Multiple sequence alignment - TraesCS1D01G270700
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 | TraesCS1D01G270700 | chr1D | 100.000 | 3516 | 0 | 0 | 1 | 3516 | 365539279 | 365542794 | 0.000000e+00 | 6493.0 |
1 | TraesCS1D01G270700 | chr1D | 88.904 | 712 | 63 | 6 | 57 | 753 | 198903118 | 198902408 | 0.000000e+00 | 863.0 |
2 | TraesCS1D01G270700 | chr1A | 90.524 | 1889 | 102 | 34 | 958 | 2780 | 464794657 | 464796534 | 0.000000e+00 | 2425.0 |
3 | TraesCS1D01G270700 | chr1A | 92.962 | 611 | 25 | 3 | 2910 | 3516 | 464797003 | 464797599 | 0.000000e+00 | 874.0 |
4 | TraesCS1D01G270700 | chr1A | 87.500 | 96 | 3 | 3 | 830 | 925 | 464794566 | 464794652 | 6.210000e-18 | 102.0 |
5 | TraesCS1D01G270700 | chr1B | 90.397 | 1083 | 68 | 18 | 958 | 2018 | 489198659 | 489199727 | 0.000000e+00 | 1391.0 |
6 | TraesCS1D01G270700 | chr1B | 89.974 | 768 | 60 | 8 | 1 | 753 | 350634985 | 350635750 | 0.000000e+00 | 976.0 |
7 | TraesCS1D01G270700 | chr1B | 97.282 | 515 | 14 | 0 | 3002 | 3516 | 489201289 | 489201803 | 0.000000e+00 | 874.0 |
8 | TraesCS1D01G270700 | chr1B | 96.060 | 533 | 14 | 2 | 2002 | 2533 | 489199889 | 489200415 | 0.000000e+00 | 861.0 |
9 | TraesCS1D01G270700 | chr1B | 93.725 | 255 | 9 | 2 | 2558 | 2812 | 489200410 | 489200657 | 3.310000e-100 | 375.0 |
10 | TraesCS1D01G270700 | chr1B | 87.288 | 118 | 4 | 4 | 822 | 939 | 489198560 | 489198666 | 1.330000e-24 | 124.0 |
11 | TraesCS1D01G270700 | chr1B | 100.000 | 28 | 0 | 0 | 3017 | 3044 | 32430032 | 32430059 | 6.000000e-03 | 52.8 |
12 | TraesCS1D01G270700 | chr4D | 90.352 | 767 | 59 | 1 | 1 | 752 | 425281799 | 425281033 | 0.000000e+00 | 992.0 |
13 | TraesCS1D01G270700 | chr5D | 89.700 | 767 | 63 | 2 | 1 | 752 | 389442679 | 389441914 | 0.000000e+00 | 965.0 |
14 | TraesCS1D01G270700 | chr5D | 88.287 | 572 | 52 | 1 | 1 | 557 | 463266349 | 463265778 | 0.000000e+00 | 671.0 |
15 | TraesCS1D01G270700 | chr3D | 87.898 | 785 | 69 | 9 | 1 | 767 | 587508916 | 587508140 | 0.000000e+00 | 900.0 |
16 | TraesCS1D01G270700 | chr6D | 88.828 | 734 | 66 | 4 | 1 | 719 | 35026362 | 35025630 | 0.000000e+00 | 887.0 |
17 | TraesCS1D01G270700 | chr6D | 92.608 | 487 | 35 | 1 | 267 | 753 | 288592328 | 288592813 | 0.000000e+00 | 699.0 |
18 | TraesCS1D01G270700 | chr7D | 88.599 | 728 | 77 | 3 | 1 | 727 | 400446299 | 400447021 | 0.000000e+00 | 880.0 |
19 | TraesCS1D01G270700 | chr7D | 86.606 | 769 | 83 | 4 | 1 | 752 | 554470629 | 554471394 | 0.000000e+00 | 832.0 |
20 | TraesCS1D01G270700 | chr7D | 90.984 | 488 | 42 | 1 | 267 | 752 | 503939633 | 503939146 | 0.000000e+00 | 656.0 |
21 | TraesCS1D01G270700 | chrUn | 87.646 | 769 | 78 | 2 | 1 | 752 | 31727050 | 31727818 | 0.000000e+00 | 878.0 |
22 | TraesCS1D01G270700 | chr3B | 86.381 | 771 | 86 | 4 | 1 | 753 | 50156199 | 50156968 | 0.000000e+00 | 824.0 |
23 | TraesCS1D01G270700 | chr4A | 86.140 | 772 | 83 | 7 | 1 | 752 | 618129962 | 618130729 | 0.000000e+00 | 811.0 |
24 | TraesCS1D01G270700 | chr2B | 86.963 | 652 | 68 | 2 | 1 | 635 | 799275062 | 799274411 | 0.000000e+00 | 717.0 |
25 | TraesCS1D01G270700 | chr2A | 89.837 | 551 | 52 | 4 | 208 | 756 | 673129817 | 673129269 | 0.000000e+00 | 704.0 |
26 | TraesCS1D01G270700 | chr7B | 87.867 | 511 | 47 | 1 | 1 | 496 | 69543378 | 69543888 | 1.410000e-163 | 586.0 |
27 | TraesCS1D01G270700 | chr4B | 88.462 | 52 | 6 | 0 | 3001 | 3052 | 596373410 | 596373461 | 2.930000e-06 | 63.9 |
28 | TraesCS1D01G270700 | chr3A | 94.444 | 36 | 2 | 0 | 3009 | 3044 | 71221349 | 71221314 | 4.900000e-04 | 56.5 |
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 | TraesCS1D01G270700 | chr1D | 365539279 | 365542794 | 3515 | False | 6493.000000 | 6493 | 100.000000 | 1 | 3516 | 1 | chr1D.!!$F1 | 3515 |
1 | TraesCS1D01G270700 | chr1D | 198902408 | 198903118 | 710 | True | 863.000000 | 863 | 88.904000 | 57 | 753 | 1 | chr1D.!!$R1 | 696 |
2 | TraesCS1D01G270700 | chr1A | 464794566 | 464797599 | 3033 | False | 1133.666667 | 2425 | 90.328667 | 830 | 3516 | 3 | chr1A.!!$F1 | 2686 |
3 | TraesCS1D01G270700 | chr1B | 350634985 | 350635750 | 765 | False | 976.000000 | 976 | 89.974000 | 1 | 753 | 1 | chr1B.!!$F2 | 752 |
