Multiple sequence alignment - TraesCS2D01G000700
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 | TraesCS2D01G000700 | chr2D | 100.000 | 3133 | 0 | 0 | 1 | 3133 | 372169 | 369037 | 0.000000e+00 | 5786.0 |
1 | TraesCS2D01G000700 | chr2D | 83.654 | 104 | 13 | 4 | 3026 | 3127 | 460302872 | 460302973 | 9.250000e-16 | 95.3 |
2 | TraesCS2D01G000700 | chr2A | 86.757 | 1835 | 122 | 52 | 1095 | 2879 | 474511 | 472748 | 0.000000e+00 | 1930.0 |
3 | TraesCS2D01G000700 | chr2A | 89.481 | 694 | 54 | 5 | 1 | 688 | 477437 | 476757 | 0.000000e+00 | 859.0 |
4 | TraesCS2D01G000700 | chr2A | 87.931 | 58 | 7 | 0 | 2670 | 2727 | 735381194 | 735381137 | 5.610000e-08 | 69.4 |
5 | TraesCS2D01G000700 | chr2B | 90.111 | 1436 | 85 | 36 | 1130 | 2534 | 10868104 | 10869513 | 0.000000e+00 | 1812.0 |
6 | TraesCS2D01G000700 | chr2B | 93.527 | 1035 | 26 | 13 | 1 | 1019 | 10867053 | 10868062 | 0.000000e+00 | 1502.0 |
7 | TraesCS2D01G000700 | chr2B | 86.063 | 287 | 21 | 8 | 2717 | 2993 | 10869581 | 10869858 | 1.100000e-74 | 291.0 |
8 | TraesCS2D01G000700 | chr5D | 84.615 | 104 | 15 | 1 | 3024 | 3127 | 181629949 | 181630051 | 5.530000e-18 | 102.0 |
9 | TraesCS2D01G000700 | chr5D | 83.654 | 104 | 13 | 4 | 3026 | 3127 | 70057462 | 70057563 | 9.250000e-16 | 95.3 |
10 | TraesCS2D01G000700 | chr6D | 88.235 | 85 | 8 | 2 | 3026 | 3109 | 354133226 | 354133309 | 1.990000e-17 | 100.0 |
11 | TraesCS2D01G000700 | chr6D | 83.654 | 104 | 13 | 4 | 3026 | 3127 | 432783568 | 432783467 | 9.250000e-16 | 95.3 |
12 | TraesCS2D01G000700 | chr4B | 83.495 | 103 | 15 | 2 | 3026 | 3127 | 454560867 | 454560968 | 9.250000e-16 | 95.3 |
13 | TraesCS2D01G000700 | chr3D | 83.654 | 104 | 13 | 4 | 3026 | 3127 | 259131889 | 259131990 | 9.250000e-16 | 95.3 |
14 | TraesCS2D01G000700 | chr3D | 82.727 | 110 | 15 | 4 | 3026 | 3133 | 478780040 | 478780147 | 9.250000e-16 | 95.3 |
15 | TraesCS2D01G000700 | chr3D | 89.796 | 49 | 5 | 0 | 2230 | 2278 | 90352726 | 90352678 | 2.610000e-06 | 63.9 |
16 | TraesCS2D01G000700 | chr3A | 82.407 | 108 | 17 | 2 | 3026 | 3132 | 481181511 | 481181617 | 3.330000e-15 | 93.5 |
17 | TraesCS2D01G000700 | chr7A | 83.784 | 74 | 12 | 0 | 2654 | 2727 | 658280396 | 658280323 | 1.560000e-08 | 71.3 |
18 | TraesCS2D01G000700 | chr7A | 83.784 | 74 | 12 | 0 | 2654 | 2727 | 658284442 | 658284369 | 1.560000e-08 | 71.3 |
19 | TraesCS2D01G000700 | chr7D | 87.719 | 57 | 5 | 1 | 2224 | 2278 | 377814108 | 377814052 | 7.250000e-07 | 65.8 |
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 | TraesCS2D01G000700 | chr2D | 369037 | 372169 | 3132 | True | 5786.000000 | 5786 | 100.000000 | 1 | 3133 | 1 | chr2D.!!$R1 | 3132 |
1 | TraesCS2D01G000700 | chr2A | 472748 | 477437 | 4689 | True | 1394.500000 | 1930 | 88.119000 | 1 | 2879 | 2 | chr2A.!!$R2 | 2878 |
2 | TraesCS2D01G000700 | chr2B | 10867053 | 10869858 | 2805 | False | 1201.666667 | 1812 | 89.900333 | 1 | 2993 | 3 | chr2B.!!$F1 | 2992 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
440 | 445 | 0.325296 | AAGGAGGTAGATCGGCACCA | 60.325 | 55.0 | 14.24 | 0.0 | 37.28 | 4.17 | F |
1114 | 3046 | 0.167908 | GTGTGTGTGTGTGTGTGTGG | 59.832 | 55.0 | 0.00 | 0.0 | 0.00 | 4.17 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1330 | 3300 | 1.931841 | CGTCTGCTTGTGATCAGATGG | 59.068 | 52.381 | 0.00 | 0.0 | 40.89 | 3.51 | R |
3022 | 5064 | 0.037590 | TGCGTTGGAGTTGGCCTAAT | 59.962 | 50.000 | 3.32 | 0.0 | 0.00 | 1.73 | 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 |
---|---|---|---|---|---|---|---|---|---|
50 | 51 | 2.050350 | CGGCTAGACGGGGTCAAGA | 61.050 | 63.158 | 11.12 | 0.00 | 34.60 | 3.02 |
146 | 147 | 4.704833 | ACGCCGCACCATCTGCTT | 62.705 | 61.111 | 0.00 | 0.00 | 44.64 | 3.91 |
163 | 164 | 0.957395 | CTTCGCAGGACAGTGCCATT | 60.957 | 55.000 | 6.40 | 0.00 | 40.62 | 3.16 |
175 | 176 | 2.030540 | CAGTGCCATTGAGACAAACCTG | 60.031 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
393 | 398 | 1.375523 | GACGAACCAGCAACCGGAT | 60.376 | 57.895 | 9.46 | 0.00 | 0.00 | 4.18 |
440 | 445 | 0.325296 | AAGGAGGTAGATCGGCACCA | 60.325 | 55.000 | 14.24 | 0.00 | 37.28 | 4.17 |
581 | 587 | 7.603784 | AGAAATTGACCAGCCATTTATGTTTTC | 59.396 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
720 | 2599 | 2.484417 | CCATCTTCATTGGACCGGAGAG | 60.484 | 54.545 | 9.46 | 0.00 | 36.26 | 3.20 |
724 | 2603 | 3.519510 | TCTTCATTGGACCGGAGAGAAAT | 59.480 | 43.478 | 9.46 | 0.00 | 0.00 | 2.17 |
727 | 2606 | 6.553476 | TCTTCATTGGACCGGAGAGAAATATA | 59.447 | 38.462 | 9.46 | 0.00 | 0.00 | 0.86 |
797 | 2679 | 6.238320 | GCAGTCTGGAATGAGCAAATAAGTAG | 60.238 | 42.308 | 1.14 | 0.00 | 0.00 | 2.57 |
894 | 2787 | 7.707624 | TGAGGAATTAGGAAACTCGTTACTA | 57.292 | 36.000 | 0.00 | 0.00 | 43.67 | 1.82 |
930 | 2823 | 3.057547 | GCCTCGCTCTCTTCTCGCA | 62.058 | 63.158 | 0.00 | 0.00 | 0.00 | 5.10 |
