCCTCAATTCTCGG 59.827 55.000 0.00 0.00 0.00 4.63
3029 7009 0.807667 CAGACGCCTCAATTCTCGGG 60.808 60.000 0.00 0.00 0.00 5.14
3030 7010 0.970937 AGACGCCTCAATTCTCGGGA 60.971 55.000 0.00 0.00 0.00 5.14
3031 7011 0.806492 GACGCCTCAATTCTCGGGAC 60.806 60.000 0.00 0.00 0.00 4.46
3032 7012 1.218047 CGCCTCAATTCTCGGGACA 59.782 57.895 0.00 0.00 0.00 4.02
3034 7014 0.250513 GCCTCAATTCTCGGGACAGT 59.749 55.000 0.00 0.00 0.00 3.55
3035 7015 1.339151 GCCTCAATTCTCGGGACAGTT 60.339 52.381 0.00 0.00 0.00 3.16
3036 7016 2.093658 GCCTCAATTCTCGGGACAGTTA 60.094 50.000 0.00 0.00 0.00 2.24
3037 7017 3.432326 GCCTCAATTCTCGGGACAGTTAT 60.432 47.826 0.00 0.00 0.00 1.89
3038 7018 4.770795 CCTCAATTCTCGGGACAGTTATT 58.229 43.478 0.00 0.00 0.00 1.40
3039 7019 5.684030 GCCTCAATTCTCGGGACAGTTATTA 60.684 44.000 0.00 0.00 0.00 0.98
3040 7020 6.346096 CCTCAATTCTCGGGACAGTTATTAA 58.654 40.000 0.00 0.00 0.00 1.40
3041 7021 6.821665 CCTCAATTCTCGGGACAGTTATTAAA 59.178 38.462 0.00 0.00 0.00 1.52
3042 7022 7.011482 CCTCAATTCTCGGGACAGTTATTAAAG 59.989 40.741 0.00 0.00 0.00 1.85
3043 7023 7.617225 TCAATTCTCGGGACAGTTATTAAAGA 58.383 34.615 0.00 0.00 0.00 2.52
3044 7024 8.265055 TCAATTCTCGGGACAGTTATTAAAGAT 58.735 33.333 0.00 0.00 0.00 2.40
3046 7026 6.785337 TCTCGGGACAGTTATTAAAGATCA 57.215 37.500 0.00 0.00 0.00 2.92
3047 7027 6.570692 TCTCGGGACAGTTATTAAAGATCAC 58.429 40.000 0.00 0.00 0.00 3.06
3049 7029 5.125900 TCGGGACAGTTATTAAAGATCACGA 59.874 40.000 0.00 5.69 38.13 4.35
3050 7030 5.459107 CGGGACAGTTATTAAAGATCACGAG 59.541 44.000 0.00 0.00 33.42 4.18
3052 7032 6.406624 GGGACAGTTATTAAAGATCACGAGGA 60.407 42.308 0.00 0.00 0.00 3.71
3053 7033 7.210873 GGACAGTTATTAAAGATCACGAGGAT 58.789 38.462 0.00 0.00 39.53 3.24
3054 7034 8.358148 GGACAGTTATTAAAGATCACGAGGATA 58.642 37.037 0.00 0.00 36.00 2.59
3065 7045 7.403312 AGATCACGAGGATATTGAAGATAGG 57.597 40.000 0.00 0.00 36.00 2.57
3067 7047 4.772624 TCACGAGGATATTGAAGATAGGGG 59.227 45.833 0.00 0.00 0.00 4.79
3068 7048 4.528596 CACGAGGATATTGAAGATAGGGGT 59.471 45.833 0.00 0.00 0.00 4.95
3069 7049 5.012148 CACGAGGATATTGAAGATAGGGGTT 59.988 44.000 0.00 0.00 0.00 4.11
3070 7050 6.210784 CACGAGGATATTGAAGATAGGGGTTA 59.789 42.308 0.00 0.00 0.00 2.85
3071 7051 6.785963 ACGAGGATATTGAAGATAGGGGTTAA 59.214 38.462 0.00 0.00 0.00 2.01
3073 7053 7.256190 CGAGGATATTGAAGATAGGGGTTAACA 60.256 40.741 8.10 0.00 0.00 2.41
3074 7054 7.978925 AGGATATTGAAGATAGGGGTTAACAG 58.021 38.462 8.10 0.00 0.00 3.16
3075 7055 6.655425 GGATATTGAAGATAGGGGTTAACAGC 59.345 42.308 8.10 0.00 0.00 4.40
3076 7056 3.926058 TGAAGATAGGGGTTAACAGCC 57.074 47.619 8.10 0.00 40.23 4.85
