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 |
|
A0 F0 I1 R1
|
59 |
79.3 |
3391134 |
98.6% |
3343658 |
146.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,932,640 |
+C |
intergenic (‑107/+43) |
rluA ← / ← minE |
bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,932,638 | 1 | . | C | 100.0%
| 40.7
/ NA
| 13 | intergenic (‑105/+45) | rluA/minE | bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (11/2); total (11/2) |
TCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATA > NC_002947_CJ‑RC/1932499‑1932778
|
tcttctAAGCGTATCTGCAAATTCCACCGCGGAATTGCTGGTCTCACTAAAAAACCATTAACCGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCATACAACGTATATGCGCCCCCTGTCGGCGGGGGCTTGCCCGCGAAg < 6:151331/149‑1 (MQ=16)
gCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTc > 3:230103/1‑147 (MQ=255)
gCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCa > 1:123441/1‑145 (MQ=255)
gCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCa < 2:123441/145‑1 (MQ=255)
ccTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGa > 8:217393/1‑148 (MQ=255)
cTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGata > 5:180597/1‑149 (MQ=255)
tACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGatat > 4:369547/1‑149 (MQ=255)
aCAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATg > 4:7276/1‑149 (MQ=255)
cTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGAt > 1:73841/1‑149 (MQ=255)
tGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATg > 7:98182/1‑149 (MQ=255)
ggAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTca > 1:105628/1‑149 (MQ=255)
gAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAAATGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTca > 3:92154/1‑148 (MQ=255)
cGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACata > 3:141281/1‑149 (MQ=255)
|
TCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATA > NC_002947_CJ‑RC/1932499‑1932778
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTTGCGGATC > NC_002947_CJ‑RC/1932523‑1932788
|
cggccggggcccaggcggccgcgcgcccgccccccgccggccgcgccccccgcgcccgcgcgccccccccccCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCG < NB501016:282:H2V7GAFX2:2:11208:15075:7647/79‑1 (MQ=60)
ccccgcccccaccccccccacaaaaaaaacccacccccggggggggccgcgggcgccccgccgcccccccccccccaccaaaaactaccccccccccggccgcgccggggcccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCG < NB501016:282:H2V7GAFX2:2:21209:15705:6938/34‑1 (MQ=33)
ggcgggcctcaaaaaaaaccctaaaccgggggggcccgtttggggcccgggcggggcaacccccccccaaaacctgtttcggccccccttgtgggcggggggtgccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGA < NB501016:282:H2V7GAFX2:4:11507:4227:19725/44‑1 (MQ=60)
ttaaaattataatttctgatttggggggtgccgggaggggcccgctcgccgtccatcccccaaaccttaaatttttctggggcgtggggcgcggggggccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATC < NB501016:282:H2V7GAFX2:2:11107:17919:3040/46‑1 (MQ=60)
tgccttctaattcaccgtgaacgcggggtggcttttttgcgccggggcggggacgccccgcagataccatgttttcggcgcgacttttggggggggctgcgcCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAG < NB501016:282:H2V7GAFX2:3:11503:11339:19718/48‑1 (MQ=60)
tcccgctggcggcggcgcggcggcgccggcggggcccccccccccccaccacacctagtcgcccgccgcggcgggggggccgccccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAG < NB501016:282:H2V7GAFX2:1:11312:10778:10481/59‑1 (MQ=60)
gggccgggggggcccccgcggcgccccccccccccacaacaactcacctcccccccccgcgggcgggggcccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCC < NB501016:282:H2V7GAFX2:2:11101:24048:8048/75‑1 (MQ=60)
gtcggggcgcgcctggcccccccccccaccacaaagaagtgtgcgcgtgtgtggtgggggggccccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATC < NB501016:282:H2V7GAFX2:2:21101:2471:14763/81‑1 (MQ=60)
ggcgcccccggcggggccaccccccccaccaaaactcaacccccccccgctgggggggggggcccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG < NB501016:282:H2V7GAFX2:2:11202:7479:5779/84‑1 (MQ=60)
ggggggccccgccccaaaaaaacacttttgccccgcccgtttttggggggggcccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCT < NB501016:282:H2V7GAFX2:4:11403:13026:1902/94‑1 (MQ=60)
cccccccaaaaaatcccttgcccccccccggggggggggggggccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCC < NB501016:282:H2V7GAFX2:1:11308:11816:8108/102‑1 (MQ=60)
cccacacacaacacatcttattgcggcccctctgtgggcggggcgccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCC < NB501016:282:H2V7GAFX2:2:21103:11958:3113/102‑1 (MQ=60)
cccccccaacacaaaacttccccgccccctgtgcggggggggccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCA < NB501016:282:H2V7GAFX2:1:11305:4305:7430/103‑1 (MQ=60)
AGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCC > NB501016:282:H2V7GAFX2:2:21103:8840:9504/1‑149 (MQ=60)
ccccccccaaaaactgattcgcccccccgttcgcggggggggtcccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGC < NB501016:282:H2V7GAFX2:4:11607:7313:15122/105‑1 (MQ=60)
CGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGCGCAGCTGCCCGGGTTTTCCAG > NB501016:282:H2V7GAFX2:1:11208:26403:19688/1‑147 (MQ=60)
CCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATAT > NB501016:282:H2V7GAFX2:3:11607:5718:2864/1‑151 (MQ=60)
ctacaggggacgcatatccttTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATG > NB501016:282:H2V7GAFX2:1:11106:18249:9849/22‑151 (MQ=60)
cccccccccccgccgggggggcccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCG < NB501016:282:H2V7GAFX2:4:21601:1956:7670/123‑1 (MQ=60)
CCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATG > NB501016:282:H2V7GAFX2:1:11112:19460:15309/1‑151 (MQ=60)
CTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGT > NB501016:282:H2V7GAFX2:4:11504:20974:14048/1‑151 (MQ=60)
cggggggggggccccccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTT < NB501016:282:H2V7GAFX2:2:21103:13927:12980/134‑1 (MQ=60)
AGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCAC > NB501016:282:H2V7GAFX2:1:11205:3039:20303/1‑151 (MQ=60)
GGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAAATGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCAC > NB501016:282:H2V7GAFX2:2:11204:21385:15432/1‑150 (MQ=60)
GCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATAT > NB501016:282:H2V7GAFX2:2:11212:26677:18973/1‑151 (MQ=60)
CTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTTGCG > NB501016:282:H2V7GAFX2:4:21512:8057:14763/1‑151 (MQ=60)
gcccCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTTGCGG < NB501016:282:H2V7GAFX2:2:11209:1262:5832/147‑1 (MQ=60)
C‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTTGCGGATC < NB501016:282:H2V7GAFX2:4:11510:8218:10893/151‑1 (MQ=60)
C‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTTGCGGAT > NB501016:282:H2V7GAFX2:1:11211:15175:11648/1‑150 (MQ=60)
CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCAC > NB501016:282:H2V7GAFX2:2:11201:5550:6552/1‑116 (MQ=60)
|
GACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTTGCGGATC > NC_002947_CJ‑RC/1932523‑1932788
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
