Multiple sequence alignment - TraesCS2D01G360500

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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 TraesCS2D01G360500 chr2D 100.000 5005 0 0 1 5005 462244283 462249287 0.000000e+00 9243.0
1 TraesCS2D01G360500 chr2D 82.185 2178 279 69 1488 3612 462784610 462786731 0.000000e+00 1772.0
2 TraesCS2D01G360500 chr2D 79.357 373 47 17 2522 2879 462786174 462786531 8.380000e-58 235.0
3 TraesCS2D01G360500 chr2D 95.192 104 3 2 4232 4334 188886180 188886078 4.010000e-36 163.0
4 TraesCS2D01G360500 chr2D 82.990 194 18 5 1142 1332 462784082 462784263 1.440000e-35 161.0
5 TraesCS2D01G360500 chr2D 94.118 85 5 0 1396 1480 462784370 462784454 4.070000e-26 130.0
6 TraesCS2D01G360500 chr2D 86.842 76 8 2 1405 1479 462784934 462785008 3.210000e-12 84.2
7 TraesCS2D01G360500 chr2B 91.541 1927 123 26 1 1908 545157087 545158992 0.000000e+00 2619.0
8 TraesCS2D01G360500 chr2B 81.969 2174 277 72 1488 3608 545227029 545229140 0.000000e+00 1736.0
9 TraesCS2D01G360500 chr2B 91.569 510 20 7 3737 4246 545160273 545160759 0.000000e+00 682.0
10 TraesCS2D01G360500 chr2B 87.734 481 34 4 2011 2490 545158994 545159450 5.700000e-149 538.0
11 TraesCS2D01G360500 chr2B 87.324 355 19 3 3091 3444 545159559 545159888 2.830000e-102 383.0
12 TraesCS2D01G360500 chr2B 85.484 372 33 11 4487 4841 545160955 545161322 7.920000e-98 368.0
13 TraesCS2D01G360500 chr2B 84.364 275 32 8 3168 3431 545228138 545228412 4.970000e-65 259.0
14 TraesCS2D01G360500 chr2B 91.358 162 11 2 4326 4486 545160756 545160915 8.440000e-53 219.0
15 TraesCS2D01G360500 chr2B 87.047 193 22 3 1142 1332 545226489 545226680 1.090000e-51 215.0
16 TraesCS2D01G360500 chr2B 78.042 378 52 18 2526 2889 545228592 545228952 5.080000e-50 209.0
17 TraesCS2D01G360500 chr2B 92.857 126 6 2 3608 3731 545160020 545160144 3.980000e-41 180.0
18 TraesCS2D01G360500 chr2B 93.396 106 7 0 2785 2890 545159447 545159552 1.870000e-34 158.0
19 TraesCS2D01G360500 chr2B 93.878 98 4 2 3513 3608 545159893 545159990 4.040000e-31 147.0
20 TraesCS2D01G360500 chr2B 94.118 85 5 0 1396 1480 545226787 545226871 4.070000e-26 130.0
21 TraesCS2D01G360500 chr2B 89.091 55 4 2 4905 4958 74066022 74065969 3.230000e-07 67.6
22 TraesCS2D01G360500 chr2A 82.040 2049 255 73 1488 3488 607598052 607600035 0.000000e+00 1640.0
23 TraesCS2D01G360500 chr2A 91.481 1209 70 14 1977 3181 607518950 607520129 0.000000e+00 1631.0
24 TraesCS2D01G360500 chr2A 90.878 1162 58 19 1 1156 607516855 607517974 0.000000e+00 1515.0
25 TraesCS2D01G360500 chr2A 95.903 903 34 2 1387 2286 610210480 610211382 0.000000e+00 1459.0
26 TraesCS2D01G360500 chr2A 92.500 800 48 8 1142 1932 607518008 607518804 0.000000e+00 1134.0
27 TraesCS2D01G360500 chr2A 97.260 657 15 2 2419 3074 610225938 610226592 0.000000e+00 1110.0
28 TraesCS2D01G360500 chr2A 95.213 564 22 4 3178 3737 607520258 607520820 0.000000e+00 887.0
29 TraesCS2D01G360500 chr2A 96.525 518 10 3 3729 4246 607520927 607521436 0.000000e+00 850.0
30 TraesCS2D01G360500 chr2A 90.304 526 27 3 464 977 610209492 610210005 0.000000e+00 667.0
31 TraesCS2D01G360500 chr2A 93.989 366 13 4 3374 3737 610227186 610227544 3.410000e-151 545.0
32 TraesCS2D01G360500 chr2A 96.610 295 6 3 3076 3369 610226719 610227010 2.090000e-133 486.0
33 TraesCS2D01G360500 chr2A 91.618 346 22 6 4489 4834 607521636 607521974 5.860000e-129 472.0
34 TraesCS2D01G360500 chr2A 88.693 398 16 6 3733 4130 610234027 610234395 4.570000e-125 459.0
35 TraesCS2D01G360500 chr2A 93.827 162 9 1 4326 4486 607521433 607521594 5.010000e-60 243.0
36 TraesCS2D01G360500 chr2A 83.969 262 27 7 2617 2878 607520258 607520504 2.330000e-58 237.0
37 TraesCS2D01G360500 chr2A 83.019 212 24 8 2607 2818 610226811 610227010 1.110000e-41 182.0
38 TraesCS2D01G360500 chr2A 96.939 98 2 1 4237 4334 688971625 688971529 4.010000e-36 163.0
39 TraesCS2D01G360500 chr2A 88.321 137 12 1 4873 5005 607522143 607522279 1.440000e-35 161.0
40 TraesCS2D01G360500 chr2A 97.826 92 2 0 4243 4334 407739266 407739175 5.190000e-35 159.0
41 TraesCS2D01G360500 chr2A 88.618 123 11 1 3489 3608 607600120 607600242 4.040000e-31 147.0
