Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NZ_CP009273 | 4,036,390 | 0 | A | G | 48.6% | 36.0 / 14.8 | 37 | N206D (AAT→GAT) | srkA | stress response kinase SrkA |
Reads supporting (aligned to +/- strand): ref base A (7/12); new base G (18/0); total (25/12) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 3.72e-05 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Rejected as consensus: Frequency below/above cutoff threshold. |
CGTTATTTAGGGCGTATGCACCAGACGGGGCGCAAACAGCTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTGGCTAATGCGGCGTTGGGCTGATCCC > NZ_CP009273/4036153‑4036638 | cGTTATTTAGGGCGTATGCACCAGACGGGGCGCAAACAGCTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAAATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGCTCTGCGGCGACATGGAGACTGCCACGCCGGGGATATTTTCTGgc > 2:256329/1‑250 (MQ=255) gTTATTTAGGGCGTATGCACCAGACGGGGCGCAAACAGCTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGGTCTGCGGCCACATGGAGACTGCCACCCCGGGGATATTTTCTgggg > 1:601757/1‑248 (MQ=255) tttAGGGCGTATGCACCAGACGGGGCGCAAACAGCTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGGTCTGCGGCCACCTGGAGACTGCCACGCCGGGGATATTCTCTGGcgcggt > 1:531372/1‑248 (MQ=255) tATGCACCAGACGGGGCGCAAACAGCTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTTCCGTTCTGCGGCTACATGGAGACTGCCACGCCCGGGATATTTTCTGGCGCGGTGGTCCCAtg > 1:110134/1‑250 (MQ=255) ggCGCAAACAGCTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTCACCGTTTTGCGGCTACATGGGGACTGCCCCGCCGGGGATAATTTCTGGCGCGGTGGTTCCAAGTTTGTTGTTCTggg > 1:253261/1‑249 (MQ=255) cTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTa < 2:635806/250‑1 (MQ=255) aCCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTTACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGGATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAgg > 1:197746/1‑250 (MQ=255) aTCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGGAGAATTCACCCTTCTGCGGCTTCATGGAGAACGCCACGCCGGGGATATTTCTTGGCGCGGTGGTTCCATGTTTGTTGATTTGGGGGATTCACGGAAATGGCCCGCCGGTCAGGGtt > 2:278937/1‑250 (MQ=255) tGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTTTGCGGCTACATGGGGACCGCCCCGCCGGGGAAATTTTCTGGCGCGGTGGGCCAATGTTTTTTGGTCTGGGTGATGCCCGTCATGGGCCCGCCGGTCAGGATTTGTgggt > 2:396736/1‑248 (MQ=255) tGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTTTGCGGCCACAAGGAGACTGCCACGCCGGGGAAATTTTCTTGCGCGATGGGCCAATGGTTGTTGGTCTTGATGATGGACGGAATGGTTCAGCCGGTCAGGATTTGTgggt > 1:364975/1‑248 (MQ=255) aaCGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAGTTCACCGTTTTGCGGCTACATGGAGACCGCCACGCCGGGGATATTCTCTGGGGCGGTGGGCCCAAGTTTGTTGATCTGGATGATGTACGTAATGGTCCAGCCGATCAGGGTTTTTGGgtgt > 2:233913/1‑250 (MQ=255) aaTATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGGATATTTTCTGGCGCGATGGGTCAATGTTTGTTGTTCTGGGTGATGCACGTAATGGTCCAGCCGGTCAGGGTTTGTGGGTGTTGCt > 1:480633/1‑250 (MQ=255) tatCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGGTCTGCGGCTACATGGAGACTGCCACGCCGGGGATATTCTCTGGCGCGATGGTCCAATGTTTGTTGTTCTGGGTGATGCACGTAATGGTCCAGCCGTTCTGGATTTGTGGGGGTTGCTc > 1:618752/1‑249 (MQ=255) ttGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTTCGGCTACATGGGGACTGCCACGCCGGGGATATTCTCTGGCGCGGTGGTCCAATGGTTGTTGGTCTTGATGATGCCCGGAATGGTCCAGCCGTTCCGGGTTTTTGGGTGTTTCTCCATGG‑Cgg > 1:208067/1‑249 (MQ=255) gggCCACGCAAGCTGTTTGAGACCGCTCCCCTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTTAATGG‑CGAt < 2:399986/247‑1 (MQ=255) aGCCACGAAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATaa < 1:51801/250‑1 (MQ=255) ccACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTCTGCGGCTACATGGAGACTGCCACCCCGGGGATATTTTCTGGGGCGATGGTCCCATGTTTTTTGATCTGGATGATGCACGTAATGGGCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAg > 1:159391/1‑250 (MQ=255) tttGAGGACGCTACACTGATCCCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAAATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCg < 1:256329/248‑1 (MQ=255) tGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAGTTTAACGCTCTGCGGCCCCATGGAGACTGCCCCGCCGGGGAAAATTTCTTGCGCGATGGGCCCATGTTTGTTTAGCTGGGTGGAGGACGTAATGGTCTAGCCCCTCAGGGTTTGGTGGTGTTTCTCCATGGTCGAAAAAGCCgtcaacggatg > 2:510504/1‑240 (MQ=255) ggACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGGAGATTTCACCGTTCTGCGGCCACATGGAGACTGCCCCGCCGGGGATATTCTCTTGCGCGCTGGTCCAATGTTTGTTTGTCTGGGTGATGGACGTAATGGGCCAGCCCGTCCGGATTTGTGGATGTTGGTCAATGG‑GGGTAAAGCCGAGCCGCGGGTGCa > 2:144055/1‑249 (MQ=255) cacTGATCCCTCCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGAGGAGCTGTTTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAAc < 2:531372/250‑1 (MQ=255) acTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGGATATTCTCTGGCGCGGTGGTCCAATGTTTGTTGTTCTGGATGATGCACGTAATGGTCTAGCCGTTCAGGGTTTGTGGGTGTTGCTCAATGG‑CGGTAAAGACGGGCCGCGGAGTCAAGTGGGAAc > 2:135947/1‑249 (MQ=255) cATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGGATATTTTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGGCCAGCCGTTCAGGATTTGTGGGTGTTGCTCAATGG‑CGATAAAACCGAGCAGCGGGTGCAACTGGAAAATATTATTGAAGGTTATGAAGAAATTAg > 1:115104/1‑250 (MQ=255) aTTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGc < 1:210571/250‑1 (MQ=255) aTTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGc < 2:625260/250‑1 (MQ=255) aCAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTCTGCGGCTCCATGGGGACCGCCACGCCGGGAATATTCTCTGGCGCGGTGGTCCAATGGTTGTTTATCTGGGTGATGCACGGAATGGGCCAGCCGGTCAGGATTTTTGGGTGTTGGTCCATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGGATTTAGCGCGTTCGACACCg > 2:169109/1‑250 (MQ=255) cgTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGaa < 1:144055/250‑1 (MQ=255) gCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCAt < 1:533180/249‑1 (MQ=255) cACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTttat > 1:104877/1‑250 (MQ=255) ccGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTttatta < 2:257905/250‑1 (MQ=255) cGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTtattat > 1:105076/1‑250 (MQ=255) ggCTACATGGGGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTg < 2:316641/250‑1 (MQ=255) gCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTgg > 1:493426/1‑250 (MQ=255) aTGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTGGCTAAt > 1:509226/1‑250 (MQ=255) tGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTGGCTAATg > 2:520129/1‑250 (MQ=255) aCGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTGGCTAATGCGGCGTTGGGc > 2:559985/1‑250 (MQ=255) gAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCTAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTGGCTAATGCGGCGTTGGGCTGATccc < 1:135947/250‑1 (MQ=255) | CGTTATTTAGGGCGTATGCACCAGACGGGGCGCAAACAGCTTTTTATCCATCGCCCGACCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGG‑CGATAAAGCCGAGCAGCGGATGCAACTGGAAACTATTATTGAAGCTTATGAAGAATTTAGCGAGTTCGACACCGCTGAAATCGGACTGATTGAACCTTTACGCGCCATGCGTTTGGTTTATTATCTTGCCTGGCTAATGCGGCGTTGGGCTGATCCC > NZ_CP009273/4036153‑4036638 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |