Multiple sequence alignment - TraesCS1A01G203200

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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 TraesCS1A01G203200 chr1A 100.000 2935 0 0 1 2935 364654769 364657703 0.000000e+00 5421.0
1 TraesCS1A01G203200 chr1D 90.090 2341 112 35 567 2854 292574740 292577013 0.000000e+00 2928.0
2 TraesCS1A01G203200 chr1D 92.611 203 15 0 92 294 292574540 292574742 2.860000e-75 292.0
3 TraesCS1A01G203200 chr1B 89.940 1839 98 35 1016 2807 393541641 393543439 0.000000e+00 2290.0
4 TraesCS1A01G203200 chr1B 92.045 88 7 0 93 180 393541290 393541377 1.100000e-24 124.0
5 TraesCS1A01G203200 chr3A 91.039 279 24 1 290 567 208079881 208080159 2.760000e-100 375.0
6 TraesCS1A01G203200 chr3A 87.814 279 33 1 292 569 633900559 633900837 2.820000e-85 326.0
7 TraesCS1A01G203200 chr5A 87.814 279 33 1 292 569 379345826 379345548 2.820000e-85 326.0
8 TraesCS1A01G203200 chr5A 84.190 253 37 1 1683 1935 665817375 665817624 2.920000e-60 243.0
9 TraesCS1A01G203200 chr5A 86.000 200 26 2 2656 2854 385961062 385961260 2.290000e-51 213.0
10 TraesCS1A01G203200 chr7B 87.455 279 34 1 292 569 706164946 706164668 1.310000e-83 320.0
11 TraesCS1A01G203200 chr7A 87.455 279 34 1 292 569 729419263 729419541 1.310000e-83 320.0
12 TraesCS1A01G203200 chr7A 86.102 295 37 3 292 584 659641040 659640748 6.110000e-82 315.0
13 TraesCS1A01G203200 chr3B 87.546 273 33 1 294 565 538630636 538630908 6.110000e-82 315.0
14 TraesCS1A01G203200 chr3B 87.000 200 23 3 2656 2854 450229329 450229526 3.810000e-54 222.0
15 TraesCS1A01G203200 chr2D 87.097 279 35 1 292 569 25997703 25997981 6.110000e-82 315.0
16 TraesCS1A01G203200 chr2B 87.097 279 35 1 292 569 339116329 339116051 6.110000e-82 315.0
17 TraesCS1A01G203200 chr4B 79.156 403 68 12 1550 1943 618159101 618159496 6.240000e-67 265.0
18 TraesCS1A01G203200 chr4B 84.190 253 37 1 1683 1935 617766470 617766719 2.920000e-60 243.0
19 TraesCS1A01G203200 chr3D 85.500 200 27 2 2656 2854 169155121 169154923 1.070000e-49 207.0
20 TraesCS1A01G203200 chr5D 84.925 199 30 0 2656 2854 354396490 354396688 4.960000e-48 202.0
21 TraesCS1A01G203200 chr6D 84.925 199 29 1 2656 2854 151039715 151039518 1.780000e-47 200.0
22 TraesCS1A01G203200 chr4D 84.925 199 29 1 2656 2854 405021994 405021797 1.780000e-47 200.0
23 TraesCS1A01G203200 chr4D 85.279 197 25 4 2656 2851 432929813 432930006 1.780000e-47 200.0
24 TraesCS1A01G203200 chr4D 84.500 200 29 2 2656 2854 320751400 320751598 2.310000e-46 196.0
25 TraesCS1A01G203200 chr7D 88.889 63 7 0 27 89 467511569 467511507 8.720000e-11 78.7


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 TraesCS1A01G203200 chr1A 364654769 364657703 2934 False 5421 5421 100.0000 1 2935 1 chr1A.!!$F1 2934
1 TraesCS1A01G203200 chr1D 292574540 292577013 2473 False 1610 2928 91.3505 92 2854 2 chr1D.!!$F1 2762
2 TraesCS1A01G203200 chr1B 393541290 393543439 2149 False 1207 2290 90.9925 93 2807 2 chr1B.!!$F1 2714

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
303 304 0.250166 GACGTGGTTAGGCTGGTTGT 60.25 55.0 0.0 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1936 2068 0.04331 GTTGATTCGTGTATCGCGGC 60.043 55.0 6.13 0.0 37.97 6.53 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
23 24 5.859495 TCCTTTCTCTTCTCTTTCCTTCAC 58.141 41.667 0.00 0.00 0.00 3.18
24 25 5.604650 TCCTTTCTCTTCTCTTTCCTTCACT 59.395 40.000 0.00 0.00 0.00 3.41
25 26 6.100424 TCCTTTCTCTTCTCTTTCCTTCACTT 59.900 38.462 0.00 0.00 0.00 3.16
26 27 6.426633 CCTTTCTCTTCTCTTTCCTTCACTTC 59.573 42.308 0.00 0.00 0.00 3.01
27 28 6.485830 TTCTCTTCTCTTTCCTTCACTTCA 57.514 37.500 0.00 0.00 0.00 3.02
28 29 6.678568 TCTCTTCTCTTTCCTTCACTTCAT 57.321 37.500 0.00 0.00 0.00 2.57
29 30 6.462500 TCTCTTCTCTTTCCTTCACTTCATG 58.538 40.000 0.00 0.00 0.00 3.07
30 31 6.042552 TCTCTTCTCTTTCCTTCACTTCATGT 59.957 38.462 0.00 0.00 0.00 3.21
31 32 6.226787 TCTTCTCTTTCCTTCACTTCATGTC 58.773 40.000 0.00 0.00 0.00 3.06
32 33 5.551305 TCTCTTTCCTTCACTTCATGTCA 57.449 39.130 0.00 0.00 0.00 3.58
33 34 5.545588 TCTCTTTCCTTCACTTCATGTCAG 58.454 41.667 0.00 0.00 0.00 3.51
34 35 4.067896 TCTTTCCTTCACTTCATGTCAGC 58.932 43.478 0.00 0.00 0.00 4.26
35 36 3.490439 TTCCTTCACTTCATGTCAGCA 57.510 42.857 0.00 0.00 0.00 4.41
36 37 3.490439 TCCTTCACTTCATGTCAGCAA 57.510 42.857 0.00 0.00 0.00 3.91
37 38 3.819368 TCCTTCACTTCATGTCAGCAAA 58.181 40.909 0.00 0.00 0.00 3.68
38 39 4.206375 TCCTTCACTTCATGTCAGCAAAA 58.794 39.130 0.00 0.00 0.00 2.44
39 40 4.644234 TCCTTCACTTCATGTCAGCAAAAA 59.356 37.500 0.00 0.00 0.00 1.94
129 130 4.963276 TGATCGGCAAAGGAGTTAATTG 57.037 40.909 0.00 0.00 0.00 2.32
147 148 9.014297 AGTTAATTGTTTCCTCAGGAATTACTG 57.986 33.333 11.83 11.83 41.71 2.74
149 150 4.365514 TGTTTCCTCAGGAATTACTGCA 57.634 40.909 13.28 1.02 41.71 4.41
200 201 3.567576 CCTCTCGAGGCAGTGTATATG 57.432 52.381 13.56 0.00 42.44 1.78
233 234 1.512947 CACGCGTGTGCACAAAACA 60.513 52.632 30.50 0.00 42.97 2.83
237 238 0.871163 GCGTGTGCACAAAACAGCAT 60.871 50.000 23.59 0.00 43.44 3.79
241 242 2.282290 GTGTGCACAAAACAGCATTCAC 59.718 45.455 23.59 0.00 43.44 3.18