3077 7057 3.186283 TGAAGATAGGGGTTAACAGCCA 58.814 45.455 8.10 0.00 43.12 4.75
3078 7058 3.589735 TGAAGATAGGGGTTAACAGCCAA 59.410 43.478 8.10 0.00 43.12 4.52
3079 7059 3.933861 AGATAGGGGTTAACAGCCAAG 57.066 47.619 8.10 0.00 43.12 3.61
3080 7060 2.509964 AGATAGGGGTTAACAGCCAAGG 59.490 50.000 8.10 0.00 43.12 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.805671 TGTATGCAACACTCGTTTCAGG 59.194 45.455 0.00 0.00 31.69 3.86
21 22 3.407698 TGGATGTATGCAACACTCGTTT 58.592 40.909 0.00 0.00 42.09 3.60
30 31 7.643569 ACACAATAAAGATGGATGTATGCAA 57.356 32.000 0.00 0.00 0.00 4.08
83 86 2.556559 GGTGGCTTTGGGTTGATCCTTA 60.557 50.000 0.00 0.00 36.25 2.69
121 124 0.721718 CAAGCTTGTAGGTGTAGCGC 59.278 55.000 18.65 0.00 39.82 5.92
160 163 7.250445 CATCGAATTAGATGGTGTGAATTGA 57.750 36.000 17.96 0.00 43.07 2.57
179 182 2.184322 GCTTCGTGAGGCCATCGA 59.816 61.111 5.01 9.31 0.00 3.59
212 215 2.351835 GCTAGACTTGTTCGTGCTCTCA 60.352 50.000 0.00 0.00 0.00 3.27
226 229 1.204941 GTGTTGTGGATCGGCTAGACT 59.795 52.381 0.00 0.00 0.00 3.24
257 260 4.717629 CGGACCGAAGAGCGTGCA 62.718 66.667 8.64 0.00 38.67 4.57
270 273 1.062587 CGAAAGATGATGTTGGCGGAC 59.937 52.381 0.00 0.00 0.00 4.79
280 283 4.970860 AGATGGGATGTCGAAAGATGAT 57.029 40.909 0.00 0.00 45.19 2.45
468 474 4.321601 CCAATTTCGCCATGTCAGGTTTTA 60.322 41.667 0.00 0.00 0.00 1.52
469 475 3.554752 CCAATTTCGCCATGTCAGGTTTT 60.555 43.478 0.00 0.00 0.00 2.43
472 478 1.176527 CCAATTTCGCCATGTCAGGT 58.823 50.000 0.00 0.00 0.00 4.00
473 479 0.457035 CCCAATTTCGCCATGTCAGG 59.543 55.000 0.00 0.00 0.00 3.86
474 480 1.462616 TCCCAATTTCGCCATGTCAG 58.537 50.000 0.00 0.00 0.00 3.51
475 481 2.142356 ATCCCAATTTCGCCATGTCA 57.858 45.000 0.00 0.00 0.00 3.58
539 549 5.348997 GCTAGCCTATGATCGGAACAAATAC 59.651 44.000 2.29 0.00 0.00 1.89
659 669 2.305927 CCAGACCCGGATAATAGGCATT 59.694 50.000 0.73 0.00 0.00 3.56
833 846 4.848562 TGATTCTGACAGACGTAACAGT 57.151 40.909 4.15 0.00 0.00 3.55
855 868 4.143263 CCGTCTAAAAACGTCGCTGTTATT 60.143 41.667 0.00 0.00 41.01 1.40
907 924 3.672255 GAGTGCGCGCGGTAGTACA 62.672 63.158 33.06 16.99 0.00 2.90
979 1038 0.111266 GTGTGTGCGATGTGAACGAC 60.111 55.000 0.00 0.00 0.00 4.34
1233 1298 1.738099 CCACAACTCCGGCTCTTCG 60.738 63.158 0.00 0.00 0.00 3.79
1288 1353 0.831711 AACTTGGGGTGGAATGGCAC 60.832 55.000 0.00 0.00 0.00 5.01
1289 1354 0.541764 GAACTTGGGGTGGAATGGCA 60.542 55.000 0.00 0.00 0.00 4.92
1341 1406 0.965363 CGCACTGGCCCTGGTTAAAT 60.965 55.000 0.00 0.00 36.38 1.40
1342 1407 1.602323 CGCACTGGCCCTGGTTAAA 60.602 57.895 0.00 0.00 36.38 1.52
