Multiple sequence alignment - TraesCS2A01G186900

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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 TraesCS2A01G186900 chr2A 100.000 4095 0 0 1 4095 148849919 148854013 0.000000e+00 7563.0
1 TraesCS2A01G186900 chr2D 94.259 2334 90 19 394 2726 152665288 152662998 0.000000e+00 3528.0
2 TraesCS2A01G186900 chr2D 95.854 603 19 4 2753 3354 152663013 152662416 0.000000e+00 970.0
3 TraesCS2A01G186900 chr2D 94.000 100 6 0 25 124 152665796 152665697 7.090000e-33 152.0
4 TraesCS2A01G186900 chr2D 100.000 35 0 0 362 396 152665348 152665314 9.500000e-07 65.8
5 TraesCS2A01G186900 chr2B 97.071 1400 37 4 1331 2726 210669175 210667776 0.000000e+00 2355.0
6 TraesCS2A01G186900 chr2B 91.391 1359 94 15 2753 4093 210667791 210666438 0.000000e+00 1840.0
7 TraesCS2A01G186900 chr2B 84.507 1349 100 37 1 1302 210670443 210669157 0.000000e+00 1232.0
8 TraesCS2A01G186900 chr2B 79.545 176 22 8 3419 3590 646982546 646982381 3.350000e-21 113.0
9 TraesCS2A01G186900 chr5B 89.145 1345 141 5 1346 2689 283235309 283236649 0.000000e+00 1670.0
10 TraesCS2A01G186900 chr5B 90.272 257 22 2 3614 3870 684060301 684060554 2.360000e-87 333.0
11 TraesCS2A01G186900 chr5A 89.071 1345 142 5 1346 2689 333740023 333741363 0.000000e+00 1664.0
12 TraesCS2A01G186900 chr5A 96.154 52 2 0 1288 1339 533944290 533944239 7.290000e-13 86.1
13 TraesCS2A01G186900 chr5D 88.922 1345 144 5 1346 2689 250416542 250417882 0.000000e+00 1653.0
14 TraesCS2A01G186900 chr5D 89.535 258 27 0 3613 3870 542299105 542299362 1.100000e-85 327.0
15 TraesCS2A01G186900 chr5D 96.154 52 2 0 1288 1339 420277232 420277181 7.290000e-13 86.1
16 TraesCS2A01G186900 chr1A 82.583 511 57 15 3613 4093 579800451 579799943 4.890000e-114 422.0
17 TraesCS2A01G186900 chr1A 89.062 64 5 2 1285 1346 74435820 74435757 1.220000e-10 78.7
18 TraesCS2A01G186900 chr7B 82.411 506 57 7 3618 4093 186868007 186868510 2.950000e-111 412.0
19 TraesCS2A01G186900 chr7B 88.235 68 5 3 1292 1357 657659998 657660064 1.220000e-10 78.7
20 TraesCS2A01G186900 chr1D 90.421 261 25 0 3610 3870 211805514 211805774 1.090000e-90 344.0
21 TraesCS2A01G186900 chr1D 89.615 260 21 5 3613 3870 41913945 41914200 3.950000e-85 326.0
22 TraesCS2A01G186900 chr1D 89.062 64 5 2 1285 1346 74277666 74277729 1.220000e-10 78.7
23 TraesCS2A01G186900 chr1B 90.347 259 23 2 3613 3870 141284887 141285144 5.070000e-89 339.0
24 TraesCS2A01G186900 chr1B 90.625 64 4 2 1285 1346 118121160 118121097 2.620000e-12 84.2
25 TraesCS2A01G186900 chr1B 90.625 64 4 2 1285 1346 118132206 118132269 2.620000e-12 84.2
26 TraesCS2A01G186900 chr3B 89.734 263 27 0 3610 3872 489693920 489694182 1.820000e-88 337.0
27 TraesCS2A01G186900 chr3B 90.625 224 19 2 3871 4093 489694210 489694432 3.100000e-76 296.0
28 TraesCS2A01G186900 chr3B 87.143 70 5 4 1291 1357 60259755 60259687 4.390000e-10 76.8
29 TraesCS2A01G186900 chr3D 90.119 253 25 0 3618 3870 608806582 608806330 3.050000e-86 329.0
30 TraesCS2A01G186900 chr3D 88.393 224 24 2 3871 4093 23629856 23629634 6.750000e-68 268.0
31 TraesCS2A01G186900 chr6B 89.575 259 25 2 3613 3870 449450195 449449938 1.100000e-85 327.0
32 TraesCS2A01G186900 chr6D 89.732 224 21 2 3871 4093 35028997 35028775 6.700000e-73 285.0
33 TraesCS2A01G186900 chr6D 88.496 226 24 2 3871 4095 101207755 101207979 5.220000e-69 272.0
34 TraesCS2A01G186900 chr7D 89.732 224 20 3 3871 4093 414102064 414102285 2.410000e-72 283.0
35 TraesCS2A01G186900 chr7D 88.393 224 24 2 3871 4093 20424227 20424449 6.750000e-68 268.0
36 TraesCS2A01G186900 chr7D 88.393 224 24 2 3871 4093 631022701 631022479 6.750000e-68 268.0
37 TraesCS2A01G186900 chrUn 82.031 128 21 2 3465 3590 87138216 87138343 1.560000e-19 108.0


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 TraesCS2A01G186900 chr2A 148849919 148854013 4094 False 7563.00 7563 100.000000 1 4095 1 chr2A.!!$F1 4094
