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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	919,010	A→G	S37S (AGT→AGC)	ybjX ←	DUF535 family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	919,010	0	A	G	100.0%	167.5 / NA	47	S37S (AGT→AGC)	ybjX	DUF535 family protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (23/24); total (23/24)

GAGATTAGGCCAGTGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGACTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCAAACATCAAT  >  NC_000913/918875‑919144

gagaTTAGGCCAGTGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTa                                                                                                                                     >  1:850449/1‑139 (MQ=255)

      aGGCCAGTGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGaaaa                                                                                                                               >  1:1014562/1‑139 (MQ=255)

      aGGCCAGTGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGaaaa                                                                                                                               >  1:247421/1‑139 (MQ=255)

             tGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCt                                                                                                                                      >  1:727107/1‑125 (MQ=255)

             tGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAg                                                                                                                                   <  1:968006/128‑1 (MQ=255)

             tGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAg                                                                                                                                   >  2:968006/1‑128 (MQ=255)

               ggAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAgg                                                                                                                      <  1:954821/139‑1 (MQ=255)

                       cgttcATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTgag                                                                                                              >  1:1172672/1‑139 (MQ=255)

                                      cGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGt                                                                                               >  1:1084644/1‑139 (MQ=255)

                                      cGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGt                                                                                               >  2:187740/1‑139 (MQ=255)

                                            aaCGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGt                                                                                         <  1:907512/139‑1 (MQ=255)

                                                             gAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCTGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGGGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCg                                                                        <  1:813631/139‑1 (MQ=255)

                                                             gAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCg                                                                        <  2:467068/139‑1 (MQ=255)

                                                                cgcAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACa                                                                     >  2:685118/1‑139 (MQ=255)

                                                                  cagcagAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACa                                                                                                                        >  1:838366/1‑86 (MQ=255)

                                                                  cagcaAAAATTTCTGGCGATAACTACGGCCATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAATAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTAGGTTAGCTGCGACata                                                                   >  2:813631/1‑139 (MQ=255)

                                                                  cagcaAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACa                                                                                                                        <  2:838366/86‑1 (MQ=255)

                                                                  cagcaAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACata                                                                   >  1:221996/1‑139 (MQ=255)

                                                                  cagcaAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACata                                                                   >  2:156427/1‑139 (MQ=255)

                                                                       aaaaTTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCAt                                                              <  2:1014562/139‑1 (MQ=255)

                                                                        aaaTTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATg                                                             <  2:1084644/139‑1 (MQ=255)

                                                                              cTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCa                                                       <  1:1126894/139‑1 (MQ=255)

                                                                              cTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCa                                                       <  1:187740/139‑1 (MQ=255)

                                                                               tGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCaa                                                      <  2:721091/139‑1 (MQ=255)

                                                                               tGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCaa                                                      <  1:156427/139‑1 (MQ=255)

                                                                               tGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCaa                                                      <  2:850449/139‑1 (MQ=255)

                                                                                           cGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATg                                          <  2:221996/139‑1 (MQ=255)

                                                                                               gATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGt                                                                                               >  2:732236/1‑82 (MQ=255)

                                                                                               gATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGt                                                                                               <  1:732236/82‑1 (MQ=255)

                                                                                                 tGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCaa                                                      >  1:174594/1‑121 (MQ=255)

                                                                                                 tGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCaa                                                      <  2:174594/121‑1 (MQ=255)

                                                                                                  gCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATc                                                        >  1:643224/1‑118 (MQ=255)

                                                                                                  gCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATc                                                        <  2:643224/118‑1 (MQ=255)

                                                                                                   ccAGAATTTACCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGAt                                  >  1:680247/1‑139 (MQ=255)

                                                                                                            aCCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCg                                                                                                <  1:668780/68‑1 (MQ=255)

                                                                                                            aCCCGGCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCg                                                                                                >  2:668780/1‑68 (MQ=255)

                                                                                                                 gCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGAc                                                                                                                         >  2:1156955/1‑38 (MQ=255)

                                                                                                                 gCCGACACTGTCCACGTGCCAGGCTAAGAAAAAGTGAc                                                                                                                         <  1:1156955/38‑1 (MQ=255)

                                                                                                                          gTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCa           <  2:1172672/139‑1 (MQ=255)

                                                                                                                          gTCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCa           <  2:680247/139‑1 (MQ=255)

                                                                                                                           tCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAgg                                                                                          >  2:201984/1‑59 (MQ=255)

                                                                                                                           tCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAgg                                                                                          <  1:201984/59‑1 (MQ=255)

                                                                                                                           tCCACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCaa          >  2:1219190/1‑139 (MQ=255)

                                                                                                                            ccACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCaaa         >  1:1118183/1‑139 (MQ=255)

                                                                                                                            ccACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCaaa         >  2:153958/1‑139 (MQ=255)

                                                                                                                            ccACGTGCCAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCaaa         <  1:153958/139‑1 (MQ=255)

                                                                                                                                   ccAGGCTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCAAACATCAAt  <  2:247421/139‑1 (MQ=255)

GAGATTAGGCCAGTGGGAAAGTTCGTTCATCCACTCAACGCTTAAACGCGGCATAATCAACGAGCGCAGCAAAAATTTCTGGCGAAAACTACGGCGATGCCAGAATTTACCCGGCCGACACTGTCCACGTGCCAGACTAAGAAAAAGTGACAGGCTGCTGAGAGATTCAGATGGCGTAAAGGTCCGTTCAGTTAGCTGCGACATATTCATGAAATCAATGGTTATACATGGCGTCGATTTCACCATTGCGTATCTTAACCAAACATCAAT  >  NC_000913/918875‑919144

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `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