Multiple sequence alignment - TraesCS1A01G028800
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 | TraesCS1A01G028800 | chr1A | 100.000 | 3726 | 0 | 0 | 1 | 3726 | 13454280 | 13458005 | 0.000000e+00 | 6881.0 |
1 | TraesCS1A01G028800 | chr1A | 88.137 | 2571 | 265 | 29 | 162 | 2710 | 22614668 | 22612116 | 0.000000e+00 | 3022.0 |
2 | TraesCS1A01G028800 | chr1A | 86.282 | 2719 | 309 | 44 | 163 | 2839 | 13665234 | 13667930 | 0.000000e+00 | 2896.0 |
3 | TraesCS1A01G028800 | chr1A | 87.637 | 2459 | 290 | 9 | 167 | 2615 | 12589371 | 12586917 | 0.000000e+00 | 2844.0 |
4 | TraesCS1A01G028800 | chr1A | 85.589 | 2727 | 307 | 46 | 312 | 2967 | 13571106 | 13573817 | 0.000000e+00 | 2780.0 |
5 | TraesCS1A01G028800 | chr1A | 86.071 | 2563 | 299 | 38 | 312 | 2839 | 13415556 | 13418095 | 0.000000e+00 | 2702.0 |
6 | TraesCS1A01G028800 | chr1A | 83.801 | 2889 | 364 | 53 | 166 | 2999 | 13315773 | 13318612 | 0.000000e+00 | 2647.0 |
7 | TraesCS1A01G028800 | chr1A | 77.582 | 397 | 50 | 25 | 3124 | 3501 | 13574001 | 13574377 | 1.750000e-48 | 204.0 |
8 | TraesCS1A01G028800 | chr1A | 87.333 | 150 | 14 | 3 | 2 | 150 | 13315126 | 13315271 | 2.300000e-37 | 167.0 |
9 | TraesCS1A01G028800 | chr1A | 76.981 | 265 | 43 | 12 | 3109 | 3366 | 13343111 | 13343364 | 6.490000e-28 | 135.0 |
10 | TraesCS1A01G028800 | chr1A | 78.661 | 239 | 16 | 21 | 2633 | 2839 | 12586853 | 12586618 | 3.910000e-25 | 126.0 |
11 | TraesCS1A01G028800 | chr1D | 88.831 | 3080 | 256 | 45 | 1 | 3002 | 11178042 | 11181111 | 0.000000e+00 | 3701.0 |
12 | TraesCS1A01G028800 | chr1D | 86.747 | 2739 | 280 | 54 | 336 | 3002 | 11319543 | 11322270 | 0.000000e+00 | 2970.0 |
13 | TraesCS1A01G028800 | chr1D | 84.962 | 2600 | 318 | 44 | 312 | 2850 | 11289601 | 11292188 | 0.000000e+00 | 2567.0 |
14 | TraesCS1A01G028800 | chr1D | 81.686 | 617 | 66 | 22 | 3104 | 3689 | 11277346 | 11277946 | 1.570000e-128 | 470.0 |
15 | TraesCS1A01G028800 | chr1D | 84.091 | 132 | 14 | 5 | 3091 | 3220 | 11458316 | 11458442 | 1.820000e-23 | 121.0 |
16 | TraesCS1A01G028800 | chr1D | 79.375 | 160 | 22 | 7 | 3091 | 3248 | 11322336 | 11322486 | 6.580000e-18 | 102.0 |
17 | TraesCS1A01G028800 | chr1D | 92.857 | 56 | 1 | 2 | 2681 | 2733 | 11457932 | 11457987 | 1.110000e-10 | 78.7 |
18 | TraesCS1A01G028800 | chr1B | 87.036 | 2746 | 280 | 47 | 154 | 2846 | 16519626 | 16522348 | 0.000000e+00 | 3029.0 |
19 | TraesCS1A01G028800 | chr1B | 87.199 | 2695 | 256 | 56 | 342 | 2965 | 17017316 | 17014640 | 0.000000e+00 | 2983.0 |
20 | TraesCS1A01G028800 | chr1B | 87.607 | 2461 | 286 | 12 | 151 | 2596 | 16857779 | 16860235 | 0.000000e+00 | 2837.0 |
21 | TraesCS1A01G028800 | chr1B | 87.701 | 374 | 44 | 2 | 151 | 523 | 16531478 | 16531850 | 5.720000e-118 | 435.0 |
22 | TraesCS1A01G028800 | chr1B | 87.733 | 375 | 42 | 4 | 151 | 523 | 16546399 | 16546771 | 5.720000e-118 | 435.0 |
23 | TraesCS1A01G028800 | chr1B | 86.364 | 352 | 40 | 5 | 171 | 518 | 17340360 | 17340707 | 9.770000e-101 | 377.0 |
24 | TraesCS1A01G028800 | chr1B | 98.667 | 150 | 2 | 0 | 1 | 150 | 16545953 | 16546102 | 2.210000e-67 | 267.0 |
25 | TraesCS1A01G028800 | chr1B | 98.000 | 150 | 3 | 0 | 1 | 150 | 16519177 | 16519326 | 1.030000e-65 | 261.0 |
26 | TraesCS1A01G028800 | chr1B | 98.000 | 150 | 3 | 0 | 1 | 150 | 16531032 | 16531181 | 1.030000e-65 | 261.0 |
27 | TraesCS1A01G028800 | chr1B | 95.570 | 158 | 7 | 0 | 3056 | 3213 | 16633139 | 16633296 | 1.720000e-63 | 254.0 |
28 | TraesCS1A01G028800 | chr1B | 93.333 | 150 | 6 | 1 | 1 | 150 | 16857401 | 16857546 | 6.270000e-53 | 219.0 |
29 | TraesCS1A01G028800 | chr1B | 92.667 | 150 | 7 | 1 | 1 | 150 | 16926792 | 16926937 | 2.920000e-51 | 213.0 |
30 | TraesCS1A01G028800 | chr1B | 79.679 | 187 | 28 | 7 | 2851 | 3029 | 16860870 | 16861054 | 3.910000e-25 | 126.0 |
31 | TraesCS1A01G028800 | chr1B | 73.380 | 432 | 68 | 24 | 3097 | 3494 | 16694151 | 16694569 | 2.350000e-22 | 117.0 |
32 | TraesCS1A01G028800 | chrUn | 89.073 | 2169 | 223 | 10 | 510 | 2666 | 2472488 | 2470322 | 0.000000e+00 | 2680.0 |
33 | TraesCS1A01G028800 | chrUn | 84.354 | 147 | 20 | 2 | 12 | 156 | 317004373 | 317004228 | 1.400000e-29 | 141.0 |
34 | TraesCS1A01G028800 | chrUn | 84.354 | 147 | 20 | 2 | 12 | 156 | 317984173 | 317984028 | 1.400000e-29 | 141.0 |
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 | TraesCS1A01G028800 | chr1A | 13454280 | 13458005 | 3725 | False | 6881.000000 | 6881 | 100.0000 | 1 | 3726 | 1 | chr1A.!!$F3 | 3725 |
1 | TraesCS1A01G028800 | chr1A | 22612116 | 22614668 | 2552 | True | 3022.000000 | 3022 | 88.1370 | 162 | 2710 | 1 | chr1A.!!$R1 | 2548 |
2 | TraesCS1A01G028800 | chr1A | 13665234 | 13667930 | 2696 | False | 2896.000000 | 2896 | 86.2820 | 163 | 2839 | 1 | chr1A.!!$F4 | 2676 |
