Multiple sequence alignment - TraesCS1D01G253700

Loading Multiple Alignment...

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 TraesCS1D01G253700 chr1D 100.000 6778 0 0 925 7702 345703261 345710038 0.000000e+00 12517.0
1 TraesCS1D01G253700 chr1D 100.000 600 0 0 1 600 345702337 345702936 0.000000e+00 1109.0
2 TraesCS1D01G253700 chr1A 95.634 4741 141 32 925 5654 445878847 445883532 0.000000e+00 7548.0
3 TraesCS1D01G253700 chr1A 97.055 1630 38 7 5727 7351 445883555 445885179 0.000000e+00 2736.0
4 TraesCS1D01G253700 chr1A 90.032 622 24 22 1 600 445878213 445878818 0.000000e+00 771.0
5 TraesCS1D01G253700 chr1A 90.411 73 5 2 7439 7511 445885182 445885252 2.290000e-15 95.3
6 TraesCS1D01G253700 chr1B 95.770 3499 93 16 982 4470 464716496 464713043 0.000000e+00 5590.0
7 TraesCS1D01G253700 chr1B 93.878 1715 79 15 5620 7328 464711778 464710084 0.000000e+00 2562.0
8 TraesCS1D01G253700 chr1B 90.602 532 23 19 89 600 464717088 464716564 0.000000e+00 680.0
9 TraesCS1D01G253700 chr1B 78.462 390 44 23 5119 5496 464712266 464711905 1.300000e-52 219.0
10 TraesCS1D01G253700 chr1B 80.892 157 17 5 7543 7697 464709900 464709755 2.270000e-20 111.0
11 TraesCS1D01G253700 chr5A 90.698 86 7 1 7341 7425 660195630 660195715 6.320000e-21 113.0
12 TraesCS1D01G253700 chr5A 94.366 71 4 0 7354 7424 126268445 126268515 8.170000e-20 110.0
13 TraesCS1D01G253700 chr5A 91.892 74 5 1 7354 7426 3295584 3295511 1.370000e-17 102.0
14 TraesCS1D01G253700 chr6B 93.056 72 5 0 7354 7425 715389855 715389926 1.060000e-18 106.0
15 TraesCS1D01G253700 chr7B 92.958 71 5 0 7355 7425 519912187 519912117 3.800000e-18 104.0
16 TraesCS1D01G253700 chr7B 86.207 87 10 2 7339 7423 94260673 94260759 8.230000e-15 93.5
17 TraesCS1D01G253700 chr4B 91.667 72 6 0 7354 7425 136055736 136055665 4.920000e-17 100.0
18 TraesCS1D01G253700 chr4D 88.889 81 7 2 7346 7424 364610633 364610713 1.770000e-16 99.0
19 TraesCS1D01G253700 chr6A 87.805 82 8 2 7348 7428 89961955 89962035 2.290000e-15 95.3


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 TraesCS1D01G253700 chr1D 345702337 345710038 7701 False 6813.000 12517 100.0000 1 7702 2 chr1D.!!$F1 7701
1 TraesCS1D01G253700 chr1A 445878213 445885252 7039 False 2787.575 7548 93.2830 1 7511 4 chr1A.!!$F1 7510
2 TraesCS1D01G253700 chr1B 464709755 464717088 7333 True 1832.400 5590 87.9208 89 7697 5 chr1B.!!$R1 7608

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
352 366 1.274728 GCAACAGCCAAGAGAGAGAGA 59.725 52.381 0.00 0.00 0.00 3.10 F
1212 1251 0.771755 ACCACCTCCAAAACCTCCTC 59.228 55.000 0.00 0.00 0.00 3.71 F
2874 2925 0.969894 AGTTGAGGCTTGTCTACGCT 59.030 50.000 0.00 0.00 0.00 5.07 F
3044 3095 0.472925 TTAGGGCTCACACCAGTCCA 60.473 55.000 0.00 0.00 41.11 4.02 F
3779 3830 3.255149 CAGCATGAACTTCTGCCTTCTTT 59.745 43.478 0.00 0.00 39.69 2.52 F
3917 3968 1.882623 GACAAACTGGCCTGAAAGAGG 59.117 52.381 17.64 2.27 46.13 3.69 F
5811 6103 1.806542 GCATTATCCGCCATCGACAAT 59.193 47.619 0.00 0.00 38.10 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2106 2157 0.250727 AACGACCACCCTGAACCATG 60.251 55.000 0.0 0.0 0.00 3.66 R
3017 3068 2.417719 GTGTGAGCCCTAAACTGTGAG 58.582 52.381 0.0 0.0 0.00 3.51 R
3861 3912 0.403271 ACCATTGAACTGGCTCAGCT 59.597 50.000 0.0 0.0 40.15 4.24 R
3917 3968 2.070783 CAACATTTGCAATGTCCTGGC 58.929 47.619 0.0 0.0 0.00 4.85 R
5144 5347 2.291346 CGGTAGGTTTTGGGGAAATCCT 60.291 50.000 0.0 0.0 34.90 3.24 R
5825 6117 2.804986 TGCATCACTATCCTTTGCCA 57.195 45.000 0.0 0.0 32.39 4.92 R
7525 7857 0.034863 AAATTGTCACGGGGGCGTAT 60.035 50.000 0.0 0.0 0.00 3.06 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
80 84 1.748493 CGGGTGAAAGAGAGAGAGAGG 59.252 57.143 0.00 0.00 0.00 3.69
87 91 2.587060 AGAGAGAGAGAGGGAGAGGA 57.413 55.000 0.00 0.00 0.00 3.71
88 92 2.412591 AGAGAGAGAGAGGGAGAGGAG 58.587 57.143 0.00 0.00 0.00 3.69
255 268 4.828296 GACGGGTAGCGGGGGAGA 62.828 72.222 4.43 0.00 0.00 3.71
