Multiple sequence alignment - TraesCS4A01G069200

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4A01G069200 chr4A 100.000 3953 0 0 1 3953 67413873 67417825 0.000000e+00 7300.0
1 TraesCS4A01G069200 chr4A 82.879 257 32 6 3376 3620 617085097 617084841 1.850000e-53 220.0
2 TraesCS4A01G069200 chr4D 95.626 2332 71 11 884 3200 386369331 386371646 0.000000e+00 3712.0
3 TraesCS4A01G069200 chr4D 91.779 815 43 10 95 888 386368482 386369293 0.000000e+00 1112.0
4 TraesCS4A01G069200 chr4D 93.878 147 9 0 3233 3379 386372082 386372228 5.140000e-54 222.0
5 TraesCS4A01G069200 chr4D 97.872 94 2 0 3638 3731 386372225 386372318 3.160000e-36 163.0
6 TraesCS4A01G069200 chr4B 95.944 2268 76 4 944 3209 473104957 473107210 0.000000e+00 3664.0
7 TraesCS4A01G069200 chr4B 91.019 579 37 7 1 570 473103686 473104258 0.000000e+00 767.0
8 TraesCS4A01G069200 chr4B 90.179 336 14 9 561 885 473104511 473104838 1.700000e-113 420.0
9 TraesCS4A01G069200 chr4B 87.864 206 11 7 3638 3842 473107334 473107526 3.070000e-56 230.0
10 TraesCS4A01G069200 chr4B 89.796 147 7 5 3233 3377 473107195 473107335 8.730000e-42 182.0
11 TraesCS4A01G069200 chr6D 85.714 252 26 6 3379 3620 263237422 263237171 1.410000e-64 257.0
12 TraesCS4A01G069200 chr3D 84.793 217 30 2 3379 3592 9208588 9208804 8.600000e-52 215.0
13 TraesCS4A01G069200 chr2D 82.661 248 33 6 3379 3617 279047522 279047768 1.110000e-50 211.0
14 TraesCS4A01G069200 chr2D 78.605 215 41 3 3379 3588 56230414 56230200 1.920000e-28 137.0
15 TraesCS4A01G069200 chr2B 81.696 224 26 9 3412 3620 649102 648879 5.250000e-39 172.0
16 TraesCS4A01G069200 chr2B 78.161 261 35 13 3377 3616 627836599 627836340 3.180000e-31 147.0
17 TraesCS4A01G069200 chr2A 82.716 162 22 4 3377 3534 2459572 2459413 5.330000e-29 139.0
18 TraesCS4A01G069200 chr1D 82.500 160 26 1 3377 3534 471080641 471080482 5.330000e-29 139.0
19 TraesCS4A01G069200 chr3B 78.261 230 34 9 3377 3591 738279107 738278879 2.480000e-27 134.0
20 TraesCS4A01G069200 chr1A 79.275 193 35 4 3346 3534 565329805 565329614 3.210000e-26 130.0
21 TraesCS4A01G069200 chr7A 75.904 166 38 2 1438 1602 285057153 285057317 2.530000e-12 84.2


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 TraesCS4A01G069200 chr4A 67413873 67417825 3952 False 7300.00 7300 100.00000 1 3953 1 chr4A.!!$F1 3952
1 TraesCS4A01G069200 chr4D 386368482 386372318 3836 False 1302.25 3712 94.78875 95 3731 4 chr4D.!!$F1 3636
2 TraesCS4A01G069200 chr4B 473103686 473107526 3840 False 1052.60 3664 90.96040 1 3842 5 chr4B.!!$F1 3841

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
388 399 0.387622 CGGGTCATGCACAAAGCTTG 60.388 55.0 0.00 0.0 46.60 4.01 F
928 1256 0.393537 AGGCTTCAAGCTCCAATCCG 60.394 55.0 9.83 0.0 41.99 4.18 F
1632 1983 0.034896 TGCTCAAAGAAGGGACCGAC 59.965 55.0 0.00 0.0 0.00 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1551 1902 1.379146 GGAGAAGTGGGGGTTGTCC 59.621 63.158 0.00 0.0 30.82 4.02 R
2055 2406 1.497278 CATCTGGTTGTTGCGTCCG 59.503 57.895 0.00 0.0 0.00 4.79 R
3613 4369 0.242825 TTCACGGCGAGAGTAAGTGG 59.757 55.000 16.62 0.0 34.46 4.00 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 8.642908 TCATTACTGTTGGTATTATTCTGTCG 57.357 34.615 0.00 0.00 0.00 4.35
55 56 1.071542 TCTGTCGAATGGACTTGGCAA 59.928 47.619 0.00 0.00 46.24 4.52
56 57 1.466167 CTGTCGAATGGACTTGGCAAG 59.534 52.381 25.06 25.06 46.24 4.01
71 72 4.572985 TGGCAAGAAGATTGTCAACTTG 57.427 40.909 8.56 8.56 40.24 3.16
79 80 3.672808 AGATTGTCAACTTGCCTCTCTG 58.327 45.455 0.00 0.00 0.00 3.35
82 83 2.838736 TGTCAACTTGCCTCTCTGAAC 58.161 47.619 0.00 0.00 0.00 3.18
84 85 2.805099 GTCAACTTGCCTCTCTGAACAG 59.195 50.000 0.00 0.00 0.00 3.16
126 128 3.428532 AGAAGATGCTGCTTTGATGGTT 58.571 40.909 0.00 0.00 0.00 3.67
261 272 4.219288 GCAATCAATCAGAGAACCAAAGGT 59.781 41.667 0.00 0.00 37.65 3.50
277 288 2.024918 GGTAGCAACCGCATCCATG 58.975 57.895 0.00 0.00 42.27 3.66
297 308 5.220322 CCATGATTGCACACAATTCGATTTG 60.220 40.000 16.40 16.40 46.59 2.32
377 388 1.219124 CCAGTCTGACCGGGTCATG 59.781 63.158 28.85 22.91 41.94 3.07
383 394 0.888736 CTGACCGGGTCATGCACAAA 60.889 55.000 28.85 4.90 41.94 2.83
388 399 0.387622 CGGGTCATGCACAAAGCTTG 60.388 55.000 0.00 0.00 46.60 4.01
400 411 2.163010 ACAAAGCTTGATCCAGCGATTG 59.837 45.455 25.23 25.23 45.24 2.67
480 491 7.012044 CCGAGTTATTTTATGACCTTGGGTTAG 59.988 40.741 0.00 0.00 35.25 2.34
485 496 1.580994 ATGACCTTGGGTTAGGGGGC 61.581 60.000 0.00 0.00 39.76 5.80
489 502 0.902984 CCTTGGGTTAGGGGGCAAAC 60.903 60.000 0.00 0.00 0.00 2.93
527 540 5.515797 AAAAAGAAAAGGAAGGTTCGGAG 57.484 39.130 0.00 0.00 0.00 4.63
537 550 1.153429 GGTTCGGAGGGAATCGGTG 60.153 63.158 0.00 0.00 36.92 4.94
595 870 2.496899 ATCCACCAAGCAAGTTCGAT 57.503 45.000 0.00 0.00 0.00 3.59
608 883 4.260784 GCAAGTTCGATGGCCATAAACTAG 60.261 45.833 31.45 17.25 30.98 2.57
609 884 4.073293 AGTTCGATGGCCATAAACTAGG 57.927 45.455 30.77 12.78 30.03 3.02
633 908 1.671742 TCCACTCAGGAAACCGCTC 59.328 57.895 0.00 0.00 45.65 5.03
686 972 3.844090 GGCAGCCTCTCCGGTCTC 61.844 72.222 3.29 0.00 34.25 3.36
688 974 3.151022 CAGCCTCTCCGGTCTCCC 61.151 72.222 0.00 0.00 34.25 4.30
706 992 3.812019 CCCGTCAGGTCGTCTCGG 61.812 72.222 0.00 0.00 40.72 4.63