1 TraesCS2A01G186900 chr2D 152662416 152665796 3380 True 1178.95 3528 96.028250 25 3354 4 chr2D.!!$R1 3329
2 TraesCS2A01G186900 chr2B 210666438 210670443 4005 True 1809.00 2355 90.989667 1 4093 3 chr2B.!!$R2 4092
3 TraesCS2A01G186900 chr5B 283235309 283236649 1340 False 1670.00 1670 89.145000 1346 2689 1 chr5B.!!$F1 1343
4 TraesCS2A01G186900 chr5A 333740023 333741363 1340 False 1664.00 1664 89.071000 1346 2689 1 chr5A.!!$F1 1343
5 TraesCS2A01G186900 chr5D 250416542 250417882 1340 False 1653.00 1653 88.922000 1346 2689 1 chr5D.!!$F1 1343
6 TraesCS2A01G186900 chr1A 579799943 579800451 508 True 422.00 422 82.583000 3613 4093 1 chr1A.!!$R2 480
7 TraesCS2A01G186900 chr7B 186868007 186868510 503 False 412.00 412 82.411000 3618 4093 1 chr7B.!!$F1 475
8 TraesCS2A01G186900 chr3B 489693920 489694432 512 False 316.50 337 90.179500 3610 4093 2 chr3B.!!$F1 483

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
124 126 0.179161 CCGTCGCCACTCTCAAGTAG 60.179 60.0 0.00 0.0 33.25 2.57 F
721 922 0.251916 GTCCATGGTCCGATGGTTCA 59.748 55.0 12.58 0.0 43.20 3.18 F
1884 2124 0.178068 GGAGCTCGGTAATGCTTCCA 59.822 55.0 7.83 0.0 39.91 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1652 1892 0.110238 CGTGATGTTTGTTGCCGGAG 60.110 55.0 5.05 0.0 0.00 4.63 R
2449 2689 1.105457 TGCTTCAATGCACTATGGGC 58.895 50.0 0.00 0.0 38.12 5.36 R
3479 3720 0.173708 GCGATCTTGTCTTCGTCCCT 59.826 55.0 0.00 0.0 37.66 4.20 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 54 3.512516 GTGCATCGCCTCCCAAGC 61.513 66.667 0.00 0.00 0.00 4.01
53 55 4.802051 TGCATCGCCTCCCAAGCC 62.802 66.667 0.00 0.00 0.00 4.35
86 88 2.548178 CGCAGCACCTCAGTCAAAT 58.452 52.632 0.00 0.00 0.00 2.32
89 91 1.457346 CAGCACCTCAGTCAAATCCC 58.543 55.000 0.00 0.00 0.00 3.85
124 126 0.179161 CCGTCGCCACTCTCAAGTAG 60.179 60.000 0.00 0.00 33.25 2.57
125 127 0.803117 CGTCGCCACTCTCAAGTAGA 59.197 55.000 0.00 0.00 33.25 2.59
143 145 5.746539 AGTAGAGTACGCTTAATTACGAGC 58.253 41.667 3.89 1.31 35.58 5.03
147 149 4.349501 AGTACGCTTAATTACGAGCAGAC 58.650 43.478 9.29 6.27 38.81 3.51
203 348 2.350134 CCAAGAGCAGAGCCAGCA 59.650 61.111 0.00 0.00 0.00 4.41
204 349 1.745864 CCAAGAGCAGAGCCAGCAG 60.746 63.158 0.00 0.00 0.00 4.24
205 350 2.046120 AAGAGCAGAGCCAGCAGC 60.046 61.111 0.00 0.00 44.25 5.25
217 362 2.033755 CAGCAGCTCACAGCAGGAC 61.034 63.158 0.00 0.00 45.56 3.85
244 389 2.699809 CGCTCGCATTCTCTGTGC 59.300 61.111 0.00 0.00 39.18 4.57
250 395 1.423056 GCATTCTCTGTGCGTCAGC 59.577 57.895 4.18 0.00 43.32 4.26
280 433 3.688159 GTGAGGGTACGGCGTGGT 61.688 66.667 24.86 3.64 0.00 4.16
325 494 3.884774 TGCGCACCACCCTTCCTT 61.885 61.111 5.66 0.00 0.00 3.36
339 508 0.599204 TTCCTTCGTGCCGTCTTCAC 60.599 55.000 0.00 0.00 0.00 3.18
360 529 0.532573 TGCGGCGATCTCTTCTCTTT 59.467 50.000 12.98 0.00 0.00 2.52
452 649 2.100603 CCGTCCTCTTCTCGCGAC 59.899 66.667 3.71 0.00 0.00 5.19
495 692 1.968540 GCGCTTCTTGGAGCCTTGT 60.969 57.895 0.00 0.00 39.51 3.16
550 748 3.782244 GCCGTCTCACTTGCTGCG 61.782 66.667 0.00 0.00 0.00 5.18
613 811 4.379243 CAGGGAGCGAGCAACCGT 62.379 66.667 0.00 0.00 0.00 4.83
628 826 5.172934 AGCAACCGTGATCGAAATTACTAA 58.827 37.500 0.00 0.00 39.71 2.24
664 862 2.785258 GGTCACTCGCCGATTTGC 59.215 61.111 0.00 0.00 0.00 3.68
721 922 0.251916 GTCCATGGTCCGATGGTTCA 59.748 55.000 12.58 0.00 43.20 3.18
726 927 2.401583 TGGTCCGATGGTTCATCTTG 57.598 50.000 6.37 0.00 38.59 3.02
732 933 3.007940 TCCGATGGTTCATCTTGTTCAGT 59.992 43.478 6.37 0.00 38.59 3.41
778 979 4.547367 GGTGAGGGCGCGGCTTAT 62.547 66.667 32.30 18.43 0.00 1.73
784 985 0.951558 AGGGCGCGGCTTATTTATTG 59.048 50.000 32.30 0.00 0.00 1.90
786 987 1.874872 GGGCGCGGCTTATTTATTGTA 59.125 47.619 32.30 0.00 0.00 2.41
790 991 3.242478 GCGCGGCTTATTTATTGTACACA 60.242 43.478 8.83 0.00 0.00 3.72
792 993 5.507077 CGCGGCTTATTTATTGTACACATT 58.493 37.500 0.00 0.00 0.00 2.71
814 1015 7.118101 ACATTTGTGAATGCATTGTTACCATTC 59.882 33.333 18.59 0.00 45.25 2.67