351 365 1.275856 AGCAACAGCCAAGAGAGAGAG 59.724 52.381 0.00 0.00 0.00 3.20
352 366 1.274728 GCAACAGCCAAGAGAGAGAGA 59.725 52.381 0.00 0.00 0.00 3.10
353 367 2.674747 GCAACAGCCAAGAGAGAGAGAG 60.675 54.545 0.00 0.00 0.00 3.20
354 368 2.824936 CAACAGCCAAGAGAGAGAGAGA 59.175 50.000 0.00 0.00 0.00 3.10
355 369 2.726821 ACAGCCAAGAGAGAGAGAGAG 58.273 52.381 0.00 0.00 0.00 3.20
356 370 2.308570 ACAGCCAAGAGAGAGAGAGAGA 59.691 50.000 0.00 0.00 0.00 3.10
357 371 2.684881 CAGCCAAGAGAGAGAGAGAGAC 59.315 54.545 0.00 0.00 0.00 3.36
358 372 1.670811 GCCAAGAGAGAGAGAGAGACG 59.329 57.143 0.00 0.00 0.00 4.18
429 468 2.948720 GCTCTGGTTCCGGTCTGCT 61.949 63.158 0.00 0.00 0.00 4.24
458 497 1.541672 GGAGGAGAGGAGAGGGGAG 59.458 68.421 0.00 0.00 0.00 4.30
460 499 2.123033 GGAGAGGAGAGGGGAGGC 60.123 72.222 0.00 0.00 0.00 4.70
461 500 2.520741 GAGAGGAGAGGGGAGGCG 60.521 72.222 0.00 0.00 0.00 5.52
462 501 3.024356 AGAGGAGAGGGGAGGCGA 61.024 66.667 0.00 0.00 0.00 5.54
464 503 4.150454 AGGAGAGGGGAGGCGAGG 62.150 72.222 0.00 0.00 0.00 4.63
465 504 4.144727 GGAGAGGGGAGGCGAGGA 62.145 72.222 0.00 0.00 0.00 3.71
1207 1246 1.362355 CGCAACCACCTCCAAAACC 59.638 57.895 0.00 0.00 0.00 3.27
1212 1251 0.771755 ACCACCTCCAAAACCTCCTC 59.228 55.000 0.00 0.00 0.00 3.71
1343 1387 1.822990 TGGTCTGTCAGTAATCCGACC 59.177 52.381 0.00 0.00 40.90 4.79
1386 1430 7.039923 AGCATAGATTCAGAATTTTATGGCCAG 60.040 37.037 13.05 0.00 0.00 4.85
1437 1481 3.715628 ATGAAGTTGAAGTTGGCACAC 57.284 42.857 0.00 0.00 39.29 3.82
1534 1581 9.765795 AATTCTAGTTAGCTATACATGTTGGTC 57.234 33.333 2.30 0.00 0.00 4.02
1568 1615 8.729756 GGGTGAATTCAAATTTCCTATTTTTGG 58.270 33.333 10.35 0.00 32.52 3.28
1592 1639 6.402983 GGCACTATAATGCTGCTGTGATATTC 60.403 42.308 6.09 0.00 45.38 1.75
1645 1692 4.015764 TCCATGCTACATTTAAGCTTGCA 58.984 39.130 9.86 8.60 41.40 4.08
1648 1695 5.233476 CCATGCTACATTTAAGCTTGCATTG 59.767 40.000 9.86 5.84 41.40 2.82
1739 1787 6.500684 TGTTAATGCTTGGTTCATCTTCTC 57.499 37.500 0.00 0.00 0.00 2.87
1744 1792 7.951347 AATGCTTGGTTCATCTTCTCTTATT 57.049 32.000 0.00 0.00 0.00 1.40
2106 2157 1.135721 GATGAGACAAATGGCTTGGGC 59.864 52.381 0.00 0.00 39.56 5.36
2385 2436 7.042320 GCACAAACTTGCATATTTCTTCTTC 57.958 36.000 0.00 0.00 42.49 2.87
2725 2776 4.938575 TGGTGATATGGGGTACAAAACT 57.061 40.909 0.00 0.00 0.00 2.66
2871 2922 3.251571 CGGTTAGTTGAGGCTTGTCTAC 58.748 50.000 0.00 0.00 0.00 2.59
2874 2925 0.969894 AGTTGAGGCTTGTCTACGCT 59.030 50.000 0.00 0.00 0.00 5.07
2875 2926 1.344763 AGTTGAGGCTTGTCTACGCTT 59.655 47.619 0.00 0.00 0.00 4.68
2876 2927 2.143925 GTTGAGGCTTGTCTACGCTTT 58.856 47.619 0.00 0.00 0.00 3.51
3017 3068 6.884836 AGGATGTTACCTCCAAAGTTGTTATC 59.115 38.462 9.25 0.00 34.98 1.75
3044 3095 0.472925 TTAGGGCTCACACCAGTCCA 60.473 55.000 0.00 0.00 41.11 4.02
3218 3269 5.583061 CCTTTACAAACTGTATCGTGGCATA 59.417 40.000 0.00 0.00 32.20 3.14
3660 3711 5.174395 CCATCTGGTGCTATAACTGCTATC 58.826 45.833 0.00 0.00 0.00 2.08
3779 3830 3.255149 CAGCATGAACTTCTGCCTTCTTT 59.745 43.478 0.00 0.00 39.69 2.52
3861 3912 5.124297 CCAAGATGATGAGTTGCATGTTACA 59.876 40.000 0.00 0.00 37.34 2.41
3917 3968 1.882623 GACAAACTGGCCTGAAAGAGG 59.117 52.381 17.64 2.27 46.13 3.69
3939 3990 3.319755 CCAGGACATTGCAAATGTTGTC 58.680 45.455 18.44 18.44 38.17 3.18
4026 4077 6.748333 TCTGATTTCACTCCATCAAATGAC 57.252 37.500 0.00 0.00 0.00 3.06
4363 4414 5.106555 CCTGTGTTTAAGCAGTTCCACTATG 60.107 44.000 0.00 0.00 0.00 2.23
4389 4440 6.572519 TGAGCAAAATAGGTAATGCCAAATC 58.427 36.000 0.00 0.00 39.59 2.17
4551 4641 9.452287 AATTTCATACCAATTTAAATGCTGCTT 57.548 25.926 0.39 0.00 0.00 3.91
4555 4645 8.143193 TCATACCAATTTAAATGCTGCTTATGG 58.857 33.333 0.39 5.68 0.00 2.74
4556 4646 6.298441 ACCAATTTAAATGCTGCTTATGGT 57.702 33.333 9.96 9.96 32.86 3.55
4557 4647 6.340522 ACCAATTTAAATGCTGCTTATGGTC 58.659 36.000 9.96 0.00 32.23 4.02
4558 4648 6.070881 ACCAATTTAAATGCTGCTTATGGTCA 60.071 34.615 9.96 0.00 32.23 4.02
4559 4649 6.256321 CCAATTTAAATGCTGCTTATGGTCAC 59.744 38.462 0.39 0.00 0.00 3.67
