Multiple sequence alignment - TraesCS7B01G118900

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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 TraesCS7B01G118900 chr7B 100.000 6361 0 0 1 6361 138259431 138253071 0.000000e+00 11747
1 TraesCS7B01G118900 chr7D 93.163 3554 126 52 3 3520 172264415 172260943 0.000000e+00 5108
2 TraesCS7B01G118900 chr7D 92.640 2242 111 33 3518 5732 172258712 172256498 0.000000e+00 3177
3 TraesCS7B01G118900 chr7D 91.172 623 42 5 5743 6361 172256435 172255822 0.000000e+00 833
4 TraesCS7B01G118900 chr7A 87.817 3275 219 77 329 3504 174921784 174918591 0.000000e+00 3672
5 TraesCS7B01G118900 chr7A 92.738 2272 124 26 3473 5733 174918594 174916353 0.000000e+00 3243
6 TraesCS7B01G118900 chr7A 88.836 627 47 8 5741 6361 174916293 174915684 0.000000e+00 749
7 TraesCS7B01G118900 chr7A 87.629 291 15 12 6 282 174922147 174921864 1.030000e-82 318


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 TraesCS7B01G118900 chr7B 138253071 138259431 6360 True 11747.000000 11747 100.000 1 6361 1 chr7B.!!$R1 6360
1 TraesCS7B01G118900 chr7D 172255822 172264415 8593 True 3039.333333 5108 92.325 3 6361 3 chr7D.!!$R1 6358
2 TraesCS7B01G118900 chr7A 174915684 174922147 6463 True 1995.500000 3672 89.255 6 6361 4 chr7A.!!$R1 6355

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
484 535 0.034574 TGGCATATGTGGTGGTGTCC 60.035 55.000 4.29 0.0 0.00 4.02 F
571 636 0.179121 CCACGGCGCACTATCTACAA 60.179 55.000 10.83 0.0 0.00 2.41 F
2503 2661 0.302589 GCCCGGTTACGAAAATAGCG 59.697 55.000 0.00 0.0 44.60 4.26 F
2596 2754 1.358877 CAACACGGATCAGAATCGCA 58.641 50.000 0.00 0.0 32.24 5.10 F
3755 6190 1.554617 TCGGAAGATGTGCAGATGGAA 59.445 47.619 0.00 0.0 33.31 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2389 2547 0.452987 TTTCGGTAGTCACGGGATCG 59.547 55.000 0.00 0.0 43.02 3.69 R
2596 2754 1.169577 CCAGTGAGAGAGCAGTACGT 58.830 55.000 0.00 0.0 0.00 3.57 R
3767 6202 1.030488 TCTGGACTAGTTCGCCGAGG 61.030 60.000 0.00 0.0 0.00 4.63 R
3980 6415 1.271762 CCCATGGGCTCATCATCGATT 60.272 52.381 20.41 0.0 0.00 3.34 R
5647 8099 1.238439 AATGAGTCCCGCAACTTGTG 58.762 50.000 0.00 0.0 0.00 3.33 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
22 23 1.640428 TCACTTAATGAGCTTCGCCG 58.360 50.000 0.00 0.00 31.91 6.46
56 57 1.466167 GATTCGGGGATCATCAATGCG 59.534 52.381 0.00 0.00 0.00 4.73
59 60 1.529010 GGGGATCATCAATGCGGCA 60.529 57.895 4.58 4.58 0.00 5.69
99 105 1.221840 GAGGCAAATGGAGCGGAGA 59.778 57.895 0.00 0.00 0.00 3.71
154 160 0.533755 CTCATGAATCAGGGCGGTCC 60.534 60.000 0.00 0.00 0.00 4.46
167 174 0.598065 GCGGTCCACAGCTCAAAAAT 59.402 50.000 0.00 0.00 34.22 1.82
170 177 1.615392 GGTCCACAGCTCAAAAATGCT 59.385 47.619 0.00 0.00 40.54 3.79
207 214 1.856265 CGCCTGCACTTTCCTTCACC 61.856 60.000 0.00 0.00 0.00 4.02
208 215 0.823356 GCCTGCACTTTCCTTCACCA 60.823 55.000 0.00 0.00 0.00 4.17
210 217 0.954452 CTGCACTTTCCTTCACCACC 59.046 55.000 0.00 0.00 0.00 4.61
211 218 0.257328 TGCACTTTCCTTCACCACCA 59.743 50.000 0.00 0.00 0.00 4.17
212 219 1.133513 TGCACTTTCCTTCACCACCAT 60.134 47.619 0.00 0.00 0.00 3.55
214 221 2.862541 CACTTTCCTTCACCACCATCA 58.137 47.619 0.00 0.00 0.00 3.07
215 222 3.424703 CACTTTCCTTCACCACCATCAT 58.575 45.455 0.00 0.00 0.00 2.45
216 223 3.828451 CACTTTCCTTCACCACCATCATT 59.172 43.478 0.00 0.00 0.00 2.57
217 224 4.281688 CACTTTCCTTCACCACCATCATTT 59.718 41.667 0.00 0.00 0.00 2.32
220 227 4.111255 TCCTTCACCACCATCATTTGAA 57.889 40.909 0.00 0.00 0.00 2.69
221 228 4.478203 TCCTTCACCACCATCATTTGAAA 58.522 39.130 0.00 0.00 0.00 2.69
223 230 6.252233 TCCTTCACCACCATCATTTGAAATA 58.748 36.000 0.00 0.00 0.00 1.40
224 231 6.377996 TCCTTCACCACCATCATTTGAAATAG 59.622 38.462 0.00 0.00 0.00 1.73
241 257 7.027874 TGAAATAGGGGTAATTCTGTGAACT 57.972 36.000 0.00 0.00 0.00 3.01
247 263 4.390909 GGGGTAATTCTGTGAACTTACGTG 59.609 45.833 0.00 0.00 0.00 4.49
254 270 5.013568 TCTGTGAACTTACGTGGAAAAGA 57.986 39.130 0.00 0.00 0.00 2.52
273 289 5.717038 AAGAAAAACATGCAAAGTTTCCG 57.283 34.783 17.56 0.00 38.17 4.30