819 1020 0.865639 GCATTGTTACCATTCCGCGC 60.866 55.000 0.00 0.00 0.00 6.86
820 1021 0.449786 CATTGTTACCATTCCGCGCA 59.550 50.000 8.75 0.00 0.00 6.09
823 1024 0.730265 TGTTACCATTCCGCGCAATC 59.270 50.000 8.75 0.00 0.00 2.67
850 1051 4.915667 CCATAAGAGCATTTCGCATCATTG 59.084 41.667 0.00 0.00 46.13 2.82
855 1056 5.657474 AGAGCATTTCGCATCATTGATTTT 58.343 33.333 0.00 0.00 46.13 1.82
888 1089 4.797471 TCATTTCGCATTTCAGGAGTTTG 58.203 39.130 0.00 0.00 0.00 2.93
897 1098 2.185004 TCAGGAGTTTGGTGCTTAGC 57.815 50.000 0.00 0.00 0.00 3.09
916 1117 6.128688 GCTTAGCAGTTTCTGTTCTTGTAGAG 60.129 42.308 0.00 0.00 33.43 2.43
938 1139 6.094603 AGAGTGATTGATTGAAGTAATGTGCC 59.905 38.462 0.00 0.00 0.00 5.01
968 1169 6.005066 TGATATTTCAGCTTGGATCCAGAA 57.995 37.500 15.53 12.07 0.00 3.02
983 1184 1.897802 CCAGAATTTGCAAGAAGCCCT 59.102 47.619 0.00 0.00 44.83 5.19
1014 1215 2.240493 AAATAATGTCGCCGAGGAGG 57.760 50.000 0.00 0.00 44.97 4.30
1072 1273 6.569179 TTTTCAATGCTTCAGGTACTTACC 57.431 37.500 0.00 0.00 46.82 2.85
1124 1329 2.238395 TGCTCTGCACATGGTTACCATA 59.762 45.455 17.31 0.15 36.33 2.74
1125 1330 2.614057 GCTCTGCACATGGTTACCATAC 59.386 50.000 17.31 10.05 43.15 2.39
1137 1342 3.869246 GGTTACCATACCTCATTGTGTCG 59.131 47.826 0.00 0.00 35.23 4.35
1138 1343 4.382254 GGTTACCATACCTCATTGTGTCGA 60.382 45.833 0.00 0.00 35.23 4.20
1139 1344 5.357257 GTTACCATACCTCATTGTGTCGAT 58.643 41.667 0.00 0.00 0.00 3.59
1140 1345 3.797039 ACCATACCTCATTGTGTCGATG 58.203 45.455 0.00 0.00 0.00 3.84
1141 1346 2.545526 CCATACCTCATTGTGTCGATGC 59.454 50.000 0.00 0.00 0.00 3.91
1142 1347 3.197265 CATACCTCATTGTGTCGATGCA 58.803 45.455 0.00 0.00 0.00 3.96
1143 1348 2.408271 ACCTCATTGTGTCGATGCAT 57.592 45.000 0.00 0.00 0.00 3.96
1144 1349 2.283298 ACCTCATTGTGTCGATGCATC 58.717 47.619 17.10 17.10 0.00 3.91
1145 1350 2.093288 ACCTCATTGTGTCGATGCATCT 60.093 45.455 23.73 0.61 0.00 2.90
1146 1351 2.287103 CCTCATTGTGTCGATGCATCTG 59.713 50.000 23.73 16.77 0.00 2.90
1147 1352 2.282407 TCATTGTGTCGATGCATCTGG 58.718 47.619 23.73 10.00 0.00 3.86
1148 1353 1.019673 ATTGTGTCGATGCATCTGGC 58.980 50.000 23.73 18.22 45.13 4.85
1297 1504 8.962884 TTGCTTGATGTGTACAATCATATACT 57.037 30.769 16.36 0.00 0.00 2.12
1298 1505 8.593492 TGCTTGATGTGTACAATCATATACTC 57.407 34.615 16.36 1.23 0.00 2.59
1299 1506 7.382218 TGCTTGATGTGTACAATCATATACTCG 59.618 37.037 16.36 0.00 0.00 4.18
1300 1507 7.620188 GCTTGATGTGTACAATCATATACTCGC 60.620 40.741 16.36 9.85 0.00 5.03
1301 1508 6.981722 TGATGTGTACAATCATATACTCGCT 58.018 36.000 13.39 0.00 0.00 4.93
1302 1509 7.084486 TGATGTGTACAATCATATACTCGCTC 58.916 38.462 13.39 0.00 0.00 5.03
1303 1510 5.769367 TGTGTACAATCATATACTCGCTCC 58.231 41.667 0.00 0.00 0.00 4.70
1304 1511 4.852104 GTGTACAATCATATACTCGCTCCG 59.148 45.833 0.00 0.00 0.00 4.63
1305 1512 4.517832 TGTACAATCATATACTCGCTCCGT 59.482 41.667 0.00 0.00 0.00 4.69
1306 1513 4.162096 ACAATCATATACTCGCTCCGTC 57.838 45.455 0.00 0.00 0.00 4.79
1307 1514 3.057456 ACAATCATATACTCGCTCCGTCC 60.057 47.826 0.00 0.00 0.00 4.79
1308 1515 1.531423 TCATATACTCGCTCCGTCCC 58.469 55.000 0.00 0.00 0.00 4.46
1309 1516 1.202842 TCATATACTCGCTCCGTCCCA 60.203 52.381 0.00 0.00 0.00 4.37
1310 1517 1.611977 CATATACTCGCTCCGTCCCAA 59.388 52.381 0.00 0.00 0.00 4.12
1311 1518 1.766494 TATACTCGCTCCGTCCCAAA 58.234 50.000 0.00 0.00 0.00 3.28
1312 1519 0.899720 ATACTCGCTCCGTCCCAAAA 59.100 50.000 0.00 0.00 0.00 2.44
1313 1520 0.899720 TACTCGCTCCGTCCCAAAAT 59.100 50.000 0.00 0.00 0.00 1.82
1314 1521 0.899720 ACTCGCTCCGTCCCAAAATA 59.100 50.000 0.00 0.00 0.00 1.40
1315 1522 1.276989 ACTCGCTCCGTCCCAAAATAA 59.723 47.619 0.00 0.00 0.00 1.40
1316 1523 1.933853 CTCGCTCCGTCCCAAAATAAG 59.066 52.381 0.00 0.00 0.00 1.73
1317 1524 1.276989 TCGCTCCGTCCCAAAATAAGT 59.723 47.619 0.00 0.00 0.00 2.24
1318 1525 1.396996 CGCTCCGTCCCAAAATAAGTG 59.603 52.381 0.00 0.00 0.00 3.16
1319 1526 2.433436 GCTCCGTCCCAAAATAAGTGT 58.567 47.619 0.00 0.00 0.00 3.55