244 245 2.094338 TGCACAAAACAGCATTCACACA 60.094 40.909 0.00 0.00 35.51 3.72
256 257 2.198827 TTCACACATGCCCTTACCTG 57.801 50.000 0.00 0.00 0.00 4.00
263 264 4.029809 GCCCTTACCTGGCCACGT 62.030 66.667 12.24 12.24 43.33 4.49
293 294 2.580276 GGCGATGGGACGTGGTTA 59.420 61.111 0.00 0.00 35.59 2.85
294 295 1.520787 GGCGATGGGACGTGGTTAG 60.521 63.158 0.00 0.00 35.59 2.34
296 297 1.520787 CGATGGGACGTGGTTAGGC 60.521 63.158 0.00 0.00 0.00 3.93
302 303 0.953960 GGACGTGGTTAGGCTGGTTG 60.954 60.000 0.00 0.00 0.00 3.77
303 304 0.250166 GACGTGGTTAGGCTGGTTGT 60.250 55.000 0.00 0.00 0.00 3.32
304 305 1.001181 GACGTGGTTAGGCTGGTTGTA 59.999 52.381 0.00 0.00 0.00 2.41
305 306 1.417145 ACGTGGTTAGGCTGGTTGTAA 59.583 47.619 0.00 0.00 0.00 2.41
306 307 2.039348 ACGTGGTTAGGCTGGTTGTAAT 59.961 45.455 0.00 0.00 0.00 1.89
308 309 3.418047 GTGGTTAGGCTGGTTGTAATGT 58.582 45.455 0.00 0.00 0.00 2.71
309 310 3.190535 GTGGTTAGGCTGGTTGTAATGTG 59.809 47.826 0.00 0.00 0.00 3.21
313 314 5.484715 GTTAGGCTGGTTGTAATGTGAGTA 58.515 41.667 0.00 0.00 0.00 2.59
314 315 4.844349 AGGCTGGTTGTAATGTGAGTAT 57.156 40.909 0.00 0.00 0.00 2.12
318 319 8.029782 AGGCTGGTTGTAATGTGAGTATTATA 57.970 34.615 0.00 0.00 0.00 0.98
319 320 8.150945 AGGCTGGTTGTAATGTGAGTATTATAG 58.849 37.037 0.00 0.00 0.00 1.31
320 321 8.148351 GGCTGGTTGTAATGTGAGTATTATAGA 58.852 37.037 0.00 0.00 0.00 1.98
321 322 9.712305 GCTGGTTGTAATGTGAGTATTATAGAT 57.288 33.333 0.00 0.00 0.00 1.98
345 346 9.875691 GATAGTATCATGCATACCAATTAGTCA 57.124 33.333 0.00 0.00 38.62 3.41
347 348 8.978874 AGTATCATGCATACCAATTAGTCAAA 57.021 30.769 0.00 0.00 38.62 2.69
348 349 9.578576 AGTATCATGCATACCAATTAGTCAAAT 57.421 29.630 0.00 0.00 38.62 2.32
351 352 8.929827 TCATGCATACCAATTAGTCAAATTTG 57.070 30.769 12.15 12.15 35.54 2.32
352 353 8.747471 TCATGCATACCAATTAGTCAAATTTGA 58.253 29.630 16.91 16.91 35.54 2.69
353 354 9.537192 CATGCATACCAATTAGTCAAATTTGAT 57.463 29.630 23.05 14.29 39.73 2.57
354 355 8.929827 TGCATACCAATTAGTCAAATTTGATG 57.070 30.769 23.05 16.08 39.73 3.07
355 356 8.747471 TGCATACCAATTAGTCAAATTTGATGA 58.253 29.630 23.05 11.80 39.73 2.92
356 357 9.754382 GCATACCAATTAGTCAAATTTGATGAT 57.246 29.630 23.05 14.57 39.73 2.45
359 360 8.991243 ACCAATTAGTCAAATTTGATGATGTG 57.009 30.769 23.05 17.11 39.73 3.21
360 361 8.587608 ACCAATTAGTCAAATTTGATGATGTGT 58.412 29.630 23.05 12.56 39.73 3.72
361 362 9.079833 CCAATTAGTCAAATTTGATGATGTGTC 57.920 33.333 23.05 8.38 39.73 3.67
362 363 9.628746 CAATTAGTCAAATTTGATGATGTGTCA 57.371 29.630 23.05 2.32 39.73 3.58
366 367 8.797350 AGTCAAATTTGATGATGTGTCATAGA 57.203 30.769 23.05 0.00 44.96 1.98
367 368 9.234827 AGTCAAATTTGATGATGTGTCATAGAA 57.765 29.630 23.05 0.00 44.96 2.10
448 449 9.993454 ATATTAGGCTAGTATGTATCATGCATG 57.007 33.333 21.07 21.07 0.00 4.06
449 450 7.480760 TTAGGCTAGTATGTATCATGCATGA 57.519 36.000 30.47 30.47 41.70 3.07
451 452 7.666063 AGGCTAGTATGTATCATGCATGATA 57.334 36.000 35.10 35.10 45.17 2.15
506 507 7.956328 TGATATCACACACTAGAAAGGTAGT 57.044 36.000 0.00 0.00 33.25 2.73
507 508 9.642343 ATGATATCACACACTAGAAAGGTAGTA 57.358 33.333 7.78 0.00 31.73 1.82
508 509 9.642343 TGATATCACACACTAGAAAGGTAGTAT 57.358 33.333 0.00 0.00 31.73 2.12
510 511 7.956328 ATCACACACTAGAAAGGTAGTATCA 57.044 36.000 0.00 0.00 31.73 2.15
511 512 7.956328 TCACACACTAGAAAGGTAGTATCAT 57.044 36.000 0.00 0.00 31.73 2.45
512 513 9.642343 ATCACACACTAGAAAGGTAGTATCATA 57.358 33.333 0.00 0.00 31.73 2.15
513 514 8.900781 TCACACACTAGAAAGGTAGTATCATAC 58.099 37.037 0.00 0.00 31.73 2.39
514 515 8.683615 CACACACTAGAAAGGTAGTATCATACA 58.316 37.037 0.00 0.00 31.73 2.29
515 516 8.684520 ACACACTAGAAAGGTAGTATCATACAC 58.315 37.037 0.00 0.00 31.73 2.90
516 517 8.904834 CACACTAGAAAGGTAGTATCATACACT 58.095 37.037 0.00 0.00 31.73 3.55
552 553 8.597167 TGCATAATACTAGCATATGATATCCCC 58.403 37.037 6.97 0.00 32.55 4.81
553 554 7.761704 GCATAATACTAGCATATGATATCCCCG 59.238 40.741 6.97 0.00 30.32 5.73
554 555 8.807118 CATAATACTAGCATATGATATCCCCGT 58.193 37.037 6.97 1.00 30.32 5.28
555 556 7.676683 AATACTAGCATATGATATCCCCGTT 57.323 36.000 6.97 0.00 0.00 4.44
556 557 8.777578 AATACTAGCATATGATATCCCCGTTA 57.222 34.615 6.97 0.00 0.00 3.18
557 558 6.466885 ACTAGCATATGATATCCCCGTTAC 57.533 41.667 6.97 0.00 0.00 2.50
558 559 5.955959 ACTAGCATATGATATCCCCGTTACA 59.044 40.000 6.97 0.00 0.00 2.41
559 560 5.755409 AGCATATGATATCCCCGTTACAA 57.245 39.130 6.97 0.00 0.00 2.41
560 561 5.488341 AGCATATGATATCCCCGTTACAAC 58.512 41.667 6.97 0.00 0.00 3.32
561 562 4.634443 GCATATGATATCCCCGTTACAACC 59.366 45.833 6.97 0.00 0.00 3.77
562 563 5.800296 CATATGATATCCCCGTTACAACCA 58.200 41.667 0.00 0.00 0.00 3.67
563 564 3.830744 TGATATCCCCGTTACAACCAG 57.169 47.619 0.00 0.00 0.00 4.00
564 565 2.158871 TGATATCCCCGTTACAACCAGC 60.159 50.000 0.00 0.00 0.00 4.85
565 566 0.542805 TATCCCCGTTACAACCAGCC 59.457 55.000 0.00 0.00 0.00 4.85
605 606 4.439057 AGTACAACTTCGAGCAGTTCAAA 58.561 39.130 0.00 0.00 34.60 2.69
606 607 3.951979 ACAACTTCGAGCAGTTCAAAG 57.048 42.857 0.00 0.00 34.60 2.77
607 608 3.531538 ACAACTTCGAGCAGTTCAAAGA 58.468 40.909 0.00 0.00 34.60 2.52
748 749 1.134670 CGCTTTCCTTCCTCCCTACTG 60.135 57.143 0.00 0.00 0.00 2.74