3 | TraesCS1A01G028800 | chr1A | 13415556 | 13418095 | 2539 | False | 2702.000000 | 2702 | 86.0710 | 312 | 2839 | 1 | chr1A.!!$F2 | 2527 |
4 | TraesCS1A01G028800 | chr1A | 13571106 | 13574377 | 3271 | False | 1492.000000 | 2780 | 81.5855 | 312 | 3501 | 2 | chr1A.!!$F6 | 3189 |
5 | TraesCS1A01G028800 | chr1A | 12586618 | 12589371 | 2753 | True | 1485.000000 | 2844 | 83.1490 | 167 | 2839 | 2 | chr1A.!!$R2 | 2672 |
6 | TraesCS1A01G028800 | chr1A | 13315126 | 13318612 | 3486 | False | 1407.000000 | 2647 | 85.5670 | 2 | 2999 | 2 | chr1A.!!$F5 | 2997 |
7 | TraesCS1A01G028800 | chr1D | 11178042 | 11181111 | 3069 | False | 3701.000000 | 3701 | 88.8310 | 1 | 3002 | 1 | chr1D.!!$F1 | 3001 |
8 | TraesCS1A01G028800 | chr1D | 11289601 | 11292188 | 2587 | False | 2567.000000 | 2567 | 84.9620 | 312 | 2850 | 1 | chr1D.!!$F3 | 2538 |
9 | TraesCS1A01G028800 | chr1D | 11319543 | 11322486 | 2943 | False | 1536.000000 | 2970 | 83.0610 | 336 | 3248 | 2 | chr1D.!!$F4 | 2912 |
10 | TraesCS1A01G028800 | chr1D | 11277346 | 11277946 | 600 | False | 470.000000 | 470 | 81.6860 | 3104 | 3689 | 1 | chr1D.!!$F2 | 585 |
11 | TraesCS1A01G028800 | chr1B | 17014640 | 17017316 | 2676 | True | 2983.000000 | 2983 | 87.1990 | 342 | 2965 | 1 | chr1B.!!$R1 | 2623 |
12 | TraesCS1A01G028800 | chr1B | 16519177 | 16522348 | 3171 | False | 1645.000000 | 3029 | 92.5180 | 1 | 2846 | 2 | chr1B.!!$F5 | 2845 |
13 | TraesCS1A01G028800 | chr1B | 16857401 | 16861054 | 3653 | False | 1060.666667 | 2837 | 86.8730 | 1 | 3029 | 3 | chr1B.!!$F8 | 3028 |
14 | TraesCS1A01G028800 | chr1B | 16545953 | 16546771 | 818 | False | 351.000000 | 435 | 93.2000 | 1 | 523 | 2 | chr1B.!!$F7 | 522 |
15 | TraesCS1A01G028800 | chr1B | 16531032 | 16531850 | 818 | False | 348.000000 | 435 | 92.8505 | 1 | 523 | 2 | chr1B.!!$F6 | 522 |
16 | TraesCS1A01G028800 | chrUn | 2470322 | 2472488 | 2166 | True | 2680.000000 | 2680 | 89.0730 | 510 | 2666 | 1 | chrUn.!!$R1 | 2156 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
468 | 986 | 0.094216 | CGAGTTTGAGACGCATGCTG | 59.906 | 55.000 | 17.13 | 11.87 | 0.00 | 4.41 | F |
1819 | 2362 | 1.205417 | CCATTGAAGTGTTGATGGGGC | 59.795 | 52.381 | 0.00 | 0.00 | 36.29 | 5.80 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2103 | 2649 | 0.032615 | AGAGATGCGAGGGGTCTCTT | 60.033 | 55.0 | 0.00 | 0.00 | 44.63 | 2.85 | R |
3704 | 4797 | 0.038890 | TTGCATGATCCCGGGTGAAA | 59.961 | 50.0 | 22.86 | 9.54 | 0.00 | 2.69 | 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 |
---|---|---|---|---|---|---|---|---|---|
155 | 659 | 9.449719 | GTCCAAGAAATCCATCTAAACTTCTTA | 57.550 | 33.333 | 0.00 | 0.00 | 32.75 | 2.10 |
468 | 986 | 0.094216 | CGAGTTTGAGACGCATGCTG | 59.906 | 55.000 | 17.13 | 11.87 | 0.00 | 4.41 |
501 | 1020 | 8.403236 | AGTTCGTTTTTGAATATATGCCCTTAC | 58.597 | 33.333 | 0.00 | 0.00 | 0.00 | 2.34 |
773 | 1300 | 8.463930 | AAATGAAACCTCTTTGTACTGATGAA | 57.536 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
1071 | 1600 | 6.872020 | TGAAAACTTGTCTACTGTACCTATGC | 59.128 | 38.462 | 0.00 | 0.00 | 0.00 | 3.14 |
1167 | 1696 | 2.518407 | TGGAGATCAAGGGACTAGCCTA | 59.482 | 50.000 | 0.00 | 0.00 | 38.49 | 3.93 |
1201 | 1730 | 6.487103 | GGATTAAATTACTTCAACCAGCTCG | 58.513 | 40.000 | 0.00 | 0.00 | 0.00 | 5.03 |
1242 | 1771 | 5.452496 | CCAGCCAATATATGATCGACTAGGG | 60.452 | 48.000 | 0.00 | 0.00 | 0.00 | 3.53 |
1660 | 2198 | 2.559440 | CTGAGATAGGAAACCTGCAGC | 58.441 | 52.381 | 8.66 | 0.00 | 34.61 | 5.25 |
1717 | 2258 | 3.969642 | GAATTGCCGCCCGCTGTTG | 62.970 | 63.158 | 0.00 | 0.00 | 38.78 | 3.33 |
1814 | 2357 | 5.563592 | TCTGACATCCATTGAAGTGTTGAT | 58.436 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
1819 | 2362 | 1.205417 | CCATTGAAGTGTTGATGGGGC | 59.795 | 52.381 | 0.00 | 0.00 | 36.29 | 5.80 |
1921 | 2464 | 7.893302 | AGGATGGTAGTTTGGATTTGTATGAAA | 59.107 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
1979 | 2525 | 9.507280 | CATTGAAAGCCTATATATTAATTGCGG | 57.493 | 33.333 | 0.00 | 0.00 | 0.00 | 5.69 |
2094 | 2640 | 2.508887 | CTCTCTGCACTGCGAGGC | 60.509 | 66.667 | 17.29 | 0.00 | 32.96 | 4.70 |
2102 | 2648 | 0.533755 | GCACTGCGAGGCTGGATAAT | 60.534 | 55.000 | 0.00 | 0.00 | 0.00 | 1.28 |
2103 | 2649 | 1.270305 | GCACTGCGAGGCTGGATAATA | 60.270 | 52.381 | 0.00 | 0.00 | 0.00 | 0.98 |
2132 | 2678 | 1.403679 | CTCGCATCTCTCGAACCTCTT | 59.596 | 52.381 | 0.00 | 0.00 | 35.38 | 2.85 |
2275 | 2821 | 3.134127 | GTGCAGATGGGTTCCGCC | 61.134 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
2283 | 2829 | 1.917336 | ATGGGTTCCGCCGTATGGTT | 61.917 | 55.000 | 2.17 | 0.00 | 38.44 | 3.67 |
