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
A11 F28 I1 R1	132	43.0	1464274	99.1%	1451095	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,002,129	A→G	Y108C (TAC→TGC)	elfG →	putative fimbrial‑like adhesin protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,002,129	0	A	G	100.0%	141.1 / NA	41	Y108C (TAC→TGC)	elfG	putative fimbrial‑like adhesin protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/20); total (21/20)

GTTAAAGACAAATTTTATCAGTGGAACGAATCGAATGATTATTATGTTTCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTACAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGT  >  NC_000913/1001993‑1002256

gTTAAAGACAAATTTTATCAGTGGAACGAATCGAATGATTATTATGTTTCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCaa                                                                                                                              >  1:357342/1‑140 (MQ=255)

     aGACAAATTTTATCAGTGGAACGAATCGAATGATTATTATGTTTCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTa                                                                                                                         >  1:529867/1‑140 (MQ=255)

                     tGGAACGAATCGAATGATTATTATGTTTCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTgccgc                                                                                                         >  1:391939/1‑140 (MQ=255)

                                              tttCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGc                                                                                <  2:529867/140‑1 (MQ=255)

                                              tttCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGc                                                                                <  2:391939/140‑1 (MQ=255)

                                               ttCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCa                                                                               >  1:676955/1‑140 (MQ=255)

                                                 ccTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGt                                                                             >  2:261587/1‑140 (MQ=255)

                                                   tgtgATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGc                                                                                           >  1:266843/1‑124 (MQ=255)

                                                   tgtgATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGc                                                                                           <  2:266843/124‑1 (MQ=255)

                                                   tgtgATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTtc                                                                           >  1:17399/1‑140 (MQ=255)

                                                   tgtgATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTtc                                                                           >  2:191633/1‑140 (MQ=255)

                                                   tgtgATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTtc                                                                           >  1:543422/1‑140 (MQ=255)

                                                   tgtgATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTtc                                                                           >  1:564097/1‑140 (MQ=255)

                                                      gATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTcc                                                                        >  2:216787/1‑140 (MQ=255)

                                                      gATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTcc                                                                        <  2:564097/140‑1 (MQ=255)

                                                          gCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACt                                                                    <  2:17399/140‑1 (MQ=255)

                                                           cGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAg                                                                              >  1:520999/1‑129 (MQ=255)

                                                           cGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAg                                                                              <  2:520999/129‑1 (MQ=255)

                                                           cGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTg                                                                   >  2:357748/1‑140 (MQ=255)

                                                                            gAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGATGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAAc                                                  >  2:727818/1‑140 (MQ=255)

                                                                              aGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGt                                                <  2:226166/140‑1 (MQ=255)

                                                                               gTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTg                                               <  1:261587/140‑1 (MQ=255)

                                                                                  gCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGc                                            >  2:135812/1‑140 (MQ=255)

                                                                                  gCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGc                                            >  1:343931/1‑140 (MQ=255)

                                                                                  gCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGc                                            >  1:34626/1‑140 (MQ=255)

                                                                                   ccGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGca                                           >  1:579290/1‑140 (MQ=255)

                                                                                      aTGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAg                                        <  1:338509/140‑1 (MQ=255)

                                                                                       tGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAgg                                       <  2:711095/140‑1 (MQ=255)

                                                                                       tGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAgg                                       <  2:343931/140‑1 (MQ=255)

                                                                                                    cgGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGa                          <  1:216787/140‑1 (MQ=255)

                                                                                                    cgGATTCACCGTTAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGa                          <  2:543422/140‑1 (MQ=255)

                                                                                                                tAGTCTATTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCAGATGGCATATTTGc              <  2:34626/140‑1 (MQ=255)

                                                                                                                      aTTTAGGCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCt        <  2:357342/140‑1 (MQ=255)

                                                                                                                            gCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  <  1:357748/140‑1 (MQ=255)

                                                                                                                            gCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  <  2:676955/140‑1 (MQ=255)

                                                                                                                            gCGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  >  1:627074/1‑140 (MQ=255)

                                                                                                                            gCGACAACTGATGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  <  1:727818/140‑1 (MQ=255)

                                                                                                                             cGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  >  2:251654/1‑139 (MQ=255)

                                                                                                                             cGACAACTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  <  1:251654/139‑1 (MQ=255)

                                                                                                                                 aaCTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  >  1:575780/1‑135 (MQ=255)

                                                                                                                                 aaCTGGTGCAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGt  <  2:575780/135‑1 (MQ=255)

GTTAAAGACAAATTTTATCAGTGGAACGAATCGAATGATTATTATGTTTCCTGTGATTGCGATAAAGACAATGTCAGAAGTGGCCGATGGGCATTCGCCGCGGATTCACCGTTAGTCTATTTAGGCGACAACTGGTACAAAATTAATGACTATCTTGCCGCCAAAGTTTTATTGCAGGTTAAAGGCAGTTCTCCTACTGCGGTTCCTTTCGAAAACGTGGGCACAGGGGGGGATACCCGATGGCATATTTGCGACCCTGGCGGT  >  NC_000913/1001993‑1002256

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A