42 TraesCS2D01G360500 chr2A 85.211 142 2 5 2284 2425 610213214 610213336 1.460000e-25 128.0
43 TraesCS2D01G360500 chr2A 93.976 83 5 0 1392 1474 607597822 607597904 5.260000e-25 126.0
44 TraesCS2D01G360500 chr2A 98.333 60 1 0 4184 4243 610234402 610234461 6.850000e-19 106.0
45 TraesCS2D01G360500 chr2A 94.340 53 3 0 4625 4677 610234668 610234720 1.150000e-11 82.4
46 TraesCS2D01G360500 chr2A 97.561 41 1 0 4913 4953 621189825 621189785 2.500000e-08 71.3
47 TraesCS2D01G360500 chr2A 97.368 38 1 0 4196 4233 607521472 607521509 1.160000e-06 65.8
48 TraesCS2D01G360500 chr1B 97.872 94 2 0 4237 4330 343995934 343996027 4.010000e-36 163.0
49 TraesCS2D01G360500 chr1B 76.022 367 47 24 2074 2410 656674603 656674958 8.680000e-33 152.0
50 TraesCS2D01G360500 chr1B 86.667 105 12 2 2641 2745 656672426 656672528 1.140000e-21 115.0
51 TraesCS2D01G360500 chr1B 86.667 105 9 2 3202 3301 656852258 656852154 1.470000e-20 111.0
52 TraesCS2D01G360500 chr1B 88.889 81 8 1 2074 2153 592030215 592030135 1.150000e-16 99.0
53 TraesCS2D01G360500 chr7B 96.907 97 1 2 4243 4338 713378858 713378763 1.440000e-35 161.0
54 TraesCS2D01G360500 chr6D 96.907 97 2 1 4235 4331 446964200 446964105 1.440000e-35 161.0
55 TraesCS2D01G360500 chr5B 94.231 104 6 0 4227 4330 74672639 74672742 5.190000e-35 159.0
56 TraesCS2D01G360500 chr5B 92.708 96 7 0 2641 2736 13841837 13841932 6.760000e-29 139.0
57 TraesCS2D01G360500 chr3D 93.578 109 4 3 4223 4329 554346222 554346115 5.190000e-35 159.0
58 TraesCS2D01G360500 chr1D 92.727 110 6 2 4243 4351 482927049 482926941 1.870000e-34 158.0
59 TraesCS2D01G360500 chr1D 91.429 105 8 1 2641 2745 472410671 472410774 5.220000e-30 143.0
60 TraesCS2D01G360500 chr1D 89.873 79 7 1 2076 2153 436972768 436972690 3.190000e-17 100.0
61 TraesCS2D01G360500 chr4D 93.684 95 6 0 2641 2735 432946377 432946471 5.220000e-30 143.0
62 TraesCS2D01G360500 chr4D 85.246 61 7 2 4912 4971 421952723 421952664 1.500000e-05 62.1
63 TraesCS2D01G360500 chr5A 92.708 96 7 0 2641 2736 12541237 12541332 6.760000e-29 139.0
64 TraesCS2D01G360500 chr5A 92.000 50 3 1 4912 4961 705592565 705592613 8.990000e-08 69.4
65 TraesCS2D01G360500 chr5D 91.667 96 7 1 2641 2736 17507117 17507023 1.130000e-26 132.0
66 TraesCS2D01G360500 chr5D 93.478 46 2 1 4913 4958 7718673 7718629 3.230000e-07 67.6
67 TraesCS2D01G360500 chr1A 89.524 105 10 1 2641 2745 566415331 566415434 1.130000e-26 132.0
68 TraesCS2D01G360500 chr1A 93.258 89 5 1 2641 2729 477047222 477047309 4.070000e-26 130.0
69 TraesCS2D01G360500 chr1A 87.619 105 12 1 2641 2745 566412471 566412574 2.450000e-23 121.0
70 TraesCS2D01G360500 chr1A 87.654 81 9 1 2074 2153 533904077 533903997 5.340000e-15 93.5
71 TraesCS2D01G360500 chr1A 91.071 56 1 4 4913 4967 533694110 533694058 6.950000e-09 73.1
72 TraesCS2D01G360500 chr1A 97.368 38 1 0 2641 2678 566409716 566409753 1.160000e-06 65.8
73 TraesCS2D01G360500 chr4A 91.579 95 7 1 2641 2735 34264466 34264559 4.070000e-26 130.0
74 TraesCS2D01G360500 chr6B 90.698 86 7 1 2644 2728 655781920 655781835 4.100000e-21 113.0
75 TraesCS2D01G360500 chr4B 100.000 39 0 0 2645 2683 7877012 7877050 6.950000e-09 73.1
76 TraesCS2D01G360500 chr4B 92.000 50 3 1 4912 4961 665610809 665610857 8.990000e-08 69.4
77 TraesCS2D01G360500 chr3A 95.455 44 2 0 4913 4956 710126572 710126615 2.500000e-08 71.3
78 TraesCS2D01G360500 chr7D 88.679 53 3 3 4580 4631 39037809 39037759 1.500000e-05 62.1


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 TraesCS2D01G360500 chr2D 462244283 462249287 5004 False 9243.000000 9243 100.000000 1 5005 1 chr2D.!!$F1 5004
1 TraesCS2D01G360500 chr2D 462784082 462786731 2649 False 476.440000 1772 85.098400 1142 3612 5 chr2D.!!$F2 2470
2 TraesCS2D01G360500 chr2B 545157087 545161322 4235 False 588.222222 2619 90.571222 1 4841 9 chr2B.!!$F1 4840
3 TraesCS2D01G360500 chr2B 545226489 545229140 2651 False 509.800000 1736 85.108000 1142 3608 5 chr2B.!!$F2 2466
4 TraesCS2D01G360500 chr2A 610209492 610213336 3844 False 751.333333 1459 90.472667 464 2425 3 chr2A.!!$F3 1961
