Multiple sequence alignment - TraesCS1A01G439700

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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 TraesCS1A01G439700 chr1A 100.000 4325 0 0 1 4325 589039177 589043501 0.000000e+00 7987
1 TraesCS1A01G439700 chr1A 77.143 280 41 10 1139 1399 589053976 589054251 1.620000e-29 141
2 TraesCS1A01G439700 chr1D 90.389 1904 99 33 2178 4018 491043872 491045754 0.000000e+00 2425
3 TraesCS1A01G439700 chr1D 91.754 1140 59 15 1067 2182 491042712 491043840 0.000000e+00 1552
4 TraesCS1A01G439700 chr1D 91.228 399 21 7 588 978 491041967 491042359 8.240000e-147 531
5 TraesCS1A01G439700 chr1D 76.136 968 146 45 1139 2038 491049563 491050513 3.090000e-116 429
6 TraesCS1A01G439700 chr1D 80.277 578 52 32 1 545 491041295 491041843 3.160000e-101 379
7 TraesCS1A01G439700 chr1D 92.793 222 9 4 4017 4237 491045792 491046007 9.030000e-82 315
8 TraesCS1A01G439700 chr1B 91.822 1504 76 25 716 2182 683473153 683474646 0.000000e+00 2052
9 TraesCS1A01G439700 chr1B 93.296 1238 47 12 2178 3391 683474678 683475903 0.000000e+00 1794
10 TraesCS1A01G439700 chr1B 87.789 303 20 11 1 290 683472502 683472800 5.360000e-89 339
11 TraesCS1A01G439700 chr1B 89.270 233 14 4 144 376 683476010 683476231 9.160000e-72 281
12 TraesCS1A01G439700 chr1B 93.252 163 6 1 3669 3826 683476147 683476309 7.230000e-58 235
13 TraesCS1A01G439700 chr1B 90.769 130 7 4 4095 4220 683476460 683476588 7.440000e-38 169
14 TraesCS1A01G439700 chr1B 82.796 186 19 6 369 545 683472907 683473088 2.080000e-33 154
15 TraesCS1A01G439700 chr1B 82.963 135 4 10 3751 3871 683472889 683473018 2.130000e-18 104
16 TraesCS1A01G439700 chr6A 92.857 98 7 0 132 229 159242937 159242840 4.510000e-30 143


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 TraesCS1A01G439700 chr1A 589039177 589043501 4324 False 7987.0 7987 100.000000 1 4325 1 chr1A.!!$F1 4324
1 TraesCS1A01G439700 chr1D 491041295 491050513 9218 False 938.5 2425 87.096167 1 4237 6 chr1D.!!$F1 4236
2 TraesCS1A01G439700 chr1B 683472502 683476588 4086 False 641.0 2052 88.994625 1 4220 8 chr1B.!!$F1 4219

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
298 314 0.241213 CGGTGCTCTGAAACGAGAGA 59.759 55.0 3.19 0.0 41.95 3.10 F
1594 2027 0.091678 TAACGTGCGTCGCGATTTTC 59.908 50.0 14.06 0.0 44.19 2.29 F
2957 3469 0.366871 CGTCGAGCACCTGAATTTCG 59.633 55.0 0.00 0.0 0.00 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2247 2743 0.103937 ACCACCAATTTGCAACGGTG 59.896 50.0 25.04 25.04 46.93 4.94 R
3199 3740 0.036765 ATAAACGAGCCTTGGCGACA 60.037 50.0 5.95 0.00 39.83 4.35 R
4301 5097 0.753479 GAGAGGGATGACTCGCCTGA 60.753 60.0 0.00 0.00 42.31 3.86 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
97 113 2.363147 GTCGAGTCCCAGGAGCCT 60.363 66.667 0.00 0.00 0.00 4.58
98 114 2.363018 TCGAGTCCCAGGAGCCTG 60.363 66.667 9.59 9.59 43.26 4.85
99 115 2.681778 CGAGTCCCAGGAGCCTGT 60.682 66.667 14.97 0.00 42.15 4.00
100 116 2.286523 CGAGTCCCAGGAGCCTGTT 61.287 63.158 14.97 0.00 42.15 3.16
102 118 2.360475 GTCCCAGGAGCCTGTTGC 60.360 66.667 14.97 1.52 42.15 4.17
103 119 3.650950 TCCCAGGAGCCTGTTGCC 61.651 66.667 14.97 0.00 42.15 4.52
229 245 0.248843 CCGCAGAGAAGAAGAGGCTT 59.751 55.000 0.00 0.00 0.00 4.35
238 254 0.523966 AGAAGAGGCTTGACGACGAG 59.476 55.000 0.00 0.00 0.00 4.18
290 306 3.003173 CCCTCCCGGTGCTCTGAA 61.003 66.667 0.00 0.00 0.00 3.02
293 309 1.738099 CTCCCGGTGCTCTGAAACG 60.738 63.158 0.00 0.00 0.00 3.60
294 310 2.154798 CTCCCGGTGCTCTGAAACGA 62.155 60.000 0.00 0.00 0.00 3.85
297 313 0.734253 CCGGTGCTCTGAAACGAGAG 60.734 60.000 0.00 0.00 42.24 3.20
298 314 0.241213 CGGTGCTCTGAAACGAGAGA 59.759 55.000 3.19 0.00 41.95 3.10
299 315 1.730772 CGGTGCTCTGAAACGAGAGAG 60.731 57.143 3.19 0.00 41.95 3.20
303 319 2.559998 CTCTGAAACGAGAGAGCCTC 57.440 55.000 0.00 0.00 41.95 4.70
305 321 1.542030 TCTGAAACGAGAGAGCCTCAC 59.458 52.381 0.00 0.00 42.06 3.51
306 322 0.603569 TGAAACGAGAGAGCCTCACC 59.396 55.000 0.00 0.00 42.06 4.02
307 323 0.603569 GAAACGAGAGAGCCTCACCA 59.396 55.000 0.00 0.00 42.06 4.17
308 324 0.318762 AAACGAGAGAGCCTCACCAC 59.681 55.000 0.00 0.00 42.06 4.16
309 325 0.827925 AACGAGAGAGCCTCACCACA 60.828 55.000 0.00 0.00 42.06 4.17
310 326 1.214062 CGAGAGAGCCTCACCACAC 59.786 63.158 0.00 0.00 42.06 3.82
321 346 1.525995 CACCACACCACCACCAGAC 60.526 63.158 0.00 0.00 0.00 3.51
324 349 1.227943 CACACCACCACCAGACTGG 60.228 63.158 20.45 20.45 45.02 4.00
325 350 1.383943 ACACCACCACCAGACTGGA 60.384 57.895 28.56 0.00 40.96 3.86
327 352 1.074471 ACCACCACCAGACTGGACT 60.074 57.895 28.56 3.29 40.96 3.85
328 353 1.372683 CCACCACCAGACTGGACTG 59.627 63.158 28.56 16.11 40.96 3.51
329 354 1.302033 CACCACCAGACTGGACTGC 60.302 63.158 28.56 0.00 40.96 4.40
330 355 1.460305 ACCACCAGACTGGACTGCT 60.460 57.895 28.56 1.60 40.96 4.24
331 356 1.294780 CCACCAGACTGGACTGCTC 59.705 63.158 28.56 0.00 40.96 4.26
339 364 0.250209 ACTGGACTGCTCTGCTGTTG 60.250 55.000 3.78 1.67 40.59 3.33
341 366 1.372683 GGACTGCTCTGCTGTTGGA 59.627 57.895 3.78 0.00 40.59 3.53
342 367 0.250467 GGACTGCTCTGCTGTTGGAA 60.250 55.000 3.78 0.00 40.59 3.53
344 369 2.355108 GGACTGCTCTGCTGTTGGAATA 60.355 50.000 3.78 0.00 40.59 1.75
345 370 3.338249 GACTGCTCTGCTGTTGGAATAA 58.662 45.455 3.78 0.00 40.59 1.40
346 371 3.944015 GACTGCTCTGCTGTTGGAATAAT 59.056 43.478 3.78 0.00 40.59 1.28
348 373 5.500234 ACTGCTCTGCTGTTGGAATAATTA 58.500 37.500 0.00 0.00 37.43 1.40
350 375 6.094603 ACTGCTCTGCTGTTGGAATAATTAAG 59.905 38.462 0.00 0.00 37.43 1.85
351 376 5.163622 TGCTCTGCTGTTGGAATAATTAAGC 60.164 40.000 0.00 0.00 0.00 3.09
352 377 5.067023 GCTCTGCTGTTGGAATAATTAAGCT 59.933 40.000 5.05 0.00 0.00 3.74
353 378 6.441093 TCTGCTGTTGGAATAATTAAGCTG 57.559 37.500 0.00 4.74 0.00 4.24
354 379 5.357878 TCTGCTGTTGGAATAATTAAGCTGG 59.642 40.000 8.95 2.36 0.00 4.85
355 380 4.142182 TGCTGTTGGAATAATTAAGCTGGC 60.142 41.667 0.00 0.00 0.00 4.85
356 381 4.142182 GCTGTTGGAATAATTAAGCTGGCA 60.142 41.667 0.00 0.00 0.00 4.92
357 382 5.323371 TGTTGGAATAATTAAGCTGGCAC 57.677 39.130 0.00 0.00 0.00 5.01
358 383 5.016173 TGTTGGAATAATTAAGCTGGCACT 58.984 37.500 0.00 0.00 0.00 4.40
359 384 5.105797 TGTTGGAATAATTAAGCTGGCACTG 60.106 40.000 0.00 0.00 0.00 3.66
376 420 2.821378 CACTGCCTGATTGATGGTTTGA 59.179 45.455 0.00 0.00 0.00 2.69
412 459 3.021269 TGATTGTGTCGTGTGGTACTC 57.979 47.619 0.00 0.00 0.00 2.59
418 465 5.204409 TGTGTCGTGTGGTACTCTTATTT 57.796 39.130 0.00 0.00 0.00 1.40
424 471 7.546667 TGTCGTGTGGTACTCTTATTTTTATCC 59.453 37.037 0.00 0.00 0.00 2.59
449 496 9.369672 CCTCTTATAAGGTACTCCTAGTTTGAT 57.630 37.037 12.54 0.00 44.35 2.57
453 500 3.450904 AGGTACTCCTAGTTTGATGCCA 58.549 45.455 0.00 0.00 43.12 4.92
493 545 5.518848 TGCTTTATTTATGTGGATGCAGG 57.481 39.130 0.00 0.00 0.00 4.85
497 549 2.804986 TTTATGTGGATGCAGGCAGA 57.195 45.000 0.00 0.00 0.00 4.26
588 680 3.018856 TGGATGTGGATGCAAACTGATC 58.981 45.455 0.00 0.00 0.00 2.92
628 762 8.807118 TCTTCTGTCTTCTTATTACAGTGATGT 58.193 33.333 0.00 0.00 41.12 3.06
629 763 8.763049 TTCTGTCTTCTTATTACAGTGATGTG 57.237 34.615 0.00 0.00 41.12 3.21
636 770 0.682292 TTACAGTGATGTGTCGGCCA 59.318 50.000 2.24 0.00 31.46 5.36
682 816 8.928733 CAGCAAAATTAAAATACAATGCACTCT 58.071 29.630 0.00 0.00 35.11 3.24
801 935 5.358160 TGGTCAGTGTCTATATGAGTGTGAG 59.642 44.000 0.00 0.00 0.00 3.51
910 1051 2.176364 ACATCCAAGCTGCCCTGAATAT 59.824 45.455 0.00 0.00 0.00 1.28
935 1076 2.757508 TAGCTCGGCTGCTGCTCT 60.758 61.111 15.64 11.48 43.87 4.09
936 1077 2.682256 CTAGCTCGGCTGCTGCTCTC 62.682 65.000 15.64 3.01 43.87 3.20
938 1079 3.459965 CTCGGCTGCTGCTCTCCT 61.460 66.667 15.64 0.00 39.59 3.69
940 1081 1.670949 CTCGGCTGCTGCTCTCCTTA 61.671 60.000 15.64 0.00 39.59 2.69
941 1082 1.219124 CGGCTGCTGCTCTCCTTAA 59.781 57.895 15.64 0.00 39.59 1.85
942 1083 0.809241 CGGCTGCTGCTCTCCTTAAG 60.809 60.000 15.64 0.00 39.59 1.85