946 | 2847 | 0.955919 | CGCAAACCTTCACTCTCCCC | 60.956 | 60.000 | 0.00 | 0.00 | 0.00 | 4.81 |
954 | 2855 | 1.006519 | CTTCACTCTCCCCCTCTCTCA | 59.993 | 57.143 | 0.00 | 0.00 | 0.00 | 3.27 |
1035 | 2936 | 1.203313 | AGCACCCCCTTTCTCACTCTA | 60.203 | 52.381 | 0.00 | 0.00 | 0.00 | 2.43 |
1036 | 2937 | 1.066071 | GCACCCCCTTTCTCACTCTAC | 60.066 | 57.143 | 0.00 | 0.00 | 0.00 | 2.59 |
1037 | 2938 | 2.257207 | CACCCCCTTTCTCACTCTACA | 58.743 | 52.381 | 0.00 | 0.00 | 0.00 | 2.74 |
1038 | 2939 | 2.637872 | CACCCCCTTTCTCACTCTACAA | 59.362 | 50.000 | 0.00 | 0.00 | 0.00 | 2.41 |
1039 | 2940 | 3.264450 | CACCCCCTTTCTCACTCTACAAT | 59.736 | 47.826 | 0.00 | 0.00 | 0.00 | 2.71 |
1041 | 2942 | 4.263506 | ACCCCCTTTCTCACTCTACAATTG | 60.264 | 45.833 | 3.24 | 3.24 | 0.00 | 2.32 |
1043 | 2944 | 4.697352 | CCCCTTTCTCACTCTACAATTGTG | 59.303 | 45.833 | 21.42 | 10.97 | 0.00 | 3.33 |
1045 | 2946 | 5.180117 | CCCTTTCTCACTCTACAATTGTGTG | 59.820 | 44.000 | 21.42 | 19.00 | 38.82 | 3.82 |
1048 | 2949 | 5.529581 | TCTCACTCTACAATTGTGTGTGA | 57.470 | 39.130 | 26.28 | 26.28 | 38.82 | 3.58 |
1050 | 2951 | 4.631131 | TCACTCTACAATTGTGTGTGAGG | 58.369 | 43.478 | 25.27 | 17.56 | 40.73 | 3.86 |
1052 | 2953 | 3.244561 | ACTCTACAATTGTGTGTGAGGGG | 60.245 | 47.826 | 21.42 | 8.88 | 40.73 | 4.79 |
1099 | 3031 | 8.988934 | AGTGTGTTTATGTTCTACTATTGTGTG | 58.011 | 33.333 | 0.00 | 0.00 | 0.00 | 3.82 |
1100 | 3032 | 8.770828 | GTGTGTTTATGTTCTACTATTGTGTGT | 58.229 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
1101 | 3033 | 8.769891 | TGTGTTTATGTTCTACTATTGTGTGTG | 58.230 | 33.333 | 0.00 | 0.00 | 0.00 | 3.82 |
1102 | 3034 | 8.770828 | GTGTTTATGTTCTACTATTGTGTGTGT | 58.229 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
1103 | 3035 | 8.769891 | TGTTTATGTTCTACTATTGTGTGTGTG | 58.230 | 33.333 | 0.00 | 0.00 | 0.00 | 3.82 |
1104 | 3036 | 8.770828 | GTTTATGTTCTACTATTGTGTGTGTGT | 58.229 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
1105 | 3037 | 6.785488 | ATGTTCTACTATTGTGTGTGTGTG | 57.215 | 37.500 | 0.00 | 0.00 | 0.00 | 3.82 |
1106 | 3038 | 5.666462 | TGTTCTACTATTGTGTGTGTGTGT | 58.334 | 37.500 | 0.00 | 0.00 | 0.00 | 3.72 |
1107 | 3039 | 5.522097 | TGTTCTACTATTGTGTGTGTGTGTG | 59.478 | 40.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1108 | 3040 | 5.270893 | TCTACTATTGTGTGTGTGTGTGT | 57.729 | 39.130 | 0.00 | 0.00 | 0.00 | 3.72 |
1109 | 3041 | 5.047188 | TCTACTATTGTGTGTGTGTGTGTG | 58.953 | 41.667 | 0.00 | 0.00 | 0.00 | 3.82 |
1110 | 3042 | 3.605634 | ACTATTGTGTGTGTGTGTGTGT | 58.394 | 40.909 | 0.00 | 0.00 | 0.00 | 3.72 |
1111 | 3043 | 2.917701 | ATTGTGTGTGTGTGTGTGTG | 57.082 | 45.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1112 | 3044 | 1.598882 | TTGTGTGTGTGTGTGTGTGT | 58.401 | 45.000 | 0.00 | 0.00 | 0.00 | 3.72 |
1113 | 3045 | 0.871057 | TGTGTGTGTGTGTGTGTGTG | 59.129 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1114 | 3046 | 0.167908 | GTGTGTGTGTGTGTGTGTGG | 59.832 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
1115 | 3047 | 0.250510 | TGTGTGTGTGTGTGTGTGGT | 60.251 | 50.000 | 0.00 | 0.00 | 0.00 | 4.16 |
1116 | 3048 | 0.878416 | GTGTGTGTGTGTGTGTGGTT | 59.122 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1117 | 3049 | 1.268352 | GTGTGTGTGTGTGTGTGGTTT | 59.732 | 47.619 | 0.00 | 0.00 | 0.00 | 3.27 |
1118 | 3050 | 1.957177 | TGTGTGTGTGTGTGTGGTTTT | 59.043 | 42.857 | 0.00 | 0.00 | 0.00 | 2.43 |
1119 | 3051 | 2.362397 | TGTGTGTGTGTGTGTGGTTTTT | 59.638 | 40.909 | 0.00 | 0.00 | 0.00 | 1.94 |
1120 | 3052 | 3.568430 | TGTGTGTGTGTGTGTGGTTTTTA | 59.432 | 39.130 | 0.00 | 0.00 | 0.00 | 1.52 |
1121 | 3053 | 4.037565 | TGTGTGTGTGTGTGTGGTTTTTAA | 59.962 | 37.500 | 0.00 | 0.00 | 0.00 | 1.52 |
1122 | 3054 | 4.619336 | GTGTGTGTGTGTGTGGTTTTTAAG | 59.381 | 41.667 | 0.00 | 0.00 | 0.00 | 1.85 |
1123 | 3055 | 3.610677 | GTGTGTGTGTGTGGTTTTTAAGC | 59.389 | 43.478 | 0.00 | 0.00 | 0.00 | 3.09 |
1124 | 3056 | 3.255888 | TGTGTGTGTGTGGTTTTTAAGCA | 59.744 | 39.130 | 0.00 | 0.00 | 36.38 | 3.91 |
1125 | 3057 | 4.238514 | GTGTGTGTGTGGTTTTTAAGCAA | 58.761 | 39.130 | 0.00 | 0.00 | 41.06 | 3.91 |
1126 | 3058 | 4.867608 | GTGTGTGTGTGGTTTTTAAGCAAT | 59.132 | 37.500 | 0.00 | 0.00 | 41.06 | 3.56 |
1127 | 3059 | 5.350091 | GTGTGTGTGTGGTTTTTAAGCAATT | 59.650 | 36.000 | 0.00 | 0.00 | 41.06 | 2.32 |
1128 | 3060 | 5.578727 | TGTGTGTGTGGTTTTTAAGCAATTC | 59.421 | 36.000 | 0.00 | 0.00 | 41.06 | 2.17 |
1168 | 3100 | 4.252073 | GTTGCATGTTATTGGGCATTTGA | 58.748 | 39.130 | 0.00 | 0.00 | 35.98 | 2.69 |
1208 | 3143 | 1.960689 | TCAACGACACAGATCTCCACA | 59.039 | 47.619 | 0.00 | 0.00 | 0.00 | 4.17 |
1288 | 3223 | 3.472283 | TTGCAAACTCCAAGGTACGTA | 57.528 | 42.857 | 0.00 | 0.00 | 0.00 | 3.57 |
1291 | 3226 | 2.331194 | CAAACTCCAAGGTACGTACGG | 58.669 | 52.381 | 21.06 | 14.59 | 0.00 | 4.02 |
1292 | 3227 | 1.620822 | AACTCCAAGGTACGTACGGT | 58.379 | 50.000 | 21.06 | 6.51 | 0.00 | 4.83 |