749 750 1.407575 GCTTTCCTTCCTCCCTACTGC 60.408 57.143 0.00 0.00 0.00 4.40
750 751 2.192263 CTTTCCTTCCTCCCTACTGCT 58.808 52.381 0.00 0.00 0.00 4.24
937 938 2.760374 CGCAAGAATCCATCCTACTCC 58.240 52.381 0.00 0.00 43.02 3.85
938 939 2.760374 GCAAGAATCCATCCTACTCCG 58.240 52.381 0.00 0.00 0.00 4.63
957 1050 1.068588 CGTTCTGTCCTGTCCTGTTCA 59.931 52.381 0.00 0.00 0.00 3.18
979 1087 2.012673 TCTTCTACTCCGAGTAACGCC 58.987 52.381 9.54 0.00 41.07 5.68
993 1101 4.394712 CGCCCCCGTCTTCAAGCT 62.395 66.667 0.00 0.00 0.00 3.74
994 1102 2.436824 GCCCCCGTCTTCAAGCTC 60.437 66.667 0.00 0.00 0.00 4.09
995 1103 2.125512 CCCCCGTCTTCAAGCTCG 60.126 66.667 0.00 0.00 0.00 5.03
997 1105 1.517832 CCCCGTCTTCAAGCTCGAT 59.482 57.895 3.91 0.00 0.00 3.59
998 1106 0.528684 CCCCGTCTTCAAGCTCGATC 60.529 60.000 3.91 0.00 0.00 3.69
999 1107 0.867753 CCCGTCTTCAAGCTCGATCG 60.868 60.000 9.36 9.36 0.00 3.69
1000 1108 0.098905 CCGTCTTCAAGCTCGATCGA 59.901 55.000 18.32 18.32 0.00 3.59
1001 1109 1.268794 CCGTCTTCAAGCTCGATCGAT 60.269 52.381 19.78 0.94 0.00 3.59
1002 1110 1.778026 CGTCTTCAAGCTCGATCGATG 59.222 52.381 19.78 14.41 0.00 3.84
1003 1111 2.123342 GTCTTCAAGCTCGATCGATGG 58.877 52.381 19.78 9.24 0.00 3.51
1004 1112 1.751351 TCTTCAAGCTCGATCGATGGT 59.249 47.619 19.78 14.91 0.00 3.55
1005 1113 1.857217 CTTCAAGCTCGATCGATGGTG 59.143 52.381 19.78 15.71 0.00 4.17
1006 1114 0.817654 TCAAGCTCGATCGATGGTGT 59.182 50.000 19.78 6.88 0.00 4.16
1007 1115 1.202302 TCAAGCTCGATCGATGGTGTC 60.202 52.381 19.78 3.66 0.00 3.67
1008 1116 0.103208 AAGCTCGATCGATGGTGTCC 59.897 55.000 19.78 1.66 0.00 4.02
1009 1117 1.658717 GCTCGATCGATGGTGTCCG 60.659 63.158 19.78 5.28 0.00 4.79
1010 1118 1.728069 CTCGATCGATGGTGTCCGT 59.272 57.895 19.78 0.00 0.00 4.69
1011 1119 0.317103 CTCGATCGATGGTGTCCGTC 60.317 60.000 19.78 0.00 36.28 4.79
1012 1120 0.746923 TCGATCGATGGTGTCCGTCT 60.747 55.000 15.15 0.00 37.40 4.18
1013 1121 0.592500 CGATCGATGGTGTCCGTCTG 60.593 60.000 10.26 1.49 37.40 3.51
1014 1122 0.872021 GATCGATGGTGTCCGTCTGC 60.872 60.000 0.54 0.00 37.40 4.26
1017 1125 3.682292 GATGGTGTCCGTCTGCCCC 62.682 68.421 1.24 0.00 36.66 5.80
1208 1316 3.913548 TCGTGGTTTGGTTGATTGATG 57.086 42.857 0.00 0.00 0.00 3.07
1209 1317 3.481453 TCGTGGTTTGGTTGATTGATGA 58.519 40.909 0.00 0.00 0.00 2.92
1210 1318 3.252215 TCGTGGTTTGGTTGATTGATGAC 59.748 43.478 0.00 0.00 0.00 3.06
1211 1319 3.253188 CGTGGTTTGGTTGATTGATGACT 59.747 43.478 0.00 0.00 0.00 3.41
1212 1320 4.549458 GTGGTTTGGTTGATTGATGACTG 58.451 43.478 0.00 0.00 0.00 3.51
1213 1321 4.278170 GTGGTTTGGTTGATTGATGACTGA 59.722 41.667 0.00 0.00 0.00 3.41
1215 1323 5.539574 TGGTTTGGTTGATTGATGACTGATT 59.460 36.000 0.00 0.00 0.00 2.57
1216 1324 6.095377 GGTTTGGTTGATTGATGACTGATTC 58.905 40.000 0.00 0.00 0.00 2.52
1217 1325 6.294675 GGTTTGGTTGATTGATGACTGATTCA 60.295 38.462 0.00 0.00 39.11 2.57
1218 1326 6.505044 TTGGTTGATTGATGACTGATTCAG 57.495 37.500 12.17 12.17 37.77 3.02
1220 1328 6.005823 TGGTTGATTGATGACTGATTCAGTT 58.994 36.000 19.88 5.75 45.44 3.16
1221 1329 6.491062 TGGTTGATTGATGACTGATTCAGTTT 59.509 34.615 19.88 11.15 45.44 2.66
1222 1330 7.025963 GGTTGATTGATGACTGATTCAGTTTC 58.974 38.462 19.88 18.38 45.44 2.78
1223 1331 6.413018 TGATTGATGACTGATTCAGTTTCG 57.587 37.500 19.88 0.00 45.44 3.46
1224 1332 4.668576 TTGATGACTGATTCAGTTTCGC 57.331 40.909 19.88 8.30 45.44 4.70
1225 1333 3.930336 TGATGACTGATTCAGTTTCGCT 58.070 40.909 19.88 4.40 45.44 4.93
1226 1334 3.928992 TGATGACTGATTCAGTTTCGCTC 59.071 43.478 19.88 12.37 45.44 5.03
1227 1335 3.667497 TGACTGATTCAGTTTCGCTCT 57.333 42.857 19.88 0.00 45.44 4.09
1228 1336 3.320626 TGACTGATTCAGTTTCGCTCTG 58.679 45.455 19.88 0.00 45.44 3.35
1229 1337 2.072298 ACTGATTCAGTTTCGCTCTGC 58.928 47.619 13.61 0.00 42.59 4.26
1676 1808 4.735132 ATCGTGGCGGTGGACGTG 62.735 66.667 0.00 0.00 46.52 4.49
1936 2068 1.213013 CCCGAGAGTGGAAGTGACG 59.787 63.158 0.00 0.00 0.00 4.35
1938 2070 1.444553 CGAGAGTGGAAGTGACGCC 60.445 63.158 0.00 0.00 0.00 5.68
1943 2075 4.063967 TGGAAGTGACGCCGCGAT 62.064 61.111 21.79 3.38 0.00 4.58
1953 2087 1.942223 CGCCGCGATACACGAATCA 60.942 57.895 8.23 0.00 45.77 2.57
1954 2088 1.476235 CGCCGCGATACACGAATCAA 61.476 55.000 8.23 0.00 45.77 2.57
1955 2089 0.043310 GCCGCGATACACGAATCAAC 60.043 55.000 8.23 0.00 45.77 3.18
1982 2116 7.859325 TGTACAGTAGAGTCTTTTGCTTTTT 57.141 32.000 0.00 0.00 0.00 1.94
2076 2214 1.444553 GAAGAGTCAGACGTGCGGG 60.445 63.158 0.00 0.00 0.00 6.13
2079 2217 2.910479 AGTCAGACGTGCGGGTGA 60.910 61.111 0.00 0.00 0.00 4.02
2080 2218 2.214181 GAGTCAGACGTGCGGGTGAT 62.214 60.000 0.00 0.00 0.00 3.06
2081 2219 1.374252 GTCAGACGTGCGGGTGATT 60.374 57.895 0.00 0.00 0.00 2.57
2082 2220 1.374125 TCAGACGTGCGGGTGATTG 60.374 57.895 0.00 0.00 0.00 2.67
2083 2221 2.742372 AGACGTGCGGGTGATTGC 60.742 61.111 0.00 0.00 0.00 3.56
2084 2222 3.047280 GACGTGCGGGTGATTGCA 61.047 61.111 0.00 0.00 39.13 4.08
2085 2223 2.593148 ACGTGCGGGTGATTGCAA 60.593 55.556 0.00 0.00 43.75 4.08
2086 2224 2.126888 CGTGCGGGTGATTGCAAC 60.127 61.111 0.00 0.00 43.75 4.17
2087 2225 2.616330 CGTGCGGGTGATTGCAACT 61.616 57.895 0.00 0.00 43.75 3.16