2401 | 2947 | 1.065709 | TGGCGAAAGAGGATGGTAACC | 60.066 | 52.381 | 0.00 | 0.00 | 0.00 | 2.85 |
2444 | 2990 | 2.377136 | GGAACCTGCTCTCCCTTCA | 58.623 | 57.895 | 0.00 | 0.00 | 0.00 | 3.02 |
2537 | 3083 | 4.389576 | GCACACGCTCAAAGCCCG | 62.390 | 66.667 | 0.00 | 0.00 | 38.18 | 6.13 |
2608 | 3430 | 3.197983 | AGGTACTCATTCTGCACCTAACC | 59.802 | 47.826 | 0.00 | 0.00 | 37.85 | 2.85 |
2644 | 3526 | 6.452242 | TGTATGTACGTGTTTTCTCATGACT | 58.548 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2653 | 3535 | 1.351076 | TTCTCATGACTGCCTGACCA | 58.649 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2679 | 3562 | 4.170292 | GCTTTCTGCATGTGTTTGATCT | 57.830 | 40.909 | 0.00 | 0.00 | 42.31 | 2.75 |
2714 | 3607 | 2.900716 | TGACGATTTGTGTGAGGACA | 57.099 | 45.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2791 | 3767 | 8.593945 | TTTGCCTATTATGTTTTCCATCTTCT | 57.406 | 30.769 | 0.00 | 0.00 | 34.86 | 2.85 |
2792 | 3768 | 8.593945 | TTGCCTATTATGTTTTCCATCTTCTT | 57.406 | 30.769 | 0.00 | 0.00 | 34.86 | 2.52 |
2805 | 3786 | 7.443302 | TTCCATCTTCTTTCTCCATGTCTAT | 57.557 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
2839 | 3821 | 4.500837 | GTCGTACACTGATCAACTATGCTG | 59.499 | 45.833 | 0.00 | 0.00 | 0.00 | 4.41 |
2911 | 3926 | 4.124851 | AGAAAAGTGAACTCGACACAGT | 57.875 | 40.909 | 7.32 | 0.00 | 40.25 | 3.55 |
3005 | 4044 | 9.892130 | AATTTTGTAGAAGGATAGTTAGTGGAG | 57.108 | 33.333 | 0.00 | 0.00 | 0.00 | 3.86 |
3010 | 4057 | 7.776030 | TGTAGAAGGATAGTTAGTGGAGAGAAG | 59.224 | 40.741 | 0.00 | 0.00 | 0.00 | 2.85 |
3023 | 4070 | 6.930731 | AGTGGAGAGAAGTAGAATTTGAGAC | 58.069 | 40.000 | 0.00 | 0.00 | 0.00 | 3.36 |
3032 | 4079 | 8.816894 | AGAAGTAGAATTTGAGACTATTGGTGA | 58.183 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
3040 | 4087 | 2.237392 | GAGACTATTGGTGAACAGGGCT | 59.763 | 50.000 | 0.00 | 0.00 | 0.00 | 5.19 |
3041 | 4088 | 2.026822 | AGACTATTGGTGAACAGGGCTG | 60.027 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3043 | 4090 | 2.086869 | CTATTGGTGAACAGGGCTGTG | 58.913 | 52.381 | 0.00 | 0.00 | 44.13 | 3.66 |
3044 | 4091 | 1.181098 | ATTGGTGAACAGGGCTGTGC | 61.181 | 55.000 | 0.00 | 0.00 | 44.13 | 4.57 |
3045 | 4092 | 2.113986 | GGTGAACAGGGCTGTGCT | 59.886 | 61.111 | 0.00 | 0.00 | 44.13 | 4.40 |
3046 | 4093 | 2.263741 | GGTGAACAGGGCTGTGCTG | 61.264 | 63.158 | 0.00 | 0.00 | 44.13 | 4.41 |
3047 | 4094 | 2.595463 | TGAACAGGGCTGTGCTGC | 60.595 | 61.111 | 0.00 | 0.00 | 44.13 | 5.25 |
3054 | 4101 | 2.029518 | GGCTGTGCTGCCCAAAAC | 59.970 | 61.111 | 8.65 | 0.00 | 46.82 | 2.43 |
3055 | 4102 | 2.501602 | GGCTGTGCTGCCCAAAACT | 61.502 | 57.895 | 8.65 | 0.00 | 46.82 | 2.66 |
3057 | 4104 | 1.662044 | CTGTGCTGCCCAAAACTCC | 59.338 | 57.895 | 0.00 | 0.00 | 0.00 | 3.85 |
3058 | 4105 | 1.076412 | TGTGCTGCCCAAAACTCCA | 60.076 | 52.632 | 0.00 | 0.00 | 0.00 | 3.86 |
3063 | 4110 | 2.968574 | TGCTGCCCAAAACTCCAAATTA | 59.031 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
3064 | 4111 | 3.006752 | TGCTGCCCAAAACTCCAAATTAG | 59.993 | 43.478 | 0.00 | 0.00 | 0.00 | 1.73 |
3065 | 4112 | 3.617288 | GCTGCCCAAAACTCCAAATTAGG | 60.617 | 47.826 | 0.00 | 0.00 | 0.00 | 2.69 |
3067 | 4114 | 3.323403 | TGCCCAAAACTCCAAATTAGGTG | 59.677 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
3068 | 4115 | 3.864540 | GCCCAAAACTCCAAATTAGGTGC | 60.865 | 47.826 | 0.00 | 0.00 | 0.00 | 5.01 |
3069 | 4116 | 3.578282 | CCCAAAACTCCAAATTAGGTGCT | 59.422 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
3072 | 4119 | 5.710099 | CCAAAACTCCAAATTAGGTGCTAGA | 59.290 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
3073 | 4120 | 6.127897 | CCAAAACTCCAAATTAGGTGCTAGAG | 60.128 | 42.308 | 0.00 | 0.00 | 0.00 | 2.43 |
3075 | 4122 | 5.091261 | ACTCCAAATTAGGTGCTAGAGTG | 57.909 | 43.478 | 0.00 | 0.00 | 32.37 | 3.51 |
3076 | 4123 | 3.873910 | TCCAAATTAGGTGCTAGAGTGC | 58.126 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
3078 | 4125 | 4.714802 | TCCAAATTAGGTGCTAGAGTGCTA | 59.285 | 41.667 | 0.00 | 0.00 | 0.00 | 3.49 |
3080 | 4127 | 5.163405 | CCAAATTAGGTGCTAGAGTGCTAGA | 60.163 | 44.000 | 4.23 | 0.00 | 45.71 | 2.43 |
3081 | 4128 | 6.341316 | CAAATTAGGTGCTAGAGTGCTAGAA | 58.659 | 40.000 | 4.23 | 0.00 | 45.71 | 2.10 |
3082 | 4129 | 6.739331 | AATTAGGTGCTAGAGTGCTAGAAT | 57.261 | 37.500 | 4.23 | 0.00 | 45.71 | 2.40 |
3085 | 4132 | 7.841282 | TTAGGTGCTAGAGTGCTAGAATATT | 57.159 | 36.000 | 4.23 | 0.00 | 45.71 | 1.28 |
3087 | 4134 | 5.835819 | AGGTGCTAGAGTGCTAGAATATTGA | 59.164 | 40.000 | 4.23 | 0.00 | 45.71 | 2.57 |
3088 | 4135 | 6.496565 | AGGTGCTAGAGTGCTAGAATATTGAT | 59.503 | 38.462 | 4.23 | 0.00 | 45.71 | 2.57 |
3089 | 4136 | 6.589523 | GGTGCTAGAGTGCTAGAATATTGATG | 59.410 | 42.308 | 4.23 | 0.00 | 45.71 | 3.07 |
