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
A21 F59 I1 R1	23	54.9	2144786	90.8%	1947465	141.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	449,135	C→A	V503L (GTA→TTA)	cyoB ←	cytochrome bo3 ubiquinol oxidase subunit 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	449,135	0	C	A	97.6%	115.9 / NA	42	V503L (GTA→TTA)	cyoB	cytochrome bo3 ubiquinol oxidase subunit 1
Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (22/19); total (23/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGAAGAAGCCGATGATCCAGAACCAGAAC  >  NC_000913/449000‑449274

gAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCg                                                                                                                                      >  1:939784/1‑143 (MQ=255)

  ggCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCgct                                                                                                                                    <  1:716089/143‑1 (MQ=255)

     ggggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGCGAATACCCAGCGCCATCAGTAATGCCCCgctggc                                                                                                                                 >  1:116331/1‑143 (MQ=255)

       ggAAGAGGTGGCCCTCTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATCGAAACGTACATCTGAATACCGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCgctggctg                                                                                                                               <  2:677096/143‑1 (MQ=255)

        gAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGTCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGc                                                                                                                              >  2:766592/1‑143 (MQ=255)

                   ccACTCCGGCGTACGGCCACCCCACGGGTCGGCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCa                                                                                                                   <  2:604576/143‑1 (MQ=255)

                   ccACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCa                                                                                                                   >  1:53198/1‑143 (MQ=255)

                             gTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGACTAACGAGGCAGAGAATACCCAGCGCAGTCAGTAATGCACCGCTGGCGGCAAGCCTCAGCATGGtgtgtag                                                                                                         >  1:966155/1‑140 (MQ=255)

                              tACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAAc                                                                                                        <  1:220458/143‑1 (MQ=255)

                              tACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAACACGAACTGCATCGCGGGCTGCAATCATCAGCATGGTGTGGAAc                                                                                                        >  1:1008180/1‑143 (MQ=255)

                               aCGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACt                                                                                                       >  2:711542/1‑143 (MQ=255)

                                         cACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATAAGAATAAGGAGGGAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGGACGTCGGGTCGAt                                                                                             >  1:246324/1‑143 (MQ=255)

                                          aCGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATc                                                                                            >  1:22955/1‑143 (MQ=255)

                                             ggTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATctgc                                                                                         <  1:345233/143‑1 (MQ=255)

                                                caccagccagCACACGGTTCTGGTAGCGGTCGCGAATAGAACCGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTgg                                                                                      <  1:789763/141‑1 (MQ=255)

                                                cGCCGGTCAGGTCCCGGTTACCGGCGCGGTCGCGAATAGAAACGTACAGCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTgg                                                                                      <  2:692122/143‑1 (MQ=255)

                                                  ccAGTCCGGTGACGGTTCTGGTCGCGGTCGCGAATACAACCGTCAACCTGAATAGCGAGGCAGGGAATACCCGGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCt                                                                                    <  2:271131/143‑1 (MQ=255)

                                                                gTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAACCATCAGCATGGTGTGGGACTGCGGGACGATCTGCTGGCTCAACACACGGGTCa                                                                      >  2:888231/1‑143 (MQ=255)

                                                                gTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGAACCGCTGGCTGCAATCATCAGCATGGTGTGGAACCGCGGGTCAATCTGTTGGAGCAAACGACGGGTCa                                                                      >  2:919042/1‑143 (MQ=255)

                                                                          cggtcgcgAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGaa                                                            <  1:298065/143‑1 (MQ=255)

                                                                          cggcggcgAACAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGaa                                                            <  2:189141/138‑1 (MQ=255)

                                                                               gcgAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCa                                                       <  1:711542/143‑1 (MQ=255)

                                                                               gcgAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACCGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCa                                                       >  2:432980/1‑143 (MQ=255)

                                                                                 gAATAGAAACGTACATCTGAATAACGAGGGAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATTATCAGCATGGTGTGGAACTGCGGGTCAATATGCTCGCTCAAACGACGGGACACGCCCGTGAAcccacgc                                                     >  2:915192/1‑139 (MQ=255)

                                                                                 gAATAGAAACGTACAACTGCATAGCGAGGCAGAGAATACCGAGCGCAAGCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGCGTGGAACTGCGGGTGAATCTACTGGCTCAGACGAAAGGCGAACCCCATGAAGccaaca                                                     >  2:132516/1‑139 (MQ=255)

                                                                                    tAGAAACGTACAGCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCa                                                  <  1:223838/143‑1 (MQ=255)

                                                                                      gAAGCGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATa                                                <  1:315920/143‑1 (MQ=255)

                                                                                       aaaCGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATAc                                               >  1:1032860/1‑143 (MQ=255)

                                                                                            tACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTgg                                          <  1:473651/143‑1 (MQ=255)

                                                                                               aTCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTCGCAt                                       >  1:679597/1‑143 (MQ=255)

                                                                                                  tGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATaaa                                    >  1:875423/1‑143 (MQ=255)

                                                                                                    aaTAACGAGGCAGAGAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAgg                                  >  1:335986/1‑143 (MQ=255)

                                                                                                              cAGGGAGTACCCAGCGCAGTCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAAGGACGGGTCATGCCCATGAAGCGCAGCGCATACAGTGGCATAAAGGCAACgaagaa                        <  2:825913/143‑1 (MQ=255)

                                                                                                               agagAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGaaggag                       >  1:102352/1‑143 (MQ=255)

                                                                                                               agagAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGaagaag                       >  1:124736/1‑143 (MQ=255)

                                                                                                               agagAATACCCAGCGCAATCAGTAATGCACCGCTGGCTGCAAGCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGCCCCCAACCACGGGTCTTGCCCAGGAAGCCCAGCGAATACCGTCGCGTAAAGGCAACGgaggag                       >  2:372025/1‑143 (MQ=255)

                                                                                                                     tgcccAGCTCCACCAGTAATGCTCCGCTCGCTGCAATCATCACCATGGTGTGGCACTGCGGCTCTATCTGCCTCCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGAAGACGCCgatg                 <  2:864775/141‑1 (MQ=255)

                                                                                                                      aCCCAGCGCAATCAGCAATGCACCGCTGGCTGCAATCATCAGCATGGCGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGAAGAAGCCgatga                <  1:569524/143‑1 (MQ=255)

                                                                                                                        ccggcgcAATCAGTAAGGGCCCGGTGGCTGCAATCAGCAGCATGGTGTGGAACGGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGGGGCATAAAGGCAACGAAGAAGCCGATGATc              <  2:894574/140‑1 (MQ=255)

                                                                                                                        ccAGCGCAATCAGTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACAGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATACACAAGAAGCACAGCGCACACAGTGGCATAAAGGCAACGACGACGCCGATGATc              >  2:668239/1‑143 (MQ=255)

                                                                                                                        ccAGCGCAATCAGGAATGCTCCGCTGGCTGCAATCATCAGCATGGTGCGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGAAGAAGCCGATGATc              <  2:484275/143‑1 (MQ=255)

                                                                                                                                    gTAATGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGAAGAAGCCGATGATcgagaaccccaac  >  2:847375/1‑138 (MQ=255)

GAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCTGGCTGCAATCATCAGCATGGTGTGGAACTGCGGGTCAATCTGCTGGCTCAAACGACGGGTCATGCCCATGAAGCCCAGCGCATACAGTGGCATAAAGGCAACGAAGAAGCCGATGATCCAGAACCAGAAC  >  NC_000913/449000‑449274

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A