2088 2226 1.081242 GTGCGGGTGATTGCAACTG 60.081 57.895 0.00 0.00 43.75 3.16
2089 2227 2.267351 TGCGGGTGATTGCAACTGG 61.267 57.895 0.00 0.00 38.58 4.00
2090 2228 2.993471 GCGGGTGATTGCAACTGGG 61.993 63.158 0.00 0.00 38.58 4.45
2091 2229 1.603455 CGGGTGATTGCAACTGGGT 60.603 57.895 0.00 0.00 34.33 4.51
2092 2230 1.586154 CGGGTGATTGCAACTGGGTC 61.586 60.000 0.00 0.00 34.33 4.46
2093 2231 1.250840 GGGTGATTGCAACTGGGTCC 61.251 60.000 0.00 0.00 0.00 4.46
2120 2258 1.749634 GCCTTGCTGATTGATTGCTCT 59.250 47.619 0.00 0.00 0.00 4.09
2129 2267 3.009363 TGATTGATTGCTCTCCACTTGGA 59.991 43.478 0.00 0.00 43.08 3.53
2130 2268 2.479566 TGATTGCTCTCCACTTGGAC 57.520 50.000 0.00 0.00 39.78 4.02
2131 2269 1.980765 TGATTGCTCTCCACTTGGACT 59.019 47.619 0.00 0.00 39.78 3.85
2186 2324 1.311747 GGAGCAGAGGGGGAGTAGT 59.688 63.158 0.00 0.00 0.00 2.73
2243 2382 1.135972 GTGCCAACTTGCGATAGTGTG 60.136 52.381 0.00 0.00 39.35 3.82
2248 2387 1.148310 ACTTGCGATAGTGTGTGCAC 58.852 50.000 10.75 10.75 45.57 4.57
2336 2490 2.198827 TTCTGTACTGGGCAATGGTG 57.801 50.000 0.00 0.00 0.00 4.17
2337 2491 1.357137 TCTGTACTGGGCAATGGTGA 58.643 50.000 0.00 0.00 0.00 4.02
2338 2492 1.003118 TCTGTACTGGGCAATGGTGAC 59.997 52.381 0.00 0.00 0.00 3.67
2339 2493 0.321210 TGTACTGGGCAATGGTGACG 60.321 55.000 0.00 0.00 31.03 4.35
2340 2494 1.024579 GTACTGGGCAATGGTGACGG 61.025 60.000 0.00 0.00 31.03 4.79
2467 2647 1.369625 GTTCCGGTAACTGGCATGAG 58.630 55.000 0.00 0.00 35.05 2.90
2565 2745 3.057596 CCGCAAAAGATTTGGTTCAGCTA 60.058 43.478 5.12 0.00 0.00 3.32
2577 2757 9.801873 GATTTGGTTCAGCTATTAATTAAGCAA 57.198 29.630 11.79 9.18 41.32 3.91
2578 2758 8.980143 TTTGGTTCAGCTATTAATTAAGCAAC 57.020 30.769 11.79 8.30 41.32 4.17
2674 2856 5.183228 TGTCCGAGAAAGAAGAACAAAACT 58.817 37.500 0.00 0.00 0.00 2.66
2684 2866 8.433421 AAAGAAGAACAAAACTGATAACGAGA 57.567 30.769 0.00 0.00 0.00 4.04
2690 2872 8.836413 AGAACAAAACTGATAACGAGAATTTCA 58.164 29.630 0.00 0.00 0.00 2.69
2705 2887 9.764363 ACGAGAATTTCAGTATAATGAGCATAA 57.236 29.630 2.77 0.00 0.00 1.90
2720 2902 3.378512 AGCATAATGGTGACTCAGGAGA 58.621 45.455 2.79 0.00 0.00 3.71
2724 2906 6.271857 AGCATAATGGTGACTCAGGAGAATAT 59.728 38.462 2.79 0.00 0.00 1.28
2729 2911 5.631119 TGGTGACTCAGGAGAATATCGATA 58.369 41.667 7.75 7.75 0.00 2.92
2765 2960 7.889873 TTTTGAAGTATCACAAAGGAAAGGA 57.110 32.000 0.00 0.00 37.32 3.36
2787 2982 6.947733 AGGAAACATCACATGATAACCAAAGA 59.052 34.615 0.00 0.00 32.63 2.52
2795 2990 7.397221 TCACATGATAACCAAAGATTCACTCT 58.603 34.615 0.00 0.00 34.96 3.24
2820 3015 2.008543 GCATTCGTGTGCTCATCAGGA 61.009 52.381 7.38 0.00 41.82 3.86
2825 3020 1.662629 CGTGTGCTCATCAGGATTGAC 59.337 52.381 0.00 0.00 35.83 3.18
2862 3057 2.561733 CGCTGTCGGTCTCATAAGAA 57.438 50.000 0.00 0.00 31.93 2.52
2863 3058 3.085443 CGCTGTCGGTCTCATAAGAAT 57.915 47.619 0.00 0.00 31.93 2.40
2864 3059 3.448686 CGCTGTCGGTCTCATAAGAATT 58.551 45.455 0.00 0.00 31.93 2.17
2865 3060 3.243877 CGCTGTCGGTCTCATAAGAATTG 59.756 47.826 0.00 0.00 31.93 2.32
2866 3061 4.433615 GCTGTCGGTCTCATAAGAATTGA 58.566 43.478 0.00 0.00 31.93 2.57
2867 3062 5.053145 GCTGTCGGTCTCATAAGAATTGAT 58.947 41.667 0.00 0.00 31.93 2.57
2868 3063 6.216569 GCTGTCGGTCTCATAAGAATTGATA 58.783 40.000 0.00 0.00 31.93 2.15
2869 3064 6.870965 GCTGTCGGTCTCATAAGAATTGATAT 59.129 38.462 0.00 0.00 31.93 1.63
2870 3065 7.148672 GCTGTCGGTCTCATAAGAATTGATATG 60.149 40.741 0.00 0.00 31.93 1.78
2871 3066 7.154656 TGTCGGTCTCATAAGAATTGATATGG 58.845 38.462 7.06 1.01 31.93 2.74
2872 3067 7.015195 TGTCGGTCTCATAAGAATTGATATGGA 59.985 37.037 7.06 2.72 31.93 3.41
2873 3068 7.329717 GTCGGTCTCATAAGAATTGATATGGAC 59.670 40.741 13.45 13.45 33.58 4.02
2874 3069 6.309009 CGGTCTCATAAGAATTGATATGGACG 59.691 42.308 14.34 0.00 34.29 4.79
2875 3070 7.155328 GGTCTCATAAGAATTGATATGGACGT 58.845 38.462 0.00 0.00 34.29 4.34
2876 3071 7.657761 GGTCTCATAAGAATTGATATGGACGTT 59.342 37.037 0.00 0.00 34.29 3.99
2877 3072 8.704234 GTCTCATAAGAATTGATATGGACGTTC 58.296 37.037 0.00 0.00 31.93 3.95
2878 3073 8.421002 TCTCATAAGAATTGATATGGACGTTCA 58.579 33.333 0.00 0.00 31.78 3.18
2879 3074 8.365399 TCATAAGAATTGATATGGACGTTCAC 57.635 34.615 0.00 0.00 31.78 3.18
2880 3075 5.718649 AAGAATTGATATGGACGTTCACG 57.281 39.130 0.00 0.00 46.33 4.35
2881 3076 4.119862 AGAATTGATATGGACGTTCACGG 58.880 43.478 0.00 0.00 44.95 4.94
2882 3077 3.536956 ATTGATATGGACGTTCACGGT 57.463 42.857 0.00 0.00 44.95 4.83
2883 3078 2.572191 TGATATGGACGTTCACGGTC 57.428 50.000 0.00 0.00 44.95 4.79
2884 3079 1.135527 TGATATGGACGTTCACGGTCC 59.864 52.381 0.00 8.76 44.95 4.46
2885 3080 1.407979 GATATGGACGTTCACGGTCCT 59.592 52.381 0.00 0.00 44.95 3.85
2886 3081 0.528924 TATGGACGTTCACGGTCCTG 59.471 55.000 0.00 0.00 44.95 3.86
2887 3082 2.737376 GGACGTTCACGGTCCTGC 60.737 66.667 4.07 0.00 44.95 4.85
2888 3083 2.338984 GACGTTCACGGTCCTGCT 59.661 61.111 4.07 0.00 44.95 4.24
2889 3084 2.022129 GACGTTCACGGTCCTGCTG 61.022 63.158 4.07 0.00 44.95 4.41
2890 3085 2.029073 CGTTCACGGTCCTGCTGT 59.971 61.111 0.00 0.00 37.11 4.40
2891 3086 2.022129 CGTTCACGGTCCTGCTGTC 61.022 63.158 0.00 0.00 33.66 3.51
