Multiple sequence alignment - TraesCS6A01G177300

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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 TraesCS6A01G177300 chr6A 100.000 4410 0 0 1 4410 196872477 196868068 0.000000e+00 8144
1 TraesCS6A01G177300 chr6D 92.480 3125 124 44 905 3972 149303050 149306120 0.000000e+00 4366
2 TraesCS6A01G177300 chr6D 89.989 919 47 22 1 904 149302126 149303014 0.000000e+00 1146
3 TraesCS6A01G177300 chr6D 91.932 409 16 9 3993 4398 149306104 149306498 1.390000e-154 556
4 TraesCS6A01G177300 chr6B 90.316 2406 90 56 457 2786 262273030 262275368 0.000000e+00 3020
5 TraesCS6A01G177300 chr6B 85.894 1191 97 43 2788 3972 262275405 262276530 0.000000e+00 1203
6 TraesCS6A01G177300 chr6B 89.863 365 25 4 3 357 262272673 262273035 4.020000e-125 459
7 TraesCS6A01G177300 chr6B 90.102 293 13 8 3993 4276 262276514 262276799 2.510000e-97 366
8 TraesCS6A01G177300 chr6B 92.000 200 13 3 1 200 262267089 262267285 1.210000e-70 278
9 TraesCS6A01G177300 chr6B 98.462 65 0 1 4314 4377 262276799 262276863 3.600000e-21 113
10 TraesCS6A01G177300 chr7A 83.887 602 73 18 1773 2367 546263465 546262881 1.790000e-153 553
11 TraesCS6A01G177300 chr7A 89.744 234 24 0 1094 1327 546263810 546263577 2.580000e-77 300
12 TraesCS6A01G177300 chr7D 82.943 598 80 18 1773 2367 450246722 450246144 1.820000e-143 520
13 TraesCS6A01G177300 chr7B 88.593 263 25 5 2106 2367 468407003 468406745 9.210000e-82 315
14 TraesCS6A01G177300 chr7B 89.700 233 24 0 1773 2005 468407320 468407088 9.270000e-77 298


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 TraesCS6A01G177300 chr6A 196868068 196872477 4409 True 8144.000000 8144 100.0000 1 4410 1 chr6A.!!$R1 4409
1 TraesCS6A01G177300 chr6D 149302126 149306498 4372 False 2022.666667 4366 91.4670 1 4398 3 chr6D.!!$F1 4397
2 TraesCS6A01G177300 chr6B 262272673 262276863 4190 False 1032.200000 3020 90.9274 3 4377 5 chr6B.!!$F2 4374
3 TraesCS6A01G177300 chr7A 546262881 546263810 929 True 426.500000 553 86.8155 1094 2367 2 chr7A.!!$R1 1273
4 TraesCS6A01G177300 chr7D 450246144 450246722 578 True 520.000000 520 82.9430 1773 2367 1 chr7D.!!$R1 594
5 TraesCS6A01G177300 chr7B 468406745 468407320 575 True 306.500000 315 89.1465 1773 2367 2 chr7B.!!$R1 594

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
604 625 0.597568 TGTGCTGGGAAAAATGCGAG 59.402 50.0 0.0 0.0 0.00 5.03 F
1453 1527 0.388659 ATCATCTGCCTGCGTCTCTC 59.611 55.0 0.0 0.0 0.00 3.20 F
1720 1816 0.034896 TTCCCTCTGGTTCTTGCGTC 59.965 55.0 0.0 0.0 0.00 5.19 F
2084 2231 0.107897 CGGTTGGATGAACGGATGGA 60.108 55.0 0.0 0.0 37.11 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1518 1592 0.253327 AGAAAATCGGACAGGGAGGC 59.747 55.000 0.0 0.0 0.0 4.70 R
3356 3539 1.000646 AGGAGGAGGTCGTGGAGTC 60.001 63.158 0.0 0.0 0.0 3.36 R
3357 3540 1.000646 GAGGAGGAGGTCGTGGAGT 60.001 63.158 0.0 0.0 0.0 3.85 R
3939 4161 0.317160 GATCACCGACCACACACTGA 59.683 55.000 0.0 0.0 0.0 3.41 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
98 99 9.265901 CAATAAATCGGAAATGAGACAGTAGAT 57.734 33.333 0.00 0.00 0.00 1.98
99 100 9.482627 AATAAATCGGAAATGAGACAGTAGATC 57.517 33.333 0.00 0.00 0.00 2.75
203 214 2.412325 GGAAATGGTTTGCGTACGACAG 60.412 50.000 21.65 0.00 0.00 3.51
242 253 3.602489 CGTACGACCATACGCAGAATATG 59.398 47.826 10.44 0.00 41.28 1.78
295 306 2.863137 GTCTCTGATGGAGTTTCATCGC 59.137 50.000 0.00 0.00 44.68 4.58
328 343 8.487176 AGCATTGCTCTTGTTTTAAATAAAACG 58.513 29.630 18.70 9.52 45.22 3.60
383 398 7.160049 TCTAACCATCTACTACACTCCTATCG 58.840 42.308 0.00 0.00 0.00 2.92
400 415 8.110908 ACTCCTATCGTTAGATATAGCTTCCTT 58.889 37.037 0.00 0.00 38.55 3.36
401 416 9.616156 CTCCTATCGTTAGATATAGCTTCCTTA 57.384 37.037 0.00 0.00 38.55 2.69
521 541 2.029838 ATGAACTGGAACTGCCGATC 57.970 50.000 0.00 0.00 40.66 3.69