737 1023 1.040893 CGGCCCCATTAAACCCCTTC 61.041 60.000 0.00 0.00 0.00 3.46
801 1087 1.069358 CAGACGGAAGAAGGATAGCCC 59.931 57.143 0.00 0.00 33.31 5.19
803 1089 1.485066 GACGGAAGAAGGATAGCCCAA 59.515 52.381 0.00 0.00 37.41 4.12
863 1149 4.208686 ATCGCCCGCCTCGTTCTC 62.209 66.667 0.00 0.00 0.00 2.87
872 1158 1.880340 CCTCGTTCTCATCGGCAGC 60.880 63.158 0.00 0.00 0.00 5.25
896 1224 2.432628 GTCGGTGGCAGAACGGAG 60.433 66.667 6.37 0.00 30.95 4.63
928 1256 0.393537 AGGCTTCAAGCTCCAATCCG 60.394 55.000 9.83 0.00 41.99 4.18
951 1298 3.588955 GGGGATTCAAACAGTGCAATTC 58.411 45.455 0.00 0.00 0.00 2.17
1581 1932 2.266554 CACTTCTCCAAGCTCATCGTC 58.733 52.381 0.00 0.00 32.09 4.20
1632 1983 0.034896 TGCTCAAAGAAGGGACCGAC 59.965 55.000 0.00 0.00 0.00 4.79
1968 2319 1.067283 CACATGAGGTCGCTTCACTCT 60.067 52.381 0.00 0.00 32.58 3.24
1971 2322 0.598562 TGAGGTCGCTTCACTCTGTC 59.401 55.000 0.00 0.00 32.58 3.51
1977 2328 1.340657 CGCTTCACTCTGTCGTGCTC 61.341 60.000 0.00 0.00 34.92 4.26
2032 2383 3.920196 ACTCCGCCAACGAACCGT 61.920 61.111 0.00 0.00 43.93 4.83
2055 2406 1.514443 CTCGTCGGAAGGCTCGAAC 60.514 63.158 0.00 0.00 38.42 3.95
2076 2427 0.385974 GACGCAACAACCAGATGCAC 60.386 55.000 0.00 0.00 45.43 4.57
2082 2433 1.376424 CAACCAGATGCACTCCGCT 60.376 57.895 0.00 0.00 43.06 5.52
2154 2505 3.184683 CAGCTGAGCTCGAACGGC 61.185 66.667 8.42 2.18 36.40 5.68
2553 2904 3.767230 CTGTCGCGCACCTTCACG 61.767 66.667 8.75 0.00 0.00 4.35
2796 3147 1.274770 CTACATCGCGCTGCATGTG 59.725 57.895 20.58 10.73 34.29 3.21
2953 3304 1.203063 CCAGGGGGTCGATCATCTAGA 60.203 57.143 0.00 0.00 0.00 2.43
2954 3305 2.558575 CCAGGGGGTCGATCATCTAGAT 60.559 54.545 0.00 0.00 40.48 1.98
2955 3306 6.646429 TCCAGGGGGTCGATCATCTAGATC 62.646 54.167 1.03 0.00 41.57 2.75
3003 3354 4.199310 TCCTGCACTGAAGTATATTTGCC 58.801 43.478 0.00 0.00 0.00 4.52
3017 3368 9.436957 AAGTATATTTGCCTAGATTTATGTCGG 57.563 33.333 0.00 0.00 0.00 4.79
3054 3405 5.587388 TTCCAGATTCCAGATTCAATTGC 57.413 39.130 0.00 0.00 0.00 3.56
3081 3432 5.104941 TGCTTTGGTAGAGTGTACATAGCAT 60.105 40.000 13.00 0.00 40.94 3.79
3082 3433 6.097696 TGCTTTGGTAGAGTGTACATAGCATA 59.902 38.462 13.00 0.00 40.94 3.14
3083 3434 7.155328 GCTTTGGTAGAGTGTACATAGCATAT 58.845 38.462 0.00 0.00 37.68 1.78
3104 3455 1.000171 GCTTCTGTTTGCCTTGAAGGG 60.000 52.381 13.99 0.00 37.12 3.95
3162 3515 8.885302 CATTTATGCTGACCATTATATGAACG 57.115 34.615 0.00 0.00 35.34 3.95
3178 3531 3.701241 TGAACGAAACTGCAAATTGGAC 58.299 40.909 0.00 0.00 0.00 4.02
3187 3540 3.181434 ACTGCAAATTGGACAAGGGAGTA 60.181 43.478 0.00 0.00 0.00 2.59
3205 3558 5.589050 GGGAGTACCTGTTCAAATGGAATAC 59.411 44.000 0.00 0.00 35.35 1.89
3207 3560 7.365295 GGGAGTACCTGTTCAAATGGAATACTA 60.365 40.741 0.00 0.00 35.35 1.82
3210 3563 8.993424 AGTACCTGTTCAAATGGAATACTATCT 58.007 33.333 0.00 0.00 37.93 1.98
3211 3564 9.614792 GTACCTGTTCAAATGGAATACTATCTT 57.385 33.333 0.00 0.00 37.93 2.40
3212 3565 8.738645 ACCTGTTCAAATGGAATACTATCTTC 57.261 34.615 0.00 0.00 37.93 2.87
3214 3567 9.347240 CCTGTTCAAATGGAATACTATCTTCAT 57.653 33.333 0.00 0.00 37.93 2.57
3315 4071 3.568007 TGGTACAAGCTTTCAACCATGAC 59.432 43.478 16.64 0.00 35.34 3.06
3318 4074 2.549754 ACAAGCTTTCAACCATGACTCG 59.450 45.455 0.00 0.00 34.61 4.18
3344 4100 3.279434 AGACTTGACTTTGGTGTTGTCC 58.721 45.455 0.00 0.00 0.00 4.02
3354 4110 1.412710 TGGTGTTGTCCACTCTGACTC 59.587 52.381 0.00 0.00 43.94 3.36
3376 4132 1.065126 GGTGAGATGGCTAGTTTGGCT 60.065 52.381 0.00 0.00 0.00 4.75
3377 4133 2.170607 GGTGAGATGGCTAGTTTGGCTA 59.829 50.000 0.00 0.00 0.00 3.93
3378 4134 3.370527 GGTGAGATGGCTAGTTTGGCTAA 60.371 47.826 0.00 0.00 0.00 3.09
3379 4135 3.873952 GTGAGATGGCTAGTTTGGCTAAG 59.126 47.826 0.00 0.00 0.00 2.18
3380 4136 3.774766 TGAGATGGCTAGTTTGGCTAAGA 59.225 43.478 0.00 0.00 0.00 2.10
3381 4137 4.123506 GAGATGGCTAGTTTGGCTAAGAC 58.876 47.826 0.00 0.00 0.00 3.01
3382 4138 3.777522 AGATGGCTAGTTTGGCTAAGACT 59.222 43.478 0.00 3.86 0.00 3.24
3383 4139 4.962995 AGATGGCTAGTTTGGCTAAGACTA 59.037 41.667 0.00 5.31 0.00 2.59
3384 4140 4.737855 TGGCTAGTTTGGCTAAGACTAG 57.262 45.455 18.82 18.82 43.52 2.57
3385 4141 4.094476 TGGCTAGTTTGGCTAAGACTAGT 58.906 43.478 21.46 0.00 42.94 2.57
3386 4142 4.159879 TGGCTAGTTTGGCTAAGACTAGTC 59.840 45.833 15.41 15.41 44.70 2.59
3387 4143 4.159879 GGCTAGTTTGGCTAAGACTAGTCA 59.840 45.833 24.44 4.18 44.17 3.41
3388 4144 5.103687 GCTAGTTTGGCTAAGACTAGTCAC 58.896 45.833 24.44 11.08 39.50 3.67
3389 4145 5.336531 GCTAGTTTGGCTAAGACTAGTCACA 60.337 44.000 24.44 10.55 39.50 3.58
3390 4146 5.746990 AGTTTGGCTAAGACTAGTCACAT 57.253 39.130 24.44 12.49 39.50 3.21
3391 4147 6.115448 AGTTTGGCTAAGACTAGTCACATT 57.885 37.500 24.44 12.63 39.50 2.71
3392 4148 5.934625 AGTTTGGCTAAGACTAGTCACATTG 59.065 40.000 24.44 11.84 39.50 2.82
3393 4149 4.471904 TGGCTAAGACTAGTCACATTGG 57.528 45.455 24.44 12.92 34.77 3.16
3394 4150 3.197766 TGGCTAAGACTAGTCACATTGGG 59.802 47.826 24.44 9.00 34.77 4.12
3395 4151 3.432326 GGCTAAGACTAGTCACATTGGGG 60.432 52.174 24.44 6.88 29.50 4.96
3396 4152 3.451178 GCTAAGACTAGTCACATTGGGGA 59.549 47.826 24.44 0.00 0.00 4.81
3397 4153 4.442192 GCTAAGACTAGTCACATTGGGGAG 60.442 50.000 24.44 6.16 0.00 4.30
3398 4154 3.191888 AGACTAGTCACATTGGGGAGT 57.808 47.619 24.44 0.00 0.00 3.85