3090 | 4137 | 6.589523 | GTGCTAGAGTGCTAGAATATTGATGG | 59.410 | 42.308 | 4.23 | 0.00 | 45.71 | 3.51 |
3092 | 4139 | 6.811170 | GCTAGAGTGCTAGAATATTGATGGAC | 59.189 | 42.308 | 4.23 | 0.00 | 45.71 | 4.02 |
3101 | 4148 | 9.277783 | GCTAGAATATTGATGGACAATGTACTT | 57.722 | 33.333 | 0.00 | 0.00 | 46.93 | 2.24 |
3105 | 4152 | 7.807977 | ATATTGATGGACAATGTACTTCACC | 57.192 | 36.000 | 12.98 | 0.00 | 46.93 | 4.02 |
3113 | 4160 | 6.170506 | GGACAATGTACTTCACCTCATACAA | 58.829 | 40.000 | 0.00 | 0.00 | 31.65 | 2.41 |
3121 | 4184 | 9.817809 | TGTACTTCACCTCATACAATTTATCTC | 57.182 | 33.333 | 0.00 | 0.00 | 0.00 | 2.75 |
3122 | 4185 | 9.262358 | GTACTTCACCTCATACAATTTATCTCC | 57.738 | 37.037 | 0.00 | 0.00 | 0.00 | 3.71 |
3175 | 4239 | 5.649395 | TGCTAGCACTAATTTCATTGCTCTT | 59.351 | 36.000 | 14.93 | 0.00 | 44.19 | 2.85 |
3213 | 4282 | 9.944376 | GGGTTATATATGATGAAACTGCTAAGA | 57.056 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
3220 | 4289 | 7.934855 | ATGATGAAACTGCTAAGAAATCACT | 57.065 | 32.000 | 0.00 | 0.00 | 0.00 | 3.41 |
3222 | 4291 | 8.846943 | TGATGAAACTGCTAAGAAATCACTAA | 57.153 | 30.769 | 0.00 | 0.00 | 0.00 | 2.24 |
3223 | 4292 | 9.453572 | TGATGAAACTGCTAAGAAATCACTAAT | 57.546 | 29.630 | 0.00 | 0.00 | 0.00 | 1.73 |
3262 | 4337 | 3.609853 | TGTGAAGATTCATGTAGGTGGC | 58.390 | 45.455 | 0.00 | 0.00 | 39.73 | 5.01 |
3345 | 4422 | 1.944709 | ACAAGTGAAACGGCCTTGTAC | 59.055 | 47.619 | 0.00 | 0.00 | 45.06 | 2.90 |
3355 | 4432 | 4.657436 | ACGGCCTTGTACAAAATTTTGA | 57.343 | 36.364 | 32.20 | 16.02 | 40.55 | 2.69 |
3362 | 4439 | 9.816354 | GGCCTTGTACAAAATTTTGATATGTAT | 57.184 | 29.630 | 32.20 | 13.97 | 40.55 | 2.29 |
3458 | 4544 | 4.645588 | AGCTAGGTAGTGTGATACAGGAAC | 59.354 | 45.833 | 0.00 | 0.00 | 0.00 | 3.62 |
3461 | 4547 | 5.599999 | AGGTAGTGTGATACAGGAACATC | 57.400 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
3462 | 4548 | 5.023452 | AGGTAGTGTGATACAGGAACATCA | 58.977 | 41.667 | 0.00 | 0.00 | 0.00 | 3.07 |
3471 | 4557 | 9.112725 | TGTGATACAGGAACATCATCTTATTTG | 57.887 | 33.333 | 0.00 | 0.00 | 33.92 | 2.32 |
3494 | 4580 | 4.241681 | GCAGTAGAAAAGAGTCAGTGGAG | 58.758 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
3526 | 4612 | 7.134815 | GCAGTGTGCTTATGGTTTTGATATAG | 58.865 | 38.462 | 0.00 | 0.00 | 40.96 | 1.31 |
3527 | 4613 | 7.201732 | GCAGTGTGCTTATGGTTTTGATATAGT | 60.202 | 37.037 | 0.00 | 0.00 | 40.96 | 2.12 |
3532 | 4618 | 8.345565 | GTGCTTATGGTTTTGATATAGTTCCTG | 58.654 | 37.037 | 0.00 | 0.00 | 0.00 | 3.86 |
3534 | 4620 | 8.903820 | GCTTATGGTTTTGATATAGTTCCTGTT | 58.096 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
3548 | 4634 | 4.721776 | AGTTCCTGTTATAGCATTGAGGGA | 59.278 | 41.667 | 0.00 | 0.00 | 0.00 | 4.20 |
3553 | 4639 | 6.772716 | TCCTGTTATAGCATTGAGGGATTTTC | 59.227 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
3566 | 4652 | 6.730447 | TGAGGGATTTTCTGATTTGGTGATA | 58.270 | 36.000 | 0.00 | 0.00 | 0.00 | 2.15 |
3581 | 4667 | 5.789574 | TGGTGATAAATTTCAGGGGTAGT | 57.210 | 39.130 | 0.00 | 0.00 | 0.00 | 2.73 |
3602 | 4688 | 5.128919 | AGTCATGGATTCCATCTGTTTAGC | 58.871 | 41.667 | 15.50 | 0.88 | 43.15 | 3.09 |
3615 | 4701 | 4.708177 | TCTGTTTAGCTGAGAAAGTTGCT | 58.292 | 39.130 | 0.00 | 0.00 | 39.30 | 3.91 |
3617 | 4703 | 5.008019 | TCTGTTTAGCTGAGAAAGTTGCTTG | 59.992 | 40.000 | 0.00 | 0.00 | 37.02 | 4.01 |
3618 | 4704 | 3.904136 | TTAGCTGAGAAAGTTGCTTGC | 57.096 | 42.857 | 0.00 | 2.55 | 37.02 | 4.01 |
3619 | 4705 | 1.978454 | AGCTGAGAAAGTTGCTTGCT | 58.022 | 45.000 | 6.51 | 6.51 | 30.91 | 3.91 |
3621 | 4707 | 1.335689 | GCTGAGAAAGTTGCTTGCTGG | 60.336 | 52.381 | 0.00 | 0.00 | 27.86 | 4.85 |
3622 | 4708 | 1.268899 | CTGAGAAAGTTGCTTGCTGGG | 59.731 | 52.381 | 0.00 | 0.00 | 27.86 | 4.45 |
3632 | 4725 | 0.319405 | GCTTGCTGGGTGCTTCATTT | 59.681 | 50.000 | 0.00 | 0.00 | 43.37 | 2.32 |
3633 | 4726 | 1.938016 | GCTTGCTGGGTGCTTCATTTG | 60.938 | 52.381 | 0.00 | 0.00 | 43.37 | 2.32 |
3644 | 4737 | 3.503748 | GTGCTTCATTTGTTGGTCTAGCT | 59.496 | 43.478 | 0.00 | 0.00 | 0.00 | 3.32 |
3646 | 4739 | 4.022935 | TGCTTCATTTGTTGGTCTAGCTTG | 60.023 | 41.667 | 0.00 | 0.00 | 0.00 | 4.01 |
3657 | 4750 | 1.661112 | GTCTAGCTTGCACGGAATGAC | 59.339 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
3663 | 4756 | 0.382158 | TTGCACGGAATGACGCAAAA | 59.618 | 45.000 | 0.00 | 0.00 | 41.14 | 2.44 |
3664 | 4757 | 0.040514 | TGCACGGAATGACGCAAAAG | 60.041 | 50.000 | 0.00 | 0.00 | 37.37 | 2.27 |
3665 | 4758 | 0.237235 | GCACGGAATGACGCAAAAGA | 59.763 | 50.000 | 0.00 | 0.00 | 37.37 | 2.52 |
3666 | 4759 | 1.950472 | CACGGAATGACGCAAAAGAC | 58.050 | 50.000 | 0.00 | 0.00 | 37.37 | 3.01 |
3667 | 4760 | 0.872388 | ACGGAATGACGCAAAAGACC | 59.128 | 50.000 | 0.00 | 0.00 | 37.37 | 3.85 |