1293 | 3228 | 0.883833 | ACTCCAAGGTACGTACGGTG | 59.116 | 55.000 | 21.06 | 17.50 | 0.00 | 4.94 |
1294 | 3229 | 1.167851 | CTCCAAGGTACGTACGGTGA | 58.832 | 55.000 | 21.06 | 14.12 | 0.00 | 4.02 |
1295 | 3230 | 1.541147 | CTCCAAGGTACGTACGGTGAA | 59.459 | 52.381 | 21.06 | 7.27 | 0.00 | 3.18 |
1296 | 3231 | 1.959985 | TCCAAGGTACGTACGGTGAAA | 59.040 | 47.619 | 21.06 | 11.31 | 0.00 | 2.69 |
1299 | 3269 | 3.368843 | CCAAGGTACGTACGGTGAAATTC | 59.631 | 47.826 | 21.06 | 6.74 | 0.00 | 2.17 |
1301 | 3271 | 4.525912 | AGGTACGTACGGTGAAATTCTT | 57.474 | 40.909 | 21.06 | 0.00 | 0.00 | 2.52 |
1314 | 3284 | 6.818644 | CGGTGAAATTCTTTATCTCCTCAAGA | 59.181 | 38.462 | 0.00 | 0.00 | 38.72 | 3.02 |
1315 | 3285 | 7.334421 | CGGTGAAATTCTTTATCTCCTCAAGAA | 59.666 | 37.037 | 0.00 | 0.00 | 40.07 | 2.52 |
1316 | 3286 | 9.183368 | GGTGAAATTCTTTATCTCCTCAAGAAT | 57.817 | 33.333 | 1.36 | 1.36 | 45.21 | 2.40 |
1335 | 3305 | 8.455903 | CAAGAATTGGACATTACATACCATCT | 57.544 | 34.615 | 0.00 | 0.00 | 43.94 | 2.90 |
1336 | 3306 | 8.347771 | CAAGAATTGGACATTACATACCATCTG | 58.652 | 37.037 | 0.00 | 0.00 | 43.94 | 2.90 |
1337 | 3307 | 7.805163 | AGAATTGGACATTACATACCATCTGA | 58.195 | 34.615 | 0.00 | 0.00 | 32.31 | 3.27 |
1338 | 3308 | 8.443176 | AGAATTGGACATTACATACCATCTGAT | 58.557 | 33.333 | 0.00 | 0.00 | 32.31 | 2.90 |
1339 | 3309 | 8.627208 | AATTGGACATTACATACCATCTGATC | 57.373 | 34.615 | 0.00 | 0.00 | 32.31 | 2.92 |
1340 | 3310 | 6.745794 | TGGACATTACATACCATCTGATCA | 57.254 | 37.500 | 0.00 | 0.00 | 0.00 | 2.92 |
1341 | 3311 | 6.524734 | TGGACATTACATACCATCTGATCAC | 58.475 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1342 | 3312 | 6.099557 | TGGACATTACATACCATCTGATCACA | 59.900 | 38.462 | 0.00 | 0.00 | 0.00 | 3.58 |
1357 | 3327 | 5.120674 | TCTGATCACAAGCAGACGTAATTTG | 59.879 | 40.000 | 0.00 | 0.00 | 42.79 | 2.32 |
1591 | 3581 | 2.804931 | GCCGGCAATGAACAACGC | 60.805 | 61.111 | 24.80 | 0.00 | 0.00 | 4.84 |
1685 | 3675 | 2.711922 | CGTAGCCGAGAAGCCACCT | 61.712 | 63.158 | 0.00 | 0.00 | 35.63 | 4.00 |
1693 | 3683 | 3.119096 | GAAGCCACCTTCGCCGAC | 61.119 | 66.667 | 0.00 | 0.00 | 38.24 | 4.79 |
1762 | 3752 | 0.395862 | ATCGAGGAGAAGAAGCCGGA | 60.396 | 55.000 | 5.05 | 0.00 | 0.00 | 5.14 |
1785 | 3775 | 0.249398 | GAACCCTGCCGAGCTAAAGA | 59.751 | 55.000 | 0.00 | 0.00 | 0.00 | 2.52 |
2139 | 4138 | 1.398390 | GCACCGTCATGTGATTCTTCC | 59.602 | 52.381 | 0.00 | 0.00 | 38.55 | 3.46 |
2145 | 4152 | 3.127376 | CGTCATGTGATTCTTCCATTGCA | 59.873 | 43.478 | 0.00 | 0.00 | 0.00 | 4.08 |
2204 | 4221 | 7.706179 | TGAGAAATGGTTGCTTAGAAAGTTTTG | 59.294 | 33.333 | 0.00 | 0.00 | 0.00 | 2.44 |
2206 | 4223 | 7.492344 | AGAAATGGTTGCTTAGAAAGTTTTGTG | 59.508 | 33.333 | 0.00 | 0.00 | 0.00 | 3.33 |
2209 | 4226 | 7.159322 | TGGTTGCTTAGAAAGTTTTGTGTTA | 57.841 | 32.000 | 0.00 | 0.00 | 0.00 | 2.41 |
2210 | 4227 | 7.030768 | TGGTTGCTTAGAAAGTTTTGTGTTAC | 58.969 | 34.615 | 0.00 | 0.00 | 0.00 | 2.50 |
2215 | 4232 | 9.169592 | TGCTTAGAAAGTTTTGTGTTACTACTT | 57.830 | 29.630 | 0.00 | 0.00 | 0.00 | 2.24 |
2239 | 4265 | 7.377766 | TCACTCCAATAACTAACATGAAAGC | 57.622 | 36.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2243 | 4269 | 2.798834 | TAACTAACATGAAAGCGCGC | 57.201 | 45.000 | 26.66 | 26.66 | 0.00 | 6.86 |
2244 | 4270 | 0.179225 | AACTAACATGAAAGCGCGCG | 60.179 | 50.000 | 28.44 | 28.44 | 0.00 | 6.86 |
2507 | 4533 | 7.290813 | AGAACAAGGGAAATGTTAAGTCTCTT | 58.709 | 34.615 | 0.00 | 0.00 | 40.90 | 2.85 |
2553 | 4579 | 4.502171 | CATGAAATGCACACTAACACCA | 57.498 | 40.909 | 0.00 | 0.00 | 37.62 | 4.17 |
2557 | 4583 | 4.582240 | TGAAATGCACACTAACACCAATCA | 59.418 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
2572 | 4598 | 3.932710 | ACCAATCATGTAAGTGCACTACG | 59.067 | 43.478 | 22.01 | 7.16 | 0.00 | 3.51 |
2578 | 4604 | 3.439895 | TGTAAGTGCACTACGTGTTGA | 57.560 | 42.857 | 22.01 | 0.00 | 35.75 | 3.18 |
2657 | 4689 | 1.300481 | GCAAGATTAGGAGGCGGAAC | 58.700 | 55.000 | 0.00 | 0.00 | 0.00 | 3.62 |
2710 | 4742 | 0.517316 | GTGTTGGTGATCAAGCCGTC | 59.483 | 55.000 | 0.00 | 0.00 | 35.80 | 4.79 |
2728 | 4760 | 5.182760 | AGCCGTCGGAACTTAATATAGTAGG | 59.817 | 44.000 | 17.49 | 0.00 | 0.00 | 3.18 |
2829 | 4861 | 6.987386 | TCACCAACAATACCAAAACTTATGG | 58.013 | 36.000 | 0.00 | 0.00 | 43.84 | 2.74 |
2901 | 4942 | 3.365364 | GCTCGGCCTTTGCATTATATGTC | 60.365 | 47.826 | 0.00 | 0.00 | 40.13 | 3.06 |
2954 | 4995 | 5.356751 | GGTATCCTTGCACATTGTGATGTTA | 59.643 | 40.000 | 20.77 | 2.83 | 43.92 | 2.41 |
2993 | 5035 | 6.370166 | CCTTCTAGTGAAAGGAAGATGTGTTC | 59.630 | 42.308 | 3.11 | 0.00 | 38.82 | 3.18 |
2994 | 5036 | 6.672266 | TCTAGTGAAAGGAAGATGTGTTCT | 57.328 | 37.500 | 0.00 | 0.00 | 35.70 | 3.01 |
2995 | 5037 | 7.776618 | TCTAGTGAAAGGAAGATGTGTTCTA | 57.223 | 36.000 | 0.00 | 0.00 | 33.05 | 2.10 |
2996 | 5038 | 8.367660 | TCTAGTGAAAGGAAGATGTGTTCTAT | 57.632 | 34.615 | 0.00 | 0.00 | 33.05 | 1.98 |