4560 4650 5.973899 TTTAAATGCTGCTTATGGTCACA 57.026 34.783 0.00 0.00 0.00 3.58
4561 4651 6.528537 TTTAAATGCTGCTTATGGTCACAT 57.471 33.333 0.00 0.00 41.13 3.21
4562 4652 6.528537 TTAAATGCTGCTTATGGTCACATT 57.471 33.333 0.00 0.00 38.53 2.71
4563 4653 4.380841 AATGCTGCTTATGGTCACATTG 57.619 40.909 0.00 0.00 38.53 2.82
4708 4803 5.301551 CCTGCAGTGTCTTGATCTATAGTCT 59.698 44.000 13.81 0.00 0.00 3.24
4808 4906 4.831107 TCGACATTGAACATGGAATCAGA 58.169 39.130 0.00 0.00 0.00 3.27
4809 4907 5.244755 TCGACATTGAACATGGAATCAGAA 58.755 37.500 0.00 0.00 0.00 3.02
4856 4954 8.481492 TGATATTTCATGAAAAGGCCATATGT 57.519 30.769 23.91 6.87 33.56 2.29
4923 5022 8.598916 TCTGTCACTACCCAAAATTAGATAACA 58.401 33.333 0.00 0.00 0.00 2.41
4964 5063 8.136800 TGACGTGTATTGTTACTCTCAAAAGTA 58.863 33.333 0.00 0.00 0.00 2.24
4965 5064 8.516811 ACGTGTATTGTTACTCTCAAAAGTAG 57.483 34.615 0.00 0.00 33.46 2.57
4966 5065 8.355169 ACGTGTATTGTTACTCTCAAAAGTAGA 58.645 33.333 0.00 0.00 33.46 2.59
4967 5066 9.355215 CGTGTATTGTTACTCTCAAAAGTAGAT 57.645 33.333 0.00 0.00 33.46 1.98
4998 5097 6.666417 TCTACGTGTCTAACTTTCTTGTCTC 58.334 40.000 0.00 0.00 0.00 3.36
5076 5175 9.736023 CAAGCTTACAAAGGATTATGTTTATCC 57.264 33.333 0.00 0.00 41.59 2.59
5084 5183 6.235231 AGGATTATGTTTATCCGTGTCACT 57.765 37.500 0.65 0.00 45.09 3.41
5133 5336 5.206587 TGGACCCCTGTAACTAATCTACTC 58.793 45.833 0.00 0.00 0.00 2.59
5159 5362 4.343814 TCAACTCAAGGATTTCCCCAAAAC 59.656 41.667 0.00 0.00 36.42 2.43
5165 5368 2.097036 GGATTTCCCCAAAACCTACCG 58.903 52.381 0.00 0.00 32.77 4.02
5174 5377 3.130340 CCCAAAACCTACCGAATGGATTG 59.870 47.826 0.00 0.00 39.21 2.67
5220 5423 5.297029 GGGATCCTTTTAGCAACATACACTC 59.703 44.000 12.58 0.00 0.00 3.51
5343 5574 2.426024 AGCAAGCAATAAGTGATGCCAG 59.574 45.455 0.00 0.00 43.57 4.85
5362 5593 3.679980 CCAGTGTCGTTGATGAACTTAGG 59.320 47.826 0.00 0.00 0.00 2.69
5373 5604 5.488341 TGATGAACTTAGGTAGACCTTTGC 58.512 41.667 6.52 0.00 46.09 3.68
5433 5666 3.203716 TGACATCATCATCTGCTTGAGC 58.796 45.455 0.00 0.00 35.14 4.26
5502 5794 9.946165 GGTTTGCACTATCATATACTTTTTACC 57.054 33.333 0.00 0.00 0.00 2.85
5540 5832 7.178451 ACTTTTGAGTTACCCAGGGAATATTTG 59.822 37.037 14.54 0.00 0.00 2.32
5575 5867 5.911752 ACTCATAGTCATAGTGCTGGAAAG 58.088 41.667 0.00 0.00 0.00 2.62
5578 5870 7.129457 TCATAGTCATAGTGCTGGAAAGAAT 57.871 36.000 0.00 0.00 0.00 2.40
5612 5904 8.379428 AGATAAACAGGGCAAAGGAAATAAAT 57.621 30.769 0.00 0.00 0.00 1.40
5655 5947 2.976882 TGGTGCTAAGTAGTCAAACCCT 59.023 45.455 0.00 0.00 0.00 4.34
5657 5949 4.141344 TGGTGCTAAGTAGTCAAACCCTTT 60.141 41.667 0.00 0.00 0.00 3.11
5664 5956 5.622770 AGTAGTCAAACCCTTTTTATGCG 57.377 39.130 0.00 0.00 0.00 4.73
5673 5965 5.523438 ACCCTTTTTATGCGAACTTTTGA 57.477 34.783 0.00 0.00 0.00 2.69
5674 5966 5.286438 ACCCTTTTTATGCGAACTTTTGAC 58.714 37.500 0.00 0.00 0.00 3.18
5811 6103 1.806542 GCATTATCCGCCATCGACAAT 59.193 47.619 0.00 0.00 38.10 2.71
5825 6117 6.216569 CCATCGACAATACACAGTATAGCTT 58.783 40.000 0.00 0.00 0.00 3.74
5886 6178 7.119846 GTGCCTCATATATCTGGATTTTACACC 59.880 40.741 5.04 0.00 0.00 4.16
5923 6217 8.101510 CGTTGTGAAATTTGAACTTACTGTTTG 58.898 33.333 0.00 0.00 39.30 2.93
5972 6266 6.093219 TGAAAGAGATGCTTAATCTTGCAGAC 59.907 38.462 4.42 0.00 46.12 3.51
6008 6302 4.922206 AGAACATGAATGGTTTAGCTGGA 58.078 39.130 0.00 0.00 0.00 3.86
6113 6407 4.734398 TTTGACTGCCAATCACAAAGTT 57.266 36.364 0.00 0.00 34.23 2.66
6124 6418 6.574073 GCCAATCACAAAGTTGATAATGGGAA 60.574 38.462 0.00 0.00 35.60 3.97
6251 6545 1.985622 ATTCCCTCTTGGATGGACCA 58.014 50.000 0.00 0.00 44.66 4.02
6263 6557 3.117550 TGGATGGACCACTTGATAATGGG 60.118 47.826 0.00 0.00 44.64 4.00
6434 6728 5.045869 TGGAGAGTTTACCCAGTATTTCCAG 60.046 44.000 0.00 0.00 0.00 3.86
6615 6911 5.333299 AGGTAATACACAACGCAGTGATA 57.667 39.130 13.94 4.35 45.00 2.15
6649 6945 7.542130 GGTCATCATTGAACTTAATTGTTGGTC 59.458 37.037 0.00 0.00 36.59 4.02
6832 7129 1.076533 AGTTGTGCCGCGTCGATAAG 61.077 55.000 4.92 0.00 0.00 1.73