3399 4155 4.332683 AGACTAGTCACATTGGGGAGTA 57.667 45.455 24.44 0.00 0.00 2.59
3400 4156 4.684724 AGACTAGTCACATTGGGGAGTAA 58.315 43.478 24.44 0.00 0.00 2.24
3401 4157 4.466726 AGACTAGTCACATTGGGGAGTAAC 59.533 45.833 24.44 0.00 0.00 2.50
3402 4158 4.426704 ACTAGTCACATTGGGGAGTAACT 58.573 43.478 0.00 0.00 0.00 2.24
3403 4159 4.844655 ACTAGTCACATTGGGGAGTAACTT 59.155 41.667 0.00 0.00 0.00 2.66
3404 4160 6.021030 ACTAGTCACATTGGGGAGTAACTTA 58.979 40.000 0.00 0.00 0.00 2.24
3405 4161 5.422214 AGTCACATTGGGGAGTAACTTAG 57.578 43.478 0.00 0.00 0.00 2.18
3406 4162 5.091552 AGTCACATTGGGGAGTAACTTAGA 58.908 41.667 0.00 0.00 0.00 2.10
3407 4163 5.187967 AGTCACATTGGGGAGTAACTTAGAG 59.812 44.000 0.00 0.00 0.00 2.43
3408 4164 4.081087 TCACATTGGGGAGTAACTTAGAGC 60.081 45.833 0.00 0.00 0.00 4.09
3409 4165 3.844211 ACATTGGGGAGTAACTTAGAGCA 59.156 43.478 0.00 0.00 0.00 4.26
3410 4166 3.975168 TTGGGGAGTAACTTAGAGCAC 57.025 47.619 0.00 0.00 0.00 4.40
3411 4167 3.185880 TGGGGAGTAACTTAGAGCACT 57.814 47.619 0.00 0.00 0.00 4.40
3412 4168 4.326600 TGGGGAGTAACTTAGAGCACTA 57.673 45.455 0.00 0.00 0.00 2.74
3413 4169 4.680407 TGGGGAGTAACTTAGAGCACTAA 58.320 43.478 3.51 3.51 37.13 2.24
3414 4170 4.465305 TGGGGAGTAACTTAGAGCACTAAC 59.535 45.833 0.00 0.00 35.19 2.34
3415 4171 4.465305 GGGGAGTAACTTAGAGCACTAACA 59.535 45.833 0.00 0.00 35.19 2.41
3416 4172 5.128991 GGGGAGTAACTTAGAGCACTAACAT 59.871 44.000 0.00 0.00 35.19 2.71
3417 4173 6.043411 GGGAGTAACTTAGAGCACTAACATG 58.957 44.000 0.00 0.00 35.19 3.21
3418 4174 5.520649 GGAGTAACTTAGAGCACTAACATGC 59.479 44.000 0.00 0.00 46.50 4.06
3473 4229 6.824958 AGTGGGAAGTAATATATGTGGTGT 57.175 37.500 0.00 0.00 0.00 4.16
3474 4230 6.827727 AGTGGGAAGTAATATATGTGGTGTC 58.172 40.000 0.00 0.00 0.00 3.67
3475 4231 6.385759 AGTGGGAAGTAATATATGTGGTGTCA 59.614 38.462 0.00 0.00 0.00 3.58
3476 4232 7.072454 AGTGGGAAGTAATATATGTGGTGTCAT 59.928 37.037 0.00 0.00 0.00 3.06
3477 4233 7.173218 GTGGGAAGTAATATATGTGGTGTCATG 59.827 40.741 0.00 0.00 0.00 3.07
3478 4234 6.149474 GGGAAGTAATATATGTGGTGTCATGC 59.851 42.308 0.00 0.00 0.00 4.06
3479 4235 6.710295 GGAAGTAATATATGTGGTGTCATGCA 59.290 38.462 0.00 0.00 0.00 3.96
3480 4236 7.391554 GGAAGTAATATATGTGGTGTCATGCAT 59.608 37.037 0.00 0.00 0.00 3.96
3481 4237 7.912056 AGTAATATATGTGGTGTCATGCATC 57.088 36.000 0.00 0.00 0.00 3.91
3482 4238 7.452562 AGTAATATATGTGGTGTCATGCATCA 58.547 34.615 0.00 0.00 35.51 3.07
3487 4243 2.493414 TGGTGTCATGCATCACATCA 57.507 45.000 13.17 13.17 36.64 3.07
3488 4244 3.007473 TGGTGTCATGCATCACATCAT 57.993 42.857 13.17 0.00 36.64 2.45
3489 4245 3.358118 TGGTGTCATGCATCACATCATT 58.642 40.909 13.17 0.00 36.64 2.57
3490 4246 3.764972 TGGTGTCATGCATCACATCATTT 59.235 39.130 13.17 0.00 36.64 2.32
3491 4247 4.948621 TGGTGTCATGCATCACATCATTTA 59.051 37.500 13.17 0.00 36.64 1.40
3492 4248 5.163632 TGGTGTCATGCATCACATCATTTAC 60.164 40.000 13.17 0.00 36.64 2.01
3493 4249 5.066893 GGTGTCATGCATCACATCATTTACT 59.933 40.000 9.35 0.00 36.64 2.24
3494 4250 6.260714 GGTGTCATGCATCACATCATTTACTA 59.739 38.462 9.35 0.00 36.64 1.82
3495 4251 7.350467 GTGTCATGCATCACATCATTTACTAG 58.650 38.462 6.70 0.00 36.64 2.57
3496 4252 6.484308 TGTCATGCATCACATCATTTACTAGG 59.516 38.462 0.00 0.00 36.64 3.02
3497 4253 6.484643 GTCATGCATCACATCATTTACTAGGT 59.515 38.462 0.00 0.00 36.64 3.08
3498 4254 7.012704 GTCATGCATCACATCATTTACTAGGTT 59.987 37.037 0.00 0.00 36.64 3.50
3499 4255 6.682423 TGCATCACATCATTTACTAGGTTG 57.318 37.500 0.00 0.00 0.00 3.77
3500 4256 6.179756 TGCATCACATCATTTACTAGGTTGT 58.820 36.000 0.00 0.00 0.00 3.32
3501 4257 7.334858 TGCATCACATCATTTACTAGGTTGTA 58.665 34.615 0.00 0.00 0.00 2.41
3502 4258 7.495606 TGCATCACATCATTTACTAGGTTGTAG 59.504 37.037 0.00 0.00 0.00 2.74
3503 4259 7.710907 GCATCACATCATTTACTAGGTTGTAGA 59.289 37.037 0.00 0.00 0.00 2.59
3504 4260 9.035607 CATCACATCATTTACTAGGTTGTAGAC 57.964 37.037 0.00 0.00 0.00 2.59
3515 4271 3.983044 GGTTGTAGACCCATCTTGTCT 57.017 47.619 0.00 0.00 44.85 3.41
3516 4272 4.287766 GGTTGTAGACCCATCTTGTCTT 57.712 45.455 0.00 0.00 42.78 3.01
3517 4273 4.003648 GGTTGTAGACCCATCTTGTCTTG 58.996 47.826 0.00 0.00 42.78 3.02
3518 4274 4.262894 GGTTGTAGACCCATCTTGTCTTGA 60.263 45.833 0.00 0.00 42.78 3.02
3519 4275 5.491982 GTTGTAGACCCATCTTGTCTTGAT 58.508 41.667 0.00 0.00 42.78 2.57
3520 4276 6.351881 GGTTGTAGACCCATCTTGTCTTGATA 60.352 42.308 0.00 0.00 42.78 2.15
3521 4277 7.275920 GTTGTAGACCCATCTTGTCTTGATAT 58.724 38.462 0.00 0.00 42.78 1.63
3522 4278 8.421784 GTTGTAGACCCATCTTGTCTTGATATA 58.578 37.037 0.00 0.00 42.78 0.86
3523 4279 8.727100 TGTAGACCCATCTTGTCTTGATATAT 57.273 34.615 0.00 0.00 42.78 0.86
3524 4280 8.588472 TGTAGACCCATCTTGTCTTGATATATG 58.412 37.037 0.00 0.00 42.78 1.78
3525 4281 7.623999 AGACCCATCTTGTCTTGATATATGT 57.376 36.000 0.00 0.00 40.06 2.29
3526 4282 7.448420 AGACCCATCTTGTCTTGATATATGTG 58.552 38.462 0.00 0.00 40.06 3.21
3527 4283 7.290948 AGACCCATCTTGTCTTGATATATGTGA 59.709 37.037 0.00 0.00 40.06 3.58
3528 4284 7.448420 ACCCATCTTGTCTTGATATATGTGAG 58.552 38.462 0.00 0.00 0.00 3.51
3529 4285 6.877855 CCCATCTTGTCTTGATATATGTGAGG 59.122 42.308 0.00 0.00 0.00 3.86
3530 4286 7.448420 CCATCTTGTCTTGATATATGTGAGGT 58.552 38.462 0.00 0.00 0.00 3.85