2997 | 5039 | 9.475620 | TCTAGTGAAAGGAAGATGTGTTCTATA | 57.524 | 33.333 | 0.00 | 0.00 | 33.05 | 1.31 |
3000 | 5042 | 9.965902 | AGTGAAAGGAAGATGTGTTCTATAATT | 57.034 | 29.630 | 0.00 | 0.00 | 33.05 | 1.40 |
3006 | 5048 | 9.799106 | AGGAAGATGTGTTCTATAATTAATGGG | 57.201 | 33.333 | 0.00 | 0.00 | 33.05 | 4.00 |
3007 | 5049 | 9.574516 | GGAAGATGTGTTCTATAATTAATGGGT | 57.425 | 33.333 | 0.00 | 0.00 | 33.05 | 4.51 |
3021 | 5063 | 6.673839 | ATTAATGGGTAGAGAAGTAGAGGC | 57.326 | 41.667 | 0.00 | 0.00 | 0.00 | 4.70 |
3022 | 5064 | 3.689872 | ATGGGTAGAGAAGTAGAGGCA | 57.310 | 47.619 | 0.00 | 0.00 | 0.00 | 4.75 |
3023 | 5065 | 3.689872 | TGGGTAGAGAAGTAGAGGCAT | 57.310 | 47.619 | 0.00 | 0.00 | 0.00 | 4.40 |
3024 | 5066 | 3.995636 | TGGGTAGAGAAGTAGAGGCATT | 58.004 | 45.455 | 0.00 | 0.00 | 0.00 | 3.56 |
3025 | 5067 | 5.138758 | TGGGTAGAGAAGTAGAGGCATTA | 57.861 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
3026 | 5068 | 5.141182 | TGGGTAGAGAAGTAGAGGCATTAG | 58.859 | 45.833 | 0.00 | 0.00 | 0.00 | 1.73 |
3027 | 5069 | 4.525100 | GGGTAGAGAAGTAGAGGCATTAGG | 59.475 | 50.000 | 0.00 | 0.00 | 0.00 | 2.69 |
3028 | 5070 | 4.021807 | GGTAGAGAAGTAGAGGCATTAGGC | 60.022 | 50.000 | 0.00 | 0.00 | 43.74 | 3.93 |
3039 | 5081 | 0.451783 | GCATTAGGCCAACTCCAACG | 59.548 | 55.000 | 5.01 | 0.00 | 36.11 | 4.10 |
3040 | 5082 | 0.451783 | CATTAGGCCAACTCCAACGC | 59.548 | 55.000 | 5.01 | 0.00 | 0.00 | 4.84 |
3041 | 5083 | 0.037590 | ATTAGGCCAACTCCAACGCA | 59.962 | 50.000 | 5.01 | 0.00 | 0.00 | 5.24 |
3042 | 5084 | 0.887387 | TTAGGCCAACTCCAACGCAC | 60.887 | 55.000 | 5.01 | 0.00 | 0.00 | 5.34 |
3043 | 5085 | 4.025401 | GGCCAACTCCAACGCACG | 62.025 | 66.667 | 0.00 | 0.00 | 0.00 | 5.34 |
3044 | 5086 | 2.970324 | GCCAACTCCAACGCACGA | 60.970 | 61.111 | 0.00 | 0.00 | 0.00 | 4.35 |
3045 | 5087 | 2.935955 | CCAACTCCAACGCACGAC | 59.064 | 61.111 | 0.00 | 0.00 | 0.00 | 4.34 |
3046 | 5088 | 2.604174 | CCAACTCCAACGCACGACC | 61.604 | 63.158 | 0.00 | 0.00 | 0.00 | 4.79 |
3047 | 5089 | 2.280592 | AACTCCAACGCACGACCC | 60.281 | 61.111 | 0.00 | 0.00 | 0.00 | 4.46 |
3048 | 5090 | 3.819877 | AACTCCAACGCACGACCCC | 62.820 | 63.158 | 0.00 | 0.00 | 0.00 | 4.95 |
3049 | 5091 | 4.308458 | CTCCAACGCACGACCCCA | 62.308 | 66.667 | 0.00 | 0.00 | 0.00 | 4.96 |
3050 | 5092 | 3.818121 | CTCCAACGCACGACCCCAA | 62.818 | 63.158 | 0.00 | 0.00 | 0.00 | 4.12 |
3051 | 5093 | 2.902846 | CCAACGCACGACCCCAAA | 60.903 | 61.111 | 0.00 | 0.00 | 0.00 | 3.28 |
3052 | 5094 | 2.265182 | CCAACGCACGACCCCAAAT | 61.265 | 57.895 | 0.00 | 0.00 | 0.00 | 2.32 |
3053 | 5095 | 1.081509 | CAACGCACGACCCCAAATG | 60.082 | 57.895 | 0.00 | 0.00 | 0.00 | 2.32 |
3054 | 5096 | 2.265182 | AACGCACGACCCCAAATGG | 61.265 | 57.895 | 0.00 | 0.00 | 0.00 | 3.16 |
3055 | 5097 | 2.359354 | CGCACGACCCCAAATGGA | 60.359 | 61.111 | 0.00 | 0.00 | 37.39 | 3.41 |
3056 | 5098 | 2.686816 | CGCACGACCCCAAATGGAC | 61.687 | 63.158 | 0.00 | 0.00 | 37.39 | 4.02 |
3057 | 5099 | 2.686816 | GCACGACCCCAAATGGACG | 61.687 | 63.158 | 0.00 | 6.57 | 46.60 | 4.79 |
3059 | 5101 | 3.884900 | CGACCCCAAATGGACGTC | 58.115 | 61.111 | 7.13 | 7.13 | 38.48 | 4.34 |
3060 | 5102 | 2.098233 | CGACCCCAAATGGACGTCG | 61.098 | 63.158 | 20.14 | 20.14 | 44.78 | 5.12 |
3061 | 5103 | 1.743995 | GACCCCAAATGGACGTCGG | 60.744 | 63.158 | 9.92 | 5.65 | 37.39 | 4.79 |
3062 | 5104 | 2.349755 | CCCCAAATGGACGTCGGT | 59.650 | 61.111 | 9.92 | 0.00 | 37.39 | 4.69 |
3063 | 5105 | 1.302993 | CCCCAAATGGACGTCGGTT | 60.303 | 57.895 | 9.92 | 3.78 | 37.39 | 4.44 |
3064 | 5106 | 0.891904 | CCCCAAATGGACGTCGGTTT | 60.892 | 55.000 | 9.92 | 9.98 | 37.39 | 3.27 |
3065 | 5107 | 0.955905 | CCCAAATGGACGTCGGTTTT | 59.044 | 50.000 | 9.92 | 6.34 | 37.39 | 2.43 |
3066 | 5108 | 1.335506 | CCCAAATGGACGTCGGTTTTG | 60.336 | 52.381 | 20.61 | 20.61 | 37.39 | 2.44 |
3067 | 5109 | 1.335496 | CCAAATGGACGTCGGTTTTGT | 59.665 | 47.619 | 23.29 | 3.37 | 37.39 | 2.83 |
3068 | 5110 | 2.603652 | CCAAATGGACGTCGGTTTTGTC | 60.604 | 50.000 | 23.29 | 6.52 | 37.39 | 3.18 |
3093 | 5135 | 2.146920 | TTTTTCTGTTTGGGTCGGGT | 57.853 | 45.000 | 0.00 | 0.00 | 0.00 | 5.28 |
3094 | 5136 | 3.294038 | TTTTTCTGTTTGGGTCGGGTA | 57.706 | 42.857 | 0.00 | 0.00 | 0.00 | 3.69 |
3095 | 5137 | 3.294038 | TTTTCTGTTTGGGTCGGGTAA | 57.706 | 42.857 | 0.00 | 0.00 | 0.00 | 2.85 |
3096 | 5138 | 3.294038 | TTTCTGTTTGGGTCGGGTAAA | 57.706 | 42.857 | 0.00 | 0.00 | 0.00 | 2.01 |
3097 | 5139 | 2.554370 | TCTGTTTGGGTCGGGTAAAG | 57.446 | 50.000 | 0.00 | 0.00 | 0.00 | 1.85 |
3098 | 5140 | 1.072648 | TCTGTTTGGGTCGGGTAAAGG | 59.927 | 52.381 | 0.00 | 0.00 | 0.00 | 3.11 |
3099 | 5141 | 0.110869 | TGTTTGGGTCGGGTAAAGGG | 59.889 | 55.000 | 0.00 | 0.00 | 0.00 | 3.95 |
3100 | 5142 | 0.609957 | GTTTGGGTCGGGTAAAGGGG | 60.610 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