6910 7207 2.127708 AGGGTTCACTCTGGAGTTTGT 58.872 47.619 0.00 0.00 40.20 2.83
7083 7380 2.291800 ACTTCTGGGACATTTGGATGGG 60.292 50.000 0.00 0.00 38.20 4.00
7127 7424 0.106769 TGTTGACTGCTTCCTGCCAA 60.107 50.000 0.00 0.00 42.00 4.52
7254 7551 7.494625 AGTGAAAGATTTCTGTTTACGAAGTCA 59.505 33.333 6.84 0.00 38.97 3.41
7255 7552 7.794349 GTGAAAGATTTCTGTTTACGAAGTCAG 59.206 37.037 6.84 0.00 38.97 3.51
7256 7553 5.847670 AGATTTCTGTTTACGAAGTCAGC 57.152 39.130 0.00 0.00 43.93 4.26
7257 7554 5.542779 AGATTTCTGTTTACGAAGTCAGCT 58.457 37.500 0.00 0.00 43.93 4.24
7258 7555 6.688578 AGATTTCTGTTTACGAAGTCAGCTA 58.311 36.000 0.00 0.00 43.93 3.32
7259 7556 7.324178 AGATTTCTGTTTACGAAGTCAGCTAT 58.676 34.615 0.00 0.00 43.93 2.97
7260 7557 6.706055 TTTCTGTTTACGAAGTCAGCTATG 57.294 37.500 0.00 0.00 43.93 2.23
7262 7559 5.779922 TCTGTTTACGAAGTCAGCTATGTT 58.220 37.500 0.00 0.00 43.93 2.71
7263 7560 5.862323 TCTGTTTACGAAGTCAGCTATGTTC 59.138 40.000 0.00 0.00 43.93 3.18
7264 7561 5.779922 TGTTTACGAAGTCAGCTATGTTCT 58.220 37.500 0.00 0.00 43.93 3.01
7266 7563 3.512033 ACGAAGTCAGCTATGTTCTCC 57.488 47.619 0.00 0.00 29.74 3.71
7267 7564 3.093057 ACGAAGTCAGCTATGTTCTCCT 58.907 45.455 0.00 0.00 29.74 3.69
7336 7651 2.543777 TACAAGTGGCTTCTGGTGTC 57.456 50.000 1.65 0.00 0.00 3.67
7337 7652 0.839946 ACAAGTGGCTTCTGGTGTCT 59.160 50.000 0.00 0.00 0.00 3.41
7346 7661 4.187694 GGCTTCTGGTGTCTGAAGATAAG 58.812 47.826 14.30 0.00 45.80 1.73
7351 7666 7.540474 TTCTGGTGTCTGAAGATAAGTAGTT 57.460 36.000 0.00 0.00 0.00 2.24
7353 7668 8.824756 TCTGGTGTCTGAAGATAAGTAGTTAT 57.175 34.615 2.31 2.31 0.00 1.89
7354 7669 8.904834 TCTGGTGTCTGAAGATAAGTAGTTATC 58.095 37.037 18.85 18.85 43.51 1.75
7355 7670 8.008513 TGGTGTCTGAAGATAAGTAGTTATCC 57.991 38.462 21.63 11.41 44.02 2.59
7357 7672 7.288158 GGTGTCTGAAGATAAGTAGTTATCCCT 59.712 40.741 21.63 12.49 44.02 4.20
7358 7673 8.354426 GTGTCTGAAGATAAGTAGTTATCCCTC 58.646 40.741 21.63 18.70 44.02 4.30
7360 7675 9.796180 GTCTGAAGATAAGTAGTTATCCCTCTA 57.204 37.037 21.63 11.38 44.02 2.43
7379 7694 9.310449 TCCCTCTATAAAGAAATATAAGAGCGT 57.690 33.333 0.00 0.00 0.00 5.07
7380 7695 9.930693 CCCTCTATAAAGAAATATAAGAGCGTT 57.069 33.333 0.00 0.00 0.00 4.84
7439 7771 7.957992 TTTTCTTTACTTTACAAAGGGACCA 57.042 32.000 6.66 0.00 40.31 4.02
7440 7772 7.576861 TTTCTTTACTTTACAAAGGGACCAG 57.423 36.000 6.66 0.00 40.31 4.00
7441 7773 5.067954 TCTTTACTTTACAAAGGGACCAGC 58.932 41.667 6.66 0.00 40.31 4.85
7442 7774 4.717279 TTACTTTACAAAGGGACCAGCT 57.283 40.909 6.66 0.00 40.31 4.24
7443 7775 3.595190 ACTTTACAAAGGGACCAGCTT 57.405 42.857 6.66 0.00 40.31 3.74
7444 7776 3.910989 ACTTTACAAAGGGACCAGCTTT 58.089 40.909 6.66 0.00 40.31 3.51
7445 7777 4.286707 ACTTTACAAAGGGACCAGCTTTT 58.713 39.130 6.66 0.00 40.31 2.27
7446 7778 4.714802 ACTTTACAAAGGGACCAGCTTTTT 59.285 37.500 6.66 0.00 40.31 1.94
7447 7779 4.929819 TTACAAAGGGACCAGCTTTTTC 57.070 40.909 0.00 0.00 0.00 2.29
7448 7780 3.032265 ACAAAGGGACCAGCTTTTTCT 57.968 42.857 0.00 0.00 0.00 2.52
7449 7781 2.695147 ACAAAGGGACCAGCTTTTTCTG 59.305 45.455 0.00 0.00 0.00 3.02
7450 7782 2.695147 CAAAGGGACCAGCTTTTTCTGT 59.305 45.455 0.00 0.00 32.32 3.41
7451 7783 3.876309 AAGGGACCAGCTTTTTCTGTA 57.124 42.857 0.00 0.00 32.32 2.74
7452 7784 4.388577 AAGGGACCAGCTTTTTCTGTAT 57.611 40.909 0.00 0.00 32.32 2.29
7453 7785 3.690460 AGGGACCAGCTTTTTCTGTATG 58.310 45.455 0.00 0.00 32.32 2.39
7454 7786 3.074538 AGGGACCAGCTTTTTCTGTATGT 59.925 43.478 0.00 0.00 32.32 2.29
7455 7787 3.826729 GGGACCAGCTTTTTCTGTATGTT 59.173 43.478 0.00 0.00 32.32 2.71
7456 7788 4.082733 GGGACCAGCTTTTTCTGTATGTTC 60.083 45.833 0.00 0.00 32.32 3.18
7457 7789 4.762251 GGACCAGCTTTTTCTGTATGTTCT 59.238 41.667 0.00 0.00 32.32 3.01
7458 7790 5.241728 GGACCAGCTTTTTCTGTATGTTCTT 59.758 40.000 0.00 0.00 32.32 2.52
7459 7791 6.430000 GGACCAGCTTTTTCTGTATGTTCTTA 59.570 38.462 0.00 0.00 32.32 2.10
7460 7792 7.040686 GGACCAGCTTTTTCTGTATGTTCTTAA 60.041 37.037 0.00 0.00 32.32 1.85
