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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,187,415	G→A	302 (TAG→TAA)	insD1 →	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,187,415	0	G	A	100.0%	93.4 / NA	31	302 (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/14); total (17/14)

GCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGC  >  NC_000913/3187290‑3187549

gCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGt                                                                                                                           <  2:750451/139‑1 (MQ=11)

    agGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                       <  1:456107/139‑1 (MQ=18)

      tcGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAAGAGATGTCTGGGAATATAAGGGCAAATCCAGTTatcat                                                                                                                     >  1:512122/2‑139 (MQ=255)

                           tGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTa                                                                                                >  2:622746/1‑139 (MQ=255)

                            ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTAt                                                                                               >  2:358994/1‑139 (MQ=255)

                              cATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATga                                                                                             >  1:191582/1‑138 (MQ=255)

                                     aTAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGaa                                                                                      <  1:622746/139‑1 (MQ=255)

                                          gcgcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTcaa                                                                                 >  1:488248/1‑139 (MQ=255)

                                                ggTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGa                                                                           >  2:542499/1‑139 (MQ=255)

                                                   tATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATg                                                                                              <  1:444967/117‑1 (MQ=255)

                                                   tATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATg                                                                                              >  2:444967/1‑117 (MQ=255)

                                                      cgctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAAt                                                                     <  2:488248/139‑1 (MQ=255)

                                                        ctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCg                                                                   <  1:358994/139‑1 (MQ=255)

                                                        ctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCg                                                                   <  1:277840/139‑1 (MQ=255)

                                                          cgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGaa                                                                 >  2:230418/1‑139 (MQ=255)

                                                               cGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGa                                                            <  2:211029/139‑1 (MQ=255)

                                                                       tCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTg                                                    >  1:281425/1‑139 (MQ=255)

                                                                          gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGaaa                                                 >  2:464304/1‑139 (MQ=255)

                                                                             gCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACg                                              >  1:180616/1‑139 (MQ=255)

                                                                              cAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGt                                             <  2:549928/139‑1 (MQ=255)

                                                                                          aaTGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCa                                 <  1:542499/139‑1 (MQ=255)

                                                                                             gggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCg                                                                                                        >  2:51265/1‑65 (MQ=255)

                                                                                             gggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCg                                                                                                        <  1:51265/65‑1 (MQ=255)

                                                                                                ttAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTGGa                           <  1:417233/139‑1 (MQ=255)

                                                                                                        tAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATg                   >  2:644526/1‑139 (MQ=255)

                                                                                                             gATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCaa              >  2:677245/1‑139 (MQ=255)

                                                                                                              aTGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAAt             >  1:225979/1‑139 (MQ=255)

                                                                                                                 tCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTAc          >  2:267810/1‑139 (MQ=255)

                                                                                                                   tGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTAccc        >  2:750216/1‑139 (MQ=255)

                                                                                                                    ggAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCg       <  1:604460/139‑1 (MQ=255)

                                                                                                                         tataAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGc  <  1:72262/139‑1 (MQ=255)

GCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGC  >  NC_000913/3187290‑3187549

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A