2892 3087 2.022129 GTTCACGGTCCTGCTGTCG 61.022 63.158 0.00 0.00 33.66 4.35
2893 3088 3.220999 TTCACGGTCCTGCTGTCGG 62.221 63.158 0.00 0.00 33.66 4.79
2894 3089 3.991051 CACGGTCCTGCTGTCGGT 61.991 66.667 0.00 0.00 33.66 4.69
2895 3090 3.231736 ACGGTCCTGCTGTCGGTT 61.232 61.111 0.00 0.00 28.68 4.44
2896 3091 1.904865 ACGGTCCTGCTGTCGGTTA 60.905 57.895 0.00 0.00 28.68 2.85
2897 3092 1.255667 ACGGTCCTGCTGTCGGTTAT 61.256 55.000 0.00 0.00 28.68 1.89
2898 3093 0.108329 CGGTCCTGCTGTCGGTTATT 60.108 55.000 0.00 0.00 0.00 1.40
2899 3094 1.369625 GGTCCTGCTGTCGGTTATTG 58.630 55.000 0.00 0.00 0.00 1.90
2900 3095 1.369625 GTCCTGCTGTCGGTTATTGG 58.630 55.000 0.00 0.00 0.00 3.16
2901 3096 1.066430 GTCCTGCTGTCGGTTATTGGA 60.066 52.381 0.00 0.00 0.00 3.53
2902 3097 1.066430 TCCTGCTGTCGGTTATTGGAC 60.066 52.381 0.00 0.00 0.00 4.02
2903 3098 0.999406 CTGCTGTCGGTTATTGGACG 59.001 55.000 0.00 0.00 35.95 4.79
2904 3099 0.604073 TGCTGTCGGTTATTGGACGA 59.396 50.000 0.00 0.00 35.95 4.20
2905 3100 1.001068 TGCTGTCGGTTATTGGACGAA 59.999 47.619 0.00 0.00 38.46 3.85
2906 3101 1.392510 GCTGTCGGTTATTGGACGAAC 59.607 52.381 0.00 0.00 38.46 3.95
2907 3102 1.652124 CTGTCGGTTATTGGACGAACG 59.348 52.381 0.00 0.00 38.46 3.95
2908 3103 0.994263 GTCGGTTATTGGACGAACGG 59.006 55.000 0.00 0.00 38.46 4.44
2909 3104 0.602562 TCGGTTATTGGACGAACGGT 59.397 50.000 0.00 0.00 33.21 4.83
2910 3105 1.000731 TCGGTTATTGGACGAACGGTT 59.999 47.619 0.00 0.00 33.21 4.44
2911 3106 1.799994 CGGTTATTGGACGAACGGTTT 59.200 47.619 0.00 0.00 0.00 3.27
2912 3107 2.159801 CGGTTATTGGACGAACGGTTTC 60.160 50.000 0.00 0.00 0.00 2.78
2913 3108 2.807392 GGTTATTGGACGAACGGTTTCA 59.193 45.455 0.00 0.00 0.00 2.69
2914 3109 3.437741 GGTTATTGGACGAACGGTTTCAT 59.562 43.478 0.00 0.00 0.00 2.57
2915 3110 4.630940 GGTTATTGGACGAACGGTTTCATA 59.369 41.667 0.00 0.00 0.00 2.15
2916 3111 5.446340 GGTTATTGGACGAACGGTTTCATAC 60.446 44.000 0.00 0.00 0.00 2.39
2917 3112 2.816204 TGGACGAACGGTTTCATACA 57.184 45.000 0.00 0.00 0.00 2.29
2918 3113 3.322211 TGGACGAACGGTTTCATACAT 57.678 42.857 0.00 0.00 0.00 2.29
2919 3114 4.453177 TGGACGAACGGTTTCATACATA 57.547 40.909 0.00 0.00 0.00 2.29
2920 3115 5.013568 TGGACGAACGGTTTCATACATAT 57.986 39.130 0.00 0.00 0.00 1.78
2921 3116 5.045215 TGGACGAACGGTTTCATACATATC 58.955 41.667 0.00 0.00 0.00 1.63
2922 3117 5.163488 TGGACGAACGGTTTCATACATATCT 60.163 40.000 0.00 0.00 0.00 1.98
2923 3118 5.175126 GGACGAACGGTTTCATACATATCTG 59.825 44.000 0.00 0.00 0.00 2.90
2924 3119 5.657474 ACGAACGGTTTCATACATATCTGT 58.343 37.500 0.00 0.00 39.49 3.41
2925 3120 5.518847 ACGAACGGTTTCATACATATCTGTG 59.481 40.000 0.00 0.00 36.79 3.66
2926 3121 5.746721 CGAACGGTTTCATACATATCTGTGA 59.253 40.000 0.00 0.00 36.79 3.58
2927 3122 6.074835 CGAACGGTTTCATACATATCTGTGAG 60.075 42.308 0.00 0.00 36.79 3.51
2928 3123 6.222038 ACGGTTTCATACATATCTGTGAGT 57.778 37.500 0.00 0.00 36.79 3.41
2929 3124 6.640518 ACGGTTTCATACATATCTGTGAGTT 58.359 36.000 0.00 0.00 36.79 3.01
2930 3125 7.778083 ACGGTTTCATACATATCTGTGAGTTA 58.222 34.615 0.00 0.00 36.79 2.24
2931 3126 7.705325 ACGGTTTCATACATATCTGTGAGTTAC 59.295 37.037 0.00 0.00 36.79 2.50
2932 3127 7.169308 CGGTTTCATACATATCTGTGAGTTACC 59.831 40.741 0.00 0.00 36.79 2.85
2933 3128 7.169308 GGTTTCATACATATCTGTGAGTTACCG 59.831 40.741 0.00 0.00 36.79 4.02
2934 3129 7.576861 TTCATACATATCTGTGAGTTACCGA 57.423 36.000 0.00 0.00 36.79 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.604650 AGTGAAGGAAAGAGAAGAGAAAGGA 59.395 40.000 0.00 0.00 0.00 3.36
1 2 5.863965 AGTGAAGGAAAGAGAAGAGAAAGG 58.136 41.667 0.00 0.00 0.00 3.11
3 4 6.889198 TGAAGTGAAGGAAAGAGAAGAGAAA 58.111 36.000 0.00 0.00 0.00 2.52
4 5 6.485830 TGAAGTGAAGGAAAGAGAAGAGAA 57.514 37.500 0.00 0.00 0.00 2.87
5 6 6.042552 ACATGAAGTGAAGGAAAGAGAAGAGA 59.957 38.462 0.00 0.00 0.00 3.10
6 7 6.229733 ACATGAAGTGAAGGAAAGAGAAGAG 58.770 40.000 0.00 0.00 0.00 2.85
7 8 6.179906 ACATGAAGTGAAGGAAAGAGAAGA 57.820 37.500 0.00 0.00 0.00 2.87
8 9 5.994054 TGACATGAAGTGAAGGAAAGAGAAG 59.006 40.000 0.00 0.00 0.00 2.85
9 10 5.928976 TGACATGAAGTGAAGGAAAGAGAA 58.071 37.500 0.00 0.00 0.00 2.87
10 11 5.545588 CTGACATGAAGTGAAGGAAAGAGA 58.454 41.667 0.00 0.00 0.00 3.10
11 12 4.153835 GCTGACATGAAGTGAAGGAAAGAG 59.846 45.833 0.00 0.00 0.00 2.85
12 13 4.067896 GCTGACATGAAGTGAAGGAAAGA 58.932 43.478 0.00 0.00 0.00 2.52
13 14 3.817084 TGCTGACATGAAGTGAAGGAAAG 59.183 43.478 0.00 0.00 0.00 2.62
14 15 3.819368 TGCTGACATGAAGTGAAGGAAA 58.181 40.909 0.00 0.00 0.00 3.13
15 16 3.490439 TGCTGACATGAAGTGAAGGAA 57.510 42.857 0.00 0.00 0.00 3.36
16 17 3.490439 TTGCTGACATGAAGTGAAGGA 57.510 42.857 0.00 0.00 0.00 3.36
17 18 4.572985 TTTTGCTGACATGAAGTGAAGG 57.427 40.909 0.00 0.00 0.00 3.46
72 73 9.123709 CGTTTAAGAGCAAGCACAATAAATTAA 57.876 29.630 0.00 0.00 0.00 1.40
73 74 7.272515 GCGTTTAAGAGCAAGCACAATAAATTA 59.727 33.333 0.00 0.00 0.00 1.40
74 75 6.089417 GCGTTTAAGAGCAAGCACAATAAATT 59.911 34.615 0.00 0.00 0.00 1.82
75 76 5.572896 GCGTTTAAGAGCAAGCACAATAAAT 59.427 36.000 0.00 0.00 0.00 1.40
76 77 4.915085 GCGTTTAAGAGCAAGCACAATAAA 59.085 37.500 0.00 0.00 0.00 1.40