3101 | 5143 | 2.429235 | TTTGGGTCGGGTAAAGGGGC | 62.429 | 60.000 | 0.00 | 0.00 | 0.00 | 5.80 |
3102 | 5144 | 4.478371 | GGGTCGGGTAAAGGGGCG | 62.478 | 72.222 | 0.00 | 0.00 | 0.00 | 6.13 |
3109 | 5151 | 4.397832 | GTAAAGGGGCGCCGTCCA | 62.398 | 66.667 | 22.54 | 0.61 | 0.00 | 4.02 |
3110 | 5152 | 4.090588 | TAAAGGGGCGCCGTCCAG | 62.091 | 66.667 | 22.54 | 0.00 | 0.00 | 3.86 |
3118 | 5160 | 4.084888 | CGCCGTCCAGCCGTTTTC | 62.085 | 66.667 | 0.00 | 0.00 | 0.00 | 2.29 |
3119 | 5161 | 3.733960 | GCCGTCCAGCCGTTTTCC | 61.734 | 66.667 | 0.00 | 0.00 | 0.00 | 3.13 |
3120 | 5162 | 2.032071 | CCGTCCAGCCGTTTTCCT | 59.968 | 61.111 | 0.00 | 0.00 | 0.00 | 3.36 |
3121 | 5163 | 2.325082 | CCGTCCAGCCGTTTTCCTG | 61.325 | 63.158 | 0.00 | 0.00 | 0.00 | 3.86 |
3126 | 5168 | 1.508088 | CAGCCGTTTTCCTGGATGC | 59.492 | 57.895 | 0.00 | 0.00 | 34.51 | 3.91 |
3127 | 5169 | 1.074775 | AGCCGTTTTCCTGGATGCA | 59.925 | 52.632 | 0.00 | 0.00 | 0.00 | 3.96 |
3128 | 5170 | 0.323725 | AGCCGTTTTCCTGGATGCAT | 60.324 | 50.000 | 0.00 | 0.00 | 0.00 | 3.96 |
3129 | 5171 | 0.532115 | GCCGTTTTCCTGGATGCATT | 59.468 | 50.000 | 0.00 | 0.00 | 0.00 | 3.56 |
3130 | 5172 | 1.736696 | GCCGTTTTCCTGGATGCATTG | 60.737 | 52.381 | 0.00 | 0.00 | 0.00 | 2.82 |
3131 | 5173 | 1.135024 | CCGTTTTCCTGGATGCATTGG | 60.135 | 52.381 | 0.00 | 4.27 | 0.00 | 3.16 |
3132 | 5174 | 1.736696 | CGTTTTCCTGGATGCATTGGC | 60.737 | 52.381 | 0.00 | 0.00 | 41.68 | 4.52 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
50 | 51 | 6.481976 | TCGTTGAGTGTGTGAGAATTATGTTT | 59.518 | 34.615 | 0.00 | 0.00 | 0.00 | 2.83 |
146 | 147 | 1.672030 | CAATGGCACTGTCCTGCGA | 60.672 | 57.895 | 0.00 | 0.00 | 38.12 | 5.10 |
163 | 164 | 3.011566 | TCCTTTTGCAGGTTTGTCTCA | 57.988 | 42.857 | 0.00 | 0.00 | 44.37 | 3.27 |
175 | 176 | 7.425606 | TCTCTAGAATGTGTTTTTCCTTTTGC | 58.574 | 34.615 | 0.00 | 0.00 | 0.00 | 3.68 |
311 | 316 | 7.093509 | GGTGATGGGGTGATGTTTTAGTTTAAT | 60.094 | 37.037 | 0.00 | 0.00 | 0.00 | 1.40 |
367 | 372 | 2.178521 | CTGGTTCGTCGACGGGAG | 59.821 | 66.667 | 35.05 | 21.32 | 40.29 | 4.30 |
393 | 398 | 0.692419 | GATCAAGGCTCCCCTCTCCA | 60.692 | 60.000 | 0.00 | 0.00 | 41.90 | 3.86 |
720 | 2599 | 8.628630 | AGCAAATAAGCTCCTTCCTATATTTC | 57.371 | 34.615 | 0.00 | 0.00 | 42.18 | 2.17 |
724 | 2603 | 8.492415 | TCTTAGCAAATAAGCTCCTTCCTATA | 57.508 | 34.615 | 0.00 | 0.00 | 45.26 | 1.31 |
727 | 2606 | 5.700402 | TCTTAGCAAATAAGCTCCTTCCT | 57.300 | 39.130 | 0.00 | 0.00 | 45.26 | 3.36 |
797 | 2679 | 6.458232 | TGACTTATTTCCTAGTCAGAGCTC | 57.542 | 41.667 | 5.27 | 5.27 | 44.20 | 4.09 |
851 | 2744 | 5.104402 | TCCTCAATGAACTGATTAGGCATGA | 60.104 | 40.000 | 0.00 | 0.00 | 0.00 | 3.07 |
894 | 2787 | 2.172717 | AGGCGTATAAATTGCAGGGACT | 59.827 | 45.455 | 0.00 | 0.00 | 43.88 | 3.85 |
930 | 2823 | 1.132365 | AGAGGGGGAGAGTGAAGGTTT | 60.132 | 52.381 | 0.00 | 0.00 | 0.00 | 3.27 |
946 | 2847 | 2.505407 | TGGAGAGAGAGAGTGAGAGAGG | 59.495 | 54.545 | 0.00 | 0.00 | 0.00 | 3.69 |
1022 | 2923 | 5.760253 | ACACACAATTGTAGAGTGAGAAAGG | 59.240 | 40.000 | 25.78 | 7.99 | 37.05 | 3.11 |
1035 | 2936 | 3.437642 | CCCCCTCACACACAATTGT | 57.562 | 52.632 | 4.92 | 4.92 | 35.84 | 2.71 |
1050 | 2951 | 3.492337 | TCTTACAAATGACAACACCCCC | 58.508 | 45.455 | 0.00 | 0.00 | 0.00 | 5.40 |
1052 | 2953 | 6.430000 | ACACTATCTTACAAATGACAACACCC | 59.570 | 38.462 | 0.00 | 0.00 | 0.00 | 4.61 |
1091 | 3023 | 3.126000 | CACACACACACACACACACAATA | 59.874 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
1093 | 3025 | 1.265365 | CACACACACACACACACACAA | 59.735 | 47.619 | 0.00 | 0.00 | 0.00 | 3.33 |
1095 | 3027 | 0.167908 | CCACACACACACACACACAC | 59.832 | 55.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1096 | 3028 | 0.250510 | ACCACACACACACACACACA | 60.251 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
1097 | 3029 | 0.878416 | AACCACACACACACACACAC | 59.122 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1098 | 3030 | 1.610363 | AAACCACACACACACACACA | 58.390 | 45.000 | 0.00 | 0.00 | 0.00 | 3.72 |
1099 | 3031 | 2.715737 | AAAACCACACACACACACAC | 57.284 | 45.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1100 | 3032 | 4.799678 | CTTAAAAACCACACACACACACA | 58.200 | 39.130 | 0.00 | 0.00 | 0.00 | 3.72 |
1101 | 3033 | 3.610677 | GCTTAAAAACCACACACACACAC | 59.389 | 43.478 | 0.00 | 0.00 | 0.00 | 3.82 |
1102 | 3034 | 3.255888 | TGCTTAAAAACCACACACACACA | 59.744 | 39.130 | 0.00 | 0.00 | 0.00 | 3.72 |
1103 | 3035 | 3.839293 | TGCTTAAAAACCACACACACAC | 58.161 | 40.909 | 0.00 | 0.00 | 0.00 | 3.82 |
1104 | 3036 | 4.521130 | TTGCTTAAAAACCACACACACA | 57.479 | 36.364 | 0.00 | 0.00 | 0.00 | 3.72 |
1105 | 3037 | 5.810074 | AGAATTGCTTAAAAACCACACACAC | 59.190 | 36.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1106 | 3038 | 5.971763 | AGAATTGCTTAAAAACCACACACA | 58.028 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