1320 1527 2.418976 GCTCCGTCCCAAAATAAGTGTC 59.581 50.000 0.00 0.00 0.00 3.67
1321 1528 2.671396 CTCCGTCCCAAAATAAGTGTCG 59.329 50.000 0.00 0.00 0.00 4.35
1322 1529 1.129811 CCGTCCCAAAATAAGTGTCGC 59.870 52.381 0.00 0.00 0.00 5.19
1323 1530 2.073816 CGTCCCAAAATAAGTGTCGCT 58.926 47.619 0.00 0.00 0.00 4.93
1324 1531 2.159707 CGTCCCAAAATAAGTGTCGCTG 60.160 50.000 0.00 0.00 0.00 5.18
1325 1532 3.071479 GTCCCAAAATAAGTGTCGCTGA 58.929 45.455 0.00 0.00 0.00 4.26
1326 1533 3.689649 GTCCCAAAATAAGTGTCGCTGAT 59.310 43.478 0.00 0.00 0.00 2.90
1327 1534 4.156008 GTCCCAAAATAAGTGTCGCTGATT 59.844 41.667 0.00 0.00 29.37 2.57
1328 1535 4.764823 TCCCAAAATAAGTGTCGCTGATTT 59.235 37.500 3.21 3.21 39.41 2.17
1329 1536 5.941058 TCCCAAAATAAGTGTCGCTGATTTA 59.059 36.000 8.84 0.00 37.29 1.40
1330 1537 6.093495 TCCCAAAATAAGTGTCGCTGATTTAG 59.907 38.462 8.84 4.74 37.29 1.85
1331 1538 6.128007 CCCAAAATAAGTGTCGCTGATTTAGT 60.128 38.462 8.84 0.00 37.29 2.24
1332 1539 7.065324 CCCAAAATAAGTGTCGCTGATTTAGTA 59.935 37.037 8.84 0.00 37.29 1.82
1333 1540 7.903431 CCAAAATAAGTGTCGCTGATTTAGTAC 59.097 37.037 8.84 0.00 37.29 2.73
1334 1541 8.440059 CAAAATAAGTGTCGCTGATTTAGTACA 58.560 33.333 8.84 0.00 37.29 2.90
1335 1542 8.542497 AAATAAGTGTCGCTGATTTAGTACAA 57.458 30.769 6.91 0.00 36.68 2.41
1336 1543 5.840940 AAGTGTCGCTGATTTAGTACAAC 57.159 39.130 0.00 0.00 0.00 3.32
1337 1544 5.135508 AGTGTCGCTGATTTAGTACAACT 57.864 39.130 0.00 0.00 0.00 3.16
1338 1545 5.539048 AGTGTCGCTGATTTAGTACAACTT 58.461 37.500 0.00 0.00 0.00 2.66
1407 1647 5.827797 TGTTTTCTGTTCAATTGTAGGAGCT 59.172 36.000 5.13 0.00 0.00 4.09
1652 1892 2.554032 ACAAGAATGTTGCTGCCTACAC 59.446 45.455 6.81 0.00 35.91 2.90
1698 1938 1.672854 CCGTGGGCGATGAGGTTCTA 61.673 60.000 0.00 0.00 41.33 2.10
1872 2112 1.797933 CAACTCGACGTGGAGCTCG 60.798 63.158 25.27 11.50 37.57 5.03
1884 2124 0.178068 GGAGCTCGGTAATGCTTCCA 59.822 55.000 7.83 0.00 39.91 3.53
2149 2389 1.607467 GCTTCTGGTTGGCCATGGT 60.607 57.895 14.67 0.00 45.05 3.55
2264 2504 0.897621 AGCCAGCCAAATAACCAAGC 59.102 50.000 0.00 0.00 0.00 4.01
2337 2577 0.179103 CGGAGCAAAATTGGGGCATC 60.179 55.000 0.00 0.00 0.00 3.91
2449 2689 2.129607 GTGTGGCAAATTCAAGTGCAG 58.870 47.619 2.50 0.00 42.74 4.41
2728 2968 7.827819 TCTGTCTTATTATTCAAGTGTTCCG 57.172 36.000 0.00 0.00 0.00 4.30
2729 2969 7.608153 TCTGTCTTATTATTCAAGTGTTCCGA 58.392 34.615 0.00 0.00 0.00 4.55
2730 2970 8.092068 TCTGTCTTATTATTCAAGTGTTCCGAA 58.908 33.333 0.00 0.00 0.00 4.30
2731 2971 8.610248 TGTCTTATTATTCAAGTGTTCCGAAA 57.390 30.769 0.00 0.00 0.00 3.46
2732 2972 9.058174 TGTCTTATTATTCAAGTGTTCCGAAAA 57.942 29.630 0.00 0.00 0.00 2.29
2733 2973 9.887406 GTCTTATTATTCAAGTGTTCCGAAAAA 57.113 29.630 0.00 0.00 0.00 1.94
2735 2975 9.341899 CTTATTATTCAAGTGTTCCGAAAAAGG 57.658 33.333 0.00 0.00 0.00 3.11
2736 2976 4.584327 ATTCAAGTGTTCCGAAAAAGGG 57.416 40.909 0.00 0.00 0.00 3.95
2737 2977 3.007473 TCAAGTGTTCCGAAAAAGGGT 57.993 42.857 0.00 0.00 0.00 4.34
2738 2978 2.946990 TCAAGTGTTCCGAAAAAGGGTC 59.053 45.455 0.00 0.00 0.00 4.46
2739 2979 1.977056 AGTGTTCCGAAAAAGGGTCC 58.023 50.000 0.00 0.00 0.00 4.46
2740 2980 0.956633 GTGTTCCGAAAAAGGGTCCC 59.043 55.000 0.00 0.00 0.00 4.46
2741 2981 0.178984 TGTTCCGAAAAAGGGTCCCC 60.179 55.000 3.51 0.00 0.00 4.81
2742 2982 0.896940 GTTCCGAAAAAGGGTCCCCC 60.897 60.000 3.51 0.00 45.90 5.40
2765 3005 5.520376 CCCCCTGCTTTATTATTCAAGTG 57.480 43.478 0.00 0.00 0.00 3.16
2766 3006 4.342092 CCCCCTGCTTTATTATTCAAGTGG 59.658 45.833 0.00 0.00 0.00 4.00
2767 3007 4.956075 CCCCTGCTTTATTATTCAAGTGGT 59.044 41.667 0.00 0.00 0.00 4.16
2883 3123 0.756294 TTTCGCAGGAAGGTGAGTCA 59.244 50.000 0.00 0.00 32.80 3.41
2884 3124 0.318441 TTCGCAGGAAGGTGAGTCAG 59.682 55.000 0.00 0.00 0.00 3.51
2885 3125 1.739562 CGCAGGAAGGTGAGTCAGC 60.740 63.158 14.56 14.56 0.00 4.26
2886 3126 1.372683 GCAGGAAGGTGAGTCAGCA 59.627 57.895 23.46 0.00 33.95 4.41
2949 3190 5.221067 GCTCTATACTGACGATGAGGTTTGA 60.221 44.000 0.00 0.00 0.00 2.69