522 542 0.684535 TGAACTGGAACTGCCGATCA 59.315 50.000 0.00 0.00 40.66 2.92
523 543 1.278985 TGAACTGGAACTGCCGATCAT 59.721 47.619 0.00 0.00 40.66 2.45
525 545 3.134623 TGAACTGGAACTGCCGATCATAT 59.865 43.478 0.00 0.00 40.66 1.78
526 546 3.117491 ACTGGAACTGCCGATCATATG 57.883 47.619 0.00 0.00 40.66 1.78
527 547 2.700371 ACTGGAACTGCCGATCATATGA 59.300 45.455 8.10 8.10 40.66 2.15
528 548 3.062763 CTGGAACTGCCGATCATATGAC 58.937 50.000 7.78 1.55 40.66 3.06
529 549 2.224281 TGGAACTGCCGATCATATGACC 60.224 50.000 7.78 0.00 40.66 4.02
530 550 2.224281 GGAACTGCCGATCATATGACCA 60.224 50.000 7.78 2.62 0.00 4.02
533 553 4.090761 ACTGCCGATCATATGACCAAAT 57.909 40.909 7.78 0.00 0.00 2.32
603 624 1.035923 TTGTGCTGGGAAAAATGCGA 58.964 45.000 0.00 0.00 0.00 5.10
604 625 0.597568 TGTGCTGGGAAAAATGCGAG 59.402 50.000 0.00 0.00 0.00 5.03
605 626 0.881118 GTGCTGGGAAAAATGCGAGA 59.119 50.000 0.00 0.00 0.00 4.04
606 627 1.269448 GTGCTGGGAAAAATGCGAGAA 59.731 47.619 0.00 0.00 0.00 2.87
607 628 1.959985 TGCTGGGAAAAATGCGAGAAA 59.040 42.857 0.00 0.00 0.00 2.52
608 629 2.562298 TGCTGGGAAAAATGCGAGAAAT 59.438 40.909 0.00 0.00 0.00 2.17
609 630 2.925563 GCTGGGAAAAATGCGAGAAATG 59.074 45.455 0.00 0.00 0.00 2.32
610 631 3.614870 GCTGGGAAAAATGCGAGAAATGT 60.615 43.478 0.00 0.00 0.00 2.71
611 632 4.168760 CTGGGAAAAATGCGAGAAATGTC 58.831 43.478 0.00 0.00 0.00 3.06
612 633 3.171277 GGGAAAAATGCGAGAAATGTCG 58.829 45.455 0.00 0.00 43.08 4.35
722 754 6.152932 ACTTCGTTGACTCTTTACTAACCA 57.847 37.500 0.00 0.00 0.00 3.67
723 755 6.576185 ACTTCGTTGACTCTTTACTAACCAA 58.424 36.000 0.00 0.00 0.00 3.67
724 756 6.478016 ACTTCGTTGACTCTTTACTAACCAAC 59.522 38.462 0.00 0.00 0.00 3.77
725 757 5.291971 TCGTTGACTCTTTACTAACCAACC 58.708 41.667 0.00 0.00 31.54 3.77
726 758 5.069516 TCGTTGACTCTTTACTAACCAACCT 59.930 40.000 0.00 0.00 31.54 3.50
742 774 3.181459 CCAACCTACCCCCAAAACAAAAG 60.181 47.826 0.00 0.00 0.00 2.27
746 778 2.708216 ACCCCCAAAACAAAAGCAAG 57.292 45.000 0.00 0.00 0.00 4.01
753 785 2.008752 AAACAAAAGCAAGCAACGCT 57.991 40.000 0.00 0.00 42.56 5.07
754 786 2.861462 AACAAAAGCAAGCAACGCTA 57.139 40.000 0.00 0.00 38.25 4.26
759 791 3.440415 GCAAGCAACGCTACCCCC 61.440 66.667 0.00 0.00 38.25 5.40
784 816 3.420482 CTCTTCCCCGGCCCCATT 61.420 66.667 0.00 0.00 0.00 3.16
806 838 3.775654 CCGGCCTTCGCTTCTCCT 61.776 66.667 0.00 0.00 37.59 3.69
807 839 2.202810 CGGCCTTCGCTTCTCCTC 60.203 66.667 0.00 0.00 34.44 3.71
890 922 0.969894 CCAAAACCCCACGCCATTAA 59.030 50.000 0.00 0.00 0.00 1.40
892 924 0.599060 AAAACCCCACGCCATTAACG 59.401 50.000 0.00 0.00 0.00 3.18
904 936 2.098233 ATTAACGCCGGCTCACGTG 61.098 57.895 26.68 9.94 42.68 4.49
905 937 2.495366 ATTAACGCCGGCTCACGTGA 62.495 55.000 26.68 18.88 42.68 4.35
906 938 3.620300 TAACGCCGGCTCACGTGAG 62.620 63.158 35.80 35.80 42.68 3.51
909 941 3.749064 GCCGGCTCACGTGAGAGA 61.749 66.667 42.03 12.14 44.74 3.10
914 976 1.704070 GGCTCACGTGAGAGAAGAAC 58.296 55.000 42.03 24.76 44.74 3.01
915 977 1.332178 GCTCACGTGAGAGAAGAACG 58.668 55.000 42.03 18.82 44.74 3.95
923 991 1.539827 TGAGAGAAGAACGACGCATCA 59.460 47.619 0.00 0.00 0.00 3.07
944 1012 4.408396 TCTTCCCCGCCCTGCCTA 62.408 66.667 0.00 0.00 0.00 3.93
950 1018 4.537433 CCGCCCTGCCTACTCTGC 62.537 72.222 0.00 0.00 0.00 4.26
1200 1274 3.399181 TACCGCTTCCTGCTGGGG 61.399 66.667 10.07 5.48 38.83 4.96
1422 1496 4.697514 TGTGCAAGAATAGTATCTCAGCC 58.302 43.478 0.00 0.00 32.49 4.85
1423 1497 4.162131 TGTGCAAGAATAGTATCTCAGCCA 59.838 41.667 0.00 0.00 32.49 4.75
1424 1498 4.749099 GTGCAAGAATAGTATCTCAGCCAG 59.251 45.833 0.00 0.00 32.49 4.85
1425 1499 3.745458 GCAAGAATAGTATCTCAGCCAGC 59.255 47.826 0.00 0.00 0.00 4.85
1426 1500 4.314121 CAAGAATAGTATCTCAGCCAGCC 58.686 47.826 0.00 0.00 0.00 4.85
1427 1501 3.581101 AGAATAGTATCTCAGCCAGCCA 58.419 45.455 0.00 0.00 0.00 4.75