278 294 3.626028 ACATGCAAAGTTTCCGAGAAC 57.374 42.857 0.00 0.00 0.00 3.01
282 298 2.223479 TGCAAAGTTTCCGAGAACTTGC 60.223 45.455 14.18 16.96 46.23 4.01
285 301 0.250770 AGTTTCCGAGAACTTGCCCC 60.251 55.000 0.00 0.00 36.49 5.80
296 312 1.303236 CTTGCCCCGTTCATCACCA 60.303 57.895 0.00 0.00 0.00 4.17
301 317 1.275010 GCCCCGTTCATCACCAAAATT 59.725 47.619 0.00 0.00 0.00 1.82
308 324 1.543802 TCATCACCAAAATTGACCGCC 59.456 47.619 0.00 0.00 0.00 6.13
311 327 0.662970 CACCAAAATTGACCGCCGTG 60.663 55.000 0.00 0.00 0.00 4.94
323 339 2.895372 GCCGTGCTGGGGTTATCG 60.895 66.667 0.00 0.00 38.63 2.92
324 340 2.897207 CCGTGCTGGGGTTATCGA 59.103 61.111 0.00 0.00 0.00 3.59
325 341 1.445942 CCGTGCTGGGGTTATCGAT 59.554 57.895 2.16 2.16 0.00 3.59
326 342 0.600255 CCGTGCTGGGGTTATCGATC 60.600 60.000 0.00 0.00 0.00 3.69
327 343 0.939577 CGTGCTGGGGTTATCGATCG 60.940 60.000 9.36 9.36 0.00 3.69
337 353 2.096218 GGTTATCGATCGATTTGCAGGC 60.096 50.000 33.46 15.82 36.17 4.85
344 360 1.097232 TCGATTTGCAGGCCATCTTG 58.903 50.000 5.01 0.00 0.00 3.02
345 361 0.526954 CGATTTGCAGGCCATCTTGC 60.527 55.000 5.01 6.64 0.00 4.01
362 409 2.626780 GCCTTGCCTGACCGAAACC 61.627 63.158 0.00 0.00 0.00 3.27
377 424 3.252215 CCGAAACCTCAGTGCAATTAACA 59.748 43.478 0.00 0.00 0.00 2.41
413 460 1.492319 CGCCGTGGACAAAGAACGAA 61.492 55.000 0.00 0.00 39.64 3.85
419 466 0.384353 GGACAAAGAACGAACGCAGC 60.384 55.000 0.00 0.00 0.00 5.25
430 477 4.724602 ACGCAGCGCAGTCGACAT 62.725 61.111 19.50 0.00 38.10 3.06
431 478 4.200851 CGCAGCGCAGTCGACATG 62.201 66.667 19.50 13.76 38.10 3.21
432 479 4.511443 GCAGCGCAGTCGACATGC 62.511 66.667 19.50 21.22 40.35 4.06
433 480 3.857854 CAGCGCAGTCGACATGCC 61.858 66.667 24.53 19.17 40.67 4.40
434 481 4.377708 AGCGCAGTCGACATGCCA 62.378 61.111 24.53 0.00 40.67 4.92
435 482 3.197790 GCGCAGTCGACATGCCAT 61.198 61.111 24.53 1.25 40.67 4.40
459 510 1.282875 GCCTGCGTGGACAGAAAAC 59.717 57.895 0.00 0.00 40.25 2.43
483 534 1.094785 GTGGCATATGTGGTGGTGTC 58.905 55.000 4.29 0.00 0.00 3.67
484 535 0.034574 TGGCATATGTGGTGGTGTCC 60.035 55.000 4.29 0.00 0.00 4.02
485 536 1.095228 GGCATATGTGGTGGTGTCCG 61.095 60.000 4.29 0.00 0.00 4.79
486 537 0.392461 GCATATGTGGTGGTGTCCGT 60.392 55.000 4.29 0.00 0.00 4.69
488 539 1.737236 CATATGTGGTGGTGTCCGTTG 59.263 52.381 0.00 0.00 0.00 4.10
564 629 4.752879 GCTTCCCACGGCGCACTA 62.753 66.667 10.83 0.00 0.00 2.74
565 630 2.186903 CTTCCCACGGCGCACTAT 59.813 61.111 10.83 0.00 0.00 2.12
567 632 2.298158 CTTCCCACGGCGCACTATCT 62.298 60.000 10.83 0.00 0.00 1.98
571 636 0.179121 CCACGGCGCACTATCTACAA 60.179 55.000 10.83 0.00 0.00 2.41
573 638 2.201732 CACGGCGCACTATCTACAAAT 58.798 47.619 10.83 0.00 0.00 2.32
575 640 3.987868 CACGGCGCACTATCTACAAATAT 59.012 43.478 10.83 0.00 0.00 1.28
576 641 3.987868 ACGGCGCACTATCTACAAATATG 59.012 43.478 10.83 0.00 0.00 1.78
577 642 4.234574 CGGCGCACTATCTACAAATATGA 58.765 43.478 10.83 0.00 0.00 2.15
579 644 5.388475 CGGCGCACTATCTACAAATATGAAC 60.388 44.000 10.83 0.00 0.00 3.18
581 646 6.018262 GGCGCACTATCTACAAATATGAACAA 60.018 38.462 10.83 0.00 0.00 2.83
582 647 7.307989 GGCGCACTATCTACAAATATGAACAAT 60.308 37.037 10.83 0.00 0.00 2.71
614 685 0.958876 CAGGGGCACTACCGGAAAAC 60.959 60.000 9.46 0.00 40.62 2.43
663 747 2.123982 CCAATCCAGGGAGCCAGC 60.124 66.667 0.00 0.00 0.00 4.85
665 749 2.614969 AATCCAGGGAGCCAGCCA 60.615 61.111 0.00 0.00 0.00 4.75
666 750 2.687610 AATCCAGGGAGCCAGCCAG 61.688 63.158 0.00 0.00 0.00 4.85
685 769 0.681243 GGCCAGGGAGGTTGCTTTAG 60.681 60.000 0.00 0.00 40.61 1.85
686 770 0.328258 GCCAGGGAGGTTGCTTTAGA 59.672 55.000 0.00 0.00 40.61 2.10
687 771 1.950954 GCCAGGGAGGTTGCTTTAGAC 60.951 57.143 0.00 0.00 40.61 2.59
895 984 4.354987 AGGAGGAGAGAGATAGAATGCTCT 59.645 45.833 0.00 0.00 43.78 4.09
902 991 0.319040 GATAGAATGCTCTCGCGGCA 60.319 55.000 10.87 10.87 44.05 5.69
922 1011 2.732619 CGGTAGCCACCTTCTCCCC 61.733 68.421 0.00 0.00 43.33 4.81
1142 1248 4.157656 TCCTTCCTGTGTTGTTCTTGTTTG 59.842 41.667 0.00 0.00 0.00 2.93