2956 3197 4.755411 TGACGATGAGGTTTGATTCTACC 58.245 43.478 0.00 0.00 34.54 3.18
2964 3205 2.162408 GGTTTGATTCTACCTGCAGCAC 59.838 50.000 8.66 0.00 0.00 4.40
2968 3209 2.876368 ATTCTACCTGCAGCACCGGC 62.876 60.000 8.66 0.00 41.61 6.13
2982 3223 3.507924 CGGCGCTAATGGCAGCAA 61.508 61.111 7.64 0.00 41.88 3.91
2983 3224 2.102946 GGCGCTAATGGCAGCAAC 59.897 61.111 7.64 0.00 41.88 4.17
2984 3225 2.699768 GGCGCTAATGGCAGCAACA 61.700 57.895 7.64 0.00 41.88 3.33
2985 3226 1.514873 GCGCTAATGGCAGCAACAC 60.515 57.895 0.00 0.00 41.88 3.32
3064 3305 2.234908 CTGGTTGACTTACCTAGCTGCT 59.765 50.000 7.57 7.57 39.04 4.24
3340 3581 3.890756 AGATCCAAATTCTGTGTTGCACA 59.109 39.130 1.88 1.88 42.45 4.57
3341 3582 4.525487 AGATCCAAATTCTGTGTTGCACAT 59.475 37.500 2.25 0.00 43.71 3.21
3392 3633 3.244735 ACCAGCTTCTTCCTCCTTTTCTC 60.245 47.826 0.00 0.00 0.00 2.87
3418 3659 1.411977 GCTCAGGATCTTAGCTCAGCA 59.588 52.381 0.00 0.00 33.40 4.41
3423 3664 4.408270 TCAGGATCTTAGCTCAGCATTTCT 59.592 41.667 0.00 0.00 0.00 2.52
3464 3705 9.090692 CAAAGCTTTATTACTGCATAGCAAAAT 57.909 29.630 12.25 0.00 38.41 1.82
3498 3739 0.173708 AGGGACGAAGACAAGATCGC 59.826 55.000 0.00 0.00 42.61 4.58
3499 3740 0.806492 GGGACGAAGACAAGATCGCC 60.806 60.000 0.00 0.00 42.61 5.54
3503 3744 2.125106 AAGACAAGATCGCCGGGC 60.125 61.111 9.54 9.54 0.00 6.13
3532 3773 3.575805 ACCAAACATTGTGACCATTCCT 58.424 40.909 0.00 0.00 0.00 3.36
3553 3794 6.003950 TCCTTAGAGTTAAAGCATGCTTTGT 58.996 36.000 42.11 30.35 44.84 2.83
3554 3795 6.072508 TCCTTAGAGTTAAAGCATGCTTTGTG 60.073 38.462 42.11 25.34 44.84 3.33
3563 3804 2.163010 AGCATGCTTTGTGAGATTTCCG 59.837 45.455 16.30 0.00 0.00 4.30
3585 3826 3.620488 GCCTCCACATTTGATGTCCTAA 58.380 45.455 0.00 0.00 42.70 2.69
3598 3839 4.162320 TGATGTCCTAAACTCTTAGCCCAG 59.838 45.833 0.00 0.00 34.29 4.45
3599 3840 2.236395 TGTCCTAAACTCTTAGCCCAGC 59.764 50.000 0.00 0.00 34.29 4.85
3700 3941 4.687215 GTGCTGCTGCTCCCGTCA 62.687 66.667 17.00 0.00 40.48 4.35
3708 3949 2.045926 GCTCCCGTCACTTGGCAT 60.046 61.111 0.00 0.00 0.00 4.40
3806 4047 2.122167 GTGTTGGGCGGTGGTTTGA 61.122 57.895 0.00 0.00 0.00 2.69
3811 4052 3.670377 GGCGGTGGTTTGACTGGC 61.670 66.667 0.00 0.00 40.24 4.85
3812 4053 2.594592 GCGGTGGTTTGACTGGCT 60.595 61.111 0.00 0.00 0.00 4.75
3831 4072 4.629523 GTTCCGGTTGGGCGGTGA 62.630 66.667 0.00 0.00 35.24 4.02
3909 4179 3.087253 CGGTGGTAGCCATCCCCA 61.087 66.667 0.00 0.00 35.28 4.96
3910 4180 2.452064 CGGTGGTAGCCATCCCCAT 61.452 63.158 0.00 0.00 35.28 4.00
3913 4184 1.342975 GGTGGTAGCCATCCCCATTTT 60.343 52.381 0.00 0.00 35.28 1.82
3915 4186 1.929494 TGGTAGCCATCCCCATTTTCT 59.071 47.619 0.00 0.00 0.00 2.52
3921 4192 0.746659 CATCCCCATTTTCTTCCGCC 59.253 55.000 0.00 0.00 0.00 6.13
3964 4235 3.807631 TTCAGGCAGCAGCGTCGTT 62.808 57.895 0.00 0.00 43.41 3.85
3986 4257 1.438651 CGTCGCATCCCTTCTTGAAA 58.561 50.000 0.00 0.00 0.00 2.69
4004 4275 2.709125 AAGTGCTGCTTGGTACGCGA 62.709 55.000 15.93 0.00 35.80 5.87
4010 4281 0.037697 TGCTTGGTACGCGACAGATT 60.038 50.000 15.93 0.00 0.00 2.40
4093 4364 1.954146 GTCGAGCTGCCGTTGTTGA 60.954 57.895 0.00 0.00 0.00 3.18
4094 4365 1.954146 TCGAGCTGCCGTTGTTGAC 60.954 57.895 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 54 2.514013 GCGCGTGTTGTAGATCCGG 61.514 63.158 8.43 0.00 0.00 5.14
53 55 1.742900 CTGCGCGTGTTGTAGATCCG 61.743 60.000 8.43 0.00 0.00 4.18
74 76 1.299976 GCGGGGATTTGACTGAGGT 59.700 57.895 0.00 0.00 0.00 3.85
86 88 1.064979 GGGAGTAAAGAAATGCGGGGA 60.065 52.381 0.00 0.00 0.00 4.81
89 91 1.734163 ACGGGAGTAAAGAAATGCGG 58.266 50.000 0.00 0.00 44.60 5.69
124 126 4.437171 GTCTGCTCGTAATTAAGCGTACTC 59.563 45.833 5.01 0.00 41.51 2.59
125 127 4.096081 AGTCTGCTCGTAATTAAGCGTACT 59.904 41.667 9.02 9.02 41.51 2.73
126 128 4.349501 AGTCTGCTCGTAATTAAGCGTAC 58.650 43.478 5.01 5.52 41.51 3.67
127 129 4.627611 AGTCTGCTCGTAATTAAGCGTA 57.372 40.909 5.01 0.00 41.51 4.42