1428 1502 3.577848 AGAATAGTATCTCAGCCAGCCAG 59.422 47.826 0.00 0.00 0.00 4.85
1429 1503 1.043816 TAGTATCTCAGCCAGCCAGC 58.956 55.000 0.00 0.00 0.00 4.85
1453 1527 0.388659 ATCATCTGCCTGCGTCTCTC 59.611 55.000 0.00 0.00 0.00 3.20
1454 1528 0.967380 TCATCTGCCTGCGTCTCTCA 60.967 55.000 0.00 0.00 0.00 3.27
1460 1534 2.125753 CTGCGTCTCTCAGTGGCC 60.126 66.667 0.00 0.00 0.00 5.36
1518 1592 1.649664 CTTGTTGATCTGCTCCCTCG 58.350 55.000 0.00 0.00 0.00 4.63
1550 1624 2.162408 CGATTTTCTGTTTGGCTCCTCC 59.838 50.000 0.00 0.00 0.00 4.30
1560 1634 1.760480 GGCTCCTCCCTCTGTCTCC 60.760 68.421 0.00 0.00 0.00 3.71
1565 1639 2.039624 TCCCTCTGTCTCCCTGCC 59.960 66.667 0.00 0.00 0.00 4.85
1643 1720 5.067936 CCTAGCTTATCTCTCTTCCGTTTGA 59.932 44.000 0.00 0.00 0.00 2.69
1660 1737 4.261572 CGTTTGAGCATATGGGGTTTATGG 60.262 45.833 4.56 0.00 0.00 2.74
1663 1740 2.558359 GAGCATATGGGGTTTATGGCAC 59.442 50.000 4.56 0.00 0.00 5.01
1687 1764 1.273606 CTTCGCTTCTTCCTCCTCACA 59.726 52.381 0.00 0.00 0.00 3.58
1688 1765 0.603569 TCGCTTCTTCCTCCTCACAC 59.396 55.000 0.00 0.00 0.00 3.82
1720 1816 0.034896 TTCCCTCTGGTTCTTGCGTC 59.965 55.000 0.00 0.00 0.00 5.19
1752 1859 1.644786 CCGTCCTTTTGGGTCATCGC 61.645 60.000 0.00 0.00 40.87 4.58
1765 1873 2.479560 GGTCATCGCTAATGGTTTTGGC 60.480 50.000 0.00 0.00 35.94 4.52
2006 2114 1.611592 CGACAACCTCAACGTACGGC 61.612 60.000 21.06 0.00 0.00 5.68
2029 2137 1.455383 CGTGCTGCTCCCCTGTTTTT 61.455 55.000 0.00 0.00 0.00 1.94
2033 2141 1.688735 GCTGCTCCCCTGTTTTTCTTT 59.311 47.619 0.00 0.00 0.00 2.52
2083 2230 0.392461 ACGGTTGGATGAACGGATGG 60.392 55.000 0.00 0.00 38.08 3.51
2084 2231 0.107897 CGGTTGGATGAACGGATGGA 60.108 55.000 0.00 0.00 37.11 3.41
2615 2762 2.029844 GTGGAGGAGTGCAAGACGC 61.030 63.158 0.00 0.00 42.89 5.19
2737 2884 4.796231 GACGTGTGCGGCTCCGAT 62.796 66.667 13.11 4.72 44.12 4.18
2798 2980 2.733517 GTCCTCTCATCCGATTCGTTC 58.266 52.381 5.20 0.00 0.00 3.95
2801 2983 0.384309 TCTCATCCGATTCGTTCCCG 59.616 55.000 5.20 0.00 0.00 5.14
2855 3037 1.268625 GAAGGGCGTTTCGGTCATTTT 59.731 47.619 0.00 0.00 0.00 1.82
2856 3038 0.879090 AGGGCGTTTCGGTCATTTTC 59.121 50.000 0.00 0.00 0.00 2.29
2858 3040 1.135774 GGGCGTTTCGGTCATTTTCTC 60.136 52.381 0.00 0.00 0.00 2.87
2879 3061 0.598680 AAGCGCTGACACACACTCTC 60.599 55.000 12.58 0.00 0.00 3.20
2880 3062 1.006805 GCGCTGACACACACTCTCT 60.007 57.895 0.00 0.00 0.00 3.10
2923 3106 1.236628 GACAGCTGGGCATGATCATC 58.763 55.000 19.93 0.97 0.00 2.92
3224 3407 3.136123 CCAAGCTCACCATGGCCG 61.136 66.667 13.04 3.06 0.00 6.13
3369 3552 4.131088 GGCGGACTCCACGACCTC 62.131 72.222 0.00 0.00 31.94 3.85
3370 3553 4.131088 GCGGACTCCACGACCTCC 62.131 72.222 0.00 0.00 0.00 4.30
3388 3574 2.037367 TCCTCCTGTCCCAGACCG 59.963 66.667 0.00 0.00 32.44 4.79
3404 3590 3.187227 CAGACCGGAATTCTTGTGTCAAG 59.813 47.826 9.46 3.44 0.00 3.02
3436 3622 7.064371 CAGAACATGAGAATGTTTCCACTAGAG 59.936 40.741 0.00 0.00 44.02 2.43
3442 3628 8.190326 TGAGAATGTTTCCACTAGAGTAGAAA 57.810 34.615 0.00 0.00 34.27 2.52
3465 3651 0.621862 AGAAGGGTAGGGCAGGAAGG 60.622 60.000 0.00 0.00 0.00 3.46
3466 3652 1.619669 AAGGGTAGGGCAGGAAGGG 60.620 63.158 0.00 0.00 0.00 3.95
3467 3653 3.097162 GGGTAGGGCAGGAAGGGG 61.097 72.222 0.00 0.00 0.00 4.79
3468 3654 3.810188 GGTAGGGCAGGAAGGGGC 61.810 72.222 0.00 0.00 0.00 5.80
3500 3686 2.330440 CATGGATGGACATGGACGAA 57.670 50.000 0.00 0.00 43.44 3.85
3501 3687 2.642427 CATGGATGGACATGGACGAAA 58.358 47.619 0.00 0.00 43.44 3.46
3502 3688 2.869101 TGGATGGACATGGACGAAAA 57.131 45.000 0.00 0.00 0.00 2.29
3503 3689 3.364460 TGGATGGACATGGACGAAAAT 57.636 42.857 0.00 0.00 0.00 1.82
3544 3751 3.952628 GACCGAAACGCCCCTCCAG 62.953 68.421 0.00 0.00 0.00 3.86
3564 3771 4.715130 AGCCCCTCGCCCTGTGTA 62.715 66.667 0.00 0.00 38.78 2.90