4 | TraesCS1D01G270700 | chr1B | 489198560 | 489201803 | 3243 | False | 725.000000 | 1391 | 92.950400 | 822 | 3516 | 5 | chr1B.!!$F3 | 2694 |
5 | TraesCS1D01G270700 | chr4D | 425281033 | 425281799 | 766 | True | 992.000000 | 992 | 90.352000 | 1 | 752 | 1 | chr4D.!!$R1 | 751 |
6 | TraesCS1D01G270700 | chr5D | 389441914 | 389442679 | 765 | True | 965.000000 | 965 | 89.700000 | 1 | 752 | 1 | chr5D.!!$R1 | 751 |
7 | TraesCS1D01G270700 | chr5D | 463265778 | 463266349 | 571 | True | 671.000000 | 671 | 88.287000 | 1 | 557 | 1 | chr5D.!!$R2 | 556 |
8 | TraesCS1D01G270700 | chr3D | 587508140 | 587508916 | 776 | True | 900.000000 | 900 | 87.898000 | 1 | 767 | 1 | chr3D.!!$R1 | 766 |
9 | TraesCS1D01G270700 | chr6D | 35025630 | 35026362 | 732 | True | 887.000000 | 887 | 88.828000 | 1 | 719 | 1 | chr6D.!!$R1 | 718 |
10 | TraesCS1D01G270700 | chr7D | 400446299 | 400447021 | 722 | False | 880.000000 | 880 | 88.599000 | 1 | 727 | 1 | chr7D.!!$F1 | 726 |
11 | TraesCS1D01G270700 | chr7D | 554470629 | 554471394 | 765 | False | 832.000000 | 832 | 86.606000 | 1 | 752 | 1 | chr7D.!!$F2 | 751 |
12 | TraesCS1D01G270700 | chrUn | 31727050 | 31727818 | 768 | False | 878.000000 | 878 | 87.646000 | 1 | 752 | 1 | chrUn.!!$F1 | 751 |
13 | TraesCS1D01G270700 | chr3B | 50156199 | 50156968 | 769 | False | 824.000000 | 824 | 86.381000 | 1 | 753 | 1 | chr3B.!!$F1 | 752 |
14 | TraesCS1D01G270700 | chr4A | 618129962 | 618130729 | 767 | False | 811.000000 | 811 | 86.140000 | 1 | 752 | 1 | chr4A.!!$F1 | 751 |
15 | TraesCS1D01G270700 | chr2B | 799274411 | 799275062 | 651 | True | 717.000000 | 717 | 86.963000 | 1 | 635 | 1 | chr2B.!!$R1 | 634 |
16 | TraesCS1D01G270700 | chr2A | 673129269 | 673129817 | 548 | True | 704.000000 | 704 | 89.837000 | 208 | 756 | 1 | chr2A.!!$R1 | 548 |
17 | TraesCS1D01G270700 | chr7B | 69543378 | 69543888 | 510 | False | 586.000000 | 586 | 87.867000 | 1 | 496 | 1 | chr7B.!!$F1 | 495 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
936 | 959 | 0.03582 | AACGCGACCTCTCTCTCTCT | 60.036 | 55.0 | 15.93 | 0.0 | 0.0 | 3.1 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2691 | 2971 | 0.323725 | CCCAAGTTGATGACCCCAGG | 60.324 | 60.0 | 3.87 | 0.0 | 0.0 | 4.45 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
25 | 26 | 2.696989 | TGAAGGCATCGTCATGTGAT | 57.303 | 45.000 | 0.00 | 0.00 | 31.86 | 3.06 |
92 | 93 | 1.676529 | GTCTTCCAGATCGGACGATGA | 59.323 | 52.381 | 12.40 | 0.60 | 46.36 | 2.92 |
135 | 136 | 5.423290 | TCTCTCTTAGGAGCATCATTTGTGA | 59.577 | 40.000 | 0.00 | 0.00 | 39.31 | 3.58 |
181 | 182 | 0.670854 | GGTGGAGTGGCTTCGTCTTC | 60.671 | 60.000 | 0.00 | 0.00 | 0.00 | 2.87 |
424 | 441 | 0.313672 | GGGCAAAGTTGATGCGTCAA | 59.686 | 50.000 | 17.41 | 17.41 | 44.75 | 3.18 |
446 | 463 | 2.533916 | ACAGCTCTGAAGATGGAGTGA | 58.466 | 47.619 | 3.60 | 0.00 | 43.33 | 3.41 |
524 | 542 | 2.736531 | CAAGTGGCTTGGTTGGGC | 59.263 | 61.111 | 1.23 | 0.00 | 37.77 | 5.36 |
545 | 563 | 3.493524 | GCCCTCAGGTCTTAGATGTTAGC | 60.494 | 52.174 | 0.00 | 0.00 | 34.57 | 3.09 |
558 | 576 | 1.055849 | TGTTAGCCTTGGCTGTGAGA | 58.944 | 50.000 | 23.03 | 5.94 | 0.00 | 3.27 |
583 | 605 | 3.181419 | TGTGGTATTAGGCCCGGACTATA | 60.181 | 47.826 | 0.73 | 0.00 | 0.00 | 1.31 |
612 | 634 | 4.164988 | CCCTTCATCAACTGGATAGGAGTT | 59.835 | 45.833 | 0.00 | 0.00 | 34.78 | 3.01 |
637 | 660 | 1.066858 | CAGATGTTGCCTAGACGGTGT | 60.067 | 52.381 | 0.00 | 0.00 | 34.25 | 4.16 |
715 | 738 | 0.604511 | CTGCATGCATCGCCCAGATA | 60.605 | 55.000 | 22.97 | 0.00 | 37.52 | 1.98 |
723 | 746 | 0.760567 | ATCGCCCAGATACAGAGGCA | 60.761 | 55.000 | 0.30 | 0.00 | 46.08 | 4.75 |
748 | 771 | 5.477291 | GGGGGTCTTCCTTCTTTTCTAAAAG | 59.523 | 44.000 | 8.58 | 8.58 | 40.09 | 2.27 |
776 | 799 | 8.567285 | ACTAATGAAATAGGTTTGTCTTGAGG | 57.433 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
777 | 800 | 8.164070 | ACTAATGAAATAGGTTTGTCTTGAGGT | 58.836 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
778 | 801 | 7.454260 | AATGAAATAGGTTTGTCTTGAGGTC | 57.546 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