1209 1334 2.994186 TCATAGGGTTTTAGGCGGTC 57.006 50.000 0.00 0.00 0.00 4.79
1270 1398 0.527565 GCCGTTCCATGTGCTCAAAT 59.472 50.000 0.00 0.00 0.00 2.32
1272 1400 1.541147 CCGTTCCATGTGCTCAAATGT 59.459 47.619 0.00 0.00 0.00 2.71
1273 1401 2.030007 CCGTTCCATGTGCTCAAATGTT 60.030 45.455 0.00 0.00 0.00 2.71
1274 1402 3.190327 CCGTTCCATGTGCTCAAATGTTA 59.810 43.478 0.00 0.00 0.00 2.41
1275 1403 4.142403 CCGTTCCATGTGCTCAAATGTTAT 60.142 41.667 0.00 0.00 0.00 1.89
1276 1404 5.401550 CGTTCCATGTGCTCAAATGTTATT 58.598 37.500 0.00 0.00 0.00 1.40
1307 1438 7.448777 ACTGTTATTTTCTTCTTCTTCCCCTTC 59.551 37.037 0.00 0.00 0.00 3.46
1308 1439 7.294584 TGTTATTTTCTTCTTCTTCCCCTTCA 58.705 34.615 0.00 0.00 0.00 3.02
1310 1441 3.425162 TTCTTCTTCTTCCCCTTCAGC 57.575 47.619 0.00 0.00 0.00 4.26
1312 1443 1.002544 CTTCTTCTTCCCCTTCAGCGT 59.997 52.381 0.00 0.00 0.00 5.07
1318 1449 3.606687 TCTTCCCCTTCAGCGTATTTTC 58.393 45.455 0.00 0.00 0.00 2.29
1319 1450 3.263425 TCTTCCCCTTCAGCGTATTTTCT 59.737 43.478 0.00 0.00 0.00 2.52
1320 1451 4.468510 TCTTCCCCTTCAGCGTATTTTCTA 59.531 41.667 0.00 0.00 0.00 2.10
1322 1453 4.957296 TCCCCTTCAGCGTATTTTCTATC 58.043 43.478 0.00 0.00 0.00 2.08
1341 1478 1.160137 CTTCTTTCAAGGAGTGCCCG 58.840 55.000 0.00 0.00 40.87 6.13
1360 1497 2.125202 GAAAACCAGCGTGTTCCCCG 62.125 60.000 0.00 0.00 30.90 5.73
1440 1587 6.912591 GCGAATTCCAATTCTTATTCGTTCAT 59.087 34.615 18.69 0.00 46.57 2.57
1441 1588 8.067784 GCGAATTCCAATTCTTATTCGTTCATA 58.932 33.333 18.69 0.00 46.57 2.15
1442 1589 9.586150 CGAATTCCAATTCTTATTCGTTCATAG 57.414 33.333 9.75 0.00 42.46 2.23
1572 1721 4.517453 CCCCGTCAACTTCAGATTGTTTTA 59.483 41.667 0.00 0.00 0.00 1.52
1631 1788 1.502231 CTGGTGTGAACTCTCAACCG 58.498 55.000 0.00 0.00 36.39 4.44
1654 1811 1.923356 TTTTCCATGAGAACAGCCCC 58.077 50.000 0.00 0.00 32.95 5.80
1703 1860 0.949105 GGGTGCCTGACGTGTACTTG 60.949 60.000 0.00 0.00 0.00 3.16
1719 1877 6.035650 CGTGTACTTGTTTTTCAGAGAAGTGA 59.964 38.462 0.00 0.00 33.35 3.41
1817 1975 0.756294 TGTCGGCCAAGAGAAGTTCA 59.244 50.000 2.24 0.00 0.00 3.18
1822 1980 2.681976 CGGCCAAGAGAAGTTCATGGAT 60.682 50.000 20.37 0.00 45.51 3.41
2020 2178 1.906574 AGCATAACCGAGGACCTTGAA 59.093 47.619 10.67 0.00 0.00 2.69
2051 2209 1.202348 AGAACATCGGTCATGAGCTCG 60.202 52.381 21.73 13.72 36.21 5.03
2054 2212 3.157217 ATCGGTCATGAGCTCGGCC 62.157 63.158 21.73 5.67 0.00 6.13
2062 2220 3.992317 GAGCTCGGCCGGATACCC 61.992 72.222 27.83 6.36 0.00 3.69
2299 2457 1.080705 GTCTCACGAGTTCGGTGGG 60.081 63.158 6.48 2.63 44.95 4.61
2305 2463 2.432628 GAGTTCGGTGGGCAGTCG 60.433 66.667 0.00 0.00 0.00 4.18
2389 2547 4.396166 CCACTCACAAATAAGGTCATGGTC 59.604 45.833 0.00 0.00 0.00 4.02
2395 2553 3.771577 AATAAGGTCATGGTCGATCCC 57.228 47.619 0.00 0.00 34.77 3.85
2503 2661 0.302589 GCCCGGTTACGAAAATAGCG 59.697 55.000 0.00 0.00 44.60 4.26
2596 2754 1.358877 CAACACGGATCAGAATCGCA 58.641 50.000 0.00 0.00 32.24 5.10
2946 3106 5.530915 TGGTAGAGTCCAGTTTCAATTTGTG 59.469 40.000 0.00 0.00 33.19 3.33
3018 3178 5.413499 CAGGAAATCATAGCAAAAACCAGG 58.587 41.667 0.00 0.00 0.00 4.45
3427 3589 6.729690 AAAATCCAAATTCAGAACTGTGGA 57.270 33.333 11.83 11.83 36.75 4.02
3465 3627 6.389906 ACATTTGCCTTGCAGTAATAAGAAC 58.610 36.000 0.00 0.00 40.61 3.01
3591 6015 4.389077 GCAACAAGTGAGCTAATCGTAAGT 59.611 41.667 0.00 0.00 39.48 2.24
3708 6141 1.804151 GCTCGTGCCAAACATCACTAA 59.196 47.619 0.00 0.00 0.00 2.24
3714 6147 4.665645 CGTGCCAAACATCACTAACTAACG 60.666 45.833 0.00 0.00 0.00 3.18
3755 6190 1.554617 TCGGAAGATGTGCAGATGGAA 59.445 47.619 0.00 0.00 33.31 3.53
3767 6202 2.427095 GCAGATGGAAATGGTGGGTTAC 59.573 50.000 0.00 0.00 0.00 2.50
3776 6211 2.658422 GTGGGTTACCTCGGCGAA 59.342 61.111 12.13 0.00 37.76 4.70
3803 6238 2.092538 CCAGAAGCAGGAGATGACCATT 60.093 50.000 0.00 0.00 0.00 3.16
3980 6415 0.036388 AGGCGCTCTTCATCCGAAAA 60.036 50.000 7.64 0.00 0.00 2.29
4058 6493 2.170166 GTCAAATCTGGCATGAACCCA 58.830 47.619 0.00 0.00 0.00 4.51
4067 6502 0.685458 GCATGAACCCAGAGGCCATT 60.685 55.000 5.01 0.00 36.11 3.16