3668 | 4761 | 1.156736 | CGGAATGACGCAAAAGACCT | 58.843 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3669 | 4762 | 1.135972 | CGGAATGACGCAAAAGACCTG | 60.136 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
3670 | 4763 | 1.401539 | GGAATGACGCAAAAGACCTGC | 60.402 | 52.381 | 0.00 | 0.00 | 36.41 | 4.85 |
3686 | 4779 | 3.367678 | TGCGTGATGTGCAGGATAG | 57.632 | 52.632 | 0.00 | 0.00 | 37.44 | 2.08 |
3687 | 4780 | 0.811219 | TGCGTGATGTGCAGGATAGC | 60.811 | 55.000 | 0.00 | 0.00 | 37.44 | 2.97 |
3688 | 4781 | 0.811219 | GCGTGATGTGCAGGATAGCA | 60.811 | 55.000 | 0.00 | 0.00 | 43.35 | 3.49 |
3689 | 4782 | 1.215244 | CGTGATGTGCAGGATAGCAG | 58.785 | 55.000 | 0.00 | 0.00 | 46.69 | 4.24 |
3690 | 4783 | 1.590932 | GTGATGTGCAGGATAGCAGG | 58.409 | 55.000 | 0.00 | 0.00 | 46.69 | 4.85 |
3691 | 4784 | 0.471191 | TGATGTGCAGGATAGCAGGG | 59.529 | 55.000 | 0.00 | 0.00 | 46.69 | 4.45 |
3692 | 4785 | 0.250640 | GATGTGCAGGATAGCAGGGG | 60.251 | 60.000 | 0.00 | 0.00 | 46.69 | 4.79 |
3693 | 4786 | 2.203266 | GTGCAGGATAGCAGGGGC | 60.203 | 66.667 | 0.00 | 0.00 | 46.69 | 5.80 |
3694 | 4787 | 2.691996 | TGCAGGATAGCAGGGGCA | 60.692 | 61.111 | 0.00 | 0.00 | 44.61 | 5.36 |
3695 | 4788 | 2.203266 | GCAGGATAGCAGGGGCAC | 60.203 | 66.667 | 0.00 | 0.00 | 44.61 | 5.01 |
3708 | 4801 | 4.713946 | GGCACCCGAGATGTTTCA | 57.286 | 55.556 | 0.00 | 0.00 | 0.00 | 2.69 |
3709 | 4802 | 2.171635 | GGCACCCGAGATGTTTCAC | 58.828 | 57.895 | 0.00 | 0.00 | 0.00 | 3.18 |
3710 | 4803 | 1.305930 | GGCACCCGAGATGTTTCACC | 61.306 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
3711 | 4804 | 1.305930 | GCACCCGAGATGTTTCACCC | 61.306 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
3712 | 4805 | 1.019278 | CACCCGAGATGTTTCACCCG | 61.019 | 60.000 | 0.00 | 0.00 | 0.00 | 5.28 |
3713 | 4806 | 1.449601 | CCCGAGATGTTTCACCCGG | 60.450 | 63.158 | 0.00 | 0.00 | 36.98 | 5.73 |
3714 | 4807 | 1.449601 | CCGAGATGTTTCACCCGGG | 60.450 | 63.158 | 22.25 | 22.25 | 33.94 | 5.73 |
3715 | 4808 | 1.594833 | CGAGATGTTTCACCCGGGA | 59.405 | 57.895 | 32.02 | 1.07 | 0.00 | 5.14 |
3716 | 4809 | 0.178068 | CGAGATGTTTCACCCGGGAT | 59.822 | 55.000 | 32.02 | 9.10 | 0.00 | 3.85 |
3717 | 4810 | 1.806623 | CGAGATGTTTCACCCGGGATC | 60.807 | 57.143 | 32.02 | 18.70 | 0.00 | 3.36 |
3718 | 4811 | 1.209504 | GAGATGTTTCACCCGGGATCA | 59.790 | 52.381 | 32.02 | 17.80 | 0.00 | 2.92 |
3719 | 4812 | 1.846439 | AGATGTTTCACCCGGGATCAT | 59.154 | 47.619 | 32.02 | 21.50 | 0.00 | 2.45 |
3720 | 4813 | 1.949525 | GATGTTTCACCCGGGATCATG | 59.050 | 52.381 | 32.02 | 15.97 | 0.00 | 3.07 |
3721 | 4814 | 0.679640 | TGTTTCACCCGGGATCATGC | 60.680 | 55.000 | 32.02 | 12.94 | 0.00 | 4.06 |
3722 | 4815 | 0.679640 | GTTTCACCCGGGATCATGCA | 60.680 | 55.000 | 32.02 | 1.18 | 0.00 | 3.96 |
3723 | 4816 | 0.038890 | TTTCACCCGGGATCATGCAA | 59.961 | 50.000 | 32.02 | 8.89 | 0.00 | 4.08 |
3724 | 4817 | 0.038890 | TTCACCCGGGATCATGCAAA | 59.961 | 50.000 | 32.02 | 2.92 | 0.00 | 3.68 |
3725 | 4818 | 0.394216 | TCACCCGGGATCATGCAAAG | 60.394 | 55.000 | 32.02 | 3.30 | 0.00 | 2.77 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
501 | 1020 | 5.677319 | ATATGGGTGGAACTATACATCGG | 57.323 | 43.478 | 0.00 | 0.00 | 36.74 | 4.18 |
773 | 1300 | 4.302067 | TCTTATGGAAGAGCCTTCTGGAT | 58.698 | 43.478 | 12.71 | 7.11 | 36.75 | 3.41 |
1035 | 1564 | 4.699257 | AGACAAGTTTTCAGATGAGATGGC | 59.301 | 41.667 | 0.00 | 0.00 | 0.00 | 4.40 |
1071 | 1600 | 8.262933 | TCAATGGTGCTATCTTCTGGATATATG | 58.737 | 37.037 | 0.00 | 0.00 | 36.45 | 1.78 |
1167 | 1696 | 9.921637 | TTGAAGTAATTTAATCCGAGCAAAAAT | 57.078 | 25.926 | 0.00 | 0.00 | 0.00 | 1.82 |
1201 | 1730 | 8.854614 | ATTGGCTGGATCATACTTCTATTAAC | 57.145 | 34.615 | 0.00 | 0.00 | 0.00 | 2.01 |
1242 | 1771 | 0.588252 | CACGGCAAGCATATACCTGC | 59.412 | 55.000 | 0.00 | 0.00 | 42.62 | 4.85 |
1588 | 2126 | 3.515901 | AGACCAAGATACCTCAGGTGAAC | 59.484 | 47.826 | 6.61 | 0.00 | 36.19 | 3.18 |
1660 | 2198 | 6.648879 | TTTAAGATCCAACACCTCCAAAAG | 57.351 | 37.500 | 0.00 | 0.00 | 0.00 | 2.27 |
1717 | 2258 | 7.797062 | AGGTAGATTAATCTTCTCAACTTCCC | 58.203 | 38.462 | 22.60 | 2.97 | 38.32 | 3.97 |
1814 | 2357 | 1.152030 | ACAGAGACCAAGAGCCCCA | 60.152 | 57.895 | 0.00 | 0.00 | 0.00 | 4.96 |
1819 | 2362 | 6.402983 | GCAATAATGTTCACAGAGACCAAGAG | 60.403 | 42.308 | 0.00 | 0.00 | 0.00 | 2.85 |
1876 | 2419 | 4.321718 | TCCTTGAAGTGAATCAGAAGCAG | 58.678 | 43.478 | 0.00 | 0.00 | 0.00 | 4.24 |
1877 | 2420 | 4.356405 | TCCTTGAAGTGAATCAGAAGCA | 57.644 | 40.909 | 0.00 | 0.00 | 0.00 | 3.91 |
1921 | 2464 | 1.270358 | GCCCAGAGACTTCACGAAACT | 60.270 | 52.381 | 0.00 | 0.00 | 0.00 | 2.66 |
1979 | 2525 | 5.008712 | AGTTCAAAAGATGTTTCTCCGGAAC | 59.991 | 40.000 | 5.23 | 0.76 | 36.35 | 3.62 |