3531 4287 7.935755 CCATCTTGTCTTGATATATGTGAGGTT 59.064 37.037 0.00 0.00 0.00 3.50
3532 4288 9.987272 CATCTTGTCTTGATATATGTGAGGTTA 57.013 33.333 0.00 0.00 0.00 2.85
3533 4289 9.988815 ATCTTGTCTTGATATATGTGAGGTTAC 57.011 33.333 0.00 0.00 0.00 2.50
3534 4290 8.977412 TCTTGTCTTGATATATGTGAGGTTACA 58.023 33.333 0.00 0.00 34.63 2.41
3535 4291 9.254133 CTTGTCTTGATATATGTGAGGTTACAG 57.746 37.037 0.00 0.00 33.44 2.74
3536 4292 8.306313 TGTCTTGATATATGTGAGGTTACAGT 57.694 34.615 0.00 0.00 33.44 3.55
3537 4293 9.416284 TGTCTTGATATATGTGAGGTTACAGTA 57.584 33.333 0.00 0.00 33.44 2.74
3542 4298 8.638873 TGATATATGTGAGGTTACAGTAACAGG 58.361 37.037 22.34 0.00 40.39 4.00
3543 4299 6.869206 ATATGTGAGGTTACAGTAACAGGT 57.131 37.500 22.34 8.49 40.39 4.00
3544 4300 5.562298 ATGTGAGGTTACAGTAACAGGTT 57.438 39.130 22.34 7.13 40.39 3.50
3545 4301 6.675413 ATGTGAGGTTACAGTAACAGGTTA 57.325 37.500 22.34 8.19 40.39 2.85
3546 4302 6.675413 TGTGAGGTTACAGTAACAGGTTAT 57.325 37.500 22.34 3.69 40.39 1.89
3547 4303 6.460781 TGTGAGGTTACAGTAACAGGTTATG 58.539 40.000 22.34 0.00 40.39 1.90
3548 4304 6.042322 TGTGAGGTTACAGTAACAGGTTATGT 59.958 38.462 22.34 4.46 46.97 2.29
3561 4317 6.443995 ACAGGTTATGTTACTACACCCTTT 57.556 37.500 0.00 0.00 39.96 3.11
3562 4318 6.470278 ACAGGTTATGTTACTACACCCTTTC 58.530 40.000 0.00 0.00 39.96 2.62
3563 4319 6.271624 ACAGGTTATGTTACTACACCCTTTCT 59.728 38.462 0.00 0.00 39.96 2.52
3564 4320 7.166167 CAGGTTATGTTACTACACCCTTTCTT 58.834 38.462 0.00 0.00 37.03 2.52
3565 4321 7.664318 CAGGTTATGTTACTACACCCTTTCTTT 59.336 37.037 0.00 0.00 37.03 2.52
3566 4322 7.881751 AGGTTATGTTACTACACCCTTTCTTTC 59.118 37.037 0.00 0.00 37.03 2.62
3567 4323 7.881751 GGTTATGTTACTACACCCTTTCTTTCT 59.118 37.037 0.00 0.00 37.03 2.52
3568 4324 9.281371 GTTATGTTACTACACCCTTTCTTTCTT 57.719 33.333 0.00 0.00 37.03 2.52
3569 4325 7.981102 ATGTTACTACACCCTTTCTTTCTTC 57.019 36.000 0.00 0.00 37.03 2.87
3570 4326 6.891388 TGTTACTACACCCTTTCTTTCTTCA 58.109 36.000 0.00 0.00 0.00 3.02
3571 4327 7.514721 TGTTACTACACCCTTTCTTTCTTCAT 58.485 34.615 0.00 0.00 0.00 2.57
3572 4328 7.996644 TGTTACTACACCCTTTCTTTCTTCATT 59.003 33.333 0.00 0.00 0.00 2.57
3573 4329 9.498176 GTTACTACACCCTTTCTTTCTTCATTA 57.502 33.333 0.00 0.00 0.00 1.90
3576 4332 9.588096 ACTACACCCTTTCTTTCTTCATTAATT 57.412 29.630 0.00 0.00 0.00 1.40
3579 4335 9.588096 ACACCCTTTCTTTCTTCATTAATTACT 57.412 29.630 0.00 0.00 0.00 2.24
3615 4371 9.679661 ATTGTCTAAATATGTGTGATGTTACCA 57.320 29.630 0.00 0.00 0.00 3.25
3616 4372 8.487313 TGTCTAAATATGTGTGATGTTACCAC 57.513 34.615 0.00 0.00 35.23 4.16
3617 4373 8.318412 TGTCTAAATATGTGTGATGTTACCACT 58.682 33.333 0.00 0.00 35.66 4.00
3618 4374 9.162764 GTCTAAATATGTGTGATGTTACCACTT 57.837 33.333 0.00 0.00 35.66 3.16
3622 4378 8.718102 AATATGTGTGATGTTACCACTTACTC 57.282 34.615 0.00 0.00 35.66 2.59
3623 4379 5.801531 TGTGTGATGTTACCACTTACTCT 57.198 39.130 0.00 0.00 35.66 3.24
3624 4380 5.779922 TGTGTGATGTTACCACTTACTCTC 58.220 41.667 0.00 0.00 35.66 3.20
3625 4381 4.857588 GTGTGATGTTACCACTTACTCTCG 59.142 45.833 0.00 0.00 35.66 4.04
3626 4382 3.858238 GTGATGTTACCACTTACTCTCGC 59.142 47.826 0.00 0.00 0.00 5.03
3627 4383 3.119245 TGATGTTACCACTTACTCTCGCC 60.119 47.826 0.00 0.00 0.00 5.54
3628 4384 1.200716 TGTTACCACTTACTCTCGCCG 59.799 52.381 0.00 0.00 0.00 6.46
3629 4385 1.200948 GTTACCACTTACTCTCGCCGT 59.799 52.381 0.00 0.00 0.00 5.68
3630 4386 0.806868 TACCACTTACTCTCGCCGTG 59.193 55.000 0.00 0.00 0.00 4.94
3631 4387 0.892358 ACCACTTACTCTCGCCGTGA 60.892 55.000 0.00 0.00 0.00 4.35
3632 4388 0.242825 CCACTTACTCTCGCCGTGAA 59.757 55.000 0.00 0.00 0.00 3.18
3633 4389 1.135083 CCACTTACTCTCGCCGTGAAT 60.135 52.381 0.00 0.00 0.00 2.57
3634 4390 2.098607 CCACTTACTCTCGCCGTGAATA 59.901 50.000 0.00 0.00 0.00 1.75
3635 4391 3.364062 CACTTACTCTCGCCGTGAATAG 58.636 50.000 0.00 0.00 0.00 1.73
3636 4392 3.015327 ACTTACTCTCGCCGTGAATAGT 58.985 45.455 0.00 3.01 0.00 2.12
3637 4393 3.065095 ACTTACTCTCGCCGTGAATAGTC 59.935 47.826 0.99 0.00 0.00 2.59
3684 4440 2.732016 CGGTCCCGTCACTTGACA 59.268 61.111 9.94 0.00 44.99 3.58
3750 4506 6.327934 GCAGATAATGAATGACTTTGTGCTT 58.672 36.000 0.00 0.00 0.00 3.91
3756 4512 9.768662 ATAATGAATGACTTTGTGCTTTCTTTT 57.231 25.926 0.00 0.00 0.00 2.27
3757 4513 8.496707 AATGAATGACTTTGTGCTTTCTTTTT 57.503 26.923 0.00 0.00 0.00 1.94
3789 4545 3.924073 GGAAACCGCGAATGCTTTATTTT 59.076 39.130 8.23 0.00 39.65 1.82
3813 4569 1.344065 TGGTCCGTTAAAGGCTCTGA 58.656 50.000 2.06 0.00 0.00 3.27
3861 4618 6.546428 TTTTCAGCATAGCTTAGTACTCCT 57.454 37.500 0.00 0.00 36.40 3.69
3862 4619 6.546428 TTTCAGCATAGCTTAGTACTCCTT 57.454 37.500 0.00 0.00 36.40 3.36
3863 4620 6.546428 TTCAGCATAGCTTAGTACTCCTTT 57.454 37.500 0.00 0.00 36.40 3.11
3864 4621 6.546428 TCAGCATAGCTTAGTACTCCTTTT 57.454 37.500 0.00 0.00 36.40 2.27
3865 4622 6.574350 TCAGCATAGCTTAGTACTCCTTTTC 58.426 40.000 0.00 0.00 36.40 2.29
3866 4623 6.381420 TCAGCATAGCTTAGTACTCCTTTTCT 59.619 38.462 0.00 0.00 36.40 2.52
3867 4624 7.044798 CAGCATAGCTTAGTACTCCTTTTCTT 58.955 38.462 0.00 0.00 36.40 2.52
3868 4625 7.550906 CAGCATAGCTTAGTACTCCTTTTCTTT 59.449 37.037 0.00 0.00 36.40 2.52
3869 4626 8.103935 AGCATAGCTTAGTACTCCTTTTCTTTT 58.896 33.333 0.00 0.00 33.89 2.27