4112 6547 2.005370 TCACCTCCAAGTACTCGGTT 57.995 50.000 0.00 0.00 0.00 4.44
4121 6556 6.403866 TCCAAGTACTCGGTTTACAACTTA 57.596 37.500 0.00 0.00 0.00 2.24
4244 6679 3.773667 TCTCAGTCATGAAGGAGCAAGAT 59.226 43.478 16.37 0.00 34.23 2.40
4433 6868 2.107750 CGGATCACAGAGCGGCAT 59.892 61.111 1.45 0.00 0.00 4.40
4622 7057 3.047718 CTCGCTCGTCCGGCTAACA 62.048 63.158 0.00 0.00 0.00 2.41
4678 7113 3.877735 GCCATGGACCATAACTTCACCTT 60.878 47.826 18.40 0.00 0.00 3.50
4697 7132 1.812922 GGTGCTCACCGATCTGCTG 60.813 63.158 2.97 0.00 42.29 4.41
4871 7306 4.572571 AACCGGAAACCGCCTGCA 62.573 61.111 9.46 0.00 46.86 4.41
4875 7310 4.025401 GGAAACCGCCTGCACACG 62.025 66.667 0.00 0.00 0.00 4.49
4913 7348 1.742880 CCATGGTGTGTGCTCTCCG 60.743 63.158 2.57 0.00 0.00 4.63
4916 7351 4.008933 GGTGTGTGCTCTCCGGCT 62.009 66.667 0.00 0.00 0.00 5.52
4925 7360 3.883744 CTCTCCGGCTGCCACGTTT 62.884 63.158 20.29 0.00 0.00 3.60
4991 7426 0.322975 AGAGCAACGAGAACAGCCAT 59.677 50.000 0.00 0.00 0.00 4.40
5186 7621 0.972983 CCCTGGAGAGCTTCCTCGAA 60.973 60.000 13.76 0.00 46.92 3.71
5362 7797 1.313091 ATGTCCGTCGAGCTGTAGCA 61.313 55.000 6.65 0.00 45.16 3.49
5420 7855 2.289195 CCATCAGCTGGTGCATTGTTTT 60.289 45.455 22.09 0.00 40.49 2.43
5461 7897 6.862711 AAGAGAAAACGAGGTAAAAAGGAG 57.137 37.500 0.00 0.00 0.00 3.69
5521 7972 9.227777 GTGGGTATGGATATGTATAGTTTTTCC 57.772 37.037 0.00 0.00 0.00 3.13
5613 8065 3.445987 TGGTTGGTTTGGGTTTTTCTCT 58.554 40.909 0.00 0.00 0.00 3.10
5647 8099 5.894807 ACTGCAAAATTGTATGTATCCAGC 58.105 37.500 0.00 0.00 0.00 4.85
5648 8100 5.418524 ACTGCAAAATTGTATGTATCCAGCA 59.581 36.000 0.00 0.00 0.00 4.41
5673 8136 3.197766 AGTTGCGGGACTCATTTGAGATA 59.802 43.478 14.29 0.00 44.74 1.98
5674 8137 4.130118 GTTGCGGGACTCATTTGAGATAT 58.870 43.478 14.29 0.00 44.74 1.63
5675 8138 4.422073 TGCGGGACTCATTTGAGATATT 57.578 40.909 14.29 0.00 44.74 1.28
5676 8139 4.780815 TGCGGGACTCATTTGAGATATTT 58.219 39.130 14.29 0.00 44.74 1.40
5678 8141 5.652014 TGCGGGACTCATTTGAGATATTTTT 59.348 36.000 14.29 0.00 44.74 1.94
5679 8142 6.183360 TGCGGGACTCATTTGAGATATTTTTC 60.183 38.462 14.29 0.00 44.74 2.29
5680 8143 6.183360 GCGGGACTCATTTGAGATATTTTTCA 60.183 38.462 14.29 0.00 44.74 2.69
5681 8144 7.412853 CGGGACTCATTTGAGATATTTTTCAG 58.587 38.462 14.29 0.00 44.74 3.02
5682 8145 7.280876 CGGGACTCATTTGAGATATTTTTCAGA 59.719 37.037 14.29 0.00 44.74 3.27
5683 8146 9.129532 GGGACTCATTTGAGATATTTTTCAGAT 57.870 33.333 14.29 0.00 44.74 2.90
5695 8158 8.562892 AGATATTTTTCAGATAGATGCGGTTTG 58.437 33.333 0.00 0.00 0.00 2.93
5713 8176 5.634896 GGTTTGAGATATTGTGCTCACTTG 58.365 41.667 0.00 0.00 40.57 3.16
5719 8182 7.386059 TGAGATATTGTGCTCACTTGAAACTA 58.614 34.615 1.47 0.00 36.31 2.24
5733 8196 6.926272 CACTTGAAACTAGCTTCAGAACTACT 59.074 38.462 8.49 0.00 36.69 2.57
5734 8197 7.115663 CACTTGAAACTAGCTTCAGAACTACTC 59.884 40.741 8.49 0.00 36.69 2.59
5735 8198 6.026947 TGAAACTAGCTTCAGAACTACTCC 57.973 41.667 4.43 0.00 31.67 3.85
5736 8199 5.047235 TGAAACTAGCTTCAGAACTACTCCC 60.047 44.000 4.43 0.00 31.67 4.30
5739 8202 3.971245 AGCTTCAGAACTACTCCCTTG 57.029 47.619 0.00 0.00 0.00 3.61
5745 8260 4.223953 TCAGAACTACTCCCTTGTTGAGT 58.776 43.478 0.00 0.00 44.85 3.41
5753 8268 5.223449 ACTCCCTTGTTGAGTAAATTCGA 57.777 39.130 0.00 0.00 41.17 3.71
5775 8290 2.472397 CGAAACGAGATTCGCAGTTTCC 60.472 50.000 20.29 10.90 45.52 3.13
5789 8304 3.921677 CAGTTTCCTGCATGCTTTCATT 58.078 40.909 20.33 0.00 0.00 2.57
5800 8315 5.361571 TGCATGCTTTCATTGACTATCCAAT 59.638 36.000 20.33 0.00 37.24 3.16
5823 8338 0.316522 AGATGAGGCGATCACGATGG 59.683 55.000 0.00 0.00 41.91 3.51
5828 8343 1.795286 GAGGCGATCACGATGGAAATC 59.205 52.381 0.00 0.00 42.66 2.17
5829 8344 1.138859 AGGCGATCACGATGGAAATCA 59.861 47.619 0.00 0.00 42.66 2.57
5834 8349 3.370672 CGATCACGATGGAAATCACACAA 59.629 43.478 0.00 0.00 42.66 3.33
5835 8350 4.493057 CGATCACGATGGAAATCACACAAG 60.493 45.833 0.00 0.00 42.66 3.16
5845 8360 3.492102 AATCACACAAGTGCCTACAGT 57.508 42.857 0.00 0.00 45.49 3.55
5848 8363 3.202906 TCACACAAGTGCCTACAGTTTC 58.797 45.455 0.00 0.00 45.49 2.78