2094 | 2640 | 3.056465 | GCGAGGGGTCTCTTATTATCCAG | 60.056 | 52.174 | 0.00 | 0.00 | 37.86 | 3.86 |
2102 | 2648 | 1.215673 | AGAGATGCGAGGGGTCTCTTA | 59.784 | 52.381 | 0.00 | 0.00 | 44.63 | 2.10 |
2103 | 2649 | 0.032615 | AGAGATGCGAGGGGTCTCTT | 60.033 | 55.000 | 0.00 | 0.00 | 44.63 | 2.85 |
2275 | 2821 | 3.126171 | TCCAAGCGAAATTCAACCATACG | 59.874 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
2283 | 2829 | 3.153130 | TCCACAATCCAAGCGAAATTCA | 58.847 | 40.909 | 0.00 | 0.00 | 0.00 | 2.57 |
2354 | 2900 | 1.003839 | CCCAGGCTGAACGCAACTA | 60.004 | 57.895 | 17.94 | 0.00 | 41.67 | 2.24 |
2401 | 2947 | 2.613506 | GGCCCAAGTCGAAACCACG | 61.614 | 63.158 | 0.00 | 0.00 | 0.00 | 4.94 |
2444 | 2990 | 1.205460 | ATAAACCCTGACACGCCCCT | 61.205 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
2446 | 2992 | 2.218603 | CATATAAACCCTGACACGCCC | 58.781 | 52.381 | 0.00 | 0.00 | 0.00 | 6.13 |
2524 | 3070 | 4.699522 | GGGACGGGCTTTGAGCGT | 62.700 | 66.667 | 0.00 | 0.00 | 43.62 | 5.07 |
2553 | 3099 | 3.363378 | GCGGCTTCATCTCAATATGAACG | 60.363 | 47.826 | 0.00 | 0.00 | 40.17 | 3.95 |
2554 | 3100 | 3.363378 | CGCGGCTTCATCTCAATATGAAC | 60.363 | 47.826 | 0.00 | 0.00 | 40.17 | 3.18 |
2557 | 3103 | 2.138320 | ACGCGGCTTCATCTCAATATG | 58.862 | 47.619 | 12.47 | 0.00 | 0.00 | 1.78 |
2596 | 3145 | 3.181445 | ACAAGTGATTGGTTAGGTGCAGA | 60.181 | 43.478 | 0.00 | 0.00 | 0.00 | 4.26 |
2608 | 3430 | 7.520119 | ACACGTACATACATACAAGTGATTG | 57.480 | 36.000 | 0.00 | 0.00 | 33.18 | 2.67 |
2644 | 3526 | 3.018856 | CAGAAAGCAATATGGTCAGGCA | 58.981 | 45.455 | 0.00 | 0.00 | 0.00 | 4.75 |
2671 | 3553 | 2.783135 | TGAGCACCTTGGAGATCAAAC | 58.217 | 47.619 | 2.76 | 0.00 | 34.56 | 2.93 |
2675 | 3558 | 2.996249 | TCATGAGCACCTTGGAGATC | 57.004 | 50.000 | 0.00 | 0.00 | 0.00 | 2.75 |
2676 | 3559 | 2.775960 | TCATCATGAGCACCTTGGAGAT | 59.224 | 45.455 | 0.09 | 0.00 | 0.00 | 2.75 |
2677 | 3560 | 2.093288 | GTCATCATGAGCACCTTGGAGA | 60.093 | 50.000 | 0.09 | 0.00 | 0.00 | 3.71 |
2678 | 3561 | 2.286872 | GTCATCATGAGCACCTTGGAG | 58.713 | 52.381 | 0.09 | 0.00 | 0.00 | 3.86 |
2679 | 3562 | 1.405933 | CGTCATCATGAGCACCTTGGA | 60.406 | 52.381 | 0.09 | 0.00 | 0.00 | 3.53 |
2714 | 3607 | 3.244215 | TGCGTCAGAAATCAGTTCTCCTT | 60.244 | 43.478 | 0.00 | 0.00 | 45.25 | 3.36 |
2790 | 3766 | 5.010922 | AGCTGAGCTATAGACATGGAGAAAG | 59.989 | 44.000 | 4.49 | 0.00 | 36.99 | 2.62 |
2791 | 3767 | 4.898265 | AGCTGAGCTATAGACATGGAGAAA | 59.102 | 41.667 | 4.49 | 0.00 | 36.99 | 2.52 |
2792 | 3768 | 4.478203 | AGCTGAGCTATAGACATGGAGAA | 58.522 | 43.478 | 4.49 | 0.00 | 36.99 | 2.87 |
2805 | 3786 | 2.095212 | CAGTGTACGACAAGCTGAGCTA | 60.095 | 50.000 | 7.68 | 0.00 | 38.25 | 3.32 |
2839 | 3821 | 4.258543 | TGTAAATACCTTGCCACTAGTGC | 58.741 | 43.478 | 17.86 | 13.07 | 0.00 | 4.40 |
2889 | 3904 | 5.258456 | ACTGTGTCGAGTTCACTTTTCTA | 57.742 | 39.130 | 6.26 | 0.00 | 36.83 | 2.10 |
2911 | 3926 | 3.006112 | TGGGCAAGTTTCACACTACAA | 57.994 | 42.857 | 0.00 | 0.00 | 32.94 | 2.41 |
3005 | 4044 | 9.092876 | CACCAATAGTCTCAAATTCTACTTCTC | 57.907 | 37.037 | 0.00 | 0.00 | 0.00 | 2.87 |
3010 | 4057 | 8.547967 | TGTTCACCAATAGTCTCAAATTCTAC | 57.452 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
3023 | 4070 | 2.086869 | CACAGCCCTGTTCACCAATAG | 58.913 | 52.381 | 0.00 | 0.00 | 42.83 | 1.73 |
3040 | 4087 | 0.685785 | TTGGAGTTTTGGGCAGCACA | 60.686 | 50.000 | 0.00 | 0.00 | 0.00 | 4.57 |
3041 | 4088 | 0.463620 | TTTGGAGTTTTGGGCAGCAC | 59.536 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
3042 | 4089 | 1.422531 | ATTTGGAGTTTTGGGCAGCA | 58.577 | 45.000 | 0.00 | 0.00 | 0.00 | 4.41 |
3043 | 4090 | 2.549064 | AATTTGGAGTTTTGGGCAGC | 57.451 | 45.000 | 0.00 | 0.00 | 0.00 | 5.25 |
3044 | 4091 | 3.578282 | ACCTAATTTGGAGTTTTGGGCAG | 59.422 | 43.478 | 13.16 | 0.00 | 0.00 | 4.85 |
3045 | 4092 | 3.323403 | CACCTAATTTGGAGTTTTGGGCA | 59.677 | 43.478 | 13.16 | 0.00 | 0.00 | 5.36 |
3046 | 4093 | 3.864540 | GCACCTAATTTGGAGTTTTGGGC | 60.865 | 47.826 | 13.16 | 0.00 | 0.00 | 5.36 |
3047 | 4094 | 3.578282 | AGCACCTAATTTGGAGTTTTGGG | 59.422 | 43.478 | 13.16 | 0.00 | 0.00 | 4.12 |
3048 | 4095 | 4.871933 | AGCACCTAATTTGGAGTTTTGG | 57.128 | 40.909 | 13.16 | 0.00 | 0.00 | 3.28 |
3049 | 4096 | 6.431234 | ACTCTAGCACCTAATTTGGAGTTTTG | 59.569 | 38.462 | 13.16 | 1.30 | 30.00 | 2.44 |
3051 | 4098 | 5.940470 | CACTCTAGCACCTAATTTGGAGTTT | 59.060 | 40.000 | 13.16 | 1.16 | 31.59 | 2.66 |
3052 | 4099 | 5.491982 | CACTCTAGCACCTAATTTGGAGTT | 58.508 | 41.667 | 13.16 | 5.49 | 31.59 | 3.01 |
3053 | 4100 | 4.624125 | GCACTCTAGCACCTAATTTGGAGT | 60.624 | 45.833 | 13.16 | 1.69 | 33.80 | 3.85 |
3054 | 4101 | 3.873952 | GCACTCTAGCACCTAATTTGGAG | 59.126 | 47.826 | 13.16 | 5.96 | 0.00 | 3.86 |