1456 1714 7.093377 CCAAGACAATAATTTTGGGATGGAGAA 60.093 37.037 0.00 0.00 37.11 2.87
1458 1716 6.380846 TCCAAGACAATAATTTTGGGATGGAG 59.619 38.462 4.84 0.00 40.33 3.86
1459 1717 6.259893 TCCAAGACAATAATTTTGGGATGGA 58.740 36.000 4.84 9.93 40.33 3.41
1460 1718 6.543430 TCCAAGACAATAATTTTGGGATGG 57.457 37.500 4.84 8.38 40.33 3.51
1461 1719 9.101655 GAAATCCAAGACAATAATTTTGGGATG 57.898 33.333 4.84 1.80 40.33 3.51
1462 1720 9.050154 AGAAATCCAAGACAATAATTTTGGGAT 57.950 29.630 4.84 0.00 40.33 3.85
1463 1721 8.434589 AGAAATCCAAGACAATAATTTTGGGA 57.565 30.769 4.84 0.00 40.33 4.37
1464 1722 8.534496 AGAGAAATCCAAGACAATAATTTTGGG 58.466 33.333 4.84 0.00 40.33 4.12
1477 1735 9.745880 GATACGTGTATTTAGAGAAATCCAAGA 57.254 33.333 0.00 0.00 36.62 3.02
1478 1736 9.751542 AGATACGTGTATTTAGAGAAATCCAAG 57.248 33.333 0.00 0.00 36.62 3.61
1479 1737 9.745880 GAGATACGTGTATTTAGAGAAATCCAA 57.254 33.333 0.00 0.00 36.62 3.53
1481 1739 8.578151 AGGAGATACGTGTATTTAGAGAAATCC 58.422 37.037 0.00 0.00 36.62 3.01
1494 1752 9.570468 AGACAAGAATATTAGGAGATACGTGTA 57.430 33.333 0.00 0.00 0.00 2.90
1495 1753 8.466617 AGACAAGAATATTAGGAGATACGTGT 57.533 34.615 0.00 0.00 0.00 4.49
1496 1754 9.186323 CAAGACAAGAATATTAGGAGATACGTG 57.814 37.037 0.00 0.00 0.00 4.49
1497 1755 8.361139 CCAAGACAAGAATATTAGGAGATACGT 58.639 37.037 0.00 0.00 0.00 3.57
1498 1756 8.577296 TCCAAGACAAGAATATTAGGAGATACG 58.423 37.037 0.00 0.00 0.00 3.06
1502 1760 9.618890 CAAATCCAAGACAAGAATATTAGGAGA 57.381 33.333 0.00 0.00 0.00 3.71
1503 1761 9.401058 ACAAATCCAAGACAAGAATATTAGGAG 57.599 33.333 0.00 0.00 0.00 3.69
1504 1762 9.396022 GACAAATCCAAGACAAGAATATTAGGA 57.604 33.333 0.00 0.00 0.00 2.94
1505 1763 9.401058 AGACAAATCCAAGACAAGAATATTAGG 57.599 33.333 0.00 0.00 0.00 2.69
1512 1770 8.717821 CGTATTTAGACAAATCCAAGACAAGAA 58.282 33.333 0.00 0.00 35.88 2.52
1513 1771 7.333423 CCGTATTTAGACAAATCCAAGACAAGA 59.667 37.037 0.00 0.00 35.88 3.02
1514 1772 7.333423 TCCGTATTTAGACAAATCCAAGACAAG 59.667 37.037 0.00 0.00 35.88 3.16
1515 1773 7.162761 TCCGTATTTAGACAAATCCAAGACAA 58.837 34.615 0.00 0.00 35.88 3.18
1516 1774 6.703319 TCCGTATTTAGACAAATCCAAGACA 58.297 36.000 0.00 0.00 35.88 3.41
1517 1775 7.280205 ACATCCGTATTTAGACAAATCCAAGAC 59.720 37.037 0.00 0.00 35.88 3.01
1518 1776 7.335627 ACATCCGTATTTAGACAAATCCAAGA 58.664 34.615 0.00 0.00 35.88 3.02
1519 1777 7.553881 ACATCCGTATTTAGACAAATCCAAG 57.446 36.000 0.00 0.00 35.88 3.61
1520 1778 9.268268 GATACATCCGTATTTAGACAAATCCAA 57.732 33.333 0.00 0.00 38.48 3.53
1521 1779 8.647796 AGATACATCCGTATTTAGACAAATCCA 58.352 33.333 0.00 0.00 38.48 3.41