128 130 3.505464 AGTCTGCTCGTAATTAAGCGT 57.495 42.857 5.01 0.00 41.51 5.07
143 145 6.424207 GTGTCTTGGGAGTTTAACTTAGTCTG 59.576 42.308 0.00 0.00 0.00 3.51
147 149 6.522054 TCTGTGTCTTGGGAGTTTAACTTAG 58.478 40.000 0.00 0.00 0.00 2.18
198 343 2.746671 CCTGCTGTGAGCTGCTGG 60.747 66.667 7.01 0.00 46.11 4.85
203 348 2.341543 CGTGTCCTGCTGTGAGCT 59.658 61.111 0.00 0.00 42.97 4.09
204 349 3.418068 GCGTGTCCTGCTGTGAGC 61.418 66.667 0.00 0.00 42.82 4.26
205 350 3.108289 CGCGTGTCCTGCTGTGAG 61.108 66.667 0.00 0.00 0.00 3.51
227 372 2.699809 GCACAGAGAATGCGAGCG 59.300 61.111 0.00 0.00 32.45 5.03
250 395 4.504916 CTCACGGGGAGCTCTGCG 62.505 72.222 14.64 0.00 36.69 5.18
311 480 1.966451 CACGAAGGAAGGGTGGTGC 60.966 63.158 0.00 0.00 0.00 5.01
312 481 1.966451 GCACGAAGGAAGGGTGGTG 60.966 63.158 0.00 0.00 32.42 4.17
313 482 2.430367 GCACGAAGGAAGGGTGGT 59.570 61.111 0.00 0.00 32.42 4.16
314 483 2.359975 GGCACGAAGGAAGGGTGG 60.360 66.667 0.00 0.00 32.42 4.61
495 692 3.777106 ATCAGAGAAGACAAACAGGCA 57.223 42.857 0.00 0.00 0.00 4.75
550 748 1.045911 ACTGGAGGGGAGATCGAAGC 61.046 60.000 0.00 0.00 0.00 3.86
613 811 6.750501 CGGAAGAGTGTTAGTAATTTCGATCA 59.249 38.462 0.00 0.00 0.00 2.92
628 826 3.692406 GACCGGGCGGAAGAGTGT 61.692 66.667 6.32 0.00 38.96 3.55
650 848 1.512734 GCAAGCAAATCGGCGAGTG 60.513 57.895 17.22 16.81 39.27 3.51
664 862 4.351054 AGGGTGCCCGGAAGCAAG 62.351 66.667 0.73 0.00 46.19 4.01
721 922 1.882912 TCTTGCGCACTGAACAAGAT 58.117 45.000 11.12 0.00 43.55 2.40
726 927 1.002366 ATCGATCTTGCGCACTGAAC 58.998 50.000 11.12 9.69 0.00 3.18
732 933 0.457443 ACTCAGATCGATCTTGCGCA 59.543 50.000 25.25 5.66 34.22 6.09
777 978 9.656040 ATGCATTCACAAATGTGTACAATAAAT 57.344 25.926 12.87 1.81 45.76 1.40
778 979 9.486497 AATGCATTCACAAATGTGTACAATAAA 57.514 25.926 5.99 0.00 45.76 1.40
784 985 6.768029 AACAATGCATTCACAAATGTGTAC 57.232 33.333 9.53 3.03 45.76 2.90
786 987 5.695816 GGTAACAATGCATTCACAAATGTGT 59.304 36.000 9.53 0.00 45.76 3.72
806 1007 1.745232 AAGATTGCGCGGAATGGTAA 58.255 45.000 30.90 0.00 0.00 2.85
814 1015 1.939934 TCTTATGGAAAGATTGCGCGG 59.060 47.619 8.83 0.00 0.00 6.46
819 1020 5.684626 GCGAAATGCTCTTATGGAAAGATTG 59.315 40.000 0.00 0.00 41.73 2.67
820 1021 5.357878 TGCGAAATGCTCTTATGGAAAGATT 59.642 36.000 0.00 0.00 46.63 2.40
823 1024 4.621068 TGCGAAATGCTCTTATGGAAAG 57.379 40.909 0.00 0.00 46.63 2.62
850 1051 5.351458 CGAAATGAATCTTGGGGGAAAATC 58.649 41.667 0.00 0.00 0.00 2.17
855 1056 1.005332 TGCGAAATGAATCTTGGGGGA 59.995 47.619 0.00 0.00 0.00 4.81
888 1089 3.142174 AGAACAGAAACTGCTAAGCACC 58.858 45.455 0.00 0.00 34.37 5.01
897 1098 7.439356 TCAATCACTCTACAAGAACAGAAACTG 59.561 37.037 0.00 0.00 37.52 3.16
916 1117 6.032094 CAGGCACATTACTTCAATCAATCAC 58.968 40.000 0.00 0.00 0.00 3.06
938 1139 5.188434 TCCAAGCTGAAATATCAAGACCAG 58.812 41.667 0.00 0.00 34.49 4.00
968 1169 5.179452 TCTACTAAGGGCTTCTTGCAAAT 57.821 39.130 0.00 0.00 45.15 2.32
983 1184 8.517056 TCGGCGACATTATTTATGATCTACTAA 58.483 33.333 4.99 0.00 37.69 2.24
1030 1231 1.585521 GCATGAGCATGAACAGCGC 60.586 57.895 14.27 0.00 41.20 5.92
1116 1321 4.751060 TCGACACAATGAGGTATGGTAAC 58.249 43.478 0.00 0.00 0.00 2.50
1120 1325 2.545526 GCATCGACACAATGAGGTATGG 59.454 50.000 0.00 0.00 0.00 2.74
1124 1329 2.093288 AGATGCATCGACACAATGAGGT 60.093 45.455 20.67 0.00 0.00 3.85
1125 1330 2.287103 CAGATGCATCGACACAATGAGG 59.713 50.000 20.67 0.00 0.00 3.86
1140 1345 2.855963 CGACAATCAAAATGCCAGATGC 59.144 45.455 0.00 0.00 41.77 3.91
1141 1346 4.359971 TCGACAATCAAAATGCCAGATG 57.640 40.909 0.00 0.00 0.00 2.90
1142 1347 4.735578 GCATCGACAATCAAAATGCCAGAT 60.736 41.667 0.00 0.00 37.37 2.90
1143 1348 3.427909 GCATCGACAATCAAAATGCCAGA 60.428 43.478 0.00 0.00 37.37 3.86
1144 1349 2.855963 GCATCGACAATCAAAATGCCAG 59.144 45.455 0.00 0.00 37.37 4.85
1145 1350 2.230750 TGCATCGACAATCAAAATGCCA 59.769 40.909 3.46 0.00 41.52 4.92
1146 1351 2.878580 TGCATCGACAATCAAAATGCC 58.121 42.857 3.46 0.00 41.52 4.40