3604 3816 3.587061 TCCAGGTGATAGAAAGAGCCAAA 59.413 43.478 0.00 0.00 0.00 3.28
3609 3821 5.884792 AGGTGATAGAAAGAGCCAAAGAATG 59.115 40.000 0.00 0.00 0.00 2.67
3645 3862 4.666253 CCTGTGTGTGGGCTGGGG 62.666 72.222 0.00 0.00 0.00 4.96
3701 3923 1.379642 CGGATCAGGCCAGCCTTTTC 61.380 60.000 8.91 8.66 45.70 2.29
3755 3977 2.284995 ACCCCACCTCTGCTCCTC 60.285 66.667 0.00 0.00 0.00 3.71
3789 4011 2.345760 GCCCATGGCTTCTGGTGTG 61.346 63.158 6.09 0.00 46.69 3.82
3814 4036 9.508642 TGTGTATTTGTACAGATGTTTATTCCA 57.491 29.630 9.08 0.00 0.00 3.53
3822 4044 9.276590 TGTACAGATGTTTATTCCATCATCATC 57.723 33.333 0.00 0.00 40.93 2.92
3823 4045 9.276590 GTACAGATGTTTATTCCATCATCATCA 57.723 33.333 0.00 0.00 40.93 3.07
3824 4046 8.935614 ACAGATGTTTATTCCATCATCATCAT 57.064 30.769 0.00 0.00 40.93 2.45
3836 4058 1.664151 CATCATCATCATCATCGCCCG 59.336 52.381 0.00 0.00 0.00 6.13
3859 4081 4.519350 GTCGGGAAGGAAAGAAGTGAAAAT 59.481 41.667 0.00 0.00 0.00 1.82
3865 4087 5.774498 AGGAAAGAAGTGAAAATGGTGTC 57.226 39.130 0.00 0.00 0.00 3.67
3866 4088 5.200483 AGGAAAGAAGTGAAAATGGTGTCA 58.800 37.500 0.00 0.00 0.00 3.58
3867 4089 5.835280 AGGAAAGAAGTGAAAATGGTGTCAT 59.165 36.000 0.00 0.00 34.56 3.06
3869 4091 6.461509 GGAAAGAAGTGAAAATGGTGTCATGT 60.462 38.462 0.00 0.00 33.18 3.21
3870 4092 6.469782 AAGAAGTGAAAATGGTGTCATGTT 57.530 33.333 0.00 0.00 33.71 2.71
3874 4096 9.295825 AGAAGTGAAAATGGTGTCATGTTTATA 57.704 29.630 0.00 0.00 31.30 0.98
3905 4127 0.036671 GGAACCCCGTGTCTACCTTG 60.037 60.000 0.00 0.00 0.00 3.61
3928 4150 1.177401 GCGGCATTCTCCTCCTTTTT 58.823 50.000 0.00 0.00 0.00 1.94
3929 4151 1.135286 GCGGCATTCTCCTCCTTTTTG 60.135 52.381 0.00 0.00 0.00 2.44
3934 4156 0.893727 TTCTCCTCCTTTTTGCCGGC 60.894 55.000 22.73 22.73 0.00 6.13
3939 4161 0.895559 CTCCTTTTTGCCGGCCTCTT 60.896 55.000 26.77 0.00 0.00 2.85
3972 4194 2.224621 CGGTGATCCTGCCTCCATTATT 60.225 50.000 0.00 0.00 0.00 1.40
3973 4195 3.748668 CGGTGATCCTGCCTCCATTATTT 60.749 47.826 0.00 0.00 0.00 1.40
3974 4196 4.218312 GGTGATCCTGCCTCCATTATTTT 58.782 43.478 0.00 0.00 0.00 1.82
3975 4197 4.279420 GGTGATCCTGCCTCCATTATTTTC 59.721 45.833 0.00 0.00 0.00 2.29
3976 4198 4.023707 GTGATCCTGCCTCCATTATTTTCG 60.024 45.833 0.00 0.00 0.00 3.46
3977 4199 2.297701 TCCTGCCTCCATTATTTTCGC 58.702 47.619 0.00 0.00 0.00 4.70
3979 4201 2.426738 CCTGCCTCCATTATTTTCGCAA 59.573 45.455 0.00 0.00 0.00 4.85
3980 4202 3.119173 CCTGCCTCCATTATTTTCGCAAA 60.119 43.478 0.00 0.00 0.00 3.68
3981 4203 4.493547 CTGCCTCCATTATTTTCGCAAAA 58.506 39.130 0.00 0.00 34.41 2.44
3982 4204 4.887748 TGCCTCCATTATTTTCGCAAAAA 58.112 34.783 0.00 0.00 38.66 1.94
4004 4226 3.814504 AAAAGAAAGATCCTGCCTCCA 57.185 42.857 0.00 0.00 0.00 3.86
4005 4227 4.328118 AAAAGAAAGATCCTGCCTCCAT 57.672 40.909 0.00 0.00 0.00 3.41
4006 4228 4.328118 AAAGAAAGATCCTGCCTCCATT 57.672 40.909 0.00 0.00 0.00 3.16
4007 4229 5.456921 AAAGAAAGATCCTGCCTCCATTA 57.543 39.130 0.00 0.00 0.00 1.90
4008 4230 5.659849 AAGAAAGATCCTGCCTCCATTAT 57.340 39.130 0.00 0.00 0.00 1.28
4009 4231 6.770286 AAGAAAGATCCTGCCTCCATTATA 57.230 37.500 0.00 0.00 0.00 0.98
4010 4232 6.120507 AGAAAGATCCTGCCTCCATTATAC 57.879 41.667 0.00 0.00 0.00 1.47
4075 4297 8.399425 TGTCTAATGACTCGCTTTTGTTTAAAA 58.601 29.630 0.00 0.00 43.29 1.52
4077 4299 9.959749 TCTAATGACTCGCTTTTGTTTAAAAAT 57.040 25.926 0.00 0.00 35.50 1.82
4078 4300 9.993881 CTAATGACTCGCTTTTGTTTAAAAATG 57.006 29.630 0.00 0.00 35.50 2.32
4135 4359 3.054802 AGCCAACCAGAGGAGTCTAATTG 60.055 47.826 0.00 0.00 31.10 2.32
4215 4442 2.705658 TGTGAAGGAAGAGAGGCTGAAA 59.294 45.455 0.00 0.00 0.00 2.69
4216 4443 3.244353 TGTGAAGGAAGAGAGGCTGAAAG 60.244 47.826 0.00 0.00 0.00 2.62
4217 4444 3.007398 GTGAAGGAAGAGAGGCTGAAAGA 59.993 47.826 0.00 0.00 34.07 2.52
4218 4445 3.648067 TGAAGGAAGAGAGGCTGAAAGAA 59.352 43.478 0.00 0.00 34.07 2.52