1687 2098 5.221501 GGTGCCCTGCAATATATGACAAATT 60.222 40.000 0.00 0.00 41.47 1.82
1837 2262 5.449107 TCTAGCGACAAGTTCATATACCC 57.551 43.478 0.00 0.00 0.00 3.69
2049 3867 1.683707 TGGCAACAGGGTTGCACAA 60.684 52.632 28.63 15.03 46.17 3.33
2061 3879 4.523083 TCTGGTAGGTTATCAATGGCAAC 58.477 43.478 0.00 0.00 0.00 4.17
2211 4043 2.230508 AGGAATCGTCTTCGTACTGCAA 59.769 45.455 0.00 0.00 38.33 4.08
2473 4334 4.099881 ACAATTTGGCACATTCACTTGACT 59.900 37.500 0.00 0.00 39.30 3.41
2655 6087 4.624015 CAGAATTTTGTGGTGCATCAGTT 58.376 39.130 0.00 0.00 0.00 3.16
2704 6136 3.493213 GGCACCATTTACGGGTCG 58.507 61.111 0.00 0.00 36.19 4.79
2736 6208 5.771469 TGTAACAAGTTGAGAATTGGCATG 58.229 37.500 10.54 0.00 0.00 4.06
2765 6237 1.954362 GCTCCACCGCAGTCTGATCT 61.954 60.000 3.32 0.00 0.00 2.75
2767 6239 2.581354 GCTCCACCGCAGTCTGAT 59.419 61.111 3.32 0.00 0.00 2.90
2768 6240 4.056125 CGCTCCACCGCAGTCTGA 62.056 66.667 3.32 0.00 0.00 3.27
2778 6250 4.681978 AGAACACCGGCGCTCCAC 62.682 66.667 7.64 0.00 0.00 4.02
2779 6251 4.373116 GAGAACACCGGCGCTCCA 62.373 66.667 7.64 0.00 0.00 3.86
2781 6253 2.811317 CAGAGAACACCGGCGCTC 60.811 66.667 7.64 1.81 0.00 5.03
2782 6254 4.379243 CCAGAGAACACCGGCGCT 62.379 66.667 7.64 0.00 0.00 5.92
2783 6255 4.681978 ACCAGAGAACACCGGCGC 62.682 66.667 0.00 0.00 0.00 6.53
2784 6256 2.432628 GACCAGAGAACACCGGCG 60.433 66.667 0.00 0.00 0.00 6.46
2785 6257 2.047179 GGACCAGAGAACACCGGC 60.047 66.667 0.00 0.00 0.00 6.13
2786 6258 1.812686 TTCGGACCAGAGAACACCGG 61.813 60.000 0.00 0.00 43.14 5.28
2787 6259 0.246635 ATTCGGACCAGAGAACACCG 59.753 55.000 0.00 0.00 44.09 4.94
2788 6260 1.736032 CGATTCGGACCAGAGAACACC 60.736 57.143 0.00 0.00 0.00 4.16
2802 6274 1.353103 GCAGCATCAACCCGATTCG 59.647 57.895 0.00 0.00 29.21 3.34
2803 6275 1.353103 CGCAGCATCAACCCGATTC 59.647 57.895 0.00 0.00 29.21 2.52
2804 6276 2.114670 CCGCAGCATCAACCCGATT 61.115 57.895 0.00 0.00 29.21 3.34
2810 6282 3.869272 CTCGGCCGCAGCATCAAC 61.869 66.667 23.51 0.00 42.56 3.18
2822 6294 4.500116 GTCTGCCTCGTCCTCGGC 62.500 72.222 0.00 0.00 46.46 5.54
2823 6295 4.180946 CGTCTGCCTCGTCCTCGG 62.181 72.222 0.00 0.00 37.69 4.63
2824 6296 4.180946 CCGTCTGCCTCGTCCTCG 62.181 72.222 0.00 0.00 38.55 4.63
2826 6298 3.374402 CACCGTCTGCCTCGTCCT 61.374 66.667 0.00 0.00 0.00 3.85
2827 6299 3.343788 CTCACCGTCTGCCTCGTCC 62.344 68.421 0.00 0.00 0.00 4.79
2828 6300 2.143594 AACTCACCGTCTGCCTCGTC 62.144 60.000 0.00 0.00 0.00 4.20
2830 6302 1.006102 AAACTCACCGTCTGCCTCG 60.006 57.895 0.00 0.00 0.00 4.63
2833 6305 1.557443 CGTGAAACTCACCGTCTGCC 61.557 60.000 1.34 0.00 44.20 4.85