943 1084 0.463474 GGCTGCTGCTCTCCTTAAGG 60.463 60.000 15.98 15.98 39.59 2.69
945 1086 0.540923 CTGCTGCTCTCCTTAAGGCT 59.459 55.000 17.32 0.00 34.44 4.58
994 1140 2.433838 CACCAGGCAGTCGCTCAG 60.434 66.667 0.00 0.00 38.60 3.35
1027 1173 0.179065 CAGCATCCGAATCTCAGGCA 60.179 55.000 0.00 0.00 0.00 4.75
1064 1486 7.043059 CCTCTCTCTTACGATTTGCAATACTTC 60.043 40.741 0.00 0.00 0.00 3.01
1065 1487 6.757010 TCTCTCTTACGATTTGCAATACTTCC 59.243 38.462 0.00 0.00 0.00 3.46
1068 1490 7.552687 TCTCTTACGATTTGCAATACTTCCATT 59.447 33.333 0.00 0.00 0.00 3.16
1076 1498 7.945033 TTTGCAATACTTCCATTCAAAACTC 57.055 32.000 0.00 0.00 0.00 3.01
1225 1649 8.831550 GTGTCTTCTGATTTCACTCTACTTTTT 58.168 33.333 0.00 0.00 0.00 1.94
1228 1652 7.661847 TCTTCTGATTTCACTCTACTTTTTCCC 59.338 37.037 0.00 0.00 0.00 3.97
1231 1655 7.445402 TCTGATTTCACTCTACTTTTTCCCTTG 59.555 37.037 0.00 0.00 0.00 3.61
1236 1660 4.821805 CACTCTACTTTTTCCCTTGCTTCA 59.178 41.667 0.00 0.00 0.00 3.02
1260 1691 3.498397 ACTTCCTGTTTGCTAATGTCGTG 59.502 43.478 0.00 0.00 0.00 4.35
1315 1747 1.068753 CAGCGGAGACATAGGGCAG 59.931 63.158 0.00 0.00 0.00 4.85
1334 1766 3.474600 CAGCATGGATTCTCCCTGTAAG 58.525 50.000 0.00 0.00 35.03 2.34
1359 1791 0.249868 TCCCATATCGCCTTTCGCTG 60.250 55.000 0.00 0.00 38.27 5.18
1376 1808 2.215363 CGCTGGTTTTTACTTGCGTTTG 59.785 45.455 0.00 0.00 38.81 2.93
1400 1832 5.793817 ACCTTTCTAATTCCACAAAATGCC 58.206 37.500 0.00 0.00 0.00 4.40
1476 1909 4.341366 TTCGTGATAGCATGGTGATGAT 57.659 40.909 7.89 0.00 31.62 2.45
1588 2021 0.846387 GTCAATTAACGTGCGTCGCG 60.846 55.000 13.38 0.00 44.19 5.87
1594 2027 0.091678 TAACGTGCGTCGCGATTTTC 59.908 50.000 14.06 0.00 44.19 2.29
1595 2028 1.554042 AACGTGCGTCGCGATTTTCT 61.554 50.000 14.06 0.00 44.19 2.52
1596 2029 1.575132 CGTGCGTCGCGATTTTCTG 60.575 57.895 14.06 0.00 39.94 3.02
1597 2030 1.491563 GTGCGTCGCGATTTTCTGT 59.508 52.632 14.06 0.00 0.00 3.41
1598 2031 0.711670 GTGCGTCGCGATTTTCTGTA 59.288 50.000 14.06 0.00 0.00 2.74
1601 2034 2.155802 GCGTCGCGATTTTCTGTAAAC 58.844 47.619 14.06 0.00 0.00 2.01
1602 2035 2.754478 CGTCGCGATTTTCTGTAAACC 58.246 47.619 14.06 0.00 0.00 3.27
1603 2036 2.156117 CGTCGCGATTTTCTGTAAACCA 59.844 45.455 14.06 0.00 0.00 3.67
1604 2037 3.181524 CGTCGCGATTTTCTGTAAACCAT 60.182 43.478 14.06 0.00 0.00 3.55
1760 2196 5.324409 TGGTGAGATGCTTCTTTTATGGTT 58.676 37.500 3.29 0.00 30.30 3.67
1761 2197 5.774690 TGGTGAGATGCTTCTTTTATGGTTT 59.225 36.000 3.29 0.00 30.30 3.27
1762 2198 6.945435 TGGTGAGATGCTTCTTTTATGGTTTA 59.055 34.615 3.29 0.00 30.30 2.01
1770 2206 9.754382 ATGCTTCTTTTATGGTTTATTATGCTG 57.246 29.630 0.00 0.00 0.00 4.41
1791 2227 5.467735 GCTGTTTCCATGAAAGCTTGAAAAT 59.532 36.000 0.00 0.00 31.87 1.82
1792 2228 6.646240 GCTGTTTCCATGAAAGCTTGAAAATA 59.354 34.615 0.00 0.00 31.87 1.40
2126 2586 8.991243 TGGCTTTCAAATTTTATCAGAAGATG 57.009 30.769 0.00 0.00 35.67 2.90
2247 2743 0.919710 ATGGTGGCTTCTAAGGACCC 59.080 55.000 0.00 0.00 0.00 4.46
2268 2764 1.338655 ACCGTTGCAAATTGGTGGTAC 59.661 47.619 16.09 0.00 36.29 3.34
2297 2793 1.064296 CTCGAAGGTCCCATCGACG 59.936 63.158 9.39 3.52 42.99 5.12
2298 2794 2.582498 CGAAGGTCCCATCGACGC 60.582 66.667 5.05 0.00 42.99 5.19
2418 2914 3.924922 ACCCGTCCCTATACAGAGAAAT 58.075 45.455 0.00 0.00 0.00 2.17
2556 3068 0.721718 GAGATGCCGTCGGTTTCTTG 59.278 55.000 13.94 0.00 0.00 3.02
2599 3111 1.305381 ACGCAAGCCTCCTACTCCT 60.305 57.895 0.00 0.00 45.62 3.69
2731 3243 3.368495 GTTAAACACACAAGAAAGCCGG 58.632 45.455 0.00 0.00 0.00 6.13
2777 3289 4.983090 CGAGCAACATGATTCGCC 57.017 55.556 0.00 0.00 0.00 5.54
2803 3315 3.041940 CGGTCAGCGGAAAAGCGT 61.042 61.111 0.00 0.00 43.00 5.07
2955 3467 1.270094 TGACGTCGAGCACCTGAATTT 60.270 47.619 11.62 0.00 0.00 1.82
2956 3468 1.390463 GACGTCGAGCACCTGAATTTC 59.610 52.381 0.00 0.00 0.00 2.17
2957 3469 0.366871 CGTCGAGCACCTGAATTTCG 59.633 55.000 0.00 0.00 0.00 3.46
3002 3536 6.296026 TGAAAGCTAAACTGGTGTGATACTT 58.704 36.000 0.00 0.00 0.00 2.24