7461 7793 8.409358 ACCAGCTTTTTCTGTATGTTCTTAAT 57.591 30.769 0.00 0.00 32.32 1.40
7472 7804 7.118245 TCTGTATGTTCTTAATGACACTTGCTG 59.882 37.037 0.00 0.00 0.00 4.41
7511 7843 6.765989 TGTGGGATGTGTCTATATTTAGCAAC 59.234 38.462 0.00 0.00 0.00 4.17
7514 7846 8.052748 TGGGATGTGTCTATATTTAGCAACTTT 58.947 33.333 0.00 0.00 0.00 2.66
7515 7847 9.555727 GGGATGTGTCTATATTTAGCAACTTTA 57.444 33.333 0.00 0.00 0.00 1.85
7519 7851 9.256477 TGTGTCTATATTTAGCAACTTTATCCG 57.744 33.333 0.00 0.00 0.00 4.18
7520 7852 8.709646 GTGTCTATATTTAGCAACTTTATCCGG 58.290 37.037 0.00 0.00 0.00 5.14
7521 7853 7.876068 TGTCTATATTTAGCAACTTTATCCGGG 59.124 37.037 0.00 0.00 0.00 5.73
7522 7854 7.333672 GTCTATATTTAGCAACTTTATCCGGGG 59.666 40.741 0.00 0.00 0.00 5.73
7523 7855 2.047002 TTAGCAACTTTATCCGGGGC 57.953 50.000 0.00 0.00 0.00 5.80
7524 7856 1.209621 TAGCAACTTTATCCGGGGCT 58.790 50.000 0.00 0.95 0.00 5.19
7525 7857 1.209621 AGCAACTTTATCCGGGGCTA 58.790 50.000 0.00 0.00 0.00 3.93
7526 7858 1.774856 AGCAACTTTATCCGGGGCTAT 59.225 47.619 0.00 0.00 0.00 2.97
7527 7859 2.976882 AGCAACTTTATCCGGGGCTATA 59.023 45.455 0.00 0.00 0.00 1.31
7528 7860 3.072211 GCAACTTTATCCGGGGCTATAC 58.928 50.000 0.00 0.00 0.00 1.47
7529 7861 3.323243 CAACTTTATCCGGGGCTATACG 58.677 50.000 0.00 0.00 0.00 3.06
7530 7862 1.274447 ACTTTATCCGGGGCTATACGC 59.726 52.381 0.00 0.00 38.13 4.42
7547 7879 1.801309 CGCCCCCGTGACAATTTTGT 61.801 55.000 0.00 0.00 45.65 2.83
7577 7910 1.694696 GAGAGTGGGAAAGTCTGGTGT 59.305 52.381 0.00 0.00 38.78 4.16
7580 7913 1.843851 AGTGGGAAAGTCTGGTGTGAA 59.156 47.619 0.00 0.00 0.00 3.18
7585 7918 4.099266 TGGGAAAGTCTGGTGTGAATTTTG 59.901 41.667 0.00 0.00 34.93 2.44
7588 7921 2.597455 AGTCTGGTGTGAATTTTGGGG 58.403 47.619 0.00 0.00 0.00 4.96
7591 7924 1.895131 CTGGTGTGAATTTTGGGGAGG 59.105 52.381 0.00 0.00 0.00 4.30
7634 7967 2.513895 CCCGTGTGGAACCACCTT 59.486 61.111 19.39 0.00 45.63 3.50
7635 7968 1.896660 CCCGTGTGGAACCACCTTG 60.897 63.158 19.39 9.98 45.63 3.61
7660 7994 3.195825 CCGTTTCACTACCCTGAGAATCT 59.804 47.826 0.00 0.00 34.92 2.40
7661 7995 4.425520 CGTTTCACTACCCTGAGAATCTC 58.574 47.826 2.75 2.75 34.92 2.75
7662 7996 4.082190 CGTTTCACTACCCTGAGAATCTCA 60.082 45.833 12.87 12.87 38.25 3.27
7672 8006 4.505566 CCCTGAGAATCTCAAACAGGTTCA 60.506 45.833 14.44 0.00 44.00 3.18
7685 8019 8.477419 TCAAACAGGTTCAAATAAATCTTCCT 57.523 30.769 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 84 0.105709 CTCCTTCTCCCCTCCTCTCC 60.106 65.000 0.00 0.00 0.00 3.71
268 282 2.092375 AGAAATCAATCCCCTCCGGTTC 60.092 50.000 0.00 0.00 0.00 3.62
351 365 2.169769 TCCTCTCCTCTCTTCGTCTCTC 59.830 54.545 0.00 0.00 0.00 3.20
352 366 2.170607 CTCCTCTCCTCTCTTCGTCTCT 59.829 54.545 0.00 0.00 0.00 3.10
353 367 2.169769 TCTCCTCTCCTCTCTTCGTCTC 59.830 54.545 0.00 0.00 0.00 3.36
354 368 2.170607 CTCTCCTCTCCTCTCTTCGTCT 59.829 54.545 0.00 0.00 0.00 4.18
355 369 2.169769 TCTCTCCTCTCCTCTCTTCGTC 59.830 54.545 0.00 0.00 0.00 4.20
356 370 2.193127 TCTCTCCTCTCCTCTCTTCGT 58.807 52.381 0.00 0.00 0.00 3.85
357 371 3.275617 TTCTCTCCTCTCCTCTCTTCG 57.724 52.381 0.00 0.00 0.00 3.79
358 372 4.402474 CCTTTTCTCTCCTCTCCTCTCTTC 59.598 50.000 0.00 0.00 0.00 2.87
429 468 1.676678 CTCTCCTCCGGCGATTCCAA 61.677 60.000 9.30 0.00 34.01 3.53
487 526 4.504916 CGGCCAGTCAGCTCTCGG 62.505 72.222 2.24 0.00 0.00 4.63
970 1009 2.187424 CTGCTCCTGCTCCTGCTC 59.813 66.667 0.00 0.00 40.48 4.26
971 1010 3.400928 CCTGCTCCTGCTCCTGCT 61.401 66.667 0.00 0.00 40.48 4.24
1155 1194 0.612174 CCTGGTCCTTCTCGTCCTCA 60.612 60.000 0.00 0.00 0.00 3.86
1377 1421 2.744823 CGACATGGTTAGCTGGCCATAA 60.745 50.000 19.27 0.00 43.05 1.90
1386 1430 0.535335 TGACCTCCGACATGGTTAGC 59.465 55.000 0.00 0.00 39.52 3.09
1461 1508 2.174360 ACGTCCAACTAGTTACTCCCC 58.826 52.381 8.04 0.00 0.00 4.81
1462 1509 3.949842 AACGTCCAACTAGTTACTCCC 57.050 47.619 8.04 0.00 0.00 4.30
1523 1570 2.549134 CCCAACTGTCGACCAACATGTA 60.549 50.000 14.12 0.00 0.00 2.29