2835 6307 1.129326 GTCGTGAAACTCACCGTCTG 58.871 55.000 1.34 0.00 44.20 3.51
2836 6308 0.317603 CGTCGTGAAACTCACCGTCT 60.318 55.000 1.34 0.00 44.20 4.18
2837 6309 1.273455 CCGTCGTGAAACTCACCGTC 61.273 60.000 1.34 0.00 44.20 4.79
2838 6310 1.299620 CCGTCGTGAAACTCACCGT 60.300 57.895 1.34 0.00 44.20 4.83
2839 6311 2.654912 GCCGTCGTGAAACTCACCG 61.655 63.158 1.34 0.76 44.20 4.94
2840 6312 2.654912 CGCCGTCGTGAAACTCACC 61.655 63.158 1.34 0.00 44.20 4.02
2841 6313 2.654912 CCGCCGTCGTGAAACTCAC 61.655 63.158 0.00 0.00 43.65 3.51
2843 6315 2.355481 ACCGCCGTCGTGAAACTC 60.355 61.111 0.00 0.00 31.75 3.01
2844 6316 2.660552 CACCGCCGTCGTGAAACT 60.661 61.111 0.00 0.00 31.75 2.66
2845 6317 4.364409 GCACCGCCGTCGTGAAAC 62.364 66.667 0.00 0.00 0.00 2.78
2855 6327 4.704833 TTGAGCTCCAGCACCGCC 62.705 66.667 12.15 0.00 45.16 6.13
2856 6328 2.507110 TACTTGAGCTCCAGCACCGC 62.507 60.000 14.50 0.00 45.16 5.68
2858 6330 1.270839 TGTTACTTGAGCTCCAGCACC 60.271 52.381 14.50 3.43 45.16 5.01
2859 6331 2.072298 CTGTTACTTGAGCTCCAGCAC 58.928 52.381 14.50 11.74 45.16 4.40
2860 6332 1.002430 CCTGTTACTTGAGCTCCAGCA 59.998 52.381 14.50 0.00 45.16 4.41
2861 6333 1.276421 TCCTGTTACTTGAGCTCCAGC 59.724 52.381 14.50 0.00 42.49 4.85
2863 6335 2.828520 CTCTCCTGTTACTTGAGCTCCA 59.171 50.000 12.15 0.00 0.00 3.86
2866 6338 2.490115 CGACTCTCCTGTTACTTGAGCT 59.510 50.000 0.00 0.00 0.00 4.09
2867 6339 2.869897 CGACTCTCCTGTTACTTGAGC 58.130 52.381 0.00 0.00 0.00 4.26
2868 6340 2.729467 CGCGACTCTCCTGTTACTTGAG 60.729 54.545 0.00 0.00 0.00 3.02
2869 6341 1.199327 CGCGACTCTCCTGTTACTTGA 59.801 52.381 0.00 0.00 0.00 3.02
2870 6342 1.199327 TCGCGACTCTCCTGTTACTTG 59.801 52.381 3.71 0.00 0.00 3.16
2873 6345 1.062880 CTCTCGCGACTCTCCTGTTAC 59.937 57.143 3.71 0.00 0.00 2.50
2874 6346 1.370609 CTCTCGCGACTCTCCTGTTA 58.629 55.000 3.71 0.00 0.00 2.41
2878 6858 1.153249 CTCCTCTCGCGACTCTCCT 60.153 63.158 3.71 0.00 0.00 3.69
2881 6861 0.746563 CTTCCTCCTCTCGCGACTCT 60.747 60.000 3.71 0.00 0.00 3.24
2883 6863 1.027792 GTCTTCCTCCTCTCGCGACT 61.028 60.000 3.71 0.00 0.00 4.18
2886 6866 1.645704 TTCGTCTTCCTCCTCTCGCG 61.646 60.000 0.00 0.00 0.00 5.87
2891 6871 2.826725 TCTTTCCTTCGTCTTCCTCCTC 59.173 50.000 0.00 0.00 0.00 3.71
2893 6873 2.093921 CCTCTTTCCTTCGTCTTCCTCC 60.094 54.545 0.00 0.00 0.00 4.30
2894 6874 2.093921 CCCTCTTTCCTTCGTCTTCCTC 60.094 54.545 0.00 0.00 0.00 3.71
2896 6876 1.066071 CCCCTCTTTCCTTCGTCTTCC 60.066 57.143 0.00 0.00 0.00 3.46
2901 6881 2.025636 TTCTCCCCTCTTTCCTTCGT 57.974 50.000 0.00 0.00 0.00 3.85
2904 6884 3.808189 TCTCATTCTCCCCTCTTTCCTT 58.192 45.455 0.00 0.00 0.00 3.36