77 78 4.472286 GCGTTTAAGAGCAAGCACAATAA 58.528 39.130 0.00 0.00 0.00 1.40
78 79 3.119990 GGCGTTTAAGAGCAAGCACAATA 60.120 43.478 6.58 0.00 34.54 1.90
79 80 2.351738 GGCGTTTAAGAGCAAGCACAAT 60.352 45.455 6.58 0.00 34.54 2.71
80 81 1.001815 GGCGTTTAAGAGCAAGCACAA 60.002 47.619 6.58 0.00 34.54 3.33
81 82 0.591170 GGCGTTTAAGAGCAAGCACA 59.409 50.000 6.58 0.00 34.54 4.57
82 83 0.875059 AGGCGTTTAAGAGCAAGCAC 59.125 50.000 6.58 0.00 34.54 4.40
83 84 1.156736 GAGGCGTTTAAGAGCAAGCA 58.843 50.000 6.58 0.00 34.54 3.91
84 85 0.448197 GGAGGCGTTTAAGAGCAAGC 59.552 55.000 6.58 0.00 34.54 4.01
85 86 2.003301 GAGGAGGCGTTTAAGAGCAAG 58.997 52.381 6.58 0.00 34.54 4.01
86 87 1.338769 GGAGGAGGCGTTTAAGAGCAA 60.339 52.381 6.58 0.00 34.54 3.91
87 88 0.249398 GGAGGAGGCGTTTAAGAGCA 59.751 55.000 6.58 0.00 34.54 4.26
88 89 0.537653 AGGAGGAGGCGTTTAAGAGC 59.462 55.000 0.00 0.00 0.00 4.09
89 90 2.233922 TCAAGGAGGAGGCGTTTAAGAG 59.766 50.000 0.00 0.00 0.00 2.85
90 91 2.253610 TCAAGGAGGAGGCGTTTAAGA 58.746 47.619 0.00 0.00 0.00 2.10
91 92 2.762535 TCAAGGAGGAGGCGTTTAAG 57.237 50.000 0.00 0.00 0.00 1.85
129 130 5.884771 GAATGCAGTAATTCCTGAGGAAAC 58.115 41.667 19.14 12.82 45.41 2.78
194 195 7.421613 CGCGTGTGTTTCTTTACTTTCATATAC 59.578 37.037 0.00 0.00 0.00 1.47
200 201 3.717404 CACGCGTGTGTTTCTTTACTTTC 59.283 43.478 30.50 0.00 41.34 2.62
224 225 2.538437 TGTGTGAATGCTGTTTTGTGC 58.462 42.857 0.00 0.00 0.00 4.57
237 238 1.271871 CCAGGTAAGGGCATGTGTGAA 60.272 52.381 0.00 0.00 0.00 3.18
277 278 1.520787 CCTAACCACGTCCCATCGC 60.521 63.158 0.00 0.00 0.00 4.58
293 294 4.844349 ATACTCACATTACAACCAGCCT 57.156 40.909 0.00 0.00 0.00 4.58
294 295 8.148351 TCTATAATACTCACATTACAACCAGCC 58.852 37.037 0.00 0.00 0.00 4.85
319 320 9.875691 TGACTAATTGGTATGCATGATACTATC 57.124 33.333 10.16 0.00 37.64 2.08
325 326 9.537192 CAAATTTGACTAATTGGTATGCATGAT 57.463 29.630 13.08 0.00 36.57 2.45
326 327 8.747471 TCAAATTTGACTAATTGGTATGCATGA 58.253 29.630 16.91 0.00 36.57 3.07
327 328 8.929827 TCAAATTTGACTAATTGGTATGCATG 57.070 30.769 16.91 0.00 36.57 4.06
328 329 9.537192 CATCAAATTTGACTAATTGGTATGCAT 57.463 29.630 22.71 3.79 40.49 3.96
329 330 8.747471 TCATCAAATTTGACTAATTGGTATGCA 58.253 29.630 22.71 0.00 40.49 3.96
330 331 9.754382 ATCATCAAATTTGACTAATTGGTATGC 57.246 29.630 22.71 0.00 40.49 3.14
334 335 8.587608 ACACATCATCAAATTTGACTAATTGGT 58.412 29.630 22.71 10.51 40.49 3.67
335 336 8.991243 ACACATCATCAAATTTGACTAATTGG 57.009 30.769 22.71 12.14 40.49 3.16
336 337 9.628746 TGACACATCATCAAATTTGACTAATTG 57.371 29.630 22.71 16.12 40.49 2.32
340 341 9.889128 TCTATGACACATCATCAAATTTGACTA 57.111 29.630 22.71 13.94 42.15 2.59
341 342 8.797350 TCTATGACACATCATCAAATTTGACT 57.203 30.769 22.71 9.71 42.15 3.41
422 423 9.993454 CATGCATGATACATACTAGCCTAATAT 57.007 33.333 22.59 0.00 0.00 1.28
423 424 9.200817 TCATGCATGATACATACTAGCCTAATA 57.799 33.333 25.42 0.00 0.00 0.98
424 425 8.082672 TCATGCATGATACATACTAGCCTAAT 57.917 34.615 25.42 0.00 0.00 1.73
425 426 7.480760 TCATGCATGATACATACTAGCCTAA 57.519 36.000 25.42 0.00 0.00 2.69
426 427 7.666063 ATCATGCATGATACATACTAGCCTA 57.334 36.000 35.28 8.13 45.17 3.93
427 428 6.556974 ATCATGCATGATACATACTAGCCT 57.443 37.500 35.28 12.08 45.17 4.58
428 429 8.899427 ATTATCATGCATGATACATACTAGCC 57.101 34.615 37.42 0.00 46.28 3.93
480 481 9.642343 ACTACCTTTCTAGTGTGTGATATCATA 57.358 33.333 9.02 2.88 0.00 2.15
481 482 8.540507 ACTACCTTTCTAGTGTGTGATATCAT 57.459 34.615 9.02 0.00 0.00 2.45
482 483 7.956328 ACTACCTTTCTAGTGTGTGATATCA 57.044 36.000 0.00 0.00 0.00 2.15
484 485 9.642343 TGATACTACCTTTCTAGTGTGTGATAT 57.358 33.333 0.00 0.00 0.00 1.63
485 486 9.642343 ATGATACTACCTTTCTAGTGTGTGATA 57.358 33.333 0.00 0.00 0.00 2.15
486 487 7.956328 TGATACTACCTTTCTAGTGTGTGAT 57.044 36.000 0.00 0.00 0.00 3.06
487 488 7.956328 ATGATACTACCTTTCTAGTGTGTGA 57.044 36.000 0.00 0.00 0.00 3.58
488 489 8.683615 TGTATGATACTACCTTTCTAGTGTGTG 58.316 37.037 4.03 0.00 0.00 3.82
489 490 8.684520 GTGTATGATACTACCTTTCTAGTGTGT 58.315 37.037 4.03 0.00 0.00 3.72
490 491 8.904834 AGTGTATGATACTACCTTTCTAGTGTG 58.095 37.037 4.03 0.00 0.00 3.82
526 527 8.597167 GGGGATATCATATGCTAGTATTATGCA 58.403 37.037 4.83 0.00 41.13 3.96
527 528 7.761704 CGGGGATATCATATGCTAGTATTATGC 59.238 40.741 4.83 0.00 0.00 3.14
528 529 8.807118 ACGGGGATATCATATGCTAGTATTATG 58.193 37.037 4.83 1.98 0.00 1.90
529 530 8.958060 ACGGGGATATCATATGCTAGTATTAT 57.042 34.615 4.83 0.00 0.00 1.28
530 531 8.777578 AACGGGGATATCATATGCTAGTATTA 57.222 34.615 4.83 0.00 0.00 0.98
531 532 7.676683 AACGGGGATATCATATGCTAGTATT 57.323 36.000 4.83 0.00 0.00 1.89
532 533 7.783119 TGTAACGGGGATATCATATGCTAGTAT 59.217 37.037 4.83 0.00 0.00 2.12
533 534 7.120716 TGTAACGGGGATATCATATGCTAGTA 58.879 38.462 4.83 0.00 0.00 1.82
534 535 5.955959 TGTAACGGGGATATCATATGCTAGT 59.044 40.000 4.83 0.00 0.00 2.57
535 536 6.465439 TGTAACGGGGATATCATATGCTAG 57.535 41.667 4.83 0.00 0.00 3.42
536 537 6.351541 GGTTGTAACGGGGATATCATATGCTA 60.352 42.308 4.83 0.00 0.00 3.49
537 538 5.488341 GTTGTAACGGGGATATCATATGCT 58.512 41.667 4.83 0.00 0.00 3.79
538 539 4.634443 GGTTGTAACGGGGATATCATATGC 59.366 45.833 4.83 0.00 0.00 3.14