3055 | 4102 | 3.519510 | AGCACTCTAGCACCTAATTTGGA | 59.480 | 43.478 | 13.16 | 0.00 | 36.85 | 3.53 |
3057 | 4104 | 5.907207 | TCTAGCACTCTAGCACCTAATTTG | 58.093 | 41.667 | 0.00 | 0.00 | 41.59 | 2.32 |
3058 | 4105 | 6.546428 | TTCTAGCACTCTAGCACCTAATTT | 57.454 | 37.500 | 0.00 | 0.00 | 41.59 | 1.82 |
3063 | 4110 | 5.835819 | TCAATATTCTAGCACTCTAGCACCT | 59.164 | 40.000 | 0.00 | 0.00 | 41.59 | 4.00 |
3064 | 4111 | 6.090483 | TCAATATTCTAGCACTCTAGCACC | 57.910 | 41.667 | 0.00 | 0.00 | 41.59 | 5.01 |
3065 | 4112 | 6.589523 | CCATCAATATTCTAGCACTCTAGCAC | 59.410 | 42.308 | 0.00 | 0.00 | 41.59 | 4.40 |
3067 | 4114 | 6.811170 | GTCCATCAATATTCTAGCACTCTAGC | 59.189 | 42.308 | 0.00 | 0.00 | 41.59 | 3.42 |
3068 | 4115 | 7.890515 | TGTCCATCAATATTCTAGCACTCTAG | 58.109 | 38.462 | 0.00 | 0.00 | 42.87 | 2.43 |
3069 | 4116 | 7.839680 | TGTCCATCAATATTCTAGCACTCTA | 57.160 | 36.000 | 0.00 | 0.00 | 0.00 | 2.43 |
3072 | 4119 | 7.285566 | ACATTGTCCATCAATATTCTAGCACT | 58.714 | 34.615 | 0.00 | 0.00 | 43.93 | 4.40 |
3073 | 4120 | 7.502120 | ACATTGTCCATCAATATTCTAGCAC | 57.498 | 36.000 | 0.00 | 0.00 | 43.93 | 4.40 |
3075 | 4122 | 8.839310 | AGTACATTGTCCATCAATATTCTAGC | 57.161 | 34.615 | 0.00 | 0.00 | 43.93 | 3.42 |
3078 | 4125 | 9.113838 | GTGAAGTACATTGTCCATCAATATTCT | 57.886 | 33.333 | 0.00 | 0.00 | 43.93 | 2.40 |
3080 | 4127 | 8.055181 | AGGTGAAGTACATTGTCCATCAATATT | 58.945 | 33.333 | 0.00 | 0.00 | 43.93 | 1.28 |
3081 | 4128 | 7.577303 | AGGTGAAGTACATTGTCCATCAATAT | 58.423 | 34.615 | 0.00 | 0.00 | 43.93 | 1.28 |
3082 | 4129 | 6.957631 | AGGTGAAGTACATTGTCCATCAATA | 58.042 | 36.000 | 0.00 | 0.00 | 43.93 | 1.90 |
3085 | 4132 | 4.285775 | TGAGGTGAAGTACATTGTCCATCA | 59.714 | 41.667 | 0.00 | 0.00 | 0.00 | 3.07 |
3087 | 4134 | 4.908601 | TGAGGTGAAGTACATTGTCCAT | 57.091 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
3088 | 4135 | 4.908601 | ATGAGGTGAAGTACATTGTCCA | 57.091 | 40.909 | 0.00 | 0.00 | 0.00 | 4.02 |
3089 | 4136 | 5.730550 | TGTATGAGGTGAAGTACATTGTCC | 58.269 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
3090 | 4137 | 7.849804 | ATTGTATGAGGTGAAGTACATTGTC | 57.150 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
3121 | 4184 | 7.835822 | AGCTACAGAGATATGCTTACATAAGG | 58.164 | 38.462 | 1.00 | 0.00 | 41.99 | 2.69 |
3168 | 4232 | 6.388619 | AACCCCTTCTAGATTTAAGAGCAA | 57.611 | 37.500 | 0.00 | 0.00 | 0.00 | 3.91 |
3218 | 4287 | 9.630098 | CACAATCAGCAAGTAATTGAAATTAGT | 57.370 | 29.630 | 7.18 | 0.00 | 36.37 | 2.24 |
3221 | 4290 | 9.199982 | CTTCACAATCAGCAAGTAATTGAAATT | 57.800 | 29.630 | 7.18 | 0.07 | 35.03 | 1.82 |
3222 | 4291 | 8.579006 | TCTTCACAATCAGCAAGTAATTGAAAT | 58.421 | 29.630 | 7.18 | 0.00 | 35.03 | 2.17 |
3223 | 4292 | 7.939782 | TCTTCACAATCAGCAAGTAATTGAAA | 58.060 | 30.769 | 7.18 | 0.00 | 35.03 | 2.69 |
3224 | 4293 | 7.509141 | TCTTCACAATCAGCAAGTAATTGAA | 57.491 | 32.000 | 7.18 | 0.00 | 35.03 | 2.69 |
3280 | 4355 | 9.871238 | ACGTACATAGAATTCACAGAAAATACT | 57.129 | 29.630 | 8.44 | 0.00 | 0.00 | 2.12 |
3304 | 4379 | 6.236017 | TGTTGGAATTTCAAAGCTACTACG | 57.764 | 37.500 | 0.00 | 0.00 | 0.00 | 3.51 |
3305 | 4380 | 7.591426 | CACTTGTTGGAATTTCAAAGCTACTAC | 59.409 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
3321 | 4398 | 0.106918 | AGGCCGTTTCACTTGTTGGA | 60.107 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
3322 | 4399 | 0.744281 | AAGGCCGTTTCACTTGTTGG | 59.256 | 50.000 | 0.00 | 0.00 | 0.00 | 3.77 |
3434 | 4520 | 5.641789 | TCCTGTATCACACTACCTAGCTA | 57.358 | 43.478 | 0.00 | 0.00 | 0.00 | 3.32 |
3441 | 4527 | 6.810911 | AGATGATGTTCCTGTATCACACTAC | 58.189 | 40.000 | 0.00 | 0.00 | 36.26 | 2.73 |
3442 | 4528 | 7.423844 | AAGATGATGTTCCTGTATCACACTA | 57.576 | 36.000 | 0.00 | 0.00 | 36.26 | 2.74 |
3443 | 4529 | 5.946942 | AGATGATGTTCCTGTATCACACT | 57.053 | 39.130 | 0.00 | 0.00 | 36.26 | 3.55 |
3444 | 4530 | 8.668510 | AATAAGATGATGTTCCTGTATCACAC | 57.331 | 34.615 | 0.00 | 0.00 | 36.26 | 3.82 |
3458 | 4544 | 8.896744 | TCTTTTCTACTGCCAAATAAGATGATG | 58.103 | 33.333 | 0.00 | 0.00 | 0.00 | 3.07 |
3461 | 4547 | 8.273780 | ACTCTTTTCTACTGCCAAATAAGATG | 57.726 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
3462 | 4548 | 8.103305 | TGACTCTTTTCTACTGCCAAATAAGAT | 58.897 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
3471 | 4557 | 3.006967 | TCCACTGACTCTTTTCTACTGCC | 59.993 | 47.826 | 0.00 | 0.00 | 0.00 | 4.85 |
3507 | 4593 | 8.052748 | ACAGGAACTATATCAAAACCATAAGCA | 58.947 | 33.333 | 0.00 | 0.00 | 36.02 | 3.91 |
3526 | 4612 | 5.036117 | TCCCTCAATGCTATAACAGGAAC | 57.964 | 43.478 | 0.00 | 0.00 | 0.00 | 3.62 |
3527 | 4613 | 5.912149 | ATCCCTCAATGCTATAACAGGAA | 57.088 | 39.130 | 0.00 | 0.00 | 0.00 | 3.36 |