5 TraesCS2D01G360500 chr2A 607516855 607522279 5424 False 719.580000 1631 92.170000 1 5005 10 chr2A.!!$F1 5004
6 TraesCS2D01G360500 chr2A 607597822 607600242 2420 False 637.666667 1640 88.211333 1392 3608 3 chr2A.!!$F2 2216
7 TraesCS2D01G360500 chr2A 610225938 610227544 1606 False 580.750000 1110 92.719500 2419 3737 4 chr2A.!!$F4 1318
8 TraesCS2D01G360500 chr2A 610234027 610234720 693 False 215.800000 459 93.788667 3733 4677 3 chr2A.!!$F5 944

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
78 79 0.113776 TCCGGCGTTATAGAGGGGAT 59.886 55.0 6.01 0.0 0.00 3.85 F
1179 1356 0.466124 CCTTGGGAGGATCGGTTCTC 59.534 60.0 0.00 0.0 46.74 2.87 F
1215 1392 0.034896 GACTCGTTCCCTTGAAGCCA 59.965 55.0 0.00 0.0 0.00 4.75 F
1217 1394 0.250295 CTCGTTCCCTTGAAGCCACA 60.250 55.0 0.00 0.0 0.00 4.17 F
1218 1395 0.400213 TCGTTCCCTTGAAGCCACAT 59.600 50.0 0.00 0.0 0.00 3.21 F
2548 5126 0.810648 TGAACAATTCCATGCGAGCC 59.189 50.0 0.00 0.0 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1210 1387 0.033504 ACAACGAGACGATGTGGCTT 59.966 50.000 6.29 0.0 40.99 4.35 R
2143 2878 1.173913 AATTTGGGTAGTCGGCAAGC 58.826 50.000 0.00 0.0 0.00 4.01 R
3074 5678 2.633488 GTCTTATTCCCACTCACTGCC 58.367 52.381 0.00 0.0 0.00 4.85 R
3324 6193 7.164122 CACATACCAGCTTATGAGGACATAAT 58.836 38.462 11.55 0.0 44.55 1.28 R
3535 6675 3.286751 GAAGGCACGGCTGCACAA 61.287 61.111 0.50 0.0 46.28 3.33 R
4006 7309 0.031716 ATGCAGGCCTAGGAGTCAGA 60.032 55.000 14.75 0.0 0.00 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
78 79 0.113776 TCCGGCGTTATAGAGGGGAT 59.886 55.000 6.01 0.00 0.00 3.85
89 90 1.077429 GAGGGGATCCTGCGCTTTT 60.077 57.895 12.58 0.00 45.05 2.27
92 93 1.378514 GGGATCCTGCGCTTTTCCA 60.379 57.895 12.58 0.00 0.00 3.53
238 242 1.006832 GTGCCGGTGCTACTTACATG 58.993 55.000 1.90 0.00 38.71 3.21
255 259 1.627297 ATGAGGAGAAACGGGAGGGC 61.627 60.000 0.00 0.00 0.00 5.19
272 276 4.410400 CGGGGAGGAAGCGGCTTT 62.410 66.667 17.51 0.94 0.00 3.51
447 451 4.680237 CGGCCTTGGTGCTCACGA 62.680 66.667 0.00 0.00 0.00 4.35
451 455 1.594293 CCTTGGTGCTCACGAACGT 60.594 57.895 0.00 0.00 0.00 3.99
644 660 3.818787 CAGCCGGCCATTGTGCTC 61.819 66.667 26.15 0.00 30.08 4.26
671 687 2.465097 GATCGCCGATCACTCCCTCG 62.465 65.000 21.52 0.00 38.77 4.63
771 787 6.872547 AGAGTTTATGGAGAAAAGTCCGTTAC 59.127 38.462 0.00 0.00 39.81 2.50
797 813 3.817210 TTGGGCCCAAATCCACGCA 62.817 57.895 35.47 9.15 32.44 5.24
866 882 3.539842 CCCTCGCTTCCTAGGGTC 58.460 66.667 9.46 0.00 46.45 4.46
940 956 1.429148 GATCCACCCGAATGTCGCAC 61.429 60.000 0.00 0.00 38.82 5.34
1031 1154 2.179517 CGGCGGCGGCATTTTTAA 59.820 55.556 32.59 0.00 42.47 1.52
1098 1221 2.076863 GCCAACAAGTAATGCTCGACT 58.923 47.619 0.00 0.00 0.00 4.18
1123 1253 1.238896 TTCCCTCCATCCCTCTCCCT 61.239 60.000 0.00 0.00 0.00 4.20
1124 1254 1.461075 CCCTCCATCCCTCTCCCTG 60.461 68.421 0.00 0.00 0.00 4.45
1178 1355 2.609046 CCTTGGGAGGATCGGTTCT 58.391 57.895 0.00 0.00 46.74 3.01
1179 1356 0.466124 CCTTGGGAGGATCGGTTCTC 59.534 60.000 0.00 0.00 46.74 2.87
1180 1357 0.466124 CTTGGGAGGATCGGTTCTCC 59.534 60.000 15.44 15.44 46.57 3.71
1190 1367 2.263852 GGTTCTCCGGTCGGTTCC 59.736 66.667 9.36 4.65 36.47 3.62
1191 1368 2.263852 GTTCTCCGGTCGGTTCCC 59.736 66.667 9.36 0.00 36.47 3.97
1192 1369 2.203669 TTCTCCGGTCGGTTCCCA 60.204 61.111 9.36 0.00 36.47 4.37
1193 1370 2.280552 TTCTCCGGTCGGTTCCCAG 61.281 63.158 9.36 0.00 36.47 4.45
1194 1371 4.452733 CTCCGGTCGGTTCCCAGC 62.453 72.222 9.36 0.00 36.47 4.85
1198 1375 4.754667 GGTCGGTTCCCAGCGGAC 62.755 72.222 0.00 0.00 44.32 4.79
1199 1376 3.692406 GTCGGTTCCCAGCGGACT 61.692 66.667 0.00 0.00 44.32 3.85
1200 1377 3.379445 TCGGTTCCCAGCGGACTC 61.379 66.667 0.00 0.00 44.32 3.36
1201 1378 4.796231 CGGTTCCCAGCGGACTCG 62.796 72.222 0.00 0.00 38.14 4.18
1202 1379 3.692406 GGTTCCCAGCGGACTCGT 61.692 66.667 0.00 0.00 38.14 4.18
1203 1380 2.342648 GTTCCCAGCGGACTCGTT 59.657 61.111 0.00 0.00 38.14 3.85
1204 1381 1.737008 GTTCCCAGCGGACTCGTTC 60.737 63.158 0.00 0.00 38.14 3.95
1205 1382 2.939261 TTCCCAGCGGACTCGTTCC 61.939 63.158 0.00 0.00 38.14 3.62
1206 1383 4.452733 CCCAGCGGACTCGTTCCC 62.453 72.222 0.94 0.00 42.27 3.97
1207 1384 3.382832 CCAGCGGACTCGTTCCCT 61.383 66.667 0.94 0.00 42.27 4.20