1147 1352 4.206404 CAGATGCATCGACAATCAAAATGC 59.794 41.667 20.67 0.00 42.32 3.56
1148 1353 4.738252 CCAGATGCATCGACAATCAAAATG 59.262 41.667 20.67 8.83 0.00 2.32
1149 1354 4.735578 GCCAGATGCATCGACAATCAAAAT 60.736 41.667 20.67 0.00 40.77 1.82
1150 1355 3.427909 GCCAGATGCATCGACAATCAAAA 60.428 43.478 20.67 0.00 40.77 2.44
1151 1356 2.097954 GCCAGATGCATCGACAATCAAA 59.902 45.455 20.67 0.00 40.77 2.69
1152 1357 1.672363 GCCAGATGCATCGACAATCAA 59.328 47.619 20.67 0.00 40.77 2.57
1153 1358 1.302366 GCCAGATGCATCGACAATCA 58.698 50.000 20.67 0.00 40.77 2.57
1295 1502 0.899720 TATTTTGGGACGGAGCGAGT 59.100 50.000 0.00 0.00 0.00 4.18
1296 1503 1.933853 CTTATTTTGGGACGGAGCGAG 59.066 52.381 0.00 0.00 0.00 5.03
1297 1504 1.276989 ACTTATTTTGGGACGGAGCGA 59.723 47.619 0.00 0.00 0.00 4.93
1298 1505 1.396996 CACTTATTTTGGGACGGAGCG 59.603 52.381 0.00 0.00 0.00 5.03
1299 1506 2.418976 GACACTTATTTTGGGACGGAGC 59.581 50.000 0.00 0.00 0.00 4.70
1300 1507 2.671396 CGACACTTATTTTGGGACGGAG 59.329 50.000 0.00 0.00 0.00 4.63
1301 1508 2.690786 CGACACTTATTTTGGGACGGA 58.309 47.619 0.00 0.00 0.00 4.69
1302 1509 1.129811 GCGACACTTATTTTGGGACGG 59.870 52.381 0.00 0.00 0.00 4.79
1303 1510 2.073816 AGCGACACTTATTTTGGGACG 58.926 47.619 0.00 0.00 0.00 4.79
1304 1511 3.071479 TCAGCGACACTTATTTTGGGAC 58.929 45.455 0.00 0.00 0.00 4.46
1305 1512 3.410631 TCAGCGACACTTATTTTGGGA 57.589 42.857 0.00 0.00 0.00 4.37
1306 1513 4.701956 AATCAGCGACACTTATTTTGGG 57.298 40.909 0.00 0.00 0.00 4.12
1307 1514 6.842163 ACTAAATCAGCGACACTTATTTTGG 58.158 36.000 0.00 0.00 34.69 3.28
1308 1515 8.440059 TGTACTAAATCAGCGACACTTATTTTG 58.560 33.333 0.00 0.00 34.69 2.44
1309 1516 8.542497 TGTACTAAATCAGCGACACTTATTTT 57.458 30.769 0.00 0.00 34.69 1.82
1310 1517 8.440833 GTTGTACTAAATCAGCGACACTTATTT 58.559 33.333 0.00 0.00 36.43 1.40
1311 1518 7.817962 AGTTGTACTAAATCAGCGACACTTATT 59.182 33.333 0.00 0.00 0.00 1.40
1312 1519 7.321153 AGTTGTACTAAATCAGCGACACTTAT 58.679 34.615 0.00 0.00 0.00 1.73
1313 1520 6.684686 AGTTGTACTAAATCAGCGACACTTA 58.315 36.000 0.00 0.00 0.00 2.24
1314 1521 5.539048 AGTTGTACTAAATCAGCGACACTT 58.461 37.500 0.00 0.00 0.00 3.16
1315 1522 5.135508 AGTTGTACTAAATCAGCGACACT 57.864 39.130 0.00 0.00 0.00 3.55
1316 1523 5.840940 AAGTTGTACTAAATCAGCGACAC 57.159 39.130 0.00 0.00 0.00 3.67
1317 1524 7.488150 CAGATAAGTTGTACTAAATCAGCGACA 59.512 37.037 0.00 0.00 0.00 4.35
1318 1525 7.515371 GCAGATAAGTTGTACTAAATCAGCGAC 60.515 40.741 0.00 0.00 30.05 5.19
1319 1526 6.475727 GCAGATAAGTTGTACTAAATCAGCGA 59.524 38.462 0.00 0.00 30.05 4.93
1320 1527 6.477033 AGCAGATAAGTTGTACTAAATCAGCG 59.523 38.462 0.00 0.00 37.82 5.18
1321 1528 7.778470 AGCAGATAAGTTGTACTAAATCAGC 57.222 36.000 0.00 9.49 35.45 4.26
1652 1892 0.110238 CGTGATGTTTGTTGCCGGAG 60.110 55.000 5.05 0.00 0.00 4.63
1698 1938 2.102578 GCTGCATTTGGGATACTGGTT 58.897 47.619 0.00 0.00 0.00 3.67
1705 1945 2.226962 ACAAGAGCTGCATTTGGGAT 57.773 45.000 16.76 0.00 0.00 3.85
1872 2112 7.500559 AGAAACTGAAGATATGGAAGCATTACC 59.499 37.037 0.00 0.00 0.00 2.85
2149 2389 1.971167 GCTCATTTCGCCCACCACA 60.971 57.895 0.00 0.00 0.00 4.17
2157 2397 4.543084 GCAGCCGGCTCATTTCGC 62.543 66.667 30.29 22.70 40.25 4.70
2264 2504 6.500684 ACAACTCAAATAGGTATGTGCTTG 57.499 37.500 0.00 0.00 0.00 4.01
2337 2577 2.050691 GCACTTGCGTTGGTAAACATG 58.949 47.619 0.00 0.00 35.94 3.21
2449 2689 1.105457 TGCTTCAATGCACTATGGGC 58.895 50.000 0.00 0.00 38.12 5.36
2743 2983 4.342092 CCACTTGAATAATAAAGCAGGGGG 59.658 45.833 0.00 0.00 0.00 5.40
2744 2984 4.956075 ACCACTTGAATAATAAAGCAGGGG 59.044 41.667 0.00 0.00 0.00 4.79
2745 2985 7.339466 AGTTACCACTTGAATAATAAAGCAGGG 59.661 37.037 0.00 0.00 0.00 4.45
2746 2986 8.184192 CAGTTACCACTTGAATAATAAAGCAGG 58.816 37.037 0.00 0.00 0.00 4.85
2747 2987 8.730680 ACAGTTACCACTTGAATAATAAAGCAG 58.269 33.333 0.00 0.00 0.00 4.24
2748 2988 8.630054 ACAGTTACCACTTGAATAATAAAGCA 57.370 30.769 0.00 0.00 0.00 3.91
