| New junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 2314120 = | 88 (1.020) | 3 (0.040) | 3/280 | 7.6 | 3.5% | coding (1150/1194 nt) | ndhE | NAD(P)H‑quinone oxidoreductase subunit 4L, chloroplastic |
| ? | USA300TCH1516_ALE | 2314139 = | 82 (1.000) | coding (1131/1194 nt) | ndhE | NAD(P)H‑quinone oxidoreductase subunit 4L, chloroplastic | |||||
| Rejected: Coverage evenness skew score above cutoff. | |||||||||||
| Rejected: Frequency below/above cutoff threshold. | |||||||||||
TACTGAGTATTATTATGATGGATAGAGGTATGATTCCATTGGGAAGTCTATTAATGAGTATATGTGCAGATGTGTTTGGCATTGTTAGAACTTTTTCAATAATGGGAATAAGTACTATATGCATTACAATGGTATTCTATTTTATAAATAGAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < USA300TCH1516_ALE/2314272‑2314120‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaatagaaTACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTC > USA300TCH1516_ALE/2314139‑2314285 TACTGAGTATTATTATGATGGATAGAGGTATGATTCCATTGGGAAGTCTATTAATGAGTATATGTGCAGATGTGTTTGGCATTGTTAGAACTTTTTCAATAATGGGAATAAGTACTATATGCATTGCAATGGTATTCTATTTTATAAAT < 1:828097/149‑1TACTGAGTATTATTATGATGGATAGAGGTATGATTCCATAGGGAAGTCTATTAATGAGTATATGTGCAGATGTGTTTGGCATTGTTAGAACTTTTTCAATAATGGGAATAAGTACTATATGCATTACAATGGTATTCTATTTTATAAAT > 2:252558/1‑149 ACTGAGTATTATTATGATGGATAGAGGTATGATTCCATTGGGAAGTCTATTAATGAGTATATGTGCAGATGTGTTTGGCATTGTTAGAACTTTTTCAATAATGGGAATAAGTACTATATGCATTACAATGGTATTCTATTTTATAAATA > 2:137427/1‑149 CTGAGTATTATTAGGATGGAGAGAGGTATGATTCCATTGGGAAGTCTATTAATGAGTATATGTGCAGATGTGTTTGGCATTGTTAGAACTTTTTCAATAATGGGAATAAGTACTATATGCATTACAATGGTATTCTATTTTATAAATAG < 2:541116/149‑1 ATTAATGAGTATATGTGCAGATGTGTTTGGCATTGTTAGAACTTTTTCAATAATGGAAATAAGTACTATATGCATTACTATGGTATTCTATTTTATAAATAGAATACAATTGTAATGCATATAGTACTTATTACCATAATTGAcatagg > 1:432063/1‑143 atTTTTTCAAAAATGGGAATAATTACTATATGCATTACAATGGTATTCTATTTTATAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAAT < 2:432063/147‑1 TGGGAATAAGTACTATATGCATTACAATGGTATTCTATTTTATAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATG > 2:170887/1‑149 AATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCc > 1:451460/1‑148 ATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCAC > 1:841418/1‑149 ATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCAC > 2:909394/1‑149 AGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTACACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCTTCATAATAATACTCAGTACTTTACCACGT < 1:927394/149‑1 AATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTCCACAATGTATTCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTC < 1:640536/149‑1 TACTGAGTATTATTATGATGGATAGAGGTATGATTCCATTGGGAAGTCTATTAATGAGTATATGTGCAGATGTGTTTGGCATTGTTAGAACTTTTTCAATAATGGGAATAAGTACTATATGCATTACAATGGTATTCTATTTTATAAATAGAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < USA300TCH1516_ALE/2314272‑2314120‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaatagaaTACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTC > USA300TCH1516_ALE/2314139‑2314285 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
| Reads not counted as support for junction |
| read_name Not counted due to insufficient overlap past the breakpoint. |
| read_name Not counted due to not crossing MOB target site duplication. |