1208 1385 2.657237 CAGCGGACTCGTTCCCTT 59.343 61.111 0.94 0.00 42.27 3.95
1209 1386 1.738099 CAGCGGACTCGTTCCCTTG 60.738 63.158 0.94 0.00 42.27 3.61
1210 1387 1.906824 AGCGGACTCGTTCCCTTGA 60.907 57.895 0.94 0.00 42.27 3.02
1211 1388 1.005394 GCGGACTCGTTCCCTTGAA 60.005 57.895 0.94 0.00 42.27 2.69
1212 1389 1.014564 GCGGACTCGTTCCCTTGAAG 61.015 60.000 0.94 0.00 42.27 3.02
1213 1390 1.014564 CGGACTCGTTCCCTTGAAGC 61.015 60.000 0.94 0.00 42.27 3.86
1214 1391 0.673956 GGACTCGTTCCCTTGAAGCC 60.674 60.000 0.00 0.00 38.70 4.35
1215 1392 0.034896 GACTCGTTCCCTTGAAGCCA 59.965 55.000 0.00 0.00 0.00 4.75
1216 1393 0.250338 ACTCGTTCCCTTGAAGCCAC 60.250 55.000 0.00 0.00 0.00 5.01
1217 1394 0.250295 CTCGTTCCCTTGAAGCCACA 60.250 55.000 0.00 0.00 0.00 4.17
1218 1395 0.400213 TCGTTCCCTTGAAGCCACAT 59.600 50.000 0.00 0.00 0.00 3.21
1264 1491 2.458951 CTCTCATGTGCTCTTCGTAGC 58.541 52.381 0.00 0.00 43.08 3.58
1275 1502 3.298317 CTCTTCGTAGCGTTACCTATGC 58.702 50.000 3.68 0.00 39.16 3.14
1303 1698 2.544685 CGCAGCAAGCTCTTACATACT 58.455 47.619 0.00 0.00 42.61 2.12
1304 1699 2.932614 CGCAGCAAGCTCTTACATACTT 59.067 45.455 0.00 0.00 42.61 2.24
1314 1709 6.334202 AGCTCTTACATACTTCTGCTGTTAC 58.666 40.000 0.00 0.00 0.00 2.50
1333 1770 7.132694 TGTTACTGATTTGTTCTAGCATGTG 57.867 36.000 0.00 0.00 0.00 3.21
1536 2140 3.485463 TGTGAATTCTGTTTCCGGAGT 57.515 42.857 3.34 0.00 0.00 3.85
1657 2262 2.222886 CGGAAATGATCGCACAGTTCAG 60.223 50.000 17.83 12.72 43.56 3.02
1754 2359 5.470777 GCCCAACAGTTACTGTATGTGTTTA 59.529 40.000 18.93 0.00 44.62 2.01
1770 2377 9.813080 GTATGTGTTTATGTCTTCTCTTGTTTC 57.187 33.333 0.00 0.00 0.00 2.78
1779 2391 7.055667 TGTCTTCTCTTGTTTCACTATGAGT 57.944 36.000 0.00 0.00 0.00 3.41
1784 2396 5.991606 TCTCTTGTTTCACTATGAGTTGGTG 59.008 40.000 0.00 0.00 0.00 4.17
2090 2825 4.514066 GGAAACTGTCTGAATTGTTACGGT 59.486 41.667 0.00 0.00 32.91 4.83
2143 2878 3.305110 GTCGTAACTGGCATTTGTTTGG 58.695 45.455 0.00 0.00 0.00 3.28
2186 2923 9.941325 ATTTGAGTCCATCTATCACATTATCTC 57.059 33.333 0.00 0.00 0.00 2.75
2338 4910 3.695830 TCCTTTTATCGGTCTGCAAGT 57.304 42.857 0.00 0.00 33.76 3.16
2384 4956 1.896220 TCAGATGGCCAAACTGTGAC 58.104 50.000 29.50 9.62 33.93 3.67
2548 5126 0.810648 TGAACAATTCCATGCGAGCC 59.189 50.000 0.00 0.00 0.00 4.70
2625 5211 6.874664 TGCATATAAAGACGAGTTGGTGTAAA 59.125 34.615 0.00 0.00 0.00 2.01
3074 5678 1.600957 CAAATCCACGCCTGCTATCTG 59.399 52.381 0.00 0.00 0.00 2.90
3324 6193 8.312564 TGATATTCCTTCAAAATTGTGATTGCA 58.687 29.630 0.00 0.00 0.00 4.08
3391 6428 5.184671 GGATGAGGAGCTTGTTGAGATTTTT 59.815 40.000 0.00 0.00 0.00 1.94
3573 6713 1.071385 CAGAGGTTTGCTGTGAGGACT 59.929 52.381 0.00 0.00 0.00 3.85
3575 6715 2.564947 AGAGGTTTGCTGTGAGGACTAG 59.435 50.000 0.00 0.00 0.00 2.57
3601 6741 6.135290 AGACTTTCGAGAATCTCTCATCTG 57.865 41.667 8.77 0.00 43.55 2.90
3625 6795 6.096705 TGGAGGTAATGTTGCTCATTTAATGG 59.903 38.462 5.02 0.00 43.33 3.16
3629 6799 6.756542 GGTAATGTTGCTCATTTAATGGTTCC 59.243 38.462 5.02 0.00 43.33 3.62
3656 6826 7.812191 CCAATTTCGGTTGAATATCAGTTTGAA 59.188 33.333 0.00 0.00 33.20 2.69
3662 6832 9.190858 TCGGTTGAATATCAGTTTGAAAATTTG 57.809 29.630 0.00 0.00 0.00 2.32
3806 7109 8.192110 GTGGGTTCGATTTTAATGCCTTATTTA 58.808 33.333 0.00 0.00 0.00 1.40
3938 7241 1.064952 CAAACCTTGACGTGGTTCACC 59.935 52.381 9.04 0.00 45.99 4.02
3959 7262 2.283884 CGTTGTGGTTGTTTGAAATGCC 59.716 45.455 0.00 0.00 0.00 4.40
3960 7263 3.265791 GTTGTGGTTGTTTGAAATGCCA 58.734 40.909 0.00 0.00 0.00 4.92
4006 7309 1.542492 CAGGGCTTCAAGCAGTGATT 58.458 50.000 12.53 0.00 44.75 2.57
4020 7323 2.102252 CAGTGATTCTGACTCCTAGGCC 59.898 54.545 2.96 0.00 46.27 5.19
4066 7369 2.298158 CTGCTATCAGCGTTCCCGGT 62.298 60.000 0.00 0.00 46.26 5.28
4081 7387 4.054780 TCCCGGTCATCTTTTCTTATCG 57.945 45.455 0.00 0.00 0.00 2.92
4246 7552 9.860898 AAATTTCTATGCTGGAACAAATTACTC 57.139 29.630 0.00 0.00 38.70 2.59
4247 7553 7.391148 TTTCTATGCTGGAACAAATTACTCC 57.609 36.000 0.00 0.00 38.70 3.85
4248 7554 5.437060 TCTATGCTGGAACAAATTACTCCC 58.563 41.667 0.00 0.00 38.70 4.30
4249 7555 3.806949 TGCTGGAACAAATTACTCCCT 57.193 42.857 0.00 0.00 38.70 4.20