5861 8376 7.001674 TGCCTACAGTTTCTTTTGGAATTCTA 58.998 34.615 5.23 0.00 33.53 2.10
5867 8382 9.408648 ACAGTTTCTTTTGGAATTCTAGAAGAA 57.591 29.630 24.60 24.60 38.78 2.52
5868 8383 9.890352 CAGTTTCTTTTGGAATTCTAGAAGAAG 57.110 33.333 25.92 16.83 37.69 2.85
5983 8498 7.926018 CAGTACACAGTTCTATATGGTTGCATA 59.074 37.037 0.00 0.00 0.00 3.14
5984 8499 8.651389 AGTACACAGTTCTATATGGTTGCATAT 58.349 33.333 0.00 0.00 0.00 1.78
6051 8566 9.284968 AGTCACAATACTAGCAACTAACAAATT 57.715 29.630 0.00 0.00 0.00 1.82
6227 8749 9.367444 AGTTATACACGTAAATTTTCAGAGGAG 57.633 33.333 0.00 0.00 0.00 3.69
6250 8772 7.093322 AGAATGTAATGCTTGAAATCTCCAC 57.907 36.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 0.098728 CGAATCGGTTGAATGGTGGC 59.901 55.000 0.00 0.00 0.00 5.01
28 29 1.488812 TGATCCCCGAATCGGTTGAAT 59.511 47.619 21.12 7.89 46.80 2.57
99 105 2.027285 GCTTCCTTCTTTCTGCTCTCCT 60.027 50.000 0.00 0.00 0.00 3.69
167 174 1.211212 AGAGACAGCATTATGGCAGCA 59.789 47.619 0.00 0.00 35.83 4.41
170 177 1.807755 GCGAGAGACAGCATTATGGCA 60.808 52.381 0.00 0.00 35.83 4.92
207 214 7.601705 ATTACCCCTATTTCAAATGATGGTG 57.398 36.000 8.70 0.00 0.00 4.17
208 215 8.067488 AGAATTACCCCTATTTCAAATGATGGT 58.933 33.333 0.00 0.00 0.00 3.55
210 217 8.917088 ACAGAATTACCCCTATTTCAAATGATG 58.083 33.333 0.00 0.00 0.00 3.07
211 218 8.917088 CACAGAATTACCCCTATTTCAAATGAT 58.083 33.333 0.00 0.00 0.00 2.45
212 219 8.112822 TCACAGAATTACCCCTATTTCAAATGA 58.887 33.333 0.00 0.00 0.00 2.57
214 221 8.749354 GTTCACAGAATTACCCCTATTTCAAAT 58.251 33.333 0.00 0.00 0.00 2.32
215 222 7.947890 AGTTCACAGAATTACCCCTATTTCAAA 59.052 33.333 0.00 0.00 0.00 2.69
216 223 7.466804 AGTTCACAGAATTACCCCTATTTCAA 58.533 34.615 0.00 0.00 0.00 2.69
217 224 7.027874 AGTTCACAGAATTACCCCTATTTCA 57.972 36.000 0.00 0.00 0.00 2.69
220 227 7.046033 CGTAAGTTCACAGAATTACCCCTATT 58.954 38.462 0.00 0.00 0.00 1.73
221 228 6.579865 CGTAAGTTCACAGAATTACCCCTAT 58.420 40.000 0.00 0.00 0.00 2.57
223 230 4.828829 CGTAAGTTCACAGAATTACCCCT 58.171 43.478 0.00 0.00 0.00 4.79
241 257 5.651530 TGCATGTTTTTCTTTTCCACGTAA 58.348 33.333 0.00 0.00 0.00 3.18
247 263 6.966632 GGAAACTTTGCATGTTTTTCTTTTCC 59.033 34.615 16.10 9.54 37.70 3.13
254 270 5.004922 TCTCGGAAACTTTGCATGTTTTT 57.995 34.783 16.10 2.22 37.70 1.94
273 289 1.087501 GATGAACGGGGCAAGTTCTC 58.912 55.000 19.83 13.16 45.84 2.87
278 294 0.893270 TTGGTGATGAACGGGGCAAG 60.893 55.000 0.00 0.00 0.00 4.01
282 298 2.560542 TCAATTTTGGTGATGAACGGGG 59.439 45.455 0.00 0.00 0.00 5.73
285 301 3.233578 CGGTCAATTTTGGTGATGAACG 58.766 45.455 0.00 0.00 45.13 3.95
296 312 1.285641 CAGCACGGCGGTCAATTTT 59.714 52.632 13.24 0.00 0.00 1.82
308 324 0.939577 CGATCGATAACCCCAGCACG 60.940 60.000 10.26 0.00 0.00 5.34
311 327 2.457366 AATCGATCGATAACCCCAGC 57.543 50.000 29.57 0.00 33.97 4.85
316 332 2.096218 GCCTGCAAATCGATCGATAACC 60.096 50.000 29.57 19.58 33.97 2.85
318 334 2.143122 GGCCTGCAAATCGATCGATAA 58.857 47.619 29.57 15.00 33.97 1.75
319 335 1.069978 TGGCCTGCAAATCGATCGATA 59.930 47.619 29.57 13.99 33.97 2.92
320 336 0.179048 TGGCCTGCAAATCGATCGAT 60.179 50.000 24.60 24.60 36.23 3.59
321 337 0.179048 ATGGCCTGCAAATCGATCGA 60.179 50.000 21.86 21.86 0.00 3.59
323 339 1.602311 AGATGGCCTGCAAATCGATC 58.398 50.000 3.32 0.00 0.00 3.69
324 340 1.679680 CAAGATGGCCTGCAAATCGAT 59.320 47.619 3.32 0.00 0.00 3.59
325 341 1.097232 CAAGATGGCCTGCAAATCGA 58.903 50.000 3.32 0.00 0.00 3.59
326 342 0.526954 GCAAGATGGCCTGCAAATCG 60.527 55.000 9.69 0.00 0.00 3.34
327 343 3.357504 GCAAGATGGCCTGCAAATC 57.642 52.632 9.69 0.85 0.00 2.17
337 353 1.318158 GGTCAGGCAAGGCAAGATGG 61.318 60.000 0.00 0.00 0.00 3.51
344 360 2.626780 GGTTTCGGTCAGGCAAGGC 61.627 63.158 0.00 0.00 0.00 4.35
345 361 0.955919 GAGGTTTCGGTCAGGCAAGG 60.956 60.000 0.00 0.00 0.00 3.61
349 396 0.951040 CACTGAGGTTTCGGTCAGGC 60.951 60.000 4.49 0.00 43.89 4.85
377 424 1.377725 CGACTTCAGGCCTGGCAAT 60.378 57.895 32.23 15.60 0.00 3.56
386 433 2.432628 GTCCACGGCGACTTCAGG 60.433 66.667 16.62 5.41 0.00 3.86