1107 | 3039 | 6.975772 | TGTAGAATTGCTTAAAAACCACACAC | 59.024 | 34.615 | 0.00 | 0.00 | 0.00 | 3.82 |
1108 | 3040 | 7.101652 | TGTAGAATTGCTTAAAAACCACACA | 57.898 | 32.000 | 0.00 | 0.00 | 0.00 | 3.72 |
1109 | 3041 | 7.995463 | TTGTAGAATTGCTTAAAAACCACAC | 57.005 | 32.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1110 | 3042 | 9.039870 | CAATTGTAGAATTGCTTAAAAACCACA | 57.960 | 29.630 | 11.92 | 0.00 | 41.50 | 4.17 |
1124 | 3056 | 7.201513 | GCAACACAAACACACAATTGTAGAATT | 60.202 | 33.333 | 11.53 | 2.10 | 37.66 | 2.17 |
1125 | 3057 | 6.255453 | GCAACACAAACACACAATTGTAGAAT | 59.745 | 34.615 | 11.53 | 0.00 | 37.66 | 2.40 |
1126 | 3058 | 5.574830 | GCAACACAAACACACAATTGTAGAA | 59.425 | 36.000 | 11.53 | 0.00 | 37.66 | 2.10 |
1127 | 3059 | 5.098893 | GCAACACAAACACACAATTGTAGA | 58.901 | 37.500 | 11.53 | 0.00 | 37.66 | 2.59 |
1128 | 3060 | 4.861462 | TGCAACACAAACACACAATTGTAG | 59.139 | 37.500 | 11.53 | 9.59 | 37.66 | 2.74 |
1168 | 3100 | 7.389330 | TCGTTGACACCACAAACATATAAATCT | 59.611 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
1208 | 3143 | 5.339530 | CCCAAGATCAACCTTGAGGATTAGT | 60.340 | 44.000 | 3.59 | 0.00 | 44.66 | 2.24 |
1288 | 3223 | 6.049955 | TGAGGAGATAAAGAATTTCACCGT | 57.950 | 37.500 | 0.00 | 0.00 | 40.09 | 4.83 |
1299 | 3269 | 8.517062 | AATGTCCAATTCTTGAGGAGATAAAG | 57.483 | 34.615 | 0.00 | 0.00 | 34.67 | 1.85 |
1301 | 3271 | 8.548025 | TGTAATGTCCAATTCTTGAGGAGATAA | 58.452 | 33.333 | 0.00 | 0.00 | 34.67 | 1.75 |
1314 | 3284 | 8.219868 | TGATCAGATGGTATGTAATGTCCAATT | 58.780 | 33.333 | 0.00 | 0.00 | 35.84 | 2.32 |
1315 | 3285 | 7.663081 | GTGATCAGATGGTATGTAATGTCCAAT | 59.337 | 37.037 | 0.00 | 0.00 | 35.84 | 3.16 |
1316 | 3286 | 6.992123 | GTGATCAGATGGTATGTAATGTCCAA | 59.008 | 38.462 | 0.00 | 0.00 | 35.84 | 3.53 |
1317 | 3287 | 6.099557 | TGTGATCAGATGGTATGTAATGTCCA | 59.900 | 38.462 | 0.00 | 0.00 | 36.44 | 4.02 |
1318 | 3288 | 6.524734 | TGTGATCAGATGGTATGTAATGTCC | 58.475 | 40.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1319 | 3289 | 7.307632 | GCTTGTGATCAGATGGTATGTAATGTC | 60.308 | 40.741 | 0.00 | 0.00 | 0.00 | 3.06 |
1320 | 3290 | 6.484643 | GCTTGTGATCAGATGGTATGTAATGT | 59.515 | 38.462 | 0.00 | 0.00 | 0.00 | 2.71 |
1321 | 3291 | 6.484308 | TGCTTGTGATCAGATGGTATGTAATG | 59.516 | 38.462 | 0.00 | 0.00 | 0.00 | 1.90 |
1322 | 3292 | 6.594744 | TGCTTGTGATCAGATGGTATGTAAT | 58.405 | 36.000 | 0.00 | 0.00 | 0.00 | 1.89 |
1323 | 3293 | 5.988287 | TGCTTGTGATCAGATGGTATGTAA | 58.012 | 37.500 | 0.00 | 0.00 | 0.00 | 2.41 |
1324 | 3294 | 5.363580 | TCTGCTTGTGATCAGATGGTATGTA | 59.636 | 40.000 | 0.00 | 0.00 | 34.69 | 2.29 |
1325 | 3295 | 4.162888 | TCTGCTTGTGATCAGATGGTATGT | 59.837 | 41.667 | 0.00 | 0.00 | 34.69 | 2.29 |
1326 | 3296 | 4.510711 | GTCTGCTTGTGATCAGATGGTATG | 59.489 | 45.833 | 0.00 | 0.00 | 40.89 | 2.39 |
1327 | 3297 | 4.701765 | GTCTGCTTGTGATCAGATGGTAT | 58.298 | 43.478 | 0.00 | 0.00 | 40.89 | 2.73 |
1328 | 3298 | 3.429410 | CGTCTGCTTGTGATCAGATGGTA | 60.429 | 47.826 | 0.00 | 0.00 | 40.89 | 3.25 |
1329 | 3299 | 2.676176 | CGTCTGCTTGTGATCAGATGGT | 60.676 | 50.000 | 0.00 | 0.00 | 40.89 | 3.55 |
1330 | 3300 | 1.931841 | CGTCTGCTTGTGATCAGATGG | 59.068 | 52.381 | 0.00 | 0.00 | 40.89 | 3.51 |
1331 | 3301 | 2.614779 | ACGTCTGCTTGTGATCAGATG | 58.385 | 47.619 | 0.00 | 9.22 | 46.44 | 2.90 |
1332 | 3302 | 4.456280 | TTACGTCTGCTTGTGATCAGAT | 57.544 | 40.909 | 0.00 | 0.00 | 40.89 | 2.90 |
1333 | 3303 | 3.934457 | TTACGTCTGCTTGTGATCAGA | 57.066 | 42.857 | 0.00 | 0.00 | 37.03 | 3.27 |
1334 | 3304 | 5.319139 | CAAATTACGTCTGCTTGTGATCAG | 58.681 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
1335 | 3305 | 4.378356 | GCAAATTACGTCTGCTTGTGATCA | 60.378 | 41.667 | 0.00 | 0.00 | 33.20 | 2.92 |
1336 | 3306 | 4.091424 | GCAAATTACGTCTGCTTGTGATC | 58.909 | 43.478 | 0.00 | 0.00 | 33.20 | 2.92 |
1337 | 3307 | 3.501828 | TGCAAATTACGTCTGCTTGTGAT | 59.498 | 39.130 | 11.56 | 0.00 | 37.00 | 3.06 |
1338 | 3308 | 2.875317 | TGCAAATTACGTCTGCTTGTGA | 59.125 | 40.909 | 11.56 | 0.00 | 37.00 | 3.58 |
1339 | 3309 | 3.266541 | TGCAAATTACGTCTGCTTGTG | 57.733 | 42.857 | 11.56 | 0.00 | 37.00 | 3.33 |
1340 | 3310 | 3.980646 | TTGCAAATTACGTCTGCTTGT | 57.019 | 38.095 | 0.00 | 0.00 | 37.00 | 3.16 |
1341 | 3311 | 5.827568 | AAATTGCAAATTACGTCTGCTTG | 57.172 | 34.783 | 1.71 | 4.84 | 37.00 | 4.01 |
1342 | 3312 | 5.982516 | TCAAAATTGCAAATTACGTCTGCTT | 59.017 | 32.000 | 1.71 | 0.00 | 37.00 | 3.91 |
1357 | 3327 | 4.508861 | CGGATCCATTTCCATCAAAATTGC | 59.491 | 41.667 | 13.41 | 0.00 | 35.34 | 3.56 |
1396 | 3366 | 5.476945 | TCCTCATCTGCACGTACATACATAT | 59.523 | 40.000 | 0.00 | 0.00 | 0.00 | 1.78 |
1591 | 3581 | 5.412904 | GTCTTCCCCTTGTGATTGTTCTTAG | 59.587 | 44.000 | 0.00 | 0.00 | 0.00 | 2.18 |
1670 | 3660 | 2.665603 | GAAGGTGGCTTCTCGGCT | 59.334 | 61.111 | 0.00 | 0.00 | 39.32 | 5.52 |
1785 | 3775 | 3.860930 | AAGAACCCAACGGCGGCAT | 62.861 | 57.895 | 13.24 | 0.00 | 0.00 | 4.40 |