3027 3564 4.440525 GCTACATGCATGTTGGTGCTTTAT 60.441 41.667 35.45 10.25 45.27 1.40
3072 3609 4.141846 ACTTGATTCGTCCTGATATGCACT 60.142 41.667 0.00 0.00 0.00 4.40
3130 3667 2.737376 GCGGTGTCCTGACGGTTC 60.737 66.667 0.00 0.00 0.00 3.62
3199 3740 1.340889 GCATTGATCTCTCCTCTCGCT 59.659 52.381 0.00 0.00 0.00 4.93
3201 3742 2.136298 TTGATCTCTCCTCTCGCTGT 57.864 50.000 0.00 0.00 0.00 4.40
3202 3743 1.674359 TGATCTCTCCTCTCGCTGTC 58.326 55.000 0.00 0.00 0.00 3.51
3206 3747 3.443925 CTCCTCTCGCTGTCGCCA 61.444 66.667 0.00 0.00 35.26 5.69
3343 3885 0.037790 AAGAAGAGGACGAGTGCAGC 60.038 55.000 0.00 0.00 0.00 5.25
3353 3895 2.341257 ACGAGTGCAGCTGATAACTTG 58.659 47.619 20.43 21.08 0.00 3.16
3361 3908 7.106239 AGTGCAGCTGATAACTTGTAACTAAT 58.894 34.615 20.43 0.00 0.00 1.73
3362 3909 8.258007 AGTGCAGCTGATAACTTGTAACTAATA 58.742 33.333 20.43 0.00 0.00 0.98
3363 3910 8.328864 GTGCAGCTGATAACTTGTAACTAATAC 58.671 37.037 20.43 0.00 34.92 1.89
3364 3911 7.222031 TGCAGCTGATAACTTGTAACTAATACG 59.778 37.037 20.43 0.00 37.32 3.06
3418 3965 2.928757 TGCAGTGCAATTTGTTTGTGTC 59.071 40.909 17.26 0.00 37.65 3.67
3419 3966 2.928757 GCAGTGCAATTTGTTTGTGTCA 59.071 40.909 11.09 0.00 37.65 3.58
3421 3968 4.034279 GCAGTGCAATTTGTTTGTGTCAAT 59.966 37.500 11.09 0.00 37.65 2.57
3423 3970 4.571580 AGTGCAATTTGTTTGTGTCAATGG 59.428 37.500 0.00 0.00 37.65 3.16
3475 4022 1.392853 CTCGCAGTTCATGTCAGAAGC 59.607 52.381 0.00 0.00 0.00 3.86
3483 4030 1.205417 TCATGTCAGAAGCTGCGATGA 59.795 47.619 0.00 0.00 0.00 2.92
3486 4033 1.276415 GTCAGAAGCTGCGATGAGAC 58.724 55.000 5.02 2.98 0.00 3.36
3493 4040 0.098905 GCTGCGATGAGACGAGTGTA 59.901 55.000 0.00 0.00 35.09 2.90
3499 4046 3.495377 GCGATGAGACGAGTGTAGAGTAT 59.505 47.826 0.00 0.00 35.09 2.12
3500 4047 4.376615 GCGATGAGACGAGTGTAGAGTATC 60.377 50.000 0.00 0.00 35.09 2.24
3502 4049 5.407084 CGATGAGACGAGTGTAGAGTATCAT 59.593 44.000 4.87 4.87 45.72 2.45
3505 4052 7.659652 TGAGACGAGTGTAGAGTATCATATG 57.340 40.000 0.00 0.00 37.82 1.78
3526 4073 9.239551 CATATGTGTAAATCATTCTGGGATGAT 57.760 33.333 0.00 0.00 46.06 2.45
3538 4085 3.129109 CTGGGATGATGATGAACTGTCG 58.871 50.000 0.00 0.00 0.00 4.35
3581 4128 2.124860 GCGTCCCTTTGGCCGTAT 60.125 61.111 0.00 0.00 0.00 3.06
3602 4149 0.606401 CCGTGCTTTGGGATGTCTGT 60.606 55.000 0.00 0.00 0.00 3.41
3605 4152 0.770499 TGCTTTGGGATGTCTGTCCA 59.230 50.000 0.00 0.00 40.17 4.02
3608 4155 2.027192 GCTTTGGGATGTCTGTCCAGTA 60.027 50.000 0.00 0.00 40.17 2.74
3695 4254 1.827399 GAAACGAGGGAGGCTCACCA 61.827 60.000 14.41 0.00 39.06 4.17
3696 4255 2.113243 AAACGAGGGAGGCTCACCAC 62.113 60.000 14.41 10.82 39.06 4.16
3697 4256 3.775654 CGAGGGAGGCTCACCACC 61.776 72.222 14.41 6.26 45.53 4.61
3715 4277 1.670406 CACCAGACTGGACTGCTGC 60.670 63.158 28.56 0.00 40.96 5.25
3738 4300 5.106396 GCAGAATAATGAAGTTGTCACTGCT 60.106 40.000 0.00 0.00 39.72 4.24
3787 4354 5.819991 AGAATGGCTTGATTGGACTCTTTA 58.180 37.500 0.00 0.00 0.00 1.85
3826 4393 5.225949 GTCGTACGTGTGCTACTGTTATTAC 59.774 44.000 16.05 0.00 0.00 1.89
3827 4394 4.496895 CGTACGTGTGCTACTGTTATTACC 59.503 45.833 7.22 0.00 0.00 2.85
3828 4395 4.524316 ACGTGTGCTACTGTTATTACCA 57.476 40.909 0.00 0.00 0.00 3.25
3880 4455 7.693952 TCGAGCTGTTTTATTTATGTGGATTC 58.306 34.615 0.00 0.00 0.00 2.52
3888 4463 9.435688 GTTTTATTTATGTGGATTCCTTGCTTT 57.564 29.630 3.95 0.00 0.00 3.51
3908 4483 4.668576 TTTGTTGCTCTATGCTTCTTCG 57.331 40.909 0.00 0.00 43.37 3.79
3933 4508 7.413438 CGAGATAAGGATTTGGTTTGTCTCAAG 60.413 40.741 9.70 0.00 38.32 3.02
3952 4528 4.216902 TCAAGCAAGATGGTCAACTGATTG 59.783 41.667 0.00 0.00 37.14 2.67
3960 4536 7.096884 AGATGGTCAACTGATTGATTGATTG 57.903 36.000 0.00 0.00 46.43 2.67
3962 4538 6.258230 TGGTCAACTGATTGATTGATTGAC 57.742 37.500 6.41 6.41 46.43 3.18
3998 4574 5.095490 CACAAGTCTTTTGTTGTTGTCTCC 58.905 41.667 0.00 0.00 34.62 3.71
4070 4685 4.586001 GTGGGGTTCATATGATTCAGCATT 59.414 41.667 6.17 0.00 0.00 3.56
