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 |
|
A1 F1 I1 R1
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
951,073 |
+G |
intergenic (‑29/+230) |
h16_B0838 ← / ← h16_B0839 |
conserved hypothetical protein/transcriptional regulator, CRP‑family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 951,073 | 1 | . | G | 100.0%
| 108.1
/ NA
| 29 | intergenic (‑29/+230) | h16_B0838/h16_B0839 | conserved hypothetical protein/transcriptional regulator, CRP‑family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (13/16); total (13/16) |
CGCTGCCGACGGCATGGCTTGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCT‑CTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGCGCCG > AM260480/950958‑951197
|
cgcTGCCGACGGCATGGCTTGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGt < 1:681662/134‑1 (MQ=255)
tGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCgcgc > 2:230712/1‑133 (MQ=255)
gCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAg < 1:579696/134‑1 (MQ=255)
gACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGa > 1:968417/1‑134 (MQ=255)
aCCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGc > 1:978717/1‑134 (MQ=255)
ggCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAg < 1:552164/134‑1 (MQ=255)
aCTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGatcat < 2:827667/99‑1 (MQ=255)
aCTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGatcat > 1:827667/1‑99 (MQ=255)
gcatcggctgcatcggctGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCAtt > 2:870699/1‑134 (MQ=255)
atcggctgcatcggctgcGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCg < 1:951994/134‑1 (MQ=255)
gctgcatcggctgcGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCaa < 2:936641/63‑1 (MQ=255)
gctgcatcggctgcGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCaa > 1:936641/1‑63 (MQ=255)
tgcatcggctgcGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAg < 1:126841/113‑1 (MQ=255)
tgcatcggctgcGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAg > 2:126841/1‑113 (MQ=255)
catcggctgcGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTAcctc > 2:120799/1‑134 (MQ=255)
aTTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTa < 1:529706/133‑1 (MQ=255)
ttGGCATCGGCTGGCTCGGCTGCAGGGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTAcctcct > 2:413820/1‑123 (MQ=255)
ttGGCATCGGCTGGCTCGGCTGCAGGGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTAcctcct < 1:413820/123‑1 (MQ=255)
gCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAgg < 1:120799/133‑1 (MQ=255)
aTCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCaa < 2:968417/134‑1 (MQ=255)
tCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAg > 2:1014718/1‑43 (MQ=25)
tCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAg < 1:1014718/43‑1 (MQ=25)
ggctCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACa < 2:816121/122‑1 (MQ=255)
ggctCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACa > 1:816121/1‑122 (MQ=255)
ggCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCAtt < 2:574274/93‑1 (MQ=255)
ggCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCAtt > 1:574274/1‑93 (MQ=255)
cA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACt > 1:895500/1‑130 (MQ=255)
cA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACt < 2:895500/130‑1 (MQ=255)
gCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGcgccg < 2:978717/134‑1 (MQ=255)
|
CGCTGCCGACGGCATGGCTTGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCT‑CTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGCGCCG > AM260480/950958‑951197
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GACGGCGCTGCCGACGGCATGGCTTGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCT‑CTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGCGCCGCAGCACCTGACATTCTGTTTGAT > AM260480/950953‑951220
|
ttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGAT < GWNJ‑0478:712:GW2002102894th:2:2216:14735:31442/74‑1 (MQ=60)
GCGCTGCCGACGGCATGGCTTGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCG < GWNJ‑0478:712:GW2002102894th:2:2110:5192:94721/150‑1 (MQ=60)
GGCTTGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTgctgctgtctcttatacacatctccgagcccacgagacggagctacatc > GWNJ‑0478:712:GW2002102894th:2:2106:21141:86189/1‑101 (MQ=60)
TGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGAT > GWNJ‑0478:712:GW2002102894th:2:2213:17504:69589/1‑150 (MQ=60)
GGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCC > GWNJ‑0478:712:GW2002102894th:2:2214:8716:26719/1‑150 (MQ=60)
GGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATG < GWNJ‑0478:712:GW2002102894th:2:2104:3641:57092/150‑1 (MQ=60)
GGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCtgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:2205:1577:13893/1‑130 (MQ=60)
GCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGctgtctct > GWNJ‑0478:712:GW2002102894th:2:2109:12170:101154/1‑142 (MQ=60)
gagacagCTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCG < GWNJ‑0478:712:GW2002102894th:2:1109:10522:39662/143‑1 (MQ=60)
CGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCG < GWNJ‑0478:712:GW2002102894th:2:2102:8107:70097/150‑1 (MQ=60)
GACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:2210:2131:85675/1‑94 (MQ=60)
CATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAAC < GWNJ‑0478:712:GW2002102894th:2:2212:19831:75421/150‑1 (MQ=60)
CGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCAGGGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGC < GWNJ‑0478:712:GW2002102894th:2:1210:12508:32519/149‑1 (MQ=60)
TCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAAC > GWNJ‑0478:712:GW2002102894th:2:2204:7851:38117/1‑148 (MQ=60)
CATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAG < GWNJ‑0478:712:GW2002102894th:2:2103:12815:11090/149‑1 (MQ=60)
GGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaataaaactaaa > GWNJ‑0478:712:GW2002102894th:2:2212:6157:25031/1‑59 (MQ=60)
GGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGActgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2104:10950:21781/1‑123 (MQ=60)
GGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCAC < GWNJ‑0478:712:GW2002102894th:2:1109:12428:2985/149‑1 (MQ=60)
CGGCTGGCTCGGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGC > GWNJ‑0478:712:GW2002102894th:2:2208:16002:40164/1‑150 (MQ=60)
GGCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGCGCCGCAGCAC < GWNJ‑0478:712:GW2002102894th:2:1207:9234:53619/150‑1 (MQ=60)
GCTGCA‑GGGGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACctgtctcttatacacatctccgagcccacgagacggagct > GWNJ‑0478:712:GW2002102894th:2:2206:9125:32808/1‑109 (MQ=60)
GGCTGAGCCTGCTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGCGCCGCAGCACCTGACATTC > GWNJ‑0478:712:GW2002102894th:2:1216:10065:76927/1‑150 (MQ=60)
G‑CTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGCGCCGCAGCACCTGACATTCTGTTTGAT < GWNJ‑0478:712:GW2002102894th:2:2206:13693:84693/148‑1 (MQ=60)
|
GACGGCGCTGCCGACGGCATGGCTTGCACGGGCTGGGCGGACTGCACCGGCTGACTGGATTGCATCGGCTGCATCGGCTGCGTCATTGGCATCGGCTGGCTCGGCTGCA‑GGGGCTGAGCCT‑CTGCGCAAACAGCGGGTAGGACGCGATCATCGCGCCAGCCACGACCAGGGATTTCGCCAGATGTTGCTTCATTCGTGTACCTCCTAGAACGCCTACAGGCAAGGGAACAGTCACTGTAGCGCCGCAGCACCTGACATTCTGTTTGAT > AM260480/950953‑951220
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