779 | 802 | 5.935945 | TGAAATAGGTTTGTCTTGAGGTCA | 58.064 | 37.500 | 0.00 | 0.00 | 0.00 | 4.02 |
780 | 803 | 6.361433 | TGAAATAGGTTTGTCTTGAGGTCAA | 58.639 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
781 | 804 | 6.831353 | TGAAATAGGTTTGTCTTGAGGTCAAA | 59.169 | 34.615 | 0.00 | 0.00 | 35.15 | 2.69 |
782 | 805 | 7.505585 | TGAAATAGGTTTGTCTTGAGGTCAAAT | 59.494 | 33.333 | 0.00 | 0.00 | 35.15 | 2.32 |
783 | 806 | 7.839680 | AATAGGTTTGTCTTGAGGTCAAATT | 57.160 | 32.000 | 0.00 | 0.00 | 35.15 | 1.82 |
784 | 807 | 7.839680 | ATAGGTTTGTCTTGAGGTCAAATTT | 57.160 | 32.000 | 0.00 | 0.00 | 35.15 | 1.82 |
785 | 808 | 8.934023 | ATAGGTTTGTCTTGAGGTCAAATTTA | 57.066 | 30.769 | 0.00 | 0.00 | 35.15 | 1.40 |
786 | 809 | 7.839680 | AGGTTTGTCTTGAGGTCAAATTTAT | 57.160 | 32.000 | 0.00 | 0.00 | 35.15 | 1.40 |
787 | 810 | 7.661040 | AGGTTTGTCTTGAGGTCAAATTTATG | 58.339 | 34.615 | 0.00 | 0.00 | 35.15 | 1.90 |
788 | 811 | 6.366061 | GGTTTGTCTTGAGGTCAAATTTATGC | 59.634 | 38.462 | 0.00 | 0.00 | 35.15 | 3.14 |
789 | 812 | 5.643379 | TGTCTTGAGGTCAAATTTATGCC | 57.357 | 39.130 | 0.00 | 0.00 | 35.15 | 4.40 |
790 | 813 | 5.324409 | TGTCTTGAGGTCAAATTTATGCCT | 58.676 | 37.500 | 6.97 | 6.97 | 35.15 | 4.75 |
791 | 814 | 5.774690 | TGTCTTGAGGTCAAATTTATGCCTT | 59.225 | 36.000 | 8.25 | 0.00 | 35.15 | 4.35 |
792 | 815 | 6.267471 | TGTCTTGAGGTCAAATTTATGCCTTT | 59.733 | 34.615 | 8.25 | 0.00 | 35.15 | 3.11 |
793 | 816 | 7.154656 | GTCTTGAGGTCAAATTTATGCCTTTT | 58.845 | 34.615 | 8.25 | 0.00 | 35.15 | 2.27 |
794 | 817 | 7.116805 | GTCTTGAGGTCAAATTTATGCCTTTTG | 59.883 | 37.037 | 8.25 | 0.00 | 35.15 | 2.44 |
795 | 818 | 5.237048 | TGAGGTCAAATTTATGCCTTTTGC | 58.763 | 37.500 | 8.25 | 0.00 | 41.77 | 3.68 |
796 | 819 | 4.578871 | AGGTCAAATTTATGCCTTTTGCC | 58.421 | 39.130 | 0.00 | 0.00 | 40.16 | 4.52 |
797 | 820 | 4.286808 | AGGTCAAATTTATGCCTTTTGCCT | 59.713 | 37.500 | 0.00 | 0.00 | 40.16 | 4.75 |
798 | 821 | 5.003160 | GGTCAAATTTATGCCTTTTGCCTT | 58.997 | 37.500 | 0.00 | 0.00 | 40.16 | 4.35 |
799 | 822 | 5.473162 | GGTCAAATTTATGCCTTTTGCCTTT | 59.527 | 36.000 | 0.00 | 0.00 | 40.16 | 3.11 |
800 | 823 | 6.016360 | GGTCAAATTTATGCCTTTTGCCTTTT | 60.016 | 34.615 | 0.00 | 0.00 | 40.16 | 2.27 |
801 | 824 | 7.424803 | GTCAAATTTATGCCTTTTGCCTTTTT | 58.575 | 30.769 | 0.00 | 0.00 | 40.16 | 1.94 |
854 | 877 | 3.761218 | CAGTAGATCTGACGAGGGCATAT | 59.239 | 47.826 | 5.18 | 0.00 | 46.27 | 1.78 |
855 | 878 | 4.944317 | CAGTAGATCTGACGAGGGCATATA | 59.056 | 45.833 | 5.18 | 0.00 | 46.27 | 0.86 |
856 | 879 | 4.944930 | AGTAGATCTGACGAGGGCATATAC | 59.055 | 45.833 | 5.18 | 0.00 | 0.00 | 1.47 |
857 | 880 | 4.040936 | AGATCTGACGAGGGCATATACT | 57.959 | 45.455 | 0.00 | 0.00 | 0.00 | 2.12 |
858 | 881 | 4.411927 | AGATCTGACGAGGGCATATACTT | 58.588 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
859 | 882 | 4.219507 | AGATCTGACGAGGGCATATACTTG | 59.780 | 45.833 | 0.00 | 0.00 | 0.00 | 3.16 |
860 | 883 | 2.628178 | TCTGACGAGGGCATATACTTGG | 59.372 | 50.000 | 0.00 | 0.00 | 0.00 | 3.61 |
861 | 884 | 2.365617 | CTGACGAGGGCATATACTTGGT | 59.634 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
862 | 885 | 3.568443 | TGACGAGGGCATATACTTGGTA | 58.432 | 45.455 | 0.00 | 0.00 | 0.00 | 3.25 |
925 | 948 | 1.206831 | GCAGAAGGAAAACGCGACC | 59.793 | 57.895 | 15.93 | 10.71 | 0.00 | 4.79 |
926 | 949 | 1.228657 | GCAGAAGGAAAACGCGACCT | 61.229 | 55.000 | 15.93 | 12.98 | 35.36 | 3.85 |
927 | 950 | 0.790814 | CAGAAGGAAAACGCGACCTC | 59.209 | 55.000 | 15.93 | 5.22 | 33.16 | 3.85 |
928 | 951 | 0.680061 | AGAAGGAAAACGCGACCTCT | 59.320 | 50.000 | 15.93 | 11.54 | 33.16 | 3.69 |
929 | 952 | 1.069255 | GAAGGAAAACGCGACCTCTC | 58.931 | 55.000 | 15.93 | 11.52 | 33.16 | 3.20 |
930 | 953 | 0.680061 | AAGGAAAACGCGACCTCTCT | 59.320 | 50.000 | 15.93 | 0.00 | 33.16 | 3.10 |
931 | 954 | 0.244178 | AGGAAAACGCGACCTCTCTC | 59.756 | 55.000 | 15.93 | 0.00 | 0.00 | 3.20 |
932 | 955 | 0.244178 | GGAAAACGCGACCTCTCTCT | 59.756 | 55.000 | 15.93 | 0.00 | 0.00 | 3.10 |
933 | 956 | 1.619983 | GAAAACGCGACCTCTCTCTC | 58.380 | 55.000 | 15.93 | 0.00 | 0.00 | 3.20 |