4071 4686 4.828939 TGGGGTTCATATGATTCAGCATTC 59.171 41.667 6.17 0.00 0.00 2.67
4072 4687 4.828939 GGGGTTCATATGATTCAGCATTCA 59.171 41.667 6.17 0.00 0.00 2.57
4073 4688 5.278660 GGGGTTCATATGATTCAGCATTCAC 60.279 44.000 6.17 0.00 0.00 3.18
4074 4689 5.300034 GGGTTCATATGATTCAGCATTCACA 59.700 40.000 6.17 0.00 0.00 3.58
4075 4690 6.204359 GGTTCATATGATTCAGCATTCACAC 58.796 40.000 6.17 0.00 0.00 3.82
4076 4691 6.183360 GGTTCATATGATTCAGCATTCACACA 60.183 38.462 6.17 0.00 0.00 3.72
4080 4695 9.122779 TCATATGATTCAGCATTCACACATTTA 57.877 29.630 0.00 0.00 0.00 1.40
4084 4699 9.661563 ATGATTCAGCATTCACACATTTATTTT 57.338 25.926 0.00 0.00 0.00 1.82
4085 4700 9.142515 TGATTCAGCATTCACACATTTATTTTC 57.857 29.630 0.00 0.00 0.00 2.29
4086 4701 7.887996 TTCAGCATTCACACATTTATTTTCC 57.112 32.000 0.00 0.00 0.00 3.13
4087 4702 7.230849 TCAGCATTCACACATTTATTTTCCT 57.769 32.000 0.00 0.00 0.00 3.36
4088 4703 7.669427 TCAGCATTCACACATTTATTTTCCTT 58.331 30.769 0.00 0.00 0.00 3.36
4089 4704 8.149647 TCAGCATTCACACATTTATTTTCCTTT 58.850 29.630 0.00 0.00 0.00 3.11
4090 4705 9.421806 CAGCATTCACACATTTATTTTCCTTTA 57.578 29.630 0.00 0.00 0.00 1.85
4108 4723 8.873215 TTCCTTTATATAGTTTTCTCTGCTCG 57.127 34.615 0.00 0.00 0.00 5.03
4163 4778 6.720112 ATCTATTCCCATGTCACCAAAATG 57.280 37.500 0.00 0.00 0.00 2.32
4211 4827 8.738645 AAACTTTGAGTACACAAAAGAGAGAT 57.261 30.769 17.38 0.49 38.90 2.75
4220 4836 6.207691 ACACAAAAGAGAGATAGAGAGAGC 57.792 41.667 0.00 0.00 0.00 4.09
4226 4842 4.899502 AGAGAGATAGAGAGAGCTACTGC 58.100 47.826 0.00 0.00 40.05 4.40
4229 4845 4.821805 AGAGATAGAGAGAGCTACTGCAAC 59.178 45.833 0.00 0.00 42.74 4.17
4231 4847 4.952957 AGATAGAGAGAGCTACTGCAACAA 59.047 41.667 0.00 0.00 42.74 2.83
4240 5036 5.709164 AGAGCTACTGCAACAATTTCAGAAT 59.291 36.000 0.00 0.00 42.74 2.40
4278 5074 1.303799 CGCAGAGCAGGCACTCAATT 61.304 55.000 9.79 0.00 39.26 2.32
4301 5097 2.729479 CCAGGCAGCATCCGAGTCT 61.729 63.158 0.00 0.00 0.00 3.24
4322 5118 0.032615 AGGCGAGTCATCCCTCTCTT 60.033 55.000 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 97 2.363018 CAGGCTCCTGGGACTCGA 60.363 66.667 8.03 0.00 40.17 4.04
128 144 4.286320 CTCGGGGATCGGCGGAAG 62.286 72.222 7.21 0.00 39.77 3.46
214 230 2.230266 GTCGTCAAGCCTCTTCTTCTCT 59.770 50.000 0.00 0.00 0.00 3.10
229 245 2.282958 AGGGCCTTCTCGTCGTCA 60.283 61.111 0.00 0.00 0.00 4.35
290 306 0.827925 TGTGGTGAGGCTCTCTCGTT 60.828 55.000 16.72 0.00 45.32 3.85
293 309 1.188219 TGGTGTGGTGAGGCTCTCTC 61.188 60.000 16.72 9.35 42.74 3.20
294 310 1.152247 TGGTGTGGTGAGGCTCTCT 60.152 57.895 16.72 0.00 0.00 3.10
297 313 2.032681 GGTGGTGTGGTGAGGCTC 59.967 66.667 7.79 7.79 0.00 4.70
298 314 2.772191 TGGTGGTGTGGTGAGGCT 60.772 61.111 0.00 0.00 0.00 4.58
299 315 2.594592 GTGGTGGTGTGGTGAGGC 60.595 66.667 0.00 0.00 0.00 4.70
300 316 2.113139 GGTGGTGGTGTGGTGAGG 59.887 66.667 0.00 0.00 0.00 3.86
301 317 1.227943 CTGGTGGTGGTGTGGTGAG 60.228 63.158 0.00 0.00 0.00 3.51
302 318 1.690985 TCTGGTGGTGGTGTGGTGA 60.691 57.895 0.00 0.00 0.00 4.02
303 319 1.525995 GTCTGGTGGTGGTGTGGTG 60.526 63.158 0.00 0.00 0.00 4.17
305 321 1.227943 CAGTCTGGTGGTGGTGTGG 60.228 63.158 0.00 0.00 0.00 4.17
306 322 1.227943 CCAGTCTGGTGGTGGTGTG 60.228 63.158 11.09 0.00 31.35 3.82
307 323 1.383943 TCCAGTCTGGTGGTGGTGT 60.384 57.895 18.65 0.00 39.03 4.16
308 324 1.071471 GTCCAGTCTGGTGGTGGTG 59.929 63.158 18.65 0.00 39.03 4.17
309 325 1.074471 AGTCCAGTCTGGTGGTGGT 60.074 57.895 18.65 0.00 39.03 4.16
310 326 1.372683 CAGTCCAGTCTGGTGGTGG 59.627 63.158 18.65 2.11 39.03 4.61
321 346 0.954449 CCAACAGCAGAGCAGTCCAG 60.954 60.000 0.00 0.00 0.00 3.86
324 349 1.818642 ATTCCAACAGCAGAGCAGTC 58.181 50.000 0.00 0.00 0.00 3.51
325 350 3.423539 TTATTCCAACAGCAGAGCAGT 57.576 42.857 0.00 0.00 0.00 4.40
327 352 5.163622 GCTTAATTATTCCAACAGCAGAGCA 60.164 40.000 0.00 0.00 0.00 4.26
328 353 5.067023 AGCTTAATTATTCCAACAGCAGAGC 59.933 40.000 5.99 0.00 0.00 4.09
329 354 6.459298 CCAGCTTAATTATTCCAACAGCAGAG 60.459 42.308 5.99 0.00 0.00 3.35