4269 4496 2.035626 CAAATCCCGGTGGGCACT 59.964 61.111 0.00 0.00 43.94 4.40
4400 4627 3.775654 GCTACGTGGCTGGGCTCT 61.776 66.667 17.55 0.00 0.00 4.09
4401 4628 2.496817 CTACGTGGCTGGGCTCTC 59.503 66.667 0.00 0.00 0.00 3.20
4402 4629 2.037367 TACGTGGCTGGGCTCTCT 59.963 61.111 0.00 0.00 0.00 3.10
4403 4630 2.010582 CTACGTGGCTGGGCTCTCTC 62.011 65.000 0.00 0.00 0.00 3.20
4404 4631 2.500815 TACGTGGCTGGGCTCTCTCT 62.501 60.000 0.00 0.00 0.00 3.10
4405 4632 2.899505 GTGGCTGGGCTCTCTCTC 59.100 66.667 0.00 0.00 0.00 3.20
4406 4633 2.757508 TGGCTGGGCTCTCTCTCG 60.758 66.667 0.00 0.00 0.00 4.04
4407 4634 2.757917 GGCTGGGCTCTCTCTCGT 60.758 66.667 0.00 0.00 0.00 4.18
4408 4635 2.493973 GCTGGGCTCTCTCTCGTG 59.506 66.667 0.00 0.00 0.00 4.35
4409 4636 2.493973 CTGGGCTCTCTCTCGTGC 59.506 66.667 0.00 0.00 0.00 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.651139 CCTGTTGTCATTCCTCTTCATCATT 59.349 40.000 0.00 0.00 0.00 2.57
26 27 9.965824 AGTTATTTCATTTTGTTAGTCCTGTTG 57.034 29.630 0.00 0.00 0.00 3.33
58 59 6.761242 TCCGATTTATTGACACTACCTCATTG 59.239 38.462 0.00 0.00 0.00 2.82
242 253 3.126514 GTGAGCCATATCATGCAGCATAC 59.873 47.826 7.82 0.00 0.00 2.39
295 306 9.624697 TTTAAAACAAGAGCAATGCTATACTTG 57.375 29.630 24.47 24.47 41.02 3.16
374 389 7.635648 AGGAAGCTATATCTAACGATAGGAGT 58.364 38.462 0.00 0.00 43.77 3.85
418 434 8.562892 CAGTTTCAGTTCATTACATCTTCAGTT 58.437 33.333 0.00 0.00 0.00 3.16
523 543 9.753674 AGAGATCAAAGGTAAAATTTGGTCATA 57.246 29.630 12.66 0.00 45.91 2.15
525 545 7.523709 GCAGAGATCAAAGGTAAAATTTGGTCA 60.524 37.037 12.66 0.00 45.91 4.02
526 546 6.808704 GCAGAGATCAAAGGTAAAATTTGGTC 59.191 38.462 3.98 3.98 44.53 4.02
527 547 6.295292 GGCAGAGATCAAAGGTAAAATTTGGT 60.295 38.462 0.00 0.00 38.04 3.67
528 548 6.101997 GGCAGAGATCAAAGGTAAAATTTGG 58.898 40.000 0.00 0.00 38.04 3.28
529 549 6.690530 TGGCAGAGATCAAAGGTAAAATTTG 58.309 36.000 0.00 0.00 38.68 2.32
530 550 6.916360 TGGCAGAGATCAAAGGTAAAATTT 57.084 33.333 0.00 0.00 0.00 1.82
533 553 6.723298 TTTTGGCAGAGATCAAAGGTAAAA 57.277 33.333 0.00 0.00 34.83 1.52
563 583 8.331539 CACAAAATGCATATTGATAGACACAC 57.668 34.615 0.00 0.00 0.00 3.82
585 606 0.597568 CTCGCATTTTTCCCAGCACA 59.402 50.000 0.00 0.00 0.00 4.57
603 624 2.224209 ACAAGTCCGTTCCGACATTTCT 60.224 45.455 0.00 0.00 35.07 2.52
604 625 2.140717 ACAAGTCCGTTCCGACATTTC 58.859 47.619 0.00 0.00 35.07 2.17
605 626 2.249844 ACAAGTCCGTTCCGACATTT 57.750 45.000 0.00 0.00 35.07 2.32
606 627 2.140717 GAACAAGTCCGTTCCGACATT 58.859 47.619 0.00 0.00 39.52 2.71
607 628 1.792006 GAACAAGTCCGTTCCGACAT 58.208 50.000 0.00 0.00 39.52 3.06
608 629 0.595567 CGAACAAGTCCGTTCCGACA 60.596 55.000 0.00 0.00 41.89 4.35
609 630 0.595825 ACGAACAAGTCCGTTCCGAC 60.596 55.000 0.00 0.00 41.89 4.79
610 631 0.102844 AACGAACAAGTCCGTTCCGA 59.897 50.000 0.00 0.00 44.46 4.55
611 632 0.932399 AAACGAACAAGTCCGTTCCG 59.068 50.000 0.00 0.00 46.61 4.30
612 633 3.409851 AAAAACGAACAAGTCCGTTCC 57.590 42.857 0.00 0.00 46.61 3.62
639 660 2.192664 TGGAAGGCGTATTGCTTTGA 57.807 45.000 0.00 0.00 43.83 2.69
644 665 2.498167 AGATGATGGAAGGCGTATTGC 58.502 47.619 0.00 0.00 45.38 3.56
722 754 2.436542 GCTTTTGTTTTGGGGGTAGGTT 59.563 45.455 0.00 0.00 0.00 3.50
723 755 2.043992 GCTTTTGTTTTGGGGGTAGGT 58.956 47.619 0.00 0.00 0.00 3.08
724 756 2.043227 TGCTTTTGTTTTGGGGGTAGG 58.957 47.619 0.00 0.00 0.00 3.18
725 757 3.727726 CTTGCTTTTGTTTTGGGGGTAG 58.272 45.455 0.00 0.00 0.00 3.18
726 758 2.158885 GCTTGCTTTTGTTTTGGGGGTA 60.159 45.455 0.00 0.00 0.00 3.69
742 774 3.440415 GGGGGTAGCGTTGCTTGC 61.440 66.667 0.00 0.00 40.44 4.01
746 778 1.449778 GAAGAGGGGGTAGCGTTGC 60.450 63.158 0.00 0.00 0.00 4.17
753 785 0.686769 GAAGAGCCGAAGAGGGGGTA 60.687 60.000 0.00 0.00 41.48 3.69
754 786 1.990614 GAAGAGCCGAAGAGGGGGT 60.991 63.158 0.00 0.00 41.48 4.95
