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 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,253,473	G→A	54.1%	R322R (CGC→CGT)	aspS ←	aspartyl‑tRNA synthetase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,253,473	0	G	A	54.1%	5.1 / 49.4	61	R322R (CGC→CGT)	aspS	aspartyl‑tRNA synthetase
Reads supporting (aligned to +/- strand): ref base G (19/9); new base A (22/11); total (41/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GATTTTAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCAAATACAGCAAACTC  >  minE/1253410‑1253532

gATTTTAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCa                                                         >  1:357621/1‑68 (MQ=255)

    ttAACTAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:543516/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:2339264/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:2683638/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:3281136/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:1446363/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:2694718/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:2982290/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:2973114/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:2774244/69‑2 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGc                                                     >  1:3180835/1‑68 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGc                                                     >  1:2137749/1‑68 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGc                                                     >  1:2615830/1‑68 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGc                                                     >  1:1846814/1‑68 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGc                                                     >  1:352273/1‑68 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGc                                                     >  1:405185/1‑68 (MQ=255)

    ttAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGc                                                     >  1:552128/1‑68 (MQ=255)

    ttAACGAAGTTACCATATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:1233695/69‑2 (MQ=255)

      aaCGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGcg                                                    <  1:927863/67‑2 (MQ=255)

              tACCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAc                                          >  1:2567474/1‑69 (MQ=255)

              tACCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAc                                          >  1:1346124/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:2130667/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:893317/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:221743/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:3407418/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:1408611/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:771515/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:404883/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:2931783/1‑69 (MQ=255)

               aCCGTATTCGTCGATCTGCTTACGGGTCAGCGATGAGCCGCCCGGAACGCGCAGAGCCGCTACGCGAcc                                         >  1:2130943/1‑69 (MQ=255)

                              cTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGc                          >  1:1917534/1‑69 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:10799/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:1349989/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:1444564/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:400236/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:1613737/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:3397923/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:2939434/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:2909765/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:1305108/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:1900469/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:1920085/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:841091/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:2229468/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCGGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:2065108/1‑56 (MQ=255)

                              cTGCTTACGGGTCAACGATGCGCCGCCCCGAACACGCAGAGCGGCAACACGGCCtt                                       >  1:3236930/1‑56 (MQ=255)

                                 cTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCgg                       >  1:3307663/1‑69 (MQ=255)

                                 cTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCgg                       >  1:1690188/1‑69 (MQ=255)

                                 cTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCgg                       >  1:1061831/1‑69 (MQ=255)

                                   tACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGc                          <  1:344287/64‑1 (MQ=255)

                                   tACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGc                          <  1:1882862/64‑1 (MQ=255)

                                   tACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGc                          <  1:1930102/64‑1 (MQ=255)

                                          cAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCaaa              >  1:3359006/1‑69 (MQ=255)

                                          cAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCaaa              >  1:359660/1‑69 (MQ=255)

                                          cAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCaaa              >  1:2878499/1‑69 (MQ=255)

                                          cAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCAACCTTTCGGATCGTTCGCCGGACCTGCaaa              <  1:1965008/69‑1 (MQ=255)

                                                 gcgcCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCAAATACAGCa       <  1:3363236/69‑1 (MQ=255)

                                                 gcgcCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCAAATACAGCa       <  1:2057456/69‑1 (MQ=255)

                                                 gcgcCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCAAATACAGCa       <  1:2299159/69‑1 (MQ=255)

                                                  cgccgcCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCAAATACAGCa       <  1:1776991/68‑1 (MQ=255)

                                                      gccCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCAAATACAGCAAACTc  <  1:388676/69‑1 (MQ=255)

GATTTTAACGAAGTTACCGTATTCGTCGATCTGCTTACGGGTCAGCGATGCGCCGCCCGGAACGCGCAGAGCCGCTACGCGACCTTTCGGATCGTTCGCCGGACCTGCAAATACAGCAAACTC  >  minE/1253410‑1253532

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A