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 I1 R1	77	35.1	1569012	96.6%	1515665	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,311,756	A→G	S332P (TCC→CCC)	ompC ←	outer membrane porin protein C

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,311,756	0	A	G	100.0%	117.8 / NA	32	S332P (TCC→CCC)	ompC	outer membrane porin protein C
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/16); total (16/16)

TTTGTTCGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACT  >  NC_000913/2311625‑2311890

tttGTTCGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGttt                                                                                                                                 >  1:102452/1‑139 (MQ=255)

      cGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgttg                                                                                                                           >  1:422337/1‑139 (MQ=255)

              aTCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAgtagta                                                                                                                   >  1:277156/1‑139 (MQ=255)

                       aGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCAcc                                                                                                          <  2:109846/139‑1 (MQ=255)

                         aaCTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaa                                                                                                        >  2:312641/1‑139 (MQ=255)

                              gTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatca                                                                                                   >  1:292740/1‑139 (MQ=255)

                                    cAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTATGTTGAAGTAGTAGGTAGCACCAACATCAACatat                                                                                             <  1:188100/139‑1 (MQ=255)

                                       aCCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTc                                                                                          <  2:422337/139‑1 (MQ=255)

                                        cccAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCa                                                                                         >  2:614356/1‑139 (MQ=255)

                                                 aCGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAgg                                                                                       <  2:704037/132‑1 (MQ=255)

                                                 aCGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAgg                                                                                       >  1:704037/1‑132 (MQ=255)

                                                  cGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGCTGTCGTCCAGCAGGTTGATTTAGTAGTCAACGTAGGTGGGCATGTTTTTGTTGGAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtc                                                                               >  2:509316/1‑139 (MQ=255)

                                                   gATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcg                                                                              <  2:325218/139‑1 (MQ=255)

                                                           cAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcgtc                                                                         <  2:70254/136‑1 (MQ=255)

                                                           cAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcgtc                                                                         >  1:70254/1‑136 (MQ=255)

                                                             gtgtTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGc                                                                    >  1:169943/1‑139 (MQ=255)

                                                                ttGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCAc                                                                 <  1:548200/139‑1 (MQ=255)

                                                                ttGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCAc                                                                 <  1:312641/139‑1 (MQ=255)

                                                                  gATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAagta                                                                                                                      >  2:189818/1‑84 (MQ=255)

                                                                  gATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAagta                                                                                                                      <  1:189818/84‑1 (MQ=255)

                                                                   aTGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGAc                                                              >  2:214136/1‑139 (MQ=255)

                                                                   aTGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGAc                                                              >  2:509776/1‑139 (MQ=255)

                                                                               cGAGTGAACTGGCTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCACGTTTTTAc                                                  <  1:509316/139‑1 (MQ=255)

                                                                                 aGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCt                                                <  2:292740/139‑1 (MQ=255)

                                                                                       cTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGAc                                          <  2:102452/139‑1 (MQ=255)

                                                                                             gtcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaaca                                                                                                <  1:602795/79‑1 (MQ=255)

                                                                                             gtcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaaca                                                                                                >  2:602795/1‑79 (MQ=255)

                                                                                               cgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaa                                                                                                        <  2:398043/69‑1 (MQ=255)

                                                                                               cgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaa                                                                                                        >  1:398043/1‑69 (MQ=255)

                                                                                                                         aCGTAGGTGGGTATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGt        <  2:277156/139‑1 (MQ=255)

                                                                                                                              ggTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAAc   <  1:214136/139‑1 (MQ=255)

                                                                                                                               gTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACt  >  1:363507/1‑139 (MQ=255)

TTTGTTCGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACT  >  NC_000913/2311625‑2311890

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `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