330 355 5.357878 CCAGCTTAATTATTCCAACAGCAGA 59.642 40.000 5.99 0.00 0.00 4.26
331 356 5.585390 CCAGCTTAATTATTCCAACAGCAG 58.415 41.667 5.99 0.00 0.00 4.24
339 364 3.969899 GCAGTGCCAGCTTAATTATTCC 58.030 45.455 2.85 0.00 0.00 3.01
354 379 1.180029 AACCATCAATCAGGCAGTGC 58.820 50.000 6.55 6.55 0.00 4.40
355 380 2.821378 TCAAACCATCAATCAGGCAGTG 59.179 45.455 0.00 0.00 0.00 3.66
356 381 3.159213 TCAAACCATCAATCAGGCAGT 57.841 42.857 0.00 0.00 0.00 4.40
357 382 4.430007 CAATCAAACCATCAATCAGGCAG 58.570 43.478 0.00 0.00 0.00 4.85
358 383 3.196039 CCAATCAAACCATCAATCAGGCA 59.804 43.478 0.00 0.00 0.00 4.75
359 384 3.448301 TCCAATCAAACCATCAATCAGGC 59.552 43.478 0.00 0.00 0.00 4.85
360 385 5.864418 ATCCAATCAAACCATCAATCAGG 57.136 39.130 0.00 0.00 0.00 3.86
362 387 8.365060 ACTAAATCCAATCAAACCATCAATCA 57.635 30.769 0.00 0.00 0.00 2.57
366 391 8.877864 ACTAACTAAATCCAATCAAACCATCA 57.122 30.769 0.00 0.00 0.00 3.07
367 392 9.573133 CAACTAACTAAATCCAATCAAACCATC 57.427 33.333 0.00 0.00 0.00 3.51
376 420 8.450964 CGACACAATCAACTAACTAAATCCAAT 58.549 33.333 0.00 0.00 0.00 3.16
432 479 4.080863 CTTGGCATCAAACTAGGAGTACCT 60.081 45.833 0.00 0.00 40.09 3.08
433 480 3.906720 TGGCATCAAACTAGGAGTACC 57.093 47.619 0.00 0.00 0.00 3.34
434 481 5.086104 TCTTGGCATCAAACTAGGAGTAC 57.914 43.478 0.00 0.00 31.77 2.73
435 482 4.162320 CCTCTTGGCATCAAACTAGGAGTA 59.838 45.833 0.00 0.00 33.01 2.59
436 483 3.054802 CCTCTTGGCATCAAACTAGGAGT 60.055 47.826 0.00 0.00 33.01 3.85
437 484 3.539604 CCTCTTGGCATCAAACTAGGAG 58.460 50.000 0.00 0.00 33.01 3.69
438 485 3.634397 CCTCTTGGCATCAAACTAGGA 57.366 47.619 0.00 0.00 33.01 2.94
453 500 1.382420 AGCTCGAGATGGGCCTCTT 60.382 57.895 18.75 0.00 0.00 2.85
493 545 1.002033 CAAGCAACAAGACCAGTCTGC 60.002 52.381 0.05 1.47 40.36 4.26
497 549 2.128771 ACACAAGCAACAAGACCAGT 57.871 45.000 0.00 0.00 0.00 4.00
545 598 5.277974 CCACAGAAAACAATGAGTTCGACAT 60.278 40.000 0.00 0.00 40.26 3.06
546 599 4.035091 CCACAGAAAACAATGAGTTCGACA 59.965 41.667 0.00 0.00 40.26 4.35
547 600 4.272504 TCCACAGAAAACAATGAGTTCGAC 59.727 41.667 0.00 0.00 40.26 4.20
555 625 4.852134 TCCACATCCACAGAAAACAATG 57.148 40.909 0.00 0.00 0.00 2.82
588 680 8.147704 AGAAGACAGAAGAGAGAAAAGTAAAGG 58.852 37.037 0.00 0.00 0.00 3.11
617 751 0.682292 TGGCCGACACATCACTGTAA 59.318 50.000 0.00 0.00 33.14 2.41
618 752 0.682292 TTGGCCGACACATCACTGTA 59.318 50.000 0.00 0.00 33.14 2.74
619 753 0.603707 CTTGGCCGACACATCACTGT 60.604 55.000 0.00 0.00 35.44 3.55
622 756 2.690778 GGCTTGGCCGACACATCAC 61.691 63.158 0.00 0.00 39.62 3.06
636 770 4.579869 CTGGCGTGGAAATATATAGGCTT 58.420 43.478 0.00 0.00 0.00 4.35
652 786 6.402011 GCATTGTATTTTAATTTTGCTGGCGT 60.402 34.615 0.00 0.00 0.00 5.68
653 787 5.958949 GCATTGTATTTTAATTTTGCTGGCG 59.041 36.000 0.00 0.00 0.00 5.69
698 832 5.230726 CAGCTGCAGTTTCTTAGTTTTTGTG 59.769 40.000 16.64 0.00 0.00 3.33
801 935 2.135933 GTTGCTGTCACAGACCTACAC 58.864 52.381 9.70 0.00 32.44 2.90
866 1006 1.209504 GGCTATCTGTAACCACCAGCA 59.790 52.381 0.00 0.00 0.00 4.41
910 1051 2.021068 GCAGCCGAGCTAGTGGATGA 62.021 60.000 18.46 0.00 44.30 2.92
935 1076 5.965033 ATTCTGATCTTGAGCCTTAAGGA 57.035 39.130 26.21 2.96 37.39 3.36
936 1077 5.298777 CCAATTCTGATCTTGAGCCTTAAGG 59.701 44.000 17.81 17.81 38.53 2.69
938 1079 6.065976 TCCAATTCTGATCTTGAGCCTTAA 57.934 37.500 0.00 0.00 0.00 1.85
940 1081 4.525024 CTCCAATTCTGATCTTGAGCCTT 58.475 43.478 0.00 0.00 0.00 4.35
941 1082 3.117963 CCTCCAATTCTGATCTTGAGCCT 60.118 47.826 0.00 0.00 0.00 4.58
942 1083 3.212685 CCTCCAATTCTGATCTTGAGCC 58.787 50.000 0.00 0.00 0.00 4.70
943 1084 3.212685 CCCTCCAATTCTGATCTTGAGC 58.787 50.000 0.00 0.00 0.00 4.26
945 1086 2.848694 AGCCCTCCAATTCTGATCTTGA 59.151 45.455 0.00 0.00 0.00 3.02
1064 1486 9.656040 TTTGATTCATATTGGAGTTTTGAATGG 57.344 29.630 1.53 0.00 37.20 3.16
1098 1520 1.004560 CTCGCCTCCAGCACAAGAA 60.005 57.895 0.00 0.00 44.04 2.52