4250 7556 3.686016 TGCTGGAACAAATTACTCCCTC 58.314 45.455 0.00 0.00 38.70 4.30
4251 7557 3.017442 GCTGGAACAAATTACTCCCTCC 58.983 50.000 0.00 0.00 38.70 4.30
4252 7558 3.270877 CTGGAACAAATTACTCCCTCCG 58.729 50.000 0.00 0.00 38.70 4.63
4253 7559 2.640826 TGGAACAAATTACTCCCTCCGT 59.359 45.455 0.00 0.00 31.92 4.69
4254 7560 3.839490 TGGAACAAATTACTCCCTCCGTA 59.161 43.478 0.00 0.00 31.92 4.02
4255 7561 4.286549 TGGAACAAATTACTCCCTCCGTAA 59.713 41.667 0.00 0.00 31.92 3.18
4256 7562 5.221884 TGGAACAAATTACTCCCTCCGTAAA 60.222 40.000 0.00 0.00 31.92 2.01
4257 7563 5.122869 GGAACAAATTACTCCCTCCGTAAAC 59.877 44.000 0.00 0.00 31.36 2.01
4258 7564 5.494390 ACAAATTACTCCCTCCGTAAACT 57.506 39.130 0.00 0.00 31.36 2.66
4259 7565 6.610075 ACAAATTACTCCCTCCGTAAACTA 57.390 37.500 0.00 0.00 31.36 2.24
4260 7566 7.008021 ACAAATTACTCCCTCCGTAAACTAA 57.992 36.000 0.00 0.00 31.36 2.24
4261 7567 7.627311 ACAAATTACTCCCTCCGTAAACTAAT 58.373 34.615 0.00 0.00 31.36 1.73
4262 7568 8.761689 ACAAATTACTCCCTCCGTAAACTAATA 58.238 33.333 0.00 0.00 31.36 0.98
4263 7569 9.774413 CAAATTACTCCCTCCGTAAACTAATAT 57.226 33.333 0.00 0.00 31.36 1.28
4267 7573 9.866655 TTACTCCCTCCGTAAACTAATATAAGA 57.133 33.333 0.00 0.00 0.00 2.10
4268 7574 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
4269 7575 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
4270 7576 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
4271 7577 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
4272 7578 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
4273 7579 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
4274 7580 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
4275 7581 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
4276 7582 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
4288 7594 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
4289 7595 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
4290 7596 8.503458 AGAGCGTTTAGATCACTACTTTAGTA 57.497 34.615 0.00 0.00 37.82 1.82
4291 7597 8.954350 AGAGCGTTTAGATCACTACTTTAGTAA 58.046 33.333 0.00 0.00 37.82 2.24
4292 7598 9.733219 GAGCGTTTAGATCACTACTTTAGTAAT 57.267 33.333 0.00 0.00 37.23 1.89
4293 7599 9.733219 AGCGTTTAGATCACTACTTTAGTAATC 57.267 33.333 0.00 0.00 37.23 1.75
4294 7600 9.733219 GCGTTTAGATCACTACTTTAGTAATCT 57.267 33.333 4.72 4.72 37.23 2.40
4300 7606 9.733219 AGATCACTACTTTAGTAATCTAAACGC 57.267 33.333 0.00 0.00 40.05 4.84
4301 7607 9.733219 GATCACTACTTTAGTAATCTAAACGCT 57.267 33.333 0.00 0.00 40.05 5.07
4302 7608 9.733219 ATCACTACTTTAGTAATCTAAACGCTC 57.267 33.333 0.00 0.00 40.05 5.03
4303 7609 8.954350 TCACTACTTTAGTAATCTAAACGCTCT 58.046 33.333 0.00 0.00 40.05 4.09
4304 7610 9.570488 CACTACTTTAGTAATCTAAACGCTCTT 57.430 33.333 0.00 0.00 40.05 2.85
4321 7627 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
4322 7628 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
4323 7629 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
4324 7630 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
4325 7631 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
4340 7646 2.178106 AGGGAGTACTATGTAGCCTGCT 59.822 50.000 0.00 0.00 0.00 4.24
4344 7650 3.226777 AGTACTATGTAGCCTGCTGGAG 58.773 50.000 14.77 2.99 34.57 3.86
4364 7670 5.192522 TGGAGCAAATTCTAGAGAGGGATTT 59.807 40.000 0.00 0.00 0.00 2.17
4463 7770 4.217118 GTCCTTGGCTGCCAAATCTATATG 59.783 45.833 31.71 18.41 43.44 1.78
4472 7779 6.016860 GCTGCCAAATCTATATGACAATGACA 60.017 38.462 0.00 0.00 0.00 3.58
4473 7780 7.263100 TGCCAAATCTATATGACAATGACAC 57.737 36.000 0.00 0.00 0.00 3.67
4729 8083 2.203084 TCGCTGTTTGCAACCCGA 60.203 55.556 0.00 2.06 43.06 5.14
4746 8100 2.554142 CCGAATCTGCACTGCTAATGA 58.446 47.619 1.98 0.00 0.00 2.57
4775 8135 1.247567 AATCCTCACCTGGTTTTGCG 58.752 50.000 0.00 0.00 0.00 4.85
4796 8156 3.674997 GAACTCTACAATGGTGGCTCAA 58.325 45.455 0.00 0.00 0.00 3.02
4834 8194 5.587844 AGATTTCACAAATCCATTCTCTCCG 59.412 40.000 5.53 0.00 46.65 4.63
4835 8195 3.266510 TCACAAATCCATTCTCTCCGG 57.733 47.619 0.00 0.00 0.00 5.14
4843 8203 2.128507 ATTCTCTCCGGTCTCCGCC 61.129 63.158 0.00 0.00 46.86 6.13