1529 1576 0.542333 TTCACCCAACTGTCGACCAA 59.458 50.000 14.12 0.00 0.00 3.67
1534 1581 3.980646 TTTGAATTCACCCAACTGTCG 57.019 42.857 7.89 0.00 0.00 4.35
1568 1615 6.402983 GGAATATCACAGCAGCATTATAGTGC 60.403 42.308 12.02 12.02 45.38 4.40
1592 1639 2.290260 TGGTATCAAACAGACAGCTGGG 60.290 50.000 19.93 9.69 46.60 4.45
1645 1692 6.950860 AAAAAGGAAACATACCATCCCAAT 57.049 33.333 0.00 0.00 33.55 3.16
1716 1764 6.240894 AGAGAAGATGAACCAAGCATTAACA 58.759 36.000 0.00 0.00 0.00 2.41
1739 1787 7.591006 TTAAGAGCGGTTGACTAACAATAAG 57.409 36.000 0.00 0.00 40.76 1.73
1744 1792 4.933400 GGAATTAAGAGCGGTTGACTAACA 59.067 41.667 0.00 0.00 38.58 2.41
1944 1995 2.256174 CAAACATTTGCAGCATCCTCG 58.744 47.619 0.00 0.00 0.00 4.63
2106 2157 0.250727 AACGACCACCCTGAACCATG 60.251 55.000 0.00 0.00 0.00 3.66
2384 2435 9.719355 TGTAGCAGAAAAATATAAGAACACAGA 57.281 29.630 0.00 0.00 0.00 3.41
2385 2436 9.760660 GTGTAGCAGAAAAATATAAGAACACAG 57.239 33.333 0.00 0.00 34.12 3.66
2725 2776 4.127171 GTTCTTGGCAGTACTTTGACAGA 58.873 43.478 0.00 0.00 37.40 3.41
3017 3068 2.417719 GTGTGAGCCCTAAACTGTGAG 58.582 52.381 0.00 0.00 0.00 3.51
3044 3095 6.352516 AGGATCGAAACAAAGAGCAGATATT 58.647 36.000 0.00 0.00 0.00 1.28
3218 3269 1.002659 TGTAACCATACCGCTGCTGTT 59.997 47.619 1.15 0.00 0.00 3.16
3309 3360 6.814954 AAAGATATGTCCTGTATGACCTGT 57.185 37.500 0.00 0.00 34.25 4.00
3759 3810 3.572584 CAAAGAAGGCAGAAGTTCATGC 58.427 45.455 15.03 15.03 41.80 4.06
3779 3830 4.782691 TGTTATCAGAGGATTCAGAACCCA 59.217 41.667 0.00 0.00 34.89 4.51
3861 3912 0.403271 ACCATTGAACTGGCTCAGCT 59.597 50.000 0.00 0.00 40.15 4.24
3917 3968 2.070783 CAACATTTGCAATGTCCTGGC 58.929 47.619 0.00 0.00 0.00 4.85
3939 3990 4.204012 TCCTGTTTAGTTGGTTGTGGAAG 58.796 43.478 0.00 0.00 0.00 3.46
4026 4077 3.611766 ACCTCTTTTCTGGATACACCG 57.388 47.619 0.00 0.00 46.17 4.94
4363 4414 3.381272 TGGCATTACCTATTTTGCTCAGC 59.619 43.478 0.00 0.00 40.22 4.26
4572 4667 3.695830 ACCGGCAGAGATGTTCTAAAA 57.304 42.857 0.00 0.00 33.83 1.52
4685 4780 6.389830 AGACTATAGATCAAGACACTGCAG 57.610 41.667 13.48 13.48 0.00 4.41
4708 4803 8.407832 CAATACAAATTGACATCCTATGCTCAA 58.592 33.333 0.00 0.00 44.50 3.02
4788 4884 8.767478 ATTTTTCTGATTCCATGTTCAATGTC 57.233 30.769 0.00 0.00 0.00 3.06
4836 4934 7.098477 CAGAAACATATGGCCTTTTCATGAAA 58.902 34.615 16.91 16.91 31.57 2.69
4840 4938 7.716799 TTACAGAAACATATGGCCTTTTCAT 57.283 32.000 3.32 8.11 31.57 2.57
4849 4947 5.895636 TGGCAGTTTACAGAAACATATGG 57.104 39.130 7.80 0.00 46.30 2.74
4856 4954 4.207165 AGCTTCTTGGCAGTTTACAGAAA 58.793 39.130 0.00 0.00 34.17 2.52
4979 5078 4.049186 TGCGAGACAAGAAAGTTAGACAC 58.951 43.478 0.00 0.00 0.00 3.67
5076 5175 8.425491 CAAGTATAAACAAGACTTAGTGACACG 58.575 37.037 0.00 0.00 37.54 4.49
5113 5212 6.901300 TGATTGAGTAGATTAGTTACAGGGGT 59.099 38.462 0.00 0.00 0.00 4.95
5133 5336 4.088634 TGGGGAAATCCTTGAGTTGATTG 58.911 43.478 0.00 0.00 35.95 2.67
5144 5347 2.291346 CGGTAGGTTTTGGGGAAATCCT 60.291 50.000 0.00 0.00 34.90 3.24
5159 5362 7.568199 AAAATAAGACAATCCATTCGGTAGG 57.432 36.000 0.00 0.00 0.00 3.18
5220 5423 8.578308 TGCAAGAGAGTAATTCAAACAATTTG 57.422 30.769 0.00 0.00 41.96 2.32
5329 5560 3.334583 ACGACACTGGCATCACTTATT 57.665 42.857 0.00 0.00 0.00 1.40
5343 5574 5.572126 GTCTACCTAAGTTCATCAACGACAC 59.428 44.000 0.00 0.00 37.61 3.67
5362 5593 8.894768 ATGTGATAATCTAAGCAAAGGTCTAC 57.105 34.615 0.00 0.00 0.00 2.59
5433 5666 5.588240 AGCATGACACATTCATATGCAAAG 58.412 37.500 9.76 0.00 43.68 2.77
5502 5794 3.795877 ACTCAAAAGTTGCATTGGTTGG 58.204 40.909 0.00 0.00 28.74 3.77
5575 5867 5.241728 GCCCTGTTTATCTCCATGGTAATTC 59.758 44.000 12.58 1.40 0.00 2.17
5578 5870 3.525609 TGCCCTGTTTATCTCCATGGTAA 59.474 43.478 12.58 0.00 0.00 2.85
5628 5920 6.653740 GGTTTGACTACTTAGCACCAAGTAAT 59.346 38.462 6.93 0.00 39.79 1.89
5655 5947 5.812652 ACTCGTCAAAAGTTCGCATAAAAA 58.187 33.333 0.00 0.00 0.00 1.94
5657 5949 4.748102 AGACTCGTCAAAAGTTCGCATAAA 59.252 37.500 0.00 0.00 0.00 1.40