3870 4627 8.731605 GCATAGCTTAGTACTCCTTTTCTTTTT 58.268 33.333 0.00 0.00 0.00 1.94
3897 4654 7.467557 TTTTTATTTTTGTGAGAAGCAGCTG 57.532 32.000 10.11 10.11 0.00 4.24
3898 4655 3.655276 ATTTTTGTGAGAAGCAGCTGG 57.345 42.857 17.12 0.00 0.00 4.85
3899 4656 2.346766 TTTTGTGAGAAGCAGCTGGA 57.653 45.000 17.12 0.00 0.00 3.86
3900 4657 1.888215 TTTGTGAGAAGCAGCTGGAG 58.112 50.000 17.12 0.00 0.00 3.86
3901 4658 1.051008 TTGTGAGAAGCAGCTGGAGA 58.949 50.000 17.12 0.00 0.00 3.71
3902 4659 1.051008 TGTGAGAAGCAGCTGGAGAA 58.949 50.000 17.12 0.00 0.00 2.87
3903 4660 1.627329 TGTGAGAAGCAGCTGGAGAAT 59.373 47.619 17.12 0.00 0.00 2.40
3904 4661 2.039480 TGTGAGAAGCAGCTGGAGAATT 59.961 45.455 17.12 0.00 0.00 2.17
3905 4662 3.080319 GTGAGAAGCAGCTGGAGAATTT 58.920 45.455 17.12 0.00 0.00 1.82
3906 4663 3.505293 GTGAGAAGCAGCTGGAGAATTTT 59.495 43.478 17.12 0.00 0.00 1.82
3907 4664 4.022503 GTGAGAAGCAGCTGGAGAATTTTT 60.023 41.667 17.12 0.00 0.00 1.94
3934 4691 9.771534 TTTCCTAAATGGTAAATTTCAACAAGG 57.228 29.630 0.00 0.00 37.07 3.61
3935 4692 7.902087 TCCTAAATGGTAAATTTCAACAAGGG 58.098 34.615 0.00 0.00 37.07 3.95
3936 4693 7.038658 TCCTAAATGGTAAATTTCAACAAGGGG 60.039 37.037 0.00 0.00 37.07 4.79
3937 4694 6.755542 AAATGGTAAATTTCAACAAGGGGA 57.244 33.333 0.00 0.00 0.00 4.81
3938 4695 5.738619 ATGGTAAATTTCAACAAGGGGAC 57.261 39.130 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 8.471609 TCGACAGAATAATACCAACAGTAATGA 58.528 33.333 0.00 0.00 33.70 2.57
19 20 9.093970 CATTCGACAGAATAATACCAACAGTAA 57.906 33.333 0.00 0.00 44.68 2.24
22 23 6.761242 TCCATTCGACAGAATAATACCAACAG 59.239 38.462 0.00 0.00 44.68 3.16
41 42 4.219288 ACAATCTTCTTGCCAAGTCCATTC 59.781 41.667 4.04 0.00 0.00 2.67
55 56 4.041444 AGAGAGGCAAGTTGACAATCTTCT 59.959 41.667 12.25 4.15 0.00 2.85
56 57 4.153835 CAGAGAGGCAAGTTGACAATCTTC 59.846 45.833 12.25 0.00 0.00 2.87
71 72 3.243839 GGATCATCTCTGTTCAGAGAGGC 60.244 52.174 28.31 19.48 46.60 4.70
79 80 2.208431 CGCTTGGGATCATCTCTGTTC 58.792 52.381 0.00 0.00 0.00 3.18
82 83 3.302375 CCGCTTGGGATCATCTCTG 57.698 57.895 0.00 0.00 38.47 3.35
126 128 0.547471 TGGAGAGACATTCCTGGGCA 60.547 55.000 0.00 0.00 35.67 5.36
157 159 0.391597 TTCTTGCGGTCTCCTCGTTT 59.608 50.000 0.00 0.00 0.00 3.60
244 255 4.640771 TGCTACCTTTGGTTCTCTGATT 57.359 40.909 0.00 0.00 37.09 2.57
249 260 1.804748 CGGTTGCTACCTTTGGTTCTC 59.195 52.381 15.47 0.00 42.66 2.87
261 272 1.948834 CAATCATGGATGCGGTTGCTA 59.051 47.619 0.00 0.00 43.34 3.49
269 280 2.658373 TTGTGTGCAATCATGGATGC 57.342 45.000 14.38 14.38 0.00 3.91
277 288 4.484236 TCCAAATCGAATTGTGTGCAATC 58.516 39.130 12.05 0.00 43.89 2.67
297 308 2.572104 AGCGGTCCCATATAAATCCTCC 59.428 50.000 0.00 0.00 0.00 4.30
377 388 0.455633 CGCTGGATCAAGCTTTGTGC 60.456 55.000 19.90 0.00 41.24 4.57
400 411 3.376546 GTCCAACAGCAAAGATCTGATCC 59.623 47.826 13.83 0.00 35.61 3.36
480 491 0.392706 CACTCCTTTTGTTTGCCCCC 59.607 55.000 0.00 0.00 0.00 5.40
485 496 0.031994 CGGGGCACTCCTTTTGTTTG 59.968 55.000 0.00 0.00 35.33 2.93
489 502 1.036707 TTTTCGGGGCACTCCTTTTG 58.963 50.000 0.00 0.00 35.33 2.44
527 540 2.488153 CAAGTTTTCTCCACCGATTCCC 59.512 50.000 0.00 0.00 0.00 3.97
537 550 5.049405 TGCGAGATTTCTTCAAGTTTTCTCC 60.049 40.000 0.00 3.31 0.00 3.71
633 908 3.142838 CCCTGGGCGCATTTCTGG 61.143 66.667 10.83 8.81 0.00 3.86
669 944 3.844090 GAGACCGGAGAGGCTGCC 61.844 72.222 9.46 11.65 46.52 4.85
688 974 3.812019 CGAGACGACCTGACGGGG 61.812 72.222 5.03 0.00 40.03 5.73
737 1023 1.788229 GAGGGAGGAGAAGAGAAGGG 58.212 60.000 0.00 0.00 0.00 3.95
766 1052 1.112459 GTCTGTTTGAAAGCAACGCG 58.888 50.000 3.53 3.53 32.79 6.01
801 1087 1.669795 GGATTCCAAAGCTGCGGTTTG 60.670 52.381 19.35 19.35 46.44 2.93
803 1089 0.539438 TGGATTCCAAAGCTGCGGTT 60.539 50.000 1.94 0.00 0.00 4.44
888 1174 0.698818 AAATTGGGAGGCTCCGTTCT 59.301 50.000 26.54 9.10 37.43 3.01
951 1298 3.567797 GCGGCCGAAGCTTAGCAG 61.568 66.667 33.48 16.84 39.73 4.24
1551 1902 1.379146 GGAGAAGTGGGGGTTGTCC 59.621 63.158 0.00 0.00 30.82 4.02
1581 1932 4.933064 GCGATGCCGTCCTCCTCG 62.933 72.222 0.00 0.00 38.24 4.63
1986 2337 3.736224 CCTGGGAGCATGCTGGGT 61.736 66.667 28.27 0.00 0.00 4.51
2032 2383 3.812019 GCCTTCCGACGAGCTCGA 61.812 66.667 40.58 17.41 46.14 4.04
2055 2406 1.497278 CATCTGGTTGTTGCGTCCG 59.503 57.895 0.00 0.00 0.00 4.79
2097 2448 4.353437 GTGACCCGGCTCGTCGTT 62.353 66.667 0.00 0.00 32.68 3.85
2229 2580 2.437359 CGGGCAAGCTTCCAGAGG 60.437 66.667 14.39 0.00 0.00 3.69
2253 2604 2.581354 CTCTTGCAGACTCCCGGG 59.419 66.667 16.85 16.85 0.00 5.73
2409 2760 2.031919 TTGAATGCCGACTGCCGT 59.968 55.556 0.00 0.00 40.16 5.68
2904 3255 3.400599 ATCTAACCGGGCCTTGGCG 62.401 63.158 6.32 3.33 0.00 5.69
2953 3304 4.958581 TCATCATCACAGTGTCACCTAGAT 59.041 41.667 0.00 0.00 0.00 1.98
2954 3305 4.344104 TCATCATCACAGTGTCACCTAGA 58.656 43.478 0.00 0.00 0.00 2.43
2955 3306 4.725790 TCATCATCACAGTGTCACCTAG 57.274 45.455 0.00 0.00 0.00 3.02
2956 3307 5.423290 AGAATCATCATCACAGTGTCACCTA 59.577 40.000 0.00 0.00 0.00 3.08
2957 3308 4.224594 AGAATCATCATCACAGTGTCACCT 59.775 41.667 0.00 0.00 0.00 4.00
2958 3309 4.511527 AGAATCATCATCACAGTGTCACC 58.488 43.478 0.00 0.00 0.00 4.02
3003 3354 6.662616 CAAAGAATGGCCGACATAAATCTAG 58.337 40.000 0.00 0.00 39.40 2.43
