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
A9 F56 I0 R1	218	83.1	3292392	95.3%	3137649	126.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP006881	2,589,770	T→G	21.3%	V200G (GTT→GGT)	U712_13325 →	Putative peptidoglycan O‑acetyltransferase YrhL

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	2,589,770	0	T	G	21.3%	56.9 / 5.9	40	V200G (GTT→GGT)	U712_13325	Putative peptidoglycan O‑acetyltransferase YrhL
Reads supporting (aligned to +/- strand): ref base T (13/18); new base G (6/3); total (19/21)
Fisher's exact test for biased strand distribution p-value = 2.65e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TATGGCCGATGTTTTTAGTTGTTGGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGCACACTTTGCACGCCACTGAATTTTTG  >  CP006881/2589632‑2589906

tatGGCCGATGTTTTTAGTTGTTGGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGt                                                                                                                                          >  5:377311/1‑139 (MQ=255)

tatGGCCGATGTTTTTAGTTGTTGGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGt                                                                                                                                          >  8:64704/1‑139 (MQ=255)

  tGGCCGATGTTTTTAGTTGTTGGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGtt                                                                                                                                         <  1:351215/138‑1 (MQ=255)

        aTGTTTTTAGTTGTTGGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATAATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGGATGAACCTGGCGGAGATCCGAGCCGCGttttcaaag                                                                                                                                  >  4:251882/1‑133 (MQ=255)

                    gttgGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATTGCACAGACACtc                                                                                                                      >  5:379403/1‑139 (MQ=255)

                     ttgGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTAATATGGCACAGacaatag                                                                                                                     >  6:139677/1‑135 (MQ=255)

                     ttgGAATGTAAATACTGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACtcg                                                                                                                     <  8:383783/139‑1 (MQ=255)

                                    tGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTtct                                                                                                      >  8:71409/1‑139 (MQ=255)

                                           ccGCTCCAGATTGGCTGCGTTGATATAATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTTCTATGGAACAGACACTCGTTCGTTTGAACTTCTCATCGGa                                                                                               <  5:16066/139‑1 (MQ=255)

                                                 cAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGcc                                                                                         <  7:71409/139‑1 (MQ=255)

                                                        gCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCt                                                                                   <  6:377311/138‑1 (MQ=255)

                                                        gCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCt                                                                                   <  1:357162/138‑1 (MQ=255)

                                                                  tatCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGGTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGc                                                                         <  6:352973/138‑1 (MQ=255)

                                                                         gCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTAGTTTGAACTTATAATCGGATGTGGCTTGGCTTTTGTATGGGCGATGaa                                                                  >  7:302861/1‑138 (MQ=255)

                                                                              tgCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGc                                                             <  4:90139/138‑1 (MQ=255)

                                                                              tgCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGc                                                             <  1:258577/138‑1 (MQ=255)

                                                                              tgCGTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGc                                                             <  2:17446/138‑1 (MQ=255)

                                                                                     ttCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGGTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTc                                                      <  6:371349/138‑1 (MQ=255)

                                                                                         gacaggatgatgaGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACa                                                 <  1:165186/134‑1 (MQ=255)

                                                                                           cGTGATGATGAGCGTACTGTATGAACCTGGCGGAGAGCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGGTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAgg                                               <  3:114774/139‑1 (MQ=255)

                                                                                               atgatgaGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGGACAGACACTCGTTGGGTTTTTGTTGTGATGGGGTGGGGGTTGGGTGTGGTATGGGCGATGAAAAGGCGGTCTTGCAGCAggcggc                                           >  8:90393/1‑139 (MQ=255)

                                                                                               atgatgaGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTAATATTGGACCGACACACGTTCGTTTTAAAATCTCATCGCTTGTGCCGTGTCGTTGTGTTTGCCGATGAAAAGTCAGGCTTCCCAccagtct                                            >  6:144930/1‑132 (MQ=255)

                                                                                                tgatgaGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGGTTTCTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTTcc                                          <  6:189211/139‑1 (MQ=255)

                                                                                                     aGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCa                                     <  7:237022/139‑1 (MQ=255)

                                                                                                       cGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCaaa                                   <  4:321035/139‑1 (MQ=255)

                                                                                                       cGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGGTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCaaa                                   <  1:84222/139‑1 (MQ=255)

                                                                                                       cGTACTGTAGGAACCTGGCGGAGATCAGAGCCGCCTTGACTATGACACAGACACTCGTACGTTTCAACTTCTCATCGGATGTGCCCTGGCTTTGGTATGTCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCaaa                                   <  5:188275/139‑1 (MQ=255)

                                                                                                          aCTGTATGAACCTGGCGGAGATCCGAGCCGCGGTTAATATGGCACAGACACACGTTAGGTTTAACTTATCATCGGATGTTCCTTGGGTTTTGTATGGCCGATGAAAAAGCTGTGTTACAACACGCTGCCAAGCAAAca                                 >  8:256496/1‑137 (MQ=255)