4851 8211 3.009714 GGTCTCCGCCCCTCCTTT 61.010 66.667 0.00 0.00 0.00 3.11
4861 8246 1.562783 CCCCTCCTTTCTCGTTCTCT 58.437 55.000 0.00 0.00 0.00 3.10
4867 8252 4.212214 CCTCCTTTCTCGTTCTCTTGTTTG 59.788 45.833 0.00 0.00 0.00 2.93
4876 8261 7.486647 TCTCGTTCTCTTGTTTGTTACTACTT 58.513 34.615 0.00 0.00 0.00 2.24
4878 8263 7.259882 TCGTTCTCTTGTTTGTTACTACTTCA 58.740 34.615 0.00 0.00 0.00 3.02
4881 8266 9.042008 GTTCTCTTGTTTGTTACTACTTCATCA 57.958 33.333 0.00 0.00 0.00 3.07
4899 8389 9.283768 ACTTCATCACACAATGTTAGACATTTA 57.716 29.630 3.69 0.00 45.80 1.40
4903 8393 6.541969 TCACACAATGTTAGACATTTATGCG 58.458 36.000 3.69 1.49 45.80 4.73
4911 8401 3.097877 AGACATTTATGCGAGCGATGA 57.902 42.857 0.00 0.00 0.00 2.92
4915 8405 4.560128 ACATTTATGCGAGCGATGATAGT 58.440 39.130 0.00 0.00 0.00 2.12
4919 8409 0.930310 TGCGAGCGATGATAGTTTGC 59.070 50.000 0.00 0.00 0.00 3.68
4925 8415 5.030295 CGAGCGATGATAGTTTGCAAAAAT 58.970 37.500 14.67 10.63 0.00 1.82
4978 8472 8.648693 AGTAAAGTTAGTACTTGTGTCCTTCAT 58.351 33.333 0.00 0.00 43.74 2.57
4983 8477 5.290493 AGTACTTGTGTCCTTCATGACAA 57.710 39.130 0.00 0.00 46.17 3.18
4989 8483 6.096705 ACTTGTGTCCTTCATGACAATTTTGA 59.903 34.615 0.00 0.00 46.17 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 79 2.092429 AGGATATTGGAAAAGCGCAGGA 60.092 45.455 11.47 0.00 0.00 3.86
133 137 3.445518 GATGATGACTGGGCGCCGA 62.446 63.158 22.54 17.25 0.00 5.54
238 242 2.585153 GCCCTCCCGTTTCTCCTC 59.415 66.667 0.00 0.00 0.00 3.71
255 259 4.410400 AAAGCCGCTTCCTCCCCG 62.410 66.667 5.98 0.00 0.00 5.73
829 845 0.400815 ATCTGGTGGGCCGGGTAATA 60.401 55.000 2.18 0.00 41.53 0.98
832 848 2.766651 GATCTGGTGGGCCGGGTA 60.767 66.667 2.18 0.00 41.53 3.69
940 956 2.114670 AGTTGGAATGGCGATGCGG 61.115 57.895 0.00 0.00 0.00 5.69
1098 1221 2.376842 GGATGGAGGGAAGGGGGA 59.623 66.667 0.00 0.00 0.00 4.81
1123 1253 6.069331 AGCGGTAGATCTAATCTAAGTTCCA 58.931 40.000 3.40 0.00 43.04 3.53
1124 1254 6.578163 AGCGGTAGATCTAATCTAAGTTCC 57.422 41.667 3.40 0.00 43.04 3.62
1173 1350 2.263852 GGAACCGACCGGAGAACC 59.736 66.667 16.07 8.47 38.96 3.62
1174 1351 2.263852 GGGAACCGACCGGAGAAC 59.736 66.667 16.07 2.48 40.86 3.01
1185 1362 3.236003 AACGAGTCCGCTGGGAACC 62.236 63.158 0.00 0.00 46.08 3.62
1186 1363 1.737008 GAACGAGTCCGCTGGGAAC 60.737 63.158 0.00 0.00 46.08 3.62
1187 1364 2.654877 GAACGAGTCCGCTGGGAA 59.345 61.111 0.00 0.00 46.08 3.97
1188 1365 3.379445 GGAACGAGTCCGCTGGGA 61.379 66.667 0.00 0.00 41.08 4.37
1196 1373 0.034896 TGGCTTCAAGGGAACGAGTC 59.965 55.000 0.00 0.00 0.00 3.36
1197 1374 0.250338 GTGGCTTCAAGGGAACGAGT 60.250 55.000 0.00 0.00 0.00 4.18
1198 1375 0.250295 TGTGGCTTCAAGGGAACGAG 60.250 55.000 0.00 0.00 0.00 4.18
1199 1376 0.400213 ATGTGGCTTCAAGGGAACGA 59.600 50.000 0.00 0.00 0.00 3.85
1200 1377 0.804989 GATGTGGCTTCAAGGGAACG 59.195 55.000 0.00 0.00 0.00 3.95
1201 1378 0.804989 CGATGTGGCTTCAAGGGAAC 59.195 55.000 0.00 0.00 0.00 3.62
1202 1379 0.400213 ACGATGTGGCTTCAAGGGAA 59.600 50.000 0.00 0.00 0.00 3.97
1203 1380 0.036388 GACGATGTGGCTTCAAGGGA 60.036 55.000 0.00 0.00 0.00 4.20
1204 1381 0.036010 AGACGATGTGGCTTCAAGGG 60.036 55.000 0.00 0.00 0.00 3.95
1205 1382 1.363744 GAGACGATGTGGCTTCAAGG 58.636 55.000 0.00 0.00 0.00 3.61
1206 1383 0.994995 CGAGACGATGTGGCTTCAAG 59.005 55.000 0.00 0.00 0.00 3.02
1207 1384 0.317160 ACGAGACGATGTGGCTTCAA 59.683 50.000 0.00 0.00 0.00 2.69
1208 1385 0.317160 AACGAGACGATGTGGCTTCA 59.683 50.000 0.00 0.00 0.00 3.02
1209 1386 0.716108 CAACGAGACGATGTGGCTTC 59.284 55.000 0.00 0.00 0.00 3.86
1210 1387 0.033504 ACAACGAGACGATGTGGCTT 59.966 50.000 6.29 0.00 40.99 4.35
1211 1388 0.885879 TACAACGAGACGATGTGGCT 59.114 50.000 15.00 0.00 42.34 4.75
1212 1389 1.852895 GATACAACGAGACGATGTGGC 59.147 52.381 15.00 5.43 42.34 5.01
1213 1390 2.109463 CGATACAACGAGACGATGTGG 58.891 52.381 15.00 3.57 42.34 4.17
1214 1391 2.526289 CACGATACAACGAGACGATGTG 59.474 50.000 15.00 3.87 42.34 3.21
1215 1392 2.477357 CCACGATACAACGAGACGATGT 60.477 50.000 11.17 11.17 44.33 3.06
1216 1393 2.109463 CCACGATACAACGAGACGATG 58.891 52.381 0.00 0.00 35.82 3.84
1217 1394 1.065102 CCCACGATACAACGAGACGAT 59.935 52.381 0.00 0.00 37.03 3.73