1100 1522 1.004560 TTCTCGCCTCCAGCACAAG 60.005 57.895 0.00 0.00 44.04 3.16
1174 1598 2.689983 CAAACCTTGCAAGAAGAGTGGT 59.310 45.455 28.05 13.13 0.00 4.16
1225 1649 1.140312 AGGAAGTGTGAAGCAAGGGA 58.860 50.000 0.00 0.00 0.00 4.20
1228 1652 3.699067 CAAACAGGAAGTGTGAAGCAAG 58.301 45.455 0.00 0.00 40.26 4.01
1231 1655 1.678101 AGCAAACAGGAAGTGTGAAGC 59.322 47.619 0.00 0.00 40.26 3.86
1236 1660 3.498397 CGACATTAGCAAACAGGAAGTGT 59.502 43.478 0.00 0.00 43.24 3.55
1334 1766 0.251341 AAGGCGATATGGGAATGGGC 60.251 55.000 0.00 0.00 0.00 5.36
1376 1808 5.869344 GGCATTTTGTGGAATTAGAAAGGTC 59.131 40.000 0.00 0.00 0.00 3.85
1435 1868 3.610040 ATCGATGTAACAGGACTGCAA 57.390 42.857 0.00 0.00 0.00 4.08
1476 1909 2.153645 CCTTGTCTGCATTGTACAGCA 58.846 47.619 9.22 9.22 39.25 4.41
1510 1943 9.705290 AATGAACCAACAATAAATAAACCTGTC 57.295 29.630 0.00 0.00 0.00 3.51
1523 1956 6.670695 AGAAAGGCTTAATGAACCAACAAT 57.329 33.333 0.00 0.00 0.00 2.71
1588 2021 6.655003 TCACCTCTGATGGTTTACAGAAAATC 59.345 38.462 0.00 0.00 41.58 2.17
1594 2027 4.932200 GTCTTCACCTCTGATGGTTTACAG 59.068 45.833 0.00 0.00 38.45 2.74
1595 2028 4.346709 TGTCTTCACCTCTGATGGTTTACA 59.653 41.667 0.00 0.00 38.45 2.41
1596 2029 4.894784 TGTCTTCACCTCTGATGGTTTAC 58.105 43.478 0.00 0.00 38.45 2.01
1597 2030 5.560722 TTGTCTTCACCTCTGATGGTTTA 57.439 39.130 0.00 0.00 38.45 2.01
1598 2031 4.437682 TTGTCTTCACCTCTGATGGTTT 57.562 40.909 0.00 0.00 38.45 3.27
1601 2034 4.013267 ACTTTGTCTTCACCTCTGATGG 57.987 45.455 0.00 0.00 0.00 3.51
1602 2035 5.059161 TCAACTTTGTCTTCACCTCTGATG 58.941 41.667 0.00 0.00 0.00 3.07
1603 2036 5.296151 TCAACTTTGTCTTCACCTCTGAT 57.704 39.130 0.00 0.00 0.00 2.90
1604 2037 4.753516 TCAACTTTGTCTTCACCTCTGA 57.246 40.909 0.00 0.00 0.00 3.27
1951 2394 7.872993 TGGAATTCCAAATGTGCGTTTAAAATA 59.127 29.630 25.13 0.00 44.35 1.40
1952 2395 6.708054 TGGAATTCCAAATGTGCGTTTAAAAT 59.292 30.769 25.13 0.00 44.35 1.82
2247 2743 0.103937 ACCACCAATTTGCAACGGTG 59.896 50.000 25.04 25.04 46.93 4.94
2297 2793 1.740025 CTGTCCTTTCTTGGAATCGGC 59.260 52.381 0.00 0.00 37.93 5.54
2298 2794 2.359900 CCTGTCCTTTCTTGGAATCGG 58.640 52.381 0.00 0.00 37.93 4.18
2463 2975 2.578495 CATGCAAACTTGAGAAGTCGC 58.422 47.619 0.00 0.00 41.91 5.19
2556 3068 2.495084 GGTTGGTGGAAGTCTCTGAAC 58.505 52.381 0.00 0.00 0.00 3.18
2731 3243 3.071206 TGCCTGGAGCTCCGTCTC 61.071 66.667 27.43 16.18 44.23 3.36
2765 3277 0.251916 TTCTCCGGGCGAATCATGTT 59.748 50.000 0.00 0.00 0.00 2.71
2928 3440 0.451135 GTGCTCGACGTCAACAATGC 60.451 55.000 17.16 9.92 0.00 3.56
2955 3467 0.679505 CTGTCCCAAGTTCTCCACGA 59.320 55.000 0.00 0.00 0.00 4.35
2956 3468 0.320771 CCTGTCCCAAGTTCTCCACG 60.321 60.000 0.00 0.00 0.00 4.94
2957 3469 0.765510 ACCTGTCCCAAGTTCTCCAC 59.234 55.000 0.00 0.00 0.00 4.02
2983 3517 5.420409 AGCTAAGTATCACACCAGTTTAGC 58.580 41.667 5.46 5.46 40.89 3.09
3002 3536 2.016318 GCACCAACATGCATGTAGCTA 58.984 47.619 31.55 0.00 45.39 3.32
3027 3564 2.154462 GCAAGGAGAAGCTACAAGCAA 58.846 47.619 1.22 0.00 45.56 3.91
3072 3609 2.497138 CTGCTCCACAAGTTCATGACA 58.503 47.619 0.00 0.00 0.00 3.58
3130 3667 4.047125 ACCCATTCAGCACCGGGG 62.047 66.667 6.32 0.84 43.52 5.73
3171 3712 5.021033 AGGAGAGATCAATGCAGTAAGTG 57.979 43.478 0.00 0.00 0.00 3.16
3199 3740 0.036765 ATAAACGAGCCTTGGCGACA 60.037 50.000 5.95 0.00 39.83 4.35
3201 3742 1.083489 CAATAAACGAGCCTTGGCGA 58.917 50.000 5.95 0.00 0.00 5.54
3202 3743 1.062587 CTCAATAAACGAGCCTTGGCG 59.937 52.381 5.95 0.00 0.00 5.69
3206 3747 5.642491 GGTAAACTCTCAATAAACGAGCCTT 59.358 40.000 0.00 0.00 0.00 4.35
3353 3895 6.086502 CGCAGCTTCTGATACGTATTAGTTAC 59.913 42.308 22.39 14.36 32.44 2.50
3361 3908 1.065102 GGTCGCAGCTTCTGATACGTA 59.935 52.381 0.00 0.00 32.44 3.57
3362 3909 0.179134 GGTCGCAGCTTCTGATACGT 60.179 55.000 0.00 0.00 32.44 3.57
3363 3910 1.202973 CGGTCGCAGCTTCTGATACG 61.203 60.000 0.00 0.00 32.44 3.06
3364 3911 0.100682 TCGGTCGCAGCTTCTGATAC 59.899 55.000 0.00 0.00 32.44 2.24