539 540 5.800296 TGGTTGTAACGGGGATATCATATG 58.200 41.667 4.83 0.00 0.00 1.78
540 541 5.570844 GCTGGTTGTAACGGGGATATCATAT 60.571 44.000 4.83 0.00 0.00 1.78
541 542 4.262721 GCTGGTTGTAACGGGGATATCATA 60.263 45.833 4.83 0.00 0.00 2.15
542 543 3.496160 GCTGGTTGTAACGGGGATATCAT 60.496 47.826 4.83 0.00 0.00 2.45
543 544 2.158871 GCTGGTTGTAACGGGGATATCA 60.159 50.000 4.83 0.00 0.00 2.15
544 545 2.490991 GCTGGTTGTAACGGGGATATC 58.509 52.381 0.00 0.00 0.00 1.63
545 546 1.142262 GGCTGGTTGTAACGGGGATAT 59.858 52.381 0.00 0.00 0.00 1.63
546 547 0.542805 GGCTGGTTGTAACGGGGATA 59.457 55.000 0.00 0.00 0.00 2.59
547 548 1.205460 AGGCTGGTTGTAACGGGGAT 61.205 55.000 0.00 0.00 0.00 3.85
548 549 1.420532 AAGGCTGGTTGTAACGGGGA 61.421 55.000 0.00 0.00 0.00 4.81
549 550 0.325602 TAAGGCTGGTTGTAACGGGG 59.674 55.000 0.00 0.00 0.00 5.73
550 551 1.445871 GTAAGGCTGGTTGTAACGGG 58.554 55.000 0.00 0.00 0.00 5.28
551 552 1.445871 GGTAAGGCTGGTTGTAACGG 58.554 55.000 0.00 0.00 0.00 4.44
552 553 1.073177 CGGTAAGGCTGGTTGTAACG 58.927 55.000 0.00 0.00 0.00 3.18
553 554 1.002315 TCCGGTAAGGCTGGTTGTAAC 59.998 52.381 0.00 0.00 44.16 2.50
554 555 1.276989 CTCCGGTAAGGCTGGTTGTAA 59.723 52.381 0.00 0.00 44.16 2.41
555 556 0.899720 CTCCGGTAAGGCTGGTTGTA 59.100 55.000 0.00 0.00 44.16 2.41
556 557 1.125711 ACTCCGGTAAGGCTGGTTGT 61.126 55.000 0.00 0.00 44.16 3.32
557 558 0.036306 AACTCCGGTAAGGCTGGTTG 59.964 55.000 0.00 0.00 44.16 3.77
558 559 0.769247 AAACTCCGGTAAGGCTGGTT 59.231 50.000 0.00 0.00 44.16 3.67
559 560 1.648116 TAAACTCCGGTAAGGCTGGT 58.352 50.000 0.00 0.00 44.16 4.00
560 561 2.484947 GGATAAACTCCGGTAAGGCTGG 60.485 54.545 0.00 0.00 45.18 4.85
561 562 2.835027 GGATAAACTCCGGTAAGGCTG 58.165 52.381 0.00 0.00 40.77 4.85
725 726 3.500642 GGAGGAAGGAAAGCGCGC 61.501 66.667 26.66 26.66 0.00 6.86
771 772 1.376037 GTACCTGGGACACAGCAGC 60.376 63.158 3.56 0.00 46.14 5.25
772 773 1.079819 CGTACCTGGGACACAGCAG 60.080 63.158 10.24 0.00 46.14 4.24
773 774 1.532078 TCGTACCTGGGACACAGCA 60.532 57.895 10.24 0.00 46.14 4.41
774 775 1.215647 CTCGTACCTGGGACACAGC 59.784 63.158 10.24 0.00 46.14 4.40
934 935 0.244994 CAGGACAGGACAGAACGGAG 59.755 60.000 0.00 0.00 0.00 4.63
937 938 1.068588 TGAACAGGACAGGACAGAACG 59.931 52.381 0.00 0.00 0.00 3.95
938 939 2.910688 TGAACAGGACAGGACAGAAC 57.089 50.000 0.00 0.00 0.00 3.01
957 1050 3.066481 GGCGTTACTCGGAGTAGAAGATT 59.934 47.826 16.70 0.00 40.26 2.40
979 1087 0.528684 GATCGAGCTTGAAGACGGGG 60.529 60.000 7.99 0.00 0.00 5.73
993 1101 0.746923 AGACGGACACCATCGATCGA 60.747 55.000 21.86 21.86 0.00 3.59
994 1102 0.592500 CAGACGGACACCATCGATCG 60.593 60.000 9.36 9.36 0.00 3.69
995 1103 0.872021 GCAGACGGACACCATCGATC 60.872 60.000 0.00 0.00 0.00 3.69
997 1105 2.571757 GCAGACGGACACCATCGA 59.428 61.111 0.00 0.00 0.00 3.59
998 1106 2.509336 GGCAGACGGACACCATCG 60.509 66.667 0.00 0.00 0.00 3.84
999 1107 2.125106 GGGCAGACGGACACCATC 60.125 66.667 0.00 0.00 0.00 3.51
1000 1108 3.717294 GGGGCAGACGGACACCAT 61.717 66.667 0.00 0.00 0.00 3.55
1002 1110 3.717294 ATGGGGCAGACGGACACC 61.717 66.667 0.00 0.00 0.00 4.16
1003 1111 2.436646 CATGGGGCAGACGGACAC 60.437 66.667 0.00 0.00 0.00 3.67
1004 1112 3.716195 CCATGGGGCAGACGGACA 61.716 66.667 2.85 0.00 0.00 4.02
1041 1149 0.103937 GGAAGACGAGCAGGAGGATG 59.896 60.000 0.00 0.00 0.00 3.51
1179 1287 3.662247 ACCAAACCACGAACAACAAAA 57.338 38.095 0.00 0.00 0.00 2.44
1208 1316 2.093467 GCAGAGCGAAACTGAATCAGTC 59.907 50.000 17.02 4.19 44.62 3.51
1210 1318 2.802556 GCAGAGCGAAACTGAATCAG 57.197 50.000 8.98 8.98 37.54 2.90
1533 1665 2.261671 CCGCTTGTACTCCACGCT 59.738 61.111 0.00 0.00 36.24 5.07
1701 1833 4.873129 CTCCCGCGTCATGGACCG 62.873 72.222 4.92 0.00 0.00 4.79
1922 2054 2.651361 CGGCGTCACTTCCACTCT 59.349 61.111 0.00 0.00 0.00 3.24
1936 2068 0.043310 GTTGATTCGTGTATCGCGGC 60.043 55.000 6.13 0.00 37.97 6.53
1938 2070 1.556564 AGGTTGATTCGTGTATCGCG 58.443 50.000 0.00 0.00 39.67 5.87
1941 2073 5.867716 ACTGTACAAGGTTGATTCGTGTATC 59.132 40.000 0.00 0.00 33.28 2.24
1943 2075 5.204409 ACTGTACAAGGTTGATTCGTGTA 57.796 39.130 0.00 0.00 0.00 2.90
1953 2087 5.758784 GCAAAAGACTCTACTGTACAAGGTT 59.241 40.000 0.00 0.00 0.00 3.50
1954 2088 5.070580 AGCAAAAGACTCTACTGTACAAGGT 59.929 40.000 0.00 0.00 0.00 3.50
1955 2089 5.542779 AGCAAAAGACTCTACTGTACAAGG 58.457 41.667 0.00 0.00 0.00 3.61
1982 2116 5.241064 GGGATTAGCACGAGTAGTAAGATCA 59.759 44.000 0.00 0.00 0.00 2.92
2076 2214 1.586154 CCGGACCCAGTTGCAATCAC 61.586 60.000 0.59 0.00 0.00 3.06
2079 2217 1.303317 GACCGGACCCAGTTGCAAT 60.303 57.895 9.46 0.00 0.00 3.56
2080 2218 2.112297 GACCGGACCCAGTTGCAA 59.888 61.111 9.46 0.00 0.00 4.08
2081 2219 3.948719 GGACCGGACCCAGTTGCA 61.949 66.667 9.46 0.00 0.00 4.08
2093 2231 3.976701 AATCAGCAAGGCCGGACCG 62.977 63.158 1.76 6.99 46.52 4.79
2340 2494 2.124695 CTAGCTTTGGGGCCGTCC 60.125 66.667 0.00 0.00 0.00 4.79
2467 2647 1.133136 TCCTATCACTCTACCCCTGCC 60.133 57.143 0.00 0.00 0.00 4.85
2514 2694 8.547894 GTTTCAAAAATAAATCACTTGGGTCAC 58.452 33.333 0.00 0.00 0.00 3.67
2608 2790 2.542824 GGTTTTGTGATGGTGTTCACCG 60.543 50.000 15.82 0.00 44.37 4.94
2642 2824 5.185056 TCTTCTTTCTCGGACATCATGTGTA 59.815 40.000 0.00 0.00 42.36 2.90
