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 |
|
A12 F59 I0 R4
|
226 |
76.6 |
2995274 |
95.4% |
2857491 |
127.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
2,963,937 |
G→A |
9.2% |
intergenic (‑124/+156) |
U712_15285 ← / ← U712_15290 |
Manganese‑binding lipoprotein mntA/o‑succinylbenzoate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 2,963,937 | 0 | G | A | 9.2%
| 128.9
/ 3.0
| 49 | intergenic (‑124/+156) | U712_15285/U712_15290 | Manganese‑binding lipoprotein mntA/o‑succinylbenzoate synthase |
| Reads supporting (aligned to +/- strand): ref base G (36/4); new base A (2/2); total (38/11) |
| Fisher's exact test for biased strand distribution p-value = 8.34e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCATT > CP006881/2963807‑2964065
|
gTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTa > 6:308840/1‑139 (MQ=255)
gTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTa > 3:301698/1‑139 (MQ=255)
atatTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAATCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATcgcg > 3:333578/1‑139 (MQ=255)
atatTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATcgcg > 2:40104/1‑139 (MQ=255)
ccATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAg < 4:333578/139‑1 (MQ=255)
ccATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCACGTTTGGCCA‑CTTTTGTC‑AAg < 5:308840/139‑1 (MQ=255)
tCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTg > 5:347864/1‑139 (MQ=255)
cGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATACAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACa > 1:313184/1‑138 (MQ=255)
cGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGACAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACa > 8:337481/1‑138 (MQ=255)
ttATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATaaaaaaa < 7:298365/138‑1 (MQ=255)
cTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTACCCTCATGCAATA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGc < 8:258009/139‑1 (MQ=255)
tATGTTGTCAGTTCTTAGACATGTGACATTAAATTCCCCAAAACCATGTTTTATTTACACAGCAAAAAAAGTTTCCCTCATACAAAT‑TTATCGCGTTTGGCCT‑TTTTTGTC‑AAGCTTATTTACAAAAAAAAACCGGCt < 4:214431/138‑1 (MQ=255)
ttgttgtCAGTTCTTAGACATGTTAAATTAAATTAGCCAAAAGCATGTTTTATTAACACAGGAAAAAATGTTTCCCT‑ATTCAAAATTTATCACGTTTGGCAA‑TTTTTGTA‑AAGCTGATTTAAAAAAAAAACCCGGc < 2:262968/135‑1 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGTACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGATTGGCCA‑GTTTTGTC‑AAGCTGATGTACATAAAAAAACCTGCTggg > 3:227068/1‑139 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAACA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTggg > 1:305595/1‑139 (MQ=255)
tgttgtCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTggg > 7:216317/1‑139 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTcagc > 4:33214/1‑139 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGA‑TTATCGCGTTTGGACA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTcag > 3:233084/1‑138 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTcag > 8:109367/1‑138 (MQ=255)
tCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCACGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTcag > 1:262968/1‑138 (MQ=255)
ttCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGcc > 6:133790/1‑139 (MQ=255)
ttCTTAGACATGTGACATTAAATTAGACAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGTCTGGGTcagcagac > 7:282813/1‑137 (MQ=255)
aGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTcc > 5:375144/1‑139 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAAc > 7:326798/1‑138 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAGA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGCCTGGGTCAGCAGCCGGTCCAAAc > 3:94968/1‑138 (MQ=255)
tgtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAAc > 8:294072/1‑138 (MQ=255)
gtgACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGTCTGTGTCAGCAGCCGGTCCAAAc > 2:160080/1‑137 (MQ=255)
aaataaaaTTCGCAAAAAGCATTTTTTATTAACACAGCAAAAACTGTTCCCCTCATACAAAA‑TTAGGGTGTTGGCCAA‑TTTTTGAC‑AAGTTTATTAACAAAAAAAACCCGGCTGGGTCAGCAGCCGGTCCAAACGAGaa < 4:301698/134‑1 (MQ=255)
ttAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAACCGAGAAgg > 8:177189/1‑138 (MQ=255)
tAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGa > 4:213329/1‑139 (MQ=255)
gCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTAtt > 5:142288/1‑138 (MQ=255)
gCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTAtt > 4:327035/1‑138 (MQ=255)
gCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGATTCGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGAAtt > 4:329794/1‑138 (MQ=255)
gCCAAAAGCATGTTTTATTTACACAGCACAAAAAGTTTCACTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCTGCTGGGTCAGCAGACTGACCAAACGAGAAGGGATGTAtt > 4:51009/1‑138 (MQ=255)
aaGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTcctgtc > 7:318864/1‑134 (MQ=255)
attaaCACAGCAAAAAAAGTTCCCCTAATCAAAAA‑TTAGCGCGTTTGGCAA‑TTTTTTTA‑AACCTTATTAAAAAAAAAAACCCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTAc < 6:142288/138‑1 (MQ=255)
tttaCACAGGACAAAAAGTTTCCCTCATGCAACA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTg > 5:297404/1‑139 (MQ=255)
ccacaGAAAAAAATTTTTCCCTCAT‑CAAAA‑TATTTGGGTTGGGTCATTTTTTCAC‑AAGTTTATTAAAATAAAAAACCGGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTaa < 6:347864/138‑1 (MQ=255)
cacaGGAAAAAAATTATCCCTCATTCAAAA‑TTATGGCGTTCGGCCA‑TTTTTGTC‑AAGCTTATTTAAATAAAAAACCCGGCTGGGCCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTaa < 6:166189/138‑1 (MQ=255)
acaGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTaa > 4:59550/1‑137 (MQ=255)
gcaCAAAACTTTCCCCCCATCAAAAT‑TTCTGGCGTTTGG‑CA‑TTTTTTTCAAACCTTATTAAAAAAAAAAACCCGGCTGGGCCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGca < 1:40104/137‑1 (MQ=255)
gACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGca > 4:135759/1‑138 (MQ=255)
aaaGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAgtgt > 3:223432/1‑139 (MQ=255)
ttCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACCCTTTAACTGTAACAGCACAGTCTCAtt > 2:295848/1‑138 (MQ=255)
ttCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 3:61693/1‑138 (MQ=255)
ttCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 6:248923/1‑138 (MQ=255)
ttCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 5:159039/1‑138 (MQ=255)
ttCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 3:243872/1‑138 (MQ=255)
ttCCCTCATACAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCAtt > 5:114787/1‑138 (MQ=255)
|
GTCTCATATTTCTCCTCCTCTTTGCCATCAATGTCCGATTGTTTTATCTTATGTTGTCAGTTCTTAGACATGTGACATTAAATTAGCCAAAAGCATGTTTTATTTACACAGGACAAAAAGTTTCCCTCATGCAAAA‑TTATCGCGTTTGGCCA‑TTTTTGTC‑AAGCTGATTTACATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCAAACGAGAAGGGATGTATTCAACGAACACTTTTACTGTAACAGCACAGTGTCATT > CP006881/2963807‑2964065
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