2905 6885 3.498614 TCTCATTCTCCCCTCTTTCCT 57.501 47.619 0.00 0.00 0.00 3.36
2907 6887 3.118075 CCCTTCTCATTCTCCCCTCTTTC 60.118 52.174 0.00 0.00 0.00 2.62
2908 6888 2.849318 CCCTTCTCATTCTCCCCTCTTT 59.151 50.000 0.00 0.00 0.00 2.52
2909 6889 2.486716 CCCTTCTCATTCTCCCCTCTT 58.513 52.381 0.00 0.00 0.00 2.85
2910 6890 1.344906 CCCCTTCTCATTCTCCCCTCT 60.345 57.143 0.00 0.00 0.00 3.69
2911 6891 1.135960 CCCCTTCTCATTCTCCCCTC 58.864 60.000 0.00 0.00 0.00 4.30
2914 6894 1.534203 GCCCCCTTCTCATTCTCCC 59.466 63.158 0.00 0.00 0.00 4.30
2915 6895 1.147153 CGCCCCCTTCTCATTCTCC 59.853 63.158 0.00 0.00 0.00 3.71
2916 6896 0.253327 AACGCCCCCTTCTCATTCTC 59.747 55.000 0.00 0.00 0.00 2.87
2918 6898 1.090052 CGAACGCCCCCTTCTCATTC 61.090 60.000 0.00 0.00 0.00 2.67
2920 6900 1.987855 TCGAACGCCCCCTTCTCAT 60.988 57.895 0.00 0.00 0.00 2.90
2921 6901 2.602267 TCGAACGCCCCCTTCTCA 60.602 61.111 0.00 0.00 0.00 3.27
2922 6902 2.125633 GTCGAACGCCCCCTTCTC 60.126 66.667 0.00 0.00 0.00 2.87
2923 6903 3.703127 GGTCGAACGCCCCCTTCT 61.703 66.667 0.00 0.00 0.00 2.85
2925 6905 3.910784 TAGGGTCGAACGCCCCCTT 62.911 63.158 22.02 5.28 46.92 3.95
2929 6909 2.538512 ATAAATAGGGTCGAACGCCC 57.461 50.000 15.11 15.11 46.43 6.13
2930 6910 3.992427 CCTTATAAATAGGGTCGAACGCC 59.008 47.826 0.00 0.00 0.00 5.68
2931 6911 4.874970 TCCTTATAAATAGGGTCGAACGC 58.125 43.478 0.00 0.00 33.41 4.84
2933 6913 7.503549 TCCTTTCCTTATAAATAGGGTCGAAC 58.496 38.462 0.00 0.00 33.41 3.95
2934 6914 7.679732 TCCTTTCCTTATAAATAGGGTCGAA 57.320 36.000 0.00 0.00 33.41 3.71
2935 6915 7.867160 ATCCTTTCCTTATAAATAGGGTCGA 57.133 36.000 0.00 0.00 33.41 4.20
2936 6916 8.591072 TGTATCCTTTCCTTATAAATAGGGTCG 58.409 37.037 0.00 0.00 33.41 4.79
2943 6923 7.505923 GCCCACTTGTATCCTTTCCTTATAAAT 59.494 37.037 0.00 0.00 0.00 1.40
2946 6926 5.454187 CGCCCACTTGTATCCTTTCCTTATA 60.454 44.000 0.00 0.00 0.00 0.98
2948 6928 3.370103 CGCCCACTTGTATCCTTTCCTTA 60.370 47.826 0.00 0.00 0.00 2.69
2949 6929 2.618045 CGCCCACTTGTATCCTTTCCTT 60.618 50.000 0.00 0.00 0.00 3.36
2950 6930 1.065418 CGCCCACTTGTATCCTTTCCT 60.065 52.381 0.00 0.00 0.00 3.36
2951 6931 1.379527 CGCCCACTTGTATCCTTTCC 58.620 55.000 0.00 0.00 0.00 3.13
2952 6932 0.733150 GCGCCCACTTGTATCCTTTC 59.267 55.000 0.00 0.00 0.00 2.62
2954 6934 1.449601 CGCGCCCACTTGTATCCTT 60.450 57.895 0.00 0.00 0.00 3.36
2955 6935 1.895020 TTCGCGCCCACTTGTATCCT 61.895 55.000 0.00 0.00 0.00 3.24
2956 6936 1.022451 TTTCGCGCCCACTTGTATCC 61.022 55.000 0.00 0.00 0.00 2.59
2957 6937 0.800012 TTTTCGCGCCCACTTGTATC 59.200 50.000 0.00 0.00 0.00 2.24