759 791 2.496817 CGGGGAAGAGCCGAAGAG 59.503 66.667 0.00 0.00 37.63 2.85
815 847 1.074850 GAGGGAGGAGGAGAAGGGG 60.075 68.421 0.00 0.00 0.00 4.79
816 848 1.074850 GGAGGGAGGAGGAGAAGGG 60.075 68.421 0.00 0.00 0.00 3.95
826 858 2.496470 GGTTATATAGTGCGGAGGGAGG 59.504 54.545 0.00 0.00 0.00 4.30
827 859 2.496470 GGGTTATATAGTGCGGAGGGAG 59.504 54.545 0.00 0.00 0.00 4.30
828 860 2.532843 GGGTTATATAGTGCGGAGGGA 58.467 52.381 0.00 0.00 0.00 4.20
829 861 1.553704 GGGGTTATATAGTGCGGAGGG 59.446 57.143 0.00 0.00 0.00 4.30
892 924 3.282745 TTCTCTCACGTGAGCCGGC 62.283 63.158 35.48 21.89 41.80 6.13
904 936 2.264109 TGATGCGTCGTTCTTCTCTC 57.736 50.000 0.58 0.00 0.00 3.20
905 937 2.792890 CGATGATGCGTCGTTCTTCTCT 60.793 50.000 1.31 0.00 37.99 3.10
906 938 1.514811 CGATGATGCGTCGTTCTTCTC 59.485 52.381 1.31 0.00 37.99 2.87
907 939 1.550065 CGATGATGCGTCGTTCTTCT 58.450 50.000 1.31 0.00 37.99 2.85
923 991 3.470888 CAGGGCGGGGAAGACGAT 61.471 66.667 0.00 0.00 0.00 3.73
944 1012 5.415701 TGTTTCTTGTTTCTTGAAGCAGAGT 59.584 36.000 0.69 0.00 0.00 3.24
950 1018 4.644685 TCCCCTGTTTCTTGTTTCTTGAAG 59.355 41.667 0.00 0.00 0.00 3.02
1200 1274 0.108138 CCACCATCTCCTTCACCGAC 60.108 60.000 0.00 0.00 0.00 4.79
1376 1450 1.748647 ATGCGTATACGTGTGTGCGC 61.749 55.000 25.04 21.18 41.74 6.09
1377 1451 0.044246 CATGCGTATACGTGTGTGCG 60.044 55.000 25.04 3.12 42.22 5.34
1378 1452 0.996462 ACATGCGTATACGTGTGTGC 59.004 50.000 25.89 12.23 42.22 4.57
1379 1453 2.694303 CACATGCGTATACGTGTGTG 57.306 50.000 31.21 31.21 43.85 3.82
1381 1455 2.410392 ACAACACATGCGTATACGTGTG 59.590 45.455 31.42 31.42 45.68 3.82
1422 1496 1.152943 AGATGATGCTGGCTGGCTG 60.153 57.895 2.00 2.91 0.00 4.85
1423 1497 1.152943 CAGATGATGCTGGCTGGCT 60.153 57.895 2.00 0.00 32.26 4.75
1424 1498 3.433319 CAGATGATGCTGGCTGGC 58.567 61.111 0.00 0.00 32.26 4.85
1453 1527 2.928334 AGATGAGCAATTAGGCCACTG 58.072 47.619 5.01 0.00 0.00 3.66
1454 1528 3.659183 AAGATGAGCAATTAGGCCACT 57.341 42.857 5.01 0.00 0.00 4.00
1460 1534 4.107622 CGCCCAAAAAGATGAGCAATTAG 58.892 43.478 0.00 0.00 0.00 1.73
1518 1592 0.253327 AGAAAATCGGACAGGGAGGC 59.747 55.000 0.00 0.00 0.00 4.70
1550 1624 3.465403 CGGGCAGGGAGACAGAGG 61.465 72.222 0.00 0.00 0.00 3.69
1560 1634 1.227823 TCACAAACAGACGGGCAGG 60.228 57.895 0.00 0.00 0.00 4.85
1565 1639 0.884704 CCCTGGTCACAAACAGACGG 60.885 60.000 0.00 0.00 36.86 4.79
1636 1713 1.762708 AACCCCATATGCTCAAACGG 58.237 50.000 0.00 0.00 0.00 4.44
1643 1720 2.177669 AGTGCCATAAACCCCATATGCT 59.822 45.455 0.00 0.00 30.91 3.79
1660 1737 2.668945 GAGGAAGAAGCGAAGTAAGTGC 59.331 50.000 0.00 0.00 0.00 4.40
1663 1740 3.193691 TGAGGAGGAAGAAGCGAAGTAAG 59.806 47.826 0.00 0.00 0.00 2.34
1688 1765 5.436247 CCAGAGGGAAACAGAGGTGTCTG 62.436 56.522 0.76 0.76 46.22 3.51
1720 1816 1.094785 AGGACGGAAATTGCCATTCG 58.905 50.000 2.58 0.00 0.00 3.34
1752 1859 2.791158 GCATCGTCGCCAAAACCATTAG 60.791 50.000 0.00 0.00 0.00 1.73
1765 1873 2.579787 GTCGGACCTGCATCGTCG 60.580 66.667 0.00 1.61 0.00 5.12
2029 2137 1.357334 GCGGCCACGAACAAAAAGA 59.643 52.632 2.24 0.00 44.60 2.52
2083 2230 3.836176 AACCACGTCGCCGTCAGTC 62.836 63.158 0.00 0.00 46.28 3.51
2084 2231 3.836176 GAACCACGTCGCCGTCAGT 62.836 63.158 0.00 0.00 46.28 3.41
2103 2250 1.005867 ACCAGGCGCTGCAAAAATG 60.006 52.632 7.64 0.00 0.00 2.32
2104 2251 1.005867 CACCAGGCGCTGCAAAAAT 60.006 52.632 7.64 0.00 0.00 1.82
2737 2884 2.206900 TGCTCCTTGGAGGGGTCA 59.793 61.111 17.33 4.95 38.44 4.02
2798 2980 1.740025 GAAATTTCTCCTGCAGACGGG 59.260 52.381 17.39 0.00 44.63 5.28
2801 2983 4.550422 GGTTTGAAATTTCTCCTGCAGAC 58.450 43.478 17.39 0.00 0.00 3.51
2855 3037 1.300931 GTGTGTCAGCGCTTGGAGA 60.301 57.895 7.50 0.00 0.00 3.71
2856 3038 1.595109 TGTGTGTCAGCGCTTGGAG 60.595 57.895 7.50 0.00 0.00 3.86
2858 3040 1.835483 GAGTGTGTGTCAGCGCTTGG 61.835 60.000 7.50 0.00 0.00 3.61