1913 | 3903 | 2.821366 | CAGCCGCAGTGTCCCATC | 60.821 | 66.667 | 0.00 | 0.00 | 0.00 | 3.51 |
2139 | 4138 | 4.397103 | TCTGAGCAAAGAATAGGTGCAATG | 59.603 | 41.667 | 0.00 | 0.00 | 40.83 | 2.82 |
2204 | 4221 | 9.918630 | TTAGTTATTGGAGTGAAGTAGTAACAC | 57.081 | 33.333 | 0.00 | 0.00 | 35.15 | 3.32 |
2206 | 4223 | 9.918630 | TGTTAGTTATTGGAGTGAAGTAGTAAC | 57.081 | 33.333 | 0.00 | 0.00 | 0.00 | 2.50 |
2209 | 4226 | 8.812972 | TCATGTTAGTTATTGGAGTGAAGTAGT | 58.187 | 33.333 | 0.00 | 0.00 | 0.00 | 2.73 |
2210 | 4227 | 9.653287 | TTCATGTTAGTTATTGGAGTGAAGTAG | 57.347 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
2215 | 4232 | 6.092122 | CGCTTTCATGTTAGTTATTGGAGTGA | 59.908 | 38.462 | 0.00 | 0.00 | 0.00 | 3.41 |
2217 | 4234 | 5.163754 | GCGCTTTCATGTTAGTTATTGGAGT | 60.164 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2218 | 4235 | 5.266242 | GCGCTTTCATGTTAGTTATTGGAG | 58.734 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
2542 | 4568 | 6.801539 | CACTTACATGATTGGTGTTAGTGT | 57.198 | 37.500 | 13.97 | 0.00 | 45.20 | 3.55 |
2545 | 4571 | 5.412594 | AGTGCACTTACATGATTGGTGTTAG | 59.587 | 40.000 | 15.25 | 0.00 | 33.68 | 2.34 |
2572 | 4598 | 9.736023 | AATATCTCTCAAACAAAAGTTCAACAC | 57.264 | 29.630 | 0.00 | 0.00 | 0.00 | 3.32 |
2578 | 4604 | 7.147976 | GGTGCAATATCTCTCAAACAAAAGTT | 58.852 | 34.615 | 0.00 | 0.00 | 0.00 | 2.66 |
2639 | 4671 | 2.555199 | CAGTTCCGCCTCCTAATCTTG | 58.445 | 52.381 | 0.00 | 0.00 | 0.00 | 3.02 |
2710 | 4742 | 8.790718 | TCAGTTAGCCTACTATATTAAGTTCCG | 58.209 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
2728 | 4760 | 9.222916 | GAAGAAACAACTTTACTTTCAGTTAGC | 57.777 | 33.333 | 0.00 | 0.00 | 31.78 | 3.09 |
2775 | 4807 | 6.221858 | TGTTTCAAAAAGTGTCAGTTTTGC | 57.778 | 33.333 | 17.17 | 7.89 | 42.07 | 3.68 |
2777 | 4809 | 8.921670 | GTGTATGTTTCAAAAAGTGTCAGTTTT | 58.078 | 29.630 | 11.84 | 11.84 | 32.49 | 2.43 |
2781 | 4813 | 7.914871 | TGATGTGTATGTTTCAAAAAGTGTCAG | 59.085 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
2829 | 4861 | 5.178067 | GCCCAATATTAGCATTGCATGTTTC | 59.822 | 40.000 | 11.91 | 0.00 | 35.06 | 2.78 |
2870 | 4909 | 1.880027 | CAAAGGCCGAGCTGTTTAAGT | 59.120 | 47.619 | 0.00 | 0.00 | 0.00 | 2.24 |
2879 | 4918 | 2.554032 | ACATATAATGCAAAGGCCGAGC | 59.446 | 45.455 | 9.75 | 9.75 | 40.13 | 5.03 |
2881 | 4920 | 3.146066 | GGACATATAATGCAAAGGCCGA | 58.854 | 45.455 | 0.00 | 0.00 | 40.13 | 5.54 |
2901 | 4942 | 0.531532 | CTTGCTCAGCCGGTAGATGG | 60.532 | 60.000 | 1.90 | 0.00 | 0.00 | 3.51 |
2954 | 4995 | 6.385443 | TCACTAGAAGGATTGGGATGAGTAT | 58.615 | 40.000 | 0.00 | 0.00 | 0.00 | 2.12 |
2995 | 5037 | 8.817876 | GCCTCTACTTCTCTACCCATTAATTAT | 58.182 | 37.037 | 0.00 | 0.00 | 0.00 | 1.28 |
2996 | 5038 | 7.787904 | TGCCTCTACTTCTCTACCCATTAATTA | 59.212 | 37.037 | 0.00 | 0.00 | 0.00 | 1.40 |
2997 | 5039 | 6.615726 | TGCCTCTACTTCTCTACCCATTAATT | 59.384 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
2998 | 5040 | 6.143915 | TGCCTCTACTTCTCTACCCATTAAT | 58.856 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
2999 | 5041 | 5.525484 | TGCCTCTACTTCTCTACCCATTAA | 58.475 | 41.667 | 0.00 | 0.00 | 0.00 | 1.40 |
3000 | 5042 | 5.138758 | TGCCTCTACTTCTCTACCCATTA | 57.861 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
3001 | 5043 | 3.995636 | TGCCTCTACTTCTCTACCCATT | 58.004 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
3002 | 5044 | 3.689872 | TGCCTCTACTTCTCTACCCAT | 57.310 | 47.619 | 0.00 | 0.00 | 0.00 | 4.00 |
3003 | 5045 | 3.689872 | ATGCCTCTACTTCTCTACCCA | 57.310 | 47.619 | 0.00 | 0.00 | 0.00 | 4.51 |
3004 | 5046 | 4.525100 | CCTAATGCCTCTACTTCTCTACCC | 59.475 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
3005 | 5047 | 4.021807 | GCCTAATGCCTCTACTTCTCTACC | 60.022 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
3006 | 5048 | 5.128992 | GCCTAATGCCTCTACTTCTCTAC | 57.871 | 47.826 | 0.00 | 0.00 | 0.00 | 2.59 |
3020 | 5062 | 0.451783 | CGTTGGAGTTGGCCTAATGC | 59.548 | 55.000 | 3.32 | 0.47 | 40.16 | 3.56 |
3021 | 5063 | 0.451783 | GCGTTGGAGTTGGCCTAATG | 59.548 | 55.000 | 3.32 | 0.00 | 0.00 | 1.90 |
3022 | 5064 | 0.037590 | TGCGTTGGAGTTGGCCTAAT | 59.962 | 50.000 | 3.32 | 0.00 | 0.00 | 1.73 |
3023 | 5065 | 0.887387 | GTGCGTTGGAGTTGGCCTAA | 60.887 | 55.000 | 3.32 | 0.00 | 0.00 | 2.69 |
3024 | 5066 | 1.302192 | GTGCGTTGGAGTTGGCCTA | 60.302 | 57.895 | 3.32 | 0.00 | 0.00 | 3.93 |
3025 | 5067 | 2.594592 | GTGCGTTGGAGTTGGCCT | 60.595 | 61.111 | 3.32 | 0.00 | 0.00 | 5.19 |
3026 | 5068 | 4.025401 | CGTGCGTTGGAGTTGGCC | 62.025 | 66.667 | 0.00 | 0.00 | 0.00 | 5.36 |
3027 | 5069 | 2.970324 | TCGTGCGTTGGAGTTGGC | 60.970 | 61.111 | 0.00 | 0.00 | 0.00 | 4.52 |
3028 | 5070 | 2.604174 | GGTCGTGCGTTGGAGTTGG | 61.604 | 63.158 | 0.00 | 0.00 | 0.00 | 3.77 |
3029 | 5071 | 2.604174 | GGGTCGTGCGTTGGAGTTG | 61.604 | 63.158 | 0.00 | 0.00 | 0.00 | 3.16 |