934 | 957 | 1.200484 | GAAAACGCGACCTCTCTCTCT | 59.800 | 52.381 | 15.93 | 0.00 | 0.00 | 3.10 |
935 | 958 | 0.806241 | AAACGCGACCTCTCTCTCTC | 59.194 | 55.000 | 15.93 | 0.00 | 0.00 | 3.20 |
936 | 959 | 0.035820 | AACGCGACCTCTCTCTCTCT | 60.036 | 55.000 | 15.93 | 0.00 | 0.00 | 3.10 |
937 | 960 | 0.461339 | ACGCGACCTCTCTCTCTCTC | 60.461 | 60.000 | 15.93 | 0.00 | 0.00 | 3.20 |
938 | 961 | 0.179084 | CGCGACCTCTCTCTCTCTCT | 60.179 | 60.000 | 0.00 | 0.00 | 0.00 | 3.10 |
939 | 962 | 1.583054 | GCGACCTCTCTCTCTCTCTC | 58.417 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
940 | 963 | 1.139058 | GCGACCTCTCTCTCTCTCTCT | 59.861 | 57.143 | 0.00 | 0.00 | 0.00 | 3.10 |
941 | 964 | 2.803492 | GCGACCTCTCTCTCTCTCTCTC | 60.803 | 59.091 | 0.00 | 0.00 | 0.00 | 3.20 |
942 | 965 | 2.695666 | CGACCTCTCTCTCTCTCTCTCT | 59.304 | 54.545 | 0.00 | 0.00 | 0.00 | 3.10 |
943 | 966 | 3.243569 | CGACCTCTCTCTCTCTCTCTCTC | 60.244 | 56.522 | 0.00 | 0.00 | 0.00 | 3.20 |
944 | 967 | 3.964031 | GACCTCTCTCTCTCTCTCTCTCT | 59.036 | 52.174 | 0.00 | 0.00 | 0.00 | 3.10 |
945 | 968 | 3.964031 | ACCTCTCTCTCTCTCTCTCTCTC | 59.036 | 52.174 | 0.00 | 0.00 | 0.00 | 3.20 |
946 | 969 | 4.222336 | CCTCTCTCTCTCTCTCTCTCTCT | 58.778 | 52.174 | 0.00 | 0.00 | 0.00 | 3.10 |
947 | 970 | 4.280677 | CCTCTCTCTCTCTCTCTCTCTCTC | 59.719 | 54.167 | 0.00 | 0.00 | 0.00 | 3.20 |
948 | 971 | 5.136068 | TCTCTCTCTCTCTCTCTCTCTCT | 57.864 | 47.826 | 0.00 | 0.00 | 0.00 | 3.10 |
949 | 972 | 5.136828 | TCTCTCTCTCTCTCTCTCTCTCTC | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
950 | 973 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
951 | 974 | 5.136828 | TCTCTCTCTCTCTCTCTCTCTCTC | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
952 | 975 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
953 | 976 | 5.136828 | TCTCTCTCTCTCTCTCTCTCTCTC | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
954 | 977 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
955 | 978 | 5.136828 | TCTCTCTCTCTCTCTCTCTCTCTC | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
956 | 979 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
960 | 983 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
971 | 994 | 0.322906 | TCTCTCTCTCTCTGCGGCAA | 60.323 | 55.000 | 3.44 | 0.00 | 0.00 | 4.52 |
1056 | 1079 | 2.047844 | CAGGTGTCAGGCCTCGTG | 60.048 | 66.667 | 0.00 | 0.00 | 33.31 | 4.35 |
1163 | 1191 | 1.095807 | CCCCGCGAAAAATCTCCCTC | 61.096 | 60.000 | 8.23 | 0.00 | 0.00 | 4.30 |
1185 | 1221 | 4.161754 | TCTCTCCCCGTCTATTTTTCCTTC | 59.838 | 45.833 | 0.00 | 0.00 | 0.00 | 3.46 |
1201 | 1237 | 3.285484 | TCCTTCGGAGCTAACTAACGAT | 58.715 | 45.455 | 0.00 | 0.00 | 35.92 | 3.73 |
1248 | 1285 | 2.270257 | GCTGGTGTGCTTGATGGCA | 61.270 | 57.895 | 0.00 | 0.00 | 40.15 | 4.92 |
1349 | 1386 | 2.828520 | GTGAGTTCTCATCTCTGGGACA | 59.171 | 50.000 | 5.80 | 0.00 | 29.26 | 4.02 |
1362 | 1399 | 0.105709 | TGGGACAGGACAGACACAGA | 60.106 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1363 | 1400 | 0.318762 | GGGACAGGACAGACACAGAC | 59.681 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
1365 | 1402 | 1.689273 | GGACAGGACAGACACAGACTT | 59.311 | 52.381 | 0.00 | 0.00 | 0.00 | 3.01 |
1375 | 1412 | 7.990886 | AGGACAGACACAGACTTGTAAATTTTA | 59.009 | 33.333 | 0.00 | 0.00 | 35.25 | 1.52 |
1386 | 1423 | 5.239963 | ACTTGTAAATTTTACCGGGAGTGTG | 59.760 | 40.000 | 14.99 | 0.79 | 0.00 | 3.82 |
1418 | 1468 | 9.444600 | GATTTATGAGTTCCAACTACTAACCAA | 57.555 | 33.333 | 0.00 | 0.00 | 39.88 | 3.67 |
1439 | 1489 | 3.469739 | AGGCAGCTTTTGTCCAATTTTG | 58.530 | 40.909 | 0.00 | 0.00 | 29.16 | 2.44 |
1463 | 1513 | 9.461312 | TTGGCTTTACTAATGTTTCATATCACT | 57.539 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
1495 | 1545 | 7.045126 | AGAGCAGTATGTAGTCCAGTTATTC | 57.955 | 40.000 | 0.00 | 0.00 | 39.31 | 1.75 |
1501 | 1551 | 3.845178 | TGTAGTCCAGTTATTCGTGCAG | 58.155 | 45.455 | 0.00 | 0.00 | 0.00 | 4.41 |
1600 | 1651 | 2.555757 | GGCATGATCCACTAATTGGCTC | 59.444 | 50.000 | 0.00 | 0.00 | 46.47 | 4.70 |
1701 | 1779 | 5.062183 | CCATAGATGTCGTATTGTATTGCCG | 59.938 | 44.000 | 0.00 | 0.00 | 0.00 | 5.69 |