3017 3368 2.756760 TCTGGAATCAGCAAAGAATGGC 59.243 45.455 0.00 0.00 40.69 4.40
3054 3405 6.183360 GCTATGTACACTCTACCAAAGCAAAG 60.183 42.308 0.00 0.00 0.00 2.77
3081 3432 3.507233 CCTTCAAGGCAAACAGAAGCATA 59.493 43.478 0.00 0.00 36.91 3.14
3082 3433 2.298163 CCTTCAAGGCAAACAGAAGCAT 59.702 45.455 0.00 0.00 36.91 3.79
3083 3434 1.682854 CCTTCAAGGCAAACAGAAGCA 59.317 47.619 0.00 0.00 36.91 3.91
3149 3500 8.533965 CAATTTGCAGTTTCGTTCATATAATGG 58.466 33.333 0.00 0.00 0.00 3.16
3162 3515 3.069443 TCCCTTGTCCAATTTGCAGTTTC 59.931 43.478 0.00 0.00 0.00 2.78
3178 3531 3.758554 CCATTTGAACAGGTACTCCCTTG 59.241 47.826 0.00 0.00 42.73 3.61
3187 3540 8.328758 TGAAGATAGTATTCCATTTGAACAGGT 58.671 33.333 0.00 0.00 35.31 4.00
3239 3995 9.490379 ACCGAACTAATTGACCTGATATTATTC 57.510 33.333 0.00 0.00 0.00 1.75
3262 4018 7.062605 ACTGTGAATAAACAAAGTATCGTACCG 59.937 37.037 0.00 0.00 36.69 4.02
3294 4050 3.821033 AGTCATGGTTGAAAGCTTGTACC 59.179 43.478 14.73 14.73 34.41 3.34
3300 4056 2.839486 TCGAGTCATGGTTGAAAGCT 57.161 45.000 0.00 0.00 32.48 3.74
3315 4071 5.696724 ACACCAAAGTCAAGTCTATTTCGAG 59.303 40.000 0.00 0.00 0.00 4.04
3318 4074 7.027778 ACAACACCAAAGTCAAGTCTATTTC 57.972 36.000 0.00 0.00 0.00 2.17
3344 4100 2.166050 CCATCTCACCAGAGTCAGAGTG 59.834 54.545 0.00 0.00 42.66 3.51
3354 4110 2.636830 CCAAACTAGCCATCTCACCAG 58.363 52.381 0.00 0.00 0.00 4.00
3376 4132 4.684724 ACTCCCCAATGTGACTAGTCTTA 58.315 43.478 23.01 12.47 0.00 2.10
3377 4133 3.521727 ACTCCCCAATGTGACTAGTCTT 58.478 45.455 23.01 7.21 0.00 3.01
3378 4134 3.191888 ACTCCCCAATGTGACTAGTCT 57.808 47.619 23.01 0.58 0.00 3.24
3379 4135 4.466726 AGTTACTCCCCAATGTGACTAGTC 59.533 45.833 16.32 16.32 32.48 2.59
3380 4136 4.426704 AGTTACTCCCCAATGTGACTAGT 58.573 43.478 0.00 0.00 32.48 2.57
3381 4137 5.422214 AAGTTACTCCCCAATGTGACTAG 57.578 43.478 0.00 0.00 32.96 2.57
3382 4138 6.258354 TCTAAGTTACTCCCCAATGTGACTA 58.742 40.000 0.00 0.00 32.96 2.59
3383 4139 5.091552 TCTAAGTTACTCCCCAATGTGACT 58.908 41.667 0.00 0.00 35.08 3.41
3384 4140 5.416271 TCTAAGTTACTCCCCAATGTGAC 57.584 43.478 0.00 0.00 0.00 3.67
3385 4141 4.081087 GCTCTAAGTTACTCCCCAATGTGA 60.081 45.833 0.00 0.00 0.00 3.58
3386 4142 4.192317 GCTCTAAGTTACTCCCCAATGTG 58.808 47.826 0.00 0.00 0.00 3.21
3387 4143 3.844211 TGCTCTAAGTTACTCCCCAATGT 59.156 43.478 0.00 0.00 0.00 2.71
3388 4144 4.080863 AGTGCTCTAAGTTACTCCCCAATG 60.081 45.833 0.00 0.00 0.00 2.82
3389 4145 4.104831 AGTGCTCTAAGTTACTCCCCAAT 58.895 43.478 0.00 0.00 0.00 3.16
3390 4146 3.517612 AGTGCTCTAAGTTACTCCCCAA 58.482 45.455 0.00 0.00 0.00 4.12
3391 4147 3.185880 AGTGCTCTAAGTTACTCCCCA 57.814 47.619 0.00 0.00 0.00 4.96
3392 4148 4.465305 TGTTAGTGCTCTAAGTTACTCCCC 59.535 45.833 8.45 0.00 36.90 4.81
3393 4149 5.656213 TGTTAGTGCTCTAAGTTACTCCC 57.344 43.478 8.45 0.00 36.90 4.30
3394 4150 5.520649 GCATGTTAGTGCTCTAAGTTACTCC 59.479 44.000 8.45 0.00 41.82 3.85
3395 4151 5.520649 GGCATGTTAGTGCTCTAAGTTACTC 59.479 44.000 8.45 0.00 44.45 2.59
3396 4152 5.187967 AGGCATGTTAGTGCTCTAAGTTACT 59.812 40.000 8.45 2.20 44.45 2.24
3397 4153 5.420409 AGGCATGTTAGTGCTCTAAGTTAC 58.580 41.667 8.45 0.00 44.45 2.50
3398 4154 5.677319 AGGCATGTTAGTGCTCTAAGTTA 57.323 39.130 8.45 0.02 44.45 2.24
3399 4155 4.559862 AGGCATGTTAGTGCTCTAAGTT 57.440 40.909 8.45 0.00 44.45 2.66
3400 4156 5.129485 ACATAGGCATGTTAGTGCTCTAAGT 59.871 40.000 8.45 0.00 42.98 2.24
3401 4157 5.605534 ACATAGGCATGTTAGTGCTCTAAG 58.394 41.667 8.45 0.00 42.98 2.18
3402 4158 5.614324 ACATAGGCATGTTAGTGCTCTAA 57.386 39.130 4.14 4.14 42.98 2.10
3447 4203 9.610104 ACACCACATATATTACTTCCCACTATA 57.390 33.333 0.00 0.00 0.00 1.31
3448 4204 8.506196 ACACCACATATATTACTTCCCACTAT 57.494 34.615 0.00 0.00 0.00 2.12
3449 4205 7.565768 TGACACCACATATATTACTTCCCACTA 59.434 37.037 0.00 0.00 0.00 2.74
3450 4206 6.385759 TGACACCACATATATTACTTCCCACT 59.614 38.462 0.00 0.00 0.00 4.00
3451 4207 6.588204 TGACACCACATATATTACTTCCCAC 58.412 40.000 0.00 0.00 0.00 4.61
3452 4208 6.816616 TGACACCACATATATTACTTCCCA 57.183 37.500 0.00 0.00 0.00 4.37
3453 4209 6.149474 GCATGACACCACATATATTACTTCCC 59.851 42.308 0.00 0.00 0.00 3.97
3454 4210 6.710295 TGCATGACACCACATATATTACTTCC 59.290 38.462 0.00 0.00 0.00 3.46
3455 4211 7.728847 TGCATGACACCACATATATTACTTC 57.271 36.000 0.00 0.00 0.00 3.01
3456 4212 7.938490 TGATGCATGACACCACATATATTACTT 59.062 33.333 2.46 0.00 0.00 2.24
3457 4213 7.388776 GTGATGCATGACACCACATATATTACT 59.611 37.037 11.72 0.00 0.00 2.24
3458 4214 7.173047 TGTGATGCATGACACCACATATATTAC 59.827 37.037 15.42 0.00 36.35 1.89
3459 4215 7.222872 TGTGATGCATGACACCACATATATTA 58.777 34.615 15.42 0.00 36.35 0.98
3460 4216 6.063404 TGTGATGCATGACACCACATATATT 58.937 36.000 15.42 0.00 36.35 1.28
3461 4217 5.623169 TGTGATGCATGACACCACATATAT 58.377 37.500 15.42 0.00 36.35 0.86
3462 4218 5.033589 TGTGATGCATGACACCACATATA 57.966 39.130 15.42 0.00 36.35 0.86
3463 4219 3.888583 TGTGATGCATGACACCACATAT 58.111 40.909 15.42 0.00 36.35 1.78
3464 4220 3.347077 TGTGATGCATGACACCACATA 57.653 42.857 15.42 0.00 36.35 2.29
3465 4221 2.203470 TGTGATGCATGACACCACAT 57.797 45.000 15.42 0.00 36.35 3.21
3466 4222 2.086094 GATGTGATGCATGACACCACA 58.914 47.619 21.55 19.20 41.24 4.17
3467 4223 2.086094 TGATGTGATGCATGACACCAC 58.914 47.619 21.55 14.15 38.06 4.16