3418 3965 1.269883 TGAAGCAACAGCAAGCCATTG 60.270 47.619 2.47 2.47 39.57 2.82
3419 3966 1.042229 TGAAGCAACAGCAAGCCATT 58.958 45.000 0.00 0.00 0.00 3.16
3421 3968 1.541147 GTATGAAGCAACAGCAAGCCA 59.459 47.619 0.00 0.00 0.00 4.75
3423 3970 2.159462 GGAGTATGAAGCAACAGCAAGC 60.159 50.000 0.00 0.00 0.00 4.01
3475 4022 1.666189 TCTACACTCGTCTCATCGCAG 59.334 52.381 0.00 0.00 0.00 5.18
3483 4030 6.993308 ACACATATGATACTCTACACTCGTCT 59.007 38.462 10.38 0.00 0.00 4.18
3499 4046 8.439172 TCATCCCAGAATGATTTACACATATGA 58.561 33.333 10.38 0.00 39.69 2.15
3500 4047 8.625786 TCATCCCAGAATGATTTACACATATG 57.374 34.615 0.00 0.00 39.69 1.78
3502 4049 8.439172 TCATCATCCCAGAATGATTTACACATA 58.561 33.333 0.00 0.00 42.40 2.29
3505 4052 7.446319 TCATCATCATCCCAGAATGATTTACAC 59.554 37.037 0.00 0.00 42.40 2.90
3516 4063 3.181472 CGACAGTTCATCATCATCCCAGA 60.181 47.826 0.00 0.00 0.00 3.86
3538 4085 4.468689 AAGGCCGCGCTAGAACCC 62.469 66.667 5.56 0.00 0.00 4.11
3581 4128 1.971167 GACATCCCAAAGCACGGCA 60.971 57.895 0.00 0.00 0.00 5.69
3585 4132 1.168714 GGACAGACATCCCAAAGCAC 58.831 55.000 0.00 0.00 31.94 4.40
3605 4152 3.821033 GCTGACCACAAAGTCCAAATACT 59.179 43.478 0.00 0.00 35.83 2.12
3608 4155 1.963515 GGCTGACCACAAAGTCCAAAT 59.036 47.619 0.00 0.00 35.83 2.32
3695 4254 1.460305 AGCAGTCCAGTCTGGTGGT 60.460 57.895 18.65 12.93 43.20 4.16
3696 4255 3.476386 AGCAGTCCAGTCTGGTGG 58.524 61.111 18.65 10.22 43.20 4.61
3715 4277 6.492007 AGCAGTGACAACTTCATTATTCTG 57.508 37.500 0.00 0.00 36.32 3.02
3738 4300 3.265221 AGCAGAGAGGAACCATCAATCAA 59.735 43.478 0.00 0.00 0.00 2.57
3826 4393 6.459923 GGCCTCTCACTAACTTATAAGATGG 58.540 44.000 19.38 11.66 0.00 3.51
3827 4394 6.042093 TGGGCCTCTCACTAACTTATAAGATG 59.958 42.308 19.38 10.92 0.00 2.90
3828 4395 6.143915 TGGGCCTCTCACTAACTTATAAGAT 58.856 40.000 19.38 9.95 0.00 2.40
3880 4455 3.248266 GCATAGAGCAACAAAAGCAAGG 58.752 45.455 0.00 0.00 44.79 3.61
3908 4483 7.627300 GCTTGAGACAAACCAAATCCTTATCTC 60.627 40.741 0.00 0.00 0.00 2.75
3933 4508 4.978083 ATCAATCAGTTGACCATCTTGC 57.022 40.909 0.00 0.00 46.43 4.01
3960 4536 4.993584 AGACTTGTGACACATGAATGAGTC 59.006 41.667 23.91 22.19 44.94 3.36
3962 4538 5.936686 AAGACTTGTGACACATGAATGAG 57.063 39.130 23.91 13.36 0.00 2.90
4083 4698 7.926555 CCGAGCAGAGAAAACTATATAAAGGAA 59.073 37.037 0.00 0.00 0.00 3.36
4084 4699 7.069578 ACCGAGCAGAGAAAACTATATAAAGGA 59.930 37.037 0.00 0.00 0.00 3.36
4085 4700 7.169982 CACCGAGCAGAGAAAACTATATAAAGG 59.830 40.741 0.00 0.00 0.00 3.11
4086 4701 7.707035 ACACCGAGCAGAGAAAACTATATAAAG 59.293 37.037 0.00 0.00 0.00 1.85
4087 4702 7.553334 ACACCGAGCAGAGAAAACTATATAAA 58.447 34.615 0.00 0.00 0.00 1.40
4088 4703 7.108841 ACACCGAGCAGAGAAAACTATATAA 57.891 36.000 0.00 0.00 0.00 0.98
4089 4704 6.710597 ACACCGAGCAGAGAAAACTATATA 57.289 37.500 0.00 0.00 0.00 0.86
4090 4705 5.599999 ACACCGAGCAGAGAAAACTATAT 57.400 39.130 0.00 0.00 0.00 0.86
4091 4706 5.185249 AGAACACCGAGCAGAGAAAACTATA 59.815 40.000 0.00 0.00 0.00 1.31
4092 4707 3.963428 ACACCGAGCAGAGAAAACTAT 57.037 42.857 0.00 0.00 0.00 2.12
4105 4720 3.675225 CACATCACTGTAAGAACACCGAG 59.325 47.826 0.00 0.00 37.43 4.63
4108 4723 2.484264 GGCACATCACTGTAAGAACACC 59.516 50.000 0.00 0.00 37.43 4.16
4193 4809 8.500753 TCTCTCTATCTCTCTTTTGTGTACTC 57.499 38.462 0.00 0.00 0.00 2.59
4211 4827 5.667539 AATTGTTGCAGTAGCTCTCTCTA 57.332 39.130 0.00 0.00 42.74 2.43
4220 4836 6.680810 TCCAATTCTGAAATTGTTGCAGTAG 58.319 36.000 9.34 0.00 46.87 2.57
4226 4842 4.020839 AGCCCTCCAATTCTGAAATTGTTG 60.021 41.667 9.34 0.00 46.87 3.33
4231 4847 4.021916 CTGAAGCCCTCCAATTCTGAAAT 58.978 43.478 0.00 0.00 0.00 2.17
4240 5036 1.228245 GTGCACTGAAGCCCTCCAA 60.228 57.895 10.32 0.00 0.00 3.53
4262 5058 2.366533 CATCAATTGAGTGCCTGCTCT 58.633 47.619 14.54 0.00 36.51 4.09
4301 5097 0.753479 GAGAGGGATGACTCGCCTGA 60.753 60.000 0.00 0.00 42.31 3.86


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

AutoCloner maintained by Alex Coulton.