2958 6938 1.068816 GTTTTTCGCGCCCACTTGTAT 60.069 47.619 0.00 0.00 0.00 2.29
2959 6939 0.308376 GTTTTTCGCGCCCACTTGTA 59.692 50.000 0.00 0.00 0.00 2.41
2960 6940 1.065109 GTTTTTCGCGCCCACTTGT 59.935 52.632 0.00 0.00 0.00 3.16
2961 6941 2.008697 CGTTTTTCGCGCCCACTTG 61.009 57.895 0.00 0.00 0.00 3.16
2962 6942 2.113131 CTCGTTTTTCGCGCCCACTT 62.113 55.000 0.00 0.00 39.67 3.16
2963 6943 2.589442 TCGTTTTTCGCGCCCACT 60.589 55.556 0.00 0.00 39.67 4.00
2965 6945 3.350612 CCTCGTTTTTCGCGCCCA 61.351 61.111 0.00 0.00 39.67 5.36
2966 6946 3.023591 CTCCTCGTTTTTCGCGCCC 62.024 63.158 0.00 0.00 39.67 6.13
2968 6948 2.474712 CCTCCTCGTTTTTCGCGC 59.525 61.111 0.00 0.00 39.67 6.86
2971 6951 0.948678 TTTGGCCTCCTCGTTTTTCG 59.051 50.000 3.32 0.00 41.41 3.46
2972 6952 2.100087 TGTTTTGGCCTCCTCGTTTTTC 59.900 45.455 3.32 0.00 0.00 2.29
2976 6956 1.247567 CATGTTTTGGCCTCCTCGTT 58.752 50.000 3.32 0.00 0.00 3.85
2977 6957 0.609131 CCATGTTTTGGCCTCCTCGT 60.609 55.000 3.32 0.00 39.09 4.18
2978 6958 2.183409 CCATGTTTTGGCCTCCTCG 58.817 57.895 3.32 0.00 39.09 4.63
2987 6967 3.194116 AGCAGCTGGATAACCATGTTTTG 59.806 43.478 17.12 0.00 45.87 2.44
2988 6968 3.434309 AGCAGCTGGATAACCATGTTTT 58.566 40.909 17.12 0.00 45.87 2.43
2989 6969 3.019564 GAGCAGCTGGATAACCATGTTT 58.980 45.455 17.12 0.00 45.87 2.83
2990 6970 2.025981 TGAGCAGCTGGATAACCATGTT 60.026 45.455 17.12 0.00 45.87 2.71
2991 6971 1.561076 TGAGCAGCTGGATAACCATGT 59.439 47.619 17.12 0.00 45.87 3.21
2994 6974 1.208052 GTCTGAGCAGCTGGATAACCA 59.792 52.381 17.12 0.00 44.76 3.67
2995 6975 1.804372 CGTCTGAGCAGCTGGATAACC 60.804 57.143 17.12 0.00 0.00 2.85
2996 6976 1.565305 CGTCTGAGCAGCTGGATAAC 58.435 55.000 17.12 0.00 0.00 1.89
2997 6977 0.179100 GCGTCTGAGCAGCTGGATAA 60.179 55.000 17.12 0.00 37.05 1.75
2998 6978 1.439228 GCGTCTGAGCAGCTGGATA 59.561 57.895 17.12 0.00 37.05 2.59
3000 6980 4.074526 GGCGTCTGAGCAGCTGGA 62.075 66.667 17.12 0.36 39.27 3.86
3001 6981 4.079850 AGGCGTCTGAGCAGCTGG 62.080 66.667 17.12 0.00 39.27 4.85
3002 6982 2.508887 GAGGCGTCTGAGCAGCTG 60.509 66.667 10.11 10.11 39.27 4.24
3003 6983 1.897225 ATTGAGGCGTCTGAGCAGCT 61.897 55.000 8.06 0.00 39.27 4.24
3004 6984 1.023513 AATTGAGGCGTCTGAGCAGC 61.024 55.000 8.06 0.00 39.27 5.25
3007 6987 1.285578 GAGAATTGAGGCGTCTGAGC 58.714 55.000 8.06 0.00 0.00 4.26
3009 6989 0.173481 CCGAGAATTGAGGCGTCTGA 59.827 55.000 8.06 0.00 0.00 3.27
3010 6990 0.807667 CCCGAGAATTGAGGCGTCTG 60.808 60.000 8.06 0.00 0.00 3.51
3011 6991 0.970937 TCCCGAGAATTGAGGCGTCT 60.971 55.000 8.06 0.00 0.00 4.18
3013 6993 1.218316 GTCCCGAGAATTGAGGCGT 59.782 57.895 0.00 0.00 0.00 5.68