5664 5956 6.823678 TCAGTTAAGACTCGTCAAAAGTTC 57.176 37.500 0.00 0.00 32.54 3.01
5673 5965 6.980051 AACAAAACTTCAGTTAAGACTCGT 57.020 33.333 0.00 0.00 38.67 4.18
5674 5966 8.669394 AAAAACAAAACTTCAGTTAAGACTCG 57.331 30.769 0.00 0.00 38.67 4.18
5778 6070 4.149396 GCGGATAATGCATTCTGAAATTGC 59.851 41.667 16.86 8.13 0.00 3.56
5811 6103 4.224147 TCCTTTGCCAAGCTATACTGTGTA 59.776 41.667 0.00 0.00 0.00 2.90
5825 6117 2.804986 TGCATCACTATCCTTTGCCA 57.195 45.000 0.00 0.00 32.39 4.92
5886 6178 6.851837 TCAAATTTCACAACGTATGTTTACCG 59.148 34.615 0.00 0.00 41.46 4.02
5942 6236 9.962783 GCAAGATTAAGCATCTCTTTCAATAAT 57.037 29.630 0.00 0.00 41.93 1.28
5972 6266 7.541091 CCATTCATGTTCTCTGTTTTTCTCATG 59.459 37.037 0.00 0.00 34.62 3.07
6251 6545 4.080299 GGAGAAGGTGACCCATTATCAAGT 60.080 45.833 0.00 0.00 0.00 3.16
6263 6557 0.606604 TACTTGCGGGAGAAGGTGAC 59.393 55.000 0.00 0.00 0.00 3.67
6434 6728 7.939588 AGTTCTGATATTTTACAATAGCCCTCC 59.060 37.037 0.00 0.00 31.25 4.30
6649 6945 3.796178 AGCGCAAACACAAAAGTACAATG 59.204 39.130 11.47 0.00 0.00 2.82
6892 7189 2.872858 GACACAAACTCCAGAGTGAACC 59.127 50.000 0.05 0.00 41.58 3.62
6910 7207 1.330655 GCCTGGAGGGATCTTCGACA 61.331 60.000 0.00 0.00 37.23 4.35
7083 7380 2.035442 GCTCGCCAGGGTTTCAGAC 61.035 63.158 0.00 0.00 0.00 3.51
7254 7551 4.899352 ACACAAAGAGGAGAACATAGCT 57.101 40.909 0.00 0.00 0.00 3.32
7255 7552 5.239525 ACAAACACAAAGAGGAGAACATAGC 59.760 40.000 0.00 0.00 0.00 2.97
7256 7553 6.260936 ACACAAACACAAAGAGGAGAACATAG 59.739 38.462 0.00 0.00 0.00 2.23
7257 7554 6.119536 ACACAAACACAAAGAGGAGAACATA 58.880 36.000 0.00 0.00 0.00 2.29
7258 7555 4.949856 ACACAAACACAAAGAGGAGAACAT 59.050 37.500 0.00 0.00 0.00 2.71
7259 7556 4.331968 ACACAAACACAAAGAGGAGAACA 58.668 39.130 0.00 0.00 0.00 3.18
7260 7557 4.965119 ACACAAACACAAAGAGGAGAAC 57.035 40.909 0.00 0.00 0.00 3.01
7262 7559 3.128589 GCAACACAAACACAAAGAGGAGA 59.871 43.478 0.00 0.00 0.00 3.71
7263 7560 3.119531 TGCAACACAAACACAAAGAGGAG 60.120 43.478 0.00 0.00 0.00 3.69
7264 7561 2.822561 TGCAACACAAACACAAAGAGGA 59.177 40.909 0.00 0.00 0.00 3.71
7266 7563 3.000523 GCATGCAACACAAACACAAAGAG 59.999 43.478 14.21 0.00 0.00 2.85
7267 7564 2.928757 GCATGCAACACAAACACAAAGA 59.071 40.909 14.21 0.00 0.00 2.52
7353 7668 9.310449 ACGCTCTTATATTTCTTTATAGAGGGA 57.690 33.333 16.73 0.00 37.30 4.20
7354 7669 9.930693 AACGCTCTTATATTTCTTTATAGAGGG 57.069 33.333 0.00 0.00 38.95 4.30
7372 7687 9.522804 CATTAAAGTAGAGATCTAAACGCTCTT 57.477 33.333 0.00 0.00 39.54 2.85
7373 7688 8.904834 TCATTAAAGTAGAGATCTAAACGCTCT 58.095 33.333 0.00 0.00 41.53 4.09
7374 7689 9.685828 ATCATTAAAGTAGAGATCTAAACGCTC 57.314 33.333 0.00 0.00 0.00 5.03
7415 7747 7.417003 GCTGGTCCCTTTGTAAAGTAAAGAAAA 60.417 37.037 3.90 0.00 37.33 2.29
7424 7756 4.937201 AAAAGCTGGTCCCTTTGTAAAG 57.063 40.909 0.00 0.00 33.14 1.85
7425 7757 4.959839 AGAAAAAGCTGGTCCCTTTGTAAA 59.040 37.500 0.00 0.00 33.14 2.01
7426 7758 4.340950 CAGAAAAAGCTGGTCCCTTTGTAA 59.659 41.667 0.00 0.00 33.14 2.41
7427 7759 3.888930 CAGAAAAAGCTGGTCCCTTTGTA 59.111 43.478 0.00 0.00 33.14 2.41
7428 7760 2.695147 CAGAAAAAGCTGGTCCCTTTGT 59.305 45.455 0.00 0.00 33.14 2.83
7429 7761 2.695147 ACAGAAAAAGCTGGTCCCTTTG 59.305 45.455 0.00 0.00 40.20 2.77
7430 7762 3.032265 ACAGAAAAAGCTGGTCCCTTT 57.968 42.857 0.00 0.00 40.20 3.11
7432 7764 3.074538 ACATACAGAAAAAGCTGGTCCCT 59.925 43.478 0.00 0.00 40.20 4.20
7433 7765 3.421844 ACATACAGAAAAAGCTGGTCCC 58.578 45.455 0.00 0.00 40.20 4.46
7434 7766 4.762251 AGAACATACAGAAAAAGCTGGTCC 59.238 41.667 0.00 0.00 40.20 4.46
7435 7767 5.948992 AGAACATACAGAAAAAGCTGGTC 57.051 39.130 0.00 0.00 40.20 4.02
7436 7768 7.817418 TTAAGAACATACAGAAAAAGCTGGT 57.183 32.000 0.00 0.00 40.20 4.00
7437 7769 8.514594 TCATTAAGAACATACAGAAAAAGCTGG 58.485 33.333 0.00 0.00 40.20 4.85
7438 7770 9.334693 GTCATTAAGAACATACAGAAAAAGCTG 57.665 33.333 0.00 0.00 41.63 4.24
7439 7771 9.066892 TGTCATTAAGAACATACAGAAAAAGCT 57.933 29.630 0.00 0.00 0.00 3.74