3532 | 4618 | 7.807977 | TCAGAAAATCCCTCAATGCTATAAC | 57.192 | 36.000 | 0.00 | 0.00 | 0.00 | 1.89 |
3534 | 4620 | 8.853126 | CAAATCAGAAAATCCCTCAATGCTATA | 58.147 | 33.333 | 0.00 | 0.00 | 0.00 | 1.31 |
3535 | 4621 | 7.201974 | CCAAATCAGAAAATCCCTCAATGCTAT | 60.202 | 37.037 | 0.00 | 0.00 | 0.00 | 2.97 |
3542 | 4628 | 4.996793 | TCACCAAATCAGAAAATCCCTCA | 58.003 | 39.130 | 0.00 | 0.00 | 0.00 | 3.86 |
3553 | 4639 | 6.155049 | ACCCCTGAAATTTATCACCAAATCAG | 59.845 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
3566 | 4652 | 4.946160 | TCCATGACTACCCCTGAAATTT | 57.054 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
3602 | 4688 | 1.268899 | CCCAGCAAGCAACTTTCTCAG | 59.731 | 52.381 | 0.00 | 0.00 | 0.00 | 3.35 |
3617 | 4703 | 1.606224 | CCAACAAATGAAGCACCCAGC | 60.606 | 52.381 | 0.00 | 0.00 | 46.19 | 4.85 |
3618 | 4704 | 1.688197 | ACCAACAAATGAAGCACCCAG | 59.312 | 47.619 | 0.00 | 0.00 | 0.00 | 4.45 |
3619 | 4705 | 1.686052 | GACCAACAAATGAAGCACCCA | 59.314 | 47.619 | 0.00 | 0.00 | 0.00 | 4.51 |
3621 | 4707 | 3.366374 | GCTAGACCAACAAATGAAGCACC | 60.366 | 47.826 | 0.00 | 0.00 | 0.00 | 5.01 |
3622 | 4708 | 3.503748 | AGCTAGACCAACAAATGAAGCAC | 59.496 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
3632 | 4725 | 0.602638 | CCGTGCAAGCTAGACCAACA | 60.603 | 55.000 | 0.00 | 0.00 | 0.00 | 3.33 |
3633 | 4726 | 0.320421 | TCCGTGCAAGCTAGACCAAC | 60.320 | 55.000 | 0.00 | 0.00 | 0.00 | 3.77 |
3644 | 4737 | 0.382158 | TTTTGCGTCATTCCGTGCAA | 59.618 | 45.000 | 0.00 | 0.00 | 44.81 | 4.08 |
3646 | 4739 | 0.237235 | TCTTTTGCGTCATTCCGTGC | 59.763 | 50.000 | 0.00 | 0.00 | 0.00 | 5.34 |
3663 | 4756 | 2.743060 | TGCACATCACGCAGGTCT | 59.257 | 55.556 | 0.00 | 0.00 | 33.55 | 3.85 |
3668 | 4761 | 0.811219 | GCTATCCTGCACATCACGCA | 60.811 | 55.000 | 0.00 | 0.00 | 37.88 | 5.24 |
3669 | 4762 | 0.811219 | TGCTATCCTGCACATCACGC | 60.811 | 55.000 | 0.00 | 0.00 | 38.12 | 5.34 |
3670 | 4763 | 1.215244 | CTGCTATCCTGCACATCACG | 58.785 | 55.000 | 0.00 | 0.00 | 38.12 | 4.35 |
3671 | 4764 | 1.590932 | CCTGCTATCCTGCACATCAC | 58.409 | 55.000 | 0.00 | 0.00 | 38.12 | 3.06 |
3672 | 4765 | 0.471191 | CCCTGCTATCCTGCACATCA | 59.529 | 55.000 | 0.00 | 0.00 | 38.12 | 3.07 |
3683 | 4776 | 2.972589 | ATCTCGGGTGCCCCTGCTAT | 62.973 | 60.000 | 8.43 | 0.00 | 42.67 | 2.97 |
3684 | 4777 | 3.696518 | ATCTCGGGTGCCCCTGCTA | 62.697 | 63.158 | 8.43 | 0.00 | 42.67 | 3.49 |
3686 | 4779 | 4.864334 | CATCTCGGGTGCCCCTGC | 62.864 | 72.222 | 8.43 | 0.00 | 42.67 | 4.85 |
3687 | 4780 | 2.484287 | AAACATCTCGGGTGCCCCTG | 62.484 | 60.000 | 8.43 | 0.00 | 42.67 | 4.45 |
3688 | 4781 | 2.198304 | GAAACATCTCGGGTGCCCCT | 62.198 | 60.000 | 8.43 | 0.00 | 42.67 | 4.79 |
3689 | 4782 | 1.749258 | GAAACATCTCGGGTGCCCC | 60.749 | 63.158 | 0.99 | 0.30 | 41.09 | 5.80 |
3690 | 4783 | 1.002624 | TGAAACATCTCGGGTGCCC | 60.003 | 57.895 | 0.00 | 0.00 | 0.00 | 5.36 |
3691 | 4784 | 1.305930 | GGTGAAACATCTCGGGTGCC | 61.306 | 60.000 | 0.00 | 0.00 | 39.98 | 5.01 |
3692 | 4785 | 1.305930 | GGGTGAAACATCTCGGGTGC | 61.306 | 60.000 | 0.00 | 0.00 | 39.98 | 5.01 |
3693 | 4786 | 1.019278 | CGGGTGAAACATCTCGGGTG | 61.019 | 60.000 | 0.00 | 0.00 | 39.98 | 4.61 |
3694 | 4787 | 1.295423 | CGGGTGAAACATCTCGGGT | 59.705 | 57.895 | 0.00 | 0.00 | 39.98 | 5.28 |
3695 | 4788 | 1.449601 | CCGGGTGAAACATCTCGGG | 60.450 | 63.158 | 0.00 | 0.00 | 39.98 | 5.14 |
3696 | 4789 | 1.449601 | CCCGGGTGAAACATCTCGG | 60.450 | 63.158 | 14.18 | 0.00 | 39.98 | 4.63 |
3697 | 4790 | 0.178068 | ATCCCGGGTGAAACATCTCG | 59.822 | 55.000 | 22.86 | 0.00 | 39.98 | 4.04 |
3698 | 4791 | 1.209504 | TGATCCCGGGTGAAACATCTC | 59.790 | 52.381 | 22.86 | 5.27 | 39.98 | 2.75 |
3699 | 4792 | 1.285280 | TGATCCCGGGTGAAACATCT | 58.715 | 50.000 | 22.86 | 0.00 | 39.98 | 2.90 |
3700 | 4793 | 1.949525 | CATGATCCCGGGTGAAACATC | 59.050 | 52.381 | 22.86 | 15.42 | 39.98 | 3.06 |
3701 | 4794 | 2.023788 | GCATGATCCCGGGTGAAACAT | 61.024 | 52.381 | 22.86 | 16.02 | 39.98 | 2.71 |
3702 | 4795 | 0.679640 | GCATGATCCCGGGTGAAACA | 60.680 | 55.000 | 22.86 | 14.47 | 39.98 | 2.83 |
3703 | 4796 | 0.679640 | TGCATGATCCCGGGTGAAAC | 60.680 | 55.000 | 22.86 | 7.80 | 0.00 | 2.78 |
3704 | 4797 | 0.038890 | TTGCATGATCCCGGGTGAAA | 59.961 | 50.000 | 22.86 | 9.54 | 0.00 | 2.69 |
3705 | 4798 | 0.038890 | TTTGCATGATCCCGGGTGAA | 59.961 | 50.000 | 22.86 | 2.01 | 0.00 | 3.18 |
3706 | 4799 | 0.394216 | CTTTGCATGATCCCGGGTGA | 60.394 | 55.000 | 22.86 | 1.03 | 0.00 | 4.02 |
3707 | 4800 | 2.109431 | CTTTGCATGATCCCGGGTG | 58.891 | 57.895 | 22.86 | 12.92 | 0.00 | 4.61 |
3708 | 4801 | 4.664062 | CTTTGCATGATCCCGGGT | 57.336 | 55.556 | 22.86 | 8.01 | 0.00 | 5.28 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.