3468 4224 2.493414 TGATGTGATGCATGACACCA 57.507 45.000 21.55 15.78 38.06 4.17
3469 4225 4.380841 AAATGATGTGATGCATGACACC 57.619 40.909 21.55 12.89 38.06 4.16
3470 4226 6.127810 AGTAAATGATGTGATGCATGACAC 57.872 37.500 21.55 15.60 38.06 3.67
3471 4227 6.484308 CCTAGTAAATGATGTGATGCATGACA 59.516 38.462 21.38 21.38 38.06 3.58
3472 4228 6.484643 ACCTAGTAAATGATGTGATGCATGAC 59.515 38.462 9.59 9.59 38.06 3.06
3473 4229 6.594744 ACCTAGTAAATGATGTGATGCATGA 58.405 36.000 2.46 0.00 38.06 3.07
3474 4230 6.872628 ACCTAGTAAATGATGTGATGCATG 57.127 37.500 2.46 0.00 38.06 4.06
3475 4231 6.830324 ACAACCTAGTAAATGATGTGATGCAT 59.170 34.615 0.00 0.00 41.24 3.96
3476 4232 6.179756 ACAACCTAGTAAATGATGTGATGCA 58.820 36.000 0.00 0.00 0.00 3.96
3477 4233 6.683974 ACAACCTAGTAAATGATGTGATGC 57.316 37.500 0.00 0.00 0.00 3.91
3478 4234 9.035607 GTCTACAACCTAGTAAATGATGTGATG 57.964 37.037 0.00 0.00 0.00 3.07
3479 4235 8.204836 GGTCTACAACCTAGTAAATGATGTGAT 58.795 37.037 0.00 0.00 45.45 3.06
3480 4236 7.553334 GGTCTACAACCTAGTAAATGATGTGA 58.447 38.462 0.00 0.00 45.45 3.58
3481 4237 7.772332 GGTCTACAACCTAGTAAATGATGTG 57.228 40.000 0.00 0.00 45.45 3.21
3495 4251 4.003648 CAAGACAAGATGGGTCTACAACC 58.996 47.826 0.00 0.00 44.50 3.77
3496 4252 4.894784 TCAAGACAAGATGGGTCTACAAC 58.105 43.478 0.00 0.00 44.50 3.32
3497 4253 5.762179 ATCAAGACAAGATGGGTCTACAA 57.238 39.130 0.00 0.00 44.50 2.41
3498 4254 8.588472 CATATATCAAGACAAGATGGGTCTACA 58.412 37.037 0.00 0.00 44.50 2.74
3499 4255 8.589338 ACATATATCAAGACAAGATGGGTCTAC 58.411 37.037 0.00 0.00 44.50 2.59
3500 4256 8.588472 CACATATATCAAGACAAGATGGGTCTA 58.412 37.037 0.00 0.00 44.50 2.59
3502 4258 7.445121 TCACATATATCAAGACAAGATGGGTC 58.555 38.462 0.00 0.00 35.50 4.46
3503 4259 7.379059 TCACATATATCAAGACAAGATGGGT 57.621 36.000 0.00 0.00 0.00 4.51
3504 4260 6.877855 CCTCACATATATCAAGACAAGATGGG 59.122 42.308 0.00 0.00 0.00 4.00
3505 4261 7.448420 ACCTCACATATATCAAGACAAGATGG 58.552 38.462 0.00 0.00 0.00 3.51
3506 4262 8.899427 AACCTCACATATATCAAGACAAGATG 57.101 34.615 0.00 0.00 0.00 2.90
3507 4263 9.988815 GTAACCTCACATATATCAAGACAAGAT 57.011 33.333 0.00 0.00 0.00 2.40
3508 4264 8.977412 TGTAACCTCACATATATCAAGACAAGA 58.023 33.333 0.00 0.00 0.00 3.02
3509 4265 9.254133 CTGTAACCTCACATATATCAAGACAAG 57.746 37.037 0.00 0.00 0.00 3.16
3510 4266 8.758829 ACTGTAACCTCACATATATCAAGACAA 58.241 33.333 0.00 0.00 0.00 3.18
3511 4267 8.306313 ACTGTAACCTCACATATATCAAGACA 57.694 34.615 0.00 0.00 0.00 3.41
3516 4272 8.638873 CCTGTTACTGTAACCTCACATATATCA 58.361 37.037 23.71 3.98 37.88 2.15
3517 4273 8.639761 ACCTGTTACTGTAACCTCACATATATC 58.360 37.037 23.71 0.00 37.88 1.63
3518 4274 8.548880 ACCTGTTACTGTAACCTCACATATAT 57.451 34.615 23.71 0.37 37.88 0.86
3519 4275 7.966339 ACCTGTTACTGTAACCTCACATATA 57.034 36.000 23.71 5.16 37.88 0.86
3520 4276 6.869206 ACCTGTTACTGTAACCTCACATAT 57.131 37.500 23.71 2.91 37.88 1.78
3521 4277 6.675413 AACCTGTTACTGTAACCTCACATA 57.325 37.500 23.71 6.40 37.88 2.29
3522 4278 5.562298 AACCTGTTACTGTAACCTCACAT 57.438 39.130 23.71 6.61 37.88 3.21
3523 4279 6.042322 ACATAACCTGTTACTGTAACCTCACA 59.958 38.462 23.71 8.34 37.88 3.58
3524 4280 6.461640 ACATAACCTGTTACTGTAACCTCAC 58.538 40.000 23.71 4.24 37.88 3.51
3525 4281 6.675413 ACATAACCTGTTACTGTAACCTCA 57.325 37.500 23.71 8.33 37.88 3.86
3536 4292 7.557875 AAGGGTGTAGTAACATAACCTGTTA 57.442 36.000 0.00 0.00 46.30 2.41
3538 4294 6.271624 AGAAAGGGTGTAGTAACATAACCTGT 59.728 38.462 0.00 0.00 37.25 4.00
3539 4295 6.708285 AGAAAGGGTGTAGTAACATAACCTG 58.292 40.000 0.00 0.00 37.25 4.00
3540 4296 6.947376 AGAAAGGGTGTAGTAACATAACCT 57.053 37.500 0.00 0.00 38.17 3.50
3541 4297 7.881751 AGAAAGAAAGGGTGTAGTAACATAACC 59.118 37.037 0.00 0.00 38.08 2.85
3542 4298 8.843885 AGAAAGAAAGGGTGTAGTAACATAAC 57.156 34.615 0.00 0.00 38.08 1.89
3543 4299 9.498176 GAAGAAAGAAAGGGTGTAGTAACATAA 57.502 33.333 0.00 0.00 38.08 1.90
3544 4300 8.653191 TGAAGAAAGAAAGGGTGTAGTAACATA 58.347 33.333 0.00 0.00 38.08 2.29
3545 4301 7.514721 TGAAGAAAGAAAGGGTGTAGTAACAT 58.485 34.615 0.00 0.00 38.08 2.71
3546 4302 6.891388 TGAAGAAAGAAAGGGTGTAGTAACA 58.109 36.000 0.00 0.00 0.00 2.41
3547 4303 7.981102 ATGAAGAAAGAAAGGGTGTAGTAAC 57.019 36.000 0.00 0.00 0.00 2.50
3550 4306 9.588096 AATTAATGAAGAAAGAAAGGGTGTAGT 57.412 29.630 0.00 0.00 0.00 2.73
3553 4309 9.588096 AGTAATTAATGAAGAAAGAAAGGGTGT 57.412 29.630 0.00 0.00 0.00 4.16
3589 4345 9.679661 TGGTAACATCACACATATTTAGACAAT 57.320 29.630 0.00 0.00 46.17 2.71
3609 4365 1.200948 ACGGCGAGAGTAAGTGGTAAC 59.799 52.381 16.62 0.00 0.00 2.50
3610 4366 1.200716 CACGGCGAGAGTAAGTGGTAA 59.799 52.381 16.62 0.00 0.00 2.85
3611 4367 0.806868 CACGGCGAGAGTAAGTGGTA 59.193 55.000 16.62 0.00 0.00 3.25
3612 4368 0.892358 TCACGGCGAGAGTAAGTGGT 60.892 55.000 16.62 0.00 34.46 4.16
3613 4369 0.242825 TTCACGGCGAGAGTAAGTGG 59.757 55.000 16.62 0.00 34.46 4.00
3614 4370 2.279582 ATTCACGGCGAGAGTAAGTG 57.720 50.000 16.62 0.00 34.80 3.16
3615 4371 3.015327 ACTATTCACGGCGAGAGTAAGT 58.985 45.455 16.62 12.68 0.00 2.24
3616 4372 3.312973 AGACTATTCACGGCGAGAGTAAG 59.687 47.826 16.62 12.03 0.00 2.34
3617 4373 3.276857 AGACTATTCACGGCGAGAGTAA 58.723 45.455 16.62 0.00 0.00 2.24
