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	2,677,313	T→C	42.8%	D206G (GAC→GGC)	yhgA ←	predicted transposase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,677,313	0	T	C	42.8%	18.8 / 58.2	77	D206G (GAC→GGC)	yhgA	predicted transposase
Reads supporting (aligned to +/- strand): ref base T (9/35); new base C (13/20); total (22/55)
Fisher's exact test for biased strand distribution p-value = 8.01e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAGGTCGCGTT  >  minE/2677254‑2677376

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:1035465/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:35410/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:364094/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:3056273/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:2969661/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:272739/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:846985/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:1164931/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:2353152/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCg                                                         <  1:975116/68‑1 (MQ=255)

tAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCACTAGCg                                                         <  1:2755582/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTATCGTATc                                                     <  1:435918/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:2240195/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:798744/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:321868/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:143213/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:372919/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:1566201/68‑1 (MQ=255)

    aCGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:3257266/68‑1 (MQ=255)

      gTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCac                                                  <  1:3292178/69‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2094274/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2340988/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:1107969/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2394190/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2405307/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:800955/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:22394/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2574127/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:102402/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:1278301/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2736733/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:128064/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2862455/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:709376/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:536461/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:3140427/67‑1 (MQ=255)

                  cggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:1424381/67‑1 (MQ=255)

                  cAGTTTGCAGTATGTAATTAAACAGGCCTTTGATTTGTGTGTCATTAGCg                                                         <  1:3163215/50‑1 (MQ=255)

                   ggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:2597244/67‑1 (MQ=255)

                   ggTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:146350/67‑1 (MQ=255)

                   aGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCA‑TAGCGTATCCACTACTTAATAAGCAg                                    <  1:638106/69‑1 (MQ=255)

                    gTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAg                                    <  1:977956/69‑1 (MQ=255)

                    gTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAg                                    <  1:1992846/69‑1 (MQ=255)

                    gTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAg                                    <  1:969978/69‑1 (MQ=255)

                    gTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAg                                    <  1:3361474/69‑1 (MQ=255)

                    gTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAg                                    <  1:324404/69‑1 (MQ=255)

                     tttGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAg                                    <  1:38090/68‑1 (MQ=255)

                             aTGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGc                           <  1:3367738/69‑1 (MQ=255)

                             aTGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGc                           <  1:123007/69‑1 (MQ=255)

                              tGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGc                           >  1:2856707/1‑68 (MQ=255)

                                tAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     <  1:1517202/40‑1 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:1808136/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:647630/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:1792161/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:1735880/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:1717779/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:3363385/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:1372905/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:483444/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:1866685/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:3024914/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        >  1:2269440/1‑67 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctc                         >  1:2225529/1‑66 (MQ=255)

                                  aTTAAACAGCCCTTTGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGCAGGACATTTGctct                        >  1:2746436/1‑67 (MQ=255)

                                    tAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     >  1:3107281/1‑36 (MQ=255)

                                    tAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     >  1:753988/1‑36 (MQ=255)

                                    tAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     >  1:2124622/1‑36 (MQ=255)

                                    tAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATc                                                     >  1:1311605/1‑36 (MQ=255)

                                               ttGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAgg         >  1:1051168/1‑69 (MQ=255)

                                               ttGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAgg         >  1:2362666/1‑69 (MQ=255)

                                               ttGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAgg         >  1:1175562/1‑69 (MQ=255)

                                               ttGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCACATCAgg         >  1:1593488/1‑69 (MQ=255)

                                                tGATTTGTCTGTCATTAGCGTATCCACTTCTTAATAAGCAGGCCATTTGctct                        <  1:337832/53‑1 (MQ=255)

                                                tGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        <  1:2776199/53‑1 (MQ=255)

                                                tGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        <  1:2819898/53‑1 (MQ=255)

                                                tGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGctct                        <  1:1928656/53‑1 (MQ=255)

                                                tGATTTGTCTGCCATTAGCGTATCCACTACTTAATAAGc                                      <  1:907019/39‑1 (MQ=255)

                                                     tgtctgtcATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAGGTcgcg    >  1:3379366/1‑68 (MQ=255)

                                                     tgtctgtcATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAGGTCGCGt   >  1:2096951/1‑69 (MQ=255)

                                                     tgtctgccTTTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:2323167/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTGCCAGCCCCAt             <  1:2368670/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:898624/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:2278526/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:699303/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:1350958/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:497430/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:3119984/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:2828176/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:2048977/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:2057799/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:2493956/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:2264300/59‑1 (MQ=255)

                                                     tgtctgccATTAGCGTATCCACTACTTAATAAGCAGGCAATTTGCTCTACCAGCCCCAt             <  1:1306480/59‑1 (MQ=255)

                                                      gtctgccATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCAt             <  1:1705740/58‑1 (MQ=255)

                                                       tctgtcATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAGGTCGCGtt  <  1:690958/68‑1 (MQ=255)

TAAAACGTACAGCGTCGCCAGTTTGCAGTATGTAATTAAACAGCCCTTTGATTTGTCTGTCATTAGCGTATCCACTACTTAATAAGCAGGCCATTTGCTCTACCAGCCCCATCAGGTCGCGTT  >  minE/2677254‑2677376

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A