2923 3106 4.421479 AGCCGGAGCGTCTCGTTG 62.421 66.667 5.05 0.00 46.67 4.10
3234 3417 3.467226 TCCGGATCTGGAACCGCC 61.467 66.667 21.53 0.00 46.59 6.13
3242 3425 3.537874 GGGGGACGTCCGGATCTG 61.538 72.222 27.68 3.20 36.71 2.90
3286 3469 1.068753 CTGCGGGTAGAGGAGCATG 59.931 63.158 0.00 0.00 39.02 4.06
3317 3500 2.279784 GAGCGGGCGGAAGATCAG 60.280 66.667 0.00 0.00 0.00 2.90
3354 3537 2.361357 AGGAGGTCGTGGAGTCCG 60.361 66.667 4.30 0.00 33.99 4.79
3355 3538 2.053277 GGAGGAGGTCGTGGAGTCC 61.053 68.421 0.73 0.73 0.00 3.85
3356 3539 1.000646 AGGAGGAGGTCGTGGAGTC 60.001 63.158 0.00 0.00 0.00 3.36
3357 3540 1.000646 GAGGAGGAGGTCGTGGAGT 60.001 63.158 0.00 0.00 0.00 3.85
3359 3542 2.239439 AGGAGGAGGAGGTCGTGGA 61.239 63.158 0.00 0.00 0.00 4.02
3361 3544 1.304547 ACAGGAGGAGGAGGTCGTG 60.305 63.158 0.00 0.00 35.23 4.35
3365 3548 2.177518 TGGGACAGGAGGAGGAGGT 61.178 63.158 0.00 0.00 0.00 3.85
3366 3549 2.780693 TGGGACAGGAGGAGGAGG 59.219 66.667 0.00 0.00 0.00 4.30
3417 3603 7.776618 TTCTACTCTAGTGGAAACATTCTCA 57.223 36.000 6.46 0.00 46.14 3.27
3436 3622 4.019591 TGCCCTACCCTTCTTCTTTTCTAC 60.020 45.833 0.00 0.00 0.00 2.59
3442 3628 1.203440 TCCTGCCCTACCCTTCTTCTT 60.203 52.381 0.00 0.00 0.00 2.52
3471 3657 1.451927 CCATCCATGGTGACCCACG 60.452 63.158 12.58 0.00 45.65 4.94
3497 3683 4.023707 GGCCTTGTCCTATGATGATTTTCG 60.024 45.833 0.00 0.00 0.00 3.46
3498 3684 4.889409 TGGCCTTGTCCTATGATGATTTTC 59.111 41.667 3.32 0.00 0.00 2.29
3499 3685 4.870636 TGGCCTTGTCCTATGATGATTTT 58.129 39.130 3.32 0.00 0.00 1.82
3500 3686 4.524802 TGGCCTTGTCCTATGATGATTT 57.475 40.909 3.32 0.00 0.00 2.17
3501 3687 4.166725 TCTTGGCCTTGTCCTATGATGATT 59.833 41.667 3.32 0.00 0.00 2.57
3502 3688 3.718434 TCTTGGCCTTGTCCTATGATGAT 59.282 43.478 3.32 0.00 0.00 2.45
3503 3689 3.114606 TCTTGGCCTTGTCCTATGATGA 58.885 45.455 3.32 0.00 0.00 2.92
3553 3760 1.552578 ATACACACTACACAGGGCGA 58.447 50.000 0.00 0.00 0.00 5.54
3554 3761 3.728076 ATATACACACTACACAGGGCG 57.272 47.619 0.00 0.00 0.00 6.13
3555 3762 5.926542 CACATATATACACACTACACAGGGC 59.073 44.000 0.00 0.00 0.00 5.19
3561 3768 7.230712 CCTGGACTCACATATATACACACTACA 59.769 40.741 0.00 0.00 0.00 2.74
3562 3769 7.230913 ACCTGGACTCACATATATACACACTAC 59.769 40.741 0.00 0.00 0.00 2.73
3563 3770 7.230712 CACCTGGACTCACATATATACACACTA 59.769 40.741 0.00 0.00 0.00 2.74
3564 3771 6.040955 CACCTGGACTCACATATATACACACT 59.959 42.308 0.00 0.00 0.00 3.55
3604 3816 5.241728 GCCAGGACAAAAAGTTAGTCATTCT 59.758 40.000 0.00 0.00 34.04 2.40
3609 3821 3.253432 CAGGCCAGGACAAAAAGTTAGTC 59.747 47.826 5.01 0.00 0.00 2.59
3650 3867 1.236616 GGGCATTTTTGGCAACCTGC 61.237 55.000 15.68 15.68 44.08 4.85
3701 3923 4.264253 TCCTGTGTGCCATCAAATCTTAG 58.736 43.478 0.00 0.00 0.00 2.18
3749 3971 3.118905 ACACAACAAGAAGAGAGGAGC 57.881 47.619 0.00 0.00 0.00 4.70
3755 3977 2.023673 TGGGCAACACAACAAGAAGAG 58.976 47.619 0.00 0.00 39.74 2.85
3814 4036 3.542648 GGGCGATGATGATGATGATGAT 58.457 45.455 0.00 0.00 0.00 2.45
3822 4044 2.023771 CCGACGGGCGATGATGATG 61.024 63.158 3.94 0.00 44.57 3.07
3823 4045 2.340078 CCGACGGGCGATGATGAT 59.660 61.111 3.94 0.00 44.57 2.45
3824 4046 3.911698 CCCGACGGGCGATGATGA 61.912 66.667 22.37 0.00 44.57 2.92
3836 4058 2.833631 TCACTTCTTTCCTTCCCGAC 57.166 50.000 0.00 0.00 0.00 4.79
3845 4067 6.507023 ACATGACACCATTTTCACTTCTTTC 58.493 36.000 0.00 0.00 0.00 2.62
3865 4087 9.981114 GGTTCCCAGGAAATTATTATAAACATG 57.019 33.333 0.00 0.00 35.75 3.21
3866 4088 9.154632 GGGTTCCCAGGAAATTATTATAAACAT 57.845 33.333 0.00 0.00 35.75 2.71
3867 4089 7.565768 GGGGTTCCCAGGAAATTATTATAAACA 59.434 37.037 10.25 0.00 44.65 2.83
3869 4091 6.778559 CGGGGTTCCCAGGAAATTATTATAAA 59.221 38.462 10.25 0.00 45.83 1.40
3870 4092 6.126127 ACGGGGTTCCCAGGAAATTATTATAA 60.126 38.462 12.22 0.00 45.83 0.98
3874 4096 2.313643 ACGGGGTTCCCAGGAAATTATT 59.686 45.455 12.22 0.00 45.83 1.40