3030 | 5072 | 2.280592 | GGGTCGTGCGTTGGAGTT | 60.281 | 61.111 | 0.00 | 0.00 | 0.00 | 3.01 |
3031 | 5073 | 4.309950 | GGGGTCGTGCGTTGGAGT | 62.310 | 66.667 | 0.00 | 0.00 | 0.00 | 3.85 |
3032 | 5074 | 3.818121 | TTGGGGTCGTGCGTTGGAG | 62.818 | 63.158 | 0.00 | 0.00 | 0.00 | 3.86 |
3033 | 5075 | 2.684192 | ATTTGGGGTCGTGCGTTGGA | 62.684 | 55.000 | 0.00 | 0.00 | 0.00 | 3.53 |
3034 | 5076 | 2.265182 | ATTTGGGGTCGTGCGTTGG | 61.265 | 57.895 | 0.00 | 0.00 | 0.00 | 3.77 |
3035 | 5077 | 1.081509 | CATTTGGGGTCGTGCGTTG | 60.082 | 57.895 | 0.00 | 0.00 | 0.00 | 4.10 |
3036 | 5078 | 2.265182 | CCATTTGGGGTCGTGCGTT | 61.265 | 57.895 | 0.00 | 0.00 | 0.00 | 4.84 |
3037 | 5079 | 2.671619 | CCATTTGGGGTCGTGCGT | 60.672 | 61.111 | 0.00 | 0.00 | 0.00 | 5.24 |
3038 | 5080 | 2.359354 | TCCATTTGGGGTCGTGCG | 60.359 | 61.111 | 0.00 | 0.00 | 37.22 | 5.34 |
3039 | 5081 | 2.686816 | CGTCCATTTGGGGTCGTGC | 61.687 | 63.158 | 0.00 | 0.00 | 37.22 | 5.34 |
3040 | 5082 | 1.296056 | GACGTCCATTTGGGGTCGTG | 61.296 | 60.000 | 3.51 | 0.00 | 43.50 | 4.35 |
3041 | 5083 | 1.004200 | GACGTCCATTTGGGGTCGT | 60.004 | 57.895 | 3.51 | 4.30 | 45.07 | 4.34 |
3042 | 5084 | 2.098233 | CGACGTCCATTTGGGGTCG | 61.098 | 63.158 | 21.07 | 21.07 | 46.89 | 4.79 |
3043 | 5085 | 1.743995 | CCGACGTCCATTTGGGGTC | 60.744 | 63.158 | 10.58 | 10.05 | 37.22 | 4.46 |
3044 | 5086 | 2.059345 | AACCGACGTCCATTTGGGGT | 62.059 | 55.000 | 10.58 | 6.60 | 37.22 | 4.95 |
3045 | 5087 | 0.891904 | AAACCGACGTCCATTTGGGG | 60.892 | 55.000 | 10.58 | 5.90 | 37.22 | 4.96 |
3046 | 5088 | 0.955905 | AAAACCGACGTCCATTTGGG | 59.044 | 50.000 | 10.58 | 6.67 | 35.41 | 4.12 |
3047 | 5089 | 1.335496 | ACAAAACCGACGTCCATTTGG | 59.665 | 47.619 | 25.95 | 19.22 | 35.77 | 3.28 |
3048 | 5090 | 2.603652 | GGACAAAACCGACGTCCATTTG | 60.604 | 50.000 | 23.12 | 23.12 | 46.98 | 2.32 |
3049 | 5091 | 1.605232 | GGACAAAACCGACGTCCATTT | 59.395 | 47.619 | 10.58 | 7.89 | 46.98 | 2.32 |
3050 | 5092 | 1.232119 | GGACAAAACCGACGTCCATT | 58.768 | 50.000 | 10.58 | 1.13 | 46.98 | 3.16 |
3051 | 5093 | 2.922779 | GGACAAAACCGACGTCCAT | 58.077 | 52.632 | 10.58 | 0.00 | 46.98 | 3.41 |
3052 | 5094 | 4.442018 | GGACAAAACCGACGTCCA | 57.558 | 55.556 | 10.58 | 0.00 | 46.98 | 4.02 |
3074 | 5116 | 2.146920 | ACCCGACCCAAACAGAAAAA | 57.853 | 45.000 | 0.00 | 0.00 | 0.00 | 1.94 |
3075 | 5117 | 3.294038 | TTACCCGACCCAAACAGAAAA | 57.706 | 42.857 | 0.00 | 0.00 | 0.00 | 2.29 |
3076 | 5118 | 3.215975 | CTTTACCCGACCCAAACAGAAA | 58.784 | 45.455 | 0.00 | 0.00 | 0.00 | 2.52 |
3077 | 5119 | 2.487625 | CCTTTACCCGACCCAAACAGAA | 60.488 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3078 | 5120 | 1.072648 | CCTTTACCCGACCCAAACAGA | 59.927 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
3079 | 5121 | 1.530323 | CCTTTACCCGACCCAAACAG | 58.470 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
3080 | 5122 | 0.110869 | CCCTTTACCCGACCCAAACA | 59.889 | 55.000 | 0.00 | 0.00 | 0.00 | 2.83 |
3081 | 5123 | 0.609957 | CCCCTTTACCCGACCCAAAC | 60.610 | 60.000 | 0.00 | 0.00 | 0.00 | 2.93 |
3082 | 5124 | 1.769006 | CCCCTTTACCCGACCCAAA | 59.231 | 57.895 | 0.00 | 0.00 | 0.00 | 3.28 |
3083 | 5125 | 2.909549 | GCCCCTTTACCCGACCCAA | 61.910 | 63.158 | 0.00 | 0.00 | 0.00 | 4.12 |
3084 | 5126 | 3.332385 | GCCCCTTTACCCGACCCA | 61.332 | 66.667 | 0.00 | 0.00 | 0.00 | 4.51 |
3085 | 5127 | 4.478371 | CGCCCCTTTACCCGACCC | 62.478 | 72.222 | 0.00 | 0.00 | 0.00 | 4.46 |
3092 | 5134 | 4.397832 | TGGACGGCGCCCCTTTAC | 62.398 | 66.667 | 23.46 | 3.81 | 0.00 | 2.01 |
3093 | 5135 | 4.090588 | CTGGACGGCGCCCCTTTA | 62.091 | 66.667 | 23.46 | 2.59 | 0.00 | 1.85 |
3102 | 5144 | 3.733960 | GGAAAACGGCTGGACGGC | 61.734 | 66.667 | 0.00 | 0.00 | 38.39 | 5.68 |
3103 | 5145 | 2.032071 | AGGAAAACGGCTGGACGG | 59.968 | 61.111 | 0.00 | 0.00 | 38.39 | 4.79 |
3104 | 5146 | 2.325082 | CCAGGAAAACGGCTGGACG | 61.325 | 63.158 | 0.00 | 0.00 | 39.19 | 4.79 |
3105 | 5147 | 1.072505 | TCCAGGAAAACGGCTGGAC | 59.927 | 57.895 | 0.00 | 0.00 | 40.63 | 4.02 |
3106 | 5148 | 3.569849 | TCCAGGAAAACGGCTGGA | 58.430 | 55.556 | 0.00 | 0.00 | 42.95 | 3.86 |
3107 | 5149 | 1.937546 | GCATCCAGGAAAACGGCTGG | 61.938 | 60.000 | 0.00 | 0.00 | 38.26 | 4.85 |
3108 | 5150 | 1.243342 | TGCATCCAGGAAAACGGCTG | 61.243 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3109 | 5151 | 0.323725 | ATGCATCCAGGAAAACGGCT | 60.324 | 50.000 | 0.00 | 0.00 | 0.00 | 5.52 |
3110 | 5152 | 0.532115 | AATGCATCCAGGAAAACGGC | 59.468 | 50.000 | 0.00 | 0.00 | 0.00 | 5.68 |
3111 | 5153 | 1.135024 | CCAATGCATCCAGGAAAACGG | 60.135 | 52.381 | 0.00 | 0.00 | 0.00 | 4.44 |
3112 | 5154 | 1.736696 | GCCAATGCATCCAGGAAAACG | 60.737 | 52.381 | 14.86 | 0.00 | 37.47 | 3.60 |
3113 | 5155 | 2.014335 | GCCAATGCATCCAGGAAAAC | 57.986 | 50.000 | 14.86 | 0.00 | 37.47 | 2.43 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.