                                                                                                              tATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGCCACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAg                             >  7:59484/1‑138 (MQ=255)

                                                                                                              tATGAACCTGGCGGAGATCCGAGCCGCGGTTACTATGGCCCAGACCCTCGTTCGTTTGAACTTCTCATCGGATGTGGCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGc                            >  3:321035/1‑139 (MQ=255)

                                                                                                              tATGAACCTGGCGGAGATCCGAGCCGCGGGTTCTATTGGACCCACACACCTTCGTTTTAAATTCTGATAGGTTGTGGCTTTGGTGTTGTTTGGGCGCTGAAAAGGCTGTCTTGCCACCTGCGGGCCACCAAACAGAAGc                            >  4:213565/1‑139 (MQ=255)

                                                                                                               aTGAACCTGGCGGAGATCCGAGCCGCGTTTTAAATTGCACCGACACTCGTTGCTTTGAACATGTGATACGAAGTGCCGTGGGGTTGGTATTGCCGAGCAAAAAGCAGTCATACAACACCCTGGCAACCAAACAGAAGcc                           >  8:73070/1‑138 (MQ=255)

                                                                                                                tGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGca                           <  7:351144/138‑1 (MQ=255)

                                                                                                                tGAACCTGGCGGAGATCCGAGCCGCGGTTTATATGGGACAGCCACAACTTCGTTTGAAAATGTGATGGGGTGTGGCTTGGGTTTGGTATTGCCGCTGAAAAGGCAGTCTTCCAACAGGCTGCCCACCAAACTGAAGcac                          >  4:95196/1‑139 (MQ=255)

                                                                                                                   aCCTGGCGGAGATCCGAGCCGCGGTTACTATGGGACAGACACTCGTTGGGTTGGACTTGTCATCGGATGTGCCTTGGGTTTGGGTTGGGCGATGAAAAGGCTGTCTTCGAACAGGCGGCCAAGCAAACTGAAGcccccg                       >  2:104921/1‑134 (MQ=255)

                                                                                                                        gCGGATATCCGAGCCGCGTTTACTATGGCACAGACTCTCGTTCGTTTGATCTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAATGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGCACACTTTGCa                  <  1:120261/139‑1 (MQ=255)

                                                                                                                        gCGGAGATCCGAGCCGCGTTTTATATGGCACACACACAAGTTAGTTTTAACATCTCATCGGCTGTGGCTTGGGTTTGGTATGGCCGCTGAAAAGGCGTGCTTAAAACCGGCTGCCAAGCACACGGACGCACACTTAGCa                  >  4:236768/1‑139 (MQ=255)

                                                                                                                        gCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGGGTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGATGCACACTTTGCa                  >  1:126163/1‑139 (MQ=255)

                                                                                                                        gCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGCACACTTTGCa                  <  5:139677/139‑1 (MQ=255)

                                                                                                                        gCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTATCATCGGATGTGCCTTGGGTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGCACACTTTGCa                  >  2:63497/1‑139 (MQ=255)

                                                                                                                        gCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGGTGGTTTGAACTTCTCATAGGATGTGCCTTGGCTTTGGTATTGCCGATGAAAAGGCTGTCTTGCAACAGGCTGCCAACCAAACTGAAGCACACGTTGCa                  >  2:19139/1‑139 (MQ=255)

                                                                                                                        gCGGAGATCCGAGCCGCGGTTACAATTGGCCACACACACCTTCGTTTTTACTTCTCATAGGGTGTTGCGTGGCTTTGGTTTGGCCCATGAAAAAGCTGTCTTGCAACACGCGGCCCAGCAAACAGAACCAAACtgttca                  >  6:323506/1‑134 (MQ=255)

                                                                                                                                 cGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGCACACTTTGCACGCCACt           <  7:385734/137‑1 (MQ=255)

                                                                                                                                        cgTTTACTATGGCCCAGACACTCGTTGGTTTGAACTTCTCATCGGATGTGCCTTGGGTTTGGTATTGCCGATGAAAAGGCTGTCTTCCAACACGCTGCCAAGCAAACTGAAGCACACTTTGCCCGCCCCTGAATTTTTg  >  8:64814/1‑139 (MQ=255)

TATGGCCGATGTTTTTAGTTGTTGGAATGTACATAATGAAAAGCCGCGCCAGATTGGCTGCGGTGATATCATTGCTTGTGCTTTGTTCAGCCGTGATGATGAGCGTACTGTATGAACCTGGCGGAGATCCGAGCCGCGTTTACTATGGCACAGACACTCGTTCGTTTGAACTTCTCATCGGATGTGCCTTGGCTTTGGTATGGCCGATGAAAAGGCTGTCTTCCAACAGGCTGCCAAGCAAACTGAAGCACACTTTGCACGCCACTGAATTTTTG  >  CP006881/2589632‑2589906

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A