413 460 4.724602 ATGTCGACTGCGCTGCGT 62.725 61.111 24.04 3.19 37.46 5.24
419 466 2.705220 CATGGCATGTCGACTGCG 59.295 61.111 24.02 12.47 40.59 5.18
445 492 0.234884 CCTTCGTTTTCTGTCCACGC 59.765 55.000 0.00 0.00 33.85 5.34
448 495 1.961793 CCACCTTCGTTTTCTGTCCA 58.038 50.000 0.00 0.00 0.00 4.02
454 501 3.427503 CCACATATGCCACCTTCGTTTTC 60.428 47.826 1.58 0.00 0.00 2.29
459 510 1.016627 CACCACATATGCCACCTTCG 58.983 55.000 1.58 0.00 0.00 3.79
565 630 9.767684 CGCTTGTTTATTGTTCATATTTGTAGA 57.232 29.630 0.00 0.00 0.00 2.59
567 632 7.217258 CGCGCTTGTTTATTGTTCATATTTGTA 59.783 33.333 5.56 0.00 0.00 2.41
571 636 5.034152 CCGCGCTTGTTTATTGTTCATATT 58.966 37.500 5.56 0.00 0.00 1.28
573 638 3.729462 GCCGCGCTTGTTTATTGTTCATA 60.729 43.478 5.56 0.00 0.00 2.15
575 640 1.664588 GCCGCGCTTGTTTATTGTTCA 60.665 47.619 5.56 0.00 0.00 3.18
576 641 0.981956 GCCGCGCTTGTTTATTGTTC 59.018 50.000 5.56 0.00 0.00 3.18
577 642 0.312416 TGCCGCGCTTGTTTATTGTT 59.688 45.000 5.56 0.00 0.00 2.83
579 644 0.798009 CCTGCCGCGCTTGTTTATTG 60.798 55.000 5.56 0.00 0.00 1.90
581 646 2.406616 CCCTGCCGCGCTTGTTTAT 61.407 57.895 5.56 0.00 0.00 1.40
582 647 3.053291 CCCTGCCGCGCTTGTTTA 61.053 61.111 5.56 0.00 0.00 2.01
626 697 1.887707 GATCGGTAAAGCGGCCCAG 60.888 63.158 0.00 0.00 0.00 4.45
627 698 2.188469 GATCGGTAAAGCGGCCCA 59.812 61.111 0.00 0.00 0.00 5.36
663 747 4.748144 GCAACCTCCCTGGCCTGG 62.748 72.222 21.51 21.51 40.22 4.45
665 749 1.140134 TAAAGCAACCTCCCTGGCCT 61.140 55.000 3.32 0.00 40.22 5.19
666 750 0.681243 CTAAAGCAACCTCCCTGGCC 60.681 60.000 0.00 0.00 40.22 5.36
668 752 1.676014 CGTCTAAAGCAACCTCCCTGG 60.676 57.143 0.00 0.00 42.93 4.45
669 753 1.275291 TCGTCTAAAGCAACCTCCCTG 59.725 52.381 0.00 0.00 0.00 4.45
671 755 1.675116 GGTCGTCTAAAGCAACCTCCC 60.675 57.143 0.00 0.00 0.00 4.30
685 769 0.038159 CCCAGTCAAGTGAGGTCGTC 60.038 60.000 0.00 0.00 0.00 4.20
686 770 0.759436 ACCCAGTCAAGTGAGGTCGT 60.759 55.000 0.00 0.00 0.00 4.34
687 771 0.038159 GACCCAGTCAAGTGAGGTCG 60.038 60.000 3.30 0.00 37.83 4.79
811 896 0.086901 CTCGAACGAACGAACGAACG 59.913 55.000 11.97 14.23 41.67 3.95
812 897 0.428618 CCTCGAACGAACGAACGAAC 59.571 55.000 11.97 5.51 41.67 3.95
813 898 0.661187 CCCTCGAACGAACGAACGAA 60.661 55.000 11.97 6.16 41.67 3.85
814 899 1.081906 CCCTCGAACGAACGAACGA 60.082 57.895 11.97 15.06 41.67 3.85
1142 1248 0.179067 TCCCCACACAAGACGAACAC 60.179 55.000 0.00 0.00 0.00 3.32
1209 1334 1.135315 CCGATGCCAAATCCACACAAG 60.135 52.381 0.00 0.00 0.00 3.16
1307 1438 8.119226 CCTTGAAAGAAGATAGAAAATACGCTG 58.881 37.037 0.00 0.00 0.00 5.18
1308 1439 8.041323 TCCTTGAAAGAAGATAGAAAATACGCT 58.959 33.333 0.00 0.00 0.00 5.07
1310 1441 9.372369 ACTCCTTGAAAGAAGATAGAAAATACG 57.628 33.333 0.00 0.00 0.00 3.06
1312 1443 9.167311 GCACTCCTTGAAAGAAGATAGAAAATA 57.833 33.333 0.00 0.00 0.00 1.40
1318 1449 4.195416 GGGCACTCCTTGAAAGAAGATAG 58.805 47.826 0.00 0.00 0.00 2.08
1319 1450 3.369471 CGGGCACTCCTTGAAAGAAGATA 60.369 47.826 0.00 0.00 0.00 1.98
1320 1451 2.616510 CGGGCACTCCTTGAAAGAAGAT 60.617 50.000 0.00 0.00 0.00 2.40
1322 1453 1.160137 CGGGCACTCCTTGAAAGAAG 58.840 55.000 0.00 0.00 0.00 2.85
1341 1478 1.658114 GGGGAACACGCTGGTTTTC 59.342 57.895 0.00 0.00 33.15 2.29
1360 1497 6.204882 ACTTGTACTATGAAGTGCTTGGAAAC 59.795 38.462 0.00 0.00 38.96 2.78
1440 1587 2.954318 GTGGCATCTCCCGTAAGTACTA 59.046 50.000 0.00 0.00 0.00 1.82
1441 1588 1.755380 GTGGCATCTCCCGTAAGTACT 59.245 52.381 0.00 0.00 0.00 2.73
1442 1589 1.755380 AGTGGCATCTCCCGTAAGTAC 59.245 52.381 0.00 0.00 0.00 2.73
1596 1745 9.855021 GTTCACACCAGCAAACTATAAATAATT 57.145 29.630 0.00 0.00 0.00 1.40
1600 1749 6.942576 AGAGTTCACACCAGCAAACTATAAAT 59.057 34.615 0.00 0.00 32.34 1.40
1631 1788 3.119352 GGGCTGTTCTCATGGAAAATGAC 60.119 47.826 0.00 0.00 35.51 3.06
1654 1811 2.746362 GCATCCAACTCCAAAGACAGAG 59.254 50.000 0.00 0.00 36.16 3.35
1703 1860 4.451900 TGTCCCTCACTTCTCTGAAAAAC 58.548 43.478 0.00 0.00 0.00 2.43
1817 1975 4.119363 ACGGCTGCCTGCATCCAT 62.119 61.111 17.92 0.00 45.15 3.41