2647 2829 5.152623 TGTTCTTCTTTCTCGGACATCAT 57.847 39.130 0.00 0.00 0.00 2.45
2690 2872 7.966812 TGAGTCACCATTATGCTCATTATACT 58.033 34.615 0.00 0.00 31.87 2.12
2705 2887 4.474394 TCGATATTCTCCTGAGTCACCAT 58.526 43.478 0.00 0.00 0.00 3.55
2765 2960 8.805175 TGAATCTTTGGTTATCATGTGATGTTT 58.195 29.630 5.78 0.00 36.05 2.83
2787 2982 5.235186 GCACACGAATGCTATTAGAGTGAAT 59.765 40.000 16.43 0.00 42.62 2.57
2800 2995 0.376152 CCTGATGAGCACACGAATGC 59.624 55.000 7.45 7.45 46.50 3.56
2816 3011 1.066215 TGGACGTCCATGTCAATCCTG 60.066 52.381 33.23 0.00 42.01 3.86
2854 3049 7.169140 CGTGAACGTCCATATCAATTCTTATGA 59.831 37.037 0.00 0.00 34.11 2.15
2855 3050 7.283633 CGTGAACGTCCATATCAATTCTTATG 58.716 38.462 0.00 0.00 34.11 1.90
2856 3051 6.423905 CCGTGAACGTCCATATCAATTCTTAT 59.576 38.462 1.75 0.00 37.74 1.73
2857 3052 5.751509 CCGTGAACGTCCATATCAATTCTTA 59.248 40.000 1.75 0.00 37.74 2.10
2858 3053 4.570772 CCGTGAACGTCCATATCAATTCTT 59.429 41.667 1.75 0.00 37.74 2.52
2859 3054 4.119862 CCGTGAACGTCCATATCAATTCT 58.880 43.478 1.75 0.00 37.74 2.40
2860 3055 3.869246 ACCGTGAACGTCCATATCAATTC 59.131 43.478 1.75 0.00 37.74 2.17
2861 3056 3.869065 ACCGTGAACGTCCATATCAATT 58.131 40.909 1.75 0.00 37.74 2.32
2862 3057 3.454375 GACCGTGAACGTCCATATCAAT 58.546 45.455 1.75 0.00 37.74 2.57
2863 3058 2.417651 GGACCGTGAACGTCCATATCAA 60.418 50.000 15.14 0.00 38.50 2.57
2864 3059 1.135527 GGACCGTGAACGTCCATATCA 59.864 52.381 15.14 0.00 38.50 2.15
2865 3060 1.407979 AGGACCGTGAACGTCCATATC 59.592 52.381 19.44 0.00 39.92 1.63
2866 3061 1.136305 CAGGACCGTGAACGTCCATAT 59.864 52.381 19.44 4.21 39.92 1.78
2867 3062 0.528924 CAGGACCGTGAACGTCCATA 59.471 55.000 19.44 0.00 39.92 2.74
2868 3063 1.292223 CAGGACCGTGAACGTCCAT 59.708 57.895 19.44 8.04 39.92 3.41
2869 3064 2.732016 CAGGACCGTGAACGTCCA 59.268 61.111 19.44 0.00 39.92 4.02
2870 3065 2.737376 GCAGGACCGTGAACGTCC 60.737 66.667 13.25 13.25 38.73 4.79
2871 3066 2.022129 CAGCAGGACCGTGAACGTC 61.022 63.158 1.75 0.22 37.74 4.34
2872 3067 2.029073 CAGCAGGACCGTGAACGT 59.971 61.111 1.75 0.00 37.74 3.99
2873 3068 2.022129 GACAGCAGGACCGTGAACG 61.022 63.158 0.00 0.00 39.44 3.95
2874 3069 2.022129 CGACAGCAGGACCGTGAAC 61.022 63.158 0.00 0.00 0.00 3.18
2875 3070 2.338620 CGACAGCAGGACCGTGAA 59.661 61.111 0.00 0.00 0.00 3.18
2876 3071 3.680786 CCGACAGCAGGACCGTGA 61.681 66.667 0.00 0.00 0.00 4.35
2877 3072 2.149803 TAACCGACAGCAGGACCGTG 62.150 60.000 0.00 0.00 0.00 4.94
2878 3073 1.255667 ATAACCGACAGCAGGACCGT 61.256 55.000 0.00 0.00 0.00 4.83
2879 3074 0.108329 AATAACCGACAGCAGGACCG 60.108 55.000 0.00 0.00 0.00 4.79
2880 3075 1.369625 CAATAACCGACAGCAGGACC 58.630 55.000 0.00 0.00 0.00 4.46
2881 3076 1.066430 TCCAATAACCGACAGCAGGAC 60.066 52.381 0.00 0.00 0.00 3.85
2882 3077 1.066430 GTCCAATAACCGACAGCAGGA 60.066 52.381 0.00 0.00 0.00 3.86
2883 3078 1.369625 GTCCAATAACCGACAGCAGG 58.630 55.000 0.00 0.00 0.00 4.85
2884 3079 0.999406 CGTCCAATAACCGACAGCAG 59.001 55.000 0.00 0.00 0.00 4.24
2885 3080 0.604073 TCGTCCAATAACCGACAGCA 59.396 50.000 0.00 0.00 0.00 4.41
2886 3081 1.392510 GTTCGTCCAATAACCGACAGC 59.607 52.381 0.00 0.00 0.00 4.40
2887 3082 1.652124 CGTTCGTCCAATAACCGACAG 59.348 52.381 0.00 0.00 0.00 3.51
2888 3083 1.669502 CCGTTCGTCCAATAACCGACA 60.670 52.381 0.00 0.00 0.00 4.35
2889 3084 0.994263 CCGTTCGTCCAATAACCGAC 59.006 55.000 0.00 0.00 0.00 4.79
2890 3085 0.602562 ACCGTTCGTCCAATAACCGA 59.397 50.000 0.00 0.00 0.00 4.69
2891 3086 1.431496 AACCGTTCGTCCAATAACCG 58.569 50.000 0.00 0.00 0.00 4.44
2892 3087 2.807392 TGAAACCGTTCGTCCAATAACC 59.193 45.455 0.00 0.00 36.46 2.85
2893 3088 4.673534 ATGAAACCGTTCGTCCAATAAC 57.326 40.909 0.00 0.00 36.46 1.89
2894 3089 5.236282 TGTATGAAACCGTTCGTCCAATAA 58.764 37.500 0.00 0.00 36.46 1.40
2895 3090 4.818642 TGTATGAAACCGTTCGTCCAATA 58.181 39.130 0.00 0.00 36.46 1.90
2896 3091 3.666274 TGTATGAAACCGTTCGTCCAAT 58.334 40.909 0.00 0.00 36.46 3.16
2897 3092 3.109044 TGTATGAAACCGTTCGTCCAA 57.891 42.857 0.00 0.00 36.46 3.53
2898 3093 2.816204 TGTATGAAACCGTTCGTCCA 57.184 45.000 0.00 0.00 36.46 4.02
2899 3094 5.175126 CAGATATGTATGAAACCGTTCGTCC 59.825 44.000 0.00 0.00 36.46 4.79
2900 3095 5.747197 ACAGATATGTATGAAACCGTTCGTC 59.253 40.000 0.00 0.00 36.46 4.20
2901 3096 5.518847 CACAGATATGTATGAAACCGTTCGT 59.481 40.000 0.00 0.00 36.46 3.85
2902 3097 5.746721 TCACAGATATGTATGAAACCGTTCG 59.253 40.000 0.00 0.00 36.46 3.95
2903 3098 6.757010 ACTCACAGATATGTATGAAACCGTTC 59.243 38.462 0.00 0.00 0.00 3.95
2904 3099 6.640518 ACTCACAGATATGTATGAAACCGTT 58.359 36.000 0.00 0.00 0.00 4.44
2905 3100 6.222038 ACTCACAGATATGTATGAAACCGT 57.778 37.500 0.00 0.00 0.00 4.83
2906 3101 7.169308 GGTAACTCACAGATATGTATGAAACCG 59.831 40.741 0.00 0.00 0.00 4.44
2907 3102 7.169308 CGGTAACTCACAGATATGTATGAAACC 59.831 40.741 0.00 0.00 0.00 3.27
2908 3103 7.919091 TCGGTAACTCACAGATATGTATGAAAC 59.081 37.037 0.00 0.00 0.00 2.78
2909 3104 8.002984 TCGGTAACTCACAGATATGTATGAAA 57.997 34.615 0.00 0.00 0.00 2.69
2910 3105 7.576861 TCGGTAACTCACAGATATGTATGAA 57.423 36.000 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.