Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,961,562	C→T	H296Y (CAC→TAC)	rep →	DNA helicase and single‑stranded DNA‑dependent ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,961,562	0	C	T	100.0%	106.5 / NA	34	H296Y (CAC→TAC)	rep	DNA helicase and single‑stranded DNA‑dependent ATPase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/18); total (16/18)

GCGCGGTGCACGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGCACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGCTGAGCGCGTTACTGGCGAGCTGATCGCCCATCACTTCGTCAATAAAACG  >  NC_000913/3961426‑3961696

gcgcGGTGCACGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTAc                                                                                                                                      >  2:831686/1‑139 (MQ=255)

gcgcGGTGCACGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTAc                                                                                                                                      >  2:280205/1‑139 (MQ=255)

gcgcGGTGCACGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTAc                                                                                                                                      >  2:178988/1‑139 (MQ=255)

gcgcGGTGCACGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAAATATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTAc                                                                                                                                      >  1:11833/1‑139 (MQ=255)

 cgcgGTGCACGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACg                                                                                                                                     <  1:1017902/139‑1 (MQ=255)

          cGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGCTTAAGCTTGAGCAGAACTATCGCGCTTCCGGGCGTATTCAGAAAGCGGCGTACATCCTGATCGCCAATAACCCGTACGTCTTTGaaa                                                                                                                            <  1:707310/139‑1 (MQ=255)

          cGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGaaa                                                                                                                            <  1:831686/139‑1 (MQ=255)

                     ccTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTtc                                                                                                                 >  1:829758/1‑139 (MQ=255)

                        ggTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTTTCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTcc                                                                                                              >  2:757863/1‑139 (MQ=255)

                                    tCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTAt                                                                                                  >  1:961892/1‑139 (MQ=255)

                                        gATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGgcg                                                                                              <  1:686501/139‑1 (MQ=255)

                                              ccGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGc                                                                                        <  1:280205/139‑1 (MQ=255)

                                                 gcgcTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTaa                                                                                     <  1:398415/139‑1 (MQ=255)

                                                                    ttGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATaa                                                                  <  1:178988/139‑1 (MQ=255)

                                                                       aGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGaa                                                                                                           >  1:450269/1‑95 (MQ=255)

                                                                       aGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGaa                                                                                                           <  2:450269/95‑1 (MQ=255)

                                                                       aGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGgcgc                                                                                             >  2:921372/1‑109 (MQ=255)

                                                                       aGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGgcgc                                                                                             <  1:921372/109‑1 (MQ=255)

                                                                        gCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACgaa                                                              <  2:120770/139‑1 (MQ=255)

                                                                               tATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATg                                                       <  1:906844/139‑1 (MQ=255)

                                                                                 tCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCt                                                                                                                     <  1:412290/75‑1 (MQ=255)

                                                                                 tCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCt                                                                                                                     >  2:412290/1‑75 (MQ=255)

                                                                                 tCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAg                                                     >  2:569299/1‑139 (MQ=255)

                                                                                       ttCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGCTGAg                                               <  2:829758/139‑1 (MQ=255)

                                                                                           gggCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGaaa                                                                                                                            >  2:196445/1‑58 (MQ=255)

                                                                                           gggCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGaaa                                                                                                                            <  1:196445/58‑1 (MQ=255)

                                                                                           gggCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGCTGAGcgcg                                           >  1:253330/1‑139 (MQ=255)

                                                                                                 aTTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGc                                                   <  2:68973/125‑1 (MQ=255)

                                                                                                 aTTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGc                                                   >  1:68973/1‑125 (MQ=255)

                                                                                                       aaaGCGGCGAACATCCTGATCGCCAATAACCCGTACg                                                                                                                                     <  1:979623/37‑1 (MQ=255)

                                                                                                       aaaGCGGCGAACATCCTGATCGCCAATAACCCGTACg                                                                                                                                     >  2:979623/1‑37 (MQ=255)

                                                                                                            ggcgAACATCCTGATCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGCTGAGCGCGTTACTGGCGAGCTGATc                          >  2:668622/1‑139 (MQ=255)

                                                                                                                          tCGCCAATAACCCGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGCTGAGCGCGTTACTGGCGAGCTGATCGCCCATCACTTCGt            <  1:757863/139‑1 (MQ=255)

                                                                                                                                    cccGTACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGCTGAGCGCGTTACTGGCGAGCTGATCGCCCATCACTTCGTCAATAAAACg  <  2:11833/139‑1 (MQ=255)

GCGCGGTGCACGTCCGCAAAACCTGGTGCTGCTGAGTCAGGATTTTCCGGCGCTGAAGGTGATTAAGCTTGAGCAGAACTATCGCTCTTCCGGGCGTATTCTGAAAGCGGCGAACATCCTGATCGCCAATAACCCGCACGTCTTTGAAAAGCGTCTGTTCTCCGAACTGGGTTATGGCGCGGAGCTAAAAGTATTAAGCGCGAATAACGAAGAACATGAGGCTGAGCGCGTTACTGGCGAGCTGATCGCCCATCACTTCGTCAATAAAACG  >  NC_000913/3961426‑3961696

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A