1702 | 1780 | 2.800544 | AGATGTCGTATTGTATTGCCGC | 59.199 | 45.455 | 0.00 | 0.00 | 0.00 | 6.53 |
1717 | 1795 | 1.362406 | GCCGCTCTAGTTCTTGCCAC | 61.362 | 60.000 | 0.00 | 0.00 | 0.00 | 5.01 |
1742 | 1820 | 8.311109 | ACAAGAGTTAAGGTTTGACAAAATTGT | 58.689 | 29.630 | 1.27 | 0.00 | 45.65 | 2.71 |
1844 | 1923 | 5.123820 | TGAATGGGAACGATGTGAGAAATTC | 59.876 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
1868 | 1966 | 5.237344 | CAGCTTGTTACAGTAGAAAAGTGCT | 59.763 | 40.000 | 0.00 | 0.00 | 31.00 | 4.40 |
1915 | 2013 | 4.034510 | ACGCAGAGAAAGCATGCTATAAAC | 59.965 | 41.667 | 23.00 | 11.69 | 37.81 | 2.01 |
1916 | 2014 | 4.272018 | CGCAGAGAAAGCATGCTATAAACT | 59.728 | 41.667 | 23.00 | 15.10 | 37.81 | 2.66 |
1917 | 2015 | 5.463392 | CGCAGAGAAAGCATGCTATAAACTA | 59.537 | 40.000 | 23.00 | 0.00 | 37.81 | 2.24 |
1969 | 2067 | 3.386486 | CGTGGAACTGTAGTTGTTAGCA | 58.614 | 45.455 | 1.35 | 0.00 | 38.56 | 3.49 |
1998 | 2096 | 8.200792 | TGCTCCTCAACTTTGCTTTAATTTTTA | 58.799 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
1999 | 2097 | 8.703336 | GCTCCTCAACTTTGCTTTAATTTTTAG | 58.297 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
2000 | 2098 | 8.587952 | TCCTCAACTTTGCTTTAATTTTTAGC | 57.412 | 30.769 | 0.00 | 0.00 | 35.50 | 3.09 |
2366 | 2646 | 4.735822 | CCTTTTCGTCTATTAGAGTCTGCG | 59.264 | 45.833 | 1.86 | 0.00 | 0.00 | 5.18 |
2434 | 2714 | 4.698575 | GGTTCCAGGTTAGCTCTCTTATG | 58.301 | 47.826 | 0.00 | 0.00 | 0.00 | 1.90 |
2487 | 2767 | 0.815615 | GCAGAACTAAGGCATCGGGG | 60.816 | 60.000 | 0.00 | 0.00 | 0.00 | 5.73 |
2545 | 2825 | 5.860648 | TCCTATTTTGGAAGAAGGGAAGT | 57.139 | 39.130 | 0.00 | 0.00 | 32.39 | 3.01 |
2708 | 2988 | 0.698238 | TCCCTGGGGTCATCAACTTG | 59.302 | 55.000 | 14.00 | 0.00 | 36.47 | 3.16 |
2725 | 3005 | 7.752518 | TCAACTTGGGTAATGGTTAGGTATA | 57.247 | 36.000 | 0.00 | 0.00 | 0.00 | 1.47 |
2727 | 3007 | 6.165700 | ACTTGGGTAATGGTTAGGTATACG | 57.834 | 41.667 | 0.00 | 0.00 | 0.00 | 3.06 |
2782 | 3062 | 7.416326 | CCATCCTGTTTTATTTGTAGCTAACCC | 60.416 | 40.741 | 0.00 | 0.00 | 0.00 | 4.11 |
2800 | 3080 | 3.469739 | ACCCGACGATGTAAGTTTGTTT | 58.530 | 40.909 | 0.00 | 0.00 | 0.00 | 2.83 |
2806 | 3086 | 7.117454 | CCGACGATGTAAGTTTGTTTGATATC | 58.883 | 38.462 | 0.00 | 0.00 | 0.00 | 1.63 |
2823 | 3228 | 8.877779 | GTTTGATATCTGGTATGATACATCTGC | 58.122 | 37.037 | 4.83 | 0.00 | 32.51 | 4.26 |
2846 | 3251 | 5.633182 | GCAAAACCACACATCGATACATTTT | 59.367 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2847 | 3252 | 6.145371 | GCAAAACCACACATCGATACATTTTT | 59.855 | 34.615 | 0.00 | 0.00 | 0.00 | 1.94 |
2883 | 3586 | 5.239744 | TGCAAAGGTTATTTTCTGTAGCGAA | 59.760 | 36.000 | 0.00 | 0.00 | 0.00 | 4.70 |
2891 | 3594 | 4.404507 | TTTTCTGTAGCGAAATGAGTGC | 57.595 | 40.909 | 0.00 | 0.00 | 33.33 | 4.40 |
2900 | 3616 | 6.983890 | TGTAGCGAAATGAGTGCTAAATATCA | 59.016 | 34.615 | 0.00 | 0.00 | 42.36 | 2.15 |
2904 | 3620 | 8.663025 | AGCGAAATGAGTGCTAAATATCATATG | 58.337 | 33.333 | 0.00 | 0.00 | 37.15 | 1.78 |
3015 | 4115 | 7.232534 | TGTTCCTAAATGTTTAAACTGCCAGAT | 59.767 | 33.333 | 18.72 | 0.67 | 0.00 | 2.90 |
3035 | 4135 | 7.656137 | GCCAGATCGTCTTATATTTAGGAACAA | 59.344 | 37.037 | 0.00 | 0.00 | 0.00 | 2.83 |
3056 | 4156 | 7.849322 | ACAAAGGGTGTAATTCCTAAAACAT | 57.151 | 32.000 | 0.00 | 0.00 | 39.29 | 2.71 |
3077 | 4177 | 2.409948 | AACTTGGAGGAGTAGCATGC | 57.590 | 50.000 | 10.51 | 10.51 | 0.00 | 4.06 |
3506 | 4606 | 2.930023 | GCACTGTGACTCTCATCCTGTG | 60.930 | 54.545 | 12.86 | 0.00 | 0.00 | 3.66 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
108 | 109 | 6.822676 | ACAAATGATGCTCCTAAGAGAGAAAG | 59.177 | 38.462 | 0.00 | 0.00 | 43.39 | 2.62 |
135 | 136 | 1.670406 | CTGACTTCCAGCGCTGCTT | 60.670 | 57.895 | 31.96 | 14.59 | 36.40 | 3.91 |
231 | 232 | 1.236616 | CGACCAGGCATGACAAAGCA | 61.237 | 55.000 | 0.00 | 0.00 | 0.00 | 3.91 |
392 | 409 | 1.192146 | TTTGCCCGGTCTAGCTGTCT | 61.192 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
424 | 441 | 4.285020 | TCACTCCATCTTCAGAGCTGTAT | 58.715 | 43.478 | 0.00 | 0.00 | 33.18 | 2.29 |
524 | 542 | 3.070302 | GGCTAACATCTAAGACCTGAGGG | 59.930 | 52.174 | 2.38 | 0.00 | 38.88 | 4.30 |
545 | 563 | 1.542915 | CCACAAATCTCACAGCCAAGG | 59.457 | 52.381 | 0.00 | 0.00 | 0.00 | 3.61 |
558 | 576 | 1.847737 | TCCGGGCCTAATACCACAAAT | 59.152 | 47.619 | 0.84 | 0.00 | 0.00 | 2.32 |
583 | 605 | 2.309755 | TCCAGTTGATGAAGGGATGCTT | 59.690 | 45.455 | 0.00 | 0.00 | 0.00 | 3.91 |
612 | 634 | 0.894835 | TCTAGGCAACATCTGTCGCA | 59.105 | 50.000 | 0.00 | 0.00 | 41.41 | 5.10 |
637 | 660 | 9.832445 | AAAGAAATACAACAGTAAGTCTGAAGA | 57.168 | 29.630 | 1.79 | 0.00 | 46.27 | 2.87 |
715 | 738 | 1.920835 | GAAGACCCCCTGCCTCTGT | 60.921 | 63.158 | 0.00 | 0.00 | 0.00 | 3.41 |
723 | 746 | 2.719676 | AGAAAAGAAGGAAGACCCCCT | 58.280 | 47.619 | 0.00 | 0.00 | 36.73 | 4.79 |
753 | 776 | 8.160765 | TGACCTCAAGACAAACCTATTTCATTA | 58.839 | 33.333 | 0.00 | 0.00 | 0.00 | 1.90 |
754 | 777 | 7.004086 | TGACCTCAAGACAAACCTATTTCATT | 58.996 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
756 | 779 | 5.935945 | TGACCTCAAGACAAACCTATTTCA | 58.064 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
757 | 780 | 6.877611 | TTGACCTCAAGACAAACCTATTTC | 57.122 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
758 | 781 | 7.839680 | ATTTGACCTCAAGACAAACCTATTT | 57.160 | 32.000 | 0.00 | 0.00 | 37.15 | 1.40 |
759 | 782 | 7.839680 | AATTTGACCTCAAGACAAACCTATT | 57.160 | 32.000 | 0.00 | 0.00 | 37.15 | 1.73 |
761 | 784 | 8.792633 | CATAAATTTGACCTCAAGACAAACCTA | 58.207 | 33.333 | 0.00 | 0.00 | 37.15 | 3.08 |
762 | 785 | 7.661040 | CATAAATTTGACCTCAAGACAAACCT | 58.339 | 34.615 | 0.00 | 0.00 | 37.15 | 3.50 |
763 | 786 | 6.366061 | GCATAAATTTGACCTCAAGACAAACC | 59.634 | 38.462 | 0.00 | 0.00 | 37.15 | 3.27 |
764 | 787 | 6.366061 | GGCATAAATTTGACCTCAAGACAAAC | 59.634 | 38.462 | 0.00 | 0.00 | 37.15 | 2.93 |
765 | 788 | 6.267471 | AGGCATAAATTTGACCTCAAGACAAA | 59.733 | 34.615 | 0.00 | 0.00 | 37.15 | 2.83 |
766 | 789 | 5.774690 | AGGCATAAATTTGACCTCAAGACAA | 59.225 | 36.000 | 0.00 | 0.00 | 37.15 | 3.18 |
767 | 790 | 5.324409 | AGGCATAAATTTGACCTCAAGACA | 58.676 | 37.500 | 0.00 | 0.00 | 37.15 | 3.41 |
768 | 791 | 5.904362 | AGGCATAAATTTGACCTCAAGAC | 57.096 | 39.130 | 0.00 | 0.00 | 37.15 | 3.01 |
770 | 793 | 6.128472 | GCAAAAGGCATAAATTTGACCTCAAG | 60.128 | 38.462 | 0.00 | 0.49 | 43.97 | 3.02 |
771 | 794 | 5.700373 | GCAAAAGGCATAAATTTGACCTCAA | 59.300 | 36.000 | 0.00 | 0.00 | 43.97 | 3.02 |
772 | 795 | 5.237048 | GCAAAAGGCATAAATTTGACCTCA | 58.763 | 37.500 | 0.00 | 0.00 | 43.97 | 3.86 |
773 | 796 | 5.784750 | GCAAAAGGCATAAATTTGACCTC | 57.215 | 39.130 | 0.00 | 0.00 | 43.97 | 3.85 |
809 | 832 | 4.916358 | GGAAGAGCATCCCCATGG | 57.084 | 61.111 | 4.14 | 4.14 | 33.66 | 3.66 |
815 | 838 | 1.834263 | ACTGTACTGGGAAGAGCATCC | 59.166 | 52.381 | 4.66 | 0.00 | 38.86 | 3.51 |
816 | 839 | 3.954904 | TCTACTGTACTGGGAAGAGCATC | 59.045 | 47.826 | 4.66 | 0.00 | 0.00 | 3.91 |
817 | 840 | 3.982516 | TCTACTGTACTGGGAAGAGCAT | 58.017 | 45.455 | 4.66 | 0.00 | 0.00 | 3.79 |
818 | 841 | 3.451402 | TCTACTGTACTGGGAAGAGCA | 57.549 | 47.619 | 4.66 | 0.00 | 0.00 | 4.26 |
819 | 842 | 4.037446 | CAGATCTACTGTACTGGGAAGAGC | 59.963 | 50.000 | 0.00 | 6.88 | 41.30 | 4.09 |
820 | 843 | 5.298276 | GTCAGATCTACTGTACTGGGAAGAG | 59.702 | 48.000 | 0.00 | 0.00 | 45.86 | 2.85 |
825 | 848 | 3.542648 | TCGTCAGATCTACTGTACTGGG | 58.457 | 50.000 | 0.00 | 0.00 | 45.86 | 4.45 |
854 | 877 | 4.042311 | TGATGCTTTCCCAAGTACCAAGTA | 59.958 | 41.667 | 0.00 | 0.00 | 31.86 | 2.24 |
855 | 878 | 3.181434 | TGATGCTTTCCCAAGTACCAAGT | 60.181 | 43.478 | 0.00 | 0.00 | 31.86 | 3.16 |
856 | 879 | 3.420893 | TGATGCTTTCCCAAGTACCAAG | 58.579 | 45.455 | 0.00 | 0.00 | 31.86 | 3.61 |
857 | 880 | 3.517296 | TGATGCTTTCCCAAGTACCAA | 57.483 | 42.857 | 0.00 | 0.00 | 31.86 | 3.67 |
858 | 881 | 3.517296 | TTGATGCTTTCCCAAGTACCA | 57.483 | 42.857 | 0.00 | 0.00 | 31.86 | 3.25 |
859 | 882 | 3.367395 | GCTTTGATGCTTTCCCAAGTACC | 60.367 | 47.826 | 0.00 | 0.00 | 31.86 | 3.34 |
860 | 883 | 3.507622 | AGCTTTGATGCTTTCCCAAGTAC | 59.492 | 43.478 | 0.00 | 0.00 | 40.93 | 2.73 |
861 | 884 | 3.507233 | CAGCTTTGATGCTTTCCCAAGTA | 59.493 | 43.478 | 0.00 | 0.00 | 41.98 | 2.24 |
862 | 885 | 2.298163 | CAGCTTTGATGCTTTCCCAAGT | 59.702 | 45.455 | 0.00 | 0.00 | 41.98 | 3.16 |