1822 1980 3.889134 CTGAAGACGGCTGCCTGCA 62.889 63.158 17.92 1.67 45.15 4.41
2020 2178 7.336679 TCATGACCGATGTTCTTTATCACATTT 59.663 33.333 0.00 0.00 33.62 2.32
2062 2220 0.804364 TGCTACCAAATGCTGAAGCG 59.196 50.000 0.00 0.00 45.83 4.68
2103 2261 3.136123 CCTGAAGGTGCATGCCGG 61.136 66.667 16.68 0.00 0.00 6.13
2299 2457 1.140816 GGAGTGAACTGAACGACTGC 58.859 55.000 0.00 0.00 0.00 4.40
2305 2463 3.394719 GACTTCAGGGAGTGAACTGAAC 58.605 50.000 3.23 0.00 45.76 3.18
2389 2547 0.452987 TTTCGGTAGTCACGGGATCG 59.547 55.000 0.00 0.00 43.02 3.69
2596 2754 1.169577 CCAGTGAGAGAGCAGTACGT 58.830 55.000 0.00 0.00 0.00 3.57
2840 3000 0.899717 GGCCAAGCTGGGATTTCACA 60.900 55.000 12.85 0.00 38.19 3.58
2916 3076 9.533831 AATTGAAACTGGACTCTACCAATAATT 57.466 29.630 0.00 0.00 39.59 1.40
2917 3077 9.533831 AAATTGAAACTGGACTCTACCAATAAT 57.466 29.630 0.00 0.00 39.59 1.28
2918 3078 8.792633 CAAATTGAAACTGGACTCTACCAATAA 58.207 33.333 0.00 0.00 39.59 1.40
2919 3079 7.942341 ACAAATTGAAACTGGACTCTACCAATA 59.058 33.333 0.00 0.00 39.59 1.90
2920 3080 6.777580 ACAAATTGAAACTGGACTCTACCAAT 59.222 34.615 0.00 0.00 39.59 3.16
2946 3106 5.880332 TGTTAATCTAAGATGCAGGACCAAC 59.120 40.000 0.00 0.00 0.00 3.77
2987 3147 2.677836 GCTATGATTTCCTGCACGTCAA 59.322 45.455 0.00 0.00 0.00 3.18
3427 3589 6.655078 AGGCAAATGTTTTCAGTTACTCAT 57.345 33.333 0.00 0.00 35.89 2.90
3465 3627 3.420893 TGTTAGGACAAAATGGGAGCTG 58.579 45.455 0.00 0.00 31.49 4.24
3591 6015 4.213270 CCAGTGCACGAGTTCTAATTTGAA 59.787 41.667 12.01 0.00 0.00 2.69
3708 6141 6.183360 CCTGTTTCATGCATATTCACGTTAGT 60.183 38.462 0.00 0.00 0.00 2.24
3714 6147 4.496341 CGACCCTGTTTCATGCATATTCAC 60.496 45.833 0.00 0.00 0.00 3.18
3767 6202 1.030488 TCTGGACTAGTTCGCCGAGG 61.030 60.000 0.00 0.00 0.00 4.63
3776 6211 2.909504 TCTCCTGCTTCTGGACTAGT 57.090 50.000 0.00 0.00 0.00 2.57
3803 6238 2.822255 GCGCTCCCGGCAATGTTA 60.822 61.111 0.00 0.00 41.91 2.41
3980 6415 1.271762 CCCATGGGCTCATCATCGATT 60.272 52.381 20.41 0.00 0.00 3.34
4007 6442 2.583441 TACTGCTGCAGCCTCGGTT 61.583 57.895 34.64 14.91 41.18 4.44
4058 6493 2.363306 TGTTGACAACAATGGCCTCT 57.637 45.000 18.56 0.00 38.72 3.69
4067 6502 3.358111 TGACCTTCCTTGTTGACAACA 57.642 42.857 17.02 17.02 40.21 3.33
4244 6679 1.816537 GATCACGGTCTGGCTGCTA 59.183 57.895 0.00 0.00 0.00 3.49
4433 6868 4.961511 AGCGTCGCAGAAACGGCA 62.962 61.111 21.09 0.00 39.69 5.69
4439 6874 2.082629 TTGACAGGAGCGTCGCAGAA 62.083 55.000 21.09 0.00 39.69 3.02
4622 7057 2.049526 TGATCGTGCAGCGTCGTT 60.050 55.556 9.13 2.20 42.13 3.85
4697 7132 4.436998 CTGCCTGACGACCGGACC 62.437 72.222 9.46 0.00 0.00 4.46
4715 7150 4.827087 AGCCGCTGCACCTCATCG 62.827 66.667 2.05 0.00 41.13 3.84
4787 7222 2.599281 TGCTGTTCCTCCGACGGA 60.599 61.111 17.28 17.28 0.00 4.69
4793 7228 1.676967 CTTGGGCTGCTGTTCCTCC 60.677 63.158 0.00 0.00 0.00 4.30
4897 7332 2.665000 CCGGAGAGCACACACCAT 59.335 61.111 0.00 0.00 0.00 3.55
4898 7333 4.314440 GCCGGAGAGCACACACCA 62.314 66.667 5.05 0.00 0.00 4.17
4901 7336 4.687215 GCAGCCGGAGAGCACACA 62.687 66.667 5.05 0.00 34.23 3.72
5249 7684 4.659172 CCCTTGTGGAAGGCGCCA 62.659 66.667 31.54 4.11 46.89 5.69
5362 7797 1.995376 AGACGGCAAAGGGATGTTTT 58.005 45.000 0.00 0.00 0.00 2.43
5521 7972 6.318900 ACACCCTAAGAAGACAAAACAAGAAG 59.681 38.462 0.00 0.00 0.00 2.85
5528 7979 9.292195 CCTTAATTACACCCTAAGAAGACAAAA 57.708 33.333 0.00 0.00 0.00 2.44
5613 8065 9.409312 CATACAATTTTGCAGTACATCTTTTCA 57.591 29.630 0.00 0.00 0.00 2.69
5647 8099 1.238439 AATGAGTCCCGCAACTTGTG 58.762 50.000 0.00 0.00 0.00 3.33
5648 8100 1.608590 CAAATGAGTCCCGCAACTTGT 59.391 47.619 0.00 0.00 0.00 3.16
5657 8120 8.511604 TCTGAAAAATATCTCAAATGAGTCCC 57.488 34.615 10.06 0.00 42.60 4.46
5673 8136 6.599244 TCTCAAACCGCATCTATCTGAAAAAT 59.401 34.615 0.00 0.00 0.00 1.82
5674 8137 5.937540 TCTCAAACCGCATCTATCTGAAAAA 59.062 36.000 0.00 0.00 0.00 1.94
5675 8138 5.487433 TCTCAAACCGCATCTATCTGAAAA 58.513 37.500 0.00 0.00 0.00 2.29
5676 8139 5.084818 TCTCAAACCGCATCTATCTGAAA 57.915 39.130 0.00 0.00 0.00 2.69