3885 4107 1.196766 AAGGTAGACACGGGGTTCCC 61.197 60.000 0.00 0.00 41.09 3.97
3893 4115 3.838795 GCGCGCAAGGTAGACACG 61.839 66.667 29.10 0.00 38.28 4.49
3920 4142 0.895559 AAGAGGCCGGCAAAAAGGAG 60.896 55.000 30.85 0.00 0.00 3.69
3928 4150 3.241530 ACACTGAAGAGGCCGGCA 61.242 61.111 30.85 5.00 0.00 5.69
3929 4151 2.743928 CACACTGAAGAGGCCGGC 60.744 66.667 21.18 21.18 0.00 6.13
3934 4156 0.319900 CCGACCACACACTGAAGAGG 60.320 60.000 0.00 0.00 0.00 3.69
3939 4161 0.317160 GATCACCGACCACACACTGA 59.683 55.000 0.00 0.00 0.00 3.41
3983 4205 4.118168 TGGAGGCAGGATCTTTCTTTTT 57.882 40.909 0.00 0.00 0.00 1.94
3984 4206 3.814504 TGGAGGCAGGATCTTTCTTTT 57.185 42.857 0.00 0.00 0.00 2.27
3985 4207 4.328118 AATGGAGGCAGGATCTTTCTTT 57.672 40.909 0.00 0.00 0.00 2.52
3986 4208 5.659849 ATAATGGAGGCAGGATCTTTCTT 57.340 39.130 0.00 0.00 0.00 2.52
3987 4209 5.608437 TGTATAATGGAGGCAGGATCTTTCT 59.392 40.000 0.00 0.00 0.00 2.52
3988 4210 5.869579 TGTATAATGGAGGCAGGATCTTTC 58.130 41.667 0.00 0.00 0.00 2.62
3989 4211 5.912149 TGTATAATGGAGGCAGGATCTTT 57.088 39.130 0.00 0.00 0.00 2.52
3990 4212 5.912149 TTGTATAATGGAGGCAGGATCTT 57.088 39.130 0.00 0.00 0.00 2.40
3991 4213 5.608437 TCTTTGTATAATGGAGGCAGGATCT 59.392 40.000 0.00 0.00 0.00 2.75
3992 4214 5.869579 TCTTTGTATAATGGAGGCAGGATC 58.130 41.667 0.00 0.00 0.00 3.36
3993 4215 5.912149 TCTTTGTATAATGGAGGCAGGAT 57.088 39.130 0.00 0.00 0.00 3.24
3994 4216 5.428457 TCTTCTTTGTATAATGGAGGCAGGA 59.572 40.000 0.00 0.00 0.00 3.86
3995 4217 5.684704 TCTTCTTTGTATAATGGAGGCAGG 58.315 41.667 0.00 0.00 0.00 4.85
3996 4218 7.554118 TCTTTCTTCTTTGTATAATGGAGGCAG 59.446 37.037 0.00 0.00 0.00 4.85
3997 4219 7.402054 TCTTTCTTCTTTGTATAATGGAGGCA 58.598 34.615 0.00 0.00 0.00 4.75
3998 4220 7.865706 TCTTTCTTCTTTGTATAATGGAGGC 57.134 36.000 0.00 0.00 0.00 4.70
3999 4221 9.454859 AGTTCTTTCTTCTTTGTATAATGGAGG 57.545 33.333 0.00 0.00 0.00 4.30
4009 4231 8.926092 AAATAGGCTAGTTCTTTCTTCTTTGT 57.074 30.769 0.58 0.00 0.00 2.83
4026 4248 4.478686 AGGACCAGGATTGTTAAATAGGCT 59.521 41.667 0.00 0.00 0.00 4.58
4032 4254 4.993705 AGACAGGACCAGGATTGTTAAA 57.006 40.909 0.00 0.00 0.00 1.52
4075 4297 9.225682 TGGATTTCCTACTTTCTATAGACCATT 57.774 33.333 0.67 0.00 36.82 3.16
4077 4299 8.618240 TTGGATTTCCTACTTTCTATAGACCA 57.382 34.615 0.67 0.00 36.82 4.02
4078 4300 7.658167 GCTTGGATTTCCTACTTTCTATAGACC 59.342 40.741 0.67 0.00 36.82 3.85
4197 4424 3.971245 TCTTTCAGCCTCTCTTCCTTC 57.029 47.619 0.00 0.00 0.00 3.46
4215 4442 3.369892 CCCAAATGTCCACTCTCGATTCT 60.370 47.826 0.00 0.00 0.00 2.40
4216 4443 2.939103 CCCAAATGTCCACTCTCGATTC 59.061 50.000 0.00 0.00 0.00 2.52
4217 4444 2.356125 CCCCAAATGTCCACTCTCGATT 60.356 50.000 0.00 0.00 0.00 3.34
4218 4445 1.210478 CCCCAAATGTCCACTCTCGAT 59.790 52.381 0.00 0.00 0.00 3.59
4283 4510 3.388703 GAGGCAGAGGCAGAGGCAG 62.389 68.421 0.00 0.00 43.71 4.85
4284 4511 3.397439 GAGGCAGAGGCAGAGGCA 61.397 66.667 0.00 0.00 43.71 4.75
4285 4512 3.082701 AGAGGCAGAGGCAGAGGC 61.083 66.667 0.00 0.00 43.71 4.70
4286 4513 2.901813 CAGAGGCAGAGGCAGAGG 59.098 66.667 0.00 0.00 43.71 3.69
4287 4514 2.187424 GCAGAGGCAGAGGCAGAG 59.813 66.667 0.00 0.00 43.71 3.35
4288 4515 3.397439 GGCAGAGGCAGAGGCAGA 61.397 66.667 0.00 0.00 43.71 4.26
4289 4516 3.400928 AGGCAGAGGCAGAGGCAG 61.401 66.667 0.00 0.00 43.71 4.85
4290 4517 3.714001 CAGGCAGAGGCAGAGGCA 61.714 66.667 0.00 0.00 43.71 4.75
4291 4518 3.715097 ACAGGCAGAGGCAGAGGC 61.715 66.667 0.00 0.00 43.71 4.70
4292 4519 2.268280 CACAGGCAGAGGCAGAGG 59.732 66.667 0.00 0.00 43.71 3.69
4293 4520 2.121992 AACCACAGGCAGAGGCAGAG 62.122 60.000 0.00 0.00 43.71 3.35
4294 4521 2.149383 AACCACAGGCAGAGGCAGA 61.149 57.895 0.00 0.00 43.71 4.26


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

AutoCloner maintained by Alex Coulton.