925 | 948 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
926 | 949 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
927 | 950 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
928 | 951 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
929 | 952 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
930 | 953 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
931 | 954 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
932 | 955 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
933 | 956 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
934 | 957 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
935 | 958 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
936 | 959 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
937 | 960 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
938 | 961 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
939 | 962 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
940 | 963 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
941 | 964 | 5.009911 | CAGAGAGAGAGAGAGAGAGAGAGAG | 59.990 | 52.000 | 0.00 | 0.00 | 0.00 | 3.20 |
942 | 965 | 4.892345 | CAGAGAGAGAGAGAGAGAGAGAGA | 59.108 | 50.000 | 0.00 | 0.00 | 0.00 | 3.10 |
943 | 966 | 4.501229 | GCAGAGAGAGAGAGAGAGAGAGAG | 60.501 | 54.167 | 0.00 | 0.00 | 0.00 | 3.20 |
944 | 967 | 3.386078 | GCAGAGAGAGAGAGAGAGAGAGA | 59.614 | 52.174 | 0.00 | 0.00 | 0.00 | 3.10 |
945 | 968 | 3.726607 | GCAGAGAGAGAGAGAGAGAGAG | 58.273 | 54.545 | 0.00 | 0.00 | 0.00 | 3.20 |
946 | 969 | 2.101415 | CGCAGAGAGAGAGAGAGAGAGA | 59.899 | 54.545 | 0.00 | 0.00 | 0.00 | 3.10 |
947 | 970 | 2.477825 | CGCAGAGAGAGAGAGAGAGAG | 58.522 | 57.143 | 0.00 | 0.00 | 0.00 | 3.20 |
948 | 971 | 1.138859 | CCGCAGAGAGAGAGAGAGAGA | 59.861 | 57.143 | 0.00 | 0.00 | 0.00 | 3.10 |
949 | 972 | 1.586422 | CCGCAGAGAGAGAGAGAGAG | 58.414 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
950 | 973 | 0.463654 | GCCGCAGAGAGAGAGAGAGA | 60.464 | 60.000 | 0.00 | 0.00 | 0.00 | 3.10 |
951 | 974 | 0.747644 | TGCCGCAGAGAGAGAGAGAG | 60.748 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
952 | 975 | 0.322906 | TTGCCGCAGAGAGAGAGAGA | 60.323 | 55.000 | 0.00 | 0.00 | 0.00 | 3.10 |
953 | 976 | 0.179140 | GTTGCCGCAGAGAGAGAGAG | 60.179 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
954 | 977 | 1.599606 | GGTTGCCGCAGAGAGAGAGA | 61.600 | 60.000 | 0.00 | 0.00 | 0.00 | 3.10 |
955 | 978 | 1.153667 | GGTTGCCGCAGAGAGAGAG | 60.154 | 63.158 | 0.00 | 0.00 | 0.00 | 3.20 |
956 | 979 | 2.650116 | GGGTTGCCGCAGAGAGAGA | 61.650 | 63.158 | 0.00 | 0.00 | 0.00 | 3.10 |
1163 | 1191 | 4.443621 | GAAGGAAAAATAGACGGGGAGAG | 58.556 | 47.826 | 0.00 | 0.00 | 0.00 | 3.20 |
1185 | 1221 | 1.779724 | GCGAATCGTTAGTTAGCTCCG | 59.220 | 52.381 | 4.07 | 0.00 | 0.00 | 4.63 |
1349 | 1386 | 5.552870 | ATTTACAAGTCTGTGTCTGTCCT | 57.447 | 39.130 | 0.00 | 0.00 | 36.96 | 3.85 |
1362 | 1399 | 5.239963 | CACACTCCCGGTAAAATTTACAAGT | 59.760 | 40.000 | 16.55 | 10.91 | 0.00 | 3.16 |
1363 | 1400 | 5.335348 | CCACACTCCCGGTAAAATTTACAAG | 60.335 | 44.000 | 16.55 | 10.02 | 0.00 | 3.16 |
1365 | 1402 | 4.073549 | CCACACTCCCGGTAAAATTTACA | 58.926 | 43.478 | 16.55 | 0.00 | 0.00 | 2.41 |
1375 | 1412 | 0.691078 | ATCATAGCCACACTCCCGGT | 60.691 | 55.000 | 0.00 | 0.00 | 0.00 | 5.28 |
1386 | 1423 | 7.934120 | AGTAGTTGGAACTCATAAATCATAGCC | 59.066 | 37.037 | 0.00 | 0.00 | 40.37 | 3.93 |
1418 | 1468 | 3.469739 | CAAAATTGGACAAAAGCTGCCT | 58.530 | 40.909 | 0.00 | 0.00 | 0.00 | 4.75 |
1459 | 1509 | 8.827758 | ACTACATACTGCTCTCCTATATAGTGA | 58.172 | 37.037 | 8.92 | 5.91 | 0.00 | 3.41 |
1460 | 1510 | 9.104965 | GACTACATACTGCTCTCCTATATAGTG | 57.895 | 40.741 | 8.92 | 1.93 | 0.00 | 2.74 |
1461 | 1511 | 8.269317 | GGACTACATACTGCTCTCCTATATAGT | 58.731 | 40.741 | 8.92 | 0.00 | 0.00 | 2.12 |
1463 | 1513 | 8.159229 | TGGACTACATACTGCTCTCCTATATA | 57.841 | 38.462 | 0.00 | 0.00 | 0.00 | 0.86 |
1465 | 1515 | 6.044520 | ACTGGACTACATACTGCTCTCCTATA | 59.955 | 42.308 | 0.00 | 0.00 | 0.00 | 1.31 |