1218 1395 0.448990 CCCACGATACAACGAGACGA 59.551 55.000 0.00 0.00 37.03 4.20
1264 1491 1.594293 CCCTGCGGCATAGGTAACG 60.594 63.158 1.75 0.00 46.39 3.18
1302 1697 6.551385 AGAACAAATCAGTAACAGCAGAAG 57.449 37.500 0.00 0.00 0.00 2.85
1303 1698 6.147821 GCTAGAACAAATCAGTAACAGCAGAA 59.852 38.462 0.00 0.00 0.00 3.02
1304 1699 5.639506 GCTAGAACAAATCAGTAACAGCAGA 59.360 40.000 0.00 0.00 0.00 4.26
1314 1709 4.264253 TCCCACATGCTAGAACAAATCAG 58.736 43.478 0.00 0.00 0.00 2.90
1377 1830 1.818060 ACGTACGTGCACAACCCTATA 59.182 47.619 22.14 0.00 0.00 1.31
1378 1831 0.604578 ACGTACGTGCACAACCCTAT 59.395 50.000 22.14 0.00 0.00 2.57
1480 1933 5.690865 TCTGCCCCATTGGTTTAGTATAAG 58.309 41.667 1.20 0.00 36.04 1.73
1486 2089 2.493278 CAACTCTGCCCCATTGGTTTAG 59.507 50.000 1.20 0.00 36.04 1.85
1657 2262 5.046950 ACAACTCAGTCCCTTAGATGTTCTC 60.047 44.000 0.00 0.00 0.00 2.87
1699 2304 2.538437 TGAAACACAGCACACAAATGC 58.462 42.857 0.00 0.00 46.50 3.56
1754 2359 7.675062 ACTCATAGTGAAACAAGAGAAGACAT 58.325 34.615 0.00 0.00 41.43 3.06
1770 2377 5.527214 TCAAACTGAACACCAACTCATAGTG 59.473 40.000 0.00 0.00 37.53 2.74
1779 2391 6.538021 CCATGAAAAATCAAACTGAACACCAA 59.462 34.615 0.00 0.00 0.00 3.67
1784 2396 6.036953 TGTTGCCATGAAAAATCAAACTGAAC 59.963 34.615 0.00 0.00 0.00 3.18
2090 2825 6.419791 ACCAAATATAAATCTTCACCGTCCA 58.580 36.000 0.00 0.00 0.00 4.02
2143 2878 1.173913 AATTTGGGTAGTCGGCAAGC 58.826 50.000 0.00 0.00 0.00 4.01
2186 2923 6.660887 ACAAACTAAAACAGCAAACCAATG 57.339 33.333 0.00 0.00 0.00 2.82
2338 4910 3.244387 TGAACTTGTGATCATCACCCGAA 60.244 43.478 15.44 2.25 46.40 4.30
2592 5178 5.694006 ACTCGTCTTTATATGCATCAGAAGC 59.306 40.000 0.19 0.00 0.00 3.86
2625 5211 8.357290 TCATCATCCTCTTGAAAATTCATTGT 57.643 30.769 0.00 0.00 37.00 2.71
2770 5357 7.011482 CACACCAGTTAATGAGGAGCTAATAAC 59.989 40.741 0.00 0.00 0.00 1.89
3074 5678 2.633488 GTCTTATTCCCACTCACTGCC 58.367 52.381 0.00 0.00 0.00 4.85
3324 6193 7.164122 CACATACCAGCTTATGAGGACATAAT 58.836 38.462 11.55 0.00 44.55 1.28
3535 6675 3.286751 GAAGGCACGGCTGCACAA 61.287 61.111 0.50 0.00 46.28 3.33
3573 6713 5.416013 TGAGAGATTCTCGAAAGTCTTGCTA 59.584 40.000 8.01 0.00 46.25 3.49
3575 6715 4.489810 TGAGAGATTCTCGAAAGTCTTGC 58.510 43.478 8.01 0.00 46.25 4.01
3601 6741 6.096846 ACCATTAAATGAGCAACATTACCTCC 59.903 38.462 9.02 0.00 46.90 4.30
3625 6795 3.953712 ATTCAACCGAAATTGGGGAAC 57.046 42.857 0.00 0.00 34.01 3.62
3629 6799 5.835113 ACTGATATTCAACCGAAATTGGG 57.165 39.130 0.00 0.00 34.01 4.12
3656 6826 3.494251 GCGAATGTTCTGCCAACAAATTT 59.506 39.130 2.68 0.00 33.42 1.82
3662 6832 1.199789 TGATGCGAATGTTCTGCCAAC 59.800 47.619 0.00 0.00 0.00 3.77
3938 7241 2.283884 GGCATTTCAAACAACCACAACG 59.716 45.455 0.00 0.00 0.00 4.10
3959 7262 6.169094 ACAAAGATCTATTCAGTCACCTGTG 58.831 40.000 0.00 0.00 39.82 3.66
3960 7263 6.365970 ACAAAGATCTATTCAGTCACCTGT 57.634 37.500 0.00 0.00 39.82 4.00
4006 7309 0.031716 ATGCAGGCCTAGGAGTCAGA 60.032 55.000 14.75 0.00 0.00 3.27
4066 7369 9.667107 ATCCAAAACTACGATAAGAAAAGATGA 57.333 29.630 0.00 0.00 0.00 2.92
4246 7552 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
4247 7553 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
4248 7554 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
4249 7555 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
4250 7556 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
4262 7568 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
4263 7569 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
4264 7570 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
4265 7571 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
4266 7572 9.733219 ATTACTAAAGTAGTGATCTAAACGCTC 57.267 33.333 0.00 0.00 39.81 5.03
4267 7573 9.733219 GATTACTAAAGTAGTGATCTAAACGCT 57.267 33.333 11.11 0.00 44.10 5.07
4275 7581 9.733219 AGCGTTTAGATTACTAAAGTAGTGATC 57.267 33.333 10.62 10.62 46.38 2.92
4276 7582 9.733219 GAGCGTTTAGATTACTAAAGTAGTGAT 57.267 33.333 0.00 0.00 45.42 3.06
4277 7583 8.954350 AGAGCGTTTAGATTACTAAAGTAGTGA 58.046 33.333 0.00 0.00 45.42 3.41
4278 7584 9.570488 AAGAGCGTTTAGATTACTAAAGTAGTG 57.430 33.333 0.00 0.00 45.42 2.74