7440 7772 9.118236 GTGTCATTAAGAACATACAGAAAAAGC 57.882 33.333 0.00 0.00 0.00 3.51
7444 7776 8.289618 GCAAGTGTCATTAAGAACATACAGAAA 58.710 33.333 0.00 0.00 0.00 2.52
7445 7777 7.661437 AGCAAGTGTCATTAAGAACATACAGAA 59.339 33.333 0.00 0.00 0.00 3.02
7446 7778 7.118245 CAGCAAGTGTCATTAAGAACATACAGA 59.882 37.037 0.00 0.00 0.00 3.41
7447 7779 7.239271 CAGCAAGTGTCATTAAGAACATACAG 58.761 38.462 0.00 0.00 0.00 2.74
7448 7780 6.348458 GCAGCAAGTGTCATTAAGAACATACA 60.348 38.462 0.00 0.00 0.00 2.29
7449 7781 6.024049 GCAGCAAGTGTCATTAAGAACATAC 58.976 40.000 0.00 0.00 0.00 2.39
7450 7782 5.163864 CGCAGCAAGTGTCATTAAGAACATA 60.164 40.000 0.00 0.00 0.00 2.29
7451 7783 4.378770 CGCAGCAAGTGTCATTAAGAACAT 60.379 41.667 0.00 0.00 0.00 2.71
7452 7784 3.058983 CGCAGCAAGTGTCATTAAGAACA 60.059 43.478 0.00 0.00 0.00 3.18
7453 7785 3.482786 CGCAGCAAGTGTCATTAAGAAC 58.517 45.455 0.00 0.00 0.00 3.01
7454 7786 2.483877 CCGCAGCAAGTGTCATTAAGAA 59.516 45.455 0.00 0.00 0.00 2.52
7455 7787 2.076100 CCGCAGCAAGTGTCATTAAGA 58.924 47.619 0.00 0.00 0.00 2.10
7456 7788 2.076100 TCCGCAGCAAGTGTCATTAAG 58.924 47.619 0.00 0.00 0.00 1.85
7457 7789 2.177394 TCCGCAGCAAGTGTCATTAA 57.823 45.000 0.00 0.00 0.00 1.40
7458 7790 2.177394 TTCCGCAGCAAGTGTCATTA 57.823 45.000 0.00 0.00 0.00 1.90
7459 7791 1.317613 TTTCCGCAGCAAGTGTCATT 58.682 45.000 0.00 0.00 0.00 2.57
7460 7792 1.538047 ATTTCCGCAGCAAGTGTCAT 58.462 45.000 0.00 0.00 0.00 3.06
7461 7793 1.317613 AATTTCCGCAGCAAGTGTCA 58.682 45.000 0.00 0.00 0.00 3.58
7472 7804 2.088423 TCCCACACATGTAATTTCCGC 58.912 47.619 0.00 0.00 0.00 5.54
7511 7843 2.005971 GCGTATAGCCCCGGATAAAG 57.994 55.000 0.73 0.00 40.81 1.85
7523 7855 0.391597 ATTGTCACGGGGGCGTATAG 59.608 55.000 0.00 0.00 0.00 1.31
7524 7856 0.831966 AATTGTCACGGGGGCGTATA 59.168 50.000 0.00 0.00 0.00 1.47
7525 7857 0.034863 AAATTGTCACGGGGGCGTAT 60.035 50.000 0.00 0.00 0.00 3.06
7526 7858 0.250814 AAAATTGTCACGGGGGCGTA 60.251 50.000 0.00 0.00 0.00 4.42
7527 7859 1.529713 AAAATTGTCACGGGGGCGT 60.530 52.632 0.00 0.00 0.00 5.68
7528 7860 1.080839 CAAAATTGTCACGGGGGCG 60.081 57.895 0.00 0.00 0.00 6.13
7529 7861 2.046108 ACAAAATTGTCACGGGGGC 58.954 52.632 0.00 0.00 36.50 5.80
7538 7870 7.551974 CCACTCTCTGATCTATGACAAAATTGT 59.448 37.037 0.00 0.00 45.65 2.71
7539 7871 7.012138 CCCACTCTCTGATCTATGACAAAATTG 59.988 40.741 0.00 0.00 0.00 2.32
7540 7872 7.052873 CCCACTCTCTGATCTATGACAAAATT 58.947 38.462 0.00 0.00 0.00 1.82
7541 7873 6.385176 TCCCACTCTCTGATCTATGACAAAAT 59.615 38.462 0.00 0.00 0.00 1.82
7547 7879 5.523588 ACTTTCCCACTCTCTGATCTATGA 58.476 41.667 0.00 0.00 0.00 2.15
7557 7889 1.694696 ACACCAGACTTTCCCACTCTC 59.305 52.381 0.00 0.00 0.00 3.20
7560 7892 1.507140 TCACACCAGACTTTCCCACT 58.493 50.000 0.00 0.00 0.00 4.00
7562 7894 3.593442 AATTCACACCAGACTTTCCCA 57.407 42.857 0.00 0.00 0.00 4.37
7577 7910 1.253100 GAACGCCTCCCCAAAATTCA 58.747 50.000 0.00 0.00 0.00 2.57
7580 7913 4.434483 GGAACGCCTCCCCAAAAT 57.566 55.556 0.00 0.00 38.44 1.82
7607 7940 2.014010 TCCACACGGGGGTATATACC 57.986 55.000 21.88 21.88 45.71 2.73
7608 7941 2.037641 GGTTCCACACGGGGGTATATAC 59.962 54.545 4.14 4.14 37.22 1.47
7609 7942 2.328319 GGTTCCACACGGGGGTATATA 58.672 52.381 0.00 0.00 37.22 0.86
7610 7943 1.134228 GGTTCCACACGGGGGTATAT 58.866 55.000 0.00 0.00 37.22 0.86
7611 7944 0.252604 TGGTTCCACACGGGGGTATA 60.253 55.000 0.00 0.00 37.22 1.47
7612 7945 1.539372 TGGTTCCACACGGGGGTAT 60.539 57.895 0.00 0.00 37.22 2.73
7613 7946 2.122503 TGGTTCCACACGGGGGTA 60.123 61.111 0.00 0.00 37.22 3.69
7614 7947 3.881104 GTGGTTCCACACGGGGGT 61.881 66.667 16.01 0.00 36.97 4.95
7634 7967 2.036733 CTCAGGGTAGTGAAACGGAACA 59.963 50.000 0.00 0.00 45.86 3.18
7635 7968 2.298163 TCTCAGGGTAGTGAAACGGAAC 59.702 50.000 0.00 0.00 45.86 3.62
7640 7973 5.407407 TGAGATTCTCAGGGTAGTGAAAC 57.593 43.478 12.38 0.00 35.39 2.78
7660 7994 8.477419 AGGAAGATTTATTTGAACCTGTTTGA 57.523 30.769 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.