1466 | 1516 | 5.163034 | ACTGGACTACATACTGCTCTCCTAT | 60.163 | 44.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1475 | 1525 | 5.459107 | GCACGAATAACTGGACTACATACTG | 59.541 | 44.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1477 | 1527 | 5.345702 | TGCACGAATAACTGGACTACATAC | 58.654 | 41.667 | 0.00 | 0.00 | 0.00 | 2.39 |
1495 | 1545 | 3.430895 | AGTTATACAAAACGGACTGCACG | 59.569 | 43.478 | 0.00 | 0.00 | 34.46 | 5.34 |
1501 | 1551 | 9.968743 | CTAAGAATTGAGTTATACAAAACGGAC | 57.031 | 33.333 | 0.00 | 0.00 | 34.46 | 4.79 |
1619 | 1670 | 1.001158 | GCGAGATACACCTAGACCAGC | 60.001 | 57.143 | 0.00 | 0.00 | 0.00 | 4.85 |
1701 | 1779 | 2.999355 | CTCTTGTGGCAAGAACTAGAGC | 59.001 | 50.000 | 11.93 | 0.00 | 39.48 | 4.09 |
1702 | 1780 | 4.264460 | ACTCTTGTGGCAAGAACTAGAG | 57.736 | 45.455 | 11.93 | 11.68 | 46.42 | 2.43 |
1717 | 1795 | 8.594687 | CACAATTTTGTCAAACCTTAACTCTTG | 58.405 | 33.333 | 0.00 | 0.00 | 39.91 | 3.02 |
1742 | 1820 | 6.816136 | TCGAATCTTAGATAAGGCAATGTCA | 58.184 | 36.000 | 0.00 | 0.00 | 34.14 | 3.58 |
1844 | 1923 | 5.237344 | AGCACTTTTCTACTGTAACAAGCTG | 59.763 | 40.000 | 0.00 | 0.00 | 0.00 | 4.24 |
1969 | 2067 | 2.283145 | AGCAAAGTTGAGGAGCACAT | 57.717 | 45.000 | 0.00 | 0.00 | 0.00 | 3.21 |
1982 | 2080 | 7.437124 | GCTGTACGCTAAAAATTAAAGCAAAG | 58.563 | 34.615 | 7.21 | 1.42 | 35.98 | 2.77 |
1999 | 2097 | 4.813296 | ATTATGGCTTAAAGCTGTACGC | 57.187 | 40.909 | 3.78 | 3.78 | 41.99 | 4.42 |
2000 | 2098 | 5.455525 | GCAAATTATGGCTTAAAGCTGTACG | 59.544 | 40.000 | 0.00 | 0.00 | 41.99 | 3.67 |
2366 | 2646 | 4.860907 | ACAAAGCTGAATCGCAAATTGATC | 59.139 | 37.500 | 0.00 | 0.00 | 0.00 | 2.92 |
2487 | 2767 | 1.190323 | CTTTGTCACGAGCAAGACGAC | 59.810 | 52.381 | 0.00 | 0.00 | 37.58 | 4.34 |
2544 | 2824 | 9.209175 | ACTAAGATCAACAATTCAACACTCTAC | 57.791 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
2545 | 2825 | 9.424319 | GACTAAGATCAACAATTCAACACTCTA | 57.576 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
2646 | 2926 | 2.695127 | AAGAGCAGCTGAAGATGGAG | 57.305 | 50.000 | 20.43 | 0.00 | 31.02 | 3.86 |
2647 | 2927 | 2.570752 | AGAAAGAGCAGCTGAAGATGGA | 59.429 | 45.455 | 20.43 | 0.00 | 31.02 | 3.41 |
2648 | 2928 | 2.988570 | AGAAAGAGCAGCTGAAGATGG | 58.011 | 47.619 | 20.43 | 0.00 | 31.02 | 3.51 |
2649 | 2929 | 5.177326 | ACTAAGAAAGAGCAGCTGAAGATG | 58.823 | 41.667 | 20.43 | 0.00 | 34.00 | 2.90 |
2691 | 2971 | 0.323725 | CCCAAGTTGATGACCCCAGG | 60.324 | 60.000 | 3.87 | 0.00 | 0.00 | 4.45 |
2708 | 2988 | 5.806654 | TTCCGTATACCTAACCATTACCC | 57.193 | 43.478 | 0.00 | 0.00 | 0.00 | 3.69 |
2725 | 3005 | 8.915036 | AGATACAACATCTATCTAGTTTTCCGT | 58.085 | 33.333 | 0.00 | 0.00 | 30.51 | 4.69 |
2727 | 3007 | 9.482627 | CCAGATACAACATCTATCTAGTTTTCC | 57.517 | 37.037 | 0.00 | 0.00 | 31.02 | 3.13 |
2782 | 3062 | 7.841277 | CAGATATCAAACAAACTTACATCGTCG | 59.159 | 37.037 | 5.32 | 0.00 | 0.00 | 5.12 |
2800 | 3080 | 7.722949 | TGCAGATGTATCATACCAGATATCA | 57.277 | 36.000 | 5.32 | 0.00 | 33.42 | 2.15 |
2806 | 3086 | 5.589855 | TGGTTTTGCAGATGTATCATACCAG | 59.410 | 40.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2823 | 3228 | 7.636259 | AAAAATGTATCGATGTGTGGTTTTG | 57.364 | 32.000 | 8.54 | 0.00 | 0.00 | 2.44 |
2858 | 3561 | 5.414454 | TCGCTACAGAAAATAACCTTTGCAT | 59.586 | 36.000 | 0.00 | 0.00 | 0.00 | 3.96 |
2943 | 3736 | 4.142071 | TGCATTTTGCTTGTTCTGGTGTTA | 60.142 | 37.500 | 0.75 | 0.00 | 45.31 | 2.41 |
3015 | 4115 | 7.767198 | CACCCTTTGTTCCTAAATATAAGACGA | 59.233 | 37.037 | 0.00 | 0.00 | 0.00 | 4.20 |
3035 | 4135 | 9.596308 | AGTTTATGTTTTAGGAATTACACCCTT | 57.404 | 29.630 | 0.00 | 0.00 | 34.11 | 3.95 |
3056 | 4156 | 3.370527 | GGCATGCTACTCCTCCAAGTTTA | 60.371 | 47.826 | 18.92 | 0.00 | 0.00 | 2.01 |
3067 | 4167 | 1.740025 | GGTCAAGTTGGCATGCTACTC | 59.260 | 52.381 | 18.92 | 7.47 | 0.00 | 2.59 |
3077 | 4177 | 9.996554 | AAAGGAAATAATAAAAGGTCAAGTTGG | 57.003 | 29.630 | 2.34 | 0.00 | 0.00 | 3.77 |
3273 | 4373 | 1.271840 | ATCTTGGCCCTTGCTCGGTA | 61.272 | 55.000 | 0.00 | 0.00 | 37.74 | 4.02 |
3452 | 4552 | 1.123077 | AGCGGCACAGAGGATAATGA | 58.877 | 50.000 | 1.45 | 0.00 | 0.00 | 2.57 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.