2757 2997 9.520515 AAAGATCATAACAGTTACCACTTGAAT 57.479 29.630 0.00 0.00 0.00 2.57
2758 2998 8.783093 CAAAGATCATAACAGTTACCACTTGAA 58.217 33.333 0.00 0.00 0.00 2.69
2759 2999 7.094805 GCAAAGATCATAACAGTTACCACTTGA 60.095 37.037 0.00 0.00 0.00 3.02
2760 3000 7.023575 GCAAAGATCATAACAGTTACCACTTG 58.976 38.462 0.00 0.00 0.00 3.16
2761 3001 6.942576 AGCAAAGATCATAACAGTTACCACTT 59.057 34.615 0.00 0.00 0.00 3.16
2762 3002 6.476378 AGCAAAGATCATAACAGTTACCACT 58.524 36.000 0.00 0.00 0.00 4.00
2763 3003 6.743575 AGCAAAGATCATAACAGTTACCAC 57.256 37.500 0.00 0.00 0.00 4.16
2883 3123 6.572314 GCTTACAATAACACCAAGGAAATGCT 60.572 38.462 0.00 0.00 0.00 3.79
2884 3124 5.576774 GCTTACAATAACACCAAGGAAATGC 59.423 40.000 0.00 0.00 0.00 3.56
2885 3125 6.924111 AGCTTACAATAACACCAAGGAAATG 58.076 36.000 0.00 0.00 0.00 2.32
2886 3126 6.719370 TGAGCTTACAATAACACCAAGGAAAT 59.281 34.615 0.00 0.00 0.00 2.17
2949 3190 1.221840 CCGGTGCTGCAGGTAGAAT 59.778 57.895 17.12 0.00 0.00 2.40
2971 3212 1.473677 GCATCAGTGTTGCTGCCATTA 59.526 47.619 17.19 0.00 44.66 1.90
2982 3223 2.745100 CAGCAGCCGCATCAGTGT 60.745 61.111 0.00 0.00 42.27 3.55
2983 3224 3.506096 CCAGCAGCCGCATCAGTG 61.506 66.667 0.00 0.00 42.27 3.66
2984 3225 3.965539 GACCAGCAGCCGCATCAGT 62.966 63.158 0.00 0.00 42.27 3.41
2985 3226 3.200593 GACCAGCAGCCGCATCAG 61.201 66.667 0.00 0.00 42.27 2.90
3064 3305 1.140852 AGTACAACAGGCAGAAGCACA 59.859 47.619 0.00 0.00 44.61 4.57
3120 3361 4.416620 GAGAAATTCGACACGTCTCATCT 58.583 43.478 8.84 0.00 35.77 2.90
3296 3537 8.924511 ATCTTCCAATGTTTCAAGAAAGTAGA 57.075 30.769 0.00 0.00 0.00 2.59
3369 3610 2.575805 AAAGGAGGAAGAAGCTGGTG 57.424 50.000 0.00 0.00 0.00 4.17
3370 3611 2.713708 AGAAAAGGAGGAAGAAGCTGGT 59.286 45.455 0.00 0.00 0.00 4.00
3430 3671 6.881065 TGCAGTAATAAAGCTTTGTGAGATCT 59.119 34.615 22.02 0.00 0.00 2.75
3464 3705 2.811431 CGTCCCTGTAAACATTGAAGCA 59.189 45.455 0.00 0.00 0.00 3.91
3467 3708 4.753107 GTCTTCGTCCCTGTAAACATTGAA 59.247 41.667 0.00 0.00 0.00 2.69
3468 3709 4.202274 TGTCTTCGTCCCTGTAAACATTGA 60.202 41.667 0.00 0.00 0.00 2.57
3479 3720 0.173708 GCGATCTTGTCTTCGTCCCT 59.826 55.000 0.00 0.00 37.66 4.20
3513 3754 6.207417 ACTCTAAGGAATGGTCACAATGTTTG 59.793 38.462 0.00 0.00 0.00 2.93
3519 3760 6.430000 GCTTTAACTCTAAGGAATGGTCACAA 59.570 38.462 0.00 0.00 0.00 3.33
3522 3763 6.121776 TGCTTTAACTCTAAGGAATGGTCA 57.878 37.500 0.00 0.00 0.00 4.02
3532 3773 6.710295 TCTCACAAAGCATGCTTTAACTCTAA 59.290 34.615 37.87 20.63 43.56 2.10
3553 3794 1.198094 TGTGGAGGCCGGAAATCTCA 61.198 55.000 5.05 0.85 0.00 3.27
3554 3795 0.181350 ATGTGGAGGCCGGAAATCTC 59.819 55.000 5.05 5.79 0.00 2.75
3563 3804 1.106285 GGACATCAAATGTGGAGGCC 58.894 55.000 0.00 0.00 45.03 5.19
3585 3826 4.957684 AATATACGCTGGGCTAAGAGTT 57.042 40.909 2.98 0.00 32.15 3.01
3598 3839 0.945265 TTGCGGCCGGTAATATACGC 60.945 55.000 29.38 8.61 46.34 4.42
3599 3840 0.785979 GTTGCGGCCGGTAATATACG 59.214 55.000 29.38 0.00 0.00 3.06
3647 3888 4.265056 AACCACCTCCACCACCGC 62.265 66.667 0.00 0.00 0.00 5.68
3672 3913 2.914097 GCAGCACCAAGGCCAAGT 60.914 61.111 5.01 0.00 0.00 3.16
3700 3941 2.641815 AGACTGGAGAGAAATGCCAAGT 59.358 45.455 0.00 0.00 0.00 3.16
3708 3949 2.039084 GGCCAAGAAGACTGGAGAGAAA 59.961 50.000 0.00 0.00 0.00 2.52
3776 4017 2.341875 CCAACACCATGCGCCATCA 61.342 57.895 4.18 0.00 0.00 3.07
3806 4047 2.113139 CAACCGGAACCAGCCAGT 59.887 61.111 9.46 0.00 0.00 4.00
3831 4072 1.415672 TTCTCCCGCACTCCAAACCT 61.416 55.000 0.00 0.00 0.00 3.50
3939 4210 1.291588 CTGCTGCCTGAACGAGTCT 59.708 57.895 0.00 0.00 0.00 3.24
3947 4218 4.299547 AACGACGCTGCTGCCTGA 62.300 61.111 10.24 0.00 35.36 3.86
3964 4235 2.954684 AAGAAGGGATGCGACGCCA 61.955 57.895 18.69 5.87 0.00 5.69
3986 4257 2.738521 CGCGTACCAAGCAGCACT 60.739 61.111 0.00 0.00 34.19 4.40
4004 4275 3.036429 GCCCGAGGCTCCAATCTGT 62.036 63.158 9.32 0.00 46.69 3.41
4069 4340 0.814010 AACGGCAGCTCGACAAAAGT 60.814 50.000 9.87 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.