5678 8141 4.944619 ATCTCAAACCGCATCTATCTGA 57.055 40.909 0.00 0.00 0.00 3.27
5679 8142 6.648310 ACAATATCTCAAACCGCATCTATCTG 59.352 38.462 0.00 0.00 0.00 2.90
5680 8143 6.648310 CACAATATCTCAAACCGCATCTATCT 59.352 38.462 0.00 0.00 0.00 1.98
5681 8144 6.619446 GCACAATATCTCAAACCGCATCTATC 60.619 42.308 0.00 0.00 0.00 2.08
5682 8145 5.180117 GCACAATATCTCAAACCGCATCTAT 59.820 40.000 0.00 0.00 0.00 1.98
5683 8146 4.511454 GCACAATATCTCAAACCGCATCTA 59.489 41.667 0.00 0.00 0.00 1.98
5684 8147 3.313526 GCACAATATCTCAAACCGCATCT 59.686 43.478 0.00 0.00 0.00 2.90
5685 8148 3.313526 AGCACAATATCTCAAACCGCATC 59.686 43.478 0.00 0.00 0.00 3.91
5686 8149 3.282021 AGCACAATATCTCAAACCGCAT 58.718 40.909 0.00 0.00 0.00 4.73
5687 8150 2.677836 GAGCACAATATCTCAAACCGCA 59.322 45.455 0.00 0.00 0.00 5.69
5688 8151 2.677836 TGAGCACAATATCTCAAACCGC 59.322 45.455 0.00 0.00 36.50 5.68
5689 8152 3.935203 AGTGAGCACAATATCTCAAACCG 59.065 43.478 3.19 0.00 40.57 4.44
5690 8153 5.412594 TCAAGTGAGCACAATATCTCAAACC 59.587 40.000 3.19 0.00 40.57 3.27
5695 8158 6.734104 AGTTTCAAGTGAGCACAATATCTC 57.266 37.500 3.19 0.00 0.00 2.75
5713 8176 5.186215 AGGGAGTAGTTCTGAAGCTAGTTTC 59.814 44.000 12.05 12.05 0.00 2.78
5719 8182 3.243724 ACAAGGGAGTAGTTCTGAAGCT 58.756 45.455 0.00 0.00 0.00 3.74
5733 8196 3.991773 CGTCGAATTTACTCAACAAGGGA 59.008 43.478 0.00 0.00 0.00 4.20
5734 8197 3.991773 TCGTCGAATTTACTCAACAAGGG 59.008 43.478 0.00 0.00 0.00 3.95
5735 8198 5.585500 TTCGTCGAATTTACTCAACAAGG 57.415 39.130 2.90 0.00 0.00 3.61
5736 8199 5.555191 CGTTTCGTCGAATTTACTCAACAAG 59.445 40.000 8.78 0.00 0.00 3.16
5739 8202 5.116074 TCTCGTTTCGTCGAATTTACTCAAC 59.884 40.000 8.78 0.42 39.34 3.18
5745 8260 5.351928 CGAATCTCGTTTCGTCGAATTTA 57.648 39.130 8.78 0.00 42.63 1.40
5775 8290 4.337274 TGGATAGTCAATGAAAGCATGCAG 59.663 41.667 21.98 0.41 34.26 4.41
5778 8293 7.977293 TGAAATTGGATAGTCAATGAAAGCATG 59.023 33.333 0.00 0.00 37.42 4.06
5789 8304 5.371526 GCCTCATCTGAAATTGGATAGTCA 58.628 41.667 0.00 0.00 0.00 3.41
5800 8315 1.476488 TCGTGATCGCCTCATCTGAAA 59.524 47.619 0.00 0.00 35.97 2.69
5823 8338 3.815401 ACTGTAGGCACTTGTGTGATTTC 59.185 43.478 2.61 0.00 46.55 2.17
5828 8343 3.206150 AGAAACTGTAGGCACTTGTGTG 58.794 45.455 2.61 0.00 46.37 3.82
5829 8344 3.560636 AGAAACTGTAGGCACTTGTGT 57.439 42.857 2.61 0.00 41.75 3.72
5834 8349 4.164843 TCCAAAAGAAACTGTAGGCACT 57.835 40.909 0.00 0.00 46.37 4.40
5835 8350 4.911514 TTCCAAAAGAAACTGTAGGCAC 57.088 40.909 0.00 0.00 0.00 5.01
5848 8363 9.447157 ACATCTCTTCTTCTAGAATTCCAAAAG 57.553 33.333 5.44 3.64 33.13 2.27
5867 8382 3.951775 AGAAACAGCGAAGACATCTCT 57.048 42.857 0.00 0.00 0.00 3.10
5868 8383 3.369451 GGAAGAAACAGCGAAGACATCTC 59.631 47.826 0.00 0.00 0.00 2.75
5879 8394 5.393962 GTGATTATGTGTGGAAGAAACAGC 58.606 41.667 0.00 0.00 0.00 4.40
5931 8446 9.076596 GGTTTTCGATTTCTTGAGAATAAATGG 57.923 33.333 0.00 0.00 33.54 3.16
5983 8498 6.714810 TCTTTGTTGTACTTCTATGGTTGCAT 59.285 34.615 0.00 0.00 0.00 3.96
5984 8499 6.058833 TCTTTGTTGTACTTCTATGGTTGCA 58.941 36.000 0.00 0.00 0.00 4.08
6025 8540 8.848474 ATTTGTTAGTTGCTAGTATTGTGACT 57.152 30.769 0.00 0.00 0.00 3.41
6026 8541 9.329913 CAATTTGTTAGTTGCTAGTATTGTGAC 57.670 33.333 0.00 0.00 0.00 3.67
6027 8542 9.278978 TCAATTTGTTAGTTGCTAGTATTGTGA 57.721 29.630 0.00 0.00 0.00 3.58
6028 8543 9.891828 TTCAATTTGTTAGTTGCTAGTATTGTG 57.108 29.630 0.00 0.00 0.00 3.33
6051 8566 5.636121 CCGCGGTATAATATAACAGCTTTCA 59.364 40.000 19.50 0.00 35.09 2.69
6055 8570 4.461781 ACTCCGCGGTATAATATAACAGCT 59.538 41.667 27.15 0.00 35.09 4.24
6225 8747 7.192232 GTGGAGATTTCAAGCATTACATTCTC 58.808 38.462 0.00 0.00 0.00 2.87
6226 8748 6.183360 CGTGGAGATTTCAAGCATTACATTCT 60.183 38.462 0.00 0.00 0.00 2.40
6227 8749 5.967674 CGTGGAGATTTCAAGCATTACATTC 59.032 40.000 0.00 0.00 0.00 2.67
6261 8783 2.415608 GCTGGAGATCCGACCGTCA 61.416 63.158 0.00 0.00 39.43 4.35
6327 8849 5.220989 CCAATACTGGAATCAGCACTTGATG 60.221 44.000 0.00 0.00 46.92 3.07


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

AutoCloner maintained by Alex Coulton.