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
A2 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,210,944	G→A	pseudogene (1845/2001 nt)	yehQ →	pseudogene

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,210,944	0	G	A	100.0%	103.0 / NA	33	pseudogene (1845/2001 nt)	yehQ	pseudogene
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/15); total (18/15)

ACCTTCTGCCAGCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAGTTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAAC  >  NC_000913/2210815‑2211068

aCCTTCTGCCAGCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCg                                                                                                                     >  1:688277/1‑139 (MQ=255)

      tGCCAGCGGTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGAc                                                                                                               <  2:511544/139‑1 (MQ=255)

           gCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGTGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCAc                                                                                                          >  2:199286/1‑139 (MQ=255)

            cGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCAcc                                                                                                         >  2:460145/1‑139 (MQ=255)

                 tGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGt                                                                                                    <  1:460145/139‑1 (MQ=255)

                                 tGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGAGGGCTTTTATCGGCTg                                                                                    >  2:70820/1‑139 (MQ=255)

                                   cTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGc                                                                                  >  2:292339/1‑139 (MQ=255)

                                      atcaGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGcaca                                                                               <  2:688277/139‑1 (MQ=255)

                                             gCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTg                                                                        >  2:809797/1‑139 (MQ=255)

                                                gATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGa                                                                     <  2:416240/139‑1 (MQ=255)

                                                                   cTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGt                                                            >  1:585181/1‑129 (MQ=255)

                                                                   cTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGt                                                            <  2:585181/129‑1 (MQ=255)

                                                                          aaCTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCAGTGGGTTTTTATCGGCTGGTACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGc                                           <  2:553987/139‑1 (MQ=255)

                                                                            cTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCAc                                         >  1:3514/1‑139 (MQ=255)

                                                                             ttcTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTCTTGGAACAATTTCGTAATACAGAAAGCGAGGCACg                                        <  2:207655/137‑1 (MQ=255)

                                                                              gCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGcaca                                                                               <  2:780597/99‑1 (MQ=255)

                                                                              gCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGcaca                                                                               >  1:780597/1‑99 (MQ=255)

                                                                               cTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCgg                                                                                                     <  2:819226/76‑1 (MQ=255)

                                                                               cTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCgg                                                                                                     >  1:819226/1‑76 (MQ=255)

                                                                               cTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACg                                        >  1:640573/1‑137 (MQ=255)

                                                                               cTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACg                                        <  2:640573/137‑1 (MQ=255)

                                                                                    tAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGt                                                            <  1:793815/112‑1 (MQ=255)

                                                                                    tAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGt                                                            >  2:793815/1‑112 (MQ=255)

                                                                                          cTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATg                           >  2:36769/1‑139 (MQ=255)

                                                                                            ggCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGaa                         >  2:121172/1‑139 (MQ=255)

                                                                                                           agagTGCTATTGGTCAGGCATAATTGCTGGCGAACCACCTCACCGCGGTGGGTTTTTATCGGCAGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGTGAGGCACGGGTAGAAGCAATGAATAACGGTGTtttgct          >  2:57477/1‑139 (MQ=255)

                                                                                                               tGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGc                                                >  1:135576/1‑97 (MQ=255)

                                                                                                               tGCTATTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGc                                                <  2:135576/97‑1 (MQ=255)

                                                                                                                   aTTGGTCAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAAc  <  1:809797/139‑1 (MQ=255)

                                                                                                                         cAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGaa   >  2:35151/1‑132 (MQ=255)

                                                                                                                         cAGGCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGaa   <  1:35151/132‑1 (MQ=255)

                                                                                                                            gCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAAc  <  2:559262/130‑1 (MQ=255)

                                                                                                                            gCATAATTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAAc  >  1:559262/1‑130 (MQ=255)

ACCTTCTGCCAGCGTTTTGCCTGTGCCGTCTACTGCTCATCAGTTGCTGATACGCTGCCAGGCGTTACTTATTCAACTGCTCCATAACGGCTGGCGCTATCAGGAACAGAGTGCTATTGGTCAGGCATAGTTGCTGGCGAATGACCTCACCGCGGTGGGTTTTTATCGGCTGGCACATGTGTTGGGACAATTTCGTAATACAGAAAGCGAGGCACGGGTAGAAGCAATGAATAACGGTGTTTTGCTTTGCGAAC  >  NC_000913/2210815‑2211068

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A