3618 4374 2.915349 AGACTATTCACGGCGAGAGTA 58.085 47.619 16.62 11.90 0.00 2.59
3619 4375 1.752683 AGACTATTCACGGCGAGAGT 58.247 50.000 16.62 11.26 0.00 3.24
3620 4376 3.965292 TTAGACTATTCACGGCGAGAG 57.035 47.619 16.62 0.00 0.00 3.20
3621 4377 3.881089 TCATTAGACTATTCACGGCGAGA 59.119 43.478 16.62 8.96 0.00 4.04
3622 4378 4.222886 CTCATTAGACTATTCACGGCGAG 58.777 47.826 16.62 5.72 0.00 5.03
3623 4379 3.630769 ACTCATTAGACTATTCACGGCGA 59.369 43.478 16.62 0.00 0.00 5.54
3624 4380 3.966154 ACTCATTAGACTATTCACGGCG 58.034 45.455 4.80 4.80 0.00 6.46
3625 4381 7.116519 GGAAATACTCATTAGACTATTCACGGC 59.883 40.741 0.00 0.00 0.00 5.68
3626 4382 8.141909 TGGAAATACTCATTAGACTATTCACGG 58.858 37.037 0.00 0.00 0.00 4.94
3627 4383 9.529325 TTGGAAATACTCATTAGACTATTCACG 57.471 33.333 0.00 0.00 0.00 4.35
3678 4434 4.697514 TCAAGAACCAGAGAAGTGTCAAG 58.302 43.478 0.00 0.00 0.00 3.02
3684 4440 5.767168 CCAAAAGATCAAGAACCAGAGAAGT 59.233 40.000 0.00 0.00 0.00 3.01
3757 4513 2.836262 TCGCGGTTTCCTCACTAAAAA 58.164 42.857 6.13 0.00 0.00 1.94
3759 4515 2.529780 TTCGCGGTTTCCTCACTAAA 57.470 45.000 6.13 0.00 0.00 1.85
3760 4516 2.343101 CATTCGCGGTTTCCTCACTAA 58.657 47.619 6.13 0.00 0.00 2.24
3761 4517 2.004583 CATTCGCGGTTTCCTCACTA 57.995 50.000 6.13 0.00 0.00 2.74
3763 4519 1.134694 GCATTCGCGGTTTCCTCAC 59.865 57.895 6.13 0.00 0.00 3.51
3764 4520 0.605319 AAGCATTCGCGGTTTCCTCA 60.605 50.000 6.13 0.00 45.49 3.86
3765 4521 0.521735 AAAGCATTCGCGGTTTCCTC 59.478 50.000 6.13 0.00 45.49 3.71
3767 4523 2.844122 ATAAAGCATTCGCGGTTTCC 57.156 45.000 6.13 0.00 45.49 3.13
3768 4524 6.025280 TCTAAAATAAAGCATTCGCGGTTTC 58.975 36.000 6.13 0.00 45.49 2.78
3769 4525 5.945155 TCTAAAATAAAGCATTCGCGGTTT 58.055 33.333 6.13 0.00 45.49 3.27
3770 4526 5.554822 TCTAAAATAAAGCATTCGCGGTT 57.445 34.783 6.13 0.00 45.49 4.44
3771 4527 5.751243 ATCTAAAATAAAGCATTCGCGGT 57.249 34.783 6.13 0.00 45.49 5.68
3772 4528 5.399301 CCAATCTAAAATAAAGCATTCGCGG 59.601 40.000 6.13 0.00 45.49 6.46
3789 4545 3.773119 AGAGCCTTTAACGGACCAATCTA 59.227 43.478 1.37 0.00 0.00 1.98
3842 4599 6.578023 AGAAAAGGAGTACTAAGCTATGCTG 58.422 40.000 0.00 0.00 39.62 4.41
3843 4600 6.800072 AGAAAAGGAGTACTAAGCTATGCT 57.200 37.500 0.00 0.00 42.56 3.79
3844 4601 7.851387 AAAGAAAAGGAGTACTAAGCTATGC 57.149 36.000 0.00 0.00 0.00 3.14
3873 4630 6.479660 CCAGCTGCTTCTCACAAAAATAAAAA 59.520 34.615 8.66 0.00 0.00 1.94
3874 4631 5.984926 CCAGCTGCTTCTCACAAAAATAAAA 59.015 36.000 8.66 0.00 0.00 1.52
3875 4632 5.301551 TCCAGCTGCTTCTCACAAAAATAAA 59.698 36.000 8.66 0.00 0.00 1.40
3876 4633 4.826733 TCCAGCTGCTTCTCACAAAAATAA 59.173 37.500 8.66 0.00 0.00 1.40
3877 4634 4.397420 TCCAGCTGCTTCTCACAAAAATA 58.603 39.130 8.66 0.00 0.00 1.40
3878 4635 3.225104 TCCAGCTGCTTCTCACAAAAAT 58.775 40.909 8.66 0.00 0.00 1.82
3879 4636 2.620115 CTCCAGCTGCTTCTCACAAAAA 59.380 45.455 8.66 0.00 0.00 1.94
3880 4637 2.158769 TCTCCAGCTGCTTCTCACAAAA 60.159 45.455 8.66 0.00 0.00 2.44
3881 4638 1.417517 TCTCCAGCTGCTTCTCACAAA 59.582 47.619 8.66 0.00 0.00 2.83
3882 4639 1.051008 TCTCCAGCTGCTTCTCACAA 58.949 50.000 8.66 0.00 0.00 3.33
3883 4640 1.051008 TTCTCCAGCTGCTTCTCACA 58.949 50.000 8.66 0.00 0.00 3.58
3884 4641 2.399916 ATTCTCCAGCTGCTTCTCAC 57.600 50.000 8.66 0.00 0.00 3.51
3885 4642 3.430042 AAATTCTCCAGCTGCTTCTCA 57.570 42.857 8.66 0.00 0.00 3.27
3886 4643 4.780275 AAAAATTCTCCAGCTGCTTCTC 57.220 40.909 8.66 0.00 0.00 2.87
3908 4665 9.771534 CCTTGTTGAAATTTACCATTTAGGAAA 57.228 29.630 0.00 0.00 41.22 3.13
3909 4666 8.371699 CCCTTGTTGAAATTTACCATTTAGGAA 58.628 33.333 0.00 0.00 41.22 3.36
3910 4667 7.038658 CCCCTTGTTGAAATTTACCATTTAGGA 60.039 37.037 0.00 0.00 41.22 2.94
3911 4668 7.038658 TCCCCTTGTTGAAATTTACCATTTAGG 60.039 37.037 0.00 0.00 45.67 2.69
3912 4669 7.817478 GTCCCCTTGTTGAAATTTACCATTTAG 59.183 37.037 0.00 0.00 0.00 1.85
3913 4670 7.256368 GGTCCCCTTGTTGAAATTTACCATTTA 60.256 37.037 0.00 0.00 0.00 1.40
3914 4671 6.465178 GGTCCCCTTGTTGAAATTTACCATTT 60.465 38.462 0.00 0.00 0.00 2.32
3915 4672 5.012664 GGTCCCCTTGTTGAAATTTACCATT 59.987 40.000 0.00 0.00 0.00 3.16
3916 4673 4.530553 GGTCCCCTTGTTGAAATTTACCAT 59.469 41.667 0.00 0.00 0.00 3.55
3917 4674 3.898741 GGTCCCCTTGTTGAAATTTACCA 59.101 43.478 0.00 0.00 0.00 3.25
3918 4675 3.898741 TGGTCCCCTTGTTGAAATTTACC 59.101 43.478 0.00 0.00 0.00 2.85
3919 4676 5.738619 ATGGTCCCCTTGTTGAAATTTAC 57.261 39.130 0.00 0.00 0.00 2.01
3920 4677 8.442660 AAATATGGTCCCCTTGTTGAAATTTA 57.557 30.769 0.00 0.00 0.00 1.40
3921 4678 6.950860 AATATGGTCCCCTTGTTGAAATTT 57.049 33.333 0.00 0.00 0.00 1.82
3922 4679 6.950860 AAATATGGTCCCCTTGTTGAAATT 57.049 33.333 0.00 0.00 0.00 1.82
3923 4680 7.290014 GGATAAATATGGTCCCCTTGTTGAAAT 59.710 37.037 0.00 0.00 0.00 2.17
3924 4681 6.609616 GGATAAATATGGTCCCCTTGTTGAAA 59.390 38.462 0.00 0.00 0.00 2.69
3925 4682 6.133356 GGATAAATATGGTCCCCTTGTTGAA 58.867 40.000 0.00 0.00 0.00 2.69
3926 4683 5.194740 TGGATAAATATGGTCCCCTTGTTGA 59.805 40.000 0.00 0.00 0.00 3.18
3927 4684 5.454062 TGGATAAATATGGTCCCCTTGTTG 58.546 41.667 0.00 0.00 0.00 3.33
3928 4685 5.742562 TGGATAAATATGGTCCCCTTGTT 57.257 39.130 0.00 0.00 0.00 2.83
3929 4686 5.948481 ATGGATAAATATGGTCCCCTTGT 57.052 39.130 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.