3015 6995 0.250513 ACTGTCCCGAGAATTGAGGC 59.749 55.000 0.00 0.00 0.00 4.70
3016 6996 2.770164 AACTGTCCCGAGAATTGAGG 57.230 50.000 0.00 0.00 0.00 3.86
3018 6998 7.617225 TCTTTAATAACTGTCCCGAGAATTGA 58.383 34.615 0.00 0.00 0.00 2.57
3019 6999 7.843490 TCTTTAATAACTGTCCCGAGAATTG 57.157 36.000 0.00 0.00 0.00 2.32
3020 7000 8.265055 TGATCTTTAATAACTGTCCCGAGAATT 58.735 33.333 0.00 0.00 0.00 2.17
3021 7001 7.711339 GTGATCTTTAATAACTGTCCCGAGAAT 59.289 37.037 0.00 0.00 0.00 2.40
3022 7002 7.039882 GTGATCTTTAATAACTGTCCCGAGAA 58.960 38.462 0.00 0.00 0.00 2.87
3023 7003 6.570692 GTGATCTTTAATAACTGTCCCGAGA 58.429 40.000 0.00 0.00 0.00 4.04
3026 7006 5.345702 TCGTGATCTTTAATAACTGTCCCG 58.654 41.667 0.00 0.00 0.00 5.14
3028 7008 6.570692 TCCTCGTGATCTTTAATAACTGTCC 58.429 40.000 0.00 0.00 0.00 4.02
3029 7009 9.915629 ATATCCTCGTGATCTTTAATAACTGTC 57.084 33.333 0.00 0.00 34.76 3.51
3039 7019 8.310382 CCTATCTTCAATATCCTCGTGATCTTT 58.690 37.037 0.00 0.00 34.76 2.52
3040 7020 7.093552 CCCTATCTTCAATATCCTCGTGATCTT 60.094 40.741 0.00 0.00 34.76 2.40
3041 7021 6.379703 CCCTATCTTCAATATCCTCGTGATCT 59.620 42.308 0.00 0.00 34.76 2.75
3042 7022 6.406400 CCCCTATCTTCAATATCCTCGTGATC 60.406 46.154 0.00 0.00 34.76 2.92
3043 7023 5.423610 CCCCTATCTTCAATATCCTCGTGAT 59.576 44.000 0.00 0.00 37.49 3.06
3044 7024 4.772624 CCCCTATCTTCAATATCCTCGTGA 59.227 45.833 0.00 0.00 0.00 4.35
3046 7026 4.753186 ACCCCTATCTTCAATATCCTCGT 58.247 43.478 0.00 0.00 0.00 4.18
3047 7027 5.746990 AACCCCTATCTTCAATATCCTCG 57.253 43.478 0.00 0.00 0.00 4.63
3049 7029 7.474936 GCTGTTAACCCCTATCTTCAATATCCT 60.475 40.741 2.48 0.00 0.00 3.24
3050 7030 6.655425 GCTGTTAACCCCTATCTTCAATATCC 59.345 42.308 2.48 0.00 0.00 2.59
3052 7032 6.102615 TGGCTGTTAACCCCTATCTTCAATAT 59.897 38.462 2.48 0.00 0.00 1.28
3053 7033 5.430417 TGGCTGTTAACCCCTATCTTCAATA 59.570 40.000 2.48 0.00 0.00 1.90
3054 7034 4.229582 TGGCTGTTAACCCCTATCTTCAAT 59.770 41.667 2.48 0.00 0.00 2.57
3056 7036 3.186283 TGGCTGTTAACCCCTATCTTCA 58.814 45.455 2.48 0.00 0.00 3.02
3058 7038 3.053619 CCTTGGCTGTTAACCCCTATCTT 60.054 47.826 2.48 0.00 0.00 2.40
3059 7039 2.509964 CCTTGGCTGTTAACCCCTATCT 59.490 50.000 2.48 0.00 0.00 1.98
3061 7041 1.569072 CCCTTGGCTGTTAACCCCTAT 59.431 52.381 2.48 0.00 0.00 2.57
3062 7042 0.996583 CCCTTGGCTGTTAACCCCTA 59.003 55.000 2.48 0.19 0.00 3.53
3063 7043 1.774300 CCCTTGGCTGTTAACCCCT 59.226 57.895 2.48 0.00 0.00 4.79
3065 7045 3.694746 GCCCTTGGCTGTTAACCC 58.305 61.111 2.48 0.00 46.69 4.11


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

AutoCloner maintained by Alex Coulton.