4295 7601 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
4296 7602 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
4297 7603 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
4298 7604 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
4299 7605 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
4308 7614 9.624373 CTACATAGTACTCCCTCTGTAAACTAA 57.376 37.037 0.00 0.00 0.00 2.24
4309 7615 7.718753 GCTACATAGTACTCCCTCTGTAAACTA 59.281 40.741 0.00 0.00 0.00 2.24
4310 7616 6.546772 GCTACATAGTACTCCCTCTGTAAACT 59.453 42.308 0.00 0.00 0.00 2.66
4311 7617 6.238981 GGCTACATAGTACTCCCTCTGTAAAC 60.239 46.154 0.00 0.00 0.00 2.01
4312 7618 5.832060 GGCTACATAGTACTCCCTCTGTAAA 59.168 44.000 0.00 0.00 0.00 2.01
4313 7619 5.133999 AGGCTACATAGTACTCCCTCTGTAA 59.866 44.000 0.00 0.00 0.00 2.41
4314 7620 4.664064 AGGCTACATAGTACTCCCTCTGTA 59.336 45.833 0.00 0.85 0.00 2.74
4315 7621 3.464080 AGGCTACATAGTACTCCCTCTGT 59.536 47.826 0.00 0.00 0.00 3.41
4316 7622 3.823873 CAGGCTACATAGTACTCCCTCTG 59.176 52.174 0.00 0.00 0.00 3.35
4317 7623 3.752542 GCAGGCTACATAGTACTCCCTCT 60.753 52.174 0.00 0.00 0.00 3.69
4318 7624 2.559231 GCAGGCTACATAGTACTCCCTC 59.441 54.545 0.00 0.00 0.00 4.30
4319 7625 2.178106 AGCAGGCTACATAGTACTCCCT 59.822 50.000 0.00 0.00 0.00 4.20
4320 7626 2.297597 CAGCAGGCTACATAGTACTCCC 59.702 54.545 0.00 0.00 0.00 4.30
4321 7627 2.297597 CCAGCAGGCTACATAGTACTCC 59.702 54.545 0.00 0.00 0.00 3.85
4322 7628 3.223435 TCCAGCAGGCTACATAGTACTC 58.777 50.000 0.00 0.00 33.74 2.59
4323 7629 3.226777 CTCCAGCAGGCTACATAGTACT 58.773 50.000 0.00 0.00 33.74 2.73
4324 7630 2.288518 GCTCCAGCAGGCTACATAGTAC 60.289 54.545 0.00 0.00 41.59 2.73
4325 7631 1.964223 GCTCCAGCAGGCTACATAGTA 59.036 52.381 0.00 0.00 41.59 1.82
4326 7632 0.755686 GCTCCAGCAGGCTACATAGT 59.244 55.000 0.00 0.00 41.59 2.12
4327 7633 3.603144 GCTCCAGCAGGCTACATAG 57.397 57.895 0.00 0.00 41.59 2.23
4340 7646 3.724478 TCCCTCTCTAGAATTTGCTCCA 58.276 45.455 0.00 0.00 0.00 3.86
4344 7650 6.125719 AGGAAAATCCCTCTCTAGAATTTGC 58.874 40.000 0.00 0.00 37.19 3.68
4463 7770 6.741992 TTGGATATCAACAGTGTCATTGTC 57.258 37.500 4.83 0.00 0.00 3.18
4519 7865 0.381089 CCGGTTGTTTGTACGCCAAA 59.619 50.000 0.00 0.00 40.71 3.28
4594 7940 9.768215 TCCATTTCAAAATATAAGACCCTTCTT 57.232 29.630 0.00 0.00 44.70 2.52
4596 7942 8.633561 CCTCCATTTCAAAATATAAGACCCTTC 58.366 37.037 0.00 0.00 0.00 3.46
4597 7943 7.565029 CCCTCCATTTCAAAATATAAGACCCTT 59.435 37.037 0.00 0.00 0.00 3.95
4598 7944 7.069344 CCCTCCATTTCAAAATATAAGACCCT 58.931 38.462 0.00 0.00 0.00 4.34
4615 7969 6.848562 AGGTAATGAATTACTCCCTCCATT 57.151 37.500 11.84 0.00 41.71 3.16
4666 8020 5.047188 CGCCAACAAAAGAAAAACCATAGT 58.953 37.500 0.00 0.00 0.00 2.12
4729 8083 3.562973 CGGAATCATTAGCAGTGCAGATT 59.437 43.478 19.20 18.85 0.00 2.40
4746 8100 3.370953 CCAGGTGAGGATTTCTTCGGAAT 60.371 47.826 0.00 0.00 33.58 3.01
4775 8135 3.334583 TGAGCCACCATTGTAGAGTTC 57.665 47.619 0.00 0.00 0.00 3.01
4796 8156 4.889409 TGTGAAATCTCAAAGAAAGGCACT 59.111 37.500 0.00 0.00 33.77 4.40
4808 8168 6.600822 GGAGAGAATGGATTTGTGAAATCTCA 59.399 38.462 8.54 6.05 45.17 3.27
4835 8195 1.962321 GAGAAAGGAGGGGCGGAGAC 61.962 65.000 0.00 0.00 0.00 3.36
4843 8203 2.300437 ACAAGAGAACGAGAAAGGAGGG 59.700 50.000 0.00 0.00 0.00 4.30
4850 8210 7.486647 AGTAGTAACAAACAAGAGAACGAGAA 58.513 34.615 0.00 0.00 0.00 2.87
4851 8211 7.035840 AGTAGTAACAAACAAGAGAACGAGA 57.964 36.000 0.00 0.00 0.00 4.04
4861 8246 7.851387 TGTGTGATGAAGTAGTAACAAACAA 57.149 32.000 0.00 0.00 0.00 2.83
4867 8252 9.419297 TCTAACATTGTGTGATGAAGTAGTAAC 57.581 33.333 0.00 0.00 0.00 2.50
4899 8389 1.528586 GCAAACTATCATCGCTCGCAT 59.471 47.619 0.00 0.00 0.00 4.73
4903 8393 8.566008 AATATTTTTGCAAACTATCATCGCTC 57.434 30.769 12.39 0.00 0.00 5.03
4925 8415 7.681168 ACTCCCTCCGTCCCATAATATAAAATA 59.319 37.037 0.00 0.00 0.00 1.40
4978 8472 3.153130 TGCGGAATCCTCAAAATTGTCA 58.847 40.909 0.00 0.00 0.00 3.58
4983 8477 2.431782 CCCAATGCGGAATCCTCAAAAT 59.568 45.455 0.00 0.00 36.56 1.82


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

AutoCloner maintained by Alex Coulton.